Query 000883
Match_columns 1238
No_of_seqs 674 out of 4071
Neff 7.5
Searched_HMMs 46136
Date Tue Apr 2 00:41:44 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000883.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000883hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0384 Chromodomain-helicase 100.0 7E-174 1E-178 1562.1 60.6 926 101-1120 184-1172(1373)
2 KOG0385 Chromatin remodeling c 100.0 1E-149 3E-154 1296.0 52.9 769 275-1134 157-959 (971)
3 PLN03142 Probable chromatin-re 100.0 5E-128 1E-132 1215.3 56.6 765 272-1133 157-986 (1033)
4 KOG0386 Chromatin remodeling c 100.0 8.8E-97 2E-101 877.7 31.6 506 272-810 381-906 (1157)
5 KOG0389 SNF2 family DNA-depend 100.0 3.7E-94 8E-99 838.0 41.5 463 274-760 387-912 (941)
6 KOG0391 SNF2 family DNA-depend 100.0 7.5E-93 1.6E-97 839.7 35.7 472 281-776 611-1429(1958)
7 KOG0388 SNF2 family DNA-depend 100.0 1.9E-91 4E-96 798.7 32.3 457 274-759 557-1177(1185)
8 KOG0383 Predicted helicase [Ge 100.0 3.9E-92 8.5E-97 843.9 20.6 624 47-690 43-696 (696)
9 KOG0387 Transcription-coupled 100.0 1.7E-89 3.6E-94 800.6 39.8 484 275-779 196-702 (923)
10 KOG0392 SNF2 family DNA-depend 100.0 2.9E-83 6.3E-88 770.0 39.9 465 284-775 974-1495(1549)
11 KOG0390 DNA repair protein, SN 100.0 4.2E-71 9.1E-76 667.6 43.3 453 284-760 237-731 (776)
12 KOG1015 Transcription regulato 100.0 1.5E-67 3.2E-72 616.6 34.6 471 284-779 667-1321(1567)
13 KOG1002 Nucleotide excision re 100.0 3.2E-66 7E-71 574.1 35.5 469 274-774 174-789 (791)
14 KOG4439 RNA polymerase II tran 100.0 1.4E-65 2.9E-70 591.2 32.7 472 273-773 314-898 (901)
15 COG0553 HepA Superfamily II DN 100.0 7.5E-64 1.6E-68 656.2 38.0 472 282-775 335-864 (866)
16 KOG1000 Chromatin remodeling p 100.0 1.1E-55 2.5E-60 492.0 32.0 410 284-756 197-623 (689)
17 KOG1016 Predicted DNA helicase 100.0 6E-56 1.3E-60 510.2 25.5 484 284-778 253-892 (1387)
18 PRK04914 ATP-dependent helicas 100.0 1.6E-52 3.5E-57 528.9 35.7 417 284-760 151-629 (956)
19 KOG1001 Helicase-like transcri 100.0 3.6E-48 7.9E-53 473.2 25.2 437 288-758 135-672 (674)
20 PF00176 SNF2_N: SNF2 family N 100.0 1.1E-40 2.5E-45 382.3 24.2 272 289-586 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 3.6E-37 7.8E-42 377.5 35.9 340 283-745 253-616 (732)
22 PRK13766 Hef nuclease; Provisi 100.0 1.4E-32 3.1E-37 354.7 39.6 430 284-753 14-496 (773)
23 KOG0298 DEAD box-containing he 100.0 1.2E-30 2.6E-35 320.0 23.1 256 302-584 372-689 (1394)
24 COG1111 MPH1 ERCC4-like helica 100.0 5.9E-28 1.3E-32 275.1 34.0 419 284-753 14-498 (542)
25 COG1061 SSL2 DNA or RNA helica 100.0 3E-28 6.5E-33 292.3 31.8 362 283-748 34-406 (442)
26 PHA02558 uvsW UvsW helicase; P 100.0 3.7E-27 8.1E-32 288.3 32.8 336 283-736 112-455 (501)
27 PF06461 DUF1086: Domain of Un 100.0 2.2E-28 4.8E-33 236.1 13.1 132 937-1069 10-142 (145)
28 PTZ00110 helicase; Provisional 99.9 1.6E-22 3.5E-27 249.3 32.5 319 284-736 151-484 (545)
29 TIGR00614 recQ_fam ATP-depende 99.9 3.5E-22 7.6E-27 243.3 28.9 308 284-730 10-329 (470)
30 PRK01297 ATP-dependent RNA hel 99.9 5.6E-22 1.2E-26 242.2 30.4 316 284-736 108-442 (475)
31 PRK10590 ATP-dependent RNA hel 99.9 6.2E-22 1.3E-26 240.3 30.2 310 284-729 22-347 (456)
32 PLN00206 DEAD-box ATP-dependen 99.9 6.7E-22 1.5E-26 243.0 30.4 315 284-736 142-475 (518)
33 KOG0354 DEAD-box like helicase 99.9 5.2E-21 1.1E-25 230.8 36.4 404 284-734 61-527 (746)
34 PRK11776 ATP-dependent RNA hel 99.9 9.8E-22 2.1E-26 239.3 30.4 313 284-736 25-349 (460)
35 PRK04837 ATP-dependent RNA hel 99.9 7.2E-22 1.6E-26 238.0 27.8 313 285-735 30-361 (423)
36 PRK11192 ATP-dependent RNA hel 99.9 2.1E-21 4.5E-26 234.9 31.0 313 284-730 22-348 (434)
37 KOG1123 RNA polymerase II tran 99.9 2E-22 4.4E-27 226.4 19.2 338 283-740 300-657 (776)
38 PRK04537 ATP-dependent RNA hel 99.9 3.4E-21 7.5E-26 238.3 30.7 308 284-728 30-358 (572)
39 PRK11634 ATP-dependent RNA hel 99.9 7.6E-21 1.6E-25 236.6 33.4 310 284-729 27-347 (629)
40 PTZ00424 helicase 45; Provisio 99.9 1.1E-20 2.3E-25 226.6 29.4 317 284-737 49-375 (401)
41 TIGR01389 recQ ATP-dependent D 99.9 9.6E-21 2.1E-25 237.2 29.9 304 284-728 12-325 (591)
42 PRK11057 ATP-dependent DNA hel 99.9 1.2E-20 2.7E-25 235.7 30.3 304 284-728 24-337 (607)
43 KOG0331 ATP-dependent RNA heli 99.9 3E-20 6.4E-25 218.5 28.3 312 285-728 113-442 (519)
44 PLN03137 ATP-dependent DNA hel 99.9 4.9E-20 1.1E-24 231.7 28.3 308 284-731 459-784 (1195)
45 PRK11448 hsdR type I restricti 99.9 6.1E-20 1.3E-24 238.7 30.2 357 283-733 411-815 (1123)
46 KOG0330 ATP-dependent RNA heli 99.9 3.9E-20 8.5E-25 204.0 22.5 323 285-747 83-416 (476)
47 PRK13767 ATP-dependent helicas 99.8 2.6E-19 5.6E-24 231.5 32.7 322 284-731 31-395 (876)
48 TIGR03817 DECH_helic helicase/ 99.8 4E-19 8.8E-24 225.4 31.0 330 285-744 36-394 (742)
49 TIGR00643 recG ATP-dependent D 99.8 5.2E-19 1.1E-23 222.1 31.6 305 284-728 234-560 (630)
50 PRK10917 ATP-dependent DNA hel 99.8 4.8E-19 1E-23 223.8 29.9 308 284-733 260-586 (681)
51 TIGR00580 mfd transcription-re 99.8 8.4E-19 1.8E-23 224.4 30.1 309 284-736 450-770 (926)
52 PRK10689 transcription-repair 99.8 1.3E-18 2.9E-23 227.1 29.1 302 284-727 599-912 (1147)
53 COG0513 SrmB Superfamily II DN 99.8 4.7E-18 1E-22 207.9 30.0 328 284-749 50-392 (513)
54 PRK02362 ski2-like helicase; P 99.8 1.4E-17 3E-22 213.5 26.1 317 284-735 22-396 (737)
55 TIGR01587 cas3_core CRISPR-ass 99.8 2.7E-17 5.8E-22 194.2 25.1 328 307-750 2-355 (358)
56 PRK00254 ski2-like helicase; P 99.8 7.6E-17 1.7E-21 206.1 28.2 317 284-737 22-389 (720)
57 PRK01172 ski2-like helicase; P 99.8 4.4E-17 9.5E-22 207.4 25.6 308 284-732 21-374 (674)
58 TIGR00348 hsdR type I site-spe 99.8 2.7E-16 5.8E-21 198.1 30.7 362 284-734 237-649 (667)
59 COG1201 Lhr Lhr-like helicases 99.7 1.4E-16 3.1E-21 197.5 26.8 326 284-746 21-370 (814)
60 TIGR03714 secA2 accessory Sec 99.7 1.9E-16 4.1E-21 195.6 27.3 117 606-728 406-531 (762)
61 KOG0350 DEAD-box ATP-dependent 99.7 5.1E-17 1.1E-21 184.3 19.5 357 285-736 159-540 (620)
62 TIGR02621 cas3_GSU0051 CRISPR- 99.7 3.2E-16 6.9E-21 195.4 27.3 106 622-732 270-390 (844)
63 KOG0328 Predicted ATP-dependen 99.7 1.1E-16 2.3E-21 169.9 19.0 315 286-738 50-375 (400)
64 PRK09200 preprotein translocas 99.7 2.1E-15 4.5E-20 188.2 28.7 131 605-745 409-547 (790)
65 PHA02653 RNA helicase NPH-II; 99.7 3.6E-15 7.7E-20 185.3 27.5 323 282-738 157-516 (675)
66 KOG0345 ATP-dependent RNA heli 99.7 4.8E-15 1E-19 167.6 25.5 313 284-732 27-362 (567)
67 TIGR00963 secA preprotein tran 99.7 3E-16 6.5E-21 192.6 17.3 119 606-729 387-512 (745)
68 PRK12898 secA preprotein trans 99.7 2.9E-15 6.3E-20 183.3 25.0 131 605-745 454-592 (656)
69 COG0514 RecQ Superfamily II DN 99.7 3.6E-15 7.9E-20 179.0 25.2 305 284-729 16-332 (590)
70 PRK09751 putative ATP-dependen 99.7 4.1E-15 9E-20 195.4 27.4 96 623-721 243-371 (1490)
71 COG4096 HsdR Type I site-speci 99.7 1.1E-15 2.3E-20 184.5 19.6 345 282-733 162-545 (875)
72 KOG0335 ATP-dependent RNA heli 99.7 4.5E-15 9.9E-20 172.2 21.7 309 284-731 95-441 (482)
73 KOG0333 U5 snRNP-like RNA heli 99.6 1.1E-14 2.4E-19 166.2 22.1 339 285-736 267-624 (673)
74 COG4889 Predicted helicase [Ge 99.6 4.6E-15 1E-19 176.2 19.4 403 283-733 159-585 (1518)
75 TIGR03158 cas3_cyano CRISPR-as 99.6 4.2E-14 9E-19 166.3 27.4 85 623-719 271-357 (357)
76 COG1200 RecG RecG-like helicas 99.6 3.7E-14 8E-19 169.7 26.4 303 284-725 261-582 (677)
77 PRK09401 reverse gyrase; Revie 99.6 4.3E-14 9.4E-19 185.6 29.4 294 283-722 78-432 (1176)
78 PRK05580 primosome assembly pr 99.6 1.6E-13 3.5E-18 173.2 32.7 153 284-466 143-304 (679)
79 KOG0342 ATP-dependent RNA heli 99.6 9.4E-15 2E-19 166.5 19.0 307 284-725 103-428 (543)
80 cd00079 HELICc Helicase superf 99.6 2.5E-15 5.4E-20 150.1 11.5 120 608-730 12-131 (131)
81 KOG0341 DEAD-box protein abstr 99.6 2.9E-15 6.2E-20 164.7 12.7 320 285-743 192-535 (610)
82 KOG0348 ATP-dependent RNA heli 99.6 8.3E-14 1.8E-18 159.4 24.0 121 607-730 404-550 (708)
83 KOG0343 RNA Helicase [RNA proc 99.6 1E-13 2.2E-18 159.1 24.5 325 285-750 91-435 (758)
84 COG1205 Distinct helicase fami 99.6 6.2E-14 1.3E-18 178.9 25.4 331 285-746 70-432 (851)
85 KOG0340 ATP-dependent RNA heli 99.6 1.1E-13 2.3E-18 152.0 23.3 318 285-739 29-364 (442)
86 PF04851 ResIII: Type III rest 99.6 6.1E-15 1.3E-19 156.3 13.3 165 284-467 2-183 (184)
87 KOG0338 ATP-dependent RNA heli 99.6 2.6E-14 5.7E-19 162.5 17.1 324 285-746 203-541 (691)
88 KOG0339 ATP-dependent RNA heli 99.6 1.1E-13 2.4E-18 157.1 22.1 319 285-739 245-578 (731)
89 PF09111 SLIDE: SLIDE; InterP 99.6 5.6E-17 1.2E-21 156.6 -4.0 100 1024-1132 1-111 (118)
90 KOG4284 DEAD box protein [Tran 99.6 4.5E-14 9.7E-19 164.0 18.9 316 286-732 48-376 (980)
91 PF08074 CHDCT2: CHDCT2 (NUC03 99.6 1.9E-15 4.1E-20 148.3 5.0 80 1081-1223 3-82 (173)
92 TIGR00595 priA primosomal prot 99.6 4.9E-13 1.1E-17 163.1 27.2 93 637-732 271-379 (505)
93 COG1204 Superfamily II helicas 99.5 3E-13 6.5E-18 170.5 24.3 158 285-476 31-198 (766)
94 PRK13104 secA preprotein trans 99.5 5.8E-13 1.3E-17 166.0 26.3 130 606-745 426-593 (896)
95 TIGR01054 rgy reverse gyrase. 99.5 6.6E-13 1.4E-17 174.8 27.2 131 284-442 77-213 (1171)
96 PRK09694 helicase Cas3; Provis 99.5 1.1E-12 2.5E-17 166.8 27.0 357 283-724 284-665 (878)
97 KOG0336 ATP-dependent RNA heli 99.5 5.5E-13 1.2E-17 147.9 20.6 313 285-736 242-572 (629)
98 KOG0332 ATP-dependent RNA heli 99.5 3.2E-13 6.9E-18 149.0 18.2 337 267-739 88-447 (477)
99 PRK14701 reverse gyrase; Provi 99.5 1.5E-12 3.3E-17 174.6 27.1 336 284-724 78-446 (1638)
100 TIGR01970 DEAH_box_HrpB ATP-de 99.5 1.7E-12 3.7E-17 165.3 25.9 109 623-737 208-337 (819)
101 COG4098 comFA Superfamily II D 99.5 1.3E-11 2.8E-16 135.4 28.4 312 280-733 92-413 (441)
102 PRK12904 preprotein translocas 99.5 2.1E-12 4.5E-17 161.1 25.5 130 606-745 412-579 (830)
103 PRK12906 secA preprotein trans 99.5 1.3E-12 2.9E-17 162.2 23.5 118 606-728 422-547 (796)
104 KOG0326 ATP-dependent RNA heli 99.5 1.1E-13 2.4E-18 149.4 9.9 301 286-724 108-419 (459)
105 PRK13107 preprotein translocas 99.5 4.6E-12 1E-16 157.5 24.5 130 606-745 431-597 (908)
106 PF00271 Helicase_C: Helicase 99.5 9.4E-14 2E-18 126.3 6.8 78 642-722 1-78 (78)
107 COG1202 Superfamily II helicas 99.4 2.1E-12 4.4E-17 149.1 18.3 314 284-736 215-553 (830)
108 COG1197 Mfd Transcription-repa 99.4 1.8E-11 3.9E-16 154.5 28.3 325 284-755 593-929 (1139)
109 KOG0347 RNA helicase [RNA proc 99.4 2.6E-12 5.5E-17 147.8 17.3 361 284-757 200-612 (731)
110 smart00487 DEXDc DEAD-like hel 99.4 3.3E-12 7.2E-17 136.0 15.9 156 283-468 6-172 (201)
111 KOG0346 RNA helicase [RNA proc 99.4 1.6E-11 3.4E-16 138.3 20.3 120 608-731 253-407 (569)
112 KOG0344 ATP-dependent RNA heli 99.4 4.5E-12 9.7E-17 148.3 16.5 115 607-726 372-487 (593)
113 KOG0334 RNA helicase [RNA proc 99.4 1.1E-11 2.4E-16 153.5 19.6 123 607-735 597-719 (997)
114 cd00046 DEXDc DEAD-like helica 99.4 4.2E-12 9.1E-17 127.2 13.1 136 305-466 1-144 (144)
115 TIGR00631 uvrb excinuclease AB 99.4 2.6E-10 5.6E-15 142.7 31.1 124 607-736 425-553 (655)
116 PRK11664 ATP-dependent RNA hel 99.4 3.8E-11 8.3E-16 153.4 23.7 110 623-738 211-341 (812)
117 PRK12900 secA preprotein trans 99.3 1.3E-10 2.7E-15 145.4 25.1 117 606-727 580-704 (1025)
118 KOG0351 ATP-dependent DNA heli 99.3 3E-11 6.4E-16 153.6 19.4 312 284-732 263-590 (941)
119 PF11496 HDA2-3: Class II hist 99.3 2.8E-11 6.1E-16 137.0 16.8 216 532-749 4-258 (297)
120 smart00490 HELICc helicase sup 99.3 4.5E-12 9.8E-17 115.5 8.0 81 639-722 2-82 (82)
121 PRK05298 excinuclease ABC subu 99.3 1.8E-09 3.8E-14 136.2 33.2 123 607-735 429-556 (652)
122 KOG0952 DNA/RNA helicase MER3/ 99.3 1.8E-10 3.9E-15 141.6 22.1 307 299-737 121-492 (1230)
123 PRK12899 secA preprotein trans 99.3 1.2E-09 2.5E-14 136.6 28.4 130 606-745 550-687 (970)
124 TIGR01967 DEAH_box_HrpA ATP-de 99.3 3.3E-10 7.1E-15 148.0 23.6 110 623-740 278-408 (1283)
125 PRK11131 ATP-dependent RNA hel 99.2 3.8E-10 8.3E-15 146.8 23.8 109 623-739 285-414 (1294)
126 COG1203 CRISPR-associated heli 99.2 3.7E-10 8E-15 144.3 23.3 355 284-752 194-568 (733)
127 PRK12326 preprotein translocas 99.2 1.2E-09 2.6E-14 133.4 25.6 121 606-731 409-544 (764)
128 KOG0327 Translation initiation 99.2 2.1E-10 4.6E-15 128.5 15.3 310 286-736 49-370 (397)
129 KOG0337 ATP-dependent RNA heli 99.2 2.1E-10 4.5E-15 128.9 13.4 311 285-736 43-368 (529)
130 cd00268 DEADc DEAD-box helicas 99.2 4.3E-10 9.2E-15 121.8 15.5 153 285-467 21-185 (203)
131 PF00270 DEAD: DEAD/DEAH box h 99.2 3.1E-10 6.7E-15 118.8 13.4 155 288-472 2-167 (169)
132 PRK13103 secA preprotein trans 99.1 3.6E-09 7.9E-14 132.3 22.9 122 605-731 430-588 (913)
133 KOG0353 ATP-dependent DNA heli 99.1 2.4E-09 5.3E-14 118.0 16.6 300 284-717 93-407 (695)
134 COG0556 UvrB Helicase subunit 99.1 1.1E-07 2.4E-12 110.4 29.8 132 613-748 432-571 (663)
135 KOG0352 ATP-dependent DNA heli 99.0 1.4E-08 3E-13 114.2 21.1 319 288-731 23-359 (641)
136 TIGR01407 dinG_rel DnaQ family 99.0 6.1E-09 1.3E-13 135.9 19.3 86 282-368 242-333 (850)
137 PRK12903 secA preprotein trans 99.0 4.6E-08 1E-12 121.3 25.6 120 606-730 408-535 (925)
138 KOG0951 RNA helicase BRR2, DEA 99.0 1.9E-08 4.1E-13 125.5 19.8 72 648-723 607-689 (1674)
139 PF13872 AAA_34: P-loop contai 98.9 2.6E-08 5.6E-13 111.0 13.9 238 276-550 27-302 (303)
140 CHL00122 secA preprotein trans 98.7 5.2E-07 1.1E-11 112.9 21.6 84 606-693 406-490 (870)
141 TIGR00596 rad1 DNA repair prot 98.7 2.6E-07 5.7E-12 117.4 19.4 42 605-646 267-317 (814)
142 COG1110 Reverse gyrase [DNA re 98.7 9.3E-07 2E-11 109.8 22.9 126 285-440 82-215 (1187)
143 COG0610 Type I site-specific r 98.7 1.7E-07 3.7E-12 122.3 17.8 139 303-470 272-417 (962)
144 KOG0947 Cytoplasmic exosomal R 98.7 1.6E-07 3.5E-12 114.9 14.7 167 271-499 283-457 (1248)
145 COG1198 PriA Primosomal protei 98.7 2.7E-06 5.8E-11 106.3 25.7 372 284-735 197-604 (730)
146 COG4581 Superfamily II RNA hel 98.7 6.5E-07 1.4E-11 114.1 20.5 158 282-499 116-283 (1041)
147 PF00385 Chromo: Chromo (CHRro 98.7 7.6E-09 1.6E-13 87.4 2.1 49 193-241 2-54 (55)
148 PRK12902 secA preprotein trans 98.7 1.8E-06 3.9E-11 107.9 22.7 84 606-693 421-505 (939)
149 PF06465 DUF1087: Domain of Un 98.6 4.6E-08 1E-12 83.3 5.2 42 863-904 21-62 (66)
150 PRK12901 secA preprotein trans 98.6 3.5E-06 7.5E-11 106.4 23.3 120 606-730 610-737 (1112)
151 KOG1244 Predicted transcriptio 98.6 1.1E-08 2.4E-13 108.3 0.8 50 50-99 280-332 (336)
152 TIGR00604 rad3 DNA repair heli 98.5 3.1E-06 6.8E-11 108.7 20.4 71 284-354 9-82 (705)
153 PRK07246 bifunctional ATP-depe 98.5 1.2E-05 2.7E-10 104.0 24.8 89 613-707 636-726 (820)
154 KOG4299 PHD Zn-finger protein 98.5 3.8E-08 8.3E-13 116.6 1.6 49 51-99 253-306 (613)
155 KOG1513 Nuclear helicase MOP-3 98.4 1.7E-05 3.7E-10 95.5 22.2 242 276-553 256-539 (1300)
156 PRK08074 bifunctional ATP-depe 98.4 5.4E-05 1.2E-09 99.8 28.9 90 280-369 252-347 (928)
157 KOG0329 ATP-dependent RNA heli 98.4 4.9E-06 1.1E-10 88.5 14.2 45 681-725 302-346 (387)
158 TIGR03117 cas_csf4 CRISPR-asso 98.3 0.00021 4.5E-09 89.1 29.5 79 290-368 2-87 (636)
159 COG1199 DinG Rad3-related DNA 98.3 3.8E-05 8.3E-10 98.4 23.4 81 621-706 476-559 (654)
160 PRK15483 type III restriction- 98.3 6.7E-06 1.5E-10 104.8 15.4 143 305-467 60-239 (986)
161 PF02399 Herpes_ori_bp: Origin 98.3 4E-05 8.8E-10 95.3 21.7 114 607-731 266-385 (824)
162 KOG0949 Predicted helicase, DE 98.3 0.00016 3.6E-09 89.6 25.6 161 286-479 512-682 (1330)
163 cd00024 CHROMO Chromatin organ 98.2 6.4E-07 1.4E-11 75.6 2.4 49 193-241 4-54 (55)
164 PRK11747 dinG ATP-dependent DN 98.1 0.00036 7.7E-09 89.4 26.1 88 612-706 522-616 (697)
165 KOG0948 Nuclear exosomal RNA h 98.1 1.1E-05 2.4E-10 97.0 11.1 152 284-498 128-288 (1041)
166 PF07652 Flavi_DEAD: Flaviviru 98.1 1.4E-05 3E-10 80.0 10.0 130 302-466 2-136 (148)
167 KOG0922 DEAH-box RNA helicase 98.1 0.00026 5.7E-09 85.6 21.1 108 626-738 260-392 (674)
168 KOG0825 PHD Zn-finger protein 98.0 2E-06 4.3E-11 102.7 2.5 48 51-98 215-266 (1134)
169 KOG0920 ATP-dependent RNA heli 98.0 0.00036 7.8E-09 88.8 22.0 129 608-742 395-550 (924)
170 KOG0924 mRNA splicing factor A 98.0 0.00015 3.3E-09 86.6 16.9 94 648-744 597-705 (1042)
171 smart00488 DEXDc2 DEAD-like he 98.0 4.2E-05 9.2E-10 87.5 12.3 72 284-355 7-84 (289)
172 smart00489 DEXDc3 DEAD-like he 98.0 4.2E-05 9.2E-10 87.5 12.3 72 284-355 7-84 (289)
173 smart00298 CHROMO Chromatin or 98.0 3E-06 6.6E-11 71.3 2.0 49 193-241 3-52 (55)
174 PF00628 PHD: PHD-finger; Int 98.0 2.1E-06 4.6E-11 71.2 1.0 44 53-96 1-49 (51)
175 KOG0950 DNA polymerase theta/e 98.0 9.9E-05 2.2E-09 92.0 15.1 154 285-470 223-391 (1008)
176 PF13871 Helicase_C_4: Helicas 97.9 1.8E-05 3.8E-10 88.4 7.6 90 665-757 52-149 (278)
177 COG0653 SecA Preprotein transl 97.9 0.0012 2.7E-08 83.0 24.0 122 605-732 410-542 (822)
178 TIGR02562 cas3_yersinia CRISPR 97.9 0.0091 2E-07 76.9 31.1 189 287-475 410-643 (1110)
179 KOG0349 Putative DEAD-box RNA 97.8 5.4E-05 1.2E-09 85.9 8.3 95 624-721 505-602 (725)
180 smart00249 PHD PHD zinc finger 97.8 1.9E-05 4.2E-10 63.8 3.1 43 53-95 1-47 (47)
181 PF00385 Chromo: Chromo (CHRro 97.7 3.8E-06 8.2E-11 70.9 -2.0 53 102-173 3-55 (55)
182 COG1643 HrpA HrpA-like helicas 97.7 0.0013 2.9E-08 84.0 19.4 111 624-739 259-390 (845)
183 cd04718 BAH_plant_2 BAH, or Br 97.6 3.8E-05 8.3E-10 76.8 3.4 28 72-99 1-28 (148)
184 PF13086 AAA_11: AAA domain; P 97.6 0.00044 9.6E-09 76.0 11.9 66 285-354 1-75 (236)
185 cd00024 CHROMO Chromatin organ 97.6 2.1E-05 4.5E-10 66.3 1.0 51 101-172 4-54 (55)
186 KOG0953 Mitochondrial RNA heli 97.5 0.00032 7E-09 82.6 9.0 99 622-724 356-464 (700)
187 COG5034 TNG2 Chromatin remodel 97.4 6.8E-05 1.5E-09 80.1 2.8 47 48-97 218-269 (271)
188 KOG0957 PHD finger protein [Ge 97.3 8.1E-05 1.8E-09 85.4 1.3 48 49-96 542-596 (707)
189 KOG1973 Chromatin remodeling p 97.2 0.00013 2.8E-09 82.5 2.2 45 51-97 219-267 (274)
190 KOG0923 mRNA splicing factor A 97.2 0.011 2.4E-07 71.4 17.8 84 649-740 507-610 (902)
191 KOG1512 PHD Zn-finger protein 97.2 0.00014 3E-09 78.2 1.9 45 50-96 313-361 (381)
192 PF07517 SecA_DEAD: SecA DEAD- 97.2 0.0042 9.1E-08 69.7 13.7 122 283-440 75-209 (266)
193 KOG0925 mRNA splicing factor A 97.2 0.0099 2.2E-07 69.3 16.3 62 679-742 315-393 (699)
194 KOG2748 Uncharacterized conser 97.1 8.1E-05 1.8E-09 82.7 -1.1 25 131-155 26-50 (369)
195 KOG0954 PHD finger protein [Ge 96.9 0.00043 9.4E-09 83.4 2.0 91 49-159 269-365 (893)
196 PRK10536 hypothetical protein; 96.8 0.011 2.5E-07 65.5 12.5 150 286-470 60-216 (262)
197 KOG1473 Nucleosome remodeling 96.8 0.00053 1.2E-08 85.9 2.3 47 51-97 344-390 (1414)
198 smart00298 CHROMO Chromatin or 96.8 0.00057 1.2E-08 57.4 1.6 36 131-173 18-53 (55)
199 COG5141 PHD zinc finger-contai 96.8 0.00059 1.3E-08 78.5 2.1 70 42-116 184-258 (669)
200 KOG0955 PHD finger protein BR1 96.7 0.0011 2.4E-08 85.4 4.0 63 49-116 217-284 (1051)
201 COG3587 Restriction endonuclea 96.7 0.0059 1.3E-07 75.8 9.8 81 678-758 484-572 (985)
202 PF02562 PhoH: PhoH-like prote 96.6 0.015 3.3E-07 62.8 11.3 149 286-471 5-160 (205)
203 KOG4443 Putative transcription 96.6 0.001 2.2E-08 80.0 2.2 46 51-96 68-116 (694)
204 KOG1245 Chromatin remodeling c 96.5 0.00062 1.3E-08 91.3 -0.3 53 47-99 1104-1159(1404)
205 KOG0926 DEAH-box RNA helicase 96.5 0.0092 2E-07 73.3 9.3 66 667-735 620-703 (1172)
206 KOG4150 Predicted ATP-dependen 96.3 0.019 4E-07 68.0 10.0 133 606-743 507-647 (1034)
207 KOG1911 Heterochromatin-associ 96.2 0.0047 1E-07 70.1 4.7 58 189-246 46-103 (270)
208 PF13401 AAA_22: AAA domain; P 96.2 0.0052 1.1E-07 61.2 4.4 35 430-466 89-125 (131)
209 KOG1131 RNA polymerase II tran 96.0 0.012 2.7E-07 69.1 6.8 66 277-342 8-75 (755)
210 KOG1802 RNA helicase nonsense 95.9 0.013 2.9E-07 70.6 6.7 78 284-367 409-487 (935)
211 KOG4323 Polycomb-like PHD Zn-f 95.9 0.0024 5.3E-08 75.2 0.6 53 52-104 169-230 (464)
212 PF13307 Helicase_C_2: Helicas 95.8 0.018 3.9E-07 60.5 6.8 80 622-706 7-92 (167)
213 PRK14873 primosome assembly pr 95.8 0.047 1E-06 69.3 11.5 125 313-466 169-303 (665)
214 PF09848 DUF2075: Uncharacteri 95.7 0.036 7.7E-07 65.6 9.5 45 307-351 4-49 (352)
215 PF13604 AAA_30: AAA domain; P 95.7 0.1 2.3E-06 56.3 12.0 58 285-345 1-58 (196)
216 KOG2748 Uncharacterized conser 95.5 0.012 2.5E-07 66.1 3.7 50 192-242 11-60 (369)
217 COG0553 HepA Superfamily II DN 95.4 0.007 1.5E-07 80.3 2.4 179 285-488 84-289 (866)
218 TIGR00376 DNA helicase, putati 95.3 0.077 1.7E-06 67.5 10.7 77 284-366 156-233 (637)
219 KOG0956 PHD finger protein AF1 95.2 0.0082 1.8E-07 72.1 1.6 84 53-154 7-98 (900)
220 PF15446 zf-PHD-like: PHD/FYVE 94.9 0.027 5.9E-07 57.3 3.9 34 63-96 124-175 (175)
221 KOG1803 DNA helicase [Replicat 94.8 0.046 1E-06 66.1 6.4 64 284-351 184-248 (649)
222 PLN03025 replication factor C 94.7 0.34 7.4E-06 56.5 13.5 40 292-331 20-61 (319)
223 cd00009 AAA The AAA+ (ATPases 94.5 0.31 6.8E-06 48.5 11.0 41 304-345 19-59 (151)
224 TIGR01448 recD_rel helicase, p 94.4 0.27 5.9E-06 63.5 12.6 65 283-351 321-386 (720)
225 PRK04296 thymidine kinase; Pro 93.9 0.16 3.5E-06 54.5 7.8 34 307-341 5-38 (190)
226 PF13831 PHD_2: PHD-finger; PD 93.8 0.012 2.7E-07 44.9 -0.8 33 62-96 3-36 (36)
227 PRK07003 DNA polymerase III su 93.7 0.84 1.8E-05 58.0 14.3 55 428-482 119-174 (830)
228 PF00249 Myb_DNA-binding: Myb- 93.6 0.063 1.4E-06 43.9 3.0 30 1082-1111 2-31 (48)
229 PF12340 DUF3638: Protein of u 93.6 0.15 3.2E-06 55.9 6.5 74 282-356 20-93 (229)
230 PRK09112 DNA polymerase III su 93.5 0.42 9.1E-06 56.4 10.9 42 290-331 28-72 (351)
231 KOG0951 RNA helicase BRR2, DEA 93.5 0.19 4E-06 65.3 8.2 110 300-444 1155-1269(1674)
232 KOG1132 Helicase of the DEAD s 93.4 0.52 1.1E-05 59.6 11.5 81 284-364 20-142 (945)
233 TIGR01447 recD exodeoxyribonuc 93.1 0.59 1.3E-05 58.9 11.8 54 288-345 148-205 (586)
234 PRK14956 DNA polymerase III su 93.1 0.49 1.1E-05 57.5 10.5 42 290-331 23-67 (484)
235 COG3421 Uncharacterized protei 93.0 0.33 7.2E-06 58.7 8.8 37 310-346 3-40 (812)
236 TIGR02881 spore_V_K stage V sp 92.9 0.23 5E-06 56.2 7.3 28 304-331 42-69 (261)
237 PRK12323 DNA polymerase III su 92.7 0.74 1.6E-05 57.6 11.6 26 305-330 39-64 (700)
238 PRK12723 flagellar biosynthesi 92.7 1.1 2.4E-05 53.4 12.7 56 428-483 254-314 (388)
239 PRK12402 replication factor C 92.6 0.62 1.3E-05 54.5 10.6 40 293-332 23-64 (337)
240 KOG0383 Predicted helicase [Ge 92.4 0.052 1.1E-06 67.9 1.3 71 50-152 176-246 (696)
241 PRK06526 transposase; Provisio 92.4 0.32 6.8E-06 54.8 7.4 54 291-353 89-142 (254)
242 PRK07764 DNA polymerase III su 92.3 7.8 0.00017 50.9 20.6 26 306-331 39-64 (824)
243 smart00717 SANT SANT SWI3, AD 92.2 0.14 3.1E-06 41.1 3.2 30 1082-1111 2-31 (49)
244 PRK10875 recD exonuclease V su 92.1 0.39 8.3E-06 60.7 8.4 57 286-346 153-212 (615)
245 cd00167 SANT 'SWI3, ADA2, N-Co 91.8 0.16 3.5E-06 40.1 3.0 29 1083-1111 1-29 (45)
246 smart00382 AAA ATPases associa 91.7 0.59 1.3E-05 45.9 7.8 43 304-347 2-44 (148)
247 PRK08181 transposase; Validate 90.8 1.7 3.7E-05 49.3 11.1 53 286-339 88-140 (269)
248 PRK05703 flhF flagellar biosyn 90.7 2.7 5.8E-05 51.0 13.4 56 428-483 299-359 (424)
249 COG1875 NYN ribonuclease and A 90.7 1 2.2E-05 52.0 8.9 71 273-345 215-288 (436)
250 PRK07994 DNA polymerase III su 90.7 1.3 2.9E-05 56.0 11.0 42 290-331 21-65 (647)
251 TIGR03015 pepcterm_ATPase puta 90.6 2.2 4.8E-05 48.1 12.0 42 288-329 26-68 (269)
252 PRK00440 rfc replication facto 90.4 3 6.5E-05 48.3 13.2 26 306-331 40-65 (319)
253 PRK05707 DNA polymerase III su 90.3 1.2 2.7E-05 52.0 9.6 47 285-331 3-49 (328)
254 TIGR02880 cbbX_cfxQ probable R 90.2 0.46 1E-05 54.4 6.0 37 304-340 58-97 (284)
255 TIGR03420 DnaA_homol_Hda DnaA 90.2 1.5 3.4E-05 48.0 10.0 42 303-346 37-78 (226)
256 KOG4443 Putative transcription 90.1 0.095 2.1E-06 63.6 0.3 59 50-108 17-86 (694)
257 CHL00181 cbbX CbbX; Provisiona 90.1 0.53 1.1E-05 54.0 6.3 28 304-331 59-86 (287)
258 KOG1133 Helicase of the DEAD s 90.0 12 0.00025 46.9 17.4 81 626-707 631-721 (821)
259 PRK14960 DNA polymerase III su 89.8 1.9 4E-05 54.4 11.0 25 306-330 39-63 (702)
260 PF05876 Terminase_GpA: Phage 89.8 0.52 1.1E-05 59.1 6.4 167 284-477 15-190 (557)
261 PRK14958 DNA polymerase III su 89.7 2.6 5.7E-05 52.3 12.4 41 291-331 22-65 (509)
262 PRK07940 DNA polymerase III su 89.7 1.5 3.3E-05 52.5 10.0 26 306-331 38-63 (394)
263 PRK06645 DNA polymerase III su 89.5 1.6 3.4E-05 54.0 10.2 42 290-331 26-70 (507)
264 PRK08084 DNA replication initi 89.4 2.5 5.4E-05 47.0 10.9 28 304-331 45-72 (235)
265 PRK14949 DNA polymerase III su 89.2 1.5 3.2E-05 57.0 9.7 25 307-331 41-65 (944)
266 KOG0457 Histone acetyltransfer 88.9 0.28 6.1E-06 57.2 2.9 31 1081-1111 72-102 (438)
267 PRK14961 DNA polymerase III su 88.8 2.4 5.2E-05 50.4 10.8 41 290-330 21-64 (363)
268 PF00249 Myb_DNA-binding: Myb- 88.8 0.88 1.9E-05 37.1 5.0 42 969-1012 4-46 (48)
269 PF06862 DUF1253: Protein of u 88.4 4.9 0.00011 48.5 12.9 126 608-735 281-414 (442)
270 KOG0989 Replication factor C, 88.3 2.9 6.3E-05 47.4 10.1 43 289-331 40-84 (346)
271 PRK14955 DNA polymerase III su 88.2 4.6 9.9E-05 48.7 12.8 42 290-331 21-65 (397)
272 PHA02544 44 clamp loader, smal 88.1 3.6 7.8E-05 47.8 11.6 40 429-468 101-142 (316)
273 PHA02533 17 large terminase pr 88.1 2.2 4.8E-05 53.1 10.2 55 284-342 58-113 (534)
274 PRK14957 DNA polymerase III su 88.1 2.8 6.2E-05 52.2 11.0 39 292-330 23-64 (546)
275 smart00491 HELICc2 helicase su 88.1 1.7 3.8E-05 44.3 7.7 54 652-706 23-80 (142)
276 PRK11889 flhF flagellar biosyn 88.0 4.4 9.5E-05 48.2 11.8 36 305-341 242-277 (436)
277 PRK09111 DNA polymerase III su 88.0 3.7 8E-05 51.9 12.1 42 290-331 29-73 (598)
278 KOG4299 PHD Zn-finger protein 87.9 0.29 6.2E-06 59.6 2.2 47 51-97 47-94 (613)
279 PRK14962 DNA polymerase III su 87.8 2.8 6E-05 51.6 10.7 25 306-330 38-62 (472)
280 PRK08769 DNA polymerase III su 87.7 4.3 9.4E-05 47.2 11.6 48 285-332 4-54 (319)
281 cd00167 SANT 'SWI3, ADA2, N-Co 87.7 1.2 2.5E-05 35.0 5.0 42 969-1012 2-43 (45)
282 PRK08451 DNA polymerase III su 87.7 2.8 6.2E-05 52.0 10.6 40 292-331 21-63 (535)
283 PRK08691 DNA polymerase III su 87.7 6.1 0.00013 50.3 13.5 26 306-331 40-65 (709)
284 PRK08116 hypothetical protein; 87.5 4.1 8.9E-05 46.3 11.1 42 304-346 114-155 (268)
285 PRK14974 cell division protein 87.1 3.8 8.3E-05 48.0 10.8 35 306-341 142-176 (336)
286 PRK14964 DNA polymerase III su 86.9 5.2 0.00011 49.3 12.2 39 293-331 21-62 (491)
287 PRK07471 DNA polymerase III su 86.6 4.1 8.9E-05 48.4 10.9 43 290-332 24-69 (365)
288 PF13177 DNA_pol3_delta2: DNA 86.6 4.2 9.1E-05 42.5 9.8 44 290-333 2-48 (162)
289 PF13173 AAA_14: AAA domain 86.4 4.5 9.8E-05 40.2 9.6 26 304-329 2-27 (128)
290 KOG0991 Replication factor C, 86.1 12 0.00026 40.9 12.7 29 303-331 47-75 (333)
291 PRK14952 DNA polymerase III su 86.0 5.2 0.00011 50.4 11.8 42 290-331 18-62 (584)
292 PRK08727 hypothetical protein; 85.9 3.3 7.2E-05 46.0 9.2 27 306-332 43-69 (233)
293 PRK14951 DNA polymerase III su 85.8 4.4 9.6E-05 51.3 11.1 42 290-331 21-65 (618)
294 PRK06871 DNA polymerase III su 85.7 4.5 9.7E-05 47.2 10.3 47 286-332 3-52 (325)
295 smart00717 SANT SANT SWI3, AD 85.5 1.5 3.3E-05 35.0 4.7 45 968-1014 3-47 (49)
296 KOG1805 DNA replication helica 85.1 3.4 7.3E-05 53.2 9.4 162 285-469 669-832 (1100)
297 COG1200 RecG RecG-like helicas 84.9 12 0.00025 47.2 13.7 95 606-703 293-392 (677)
298 PF13245 AAA_19: Part of AAA d 84.7 2.5 5.3E-05 38.3 6.0 44 304-347 10-56 (76)
299 PRK14950 DNA polymerase III su 84.6 7.4 0.00016 49.4 12.5 41 290-330 21-64 (585)
300 PF13921 Myb_DNA-bind_6: Myb-l 84.5 0.87 1.9E-05 38.9 2.9 41 1084-1129 1-41 (60)
301 TIGR02768 TraA_Ti Ti-type conj 84.3 6.6 0.00014 51.2 12.1 60 283-346 350-409 (744)
302 PRK00149 dnaA chromosomal repl 84.2 6.9 0.00015 48.0 11.6 35 305-339 149-184 (450)
303 PRK08058 DNA polymerase III su 83.8 4.7 0.0001 47.2 9.6 75 289-366 10-87 (329)
304 PRK14963 DNA polymerase III su 83.7 6 0.00013 49.1 10.8 42 290-331 19-63 (504)
305 KOG1911 Heterochromatin-associ 83.7 0.42 9.1E-06 54.4 0.7 25 131-155 64-89 (270)
306 PF00448 SRP54: SRP54-type pro 83.7 3.3 7.1E-05 44.8 7.6 34 307-341 4-37 (196)
307 PRK14969 DNA polymerase III su 83.5 11 0.00024 47.2 13.0 25 306-330 40-64 (527)
308 PRK04132 replication factor C 83.4 4.4 9.5E-05 52.9 9.7 52 428-479 630-682 (846)
309 PRK14948 DNA polymerase III su 83.3 6.7 0.00015 49.9 11.2 42 290-331 21-65 (620)
310 TIGR00595 priA primosomal prot 83.3 7.7 0.00017 48.3 11.5 95 605-703 6-101 (505)
311 TIGR02928 orc1/cdc6 family rep 83.0 5.7 0.00012 47.1 10.1 45 286-330 19-66 (365)
312 PRK06964 DNA polymerase III su 82.8 6.6 0.00014 46.2 10.1 47 286-332 2-49 (342)
313 PRK14953 DNA polymerase III su 82.8 7 0.00015 48.3 10.9 41 290-330 21-64 (486)
314 PHA03368 DNA packaging termina 82.4 11 0.00024 47.4 12.1 128 304-465 254-389 (738)
315 PF15446 zf-PHD-like: PHD/FYVE 82.2 0.64 1.4E-05 47.6 1.3 47 53-99 1-61 (175)
316 PHA03372 DNA packaging termina 82.2 3.2 6.9E-05 51.3 7.3 130 302-465 201-336 (668)
317 PRK05563 DNA polymerase III su 82.0 12 0.00025 47.3 12.6 26 306-331 40-65 (559)
318 PRK13889 conjugal transfer rel 81.9 8.1 0.00018 51.5 11.5 59 283-345 344-402 (988)
319 PRK14087 dnaA chromosomal repl 81.8 5.6 0.00012 48.7 9.5 41 305-345 142-183 (450)
320 PRK14959 DNA polymerase III su 81.7 9.2 0.0002 48.3 11.3 37 294-330 25-64 (624)
321 PF06733 DEAD_2: DEAD_2; Inte 81.6 0.81 1.8E-05 48.3 1.9 38 405-442 118-159 (174)
322 COG1198 PriA Primosomal protei 81.5 6.6 0.00014 50.4 10.1 167 536-744 195-367 (730)
323 TIGR01557 myb_SHAQKYF myb-like 81.4 1.6 3.5E-05 37.1 3.2 29 1080-1108 2-33 (57)
324 PHA03333 putative ATPase subun 81.4 11 0.00024 47.7 11.5 59 288-347 172-231 (752)
325 PRK05896 DNA polymerase III su 81.2 12 0.00027 47.0 12.1 39 293-331 24-65 (605)
326 PF14446 Prok-RING_1: Prokaryo 81.1 0.88 1.9E-05 37.9 1.5 30 51-80 5-38 (54)
327 PRK07993 DNA polymerase III su 81.0 6.6 0.00014 46.1 9.3 47 285-331 2-51 (334)
328 PRK05580 primosome assembly pr 81.0 11 0.00023 48.9 12.0 95 606-704 172-267 (679)
329 TIGR00362 DnaA chromosomal rep 80.6 6.4 0.00014 47.6 9.4 34 306-339 138-172 (405)
330 PRK14722 flhF flagellar biosyn 80.2 18 0.00039 43.1 12.5 40 302-341 135-175 (374)
331 PRK06893 DNA replication initi 80.1 11 0.00023 41.8 10.3 26 306-331 41-66 (229)
332 PRK14965 DNA polymerase III su 79.8 20 0.00043 45.5 13.6 25 307-331 41-65 (576)
333 PRK06090 DNA polymerase III su 79.7 12 0.00026 43.6 10.8 48 285-332 3-53 (319)
334 cd01121 Sms Sms (bacterial rad 79.7 9.6 0.00021 45.4 10.2 50 302-352 80-129 (372)
335 PRK14088 dnaA chromosomal repl 79.6 10 0.00022 46.4 10.6 35 306-340 132-167 (440)
336 TIGR00643 recG ATP-dependent D 79.1 16 0.00036 46.8 12.8 97 606-705 266-367 (630)
337 COG0593 DnaA ATPase involved i 79.0 14 0.00031 44.2 11.2 52 428-479 175-234 (408)
338 PRK04195 replication factor C 78.9 14 0.00029 45.9 11.7 42 286-328 18-63 (482)
339 TIGR03345 VI_ClpV1 type VI sec 78.7 8.9 0.00019 50.8 10.4 41 290-330 192-234 (852)
340 PRK05642 DNA replication initi 78.7 9 0.00019 42.6 9.1 36 430-465 99-138 (234)
341 PRK00771 signal recognition pa 78.6 18 0.00039 44.0 12.2 37 305-341 96-132 (437)
342 TIGR00678 holB DNA polymerase 78.6 17 0.00037 38.6 10.9 27 305-331 15-41 (188)
343 COG1484 DnaC DNA replication p 78.2 6.6 0.00014 44.2 7.9 66 287-353 88-153 (254)
344 PRK09183 transposase/IS protei 78.1 11 0.00025 42.5 9.8 46 290-340 92-137 (259)
345 PRK14086 dnaA chromosomal repl 78.1 12 0.00026 47.1 10.7 40 306-345 316-356 (617)
346 PRK06647 DNA polymerase III su 77.7 18 0.00039 45.6 12.3 26 306-331 40-65 (563)
347 PF00580 UvrD-helicase: UvrD/R 77.7 6 0.00013 45.4 7.7 54 286-345 1-57 (315)
348 PF12861 zf-Apc11: Anaphase-pr 77.6 0.82 1.8E-05 41.9 0.3 43 54-98 35-80 (85)
349 PF01695 IstB_IS21: IstB-like 77.5 3 6.5E-05 44.3 4.6 47 302-353 45-91 (178)
350 PRK14954 DNA polymerase III su 77.5 13 0.00027 47.4 10.8 42 290-331 21-65 (620)
351 PRK11054 helD DNA helicase IV; 77.3 10 0.00023 48.8 10.2 68 284-357 195-266 (684)
352 PRK07133 DNA polymerase III su 76.5 16 0.00034 47.1 11.3 40 292-331 25-67 (725)
353 KOG1473 Nucleosome remodeling 76.0 0.51 1.1E-05 60.5 -2.0 51 49-99 426-480 (1414)
354 PF05621 TniB: Bacterial TniB 75.8 18 0.0004 41.4 10.5 45 422-466 139-189 (302)
355 PRK06731 flhF flagellar biosyn 75.6 23 0.00051 40.2 11.3 47 303-350 74-124 (270)
356 PRK12422 chromosomal replicati 75.6 10 0.00022 46.3 9.1 35 305-340 142-176 (445)
357 PRK13342 recombination factor 75.5 14 0.00031 44.7 10.3 24 305-328 37-60 (413)
358 KOG0957 PHD finger protein [Ge 75.3 1.9 4.1E-05 50.8 2.5 61 51-115 119-192 (707)
359 COG0470 HolB ATPase involved i 75.1 9.2 0.0002 44.3 8.3 30 303-332 22-52 (325)
360 PRK00411 cdc6 cell division co 74.9 16 0.00034 43.9 10.5 46 287-332 35-83 (394)
361 KOG1246 DNA-binding protein ju 73.9 2.3 5E-05 56.8 3.2 48 51-98 155-204 (904)
362 COG3267 ExeA Type II secretory 73.7 16 0.00035 40.7 8.9 44 301-346 47-91 (269)
363 KOG4628 Predicted E3 ubiquitin 73.7 2.1 4.5E-05 49.6 2.3 44 52-98 230-276 (348)
364 PRK10917 ATP-dependent DNA hel 73.6 17 0.00037 47.1 10.9 97 606-705 292-393 (681)
365 PRK10865 protein disaggregatio 73.4 13 0.00029 49.3 9.9 38 293-330 186-225 (857)
366 smart00492 HELICc3 helicase su 73.3 18 0.00039 36.9 8.8 53 652-707 26-80 (141)
367 PF00004 AAA: ATPase family as 73.2 8.2 0.00018 37.9 6.3 35 307-345 1-35 (132)
368 KOG0952 DNA/RNA helicase MER3/ 72.6 3.5 7.6E-05 53.4 4.1 112 301-443 940-1061(1230)
369 KOG3612 PHD Zn-finger protein 72.0 2.7 5.9E-05 50.5 2.8 50 49-98 58-108 (588)
370 KOG0384 Chromodomain-helicase 71.9 1.3 2.8E-05 58.0 0.1 25 131-155 300-324 (1373)
371 PRK12727 flagellar biosynthesi 71.8 46 0.001 41.4 13.1 38 303-340 349-387 (559)
372 KOG1512 PHD Zn-finger protein 71.4 1.2 2.6E-05 48.9 -0.3 46 51-96 258-315 (381)
373 COG2256 MGS1 ATPase related to 71.3 16 0.00034 43.3 8.6 25 303-327 47-71 (436)
374 PRK06305 DNA polymerase III su 71.1 20 0.00044 43.9 10.2 42 290-331 22-66 (451)
375 PTZ00293 thymidine kinase; Pro 70.6 12 0.00026 40.8 7.1 36 307-343 7-42 (211)
376 PLN03212 Transcription repress 70.2 3.9 8.4E-05 44.9 3.3 28 1081-1108 25-52 (249)
377 PRK07399 DNA polymerase III su 69.5 23 0.0005 41.2 9.8 43 290-332 9-54 (314)
378 TIGR03689 pup_AAA proteasome A 69.2 14 0.00031 45.7 8.2 29 302-330 214-242 (512)
379 PRK08699 DNA polymerase III su 68.7 38 0.00082 39.7 11.3 46 286-331 2-48 (325)
380 PF11793 FANCL_C: FANCL C-term 68.6 0.48 1.1E-05 42.1 -3.3 46 52-97 3-63 (70)
381 CHL00095 clpC Clp protease ATP 68.3 2.2E+02 0.0049 37.8 19.6 25 307-331 542-566 (821)
382 PRK07952 DNA replication prote 67.9 16 0.00036 40.8 7.8 62 288-354 79-144 (244)
383 TIGR01557 myb_SHAQKYF myb-like 67.6 12 0.00027 31.9 5.1 48 968-1015 5-55 (57)
384 PRK12724 flagellar biosynthesi 67.6 32 0.00068 41.6 10.4 22 307-328 226-247 (432)
385 PRK06835 DNA replication prote 67.5 12 0.00027 43.7 7.0 49 284-332 159-211 (329)
386 KOG4218 Nuclear hormone recept 67.5 2.1 4.5E-05 48.3 0.6 67 46-112 10-95 (475)
387 TIGR02397 dnaX_nterm DNA polym 67.3 59 0.0013 38.2 12.9 26 306-331 38-63 (355)
388 cd01120 RecA-like_NTPases RecA 67.0 36 0.00079 34.4 9.8 37 307-344 2-38 (165)
389 PRK14971 DNA polymerase III su 66.7 73 0.0016 40.7 14.1 24 307-330 42-65 (614)
390 PRK11823 DNA repair protein Ra 66.6 18 0.00038 44.4 8.3 61 293-354 68-129 (446)
391 PRK14873 primosome assembly pr 66.5 25 0.00054 45.2 9.9 94 606-703 170-265 (665)
392 PTZ00112 origin recognition co 66.1 37 0.00081 44.4 11.0 45 286-330 759-807 (1164)
393 cd03115 SRP The signal recogni 66.0 38 0.00083 35.3 9.8 35 307-341 3-37 (173)
394 PRK05986 cob(I)alamin adenolsy 65.9 44 0.00096 35.9 10.1 63 421-483 108-174 (191)
395 PRK13826 Dtr system oriT relax 65.6 47 0.001 44.9 12.4 58 284-345 380-437 (1102)
396 TIGR03346 chaperone_ClpB ATP-d 65.3 21 0.00046 47.5 9.3 39 292-330 180-220 (852)
397 PF04364 DNA_pol3_chi: DNA pol 65.2 26 0.00056 35.5 7.9 79 610-706 15-97 (137)
398 PRK13341 recombination factor 64.8 21 0.00046 46.3 8.9 25 304-328 52-76 (725)
399 PF00308 Bac_DnaA: Bacterial d 64.7 42 0.0009 36.9 10.1 37 428-464 97-137 (219)
400 PF13901 DUF4206: Domain of un 64.1 5.1 0.00011 43.5 2.7 39 50-97 151-197 (202)
401 KOG0048 Transcription factor, 64.1 5 0.00011 44.7 2.8 39 1082-1120 10-48 (238)
402 cd01124 KaiC KaiC is a circadi 63.9 17 0.00036 38.4 6.6 48 307-355 2-49 (187)
403 COG3973 Superfamily I DNA and 63.8 13 0.00029 45.8 6.3 60 286-350 213-277 (747)
404 PRK10867 signal recognition pa 63.6 40 0.00087 41.0 10.4 35 307-341 103-138 (433)
405 COG1419 FlhF Flagellar GTP-bin 63.4 99 0.0021 37.1 13.2 56 429-485 282-342 (407)
406 TIGR02639 ClpA ATP-dependent C 63.3 36 0.00078 44.6 10.8 29 303-331 202-230 (731)
407 PRK13833 conjugal transfer pro 63.2 12 0.00027 43.5 5.8 47 281-330 124-170 (323)
408 CHL00095 clpC Clp protease ATP 62.9 25 0.00054 46.6 9.3 28 303-330 199-226 (821)
409 PLN03091 hypothetical protein; 62.4 8 0.00017 45.9 4.0 29 1081-1109 14-42 (459)
410 PF01393 Chromo_shadow: Chromo 62.2 3.4 7.4E-05 35.3 0.8 27 192-218 3-29 (58)
411 TIGR02640 gas_vesic_GvpN gas v 61.5 19 0.00041 40.7 6.9 50 288-341 5-54 (262)
412 KOG1081 Transcription factor N 61.4 5.3 0.00011 48.8 2.5 46 50-98 88-133 (463)
413 TIGR00959 ffh signal recogniti 61.4 39 0.00084 41.1 9.8 36 306-341 101-137 (428)
414 PRK10865 protein disaggregatio 61.2 3.2E+02 0.0068 36.7 19.0 25 306-330 600-624 (857)
415 TIGR01425 SRP54_euk signal rec 61.1 90 0.002 38.0 12.7 34 307-341 103-136 (429)
416 COG1435 Tdk Thymidine kinase [ 61.0 16 0.00034 39.2 5.5 36 307-343 7-42 (201)
417 KOG0737 AAA+-type ATPase [Post 60.9 13 0.00027 43.5 5.2 50 302-355 125-174 (386)
418 TIGR00708 cobA cob(I)alamin ad 60.2 13 0.00028 39.3 4.8 60 421-480 90-153 (173)
419 PRK05973 replicative DNA helic 60.1 23 0.0005 39.4 7.0 57 297-354 57-113 (237)
420 cd00561 CobA_CobO_BtuR ATP:cor 60.1 67 0.0015 33.5 10.0 58 421-478 88-149 (159)
421 CHL00206 ycf2 Ycf2; Provisiona 59.8 23 0.0005 49.8 8.0 43 302-348 1628-1670(2281)
422 COG0552 FtsY Signal recognitio 59.8 36 0.00078 39.5 8.5 56 308-364 143-198 (340)
423 KOG1244 Predicted transcriptio 59.6 3 6.4E-05 45.8 -0.1 59 50-108 223-299 (336)
424 PRK10919 ATP-dependent DNA hel 59.0 16 0.00034 47.3 6.3 53 285-343 2-57 (672)
425 PLN03212 Transcription repress 57.2 23 0.0005 39.2 6.1 27 1082-1109 79-105 (249)
426 PRK11034 clpA ATP-dependent Cl 56.8 21 0.00045 46.7 6.8 29 303-331 206-234 (758)
427 TIGR00064 ftsY signal recognit 56.6 91 0.002 35.6 11.3 33 307-340 75-107 (272)
428 smart00300 ChSh Chromo Shadow 56.5 8.5 0.00018 33.3 2.2 24 192-215 7-30 (61)
429 PRK06995 flhF flagellar biosyn 56.3 64 0.0014 39.8 10.5 24 307-330 259-282 (484)
430 PF13771 zf-HC5HC2H: PHD-like 56.3 5.3 0.00012 37.1 1.1 31 50-80 35-68 (90)
431 KOG1133 Helicase of the DEAD s 56.3 19 0.00041 45.1 5.9 45 284-328 14-58 (821)
432 PRK10416 signal recognition pa 55.9 1.2E+02 0.0025 35.6 12.2 33 307-340 117-149 (318)
433 COG0541 Ffh Signal recognition 55.8 46 0.00099 40.0 8.7 113 307-462 103-218 (451)
434 PF13639 zf-RING_2: Ring finge 55.5 1.4 3.1E-05 35.1 -2.5 40 52-96 1-44 (44)
435 COG5114 Histone acetyltransfer 55.3 9.9 0.00021 42.7 3.0 37 1073-1111 57-93 (432)
436 cd01128 rho_factor Transcripti 55.2 54 0.0012 36.9 9.0 26 302-327 14-39 (249)
437 PF13832 zf-HC5HC2H_2: PHD-zin 54.9 5.7 0.00012 38.5 1.1 29 51-79 55-86 (110)
438 COG4626 Phage terminase-like p 54.6 71 0.0015 39.6 10.4 59 284-342 60-127 (546)
439 PF00437 T2SE: Type II/IV secr 54.4 19 0.0004 40.8 5.3 37 295-331 118-154 (270)
440 PRK05564 DNA polymerase III su 54.1 67 0.0015 37.3 10.0 25 307-331 29-53 (313)
441 PRK14970 DNA polymerase III su 53.8 1.2E+02 0.0025 36.1 12.2 39 292-330 24-65 (367)
442 PF00265 TK: Thymidine kinase; 53.7 43 0.00094 35.5 7.5 34 308-342 5-38 (176)
443 TIGR03499 FlhF flagellar biosy 53.5 54 0.0012 37.6 8.9 38 304-341 194-232 (282)
444 PF03354 Terminase_1: Phage Te 53.1 1.3E+02 0.0028 37.3 12.8 45 420-466 115-162 (477)
445 PRK14723 flhF flagellar biosyn 53.0 77 0.0017 41.3 10.8 35 306-340 187-222 (767)
446 KOG1807 Helicases [Replication 52.9 32 0.00069 43.6 7.0 90 285-380 378-473 (1025)
447 TIGR01074 rep ATP-dependent DN 52.9 46 0.001 43.0 9.2 65 286-356 2-70 (664)
448 PRK12377 putative replication 52.9 60 0.0013 36.5 8.8 43 304-347 101-143 (248)
449 PRK06921 hypothetical protein; 52.4 39 0.00084 38.4 7.4 38 303-340 116-153 (266)
450 TIGR02782 TrbB_P P-type conjug 52.3 30 0.00064 40.1 6.5 44 284-330 115-158 (299)
451 cd00034 ChSh Chromo Shadow Dom 52.2 6.9 0.00015 33.0 1.0 22 194-215 2-24 (54)
452 PRK08939 primosomal protein Dn 51.9 23 0.0005 41.1 5.6 46 293-339 143-190 (306)
453 PF06068 TIP49: TIP49 C-termin 51.8 22 0.00048 41.9 5.3 40 303-344 49-88 (398)
454 PRK11773 uvrD DNA-dependent he 51.8 24 0.00053 46.0 6.4 52 285-342 9-63 (721)
455 KOG0740 AAA+-type ATPase [Post 51.7 17 0.00038 43.6 4.6 47 304-354 186-232 (428)
456 PF06745 KaiC: KaiC; InterPro 51.6 24 0.00052 38.7 5.5 55 302-356 17-71 (226)
457 TIGR01075 uvrD DNA helicase II 51.6 23 0.0005 46.3 6.1 65 285-355 4-72 (715)
458 PRK14721 flhF flagellar biosyn 50.9 1.2E+02 0.0026 36.9 11.5 55 428-483 269-328 (420)
459 KOG0738 AAA+-type ATPase [Post 50.8 50 0.0011 39.0 7.8 46 305-354 246-291 (491)
460 TIGR00580 mfd transcription-re 50.8 73 0.0016 42.7 10.5 96 606-704 482-582 (926)
461 PRK09376 rho transcription ter 50.2 24 0.00053 42.1 5.4 30 302-331 167-196 (416)
462 TIGR00416 sms DNA repair prote 49.7 41 0.0009 41.3 7.5 52 302-354 92-143 (454)
463 PF01443 Viral_helicase1: Vira 49.1 23 0.00049 38.9 4.8 41 428-471 62-102 (234)
464 TIGR00767 rho transcription te 49.0 75 0.0016 38.2 9.2 31 301-331 165-195 (415)
465 KOG2543 Origin recognition com 48.9 5.4E+02 0.012 30.8 16.1 141 284-468 8-160 (438)
466 PLN03208 E3 ubiquitin-protein 48.7 7.1 0.00015 41.6 0.6 50 51-100 18-79 (193)
467 PRK06646 DNA polymerase III su 48.5 28 0.00061 36.1 5.0 40 605-644 10-49 (154)
468 cd01129 PulE-GspE PulE/GspE Th 48.4 33 0.00071 38.9 6.0 43 286-330 64-106 (264)
469 PHA02929 N1R/p28-like protein; 48.2 6.7 0.00014 43.5 0.4 49 50-102 173-229 (238)
470 CHL00176 ftsH cell division pr 48.0 83 0.0018 40.4 10.0 25 304-328 216-240 (638)
471 TIGR03877 thermo_KaiC_1 KaiC d 48.0 50 0.0011 36.7 7.3 62 292-354 8-70 (237)
472 KOG0780 Signal recognition par 47.6 2.3E+02 0.005 33.8 12.3 73 604-676 109-185 (483)
473 cd00984 DnaB_C DnaB helicase C 47.3 26 0.00057 38.7 5.0 48 297-344 6-53 (242)
474 PRK05728 DNA polymerase III su 47.1 33 0.00072 35.0 5.2 82 606-706 11-96 (142)
475 PF06564 YhjQ: YhjQ protein; 46.7 35 0.00075 38.2 5.7 33 312-345 10-44 (243)
476 PHA00012 I assembly protein 46.4 48 0.001 38.5 6.7 25 308-332 5-29 (361)
477 PRK13894 conjugal transfer ATP 45.9 40 0.00086 39.4 6.3 43 284-329 131-173 (319)
478 PRK08760 replicative DNA helic 45.6 58 0.0013 40.3 8.0 63 293-355 218-280 (476)
479 PF14061 Mtf2_C: Polycomb-like 45.6 11 0.00024 30.7 1.1 22 196-217 27-49 (50)
480 PF02606 LpxK: Tetraacyldisacc 45.0 1.1E+02 0.0023 36.0 9.6 123 314-468 47-190 (326)
481 PRK14712 conjugal transfer nic 45.0 1.2E+02 0.0025 43.0 11.2 59 285-345 835-896 (1623)
482 TIGR03880 KaiC_arch_3 KaiC dom 44.7 60 0.0013 35.5 7.3 52 303-355 15-66 (224)
483 KOG0780 Signal recognition par 44.6 52 0.0011 38.8 6.7 58 307-365 104-161 (483)
484 PF12846 AAA_10: AAA-like doma 44.5 41 0.00089 38.1 6.2 43 304-347 1-43 (304)
485 PRK09087 hypothetical protein; 44.4 1E+02 0.0022 34.1 9.0 36 430-465 89-125 (226)
486 PRK07276 DNA polymerase III su 44.4 1.2E+02 0.0027 34.9 9.8 47 285-332 2-50 (290)
487 PHA00673 acetyltransferase dom 44.2 32 0.0007 35.6 4.6 44 429-472 88-134 (154)
488 COG0467 RAD55 RecA-superfamily 44.1 58 0.0012 36.7 7.2 52 302-354 21-72 (260)
489 cd00162 RING RING-finger (Real 44.0 6.3 0.00014 30.6 -0.5 41 54-97 2-43 (45)
490 PRK08533 flagellar accessory p 43.9 64 0.0014 35.7 7.3 52 302-354 22-73 (230)
491 PF05970 PIF1: PIF1-like helic 43.8 45 0.00097 39.7 6.5 60 285-345 1-62 (364)
492 PRK10263 DNA translocase FtsK; 43.7 76 0.0017 43.3 8.9 40 304-343 1010-1052(1355)
493 PF13481 AAA_25: AAA domain; P 43.5 32 0.0007 36.5 4.8 62 295-356 22-93 (193)
494 TIGR03881 KaiC_arch_4 KaiC dom 43.3 73 0.0016 35.0 7.7 52 301-353 17-68 (229)
495 PRK13766 Hef nuclease; Provisi 43.3 4.6E+02 0.01 34.6 16.4 93 606-705 39-141 (773)
496 PRK13709 conjugal transfer nic 43.1 1.1E+02 0.0024 43.7 10.7 61 284-346 966-1029(1747)
497 PRK10689 transcription-repair 42.8 1.2E+02 0.0026 41.7 10.9 96 606-704 631-731 (1147)
498 TIGR00682 lpxK tetraacyldisacc 42.7 1.2E+02 0.0026 35.4 9.5 59 313-371 39-111 (311)
499 COG1066 Sms Predicted ATP-depe 42.6 96 0.0021 37.2 8.5 50 305-356 94-143 (456)
500 PRK12726 flagellar biosynthesi 42.6 2.8E+02 0.0061 33.3 12.5 46 304-350 206-255 (407)
No 1
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=6.8e-174 Score=1562.11 Aligned_cols=926 Identities=42% Similarity=0.723 Sum_probs=757.7
Q ss_pred ccccccccccccCccCCC----Ccccc--------cchhhhhHHHHhhccCCCcccccccchhhHHHHhhcChhHHHHHH
Q 000883 101 DIDKILDCEMRPTVAGDS----DVSKL--------GSKQIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVN 168 (1238)
Q Consensus 101 ~iekIl~~R~rP~~~~~~----~~~~~--------~~~~~~~~eYlVKWkg~Sy~h~tW~pe~~l~~~~~~~~~~k~kl~ 168 (1238)
.++.++++|.++...+.. ..... ..+.....||||||+|+||+||||+|++.|... ..++-+|++
T Consensus 184 ~ie~v~~~r~~~~~~~~~~~~~~i~d~~~p~~~~~~~~~~e~~qFlIKWkg~SyLHctWet~~~L~~~---~~rG~kKv~ 260 (1373)
T KOG0384|consen 184 TIERVLDHRGKKGATGSAETEYAIPDKGDPSAVFEEKKTEEEEQFLIKWKGWSYLHCTWETESELLEM---NVRGLKKVD 260 (1373)
T ss_pred hhHHHhhhhccccccCCCcccccccccCCccccccccCcchhhhhheeeccccceeccccchHHHHhh---hHHHHHHHH
Confidence 688889888655433310 00000 011134579999999999999999999998643 233446999
Q ss_pred hhhhhcccCCC--CchhhhcCCCCccchhhhhhhccCCCceeEEEeeeccccccccccccCCcCc-cHHHHHHHHhhhhc
Q 000883 169 NFHRQMSSNNN--AEEDFVAIRPEWTTVDRILACRGEDDEKEYLVKYKELSYDECYWEYESDISA-FQPEIERFIKIQSR 245 (1238)
Q Consensus 169 ~f~k~~~~~~~--~~ed~~~~~~~~~~veRIi~~r~~~~~~eyLVKWkgL~Y~~~tWE~~~~~~~-~~~~i~~~~~~~~~ 245 (1238)
||.++...... ..++...+.++|.+|||||++....+ .+|||||+||||++||||...+|.. .+.++++|..+...
T Consensus 261 nf~kK~~e~~~~~r~E~~~~~~~dy~~VdRIia~~~~~d-~eYLvKW~~LpY~e~TWE~~~~I~~~~~~~~~~~~~Re~s 339 (1373)
T KOG0384|consen 261 NFKKKVIEEDRWRRQEREEDLNKDYVIVDRIIAEQTSKD-PEYLVKWRGLPYEECTWEDAEDIAKKAQEEIEEFQSRENS 339 (1373)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcccCCC-ceeEEEecCCCcccccccchhhhhhhHHHHHHHHhhhhcc
Confidence 99988544321 12334568899999999999987655 9999999999999999999998864 57778888875432
Q ss_pred cccccCCccCCCCcccccccCCCcccccccCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHH
Q 000883 246 SHRSSCNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFL 325 (1238)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l 325 (1238)
.. .+.......+.++.|.++..||.|+.|++||+||++|||||.++|+++.+||||||||||||+|+|+||
T Consensus 340 k~---------~p~~~~~~~~~rp~~~Kle~qp~~~~g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl 410 (1373)
T KOG0384|consen 340 KT---------LPNKGCKYRPQRPRFRKLEKQPEYKGGNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFL 410 (1373)
T ss_pred cc---------CCCCccccCccchhHHHhhcCccccccchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHH
Confidence 21 112223344567889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhCC--CCCeEEEeCCccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccc
Q 000883 326 ASLFGER--ISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQD 403 (1238)
Q Consensus 326 ~~l~~~~--~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~ 403 (1238)
.+|+... .||||||||+|++.+|++||..|+ ++++++|+|+..+|+.|++|||++.... .
T Consensus 411 ~~l~~~~~~~gpflvvvplst~~~W~~ef~~w~-~mn~i~y~g~~~sr~~i~~ye~~~~~~~-----------------~ 472 (1373)
T KOG0384|consen 411 SYLFHSLQIHGPFLVVVPLSTITAWEREFETWT-DMNVIVYHGNLESRQLIRQYEFYHSSNT-----------------K 472 (1373)
T ss_pred HHHHHhhhccCCeEEEeehhhhHHHHHHHHHHh-hhceeeeecchhHHHHHHHHHheecCCc-----------------c
Confidence 9998754 589999999999999999999999 9999999999999999999999976641 3
Q ss_pred cccccEEEecHHHHHhhhcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcC
Q 000883 404 RIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDA 483 (1238)
Q Consensus 404 ~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p 483 (1238)
..+|+++||||+++.+|...|..|+|.+++|||||||||..|+++..|..+..+||||+||||+|||+.|||+|||||+|
T Consensus 473 ~lkf~~lltTye~~LkDk~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P 552 (1373)
T KOG0384|consen 473 KLKFNALLTTYEIVLKDKAELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMP 552 (1373)
T ss_pred ccccceeehhhHHHhccHhhhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCC
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCChHHHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcC
Q 000883 484 GKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRG 563 (1238)
Q Consensus 484 ~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~ 563 (1238)
+.|.++++|...| +..++..+..||..|+|+||||+|+||++.|||+.|.|+.|+||+.|+++|++||++|+.+|.++.
T Consensus 553 ~kf~~~~~f~~~~-~~~~e~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~ 631 (1373)
T KOG0384|consen 553 GKFDSWDEFLEEF-DEETEEQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGA 631 (1373)
T ss_pred CCCCcHHHHHHhh-cchhHHHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccC
Confidence 9999999999999 778889999999999999999999999999999999999999999999999999999999999764
Q ss_pred -CcchhHHHHHHHHHHHhCCcccccCCCCCccch------HHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhH
Q 000883 564 -GAQISLINVVMELRKLCCHPYMLEGVEPDIEDT------NESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHM 636 (1238)
Q Consensus 564 -~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~~------~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ 636 (1238)
++..+++|++|+||||||||||+.+++...... ++.++.+|.+||||.+|++||.+|++.||||||||||++|
T Consensus 632 ~g~~~~lLNimmELkKccNHpyLi~gaee~~~~~~~~~~~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRm 711 (1373)
T KOG0384|consen 632 KGSTPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKMRDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRM 711 (1373)
T ss_pred CCCCchHHHHHHHHHHhcCCccccCcHHHHHHHhhhhcchHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHH
Confidence 345799999999999999999999987654332 4688999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHH
Q 000883 637 LDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMA 716 (1238)
Q Consensus 637 ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~g 716 (1238)
||||++||..++|+|.||||++.++.|+++||+||+++|+.|||||||||||+||||++||||||||||||||+|+||++
T Consensus 712 LDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqA 791 (1373)
T KOG0384|consen 712 LDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQA 791 (1373)
T ss_pred HHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcchh-------hccCCHHHHHHHHHhchhhhcccccccC
Q 000883 717 RAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK-------AQNINQEELDDIIRYGSKELFADENDEG 789 (1238)
Q Consensus 717 R~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~~-------~~~~~~~el~~ll~~ga~~lf~~~~~~~ 789 (1238)
|||||||++.|.||||||++||||.|+++|++||.|+++||++|. .+.++++||.+||+|||+++|.++++++
T Consensus 792 RaHRIGQkk~VnVYRLVTk~TvEeEilERAk~KmvLD~aVIQ~m~t~~~~s~~~~f~K~ELsaILKfGA~~lfke~ene~ 871 (1373)
T KOG0384|consen 792 RAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKMVLDHAVIQRMDTKGKTSKSNPFSKEELSAILKFGAYELFKEEENEE 871 (1373)
T ss_pred HHHhhcccceEEEEEEecCCchHHHHHHHHHHHhhhHHHHHHhhccccccCCCCCCCHHHHHHHHHhchHHhhhcccccc
Confidence 999999999999999999999999999999999999999998774 3578999999999999999999977665
Q ss_pred CCcccCCCCHHHHHHHhcCCCCCccccCCCCcchhhhhhhhhhhcccchhhHHHHHHHHHHHHHHhhcccCCCccchhhH
Q 000883 790 GKSRQIHYDDAAIDRLLDRDQVGDEEASLDDEDEDGFLKAFKVANFEYIEEVEAAAEEEAQKLAAENKSSMSNSERSSYW 869 (1238)
Q Consensus 790 ~~~~~~~~~~~~id~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w 869 (1238)
. .+.++|||+||.|.++..++.++ -..++.++++|+||+|...|+.+-+ +. +.-.|
T Consensus 872 s-----~~~e~DIDeIL~rae~~~t~~~~-~~~a~e~ls~fkvad~~~dd~~~~~---------------~~---~didw 927 (1373)
T KOG0384|consen 872 S-----KFCEMDIDEILERAETRITEESD-FMKASELLSQFKVADIKADDPADLE---------------AE---RDIDW 927 (1373)
T ss_pred c-----cccccCHHHHHhhcccccccccc-cchhHHHHhhccccccccCChhhhh---------------hh---ccCCh
Confidence 4 35679999999999987665442 3467889999999999986652210 00 12479
Q ss_pred HHHHHHHHHH-----HHHHHhhhcCCCCCCcc--cccccchhhccccccCCCCCcccccccccCCCCCCCCCCCCCCCCc
Q 000883 870 EELLKDRYEV-----HKVEEFNALGKGKRSRK--QMVSVEEDDLAGLEDVSSEGEDDNYEADLTDGDTTSSGTQPGRKPN 942 (1238)
Q Consensus 870 ~~~~~~~~~~-----~~~~~~~~~~~~~r~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 942 (1238)
+.++++...+ ....+...+...+|.|. +......+. + .+ ++ .++. +. + +. .
T Consensus 928 d~iipe~~r~~~~eeer~ke~ee~~~~~rer~~k~~~~~~~~~--~-~~--~~----~~e~--~~---~-------~~-~ 985 (1373)
T KOG0384|consen 928 DRIIPEEERERIEEEERLKELEELYSEPRERERKKNRLNDSHG--R-AE--SR----SVEK--SL---G-------KK-G 985 (1373)
T ss_pred hhhCCHHHHhcchhhhhHHHHHhhccchhhhhhhccccCcccc--c-cc--cc----cccc--cc---c-------cc-c
Confidence 9998875432 22233444555555443 322211111 0 00 00 0000 00 0 00 1
Q ss_pred ccccccCCCCCCCCccccccchhccCCChHHHHHHHHHHHhcCCCCcchhhhc--hhhcCCCHHHHHHHHHHHHHhhhhc
Q 000883 943 KKRSRVDSMEPPPLMEGEGRSFRVLGFSQNQRAAFVQILMRFGVGDFDWKEFT--PRLKQKSYEEIREYGILFLTHITED 1020 (1238)
Q Consensus 943 ~~~~~~~~~~~~pl~~~e~~~l~~~GF~~~~rr~Fi~a~~kfG~~~~~~~~i~--~el~~Ks~~Evk~Y~~~F~~~~~e~ 1020 (1238)
++|.+.. ++ ..-.+.||+..+.|+|++++++||.+.+..+.|+ +++..++++++++.+.+....|.+.
T Consensus 986 ~~r~r~~------~~----~g~~~~~~~e~eir~~~ra~~kfg~~~~r~d~~~~~a~l~~~s~~~~~~l~~~~~~~c~~a 1055 (1373)
T KOG0384|consen 986 KGRWREI------LK----RGEEKGGFTEKEIRRFYRAYLKFGLPLERLDEIIKDAELVDKSPAELKKLGELLHNACKSA 1055 (1373)
T ss_pred ccccccc------cc----cchhhcCCCHHHHHHHHHHHHHhccHHHHHHHHHhhceeeccCHHHHHHHHHHHHhhhhhh
Confidence 1122211 11 1235679999999999999999999988777777 6788999999999999999999876
Q ss_pred ccCCCc----cc---C----CCcc-------Cc--cchHHHHHHHHHHHHHHHHHHhccCCCCCCCcccccccccC---C
Q 000883 1021 ITDSPT----FS---D----GVPK-------EG--LRIQDVLVRIAVLLLIRDKVKFLSQKPGTPLFTDDIYLRYP---G 1077 (1238)
Q Consensus 1021 ~~d~~~----~~---~----~i~k-------~~--~k~~~vl~ri~~~~ll~~Kv~~~~~~p~~~~~~~~~~~~~~---~ 1077 (1238)
+.+.++ .. . +.++ ++ +....|+.|++.+..|++.|......+. +..+.+. .
T Consensus 1056 ~~~~~~~~kk~~~~~~~~~~~p~~~a~~~~f~gv~~na~~vl~rv~~L~~L~~~i~~~~e~~~------~~~~~~~~~~~ 1129 (1373)
T KOG0384|consen 1056 VSEFGSNYKKTGGAREGKNKKPERKAVDFKFKGVKVNANKVLLRVEELYYLHKEIPGDPEDPN------QFIIDYLPKSV 1129 (1373)
T ss_pred cchhhhccccccccccccccCccchhhheeecceehhHHHHHHHHHHHHHHHHhccCCccccc------ccccCCCCccc
Confidence 543211 11 0 0110 01 2345677788878888777655421221 1111121 1
Q ss_pred CCCCCCcCHHHHHHHHHHHHhhchhhHHHhhcCcccChhHHHH
Q 000883 1078 LRGGKFWKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVIC 1120 (1238)
Q Consensus 1078 ~~~~~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~~l~l~~~~~ 1120 (1238)
..+++.|+.++|..||+|||+||||+|++|++||+|+|.+||.
T Consensus 1130 ~~~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~ 1172 (1373)
T KOG0384|consen 1130 HSWDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIF 1172 (1373)
T ss_pred cCcccCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhc
Confidence 2378999999999999999999999999999999999999995
No 2
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=1.3e-149 Score=1295.97 Aligned_cols=769 Identities=39% Similarity=0.627 Sum_probs=639.3
Q ss_pred cCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh-CC-CCCeEEEeCCccHHHHHHHH
Q 000883 275 EHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG-ER-ISPHLVVAPLSTLRNWEREF 352 (1238)
Q Consensus 275 ~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~-~~-~~p~LIVvP~sll~qW~~E~ 352 (1238)
..+|.++.+++|||||++|+|||+..|.++.|||||||||||||+|+||++.+|+. .+ .|||||+||+||+.||.+||
T Consensus 157 ~~sP~~v~~g~lr~YQveGlnWLi~l~engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~NW~~Ef 236 (971)
T KOG0385|consen 157 EDSPSYVKGGELRDYQLEGLNWLISLYENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDNWMNEF 236 (971)
T ss_pred cCCchhhcCCccchhhhccHHHHHHHHhcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHHHHHHH
Confidence 34899999999999999999999999999999999999999999999999999987 33 57999999999999999999
Q ss_pred HHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEE
Q 000883 353 ATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCM 432 (1238)
Q Consensus 353 ~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~v 432 (1238)
.+|+|++++++|+|++..|..+++.-+ ....|+|+||||+++.++.+.|++++|.++
T Consensus 237 ~rf~P~l~~~~~~Gdk~eR~~~~r~~~-----------------------~~~~fdV~iTsYEi~i~dk~~lk~~~W~yl 293 (971)
T KOG0385|consen 237 KRFTPSLNVVVYHGDKEERAALRRDIM-----------------------LPGRFDVCITSYEIAIKDKSFLKKFNWRYL 293 (971)
T ss_pred HHhCCCcceEEEeCCHHHHHHHHHHhh-----------------------ccCCCceEeehHHHHHhhHHHHhcCCceEE
Confidence 999999999999999999988776432 123899999999999999999999999999
Q ss_pred EecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhc---hhhHHHHHHHH
Q 000883 433 IVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD---INQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~---~~~~~~~~~L~ 509 (1238)
||||||||||.+|++++.++.|.+.+||||||||+|||+.|||+|||||.|+.|.+.+.|..||.. ....+.+.+||
T Consensus 294 vIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh 373 (971)
T KOG0385|consen 294 VIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLH 373 (971)
T ss_pred EechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999964 23456899999
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCC-cchhHHHHHHHHHHHhCCcccccC
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG-AQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~-~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
.+|+||+|||+|.+|++.|||+++.+++|.||.+|+++|++++.+....++..+. ....++|++|+|||||||||||++
T Consensus 374 ~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g 453 (971)
T KOG0385|consen 374 KVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDG 453 (971)
T ss_pred hhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCC
Confidence 9999999999999999999999999999999999999999999999998876554 678999999999999999999999
Q ss_pred CCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHH
Q 000883 589 VEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRID 668 (1238)
Q Consensus 589 ~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~ 668 (1238)
++|..+.... .+++.+||||.+|++||++|+++||||||||||++|||||++||..++|.||||||+|+.++|..+|+
T Consensus 454 ~ePg~pyttd--ehLv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~ 531 (971)
T KOG0385|consen 454 AEPGPPYTTD--EHLVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIE 531 (971)
T ss_pred CCCCCCCCcc--hHHHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHH
Confidence 9987655544 89999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHH
Q 000883 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1238)
Q Consensus 669 ~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~ 748 (1238)
.||++++..|||||||||||+||||++|||||+||+|||||.|+||++|||||||+++|.||||||++||||+|+++|..
T Consensus 532 ~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~ 611 (971)
T KOG0385|consen 532 AFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAA 611 (971)
T ss_pred hcCCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcch-----hhccCCHHHHHHHHHhchhhhcccccccCCCcccCCCCHHHHHHHhcCCCCCccccCCCC--c
Q 000883 749 KMVLEHLVVGRL-----KAQNINQEELDDIIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQVGDEEASLDD--E 821 (1238)
Q Consensus 749 K~~l~~~vig~~-----~~~~~~~~el~~ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~~~~~~~~~~~--~ 821 (1238)
|+.|+++||+.. .....+++++..|+++|+..+|...+.+ .++ |||.||.|++..+.+.+... .
T Consensus 612 KL~Ld~~VIq~g~l~~~~~~~~~k~~~l~~~r~g~~~~f~~~es~--------~~d-Did~il~~~e~kt~e~~~~~~~~ 682 (971)
T KOG0385|consen 612 KLRLDKLVIQQGRLEEQKSNGLGKDELLNLLRFGADPVFESKEST--------ISD-DIDRILERGEEKTAELNAKEAKL 682 (971)
T ss_pred HhchhhhhhccCchhhhhccccchHHHHHHHHcCchhhhhhcccc--------cch-hHHHHHHhhhhhccCcchHHHhh
Confidence 999999999543 2345789999999999999999876543 234 99999999997776643210 1
Q ss_pred chhhhhhhh---hhhcccchhhHHHHHHHHHHHHHHhhcccCCCccchhhHHHHHHHHHHHHHHHHhhhcCCCCCCcccc
Q 000883 822 DEDGFLKAF---KVANFEYIEEVEAAAEEEAQKLAAENKSSMSNSERSSYWEELLKDRYEVHKVEEFNALGKGKRSRKQM 898 (1238)
Q Consensus 822 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~r~~~~~ 898 (1238)
+.++ +..| .+.+|+..+- .+. . . .. .|-+..+..-......-...+..|-|..|++
T Consensus 683 ~~~~-~~~~~~~~~y~~eG~d~----~ek--~---~----------~~-~wiep~krerk~~d~y~r~~l~~g~~~P~~~ 741 (971)
T KOG0385|consen 683 GESD-LRNFGMISVYNFEGEDY----KEK--Q---S----------LF-KWIEPPKRERKANDAYFREALRVGEPPPKQP 741 (971)
T ss_pred Ccch-hhhcCcceeeccCCcch----hhh--h---h----------hh-hhcCCchhhhhhhhhHHHHHHhcCCCCCCCc
Confidence 1111 1122 2233322110 000 0 0 00 0322111100000011122333444444444
Q ss_pred cccchhhc-cccccCCCCCcccccccccCCCCCCCCCCCCCCCCcccccccCCCCCCCCcccc---ccchhccCCChHHH
Q 000883 899 VSVEEDDL-AGLEDVSSEGEDDNYEADLTDGDTTSSGTQPGRKPNKKRSRVDSMEPPPLMEGE---GRSFRVLGFSQNQR 974 (1238)
Q Consensus 899 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~e---~~~l~~~GF~~~~r 974 (1238)
......-+ ..+.+.. +.+-..|. ++..+...+...||+.+| ++.++.+||++|++
T Consensus 742 ~~~d~qf~p~~L~el~-~kei~~~~--------------------k~~e~~kin~~~~lt~ee~~~k~~ll~~gft~w~k 800 (971)
T KOG0385|consen 742 EVQDFQFFPKRLFELL-EKEIEYYR--------------------KTIEQKKINNAEPLTQEEEEEKEELLSQGFTNWTK 800 (971)
T ss_pred cccccccCcHHHHHHH-HHHHHHHH--------------------HHHHHHhccCCCCCCcHHHhhhhhhhhccccchhh
Confidence 42110000 0011000 00000010 011111233456888765 67999999999999
Q ss_pred HH---HHHHHHhcCCCCcchhhhchhhcCCCHHHHHHHHHHHHHhhhhcccCCCcccCCCccCccchHHHHHHHHHHHHH
Q 000883 975 AA---FVQILMRFGVGDFDWKEFTPRLKQKSYEEIREYGILFLTHITEDITDSPTFSDGVPKEGLRIQDVLVRIAVLLLI 1051 (1238)
Q Consensus 975 r~---Fi~a~~kfG~~~~~~~~i~~el~~Ks~~Evk~Y~~~F~~~~~e~~~d~~~~~~~i~k~~~k~~~vl~ri~~~~ll 1051 (1238)
|+ |++++.|||+++. +.||+++.+ +++||.+|+++||++|.| ++|+++++..|++|+.+++.. .-++.+|
T Consensus 801 ~df~~fi~a~eKygr~di--~~ia~~~e~-~~eev~~y~rvfwer~~e-l~d~ek~~~~ie~~e~~i~r~---~~~~~~l 873 (971)
T KOG0385|consen 801 RDFNQFIKANEKYGRDDI--ENIAAEVEG-TPEEVGEYARVFWERLEE-LSDIEKIIYQIERGEKRIQRG---DSIKKAL 873 (971)
T ss_pred hhHHHHHHHhhccCcchh--hhhHHhhcC-CHHHHHHHHHHHHHHHHH-hhhhHHHHHHHhhhHhhhhHH---HHHHHHH
Confidence 96 5677889999886 689999998 999999999999999996 999999999999999888743 4467899
Q ss_pred HHHHHhccCCCCCCCcccccccccCCCCCCCCcCHHHHHHHHHHHHhhchhh---HHHhhcCc--------ccChhHHHH
Q 000883 1052 RDKVKFLSQKPGTPLFTDDIYLRYPGLRGGKFWKEEHDSLLLRAVLKHGYGR---WQAIVDDK--------DLKVQEVIC 1120 (1238)
Q Consensus 1052 ~~Kv~~~~~~p~~~~~~~~~~~~~~~~~~~~~w~~eeD~~LL~gi~~~Gyg~---we~Ik~D~--------~l~l~~~~~ 1120 (1238)
..|+.+|. +| +++.+.|+.+ +++.|++++|+||+||+||+||++ |+.+++.. +|++.+|++
T Consensus 874 d~k~~~~k-~p------~~l~i~~~~n-k~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt~ 945 (971)
T KOG0385|consen 874 DDKIARYK-AP------HQLRIQYGTN-KGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRTA 945 (971)
T ss_pred hhhHhhhc-Cc------hheeeeeccc-cCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhhH
Confidence 99999996 45 4578899765 889999999999999999999998 88877665 999999999
Q ss_pred HhhCCCCccCCCCC
Q 000883 1121 QELNLPFINLPVPG 1134 (1238)
Q Consensus 1121 ~e~~~~~~~~~~~~ 1134 (1238)
+|++++|.++++.-
T Consensus 946 ~el~Rr~ntli~~i 959 (971)
T KOG0385|consen 946 MELQRRCNTLITLI 959 (971)
T ss_pred HHHHhcCCeeEEee
Confidence 99999999999863
No 3
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=4.5e-128 Score=1215.30 Aligned_cols=765 Identities=38% Similarity=0.625 Sum_probs=633.4
Q ss_pred ccccCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--CCCCeEEEeCCccHHHHH
Q 000883 272 QQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--RISPHLVVAPLSTLRNWE 349 (1238)
Q Consensus 272 ~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--~~~p~LIVvP~sll~qW~ 349 (1238)
..+..+|.++. ++|||||++||+||+.++.++.+||||||||||||+|+|+++.++... ..+|+|||||++++.||.
T Consensus 157 ~~l~~qP~~i~-~~Lr~YQleGlnWLi~l~~~g~gGILADEMGLGKTlQaIalL~~L~~~~~~~gp~LIVvP~SlL~nW~ 235 (1033)
T PLN03142 157 TRLLVQPSCIK-GKMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYRGITGPHMVVAPKSTLGNWM 235 (1033)
T ss_pred ceeccCChHhc-cchHHHHHHHHHHHHHHHhcCCCEEEEeCCCccHHHHHHHHHHHHHHhcCCCCCEEEEeChHHHHHHH
Confidence 45677899988 799999999999999999999999999999999999999999998753 346999999999999999
Q ss_pred HHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCce
Q 000883 350 REFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1238)
Q Consensus 350 ~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w 429 (1238)
+||.+|+|.+++++|+|+...|..+....+ ...+|+|+||||+++.++...|..+.|
T Consensus 236 ~Ei~kw~p~l~v~~~~G~~~eR~~~~~~~~-----------------------~~~~~dVvITSYe~l~~e~~~L~k~~W 292 (1033)
T PLN03142 236 NEIRRFCPVLRAVKFHGNPEERAHQREELL-----------------------VAGKFDVCVTSFEMAIKEKTALKRFSW 292 (1033)
T ss_pred HHHHHHCCCCceEEEeCCHHHHHHHHHHHh-----------------------cccCCCcceecHHHHHHHHHHhccCCC
Confidence 999999999999999999988876654322 124689999999999999999999999
Q ss_pred eEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhch---hhHHHHH
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI---NQEEQIS 506 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~---~~~~~~~ 506 (1238)
++|||||||+|||..|+++++++.+.+.+||+|||||+||++.|||+||+||.|+.|++...|..+|... .....+.
T Consensus 293 ~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~ 372 (1033)
T PLN03142 293 RYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQ 372 (1033)
T ss_pred CEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999642 3356788
Q ss_pred HHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccc
Q 000883 507 RLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML 586 (1238)
Q Consensus 507 ~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~ 586 (1238)
.|+.+|+|+++||+|++|...|||+.+.+++|.||+.|+++|+.++.+....+... +....+++++|+||+||+||||+
T Consensus 373 ~L~~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~~g-~~~~~LlnilmqLRk~cnHP~L~ 451 (1033)
T PLN03142 373 QLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAG-GERKRLLNIAMQLRKCCNHPYLF 451 (1033)
T ss_pred HHHHHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhCCHHhh
Confidence 99999999999999999999999999999999999999999999999888777643 45567899999999999999999
Q ss_pred cCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 587 EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 587 ~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
.+.++...... ...++..|+|+.+|+++|..+...|+||||||||+.++++|+++|..+|++|++|+|+++..+|+.+
T Consensus 452 ~~~ep~~~~~~--~e~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~ 529 (1033)
T PLN03142 452 QGAEPGPPYTT--GEHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDAS 529 (1033)
T ss_pred hcccccCcccc--hhHHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHH
Confidence 88776544322 3578899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHH
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMT 746 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~ 746 (1238)
|++||++++..++||+||+|||+||||++||+||+||+||||+.++||+||||||||+++|.||||++++||||+|++++
T Consensus 530 Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera 609 (1033)
T PLN03142 530 IDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERA 609 (1033)
T ss_pred HHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHH
Confidence 99999998889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcch---hhccCCHHHHHHHHHhchhhhcccccccCCCcccCCCCHHHHHHHhcCCCCCccccCCC--Cc
Q 000883 747 KKKMVLEHLVVGRL---KAQNINQEELDDIIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQVGDEEASLD--DE 821 (1238)
Q Consensus 747 ~~K~~l~~~vig~~---~~~~~~~~el~~ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~~~~~~~~~~--~~ 821 (1238)
.+|+.|+..|++.. ....+++++|.+|+++||+.+|+..+ ..++|+|||.||+|++..+.+.... ..
T Consensus 610 ~~Kl~Ld~~Vi~~g~~~~~~~~~~~eL~~ll~~ga~~~f~~~~--------~~~~~~did~il~~~~~~~~~~~~~~~~~ 681 (1033)
T PLN03142 610 YKKLALDALVIQQGRLAEQKTVNKDELLQMVRYGAEMVFSSKD--------STITDEDIDRIIAKGEEATAELDAKMKKF 681 (1033)
T ss_pred HHHHHHHHHHHhcCcccccccCCHHHHHHHHHhChHHhhhccC--------CCCCHHHHHHHHHhcHHHHHHHHHHHHHh
Confidence 99999999999543 23568899999999999999996433 1358999999999998776553210 01
Q ss_pred chhhhhhhhhhh----cccchhhHHHHHHHHHHHHHHhhcccCCCccchhhHHHHHHHHHHHHHHHHhhhcCCCCCCccc
Q 000883 822 DEDGFLKAFKVA----NFEYIEEVEAAAEEEAQKLAAENKSSMSNSERSSYWEELLKDRYEVHKVEEFNALGKGKRSRKQ 897 (1238)
Q Consensus 822 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~r~~~~ 897 (1238)
..+. + .|++. -|++..+......+ -.|.++ ....++.++||.||.
T Consensus 682 ~~~~-~-~f~~~~~~~~~~~~g~~~~~~~~-------------------~~~~~~----------~~~~~~~~~~re~~~ 730 (1033)
T PLN03142 682 TEDA-I-KFKMDDTAELYDFDDEDDKDENK-------------------LDFKKI----------VSDNWIDPPKRERKR 730 (1033)
T ss_pred chhh-h-cccccCCcceeeecCccccchhh-------------------hhHhhh----------ccccccccchhhhhc
Confidence 1111 1 23322 12222111000000 000000 011233344455543
Q ss_pred ccccchhhccccccCCCCCcccccccccCCCCCCCCCCCCCCCCc-----------------------------------
Q 000883 898 MVSVEEDDLAGLEDVSSEGEDDNYEADLTDGDTTSSGTQPGRKPN----------------------------------- 942 (1238)
Q Consensus 898 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------------- 942 (1238)
.+.. |.+|.+.+..+. +..+..+|.|+
T Consensus 731 ~~~~----------------~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~q~~~~~~l~~l~~~e~~~~~~~~~~~~~ 792 (1033)
T PLN03142 731 NYSE----------------SEYFKQAMRQGA--PAKPKEPRIPRMPQLHDFQFFNVQRLTELYEKEVRYLMQAHQKGQL 792 (1033)
T ss_pred ccch----------------hHHHHHHHhcCC--cccCCCCCCCCCCCCccccCCCHHHHHHHHHHHHHHHhccccCCch
Confidence 2211 111111111100 00000000000
Q ss_pred --ccccccCCCCCCCCcccc---ccchhccCCChHHHHH---HHHHHHhcCCCCcchhhhchhhcCCCHHHHHHHHHHHH
Q 000883 943 --KKRSRVDSMEPPPLMEGE---GRSFRVLGFSQNQRAA---FVQILMRFGVGDFDWKEFTPRLKQKSYEEIREYGILFL 1014 (1238)
Q Consensus 943 --~~~~~~~~~~~~pl~~~e---~~~l~~~GF~~~~rr~---Fi~a~~kfG~~~~~~~~i~~el~~Ks~~Evk~Y~~~F~ 1014 (1238)
........++..|||++| +++|+.+||++|+||+ ||++|.|||+.++ ..||.++.+||++||++|+++||
T Consensus 793 ~~~~~~~~~~~~~~~lt~~e~~~k~~l~~~gf~~w~~~~f~~f~~~~~~~gr~~~--~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 793 KDTIDVAEPEEPGDPLTAEEQEEKEQLLEEGFSTWSRRDFNAFIRACEKYGRNDI--KSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred hhhhhhccccccCCCCCHHHHHHHHHHHhcCcCcccHHHHHHHHHHHHHhCHhHH--HHHHHHhcCCCHHHHHHHHHHHH
Confidence 000112334567899987 5899999999999995 6888999998776 68999999999999999999999
Q ss_pred HhhhhcccCCCcccCCCccCccchHHHHHHHHHHHHHHHHHHhccCCCCCCCcccccccccCCCCCCCCcCHHHHHHHHH
Q 000883 1015 THITEDITDSPTFSDGVPKEGLRIQDVLVRIAVLLLIRDKVKFLSQKPGTPLFTDDIYLRYPGLRGGKFWKEEHDSLLLR 1094 (1238)
Q Consensus 1015 ~~~~e~~~d~~~~~~~i~k~~~k~~~vl~ri~~~~ll~~Kv~~~~~~p~~~~~~~~~~~~~~~~~~~~~w~~eeD~~LL~ 1094 (1238)
+||.| ++||++++..|++|+.|++.. ...+.+|+.||..|. +| + .++.++|+ .++++.|++++||||||
T Consensus 871 ~~~~~-~~~~~~~~~~ie~~e~~~~~~---~~~~~~~~~k~~~~~-~p---~--~~l~~~~~-~~~~~~~~~~~d~~~~~ 939 (1033)
T PLN03142 871 ERYKE-LNDYDRIIKNIERGEARISRK---DEIMKAIGKKLDRYK-NP---W--LELKIQYG-QNKGKLYNEECDRFMLC 939 (1033)
T ss_pred Hhhhh-hccHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHcc-Cc---H--HHceeecC-CCCCCcCCHHHHHHHHH
Confidence 99996 999999999999999888633 457899999999997 66 5 56788996 56789999999999999
Q ss_pred HHHhhchhhHHHhhcCc--------ccChhHHHHHhhCCCCccCCCC
Q 000883 1095 AVLKHGYGRWQAIVDDK--------DLKVQEVICQELNLPFINLPVP 1133 (1238)
Q Consensus 1095 gi~~~Gyg~we~Ik~D~--------~l~l~~~~~~e~~~~~~~~~~~ 1133 (1238)
++|+||||+|+.|+.++ ||++++++.+|+++||.+|+..
T Consensus 940 ~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~~ 986 (1033)
T PLN03142 940 MVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIRL 986 (1033)
T ss_pred HHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHHH
Confidence 99999999999987776 9999999999999999999875
No 4
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=8.8e-97 Score=877.71 Aligned_cols=506 Identities=44% Similarity=0.725 Sum_probs=447.0
Q ss_pred ccccCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--CCCCeEEEeCCccHHHHH
Q 000883 272 QQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--RISPHLVVAPLSTLRNWE 349 (1238)
Q Consensus 272 ~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--~~~p~LIVvP~sll~qW~ 349 (1238)
..+..||..+.||+|++||+.||.||..++.++-|||||||||||||+|+|+++.||++. ..||+|||||+++|.||.
T Consensus 381 E~v~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~~GP~LvivPlstL~NW~ 460 (1157)
T KOG0386|consen 381 ENVAKQPSSLQGGELKEYQLHGLQWMVSLYNNNLNGILADEMGLGKTIQTISLITYLMEHKQMQGPFLIIVPLSTLVNWS 460 (1157)
T ss_pred hccccCcchhcCCCCchhhhhhhHHHhhccCCCcccccchhcccchHHHHHHHHHHHHHHcccCCCeEEeccccccCCch
Confidence 457889999999999999999999999999999999999999999999999999999875 357999999999999999
Q ss_pred HHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCce
Q 000883 350 REFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1238)
Q Consensus 350 ~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w 429 (1238)
.||.+|+|.+..+.|.|++..|..+..- ....+|+|++|||+.+.++...|.+|.|
T Consensus 461 ~Ef~kWaPSv~~i~YkGtp~~R~~l~~q------------------------ir~gKFnVLlTtyEyiikdk~lLsKI~W 516 (1157)
T KOG0386|consen 461 SEFPKWAPSVQKIQYKGTPQQRSGLTKQ------------------------QRHGKFNVLLTTYEYIIKDKALLSKISW 516 (1157)
T ss_pred hhccccccceeeeeeeCCHHHHhhHHHH------------------------HhcccceeeeeeHHHhcCCHHHHhccCC
Confidence 9999999999999999999999865432 1226999999999999999999999999
Q ss_pred eEEEecccccccCcccHHHHHHH-hcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh--------
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLK-QYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN-------- 500 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~-~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~-------- 500 (1238)
.++||||+||+||..+++...+. .+.+.+||||||||+||++.|||+||||+.|.+|.+...|.+||...-
T Consensus 517 ~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~e 596 (1157)
T KOG0386|consen 517 KYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVE 596 (1157)
T ss_pred cceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCccc
Confidence 99999999999999999999999 678999999999999999999999999999999999999999995321
Q ss_pred --hH---HHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHH--hcCCcchhHHHHH
Q 000883 501 --QE---EQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILT--RRGGAQISLINVV 573 (1238)
Q Consensus 501 --~~---~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~--~~~~~~~~l~~i~ 573 (1238)
.+ -.+.+||++|+||+|||.|++|+..||.|++.++.|.||..|+.+|+.+.....-... ++.+...++.|.+
T Consensus 597 LteEEtlLIIrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g~~g~k~L~N~i 676 (1157)
T KOG0386|consen 597 LTEEETLLIIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKGKKGYKPLFNTI 676 (1157)
T ss_pred ccchHHHHHHHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhccccchhhhhHh
Confidence 11 2578999999999999999999999999999999999999999999988654322211 2445556899999
Q ss_pred HHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEE
Q 000883 574 MELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYER 653 (1238)
Q Consensus 574 ~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~r 653 (1238)
|+|||||||||++..++......... ..++..|||+.+|+++|++|++.|||||.|+||++++++|++||..+++.|.|
T Consensus 677 mqLRKiCNHP~lf~~ve~~~~~~~~~-~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~~~~kYlR 755 (1157)
T KOG0386|consen 677 MQLRKLCNHPYLFANVENSYTLHYDI-KDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQIREYKYLR 755 (1157)
T ss_pred HHHHHhcCCchhhhhhccccccccCh-hHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhhhhhheee
Confidence 99999999999998876654433322 68999999999999999999999999999999999999999999999999999
Q ss_pred EeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEe
Q 000883 654 IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLI 733 (1238)
Q Consensus 654 idG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLv 733 (1238)
+||+|..++|-..++.||.|+++.|+||+||+|||+|+||++||||||||+||||+.|+||.+|||||||++.|.|+||+
T Consensus 756 LDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~ 835 (1157)
T KOG0386|consen 756 LDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLI 835 (1157)
T ss_pred ecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHHHHHhc--chhhccCCHHHHHHHHHhchhhhcccccccCCCcccCCCCHHHHHHHhcCCC
Q 000883 734 TRGSIEERMMQMTKKKMVLEHLVVG--RLKAQNINQEELDDIIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQ 810 (1238)
Q Consensus 734 t~~TvEE~I~~~~~~K~~l~~~vig--~~~~~~~~~~el~~ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~ 810 (1238)
+.++|||+|+..+..|+..+..|+. ..+. .-+.++=..+|+ .+...++++.+ .-.-+++.|..+|.|++
T Consensus 836 tv~sveE~il~~a~~Kl~~d~kviqag~fdn-~st~~eR~~~Le----~~l~~~~~~~~---~~v~~~~~ln~~larse 906 (1157)
T KOG0386|consen 836 TVNSVEEKILAEAFYKLDVDGKVIQAGKFDN-KSTAEEREMFLE----QLLEMEGDEEE---EEVPDDEVLNSMLARSE 906 (1157)
T ss_pred hhhHHHHHHHHHHHHhcCchHhhhhcccccC-CCcHHHHHHHHH----HHHhCCCcccc---ccCCcHHHHHHHHhcch
Confidence 9999999999999999999999994 3332 333344344432 23333332222 12346788999999874
No 5
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=3.7e-94 Score=837.98 Aligned_cols=463 Identities=44% Similarity=0.671 Sum_probs=405.7
Q ss_pred ccCCCCCC-CCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCCccHHHHHHH
Q 000883 274 YEHSPEFL-SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 274 ~~~~P~~~-~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E 351 (1238)
+..||..+ .+.+|+|||+-|||||.-.+.++-+||||||||||||+|+|||+++|+..+ .||+|||||.||+.||.+|
T Consensus 387 ~~~qp~~l~s~i~LkdYQlvGvNWL~Llyk~~l~gILADEMGLGKTiQvIaFlayLkq~g~~gpHLVVvPsSTleNWlrE 466 (941)
T KOG0389|consen 387 ITEQPKLLSSGIQLKDYQLVGVNWLLLLYKKKLNGILADEMGLGKTIQVIAFLAYLKQIGNPGPHLVVVPSSTLENWLRE 466 (941)
T ss_pred cccCccccCCCCcccchhhhhHHHHHHHHHccccceehhhccCcchhHHHHHHHHHHHcCCCCCcEEEecchhHHHHHHH
Confidence 34577766 467999999999999999999999999999999999999999999999865 5799999999999999999
Q ss_pred HHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh---hhcccCCCc
Q 000883 352 FATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL---DSASLKPIK 428 (1238)
Q Consensus 352 ~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~---d~~~l~~i~ 428 (1238)
|.+|+|.+.|..|+|+..+|..++..-- ....+|||+||||..+.. |..+|+..+
T Consensus 467 f~kwCPsl~Ve~YyGSq~ER~~lR~~i~----------------------~~~~~ydVllTTY~la~~~kdDRsflk~~~ 524 (941)
T KOG0389|consen 467 FAKWCPSLKVEPYYGSQDERRELRERIK----------------------KNKDDYDVLLTTYNLAASSKDDRSFLKNQK 524 (941)
T ss_pred HHHhCCceEEEeccCcHHHHHHHHHHHh----------------------ccCCCccEEEEEeecccCChHHHHHHHhcc
Confidence 9999999999999999999998876411 123489999999999954 678999999
Q ss_pred eeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCC-hHHHHHHHhchh-------
Q 000883 429 WQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGS-LEEFQEEFKDIN------- 500 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~-~~~F~~~~~~~~------- 500 (1238)
|+++|.||+|.|||..|.+++.|..+++++||||||||+|||+.||++||.|+.|..|.+ .+++...|....
T Consensus 525 ~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e 604 (941)
T KOG0389|consen 525 FNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIE 604 (941)
T ss_pred ccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhh
Confidence 999999999999999999999999999999999999999999999999999999999964 456666664322
Q ss_pred ----hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCc--chhHHHHHH
Q 000883 501 ----QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGA--QISLINVVM 574 (1238)
Q Consensus 501 ----~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~--~~~l~~i~~ 574 (1238)
.++.+.+...+++||+|||.|++|+++||||..++.+|+|+..|+++|..+++.....+.....+ ..+ .+++|
T Consensus 605 ~~~l~qerIsrAK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~~-~~vlm 683 (941)
T KOG0389|consen 605 NALLSQERISRAKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELKS-GNVLM 683 (941)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhcccccccccccc-chHHH
Confidence 24578899999999999999999999999999999999999999999999987653333222222 112 57999
Q ss_pred HHHHHhCCcccccCCCCC---------------ccchH-----H--------HHH----------------HHHhhhhHH
Q 000883 575 ELRKLCCHPYMLEGVEPD---------------IEDTN-----E--------SFK----------------QLLESSGKL 610 (1238)
Q Consensus 575 ~Lrk~c~hP~L~~~~e~~---------------~~~~~-----~--------~~~----------------~li~~S~Kl 610 (1238)
+|||+++||-|+...-.+ ....+ + .+. .++-.|||.
T Consensus 684 qlRK~AnHPLL~R~~Y~de~L~~mak~il~e~ay~~~n~qyIfEDm~~msDfelHqLc~~f~~~~~f~L~d~~~mdSgK~ 763 (941)
T KOG0389|consen 684 QLRKAANHPLLFRSIYTDEKLRKMAKRILNEPAYKKANEQYIFEDMEVMSDFELHQLCCQFRHLSKFQLKDDLWMDSGKC 763 (941)
T ss_pred HHHHHhcChhHHHHhccHHHHHHHHHHHhCchhhhhcCHHHHHHHHHhhhHHHHHHHHHhcCCCcccccCCchhhhhhhH
Confidence 999999999887432111 00000 0 000 123469999
Q ss_pred HHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccc
Q 000883 611 QLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLG 690 (1238)
Q Consensus 611 ~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~G 690 (1238)
..|.+||++++..|+||||||||+.|||||+-+|...++.|+|+||+|....||.+|+.||.+ .+.|||||||+|||.|
T Consensus 764 r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d-~difVFLLSTKAGG~G 842 (941)
T KOG0389|consen 764 RKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTD-KDIFVFLLSTKAGGFG 842 (941)
T ss_pred hHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccC-CceEEEEEeeccCcce
Confidence 999999999999999999999999999999999999999999999999999999999999985 4678999999999999
Q ss_pred cCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcch
Q 000883 691 INLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL 760 (1238)
Q Consensus 691 INL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~ 760 (1238)
|||++||+|||+|.++||.+|.||.+||||+||+|+|+|||||+++||||.|+++|++|+.|+..+.+..
T Consensus 843 INLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~ 912 (941)
T KOG0389|consen 843 INLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADLTEDG 912 (941)
T ss_pred ecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhhccCc
Confidence 9999999999999999999999999999999999999999999999999999999999999999997554
No 6
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=7.5e-93 Score=839.73 Aligned_cols=472 Identities=40% Similarity=0.719 Sum_probs=419.6
Q ss_pred CCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--CCCCeEEEeCCccHHHHHHHHHHHcCC
Q 000883 281 LSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--RISPHLVVAPLSTLRNWEREFATWAPQ 358 (1238)
Q Consensus 281 ~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--~~~p~LIVvP~sll~qW~~E~~~~~p~ 358 (1238)
+-.|.||.||..|++||..+|.++-|||||||||||||||+|+++++|..+ +.||+|||||.+++.||.-||++|+|.
T Consensus 611 LLrGqLReYQkiGLdWLatLYeknlNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviLnWEMElKRwcPg 690 (1958)
T KOG0391|consen 611 LLRGQLREYQKIGLDWLATLYEKNLNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVILNWEMELKRWCPG 690 (1958)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHhcccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhhhhhHHHhhhCCc
Confidence 334899999999999999999999999999999999999999999999764 468999999999999999999999999
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
++++.|+|+...|+.-++ +|. ....|||+||||..+..+...|+...|.|+|+||||
T Consensus 691 lKILTYyGs~kErkeKRq-gW~----------------------kPnaFHVCItSYklv~qd~~AFkrkrWqyLvLDEaq 747 (1958)
T KOG0391|consen 691 LKILTYYGSHKERKEKRQ-GWA----------------------KPNAFHVCITSYKLVFQDLTAFKRKRWQYLVLDEAQ 747 (1958)
T ss_pred ceEeeecCCHHHHHHHhh-ccc----------------------CCCeeEEeehhhHHHHhHHHHHHhhccceeehhhhh
Confidence 999999999999875443 121 235799999999999999999999999999999999
Q ss_pred cccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh----------hHHHHHHH
Q 000883 439 RLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN----------QEEQISRL 508 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~----------~~~~~~~L 508 (1238)
+|||..|+.+++|..+++..||||||||+||++.|||+|++||+|..|.+...|..||.+.. ....+.+|
T Consensus 748 nIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmiEgsqeyn~klV~RL 827 (1958)
T KOG0391|consen 748 NIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMIEGSQEYNHKLVIRL 827 (1958)
T ss_pred hhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhcccchhhchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999997532 24678999
Q ss_pred HHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccC
Q 000883 509 HRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 509 ~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
|++|+||+|||+|.||+++||.|.|++|+|.||..|+.+|+.++.+.-..-.-..|+-.+.+|++|+||||||||-||+.
T Consensus 828 HkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKetLkSGhfmsVlnilmqLrKvCNHPnLfEp 907 (1958)
T KOG0391|consen 828 HKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKETLKSGHFMSVLNILMQLRKVCNHPNLFEP 907 (1958)
T ss_pred HHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhhHhhcCchhHHHHHHHHHHHHcCCCCcCCC
Confidence 99999999999999999999999999999999999999999998876555455677888999999999999999976521
Q ss_pred CC-----------------------------C---------------Cc-------------------------------
Q 000883 589 VE-----------------------------P---------------DI------------------------------- 593 (1238)
Q Consensus 589 ~e-----------------------------~---------------~~------------------------------- 593 (1238)
-- + ..
T Consensus 908 Rpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~ 987 (1958)
T KOG0391|consen 908 RPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSASPLASALPQLSLRGRPPIPTFA 987 (1958)
T ss_pred CCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhcccccccccccccCCCCCCCcccc
Confidence 00 0 00
Q ss_pred ----------------cc--------------------------------hH----------------------------
Q 000883 594 ----------------ED--------------------------------TN---------------------------- 597 (1238)
Q Consensus 594 ----------------~~--------------------------------~~---------------------------- 597 (1238)
.. .+
T Consensus 988 g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t 1067 (1958)
T KOG0391|consen 988 GAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPT 1067 (1958)
T ss_pred ccccccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeeeeecccCccccccceeeeccccc
Confidence 00 00
Q ss_pred ---------------------------------------------------------------------HHHH-------
Q 000883 598 ---------------------------------------------------------------------ESFK------- 601 (1238)
Q Consensus 598 ---------------------------------------------------------------------~~~~------- 601 (1238)
+.+.
T Consensus 1068 ~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~A 1147 (1958)
T KOG0391|consen 1068 QPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNA 1147 (1958)
T ss_pred cccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCccccccchhhHHHHHHHHHHHHHhhccC
Confidence 0000
Q ss_pred -----------------------------------------HHH------------------------------------
Q 000883 602 -----------------------------------------QLL------------------------------------ 604 (1238)
Q Consensus 602 -----------------------------------------~li------------------------------------ 604 (1238)
.+|
T Consensus 1148 Pvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~ppslra~~ppp~~~~r~r~~~~q 1227 (1958)
T KOG0391|consen 1148 PVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQ 1227 (1958)
T ss_pred cccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCChhhcCCCCCcccchHHHHHHHH
Confidence 000
Q ss_pred -----------------------------hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEe
Q 000883 605 -----------------------------ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERID 655 (1238)
Q Consensus 605 -----------------------------~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~rid 655 (1238)
..+||++.|.-||+.|+..|||||||+||+.|||+|+.||.++||.|.|||
T Consensus 1228 lrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLD 1307 (1958)
T KOG0391|consen 1228 LRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLD 1307 (1958)
T ss_pred HHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEec
Confidence 038899999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 656 GKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 656 G~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
|+++.++||.++.+||+ +...|||+|||++||+||||+.||||||||+||||..|.||++|||||||++.|+|||||++
T Consensus 1308 g~t~vEqRQaLmerFNa-D~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe 1386 (1958)
T KOG0391|consen 1308 GNTSVEQRQALMERFNA-DRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISE 1386 (1958)
T ss_pred CCccHHHHHHHHHHhcC-CCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccceEEEEeecc
Confidence 99999999999999998 56789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhcch--hhccCCHHHHHHHHHh
Q 000883 736 GSIEERMMQMTKKKMVLEHLVVGRL--KAQNINQEELDDIIRY 776 (1238)
Q Consensus 736 ~TvEE~I~~~~~~K~~l~~~vig~~--~~~~~~~~el~~ll~~ 776 (1238)
.||||.|+..+.+|..|+++++.+. ...-+.+.++.+||..
T Consensus 1387 ~TIEeniLkkanqKr~L~evaiqggdfTt~ff~q~ti~dLFd~ 1429 (1958)
T KOG0391|consen 1387 RTIEENILKKANQKRMLDEVAIQGGDFTTAFFKQRTIRDLFDV 1429 (1958)
T ss_pred chHHHHHHhhhhHHHHHHHHhhccCCccHHHHhhhhHHHHhcC
Confidence 9999999999999999999999443 4455677777777643
No 7
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=1.9e-91 Score=798.65 Aligned_cols=457 Identities=45% Similarity=0.758 Sum_probs=410.5
Q ss_pred ccCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--CCCCeEEEeCCccHHHHHHH
Q 000883 274 YEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--RISPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 274 ~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--~~~p~LIVvP~sll~qW~~E 351 (1238)
.-.||..+. ++|+.||+.|+|||..++.+|.|||||||||||||+|+|+++++|.+. -.||||||+|.|+++||..|
T Consensus 557 tV~qPkil~-ctLKEYQlkGLnWLvnlYdqGiNGILADeMGLGKTVQsisvlAhLaE~~nIwGPFLVVtpaStL~NWaqE 635 (1185)
T KOG0388|consen 557 TVPQPKILK-CTLKEYQLKGLNWLVNLYDQGINGILADEMGLGKTVQSISVLAHLAETHNIWGPFLVVTPASTLHNWAQE 635 (1185)
T ss_pred eccCchhhh-hhhHHHhhccHHHHHHHHHccccceehhhhccchhHHHHHHHHHHHHhccCCCceEEeehHHHHhHHHHH
Confidence 446787776 899999999999999999999999999999999999999999999874 35899999999999999999
Q ss_pred HHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeE
Q 000883 352 FATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQC 431 (1238)
Q Consensus 352 ~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~ 431 (1238)
|.+|+|+++++.|.|+..+|.+++.+ +.+.. . -.....|||+||||+++..|...|++++|.+
T Consensus 636 isrFlP~~k~lpywGs~~eRkiLrKf--w~rKn---m------------Y~rna~fhVviTSYQlvVtDeky~qkvKWQY 698 (1185)
T KOG0388|consen 636 ISRFLPSFKVLPYWGSPSERKILRKF--WNRKN---M------------YRRNAPFHVVITSYQLVVTDEKYLQKVKWQY 698 (1185)
T ss_pred HHHhCccceeecCcCChhhhHHHHHh--cchhh---h------------hccCCCceEEEEeeeeeechHHHHHhhhhhh
Confidence 99999999999999999999998874 21111 1 1134689999999999999999999999999
Q ss_pred EEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhc----------hhh
Q 000883 432 MIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD----------INQ 501 (1238)
Q Consensus 432 vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~----------~~~ 501 (1238)
+|+|||+-||+..|..++.|.+|+++.||||||||+||++.|||+||+|++|..|.+..+|.+||.. ...
T Consensus 699 MILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFSKdIEshAe~~~tln 778 (1185)
T KOG0388|consen 699 MILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFSKDIESHAEMNTTLN 778 (1185)
T ss_pred eehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHhhhhHhHHHhcCCcC
Confidence 9999999999999999999999999999999999999999999999999999999999999999963 124
Q ss_pred HHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhC
Q 000883 502 EEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC 581 (1238)
Q Consensus 502 ~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~ 581 (1238)
+.++.+||.+|+||||||.|+||...|..|.++.|+|.||..|+.+|+.|..+... ..+.+++|+|||+||
T Consensus 779 eqqL~RLH~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS~---------~E~~~~vmQlrKVCN 849 (1185)
T KOG0388|consen 779 EQQLQRLHAILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSISS---------MEMENLVMQLRKVCN 849 (1185)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhhH---------HHHHHHHHHHHHhcC
Confidence 67899999999999999999999999999999999999999999999998765431 223469999999999
Q ss_pred CcccccCCCCCcc-------------------------c-----------------------------------------
Q 000883 582 HPYMLEGVEPDIE-------------------------D----------------------------------------- 595 (1238)
Q Consensus 582 hP~L~~~~e~~~~-------------------------~----------------------------------------- 595 (1238)
||-||+..++... .
T Consensus 850 HPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~ 929 (1185)
T KOG0388|consen 850 HPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNGEGPNAWYLRLS 929 (1185)
T ss_pred ChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcCCCcchhcccce
Confidence 9988754332100 0
Q ss_pred ------------hH------------------HH----------------------------------------------
Q 000883 596 ------------TN------------------ES---------------------------------------------- 599 (1238)
Q Consensus 596 ------------~~------------------~~---------------------------------------------- 599 (1238)
.. +.
T Consensus 930 ~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead~PeId~E~~~~ 1009 (1185)
T KOG0388|consen 930 LEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEADLPEIDLENRHI 1009 (1185)
T ss_pred eeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccCCCCCCccccCc
Confidence 00 00
Q ss_pred ----------HHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 600 ----------FKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 600 ----------~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
+..++..|||+..|+.||.+|++.|||||+|.||+.|+|+|++||..+||.|.|+||+....+|..++.+
T Consensus 1010 pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrD 1089 (1185)
T KOG0388|consen 1010 PLNTTIYVPPMNTFITDSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRD 1089 (1185)
T ss_pred ccccceecCcHHhhhccccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhh
Confidence 0011335999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHH
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKK 749 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K 749 (1238)
|++ ++.||||+||||||+||||++||||||||+||||..|.||++||||.||++.|+||||++++||||+|++++.+|
T Consensus 1090 wQ~--sdiFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK 1167 (1185)
T KOG0388|consen 1090 WQA--SDIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITRGTVEEKVLERANQK 1167 (1185)
T ss_pred ccC--CceEEEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeecccccHHHHHHHHhhhH
Confidence 998 789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcc
Q 000883 750 MVLEHLVVGR 759 (1238)
Q Consensus 750 ~~l~~~vig~ 759 (1238)
....++|+.+
T Consensus 1168 ~~vQq~Vm~G 1177 (1185)
T KOG0388|consen 1168 DEVQQMVMHG 1177 (1185)
T ss_pred HHHHHHHHcC
Confidence 9999999843
No 8
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=3.9e-92 Score=843.90 Aligned_cols=624 Identities=51% Similarity=0.844 Sum_probs=540.1
Q ss_pred ccccccccccccCCCCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCc--ccccccccccccCccC---CCC-c
Q 000883 47 IDAKDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLN--DIDKILDCEMRPTVAG---DSD-V 120 (1238)
Q Consensus 47 ~~~~~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~--~iekIl~~R~rP~~~~---~~~-~ 120 (1238)
.+.+...|.+|+++|.+++|++|+.+||..|+.||+...|.+.|.|+.|..+.+ .+.+++.|+|+|.... ... .
T Consensus 43 ~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~~~~~~~~~~~ 122 (696)
T KOG0383|consen 43 DDAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCPKNAGKIEKILGWRWKPTPKPREGNQGVI 122 (696)
T ss_pred chhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccCCCcccccccceeEecCCCCccccCcCcc
Confidence 355678999999999999999999999999999999999988899999977765 7899999999988743 211 1
Q ss_pred ccccchhhhhHHHHhhccCCCcccccccchhhHHHHhhcChhHHHHHHhhhhhcccC---------C----C-C--ch--
Q 000883 121 SKLGSKQIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQMSSN---------N----N-A--EE-- 182 (1238)
Q Consensus 121 ~~~~~~~~~~~eYlVKWkg~Sy~h~tW~pe~~l~~~~~~~~~~k~kl~~f~k~~~~~---------~----~-~--~e-- 182 (1238)
..........++|+|||+|.||+||.|+++.++.......+. -+..+....... . . . ++
T Consensus 123 ~~~~~~~~~~re~~vk~qg~s~~~c~~~~e~~~q~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~k~~~~a~~~~r~ 199 (696)
T KOG0383|consen 123 SPRRSNGIVEREFFVKWQGLSYWHCSWKSELLLQNPLNTLPV---ELQRKHDTDQKPEAEIGVTRDKGKLVPYADLEERF 199 (696)
T ss_pred CCcccccchhhhcccccccCCccchhHHHHHHhhhhcccchH---hhhhhhhcccCccccccccccCccccccccchhhh
Confidence 222334456789999999999999999999998765432211 112221111110 0 0 0 11
Q ss_pred hhhcCCCCccchhhhhhhc-cCCCceeEEEeeeccccccccccccC-CcCccHHHHHHHHhhhhccccccCCccCCCCcc
Q 000883 183 DFVAIRPEWTTVDRILACR-GEDDEKEYLVKYKELSYDECYWEYES-DISAFQPEIERFIKIQSRSHRSSCNKQKSSPQD 260 (1238)
Q Consensus 183 d~~~~~~~~~~veRIi~~r-~~~~~~eyLVKWkgL~Y~~~tWE~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 260 (1238)
....+.|+|.++.||+.++ ...+...|+|||+.|+|++++|+.+. ++..++..+++|....... ...+..
T Consensus 200 ~~~~iKpe~~~i~rii~~~~s~~~~~~~~Vk~k~l~~d~~~~e~~~~~ip~~~~~~qe~~~~~~~~---~~~k~~----- 271 (696)
T KOG0383|consen 200 LLYGIKPEWMPIARIINRRSSQKGATDYLVKWKELSYDEQEWEVEDPDIPGYSSAGQEAWHHREKP---TVSKDL----- 271 (696)
T ss_pred hheeccccccccchhhhhhcccccceeeEeeeccCCccccCCCcCCCCcccCcccccccccccCcc---cccccc-----
Confidence 1235789999999999999 45678999999999999999999877 7778888888887644331 111100
Q ss_pred cccccCCCcccccccCCCCCCC--CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC--CCCe
Q 000883 261 VTESTKKPKEFQQYEHSPEFLS--GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER--ISPH 336 (1238)
Q Consensus 261 ~~~~~~~~~~~~~~~~~P~~~~--~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~--~~p~ 336 (1238)
. .........+..+|.++. ++.|++||.+|+||++..|..+..+|||||||+|||++++.|+..+.... .+|+
T Consensus 272 -~--~~~~~~~v~~~~qP~~l~~~~g~L~~~qleGln~L~~~ws~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~~~P~ 348 (696)
T KOG0383|consen 272 -K--SNTVDDPVPYEDQPQFLTEPGGTLHPYQLEGLNWLRISWSPGVDAILADEMGLGKTVQSIVFLYSLPKEIHSPGPP 348 (696)
T ss_pred -c--ccccCCCCCcccCCccccCCCccccccchhhhhhhhcccccCCCcccchhhcCCceeeEEEEEeecccccCCCCCc
Confidence 0 012345567888999987 59999999999999999999999999999999999999999999998764 3599
Q ss_pred EEEeCCccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHH
Q 000883 337 LVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEM 416 (1238)
Q Consensus 337 LIVvP~sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~ 416 (1238)
|+++|.+++.+|.+|+..|.|++.++.|+|+.+.|.+++++++.+.+...+.. ............+|+|.+++|++
T Consensus 349 Lv~ap~sT~~nwe~e~~~wap~~~vv~~~G~~k~r~iirepe~s~ed~~~~~~----~~i~~~~~~s~~k~~vl~~s~~~ 424 (696)
T KOG0383|consen 349 LVVAPLSTIVNWEREFELWAPSFYVVPYPGTAKSRAIIREPEFSFEDSSIKSS----PKISEMKTESSAKFHVLLPSYET 424 (696)
T ss_pred eeeccCccccCCCCchhccCCCcccccCCCCccchhhhhcccccccccccccC----CccccccchhhcccccCCCchhh
Confidence 99999999999999999999999999999999999999999998877643222 22222334456799999999999
Q ss_pred HHhhhcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHH
Q 000883 417 INLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEF 496 (1238)
Q Consensus 417 l~~d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~ 496 (1238)
+..+...+..+.|.++|+||+||+||..|+++..+..+...++++|||||+|||+.|||++||||.|+.|++.+.|.+.|
T Consensus 425 ~~~~~~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~ 504 (696)
T KOG0383|consen 425 IEIDQSILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEF 504 (696)
T ss_pred cccCHHHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHH
Q 000883 497 KDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMEL 576 (1238)
Q Consensus 497 ~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~L 576 (1238)
.++..++.+..||.++.|+|+||.|.|+++.+|+|.+.+++++|++.|+++|+.++++++..+.. ++...+++|++|+|
T Consensus 505 ~d~~~~~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~-~~~~~s~~n~~mel 583 (696)
T KOG0383|consen 505 HDISCEEQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLA-GVHQYSLLNIVMEL 583 (696)
T ss_pred chhhHHHHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCChHHHhh-cchhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999987 67788999999999
Q ss_pred HHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeC
Q 000883 577 RKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDG 656 (1238)
Q Consensus 577 rk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG 656 (1238)
||+|+|||+++..++...........++.+|+|+.+|.+++++++..||||+||+||+.+||+|+++|...+ .|.||||
T Consensus 584 ~K~~~hpy~~~~~e~~~~~~~~~~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG 662 (696)
T KOG0383|consen 584 RKQCNHPYLSPLEEPLEENGEYLGSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDG 662 (696)
T ss_pred HHhhcCcccCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhccC-cceeccC
Confidence 999999999999777767777777899999999999999999999999999999999999999999999999 9999999
Q ss_pred CCCHHHHHHHHHHHhcCCCCceEEEeeccccccc
Q 000883 657 KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLG 690 (1238)
Q Consensus 657 ~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~G 690 (1238)
.++..+||.+|++||++++..||||+||||||+|
T Consensus 663 ~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 663 PITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred CccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 9999999999999999999999999999999998
No 9
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.7e-89 Score=800.56 Aligned_cols=484 Identities=37% Similarity=0.623 Sum_probs=413.7
Q ss_pred cCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC--CCCeEEEeCCccHHHHHHHH
Q 000883 275 EHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER--ISPHLVVAPLSTLRNWEREF 352 (1238)
Q Consensus 275 ~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~--~~p~LIVvP~sll~qW~~E~ 352 (1238)
-..|.++. ..|+|||.+||+||..+++++.||||+||||||||||+|+||+.|.+.+ .+|+|||||.+++.||.+||
T Consensus 196 ~~vPg~I~-~~Lf~yQreGV~WL~~L~~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~~~paLIVCP~Tii~qW~~E~ 274 (923)
T KOG0387|consen 196 FKVPGFIW-SKLFPYQREGVQWLWELYCQRAGGILGDEMGLGKTIQIISFLAALHHSGKLTKPALIVCPATIIHQWMKEF 274 (923)
T ss_pred ccccHHHH-HHhhHHHHHHHHHHHHHHhccCCCeecccccCccchhHHHHHHHHhhcccccCceEEEccHHHHHHHHHHH
Confidence 34455554 5799999999999999999999999999999999999999999998762 47999999999999999999
Q ss_pred HHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEE
Q 000883 353 ATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCM 432 (1238)
Q Consensus 353 ~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~v 432 (1238)
++|+|.++|.+|||+...-. ++.+.... +.... ........-+|+||||+.+......+..+.|+++
T Consensus 275 ~~w~p~~rv~ilh~t~s~~r----~~~~~~~~-------~~~~~--L~r~~~~~~~ilitty~~~r~~~d~l~~~~W~y~ 341 (923)
T KOG0387|consen 275 QTWWPPFRVFILHGTGSGAR----YDASHSSH-------KKDKL--LIRKVATDGGILITTYDGFRIQGDDLLGILWDYV 341 (923)
T ss_pred HHhCcceEEEEEecCCcccc----cccchhhh-------hhhhh--heeeecccCcEEEEehhhhcccCcccccccccEE
Confidence 99999999999999875311 00000000 00000 0011223457999999999999999999999999
Q ss_pred EecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh------------
Q 000883 433 IVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN------------ 500 (1238)
Q Consensus 433 IvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~------------ 500 (1238)
|+||+|+|||++|+++.+++.+++.+|++|||||+|||+.|||+|+.|+.|+.+++...|.+.|..+-
T Consensus 342 ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~GgyaNAs~~q 421 (923)
T KOG0387|consen 342 ILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINRGGYANASPRQ 421 (923)
T ss_pred EecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheeccccCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999996421
Q ss_pred ---hHHHHHHHHHhhchhhhhhhHhHHhh-cCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHH
Q 000883 501 ---QEEQISRLHRMLAPHLLRRVKKDVMK-ELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMEL 576 (1238)
Q Consensus 501 ---~~~~~~~L~~~L~p~~lRR~k~dv~~-~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~L 576 (1238)
.......|+.+|.||+|||+|+||.. .||.|.+++|+|.||+.|+.+|..++..... ..--......+..+.-|
T Consensus 422 v~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v--~~i~ng~~~~l~Gi~iL 499 (923)
T KOG0387|consen 422 VQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEV--NKILNGKRNCLSGIDIL 499 (923)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHH--HHHHcCCccceechHHH
Confidence 23445679999999999999999998 9999999999999999999999999875321 11111222334445669
Q ss_pred HHHhCCcccccCCC---CCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh-hCCCcEE
Q 000883 577 RKLCCHPYMLEGVE---PDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT-FKKWQYE 652 (1238)
Q Consensus 577 rk~c~hP~L~~~~e---~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~-~~g~~~~ 652 (1238)
|++||||-|+..-. ...++. ...+..||||.+|.++|...+.+|+|||+|||...|||||+.+|. ..||+|+
T Consensus 500 rkICnHPdll~~~~~~~~~~~D~----~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysyl 575 (923)
T KOG0387|consen 500 RKICNHPDLLDRRDEDEKQGPDY----EGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYL 575 (923)
T ss_pred HhhcCCcccccCcccccccCCCc----CCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEE
Confidence 99999999997632 111111 245778999999999999999999999999999999999999999 7999999
Q ss_pred EEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 653 RIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 653 ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
|+||.|+...|+.+|++||++. ..+||||+|++||+|+||+.||+||||||||||+.|.||..||+||||++.|.||||
T Consensus 576 RmDGtT~~~~R~~lVd~Fne~~-s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL 654 (923)
T KOG0387|consen 576 RMDGTTPAALRQKLVDRFNEDE-SIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRL 654 (923)
T ss_pred EecCCCccchhhHHHHhhcCCC-ceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEE
Confidence 9999999999999999999855 457899999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCHHHHHHHHHHHHHHHHHHHh-cchhhccCCHHHHHHHHHhchh
Q 000883 733 ITRGSIEERMMQMTKKKMVLEHLVV-GRLKAQNINQEELDDIIRYGSK 779 (1238)
Q Consensus 733 vt~~TvEE~I~~~~~~K~~l~~~vi-g~~~~~~~~~~el~~ll~~ga~ 779 (1238)
++.|||||+||.++--|..|.+.++ +.....-+...+|.+|+.++..
T Consensus 655 ~t~gTIEEkiY~rQI~Kq~Ltn~il~~p~q~RfF~~~dl~dLFsl~~~ 702 (923)
T KOG0387|consen 655 MTAGTIEEKIYHRQIFKQFLTNRILKNPEQRRFFKGNDLHDLFSLKDF 702 (923)
T ss_pred ecCCcHHHHHHHHHHHHHHHHHHHhcCHHHhhhcccccHHHHhCCCCC
Confidence 9999999999999999999999888 4555667888999999987653
No 10
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=2.9e-83 Score=769.98 Aligned_cols=465 Identities=38% Similarity=0.627 Sum_probs=404.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--------CCCCeEEEeCCccHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--------RISPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--------~~~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
.+||.||++|||||.++...+-+|||||+||||||+|+|++++.=... ..-|.|||||.++..+|+.|+.+|
T Consensus 974 a~LRkYQqEGVnWLaFLnky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~e~~~~PSLIVCPsTLtGHW~~E~~kf 1053 (1549)
T KOG0392|consen 974 AKLRKYQQEGVNWLAFLNKYKLHGILCDDMGLGKTLQTICILASDHYKRRSESSEFNRLPSLIVCPSTLTGHWKSEVKKF 1053 (1549)
T ss_pred HHHHHHHHhccHHHHHHHHhcccceeeccccccHHHHHHHHHHHHHHhhcccchhhccCCeEEECCchhhhHHHHHHHHh
Confidence 579999999999999999999999999999999999999998754322 223899999999999999999999
Q ss_pred cCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEec
Q 000883 356 APQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVD 435 (1238)
Q Consensus 356 ~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvD 435 (1238)
+|.++|+.|.|....|..++.. -.+.+|+||||+.+++|...|.++.|.|+|+|
T Consensus 1054 ~pfL~v~~yvg~p~~r~~lR~q--------------------------~~~~~iiVtSYDv~RnD~d~l~~~~wNYcVLD 1107 (1549)
T KOG0392|consen 1054 FPFLKVLQYVGPPAERRELRDQ--------------------------YKNANIIVTSYDVVRNDVDYLIKIDWNYCVLD 1107 (1549)
T ss_pred cchhhhhhhcCChHHHHHHHhh--------------------------ccccceEEeeHHHHHHHHHHHHhcccceEEec
Confidence 9999999999999999877652 13568999999999999999999999999999
Q ss_pred ccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh---------------
Q 000883 436 EGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN--------------- 500 (1238)
Q Consensus 436 EaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~--------------- 500 (1238)
|+|-|||..++++++++.+.++|||.|||||+|||+.|||+|++||+|+.+++...|.++|...-
T Consensus 1108 EGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~Ea 1187 (1549)
T KOG0392|consen 1108 EGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEA 1187 (1549)
T ss_pred CcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999996421
Q ss_pred hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHh-------cCC-cchhHHHH
Q 000883 501 QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTR-------RGG-AQISLINV 572 (1238)
Q Consensus 501 ~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~-------~~~-~~~~l~~i 572 (1238)
..-.++.||+.+=|||+||+|.||+++||||..+-.+|+|++.|+++|+.+..+....... ..+ ........
T Consensus 1188 G~lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqa 1267 (1549)
T KOG0392|consen 1188 GVLALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQA 1267 (1549)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHH
Confidence 2235788999999999999999999999999999999999999999999998873222211 111 14567788
Q ss_pred HHHHHHHhCCcccccCC-CCCccchHHHH------HHHHhhhhHHHHHHHHHHHHH--------------HcCCeEEEEe
Q 000883 573 VMELRKLCCHPYMLEGV-EPDIEDTNESF------KQLLESSGKLQLLDKMMVKLK--------------EQGHRVLIYS 631 (1238)
Q Consensus 573 ~~~Lrk~c~hP~L~~~~-e~~~~~~~~~~------~~li~~S~Kl~~L~klL~~l~--------------~~g~KVLIFs 631 (1238)
+.-|||.|+||.|+-.. -++.......+ -+-+..|+|+.+|..+|...- -.+||+||||
T Consensus 1268 LqYlrKLcnHpaLvlt~~hp~la~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFc 1347 (1549)
T KOG0392|consen 1268 LQYLRKLCNHPALVLTPVHPDLAAIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFC 1347 (1549)
T ss_pred HHHHHHhcCCcceeeCCCcchHHHHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEee
Confidence 89999999999998653 22221111111 122678999999999998752 1479999999
Q ss_pred cchhHHHHHHHHHhhC---CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCCh
Q 000883 632 QFQHMLDLLEDYLTFK---KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNP 708 (1238)
Q Consensus 632 q~~~~ldiL~~~L~~~---g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp 708 (1238)
|+..|+|++++-|-.. .+.|.|+||++++.+|++++.+||++++-. |+|++|.+||+|+|||+||||||++.||||
T Consensus 1348 QlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptID-vLlLTThVGGLGLNLTGADTVVFvEHDWNP 1426 (1549)
T KOG0392|consen 1348 QLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTID-VLLLTTHVGGLGLNLTGADTVVFVEHDWNP 1426 (1549)
T ss_pred eHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCcee-EEEEeeeccccccccCCCceEEEEecCCCc
Confidence 9999999999988543 567889999999999999999999987654 599999999999999999999999999999
Q ss_pred hhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcchhh--ccCCHHHHHHHHH
Q 000883 709 HADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLKA--QNINQEELDDIIR 775 (1238)
Q Consensus 709 ~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~~~--~~~~~~el~~ll~ 775 (1238)
.+|+|||+|||||||++.|+||||||+||+||+|+-.++-||..++.|++...+ ..++-++|.+++.
T Consensus 1427 MrDLQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqNasl~tM~TdqLLdlF~ 1495 (1549)
T KOG0392|consen 1427 MRDLQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQNASLETMDTDQLLDLFT 1495 (1549)
T ss_pred hhhHHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhcccccccccCHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999976533 4566777777764
No 11
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=4.2e-71 Score=667.61 Aligned_cols=453 Identities=35% Similarity=0.549 Sum_probs=381.0
Q ss_pred CCCcHHHHHHHHHHHHhhc------CCCceEEEcCCCChHHHHHHHHHHHHhhCCC------CCeEEEeCCccHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWS------KQTHVILADEMGLGKTIQSIAFLASLFGERI------SPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~------~~~~~ILaDemGlGKTiqaia~l~~l~~~~~------~p~LIVvP~sll~qW~~E 351 (1238)
..|||||.+|++||..+.. ..+|||+||+||+|||+|+|+||..++...+ ...|||||.+++.+|.+|
T Consensus 237 ~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~lVV~P~sLv~nWkkE 316 (776)
T KOG0390|consen 237 KILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPLVVAPSSLVNNWKKE 316 (776)
T ss_pred hhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccEEEccHHHHHHHHHH
Confidence 5799999999999976664 4578999999999999999999999987532 478999999999999999
Q ss_pred HHHHcC--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCce
Q 000883 352 FATWAP--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1238)
Q Consensus 352 ~~~~~p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w 429 (1238)
|.+|.. .+....++|...+ .++....+..-. ......-|++.||+++......+....+
T Consensus 317 F~KWl~~~~i~~l~~~~~~~~-~w~~~~sil~~~------------------~~~~~~~vli~sye~~~~~~~~il~~~~ 377 (776)
T KOG0390|consen 317 FGKWLGNHRINPLDFYSTKKS-SWIKLKSILFLG------------------YKQFTTPVLIISYETASDYCRKILLIRP 377 (776)
T ss_pred HHHhccccccceeeeecccch-hhhhhHHHHHhh------------------hhheeEEEEeccHHHHHHHHHHHhcCCC
Confidence 999985 5777778887765 111111111000 0123456999999999998888999999
Q ss_pred eEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh---------
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN--------- 500 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~--------- 500 (1238)
++||+||+|++||..|.++++|..+.+.+|++|||||+|||+.|+|++|+|..|+.+++...|...|....
T Consensus 378 glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s 457 (776)
T KOG0390|consen 378 GLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADAS 457 (776)
T ss_pred CeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999885321
Q ss_pred -----hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHH
Q 000883 501 -----QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVME 575 (1238)
Q Consensus 501 -----~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~ 575 (1238)
.++.+.+|..+...|++||+-+...+.||++.+++|.|.+|+.|+.+|+.++... .... .. ...+..+..
T Consensus 458 ~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~~~~-~~---~~~l~~~~~ 532 (776)
T KOG0390|consen 458 EEDREREERLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-KMRT-LK---GYALELITK 532 (776)
T ss_pred hhhhhhHHHHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH-Hhhh-hh---cchhhHHHH
Confidence 1345888999999999999999999999999999999999999999999998764 1111 11 115667788
Q ss_pred HHHHhCCcccccCCCCC-----ccchHHHHH--------HHHhhhhHHHHHHHHHHHHHHc-CCeEEEEecchhHHHHHH
Q 000883 576 LRKLCCHPYMLEGVEPD-----IEDTNESFK--------QLLESSGKLQLLDKMMVKLKEQ-GHRVLIYSQFQHMLDLLE 641 (1238)
Q Consensus 576 Lrk~c~hP~L~~~~e~~-----~~~~~~~~~--------~li~~S~Kl~~L~klL~~l~~~-g~KVLIFsq~~~~ldiL~ 641 (1238)
|+++|+||.|+...+.. ......... .-..-|+|+..|..|+....+. -.++++.|+++.++|+++
T Consensus 533 L~k~cnhP~L~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e 612 (776)
T KOG0390|consen 533 LKKLCNHPSLLLLCEKTEKEKAFKNPALLLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFE 612 (776)
T ss_pred HHHHhcCHHhhcccccccccccccChHhhhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHH
Confidence 99999999998521111 101110000 0122489999999998665553 346666677889999999
Q ss_pred HHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhh
Q 000883 642 DYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 642 ~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRi 721 (1238)
..++.+|+.++|+||+++..+|+.+|+.||++.+..||||+|++|||+||||.+|++||+||++|||+++.|||+||+|.
T Consensus 613 ~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~Rd 692 (776)
T KOG0390|consen 613 QLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRD 692 (776)
T ss_pred HHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccC
Confidence 99999999999999999999999999999999999899999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcch
Q 000883 722 GQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL 760 (1238)
Q Consensus 722 GQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~ 760 (1238)
||+++|+||||++.||+||+|++++..|..|-..|++..
T Consensus 693 GQKk~v~iYrLlatGtiEEk~~qrq~~K~~lS~~v~~~~ 731 (776)
T KOG0390|consen 693 GQKKPVYIYRLLATGTIEEKIYQRQTHKEGLSSMVFDEE 731 (776)
T ss_pred CCcceEEEEEeecCCCchHHHHHHHHHhhhhhheEEecc
Confidence 999999999999999999999999999999999998654
No 12
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=1.5e-67 Score=616.58 Aligned_cols=471 Identities=33% Similarity=0.521 Sum_probs=383.8
Q ss_pred CCCcHHHHHHHHHHHHhh---------cCCCceEEEcCCCChHHHHHHHHHHHHhhC---CCCCeEEEeCCccHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSW---------SKQTHVILADEMGLGKTIQSIAFLASLFGE---RISPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~---------~~~~~~ILaDemGlGKTiqaia~l~~l~~~---~~~p~LIVvP~sll~qW~~E 351 (1238)
..|+|||..||.||..+. ..|.|||||+-||||||+|+|+|+..++.. +...+|||||.+++.||.+|
T Consensus 667 ~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt~~NW~~E 746 (1567)
T KOG1015|consen 667 IKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNTALNWMNE 746 (1567)
T ss_pred hhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHHHHHHHHH
Confidence 579999999999995433 358899999999999999999999987643 45699999999999999999
Q ss_pred HHHHcCCC------cEEEEEcCh--hHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh---
Q 000883 352 FATWAPQM------NVVMYVGTS--QARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--- 420 (1238)
Q Consensus 352 ~~~~~p~l------~vv~~~g~~--~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--- 420 (1238)
|.+|.+++ .|..+...+ ..|..... .|+ ..-.|+|+.|++++..
T Consensus 747 FekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~-~W~------------------------~~ggVmIiGYdmyRnLa~g 801 (1567)
T KOG1015|consen 747 FEKWMEGLEDDEKLEVSELATVKRPEERSYMLQ-RWQ------------------------EDGGVMIIGYDMYRNLAQG 801 (1567)
T ss_pred HHHhcccccccccceeehhhhccChHHHHHHHH-HHH------------------------hcCCEEEEehHHHHHHhcc
Confidence 99999863 222222211 12211111 111 1225999999998642
Q ss_pred ------------hcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCC
Q 000883 421 ------------SASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGS 488 (1238)
Q Consensus 421 ------------~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~ 488 (1238)
...|..-..++||+||||-|||..|.+++++..+.+++||+|||||||||+.|++.+++|+.|+.+++
T Consensus 802 r~vk~rk~ke~f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs 881 (1567)
T KOG1015|consen 802 RNVKSRKLKEIFNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGS 881 (1567)
T ss_pred cchhhhHHHHHHHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccC
Confidence 11222335689999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhchhh---------------HHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHH
Q 000883 489 LEEFQEEFKDINQ---------------EEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILT 553 (1238)
Q Consensus 489 ~~~F~~~~~~~~~---------------~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~ 553 (1238)
..+|.++|.++.. .....-|+++|+.++-|+-...+.+.|||+.+++|.|.||+.|..+|...++
T Consensus 882 ~~EfrNRFvNpI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~ 961 (1567)
T KOG1015|consen 882 IKEFRNRFVNPIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLD 961 (1567)
T ss_pred cHHHHHhhcCccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHh
Confidence 9999999975422 1234568999999999999999999999999999999999999999999988
Q ss_pred HHHHHHH---hcCCcchhHHHHHHHHHHHhCCccccc-----------------------CC-C----------------
Q 000883 554 RNYQILT---RRGGAQISLINVVMELRKLCCHPYMLE-----------------------GV-E---------------- 590 (1238)
Q Consensus 554 ~~~~~l~---~~~~~~~~l~~i~~~Lrk~c~hP~L~~-----------------------~~-e---------------- 590 (1238)
.....-. .+.+....|+.-+..|+++.+||+.+. +. +
T Consensus 962 h~~~~G~d~eg~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks 1041 (1567)
T KOG1015|consen 962 HLTGVGNDSEGGRGAGARLFQDFQMLSRIWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKS 1041 (1567)
T ss_pred hccccCCccccccchhhhHHHHHHHHHHHhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccc
Confidence 3221111 122345578888889999999998641 00 0
Q ss_pred ------CC-c---------------------------------cc-------------------hHHHHHH--------H
Q 000883 591 ------PD-I---------------------------------ED-------------------TNESFKQ--------L 603 (1238)
Q Consensus 591 ------~~-~---------------------------------~~-------------------~~~~~~~--------l 603 (1238)
+. . .+ +.+.+.. .
T Consensus 1042 ~~~s~~Desss~~~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v 1121 (1567)
T KOG1015|consen 1042 GKKSKKDESSSGSGSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEV 1121 (1567)
T ss_pred cccccccccccccccCCchhhhhhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhh
Confidence 00 0 00 0000111 2
Q ss_pred HhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh----------------------CCCcEEEEeCCCCHH
Q 000883 604 LESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF----------------------KKWQYERIDGKVGGA 661 (1238)
Q Consensus 604 i~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~----------------------~g~~~~ridG~~~~~ 661 (1238)
+..||||.+|.++|....+-|.|+|||||....||+|++||.. +|..|.||||+++..
T Consensus 1122 ~~~SgKmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~ 1201 (1567)
T KOG1015|consen 1122 LEHSGKMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQ 1201 (1567)
T ss_pred hhcCcceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHH
Confidence 3459999999999999999999999999999999999999953 467899999999999
Q ss_pred HHHHHHHHHhcCCCCc-eEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHH
Q 000883 662 ERQIRIDRFNAKNSSR-FCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEE 740 (1238)
Q Consensus 662 ~R~~~I~~Fn~~~s~~-~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE 740 (1238)
+|++..++||++..-+ .+||||||||++||||-+|++|||||-.|||..|.|+|-|++|+||+|+|+||||++.||+||
T Consensus 1202 ~R~k~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEe 1281 (1567)
T KOG1015|consen 1202 SRKKWAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEE 1281 (1567)
T ss_pred HHHHHHHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHH
Confidence 9999999999987644 479999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcchh-hccCCHHHHHHHHHhchh
Q 000883 741 RMMQMTKKKMVLEHLVVGRLK-AQNINQEELDDIIRYGSK 779 (1238)
Q Consensus 741 ~I~~~~~~K~~l~~~vig~~~-~~~~~~~el~~ll~~ga~ 779 (1238)
+||.++-.|..+..-|+++.. ...++.+||..|+.|...
T Consensus 1282 KIYkRQVTKqsls~RVVDeqQv~Rhy~~neLteLy~fep~ 1321 (1567)
T KOG1015|consen 1282 KIYKRQVTKQSLSFRVVDEQQVERHYTMNELTELYTFEPD 1321 (1567)
T ss_pred HHHHHHHhHhhhhhhhhhHHHHHHHhhHhhhHHHhhcCCc
Confidence 999999999999999997753 456888999999877543
No 13
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=3.2e-66 Score=574.11 Aligned_cols=469 Identities=30% Similarity=0.490 Sum_probs=379.8
Q ss_pred ccCCCCCCCCCCCcHHHHHHHHHHHHhhc-CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHH
Q 000883 274 YEHSPEFLSGGSLHPYQLEGLNFLRFSWS-KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREF 352 (1238)
Q Consensus 274 ~~~~P~~~~~~~LrpyQlegv~wL~~~~~-~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~ 352 (1238)
-.+||..+. ..|.|||++|+.|+...-. .-.|||||||||+|||||+|+++.. .-...|+|||||.-.+.||.+||
T Consensus 174 ~aeqP~dli-i~LL~fQkE~l~Wl~~QE~Ss~~GGiLADEMGMGKTIQtIaLlla--e~~ra~tLVvaP~VAlmQW~nEI 250 (791)
T KOG1002|consen 174 RAEQPDDLI-IPLLPFQKEGLAWLTSQEESSVAGGILADEMGMGKTIQTIALLLA--EVDRAPTLVVAPTVALMQWKNEI 250 (791)
T ss_pred cccCcccce-ecchhhhHHHHHHHHHhhhhhhccceehhhhccchHHHHHHHHHh--ccccCCeeEEccHHHHHHHHHHH
Confidence 346676665 6799999999999965544 5788999999999999999999876 33345999999999999999999
Q ss_pred HHHc-CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh-----------
Q 000883 353 ATWA-PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----------- 420 (1238)
Q Consensus 353 ~~~~-p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----------- 420 (1238)
.+++ ..+++.+|||.+..... .....||||+|||..+-..
T Consensus 251 ~~~T~gslkv~~YhG~~R~~ni----------------------------kel~~YDvVLTty~vvEs~yRk~~~GfrrK 302 (791)
T KOG1002|consen 251 ERHTSGSLKVYIYHGAKRDKNI----------------------------KELMNYDVVLTTYAVVESVYRKQDYGFRRK 302 (791)
T ss_pred HHhccCceEEEEEecccccCCH----------------------------HHhhcCcEEEEecHHHHHHHHhcccccccc
Confidence 9998 45899999998765432 1236899999999988432
Q ss_pred ------hcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChH----
Q 000883 421 ------SASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLE---- 490 (1238)
Q Consensus 421 ------~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~---- 490 (1238)
.+.|.+++|..||+||||.||+..|...+++..+.+.+||.|||||+||.+.|||+|++||..++|..+-
T Consensus 303 ngv~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~c 382 (791)
T KOG1002|consen 303 NGVDKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKC 382 (791)
T ss_pred CCcccccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhc
Confidence 4567889999999999999999999999999999999999999999999999999999999988874320
Q ss_pred -----H--HH-------------HH---Hhc------------hhhHHHHHHHHHhhchhhhhhhHhHHhh--cCCCcEE
Q 000883 491 -----E--FQ-------------EE---FKD------------INQEEQISRLHRMLAPHLLRRVKKDVMK--ELPPKKE 533 (1238)
Q Consensus 491 -----~--F~-------------~~---~~~------------~~~~~~~~~L~~~L~p~~lRR~k~dv~~--~LP~k~e 533 (1238)
+ |. .. |.. -.........|.+|+.+|+||+|-.-.. .|||...
T Consensus 383 dc~~~~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv 462 (791)
T KOG1002|consen 383 DCASLDWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIV 462 (791)
T ss_pred cccccceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhcccccccCCCccce
Confidence 0 10 00 000 0112345578999999999999954322 5899988
Q ss_pred EEEeccCCHHHHHHHHHHHHHHHHHHHhc------CCcchhHHHHHHHHHHHhCCcccccCCC-----------------
Q 000883 534 LILRVELSSKQKEYYKAILTRNYQILTRR------GGAQISLINVVMELRKLCCHPYMLEGVE----------------- 590 (1238)
Q Consensus 534 ~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~------~~~~~~l~~i~~~Lrk~c~hP~L~~~~e----------------- 590 (1238)
.+-.--++..++.+|+++.......++.. -.+...+..++.+|||+..||+|+-...
T Consensus 463 ~vRrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n~~~enk~~~~C~lc 542 (791)
T KOG1002|consen 463 TVRRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANANLPDENKGEVECGLC 542 (791)
T ss_pred eeehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcCCCccccCceeeccc
Confidence 88888899999999999987665544431 1234567788999999999999863210
Q ss_pred -----CCccch---------------------------------------------HHH------HH----HHHhhhhHH
Q 000883 591 -----PDIEDT---------------------------------------------NES------FK----QLLESSGKL 610 (1238)
Q Consensus 591 -----~~~~~~---------------------------------------------~~~------~~----~li~~S~Kl 610 (1238)
+.+... ... +. .-.++|.|+
T Consensus 543 ~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~sSIlnRinm~~~qsSTKI 622 (791)
T KOG1002|consen 543 HDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKASSILNRINMDDWQSSTKI 622 (791)
T ss_pred CChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhHHHhhhcchhhhcchhHH
Confidence 000000 000 00 013468999
Q ss_pred HHHHHHHHHHHHcC--CeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccc
Q 000883 611 QLLDKMMVKLKEQG--HRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGG 688 (1238)
Q Consensus 611 ~~L~klL~~l~~~g--~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg 688 (1238)
..|.+-|..+.++. -|.||||||+.|||+|.-.|...|++++.+.|+|++..|...|+.|.++.. ..|||+|.+|||
T Consensus 623 EAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~-c~vfLvSLkAGG 701 (791)
T KOG1002|consen 623 EALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDID-CRVFLVSLKAGG 701 (791)
T ss_pred HHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCC-eEEEEEEeccCc
Confidence 99999999888765 488999999999999999999999999999999999999999999987554 456999999999
Q ss_pred cccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcchh--hccCC
Q 000883 689 LGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK--AQNIN 766 (1238)
Q Consensus 689 ~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~~--~~~~~ 766 (1238)
+.+||+.|++|+++||+|||+...||++|+|||||.++|.|.||+.++|||++|++++++|..+.++.+|... -..++
T Consensus 702 VALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~Ai~kLt 781 (791)
T KOG1002|consen 702 VALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEEAISKLT 781 (791)
T ss_pred eEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999997642 23456
Q ss_pred HHHHHHHH
Q 000883 767 QEELDDII 774 (1238)
Q Consensus 767 ~~el~~ll 774 (1238)
.++|.-|+
T Consensus 782 ~eDmqfLF 789 (791)
T KOG1002|consen 782 EEDMQFLF 789 (791)
T ss_pred HHHHHHHh
Confidence 66665543
No 14
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.4e-65 Score=591.21 Aligned_cols=472 Identities=29% Similarity=0.513 Sum_probs=388.5
Q ss_pred cccCCCCCCCCCCCcHHHHHHHHHHHHhhc-CCCceEEEcCCCChHHHHHHHHHHHHhhC-----C----CCCeEEEeCC
Q 000883 273 QYEHSPEFLSGGSLHPYQLEGLNFLRFSWS-KQTHVILADEMGLGKTIQSIAFLASLFGE-----R----ISPHLVVAPL 342 (1238)
Q Consensus 273 ~~~~~P~~~~~~~LrpyQlegv~wL~~~~~-~~~~~ILaDemGlGKTiqaia~l~~l~~~-----~----~~p~LIVvP~ 342 (1238)
.+.+.|..+. ..|+|||..|+.||...-. .+.||||||+||||||+++|+++.+-... + ..++|||||.
T Consensus 314 ~lte~P~g~~-v~LmpHQkaal~Wl~wRE~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~TLII~Pa 392 (901)
T KOG4439|consen 314 DLTETPDGLK-VELMPHQKAALRWLLWRESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASKTLIICPA 392 (901)
T ss_pred cccCCCCcce-eecchhhhhhhhhhcccccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCCeEEeCcH
Confidence 3445565554 6899999999999954433 46789999999999999999999876431 1 1279999999
Q ss_pred ccHHHHHHHHHHHc--CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh-
Q 000883 343 STLRNWEREFATWA--PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL- 419 (1238)
Q Consensus 343 sll~qW~~E~~~~~--p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~- 419 (1238)
|++.||..|+++-. .-+.|.+|||+.. |.+ .. ....+||||||||..+..
T Consensus 393 Sli~qW~~Ev~~rl~~n~LsV~~~HG~n~-r~i-~~-------------------------~~L~~YDvViTTY~lva~~ 445 (901)
T KOG4439|consen 393 SLIHQWEAEVARRLEQNALSVYLYHGPNK-REI-SA-------------------------KELRKYDVVITTYNLVANK 445 (901)
T ss_pred HHHHHHHHHHHHHHhhcceEEEEecCCcc-ccC-CH-------------------------HHHhhcceEEEeeeccccC
Confidence 99999999998766 3478999999975 221 11 123589999999999865
Q ss_pred ---------hhcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChH
Q 000883 420 ---------DSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLE 490 (1238)
Q Consensus 420 ---------d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~ 490 (1238)
....|..|.|..||+||||.+||..++.+.++..+.+..||+|||||+|||+-|+|+|+.||...+|++..
T Consensus 446 ~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~ 525 (901)
T KOG4439|consen 446 PDDELEEGKNSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLK 525 (901)
T ss_pred CchhhhcccCccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHH
Confidence 35678889999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhh-----cCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHh----
Q 000883 491 EFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMK-----ELPPKKELILRVELSSKQKEYYKAILTRNYQILTR---- 561 (1238)
Q Consensus 491 ~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~-----~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~---- 561 (1238)
.+.++..... .....+|.-+.++.||||+|...-. .||++...++.++|+..+...|.-+.+....++.+
T Consensus 526 ~Wke~i~~~s-~~g~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~ 604 (901)
T KOG4439|consen 526 QWKENIDNMS-KGGANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQ 604 (901)
T ss_pred HHHHhccCcc-ccchhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHh
Confidence 8888765432 2345567777889999999987755 79999999999999999999999888766555432
Q ss_pred ------cCC----------------------------c----chhHHHHHHHHHHHhCCcccccCCCCCcc---------
Q 000883 562 ------RGG----------------------------A----QISLINVVMELRKLCCHPYMLEGVEPDIE--------- 594 (1238)
Q Consensus 562 ------~~~----------------------------~----~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~--------- 594 (1238)
.++ . ...++..+++|||+|+||-+.....+...
T Consensus 605 ~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~s 684 (901)
T KOG4439|consen 605 REDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDS 684 (901)
T ss_pred hhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchh
Confidence 000 0 01257788999999999976543321100
Q ss_pred --c-----------------------------hHHHHHHHHhhhhHHHHHHHHHHHH-HHcCCeEEEEecchhHHHHHHH
Q 000883 595 --D-----------------------------TNESFKQLLESSGKLQLLDKMMVKL-KEQGHRVLIYSQFQHMLDLLED 642 (1238)
Q Consensus 595 --~-----------------------------~~~~~~~li~~S~Kl~~L~klL~~l-~~~g~KVLIFsq~~~~ldiL~~ 642 (1238)
. ....+-.....|.|+..+...+..+ .....|++|.||++.+|+++..
T Consensus 685 de~~~e~~~l~el~k~~~T~~~~D~~ed~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~viVSQwtsvLniv~~ 764 (901)
T KOG4439|consen 685 DEEQLEEDNLAELEKNDETDCSDDNCEDLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVIVSQWTSVLNIVRK 764 (901)
T ss_pred hhhhhhhhHHHhhhhcccccccccccccccccchhhhcccccchhHHHHHHHHHHHHhhcccceeeehhHHHHHHHHHHH
Confidence 0 0011112234688999988888877 6678899999999999999999
Q ss_pred HHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhC
Q 000883 643 YLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLG 722 (1238)
Q Consensus 643 ~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiG 722 (1238)
.|...|+.|..|+|.+...+|+.+++.||....+..|+|||..|||+||||+.|+|+|++|..|||+...||.+|++|+|
T Consensus 765 hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~G 844 (901)
T KOG4439|consen 765 HIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMG 844 (901)
T ss_pred HHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999999999888899999999999999999999999999999999999999999999
Q ss_pred CCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcchhh---ccCCHHHHHHH
Q 000883 723 QTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLKA---QNINQEELDDI 773 (1238)
Q Consensus 723 Q~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~~~---~~~~~~el~~l 773 (1238)
|+|.|.||||+++||||++|...+.+|..|+..|+.+... ..++..+|..|
T Consensus 845 QkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~tr~~~kLT~adlk~L 898 (901)
T KOG4439|consen 845 QKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSATRKMNKLTLADLKKL 898 (901)
T ss_pred ccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCccccccccccHHHHHHH
Confidence 9999999999999999999999999999999999854332 34455555544
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=7.5e-64 Score=656.18 Aligned_cols=472 Identities=43% Similarity=0.725 Sum_probs=409.6
Q ss_pred CCCCCcHHHHHHHHHHH-HhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC---CCCeEEEeCCccHHHHHHHHHHHcC
Q 000883 282 SGGSLHPYQLEGLNFLR-FSWSKQTHVILADEMGLGKTIQSIAFLASLFGER---ISPHLVVAPLSTLRNWEREFATWAP 357 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~-~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~---~~p~LIVvP~sll~qW~~E~~~~~p 357 (1238)
...+|+|||++|++||. ..+..+.++||||+||+|||+|+|+++.+++... .+|+|||||.+++.||.+|+.+|.|
T Consensus 335 ~~~~lr~yq~~g~~wl~~~l~~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~nw~~e~~k~~~ 414 (866)
T COG0553 335 LSAELRPYQLEGVNWLSELLRSNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLSNWKREFEKFAP 414 (866)
T ss_pred hhhhhHHHHHHHHHHHHHHHHhccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHHHHHHHHhhhCc
Confidence 34789999999999999 8889999999999999999999999998865532 3699999999999999999999999
Q ss_pred CCc-EEEEEcChhH----HHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh---hhcccCCCce
Q 000883 358 QMN-VVMYVGTSQA----RNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL---DSASLKPIKW 429 (1238)
Q Consensus 358 ~l~-vv~~~g~~~~----r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~---d~~~l~~i~w 429 (1238)
.++ +.+++|.... +..+....... . ...|+|++|||+.+.. +...+..+.|
T Consensus 415 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~-------------------~--~~~~~v~itty~~l~~~~~~~~~l~~~~~ 473 (866)
T COG0553 415 DLRLVLVYHGEKSELDKKREALRDLLKLH-------------------L--VIIFDVVITTYELLRRFLVDHGGLKKIEW 473 (866)
T ss_pred cccceeeeeCCcccccHHHHHHHHHhhhc-------------------c--cceeeEEechHHHHHHhhhhHHHHhhcee
Confidence 999 9999998863 44433321000 0 2358999999999999 9999999999
Q ss_pred eEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHh-hhcCCCCC-ChHHHHHHHhchh-------
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMH-FLDAGKFG-SLEEFQEEFKDIN------- 500 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~-fL~p~~f~-~~~~F~~~~~~~~------- 500 (1238)
+++|+||||++||..+..++++..+++.++++|||||++|++.|||++++ |+.|..++ +...|..+|....
T Consensus 474 ~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~~~~~~ 553 (866)
T COG0553 474 DRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQAEEDIG 553 (866)
T ss_pred eeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhhccccc
Confidence 99999999999999999999999999999999999999999999999999 99999999 5588999986432
Q ss_pred ----hHHHHHHHHHhhchhhhhhhHhH--HhhcCCCcEEEEEeccCCHHHHHHHHHHHH---HHHHHHHhcC--C-----
Q 000883 501 ----QEEQISRLHRMLAPHLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKAILT---RNYQILTRRG--G----- 564 (1238)
Q Consensus 501 ----~~~~~~~L~~~L~p~~lRR~k~d--v~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~---~~~~~l~~~~--~----- 564 (1238)
....+..|+.+++||++||+|.+ +...||++.+.++.|+|+..|+.+|...+. ++...+.... .
T Consensus 554 ~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~ 633 (866)
T COG0553 554 PLEARELGIELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEKADSDENR 633 (866)
T ss_pred chhhHHHHHHHHHHHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccc
Confidence 12344558899999999999999 999999999999999999999999999999 6665554421 1
Q ss_pred ---cchhHHHHHHHHHHHhCCcccccCC-CCCcc----------chHHHHHHHHhhh-hHHHHHHHHH-HHHHHcCC--e
Q 000883 565 ---AQISLINVVMELRKLCCHPYMLEGV-EPDIE----------DTNESFKQLLESS-GKLQLLDKMM-VKLKEQGH--R 626 (1238)
Q Consensus 565 ---~~~~l~~i~~~Lrk~c~hP~L~~~~-e~~~~----------~~~~~~~~li~~S-~Kl~~L~klL-~~l~~~g~--K 626 (1238)
....+++.++.||++|+||.++... +.... ........++..| +|+..+.++| ..+...|+ |
T Consensus 634 ~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~k 713 (866)
T COG0553 634 IGDSELNILALLTRLRQICNHPALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHK 713 (866)
T ss_pred ccchhhHHHHHHHHHHHhccCccccccccccccchhhhhhhcccccccccchhhhccchHHHHHHHHHHHHHHhhccccc
Confidence 1567899999999999999999765 22111 1111123466788 9999999999 89999999 9
Q ss_pred EEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC
Q 000883 627 VLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW 706 (1238)
Q Consensus 627 VLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW 706 (1238)
||||+||+.++++|+++|...++.|++++|+++...|+.+|++|+++ ...+|||+|++|||.||||++|++||+||++|
T Consensus 714 vlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~-~~~~v~lls~kagg~glnLt~a~~vi~~d~~w 792 (866)
T COG0553 714 VLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNAD-EEEKVFLLSLKAGGLGLNLTGADTVILFDPWW 792 (866)
T ss_pred EEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcC-CCCceEEEEecccccceeecccceEEEecccc
Confidence 99999999999999999999999999999999999999999999997 55678999999999999999999999999999
Q ss_pred ChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcc-h--hhccCCHHHHHHHHH
Q 000883 707 NPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGR-L--KAQNINQEELDDIIR 775 (1238)
Q Consensus 707 Np~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~-~--~~~~~~~~el~~ll~ 775 (1238)
||+.+.||++|+|||||+++|.||+|++++|+||+|++++..|+.+...+++. . ....++.+++..++.
T Consensus 793 np~~~~Qa~dRa~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~~~~~~~~~~~~~~~~~l~~ 864 (866)
T COG0553 793 NPAVELQAIDRAHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDAEGEKELSKLSIEDLLDLFS 864 (866)
T ss_pred ChHHHHHHHHHHHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhhhcccchhhccHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999874 2 233456666666654
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=1.1e-55 Score=491.99 Aligned_cols=410 Identities=28% Similarity=0.441 Sum_probs=327.8
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcE-E
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNV-V 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~v-v 362 (1238)
..|.|||++||++. ...|++++||||||||||+|||+++.+++.++ |.|||||.++...|..++.+|.|...- .
T Consensus 197 s~LlPFQreGv~fa---L~RgGR~llADeMGLGKTiQAlaIA~yyraEw--plliVcPAsvrftWa~al~r~lps~~pi~ 271 (689)
T KOG1000|consen 197 SRLLPFQREGVIFA---LERGGRILLADEMGLGKTIQALAIARYYRAEW--PLLIVCPASVRFTWAKALNRFLPSIHPIF 271 (689)
T ss_pred HhhCchhhhhHHHH---HhcCCeEEEecccccchHHHHHHHHHHHhhcC--cEEEEecHHHhHHHHHHHHHhcccccceE
Confidence 36999999999875 47899999999999999999999999988875 999999999999999999999987644 2
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccC
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKN 442 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN 442 (1238)
+..+..+. .+. -.....|.|+||+++......|..-+|.+||+||+|.||+
T Consensus 272 vv~~~~D~----------~~~-------------------~~t~~~v~ivSye~ls~l~~~l~~~~~~vvI~DEsH~Lk~ 322 (689)
T KOG1000|consen 272 VVDKSSDP----------LPD-------------------VCTSNTVAIVSYEQLSLLHDILKKEKYRVVIFDESHMLKD 322 (689)
T ss_pred EEecccCC----------ccc-------------------cccCCeEEEEEHHHHHHHHHHHhcccceEEEEechhhhhc
Confidence 22222211 000 1122358999999999999999999999999999999999
Q ss_pred cccHHHHHHHhc--ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhh---------HHHHHHHHHh
Q 000883 443 KDSKLFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQ---------EEQISRLHRM 511 (1238)
Q Consensus 443 ~~S~~~~~l~~l--~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~---------~~~~~~L~~~ 511 (1238)
..++..+++..+ ...|.|||||||--..+.|||.++..+++..|+++.+|...|++... -.+..+|+-+
T Consensus 323 sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~l 402 (689)
T KOG1000|consen 323 SKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAAL 402 (689)
T ss_pred cchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHH
Confidence 999999988877 37899999999999999999999999999999999999999976432 3467778877
Q ss_pred hc-hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCC
Q 000883 512 LA-PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVE 590 (1238)
Q Consensus 512 L~-p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e 590 (1238)
|. ..|+||+|.+|+++||||...++.+ ....+-...+.+...... +.. .+. |+-.+.| +.
T Consensus 403 L~k~lMIRRlK~dvL~qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~------~t~---~~~-~e~~~~~----l~---- 463 (689)
T KOG1000|consen 403 LFKRLMIRRLKADVLKQLPPKRREVVYV-SGGRIDARMDDLVKAAAD------YTK---VNS-MERKHES----LL---- 463 (689)
T ss_pred HHHHHHHHHHHHHHHhhCCccceEEEEE-cCCccchHHHHHHHHhhh------cch---hhh-hhhhhHH----HH----
Confidence 74 5699999999999999995555544 444444433444332221 000 000 1101100 00
Q ss_pred CCccchHHHHHHHHhhhhHHHHHHHHHHH----HHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 591 PDIEDTNESFKQLLESSGKLQLLDKMMVK----LKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 591 ~~~~~~~~~~~~li~~S~Kl~~L~klL~~----l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
. .--...-.|+..+.+.|.. ..+.+.|+|||+++..+||-|+.++..+++.+.||||+|++.+|+.+
T Consensus 464 -------l--~y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll 534 (689)
T KOG1000|consen 464 -------L--FYSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLL 534 (689)
T ss_pred -------H--HHHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHH
Confidence 0 0001123455666665555 44568899999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHH
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMT 746 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~ 746 (1238)
++.|+.... ..|-++|..|+|+||+|++|+.|+|.+..|||...+||.+|+|||||+..|.||+|++++|+|+.++...
T Consensus 535 ~qsFQ~see-v~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l 613 (689)
T KOG1000|consen 535 CQSFQTSEE-VRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPML 613 (689)
T ss_pred HHHhccccc-eEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHH
Confidence 999997544 4457899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 000883 747 KKKMVLEHLV 756 (1238)
Q Consensus 747 ~~K~~l~~~v 756 (1238)
.+|+.....+
T Consensus 614 ~~KL~vl~s~ 623 (689)
T KOG1000|consen 614 QQKLDVLGSV 623 (689)
T ss_pred HHHHHHHhhc
Confidence 9998754443
No 17
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=6e-56 Score=510.20 Aligned_cols=484 Identities=32% Similarity=0.504 Sum_probs=374.3
Q ss_pred CCCcHHHHHHHHHHH---------HhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCCccHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLR---------FSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFA 353 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~---------~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~ 353 (1238)
..++|||+-|+.||. +.-+.|-|||||+.||||||+|+|+|+..++... .+.+|+|||-.|+.||..||.
T Consensus 253 ~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRhT~AKtVL~ivPiNTlQNWlsEfn 332 (1387)
T KOG1016|consen 253 HVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRHTKAKTVLVIVPINTLQNWLSEFN 332 (1387)
T ss_pred hhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhcCccceEEEEEehHHHHHHHHHhh
Confidence 469999999999883 2335688999999999999999999999887764 458999999999999999999
Q ss_pred HHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh-------------
Q 000883 354 TWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD------------- 420 (1238)
Q Consensus 354 ~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d------------- 420 (1238)
.|.|.+. .+.. ...+.++.+.-+...+.... ..+++.. -...-.|+++.|++++-.
T Consensus 333 mWiP~y~-----sD~~--vrpR~F~vf~LnD~~KT~~~-Rakvi~~---Wv~~GGVlLvGYemfRLL~lk~~~~~grpkk 401 (1387)
T KOG1016|consen 333 MWIPKYF-----SDTG--VRPRSFEVFLLNDGVKTFDQ-RAKVIEQ---WVQTGGVLLVGYEMFRLLILKTLPKKGRPKK 401 (1387)
T ss_pred hhcCCCc-----ccCC--CccceeEEEEecCchhhHHH-HHHHHHH---HhccCCEEEehHHHHHHHHHhcccccCCccc
Confidence 9998621 0000 01111222111111000000 0000000 011224888888887432
Q ss_pred -------------------------hcccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHH
Q 000883 421 -------------------------SASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELF 475 (1238)
Q Consensus 421 -------------------------~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~ 475 (1238)
...|-.-.-++||+||+|||||..+.++.+|+.+++++|+.|||-|+|||+.|+|
T Consensus 402 t~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYw 481 (1387)
T KOG1016|consen 402 TLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYW 481 (1387)
T ss_pred cccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHh
Confidence 1112222358999999999999999999999999999999999999999999999
Q ss_pred HHHhhhcCCCCCChHHHHHHHhchhh---------------HHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccC
Q 000883 476 MLMHFLDAGKFGSLEEFQEEFKDINQ---------------EEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVEL 540 (1238)
Q Consensus 476 ~ll~fL~p~~f~~~~~F~~~~~~~~~---------------~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~l 540 (1238)
.++.|+.|+.+++..+|...|..... .....-||.+|..|+-||+..-+.+.||.+.|+++.|.|
T Consensus 482 CMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk~~LP~k~EyViLvr~ 561 (1387)
T KOG1016|consen 482 CMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLKKILPEKKEYVILVRK 561 (1387)
T ss_pred hhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHhhhcccccceEEEEeH
Confidence 99999999999999999999964211 123456999999999999999998899999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc---------------------------------
Q 000883 541 SSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE--------------------------------- 587 (1238)
Q Consensus 541 s~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~--------------------------------- 587 (1238)
|..|+++|+.++......+...+....+.+..+.-..|+.|||-++.
T Consensus 562 s~iQR~LY~~Fm~d~~r~~~~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl~vee~~~ag~~~~~~P~~~ 641 (1387)
T KOG1016|consen 562 SQIQRQLYRNFMLDAKREIAANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDLRVEEMKFAGLQQQQSPFNS 641 (1387)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhhHHHHhhhcccccCCCCCC
Confidence 99999999998865554443333222233333344455558885320
Q ss_pred -CCCCC--------------------------------ccchHH--------HHHHHHhhhhHHHHHHHHHHHHHHcCCe
Q 000883 588 -GVEPD--------------------------------IEDTNE--------SFKQLLESSGKLQLLDKMMVKLKEQGHR 626 (1238)
Q Consensus 588 -~~e~~--------------------------------~~~~~~--------~~~~li~~S~Kl~~L~klL~~l~~~g~K 626 (1238)
+..+. +....+ ....++..++|+.++.+++..-..-|.|
T Consensus 642 ~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~g~k 721 (1387)
T KOG1016|consen 642 IPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENGPKIVISLEILDESTQIGEK 721 (1387)
T ss_pred CCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCCCceEEEEeeeccccccCce
Confidence 00000 000000 0112355678888888888888888999
Q ss_pred EEEEecchhHHHHHHHHHhhC------------------CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccc
Q 000883 627 VLIYSQFQHMLDLLEDYLTFK------------------KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGG 688 (1238)
Q Consensus 627 VLIFsq~~~~ldiL~~~L~~~------------------g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg 688 (1238)
+|||||....||+|+.+|..+ ..+|.|+||.++..+|+++|++||.+.+-.+.|||||+||.
T Consensus 722 il~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstrag~ 801 (1387)
T KOG1016|consen 722 ILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTRAGS 801 (1387)
T ss_pred EEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhcccc
Confidence 999999999999999999764 34689999999999999999999999888889999999999
Q ss_pred cccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcchh-hccCCH
Q 000883 689 LGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK-AQNINQ 767 (1238)
Q Consensus 689 ~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~~-~~~~~~ 767 (1238)
.||||-+|+.+||||.-|||-.+.||..|++|.||+|++.|||||+.+|+|.+|+.++-.|.++.+-|++... ..+++.
T Consensus 802 lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGmsdRvVDd~np~an~s~ 881 (1387)
T KOG1016|consen 802 LGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGMSDRVVDDANPDANISQ 881 (1387)
T ss_pred ccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccchhhhhcccCccccccH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998764 457999
Q ss_pred HHHHHHHHhch
Q 000883 768 EELDDIIRYGS 778 (1238)
Q Consensus 768 ~el~~ll~~ga 778 (1238)
.|++.||.+..
T Consensus 882 Ke~enLl~~~e 892 (1387)
T KOG1016|consen 882 KELENLLMYDE 892 (1387)
T ss_pred HHHHHHhhhhh
Confidence 99999998753
No 18
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=1.6e-52 Score=528.86 Aligned_cols=417 Identities=19% Similarity=0.275 Sum_probs=322.6
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCCccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~p~l~vv 362 (1238)
..|.|||+..+..+... ...++|||||||||||++|++++..+...+ .+|+|||||.+++.||..|+.+|+ ++.+.
T Consensus 151 ~~l~pHQl~~~~~vl~~--~~~R~LLADEvGLGKTIeAglil~~l~~~g~~~rvLIVvP~sL~~QW~~El~~kF-~l~~~ 227 (956)
T PRK04914 151 ASLIPHQLYIAHEVGRR--HAPRVLLADEVGLGKTIEAGMIIHQQLLTGRAERVLILVPETLQHQWLVEMLRRF-NLRFS 227 (956)
T ss_pred CCCCHHHHHHHHHHhhc--cCCCEEEEeCCcCcHHHHHHHHHHHHHHcCCCCcEEEEcCHHHHHHHHHHHHHHh-CCCeE
Confidence 56999999998776433 467899999999999999999999887654 469999999999999999999888 67777
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh---cccCCCceeEEEeccccc
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS---ASLKPIKWQCMIVDEGHR 439 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~---~~l~~i~w~~vIvDEaHr 439 (1238)
++.+...... . .. .......++++|+||+.+..+. ..+....|++|||||||+
T Consensus 228 i~~~~~~~~~-------~-~~----------------~~~pf~~~~~vI~S~~~l~~~~~~~~~l~~~~wdlvIvDEAH~ 283 (956)
T PRK04914 228 LFDEERYAEA-------Q-HD----------------ADNPFETEQLVICSLDFLRRNKQRLEQALAAEWDLLVVDEAHH 283 (956)
T ss_pred EEcCcchhhh-------c-cc----------------ccCccccCcEEEEEHHHhhhCHHHHHHHhhcCCCEEEEechhh
Confidence 7765542210 0 00 0011235789999999998754 446677999999999999
Q ss_pred ccC---cccHHHHHHHhc--ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh--------------
Q 000883 440 LKN---KDSKLFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN-------------- 500 (1238)
Q Consensus 440 lKN---~~S~~~~~l~~l--~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~-------------- 500 (1238)
+++ ..|+.++.+..+ +++++|+|||||+||++.|+|++|+||+|+.|+++..|.+......
T Consensus 284 lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~~~ 363 (956)
T PRK04914 284 LVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAGEK 363 (956)
T ss_pred hccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcCCc
Confidence 995 356778888887 4679999999999999999999999999999999999986543100
Q ss_pred -hHHHHHHHHHh------------------------------------hchhhhhhhHhHHhhcCCCcEEEEEeccCCHH
Q 000883 501 -QEEQISRLHRM------------------------------------LAPHLLRRVKKDVMKELPPKKELILRVELSSK 543 (1238)
Q Consensus 501 -~~~~~~~L~~~------------------------------------L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~ 543 (1238)
.......|..+ ..+.|+|+++++|. .+|++....+.++|.+.
T Consensus 364 ~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-~fp~R~~~~~~l~~~~~ 442 (956)
T PRK04914 364 LSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-GFPKRELHPIPLPLPEQ 442 (956)
T ss_pred CCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc-CCCcCceeEeecCCCHH
Confidence 01111112111 12568899999976 68999999999999764
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcc-cccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHH
Q 000883 544 QKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPY-MLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKE 622 (1238)
Q Consensus 544 Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~-L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~ 622 (1238)
|........ ...++++ .+|. ++.... ........++|+..|.++|..+
T Consensus 443 ----y~~~~~~~~----------------~~~~~~~-l~pe~~~~~~~--------~~~~~~~~d~Ki~~L~~~L~~~-- 491 (956)
T PRK04914 443 ----YQTAIKVSL----------------EARARDM-LYPEQIYQEFE--------DNATWWNFDPRVEWLIDFLKSH-- 491 (956)
T ss_pred ----HHHHHHHhH----------------HHHHHhh-cCHHHHHHHHh--------hhhhccccCHHHHHHHHHHHhc--
Confidence 332221100 0112221 1221 000000 0011234568999999988765
Q ss_pred cCCeEEEEecchhHHHHHHHHH-hhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYL-TFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII 701 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L-~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi 701 (1238)
.++||||||++..+++.|.+.| ...|+++..++|+++..+|+.+++.|++++.+. .+||+|.+||+|+||+.|++||+
T Consensus 492 ~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~-~VLIsTdvgseGlNlq~a~~VIn 570 (956)
T PRK04914 492 RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGA-QVLLCSEIGSEGRNFQFASHLVL 570 (956)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCc-cEEEechhhccCCCcccccEEEE
Confidence 3789999999999999999999 567999999999999999999999998754332 37899999999999999999999
Q ss_pred EcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHHHHHhcch
Q 000883 702 YDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL 760 (1238)
Q Consensus 702 ~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~~~vig~~ 760 (1238)
||.||||..++||+||+||+||++.|.||.+++++|+++.|++...+|+.+...+++..
T Consensus 571 fDlP~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~ 629 (956)
T PRK04914 571 FDLPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTG 629 (956)
T ss_pred ecCCCCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCH
Confidence 99999999999999999999999999999999999999999999999998887777543
No 19
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=3.6e-48 Score=473.24 Aligned_cols=437 Identities=30% Similarity=0.500 Sum_probs=357.3
Q ss_pred HHHHHHHHHHHH-hhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC--------CCCeEEEeCCccHHHHHHHHHHHcC-
Q 000883 288 PYQLEGLNFLRF-SWSKQTHVILADEMGLGKTIQSIAFLASLFGER--------ISPHLVVAPLSTLRNWEREFATWAP- 357 (1238)
Q Consensus 288 pyQlegv~wL~~-~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~--------~~p~LIVvP~sll~qW~~E~~~~~p- 357 (1238)
.+|..+..|+.. .+..-.|||+||+||+|||+++|+++....... .+-.|||||.+++.||..|+.+..+
T Consensus 135 ~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~s~~~qW~~elek~~~~ 214 (674)
T KOG1001|consen 135 LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPTSLLTQWKTELEKVTEE 214 (674)
T ss_pred HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecchHHHHHHHHHHhccCCc
Confidence 566666555532 334467899999999999999999988765432 2378999999999999999966663
Q ss_pred -CCcEEEEEc-ChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEec
Q 000883 358 -QMNVVMYVG-TSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVD 435 (1238)
Q Consensus 358 -~l~vv~~~g-~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvD 435 (1238)
.+.+.+|+| .+.. ....+++||||||.++.. ..+..+.|-.||+|
T Consensus 215 ~~l~v~v~~gr~kd~-------------------------------~el~~~dVVltTy~il~~--~~l~~i~w~Riild 261 (674)
T KOG1001|consen 215 DKLSIYVYHGRTKDK-------------------------------SELNSYDVVLTTYDILKN--SPLVKIKWLRIVLD 261 (674)
T ss_pred cceEEEEeccccccc-------------------------------chhcCCceEEeeHHHhhc--ccccceeEEEEEec
Confidence 477888888 2211 123578899999999975 67777999999999
Q ss_pred ccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh---h-HHHHHHHHHh
Q 000883 436 EGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN---Q-EEQISRLHRM 511 (1238)
Q Consensus 436 EaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~---~-~~~~~~L~~~ 511 (1238)
|||.++|.+++.++++..+.+.+||.|||||+||++.|||+++.|+.-+++.....|...+.... . ......+..+
T Consensus 262 ea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~~~~~k~l~~~ 341 (674)
T KOG1001|consen 262 EAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKYKEGVKTLQGI 341 (674)
T ss_pred cccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999988887775432 2 3567788899
Q ss_pred hchhhhhhhHhHH-----hhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhc------CCcchhHHHHHHHHHHHh
Q 000883 512 LAPHLLRRVKKDV-----MKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRR------GGAQISLINVVMELRKLC 580 (1238)
Q Consensus 512 L~p~~lRR~k~dv-----~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~------~~~~~~l~~i~~~Lrk~c 580 (1238)
|.++++||+|..- ...|||+...++.+.++..++.+|+.+........... ......++..+.+||++|
T Consensus 342 L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c 421 (674)
T KOG1001|consen 342 LKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLKNLLRLRQAC 421 (674)
T ss_pred HHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHc
Confidence 9999999999732 23699999999999999999999999987765554431 223456777788999999
Q ss_pred CCcccccCCCCCcc----chH-----------------------------------H---------------------HH
Q 000883 581 CHPYMLEGVEPDIE----DTN-----------------------------------E---------------------SF 600 (1238)
Q Consensus 581 ~hP~L~~~~e~~~~----~~~-----------------------------------~---------------------~~ 600 (1238)
+||.++-....... ... + ..
T Consensus 422 ~h~~lv~~~~~~~~~~~~~~~~~~~~i~~l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~ 501 (674)
T KOG1001|consen 422 DHSLLVMYEMDSLGDSGSAAALIIRLIVDLSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPCPLCRNVLKE 501 (674)
T ss_pred cchHhhhhhhhccccccccchHHHHHHHHHhhccccccccccccceeecccchHHHHHHHhccccccCCCCcHHHHHHHH
Confidence 99987632110000 000 0 00
Q ss_pred HHHHh-------------hhhHHHHHHHHHHHHHHcCC-eEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 601 KQLLE-------------SSGKLQLLDKMMVKLKEQGH-RVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 601 ~~li~-------------~S~Kl~~L~klL~~l~~~g~-KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
..++. .|.|+..+.++|........ +++||||++.++++++-.|...++.+.+++|.++...|...
T Consensus 502 ~~l~s~~~~~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s 581 (674)
T KOG1001|consen 502 KKLLSANPLPSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKS 581 (674)
T ss_pred HHHhhcccccchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhh
Confidence 01111 26777778888875444444 99999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHH
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMT 746 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~ 746 (1238)
+..|+. +....++|+|.+|||.|+||+.|++||++|++|||....||++||||+||+++|.|+||++++|+||+|+.++
T Consensus 582 ~~~~~~-~~~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~k~v~v~r~~i~dtveer~l~iq 660 (674)
T KOG1001|consen 582 FTDFPC-DPLVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQTKPVKVSRFIIKDTVEERILKIQ 660 (674)
T ss_pred hccccc-CccHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHHHHHHhcccceeeeeeehhhhccHHHHHHHH
Confidence 999994 4455568999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhc
Q 000883 747 KKKMVLEHLVVG 758 (1238)
Q Consensus 747 ~~K~~l~~~vig 758 (1238)
++|..+.....|
T Consensus 661 ~~K~~~~~~a~~ 672 (674)
T KOG1001|consen 661 EKKREYNASAFG 672 (674)
T ss_pred HHHHHHHhhhcc
Confidence 999998877655
No 20
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=100.00 E-value=1.1e-40 Score=382.27 Aligned_cols=272 Identities=42% Similarity=0.704 Sum_probs=227.7
Q ss_pred HHHHHHHHHHHhh---------cCCCceEEEcCCCChHHHHHHHHHHHHhhCCC----CCeEEEeCCccHHHHHHHHHHH
Q 000883 289 YQLEGLNFLRFSW---------SKQTHVILADEMGLGKTIQSIAFLASLFGERI----SPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 289 yQlegv~wL~~~~---------~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~----~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
||++||+||+..+ ...+|+|||||||+|||+++++++.++..... +++|||||.+++.+|..||.+|
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~~ 80 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEKW 80 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhccc
Confidence 8999999999998 78899999999999999999999998876543 2699999999999999999999
Q ss_pred c-C-CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHH-----hhhcccCCCc
Q 000883 356 A-P-QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMIN-----LDSASLKPIK 428 (1238)
Q Consensus 356 ~-p-~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~-----~d~~~l~~i~ 428 (1238)
+ | ++++++|.|....+.. .......++|+|+||+++. .....+..++
T Consensus 81 ~~~~~~~v~~~~~~~~~~~~--------------------------~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~ 134 (299)
T PF00176_consen 81 FDPDSLRVIIYDGDSERRRL--------------------------SKNQLPKYDVVITTYETLRKARKKKDKEDLKQIK 134 (299)
T ss_dssp SGT-TS-EEEESSSCHHHHT--------------------------TSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSE
T ss_pred cccccccccccccccccccc--------------------------cccccccceeeecccccccccccccccccccccc
Confidence 9 4 6899999888722211 0112357899999999999 6677888899
Q ss_pred eeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhc---hhhHHHH
Q 000883 429 WQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD---INQEEQI 505 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~---~~~~~~~ 505 (1238)
|++|||||||++||..+..++++..+.+.++|+|||||++|++.|||++++||.|+.+.+...|.+.|.. .......
T Consensus 135 ~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~~~~~~ 214 (299)
T PF00176_consen 135 WDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKENSYENI 214 (299)
T ss_dssp EEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTHHHHHH
T ss_pred ceeEEEecccccccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999998843 3456778
Q ss_pred HHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcC----CcchhHHHHHHHHHHHhC
Q 000883 506 SRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRG----GAQISLINVVMELRKLCC 581 (1238)
Q Consensus 506 ~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~----~~~~~l~~i~~~Lrk~c~ 581 (1238)
..|..+++++++||+++++...+|+..+.++.|+||+.|+..|+.+.......+.... .....++..+++||++|+
T Consensus 215 ~~L~~~l~~~~~r~~~~d~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~c~ 294 (299)
T PF00176_consen 215 ERLRELLSEFMIRRTKKDVEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQSSRKKSKKLSSLLQILKRLRQVCN 294 (299)
T ss_dssp HHHHHHHCCCEECHCGGGGCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T--TCHHHHHHHHHHHHHHHHHH
T ss_pred cccccccchhhhhhhcccccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHhC
Confidence 9999999999999999999889999999999999999999999998887665544333 234578899999999999
Q ss_pred Ccccc
Q 000883 582 HPYML 586 (1238)
Q Consensus 582 hP~L~ 586 (1238)
||+|+
T Consensus 295 hp~l~ 299 (299)
T PF00176_consen 295 HPYLV 299 (299)
T ss_dssp -THHC
T ss_pred CcccC
Confidence 99984
No 21
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.6e-37 Score=377.50 Aligned_cols=340 Identities=16% Similarity=0.264 Sum_probs=253.8
Q ss_pred CCCCcHHHHHHHHHHHHhhcCC--CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc-HHHHHHHHHHHc--C
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQ--THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST-LRNWEREFATWA--P 357 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~--~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl-l~qW~~E~~~~~--p 357 (1238)
..+|||||.++++++. .++ ++|||.++||+|||+++++++..+ .+++|||||.+. +.||.++|.+|+ +
T Consensus 253 ~~~LRpYQ~eAl~~~~---~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~~~l~ 325 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMF---GNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMWSTID 325 (732)
T ss_pred CCCcCHHHHHHHHHHH---hcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHhcCCC
Confidence 4789999999998873 333 589999999999999999988876 258999999765 789999999997 3
Q ss_pred CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----------hcccCCC
Q 000883 358 QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----------SASLKPI 427 (1238)
Q Consensus 358 ~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----------~~~l~~i 427 (1238)
...+..|+|....+. ....+|+|+||+++... ...|...
T Consensus 326 ~~~I~~~tg~~k~~~-------------------------------~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~ 374 (732)
T TIGR00603 326 DSQICRFTSDAKERF-------------------------------HGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNR 374 (732)
T ss_pred CceEEEEecCccccc-------------------------------ccCCcEEEEEHHHhhcccccchhhhHHHHHhccc
Confidence 455666776532210 12357999999998643 2345556
Q ss_pred ceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhh-cCCCCCChHHHHHHHhchhhHHHHH
Q 000883 428 KWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFL-DAGKFGSLEEFQEEFKDINQEEQIS 506 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL-~p~~f~~~~~F~~~~~~~~~~~~~~ 506 (1238)
.|++||+||||++.+ ....+.+..+.+.+||+|||||++++- .+..++++ .|..+
T Consensus 375 ~~gLII~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD~--~~~~L~~LiGP~vy-------------------- 430 (732)
T TIGR00603 375 EWGLILLDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVREDD--KITDLNFLIGPKLY-------------------- 430 (732)
T ss_pred cCCEEEEEccccccH--HHHHHHHHhcCcCcEEEEeecCcccCC--chhhhhhhcCCeee--------------------
Confidence 899999999999964 344456777889999999999998762 23333333 33322
Q ss_pred HHHHhhchhhhhhhHhHHh--hcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcc
Q 000883 507 RLHRMLAPHLLRRVKKDVM--KELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPY 584 (1238)
Q Consensus 507 ~L~~~L~p~~lRR~k~dv~--~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~ 584 (1238)
+-.-.++. ..|.+.....|+|+|++.....|. ... . . .+..
T Consensus 431 -----------e~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl---~~~-------~-~----------~k~~----- 473 (732)
T TIGR00603 431 -----------EANWMELQKKGFIANVQCAEVWCPMTPEFYREYL---REN-------S-R----------KRML----- 473 (732)
T ss_pred -----------ecCHHHHHhCCccccceEEEEEecCCHHHHHHHH---Hhc-------c-h----------hhhH-----
Confidence 11111221 246777788999999987544442 110 0 0 0000
Q ss_pred cccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHH
Q 000883 585 MLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQ 664 (1238)
Q Consensus 585 L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~ 664 (1238)
....+..|+..+..++......|+|+||||+++..++.+...|. ...|+|.++..+|.
T Consensus 474 -----------------l~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----~~~I~G~ts~~ER~ 531 (732)
T TIGR00603 474 -----------------LYVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQQERM 531 (732)
T ss_pred -----------------HhhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----CceEECCCCHHHHH
Confidence 01124578899999988776789999999999998888887773 34589999999999
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC-ChhhhhHHHHHHhhhCCCC-----ceEEEEEecCCCH
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW-NPHADLQAMARAHRLGQTN-----KVMIFRLITRGSI 738 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW-Np~~~~Qa~gR~hRiGQ~k-----~V~VyrLvt~~Tv 738 (1238)
.++++|+.++ .+.+|++|++|++||||+.|++||++++++ |+..++||+||+.|.+..+ +..+|.||+++|.
T Consensus 532 ~il~~Fr~~~--~i~vLv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~ 609 (732)
T TIGR00603 532 QILQNFQHNP--KVNTIFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQ 609 (732)
T ss_pred HHHHHHHhCC--CccEEEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCch
Confidence 9999998543 234678889999999999999999999986 9999999999999998764 3789999999999
Q ss_pred HHHHHHH
Q 000883 739 EERMMQM 745 (1238)
Q Consensus 739 EE~I~~~ 745 (1238)
|+..-.+
T Consensus 610 E~~~s~~ 616 (732)
T TIGR00603 610 EMYYSTK 616 (732)
T ss_pred HHHHHHH
Confidence 9877543
No 22
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=1.4e-32 Score=354.70 Aligned_cols=430 Identities=17% Similarity=0.203 Sum_probs=282.8
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC--CCc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAP--QMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p--~l~ 360 (1238)
.++|+||.+.+..+. .+++|++++||+|||++++.++..++....+++|||||+ .++.||..++.+++. ..+
T Consensus 14 ~~~r~yQ~~~~~~~l-----~~n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~ 88 (773)
T PRK13766 14 IEARLYQQLLAATAL-----KKNTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEK 88 (773)
T ss_pred CCccHHHHHHHHHHh-----cCCeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCce
Confidence 578999999887652 238999999999999999888887765555799999997 777899999998863 247
Q ss_pred EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEecccc
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvDEaH 438 (1238)
+++++|........ ++ ....+|+|+|++.+..+. ..+..-.|++|||||||
T Consensus 89 v~~~~g~~~~~~r~---~~------------------------~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH 141 (773)
T PRK13766 89 IVVFTGEVSPEKRA---EL------------------------WEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAH 141 (773)
T ss_pred EEEEeCCCCHHHHH---HH------------------------HhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCc
Confidence 88888865432211 11 124679999999997653 33344478999999999
Q ss_pred cccCcccHHHHHHHhc---ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChH----HHHHHH-------hchhhHHH
Q 000883 439 RLKNKDSKLFSSLKQY---STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLE----EFQEEF-------KDINQEEQ 504 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l---~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~----~F~~~~-------~~~~~~~~ 504 (1238)
++.+..+..+.+-... ...++++|||||.++ ...+..+++-|....+.-+. .....+ ....-...
T Consensus 142 ~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~ 220 (773)
T PRK13766 142 RAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEE 220 (773)
T ss_pred cccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHH
Confidence 9987665544332222 234589999999765 56677777666533321111 111111 11222355
Q ss_pred HHHHHHhhchhhhhhhHhHHhhc-CCCcEEEEEeccCCHHHHHHHHHHHHHHHH---HHH---------h-----cCCcc
Q 000883 505 ISRLHRMLAPHLLRRVKKDVMKE-LPPKKELILRVELSSKQKEYYKAILTRNYQ---ILT---------R-----RGGAQ 566 (1238)
Q Consensus 505 ~~~L~~~L~p~~lRR~k~dv~~~-LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~---~l~---------~-----~~~~~ 566 (1238)
+..++..|..++.++.+...... .++....+....+...++.++..+...... .+. . .....
T Consensus 221 ~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~ 300 (773)
T PRK13766 221 LKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGV 300 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCH
Confidence 67788888888887777644222 222221112222233333333222110000 000 0 00001
Q ss_pred hhHHHHHHHHHHHhCCcccccCCCCCccc------hHHHHHHHHhhhhHHHHHHHHHHHHH--HcCCeEEEEecchhHHH
Q 000883 567 ISLINVVMELRKLCCHPYMLEGVEPDIED------TNESFKQLLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLD 638 (1238)
Q Consensus 567 ~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~------~~~~~~~li~~S~Kl~~L~klL~~l~--~~g~KVLIFsq~~~~ld 638 (1238)
..+...+..++....++....... .... .......+...++|+..|.++|.... ..+.|+||||++..+++
T Consensus 301 ~~~~~y~~~l~~~~~~~~~~~~~~-~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~ 379 (773)
T PRK13766 301 EALRRYLERLREEARSSGGSKASK-RLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAE 379 (773)
T ss_pred HHHHHHHHHHHhhccccCCcHHHH-HHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHH
Confidence 112222222222211110000000 0000 00011222345789999999998876 46899999999999999
Q ss_pred HHHHHHhhCCCcEEEEeCC--------CCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhh
Q 000883 639 LLEDYLTFKKWQYERIDGK--------VGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHA 710 (1238)
Q Consensus 639 iL~~~L~~~g~~~~ridG~--------~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~ 710 (1238)
.|.++|...|+.+.+++|. ++..+|+.++++|+.+.. .+|++|.++++|+|++.+++||+||++|||..
T Consensus 380 ~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~---~vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r 456 (773)
T PRK13766 380 KIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEF---NVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIR 456 (773)
T ss_pred HHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCC---CEEEECChhhcCCCcccCCEEEEeCCCCCHHH
Confidence 9999999999999999997 788899999999987643 47999999999999999999999999999999
Q ss_pred hhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHH
Q 000883 711 DLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1238)
Q Consensus 711 ~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~ 753 (1238)
++|+.||++|.|+ +.||.|++++|+||.++....+|....
T Consensus 457 ~iQR~GR~gR~~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 457 SIQRKGRTGRQEE---GRVVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred HHHHhcccCcCCC---CEEEEEEeCCChHHHHHHHhhHHHHHH
Confidence 9998888877664 789999999999999988776655443
No 23
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.97 E-value=1.2e-30 Score=320.01 Aligned_cols=256 Identities=25% Similarity=0.466 Sum_probs=197.6
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHh------------hCC-----CCCeEEEeCCccHHHHHHHHHHHcCCC-cEEE
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLF------------GER-----ISPHLVVAPLSTLRNWEREFATWAPQM-NVVM 363 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~------------~~~-----~~p~LIVvP~sll~qW~~E~~~~~p~l-~vv~ 363 (1238)
..|..+++|||||+|||...++....-. ..+ .|.+|||||.+++.||..||.++++.. .|..
T Consensus 372 ~~g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~lKv~~ 451 (1394)
T KOG0298|consen 372 KHGKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSLLKVLL 451 (1394)
T ss_pred cCCcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccccceEEE
Confidence 4466789999999999998877654321 111 357999999999999999999999876 9999
Q ss_pred EEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----------------------h
Q 000883 364 YVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----------------------S 421 (1238)
Q Consensus 364 ~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----------------------~ 421 (1238)
|-|....-.. .......+|||+|||+.++.+ .
T Consensus 452 Y~Girk~~~~--------------------------~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~ 505 (1394)
T KOG0298|consen 452 YFGIRKTFWL--------------------------SPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPN 505 (1394)
T ss_pred Eechhhhccc--------------------------CchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCC
Confidence 9987653210 012347899999999999765 2
Q ss_pred cccCCCceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhh
Q 000883 422 ASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQ 501 (1238)
Q Consensus 422 ~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~ 501 (1238)
+.|-.+.|-.||+|||+-+...+|...+.+..+.+.++|.+||||+|+ +.+||.||.||...+|.....|.+.....-.
T Consensus 506 SPL~~v~wWRIclDEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~ 584 (1394)
T KOG0298|consen 506 SPLLMVNWWRICLDEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQ 584 (1394)
T ss_pred CchHHHHHHHHhhhHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHH
Confidence 234456799999999999999999999999999999999999999999 9999999999999999999888776543211
Q ss_pred -HHHHHHHHHhhchhhhhhhHhHHhh--cCCCcEEEEEeccCCHHHHHHHHHHHHHH-------HHHHHhc---CC----
Q 000883 502 -EEQISRLHRMLAPHLLRRVKKDVMK--ELPPKKELILRVELSSKQKEYYKAILTRN-------YQILTRR---GG---- 564 (1238)
Q Consensus 502 -~~~~~~L~~~L~p~~lRR~k~dv~~--~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~-------~~~l~~~---~~---- 564 (1238)
......+++++...+-|+.|.+|.. .+||-.+.+....+++.+..+|+...... ...+.+. +.
T Consensus 585 ~ra~~~~~~dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~ 664 (1394)
T KOG0298|consen 585 LRAKCEPLLDLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLA 664 (1394)
T ss_pred HHhhhhhHHHHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccc
Confidence 1334467888888999999998876 57999899999999999887776543221 1122210 00
Q ss_pred -----cchhHHHHHHHHHHHhCCcc
Q 000883 565 -----AQISLINVVMELRKLCCHPY 584 (1238)
Q Consensus 565 -----~~~~l~~i~~~Lrk~c~hP~ 584 (1238)
....+++-+.+||++|+||-
T Consensus 665 ~l~~~~~a~i~~~l~rLRq~Cchpl 689 (1394)
T KOG0298|consen 665 SLSPQLLAIILKWLLRLRQACCHPL 689 (1394)
T ss_pred cCChhhHHHHHHHHHHHHHhhcccc
Confidence 12357788899999999984
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.97 E-value=5.9e-28 Score=275.10 Aligned_cols=419 Identities=18% Similarity=0.242 Sum_probs=268.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc--CCCc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA--PQMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~--p~l~ 360 (1238)
.+.|.||+.-+.-. -.+|++++.++|||||++|+.++...+....+.+|+++|+ -|+.|-..-|.+.+ |...
T Consensus 14 ie~R~YQ~~i~a~a-----l~~NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~ 88 (542)
T COG1111 14 IEPRLYQLNIAAKA-----LFKNTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGIPEDE 88 (542)
T ss_pred ccHHHHHHHHHHHH-----hhcCeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCCChhh
Confidence 46899999876543 2359999999999999999999987766655689999995 66677777777776 6678
Q ss_pred EEEEEcChhH--HHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEecc
Q 000883 361 VVMYVGTSQA--RNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVDE 436 (1238)
Q Consensus 361 vv~~~g~~~~--r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvDE 436 (1238)
++.+.|.-.. |..+ ..+..|++.|++++.+|. ..+..-.+.+||+||
T Consensus 89 i~~ltGev~p~~R~~~-----------------------------w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDE 139 (542)
T COG1111 89 IAALTGEVRPEEREEL-----------------------------WAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDE 139 (542)
T ss_pred eeeecCCCChHHHHHH-----------------------------HhhCCEEEeccHHHHhHHhcCccChHHceEEEech
Confidence 8889987543 3221 235579999999998874 345555789999999
Q ss_pred cccccCcccHHHHHH--Hhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCC-------ChHHHHHH----HhchhhH
Q 000883 437 GHRLKNKDSKLFSSL--KQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFG-------SLEEFQEE----FKDINQE 502 (1238)
Q Consensus 437 aHrlKN~~S~~~~~l--~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~-------~~~~F~~~----~~~~~~~ 502 (1238)
|||.-+..+-.+-+= ..... .+.|+||||| -++.+.+...++-|..+... +...+... +-.+.-.
T Consensus 140 AHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASP-Gs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp 218 (542)
T COG1111 140 AHRAVGNYAYVFVAKEYLRSAKNPLILGLTASP-GSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLP 218 (542)
T ss_pred hhhccCcchHHHHHHHHHHhccCceEEEEecCC-CCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCc
Confidence 999977766544333 33333 3679999999 46666677666666544321 11111110 0111122
Q ss_pred HHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcC-CcchhHHHHHHHHHHHhC
Q 000883 503 EQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRG-GAQISLINVVMELRKLCC 581 (1238)
Q Consensus 503 ~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~-~~~~~l~~i~~~Lrk~c~ 581 (1238)
..+..+.+.|+..+-.|++.--... ......+ -.++.+.... .......... ...-.++.++..+-++ .
T Consensus 219 ~e~~~ir~~l~~~l~~~Lk~L~~~g-----~~~~~~~--~~~kdl~~~~--~~~~~~a~~~~~~~~~~l~~~a~~~kl-~ 288 (542)
T COG1111 219 EEIKEIRDLLRDALKPRLKPLKELG-----VIESSSP--VSKKDLLELR--QIRLIMAKNEDSDKFRLLSVLAEAIKL-A 288 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcC-----ceeccCc--ccHhHHHHHH--HHHHHhccCccHHHHHHHHHHHHHHHH-H
Confidence 3333333333333322222211100 1111111 1122222222 0000000000 0000111111111111 1
Q ss_pred Cc--------------cccc---CCCC-Cc---------cchHHHHHHHH------hhhhHHHHHHHHHHHHH--HcCCe
Q 000883 582 HP--------------YMLE---GVEP-DI---------EDTNESFKQLL------ESSGKLQLLDKMMVKLK--EQGHR 626 (1238)
Q Consensus 582 hP--------------~L~~---~~e~-~~---------~~~~~~~~~li------~~S~Kl~~L~klL~~l~--~~g~K 626 (1238)
|+ ||.. .... .. ......+..++ -..+||..+.+++.+.. ..+.|
T Consensus 289 ~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~R 368 (542)
T COG1111 289 HALELLETQGIRPFYQYLEKLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSR 368 (542)
T ss_pred HHHHHHHhhChHHHHHHHHHHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCce
Confidence 10 1100 0000 00 00001111111 13689999999999876 56789
Q ss_pred EEEEecchhHHHHHHHHHhhCCCcEE-EEeC--------CCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCC
Q 000883 627 VLIYSQFQHMLDLLEDYLTFKKWQYE-RIDG--------KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATAD 697 (1238)
Q Consensus 627 VLIFsq~~~~ldiL~~~L~~~g~~~~-ridG--------~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad 697 (1238)
||||+++..+++.|.++|...|.... ++-| ++++.+..++|+.|.++.-+ +|++|..|.+|||++.+|
T Consensus 369 vIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~n---VLVaTSVgEEGLDIp~vD 445 (542)
T COG1111 369 VIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYN---VLVATSVGEEGLDIPEVD 445 (542)
T ss_pred EEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCce---EEEEcccccccCCCCccc
Confidence 99999999999999999999888875 6665 37888899999999886655 899999999999999999
Q ss_pred EEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHHHH
Q 000883 698 TVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1238)
Q Consensus 698 ~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~l~ 753 (1238)
.||+||+.-+|-..+||+||.+| ++.-.||-|+++||-||.-+..+.+|..-.
T Consensus 446 lVifYEpvpSeIR~IQR~GRTGR---~r~Grv~vLvt~gtrdeayy~~s~rke~~m 498 (542)
T COG1111 446 LVIFYEPVPSEIRSIQRKGRTGR---KRKGRVVVLVTEGTRDEAYYYSSRRKEQKM 498 (542)
T ss_pred EEEEecCCcHHHHHHHhhCcccc---CCCCeEEEEEecCchHHHHHHHHHHHHHHH
Confidence 99999999999999999999988 477889999999999999999998886543
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.96 E-value=3e-28 Score=292.28 Aligned_cols=362 Identities=20% Similarity=0.295 Sum_probs=269.4
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC-c
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM-N 360 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l-~ 360 (1238)
..+|||||.++++-+...+...+.+++..++|.|||+.++.++..+.. ++|||||. .++.||...+.+++... .
T Consensus 34 ~~~lr~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~~----~~Lvlv~~~~L~~Qw~~~~~~~~~~~~~ 109 (442)
T COG1061 34 EFELRPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELKR----STLVLVPTKELLDQWAEALKKFLLLNDE 109 (442)
T ss_pred CCCCcHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhcC----CEEEEECcHHHHHHHHHHHHHhcCCccc
Confidence 367999999999776666666889999999999999999999887754 39999995 77799998888877432 3
Q ss_pred EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCcccccccccccc-ccEEEecHHHHHhhh--cccCCCceeEEEeccc
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIK-FDVLLTSYEMINLDS--ASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~-fdVvItSye~l~~d~--~~l~~i~w~~vIvDEa 437 (1238)
+..+.|.... .. ..|.|+||+++.+.. ..+..-.|++||+|||
T Consensus 110 ~g~~~~~~~~----------------------------------~~~~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~ 155 (442)
T COG1061 110 IGIYGGGEKE----------------------------------LEPAKVTVATVQTLARRQLLDEFLGNEFGLIIFDEV 155 (442)
T ss_pred cceecCceec----------------------------------cCCCcEEEEEhHHHhhhhhhhhhcccccCEEEEEcc
Confidence 3344433211 11 469999999998853 3333337999999999
Q ss_pred ccccCcccHHHHHHHhccccc-EEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhh
Q 000883 438 HRLKNKDSKLFSSLKQYSTRH-RVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHL 516 (1238)
Q Consensus 438 HrlKN~~S~~~~~l~~l~~~~-rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~ 516 (1238)
|++.....+.. +..+...+ +|+|||||...+...+ ..+...+.|..
T Consensus 156 Hh~~a~~~~~~--~~~~~~~~~~LGLTATp~R~D~~~~-------------------------------~~l~~~~g~~v 202 (442)
T COG1061 156 HHLPAPSYRRI--LELLSAAYPRLGLTATPEREDGGRI-------------------------------GDLFDLIGPIV 202 (442)
T ss_pred ccCCcHHHHHH--HHhhhcccceeeeccCceeecCCch-------------------------------hHHHHhcCCeE
Confidence 99876554433 33334445 9999999964432222 22333333333
Q ss_pred hhhhHhHHh--hcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 517 LRRVKKDVM--KELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 517 lRR~k~dv~--~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
......+.+ ..|.|.....+.+.++......|.....+....+..... . .
T Consensus 203 y~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~------~----------------------~ 254 (442)
T COG1061 203 YEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT------L----------------------R 254 (442)
T ss_pred eecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhh------h----------------------h
Confidence 333333332 358899999999999999998888776655444432221 0 0
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCC
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKN 674 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~ 674 (1238)
..............|+..+..++.... ++.+++||+..+...+.+...+...|+ +..++|.++..+|.++++.|..+.
T Consensus 255 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~ 332 (442)
T COG1061 255 AENEARRIAIASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGG 332 (442)
T ss_pred HHHHHHHHhhccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCC
Confidence 011112333446678888888888766 799999999999999999999998888 999999999999999999998865
Q ss_pred CCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhh-CCCCc--eEEEEEecCCCHHHHHHHHHHH
Q 000883 675 SSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL-GQTNK--VMIFRLITRGSIEERMMQMTKK 748 (1238)
Q Consensus 675 s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRi-GQ~k~--V~VyrLvt~~TvEE~I~~~~~~ 748 (1238)
+.+|++++.+++|+|++.|+++|+..+.=++..++|++||+.|. ..++. +..|-++..++.+..+......
T Consensus 333 ---~~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (442)
T COG1061 333 ---IKVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRRL 406 (442)
T ss_pred ---CCEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhhh
Confidence 45899999999999999999999999999999999999999994 44444 7788888888888877665554
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.96 E-value=3.7e-27 Score=288.26 Aligned_cols=336 Identities=15% Similarity=0.177 Sum_probs=229.7
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc--CCC
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA--PQM 359 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~--p~l 359 (1238)
...|||||.+++.-+. .+.++||..++|+|||++++.++..+.....+++|||||. .++.||.++|.+|. |..
T Consensus 112 ~~~~r~~Q~~av~~~l----~~~~~il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~ 187 (501)
T PHA02558 112 KIEPHWYQYDAVYEGL----KNNRRLLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLFPRE 187 (501)
T ss_pred cCCCCHHHHHHHHHHH----hcCceEEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhcccccc
Confidence 3689999999986542 4567899999999999988776666555554599999996 88899999999976 322
Q ss_pred cEE-EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 360 NVV-MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 360 ~vv-~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
.+. ++.|... ....+|+|+|++.+.+....+ --.+++|||||||
T Consensus 188 ~~~~i~~g~~~----------------------------------~~~~~I~VaT~qsl~~~~~~~-~~~~~~iIvDEaH 232 (501)
T PHA02558 188 AMHKIYSGTAK----------------------------------DTDAPIVVSTWQSAVKQPKEW-FDQFGMVIVDECH 232 (501)
T ss_pred ceeEEecCccc----------------------------------CCCCCEEEeeHHHHhhchhhh-ccccCEEEEEchh
Confidence 332 2222211 124579999999987643221 1267899999999
Q ss_pred cccCcccHHHHHHHhc-ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhh
Q 000883 439 RLKNKDSKLFSSLKQY-STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLL 517 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l-~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~l 517 (1238)
++... .....+..+ ++.++++|||||-...... ..+..++.|-..
T Consensus 233 ~~~~~--~~~~il~~~~~~~~~lGLTATp~~~~~~~-~~~~~~fG~i~~------------------------------- 278 (501)
T PHA02558 233 LFTGK--SLTSIITKLDNCKFKFGLTGSLRDGKANI-LQYVGLFGDIFK------------------------------- 278 (501)
T ss_pred cccch--hHHHHHHhhhccceEEEEeccCCCccccH-HHHHHhhCCceE-------------------------------
Confidence 99753 244555566 4678999999995432211 111111221110
Q ss_pred hhhHhHHh--hcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccc
Q 000883 518 RRVKKDVM--KELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIED 595 (1238)
Q Consensus 518 RR~k~dv~--~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~ 595 (1238)
+-...++. ..+.+.....+.+..++.....+. .. .+
T Consensus 279 ~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~-------------~~---~~-------------------------- 316 (501)
T PHA02558 279 PVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLK-------------GE---DY-------------------------- 316 (501)
T ss_pred EecHHHHHhCCCcCCceEEEEeccCCHHHhhhhc-------------cc---ch--------------------------
Confidence 00001111 122233334444444432111000 00 00
Q ss_pred hHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCC
Q 000883 596 TNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNS 675 (1238)
Q Consensus 596 ~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s 675 (1238)
...+..+.....+..++.+++..+.+.|+++|||+..+..++.|.+.|...|+++..++|+++.++|..+++.|+.+.
T Consensus 317 -~~~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~- 394 (501)
T PHA02558 317 -QEEIKYITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK- 394 (501)
T ss_pred -HHHHHHHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC-
Confidence 001122333445666777777777778999999999999999999999999999999999999999999999997532
Q ss_pred CceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC-ceEEEEEecCC
Q 000883 676 SRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN-KVMIFRLITRG 736 (1238)
Q Consensus 676 ~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k-~V~VyrLvt~~ 736 (1238)
..+++.|++..|+|+|++.+|+||+++|.-+...++|++||++|.+..| .+.||.++-.-
T Consensus 395 -~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~ 455 (501)
T PHA02558 395 -GIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDL 455 (501)
T ss_pred -CeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeeccc
Confidence 2334445599999999999999999999999999999999999998765 68999998643
No 27
>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins. This domain is often found in conjunction with IPR000330 from INTERPRO, IPR001650 from INTERPRO, IPR009463 from INTERPRO, IPR000953 from INTERPRO and IPR001965 from INTERPRO.
Probab=99.95 E-value=2.2e-28 Score=236.14 Aligned_cols=132 Identities=57% Similarity=0.958 Sum_probs=122.1
Q ss_pred CCCCCcccccccCCCCCCCCccccccchhccCCChHHHHHHHHHHHhcCCCCcchhhhchhhcCCCHHHHHHHHHHHHHh
Q 000883 937 PGRKPNKKRSRVDSMEPPPLMEGEGRSFRVLGFSQNQRAAFVQILMRFGVGDFDWKEFTPRLKQKSYEEIREYGILFLTH 1016 (1238)
Q Consensus 937 ~~~~~~~~~~~~~~~~~~pl~~~e~~~l~~~GF~~~~rr~Fi~a~~kfG~~~~~~~~i~~el~~Ks~~Evk~Y~~~F~~~ 1016 (1238)
..++|++++.+ ++.+++||++++++++.|+|||..||+.|++++||||+++++|.|+.++|.+||.+||++|+.+||.|
T Consensus 10 ~~r~~~rkk~r-~~~~~pPLm~~~g~~l~VlGFn~rQR~~Fln~vMR~G~~~f~~~w~~~~Lr~Ks~~ei~aY~~LFm~H 88 (145)
T PF06461_consen 10 TGRRPSRKKRR-DNKDPPPLMAGVGGQLEVLGFNPRQRKAFLNAVMRYGMGAFDWKWFVPRLRGKSEKEIRAYGSLFMRH 88 (145)
T ss_pred ccccccccccc-cCCCCCCccccCCCceEEeccCHHHHHHHHHHHHHHCcCcccchHHhhhhccccHHHHHHHHHHHHHH
Confidence 34556666655 55566999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcccC-CCcccCCCccCccchHHHHHHHHHHHHHHHHHHhccCCCCCCCccc
Q 000883 1017 ITEDITD-SPTFSDGVPKEGLRIQDVLVRIAVLLLIRDKVKFLSQKPGTPLFTD 1069 (1238)
Q Consensus 1017 ~~e~~~d-~~~~~~~i~k~~~k~~~vl~ri~~~~ll~~Kv~~~~~~p~~~~~~~ 1069 (1238)
+||+++| ++.|+|||||+++++++||+||++|+||++||++|+++|..+.||.
T Consensus 89 L~E~~~d~s~tfsDGVPkEgl~~q~VL~RIgvm~LIr~KV~e~e~~ng~~s~p~ 142 (145)
T PF06461_consen 89 LCEPGTDNSDTFSDGVPKEGLRRQDVLVRIGVMSLIRKKVQEFEHINGTWSFPE 142 (145)
T ss_pred hcCCCcCCCCccCCCCccCCCcHHHHHHHHHHHHHHHHHHHHHHcCCCCccCch
Confidence 9999988 8999999999999999999999999999999999999998888774
No 28
>PTZ00110 helicase; Provisional
Probab=99.91 E-value=1.6e-22 Score=249.31 Aligned_cols=319 Identities=17% Similarity=0.254 Sum_probs=215.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHH-HHHHHHhhC-----CCC-CeEEEeCC-ccHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSI-AFLASLFGE-----RIS-PHLVVAPL-STLRNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqai-a~l~~l~~~-----~~~-p~LIVvP~-sll~qW~~E~~~~ 355 (1238)
.++.|+|.+++..+ ..+.++|+..++|+|||++.+ ..+..+... ..+ .+|||||+ .|..|+..++.++
T Consensus 151 ~~pt~iQ~~aip~~----l~G~dvI~~ApTGSGKTlaylLP~l~~i~~~~~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~ 226 (545)
T PTZ00110 151 TEPTPIQVQGWPIA----LSGRDMIGIAETGSGKTLAFLLPAIVHINAQPLLRYGDGPIVLVLAPTRELAEQIREQCNKF 226 (545)
T ss_pred CCCCHHHHHHHHHH----hcCCCEEEEeCCCChHHHHHHHHHHHHHHhcccccCCCCcEEEEECChHHHHHHHHHHHHHH
Confidence 35889999998655 578899999999999999864 344444332 123 47999996 6778899999988
Q ss_pred cCC--CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCceeE
Q 000883 356 APQ--MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQC 431 (1238)
Q Consensus 356 ~p~--l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w~~ 431 (1238)
... +++.+.+|.......+... ....+|+|+|++.+..... .+.--...+
T Consensus 227 ~~~~~i~~~~~~gg~~~~~q~~~l--------------------------~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~ 280 (545)
T PTZ00110 227 GASSKIRNTVAYGGVPKRGQIYAL--------------------------RRGVEILIACPGRLIDFLESNVTNLRRVTY 280 (545)
T ss_pred hcccCccEEEEeCCCCHHHHHHHH--------------------------HcCCCEEEECHHHHHHHHHcCCCChhhCcE
Confidence 743 5555566554433322211 1246899999988754321 122234678
Q ss_pred EEecccccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHH
Q 000883 432 MIVDEGHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRL 508 (1238)
Q Consensus 432 vIvDEaHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L 508 (1238)
|||||||++.... ..+...+..+.. ...+++|||.- .++-.+..
T Consensus 281 lViDEAd~mld~gf~~~i~~il~~~~~~~q~l~~SAT~p----~~v~~l~~----------------------------- 327 (545)
T PTZ00110 281 LVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWP----KEVQSLAR----------------------------- 327 (545)
T ss_pred EEeehHHhhhhcchHHHHHHHHHhCCCCCeEEEEEeCCC----HHHHHHHH-----------------------------
Confidence 9999999987543 234444445543 45688999951 11111100
Q ss_pred HHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccC
Q 000883 509 HRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 509 ~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
.++. ..| ..+.+.... ... . . .+++ ..+
T Consensus 328 -~l~~-------------~~~----v~i~vg~~~--l~~---------------~-~---------~i~q---~~~---- 355 (545)
T PTZ00110 328 -DLCK-------------EEP----VHVNVGSLD--LTA---------------C-H---------NIKQ---EVF---- 355 (545)
T ss_pred -HHhc-------------cCC----EEEEECCCc--ccc---------------C-C---------CeeE---EEE----
Confidence 0000 000 001110000 000 0 0 0000 000
Q ss_pred CCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHH
Q 000883 589 VEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRID 668 (1238)
Q Consensus 589 ~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~ 668 (1238)
.+....|...|..+|..+...+.++|||++.....+.|...|...|++...++|.++..+|..+++
T Consensus 356 --------------~~~~~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~ 421 (545)
T PTZ00110 356 --------------VVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLN 421 (545)
T ss_pred --------------EEechhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHH
Confidence 011233555666777776667889999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 669 ~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
.|..+... +|++|.++++|||++.+++||+||.++++..++|++||++|.|.+.. +|.|++.+
T Consensus 422 ~F~~G~~~---ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~--ai~~~~~~ 484 (545)
T PTZ00110 422 EFKTGKSP---IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGA--SYTFLTPD 484 (545)
T ss_pred HHhcCCCc---EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCce--EEEEECcc
Confidence 99875544 79999999999999999999999999999999999999999997654 45566665
No 29
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.90 E-value=3.5e-22 Score=243.25 Aligned_cols=308 Identities=18% Similarity=0.170 Sum_probs=207.8
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
..++|+|.++++-+ ..++++++..++|.|||+..+.-+ +.. .+..|||+|+ +++.++...+... ++.+.
T Consensus 10 ~~~r~~Q~~ai~~~----l~g~dvlv~apTGsGKTl~y~lp~--l~~--~~~~lVi~P~~~L~~dq~~~l~~~--gi~~~ 79 (470)
T TIGR00614 10 SSFRPVQLEVINAV----LLGRDCFVVMPTGGGKSLCYQLPA--LCS--DGITLVISPLISLMEDQVLQLKAS--GIPAT 79 (470)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHhHHHHHHH--HHc--CCcEEEEecHHHHHHHHHHHHHHc--CCcEE
Confidence 46999999999876 467799999999999998653322 222 3578999996 7778888888765 45666
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh---ccc-CCCceeEEEecccc
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS---ASL-KPIKWQCMIVDEGH 438 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~---~~l-~~i~w~~vIvDEaH 438 (1238)
.+.|.........-..- .....++++++|++.+.... ..+ ......+|||||||
T Consensus 80 ~l~~~~~~~~~~~i~~~----------------------~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH 137 (470)
T TIGR00614 80 FLNSSQSKEQQKNVLTD----------------------LKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAH 137 (470)
T ss_pred EEeCCCCHHHHHHHHHH----------------------HhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCc
Confidence 66665433221110000 01245789999999986532 223 33467899999999
Q ss_pred cccCccc-------HHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHh
Q 000883 439 RLKNKDS-------KLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRM 511 (1238)
Q Consensus 439 rlKN~~S-------~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~ 511 (1238)
++...+. .+......+.....++|||||-.....++...+++-.|..+... |
T Consensus 138 ~i~~~g~~fr~~~~~l~~l~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s------~--------------- 196 (470)
T TIGR00614 138 CISQWGHDFRPDYKALGSLKQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCTS------F--------------- 196 (470)
T ss_pred ccCccccccHHHHHHHHHHHHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCC------C---------------
Confidence 9865332 12222223445578999999954444444443332222111000 0
Q ss_pred hchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCC
Q 000883 512 LAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEP 591 (1238)
Q Consensus 512 L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~ 591 (1238)
.-|.. .+.+.-..
T Consensus 197 ---------------~r~nl-~~~v~~~~--------------------------------------------------- 209 (470)
T TIGR00614 197 ---------------DRPNL-YYEVRRKT--------------------------------------------------- 209 (470)
T ss_pred ---------------CCCCc-EEEEEeCC---------------------------------------------------
Confidence 00000 00000000
Q ss_pred CccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHh
Q 000883 592 DIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFN 671 (1238)
Q Consensus 592 ~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn 671 (1238)
+..+..+.+++.+ ...|.++|||+......+.+...|...|+.+..++|+++..+|..+++.|.
T Consensus 210 ---------------~~~~~~l~~~l~~-~~~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~ 273 (470)
T TIGR00614 210 ---------------PKILEDLLRFIRK-EFKGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQ 273 (470)
T ss_pred ---------------ccHHHHHHHHHHH-hcCCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHH
Confidence 0011111222221 134778899999999999999999999999999999999999999999998
Q ss_pred cCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 672 ~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
.+... +|++|.+.|.|||++.+++||+|+++.++..+.|+.||++|.|+...+.+|
T Consensus 274 ~g~~~---vLVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 274 RDEIQ---VVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred cCCCc---EEEEechhhccCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 65443 899999999999999999999999999999999999999999988766554
No 30
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.90 E-value=5.6e-22 Score=242.19 Aligned_cols=316 Identities=18% Similarity=0.272 Sum_probs=211.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHH-HHHHHHhhCC--------CCCeEEEeCC-ccHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSI-AFLASLFGER--------ISPHLVVAPL-STLRNWEREFA 353 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqai-a~l~~l~~~~--------~~p~LIVvP~-sll~qW~~E~~ 353 (1238)
..++|+|.+++..+ ..|.++|++..+|+|||+..+ .++..+.... ....|||+|+ .+..|+.+.+.
T Consensus 108 ~~~~~iQ~~ai~~~----~~G~dvi~~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~PtreLa~Q~~~~~~ 183 (475)
T PRK01297 108 PYCTPIQAQVLGYT----LAGHDAIGRAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTRELVVQIAKDAA 183 (475)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 35889999999866 678899999999999998764 3444444321 2368999996 67788888888
Q ss_pred HHcC--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCce
Q 000883 354 TWAP--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKW 429 (1238)
Q Consensus 354 ~~~p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w 429 (1238)
.+.. ++++..++|.......++.. ....++|+|+|++++..... .+.--..
T Consensus 184 ~l~~~~~~~v~~~~gg~~~~~~~~~~-------------------------~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l 238 (475)
T PRK01297 184 ALTKYTGLNVMTFVGGMDFDKQLKQL-------------------------EARFCDILVATPGRLLDFNQRGEVHLDMV 238 (475)
T ss_pred HhhccCCCEEEEEEccCChHHHHHHH-------------------------hCCCCCEEEECHHHHHHHHHcCCcccccC
Confidence 7764 46777888865433322221 11357899999999864322 1111245
Q ss_pred eEEEecccccccCccc--HHHHHHHhcc---cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHH
Q 000883 430 QCMIVDEGHRLKNKDS--KLFSSLKQYS---TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQ 504 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S--~~~~~l~~l~---~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~ 504 (1238)
.+|||||||++.+..- .+...+..+. ....+++|||.- +++.++... +.
T Consensus 239 ~~lViDEah~l~~~~~~~~l~~i~~~~~~~~~~q~i~~SAT~~-~~~~~~~~~---~~---------------------- 292 (475)
T PRK01297 239 EVMVLDEADRMLDMGFIPQVRQIIRQTPRKEERQTLLFSATFT-DDVMNLAKQ---WT---------------------- 292 (475)
T ss_pred ceEEechHHHHHhcccHHHHHHHHHhCCCCCCceEEEEEeecC-HHHHHHHHH---hc----------------------
Confidence 7899999999875432 2334444442 235789999952 111111100 00
Q ss_pred HHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcc
Q 000883 505 ISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPY 584 (1238)
Q Consensus 505 ~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~ 584 (1238)
..|. .+.+.... .... . +. .|-+
T Consensus 293 -------~~~~-------------------~v~~~~~~-------------------~~~~--~-------~~---~~~~ 315 (475)
T PRK01297 293 -------TDPA-------------------IVEIEPEN-------------------VASD--T-------VE---QHVY 315 (475)
T ss_pred -------cCCE-------------------EEEeccCc-------------------CCCC--c-------cc---EEEE
Confidence 0000 00000000 0000 0 00 0000
Q ss_pred cccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHH
Q 000883 585 MLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQ 664 (1238)
Q Consensus 585 L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~ 664 (1238)
. +..+.|..+|..++.. ..+.++|||++.....+.|...|...|+.+..+.|.++..+|.
T Consensus 316 ~------------------~~~~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~ 375 (475)
T PRK01297 316 A------------------VAGSDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRI 375 (475)
T ss_pred E------------------ecchhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHH
Confidence 0 0112344445555433 2346999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
.+++.|.++... +|++|.++++|||++++++||+||.++++..++|+.||++|.|+... ++-|++.+
T Consensus 376 ~~~~~Fr~G~~~---vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 376 KTLEGFREGKIR---VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred HHHHHHhCCCCc---EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 999999875543 89999999999999999999999999999999999999999998654 34445443
No 31
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.90 E-value=6.2e-22 Score=240.33 Aligned_cols=310 Identities=16% Similarity=0.229 Sum_probs=205.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHH-HHHHhhCC-----C--CCeEEEeCC-ccHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAF-LASLFGER-----I--SPHLVVAPL-STLRNWEREFAT 354 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~-l~~l~~~~-----~--~p~LIVvP~-sll~qW~~E~~~ 354 (1238)
..+.|+|.+++.-+ ..+.++|+..++|+|||+..+.. +..+.... . ..+|||||. .+..||..++..
T Consensus 22 ~~pt~iQ~~ai~~i----l~g~dvlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~~~~aLil~PtreLa~Qi~~~~~~ 97 (456)
T PRK10590 22 REPTPIQQQAIPAV----LEGRDLMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRRPVRALILTPTRELAAQIGENVRD 97 (456)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEECCCCCcHHHHHHHHHHHHhhhcccccccCCCceEEEEeCcHHHHHHHHHHHHH
Confidence 35889999999766 46789999999999999986554 44443221 1 158999996 677899999988
Q ss_pred HcC--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCcee
Q 000883 355 WAP--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQ 430 (1238)
Q Consensus 355 ~~p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~ 430 (1238)
+.. ++.++.+.|.......+... ...++|+|+|++.+.... ..+..-..+
T Consensus 98 ~~~~~~~~~~~~~gg~~~~~~~~~l--------------------------~~~~~IiV~TP~rL~~~~~~~~~~l~~v~ 151 (456)
T PRK10590 98 YSKYLNIRSLVVFGGVSINPQMMKL--------------------------RGGVDVLVATPGRLLDLEHQNAVKLDQVE 151 (456)
T ss_pred HhccCCCEEEEEECCcCHHHHHHHH--------------------------cCCCcEEEEChHHHHHHHHcCCcccccce
Confidence 764 45566666654432221110 135789999999886532 222233567
Q ss_pred EEEecccccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 431 CMIVDEGHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
+|||||||++-... ..+...+..+.. ...+++|||+- +.+.++.. .+..
T Consensus 152 ~lViDEah~ll~~~~~~~i~~il~~l~~~~q~l~~SAT~~-~~~~~l~~---~~~~------------------------ 203 (456)
T PRK10590 152 ILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFS-DDIKALAE---KLLH------------------------ 203 (456)
T ss_pred EEEeecHHHHhccccHHHHHHHHHhCCccCeEEEEeCCCc-HHHHHHHH---HHcC------------------------
Confidence 99999999986543 223344444443 34789999962 11111110 0000
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
.|..+.-.... ...+........+
T Consensus 204 -----~~~~i~~~~~~--~~~~~i~~~~~~~------------------------------------------------- 227 (456)
T PRK10590 204 -----NPLEIEVARRN--TASEQVTQHVHFV------------------------------------------------- 227 (456)
T ss_pred -----CCeEEEEeccc--ccccceeEEEEEc-------------------------------------------------
Confidence 00000000000 0000000000000
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRI 667 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I 667 (1238)
....|..+|..++.. ...+++|||+......+.|...|...|+....++|.++..+|..++
T Consensus 228 -----------------~~~~k~~~l~~l~~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l 288 (456)
T PRK10590 228 -----------------DKKRKRELLSQMIGK--GNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRAL 288 (456)
T ss_pred -----------------CHHHHHHHHHHHHHc--CCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHH
Confidence 011122333333332 2346899999999999999999999999999999999999999999
Q ss_pred HHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEE
Q 000883 668 DRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMI 729 (1238)
Q Consensus 668 ~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~V 729 (1238)
+.|.++.. .+|++|.++++|||++.+++||+||++.++..++|++||++|.|.+..+.+
T Consensus 289 ~~F~~g~~---~iLVaTdv~~rGiDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~ai~ 347 (456)
T PRK10590 289 ADFKSGDI---RVLVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALS 347 (456)
T ss_pred HHHHcCCC---cEEEEccHHhcCCCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeEEE
Confidence 99987544 489999999999999999999999999999999999999999998764443
No 32
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.90 E-value=6.7e-22 Score=243.04 Aligned_cols=315 Identities=16% Similarity=0.209 Sum_probs=208.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHH-HHHHHhhC--------CCCCeEEEeCC-ccHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIA-FLASLFGE--------RISPHLVVAPL-STLRNWEREFA 353 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia-~l~~l~~~--------~~~p~LIVvP~-sll~qW~~E~~ 353 (1238)
..+.|+|.+++..+ ..++++|+..++|+|||+..+. ++..+... .....|||+|+ .+..|+.+++.
T Consensus 142 ~~ptpiQ~~aip~i----l~g~dviv~ApTGSGKTlayllPil~~l~~~~~~~~~~~~~~~aLIL~PTreLa~Qi~~~~~ 217 (518)
T PLN00206 142 EFPTPIQMQAIPAA----LSGRSLLVSADTGSGKTASFLVPIISRCCTIRSGHPSEQRNPLAMVLTPTRELCVQVEDQAK 217 (518)
T ss_pred CCCCHHHHHHHHHH----hcCCCEEEEecCCCCccHHHHHHHHHHHHhhccccccccCCceEEEEeCCHHHHHHHHHHHH
Confidence 36889999999766 4788999999999999988644 34443321 12268999996 56678888888
Q ss_pred HHcCC--CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCce
Q 000883 354 TWAPQ--MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKW 429 (1238)
Q Consensus 354 ~~~p~--l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w 429 (1238)
.+... +.++.+.|.......+... ...++|+|+|++.+..... .+..-..
T Consensus 218 ~l~~~~~~~~~~~~gG~~~~~q~~~l--------------------------~~~~~IiV~TPgrL~~~l~~~~~~l~~v 271 (518)
T PLN00206 218 VLGKGLPFKTALVVGGDAMPQQLYRI--------------------------QQGVELIVGTPGRLIDLLSKHDIELDNV 271 (518)
T ss_pred HHhCCCCceEEEEECCcchHHHHHHh--------------------------cCCCCEEEECHHHHHHHHHcCCccchhe
Confidence 87643 4455555543322221110 1247899999988754321 2222346
Q ss_pred eEEEecccccccCcc--cHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 430 QCMIVDEGHRLKNKD--SKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~--S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
.+|||||||++...+ ..+...+..+.....+++|||.-. .+.. +...+..+
T Consensus 272 ~~lViDEad~ml~~gf~~~i~~i~~~l~~~q~l~~SATl~~-~v~~---l~~~~~~~----------------------- 324 (518)
T PLN00206 272 SVLVLDEVDCMLERGFRDQVMQIFQALSQPQVLLFSATVSP-EVEK---FASSLAKD----------------------- 324 (518)
T ss_pred eEEEeecHHHHhhcchHHHHHHHHHhCCCCcEEEEEeeCCH-HHHH---HHHHhCCC-----------------------
Confidence 789999999986532 344455556666788999999621 1111 11100000
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCc--EEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPK--KELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM 585 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k--~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L 585 (1238)
+..+.... ...|.. ....+.+.
T Consensus 325 ------~~~i~~~~----~~~~~~~v~q~~~~~~---------------------------------------------- 348 (518)
T PLN00206 325 ------IILISIGN----PNRPNKAVKQLAIWVE---------------------------------------------- 348 (518)
T ss_pred ------CEEEEeCC----CCCCCcceeEEEEecc----------------------------------------------
Confidence 00000000 000000 11111111
Q ss_pred ccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh-CCCcEEEEeCCCCHHHHH
Q 000883 586 LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF-KKWQYERIDGKVGGAERQ 664 (1238)
Q Consensus 586 ~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~-~g~~~~ridG~~~~~~R~ 664 (1238)
...|...|.++|........++|||++.....+.|...|.. .|+.+..++|+++..+|.
T Consensus 349 --------------------~~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~ 408 (518)
T PLN00206 349 --------------------TKQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERR 408 (518)
T ss_pred --------------------chhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHH
Confidence 11122334444443333346899999999999999999974 699999999999999999
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
.+++.|.++... +|++|.++++|||++.+++||+||++.++..++|++||++|.|... .++.|++.+
T Consensus 409 ~il~~Fr~G~~~---ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~G--~ai~f~~~~ 475 (518)
T PLN00206 409 EVMKSFLVGEVP---VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKG--TAIVFVNEE 475 (518)
T ss_pred HHHHHHHCCCCC---EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCCe--EEEEEEchh
Confidence 999999876544 8999999999999999999999999999999999999999999754 344556543
No 33
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.90 E-value=5.2e-21 Score=230.84 Aligned_cols=404 Identities=19% Similarity=0.249 Sum_probs=238.5
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCC-CCeEEEeCC-ccHHHHHHHHHHHcCCCcE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERI-SPHLVVAPL-STLRNWEREFATWAPQMNV 361 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~-~p~LIVvP~-sll~qW~~E~~~~~p~l~v 361 (1238)
..||+||.+-+.-. - +.|+|+|.+||+|||..|+.++...+.... ++++++||+ .++.|....|....-.-.+
T Consensus 61 ~~lR~YQ~eivq~A----L-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~~~~ 135 (746)
T KOG0354|consen 61 LELRNYQEELVQPA----L-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIPYSV 135 (746)
T ss_pred ccccHHHHHHhHHh----h-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCcccc
Confidence 57999999987543 3 899999999999999999888877766543 699999997 4556777778777644555
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCC---CceeEEEecccc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKP---IKWQCMIVDEGH 438 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~---i~w~~vIvDEaH 438 (1238)
....|+...+.-.. ......+|++.|.+++..+...... -.|.++||||||
T Consensus 136 T~~l~~~~~~~~r~--------------------------~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~H 189 (746)
T KOG0354|consen 136 TGQLGDTVPRSNRG--------------------------EIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECH 189 (746)
T ss_pred eeeccCccCCCchh--------------------------hhhcccceEEeChHhhhhhcccccccccceEEEEEEcccc
Confidence 55655533322110 0123568999999999876443322 348999999999
Q ss_pred cccCcc--cHHHHHHHhcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCC--ChHHHHHHHhc------------hh
Q 000883 439 RLKNKD--SKLFSSLKQYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFG--SLEEFQEEFKD------------IN 500 (1238)
Q Consensus 439 rlKN~~--S~~~~~l~~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~--~~~~F~~~~~~------------~~ 500 (1238)
|..... +...+.+...+ ....|+|||||- ++.....+.+.-|... +. ....-...|.. ..
T Consensus 190 ra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~as-ldvr~~ssi~~~y~~lr~~~~i~v~~~~~ 267 (746)
T KOG0354|consen 190 RTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLCAS-LDVRTESSIKSNYEELREHVQIPVDLSLC 267 (746)
T ss_pred cccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhhee-cccchhhhhhhhHHHHhccCcccCcHHHh
Confidence 985433 33444444443 236789999997 6666666555544433 11 11111222211 11
Q ss_pred hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccC-------------CHHHHH-HHHHHHHHH-HHHHHhcCCc
Q 000883 501 QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVEL-------------SSKQKE-YYKAILTRN-YQILTRRGGA 565 (1238)
Q Consensus 501 ~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~l-------------s~~Q~~-~Y~~il~~~-~~~l~~~~~~ 565 (1238)
.......|..+++|++.+--... |.+..-..-..+. -..|+- .|...+... ...+...+
T Consensus 268 ~~~~~~~f~~~i~p~l~~l~~~~----l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~g-- 341 (746)
T KOG0354|consen 268 ERDIEDPFGMIIEPLLQQLQEEG----LIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDG-- 341 (746)
T ss_pred hhhhhhhHHHHHHHHHHHHHhcC----ccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcc--
Confidence 12334556677777665433222 2111100000000 001110 111111110 00111000
Q ss_pred chhHHHHHHHHHHHhCCc----ccccCCCCCc-cchHHH---HHHHH----hhhhHHHHHHHHHHHHHHc--CCeEEEEe
Q 000883 566 QISLINVVMELRKLCCHP----YMLEGVEPDI-EDTNES---FKQLL----ESSGKLQLLDKMMVKLKEQ--GHRVLIYS 631 (1238)
Q Consensus 566 ~~~l~~i~~~Lrk~c~hP----~L~~~~e~~~-~~~~~~---~~~li----~~S~Kl~~L~klL~~l~~~--g~KVLIFs 631 (1238)
..+.+.+..+.....-- |+....+... ...... +..+. ...+|+..|.++|....+. ..|+|||+
T Consensus 342 -ir~~~~l~~~~~f~~e~~~~k~~~~~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFv 420 (746)
T KOG0354|consen 342 -IRFVDALDYLEDFYEEVALKKYLKLELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFV 420 (746)
T ss_pred -hhhHHHHhhhhhhccccchhHHHHHHhcchhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEE
Confidence 00111111111000000 0000000000 000000 01111 2478999999999876654 57999999
Q ss_pred cchhHHHHHHHHHh-h--CCCcEEEEeC--------CCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEE
Q 000883 632 QFQHMLDLLEDYLT-F--KKWQYERIDG--------KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1238)
Q Consensus 632 q~~~~ldiL~~~L~-~--~g~~~~ridG--------~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VI 700 (1238)
.+...++.|..+|. . -|++...+-| +++..+.+++|+.|+++... +|++|..|.+|||++.||.||
T Consensus 421 e~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~N---vLVATSV~EEGLDI~ec~lVI 497 (746)
T KOG0354|consen 421 ETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEIN---VLVATSVAEEGLDIGECNLVI 497 (746)
T ss_pred ehHHHHHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhCCCcc---EEEEecchhccCCcccccEEE
Confidence 99999999999987 2 2455555555 46778889999999986665 899999999999999999999
Q ss_pred EEcCCCChhhhhHHHHHHhhhCCCCceEEEEEec
Q 000883 701 IYDSDWNPHADLQAMARAHRLGQTNKVMIFRLIT 734 (1238)
Q Consensus 701 i~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt 734 (1238)
.||..-||-..+||+|| +|. +.-.++-|.+
T Consensus 498 cYd~~snpIrmIQrrGR-gRa---~ns~~vll~t 527 (746)
T KOG0354|consen 498 CYDYSSNPIRMVQRRGR-GRA---RNSKCVLLTT 527 (746)
T ss_pred EecCCccHHHHHHHhcc-ccc---cCCeEEEEEc
Confidence 99999999999999999 774 4445555555
No 34
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.90 E-value=9.8e-22 Score=239.34 Aligned_cols=313 Identities=18% Similarity=0.289 Sum_probs=214.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHH-HHHHHhhCCCC-CeEEEeCC-ccHHHHHHHHHHHc---C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIA-FLASLFGERIS-PHLVVAPL-STLRNWEREFATWA---P 357 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia-~l~~l~~~~~~-p~LIVvP~-sll~qW~~E~~~~~---p 357 (1238)
.++.|+|.+++..+ ..+.++|+..++|+|||...+. ++..+...... ..||+||. .+..||.+++..+. +
T Consensus 25 ~~~t~iQ~~ai~~~----l~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~~~~ 100 (460)
T PRK11776 25 TEMTPIQAQSLPAI----LAGKDVIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQALVLCPTRELADQVAKEIRRLARFIP 100 (460)
T ss_pred CCCCHHHHHHHHHH----hcCCCEEEECCCCCcHHHHHHHHHHHHhhhccCCceEEEEeCCHHHHHHHHHHHHHHHhhCC
Confidence 35889999999876 4688999999999999987544 44444333223 58999996 67789999988764 5
Q ss_pred CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCceeEEEec
Q 000883 358 QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIVD 435 (1238)
Q Consensus 358 ~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w~~vIvD 435 (1238)
++++..++|.......+... ....+|+|+|++.+..... .+.--.+++||+|
T Consensus 101 ~~~v~~~~Gg~~~~~~~~~l--------------------------~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViD 154 (460)
T PRK11776 101 NIKVLTLCGGVPMGPQIDSL--------------------------EHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLD 154 (460)
T ss_pred CcEEEEEECCCChHHHHHHh--------------------------cCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEE
Confidence 78888888876544332221 1357899999998865322 2222356899999
Q ss_pred ccccccCcc--cHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhh
Q 000883 436 EGHRLKNKD--SKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRML 512 (1238)
Q Consensus 436 EaHrlKN~~--S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L 512 (1238)
|||++-... ..+...+..+. ....+++|||+-. ++-.+... .+
T Consensus 155 Ead~~l~~g~~~~l~~i~~~~~~~~q~ll~SAT~~~----~~~~l~~~------------------------------~~ 200 (460)
T PRK11776 155 EADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPE----GIAAISQR------------------------------FQ 200 (460)
T ss_pred CHHHHhCcCcHHHHHHHHHhCCcccEEEEEEecCcH----HHHHHHHH------------------------------hc
Confidence 999986543 23444444443 3357899999721 11111000 00
Q ss_pred c-hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCC
Q 000883 513 A-PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEP 591 (1238)
Q Consensus 513 ~-p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~ 591 (1238)
. |..+.- ......+......+.+
T Consensus 201 ~~~~~i~~---~~~~~~~~i~~~~~~~----------------------------------------------------- 224 (460)
T PRK11776 201 RDPVEVKV---ESTHDLPAIEQRFYEV----------------------------------------------------- 224 (460)
T ss_pred CCCEEEEE---CcCCCCCCeeEEEEEe-----------------------------------------------------
Confidence 0 000000 0000000011111100
Q ss_pred CccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHh
Q 000883 592 DIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFN 671 (1238)
Q Consensus 592 ~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn 671 (1238)
....|+..|..++.. ..+.++||||+.....+.|.+.|...|+.+..++|.++..+|+.+++.|.
T Consensus 225 -------------~~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~ 289 (460)
T PRK11776 225 -------------SPDERLPALQRLLLH--HQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFA 289 (460)
T ss_pred -------------CcHHHHHHHHHHHHh--cCCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHH
Confidence 011245555555543 23568999999999999999999999999999999999999999999998
Q ss_pred cCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 672 ~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
++... +|++|.++++|||++++++||+||.+.++..++|++||++|.|+.- ..|.|++.+
T Consensus 290 ~g~~~---vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 290 NRSCS---VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred cCCCc---EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 75544 8999999999999999999999999999999999999999999764 345566553
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.89 E-value=7.2e-22 Score=237.97 Aligned_cols=313 Identities=16% Similarity=0.215 Sum_probs=209.6
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHH-HHHhhCC--------CCCeEEEeCC-ccHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFL-ASLFGER--------ISPHLVVAPL-STLRNWEREFAT 354 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l-~~l~~~~--------~~p~LIVvP~-sll~qW~~E~~~ 354 (1238)
.+.|.|.+++.-+ ..+.++|+..++|+|||+..+..+ ..+.... ...+||+||. .+..|+.+++..
T Consensus 30 ~pt~iQ~~aip~i----l~g~dvi~~ApTGsGKTla~llp~l~~l~~~~~~~~~~~~~~~~lil~PtreLa~Qi~~~~~~ 105 (423)
T PRK04837 30 NCTPIQALALPLT----LAGRDVAGQAQTGTGKTMAFLTATFHYLLSHPAPEDRKVNQPRALIMAPTRELAVQIHADAEP 105 (423)
T ss_pred CCCHHHHHHHHHH----hCCCcEEEECCCCchHHHHHHHHHHHHHHhcccccccccCCceEEEECCcHHHHHHHHHHHHH
Confidence 5789999998765 578899999999999999875433 3443221 1258999996 677888888877
Q ss_pred HcC--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCcee
Q 000883 355 WAP--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQ 430 (1238)
Q Consensus 355 ~~p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~ 430 (1238)
+.. ++++..++|........... ...++|+|+|++.+.... ..+..-.+.
T Consensus 106 l~~~~~~~v~~~~gg~~~~~~~~~l--------------------------~~~~~IlV~TP~~l~~~l~~~~~~l~~v~ 159 (423)
T PRK04837 106 LAQATGLKLGLAYGGDGYDKQLKVL--------------------------ESGVDILIGTTGRLIDYAKQNHINLGAIQ 159 (423)
T ss_pred HhccCCceEEEEECCCCHHHHHHHh--------------------------cCCCCEEEECHHHHHHHHHcCCccccccc
Confidence 753 56777777765433221110 124689999999886532 223333577
Q ss_pred EEEecccccccCcc--cHHHHHHHhccc---ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHH
Q 000883 431 CMIVDEGHRLKNKD--SKLFSSLKQYST---RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQI 505 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~--S~~~~~l~~l~~---~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~ 505 (1238)
+|||||||++-... ..+...+..+.. ...+++|||.- ..+.++.
T Consensus 160 ~lViDEad~l~~~~f~~~i~~i~~~~~~~~~~~~~l~SAT~~-~~~~~~~------------------------------ 208 (423)
T PRK04837 160 VVVLDEADRMFDLGFIKDIRWLFRRMPPANQRLNMLFSATLS-YRVRELA------------------------------ 208 (423)
T ss_pred EEEEecHHHHhhcccHHHHHHHHHhCCCccceeEEEEeccCC-HHHHHHH------------------------------
Confidence 99999999986543 223333344432 23578899962 1111100
Q ss_pred HHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccc
Q 000883 506 SRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM 585 (1238)
Q Consensus 506 ~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L 585 (1238)
... +.......+ .-... .... + .+.++
T Consensus 209 ---~~~----------------~~~p~~i~v--~~~~~-------------------~~~~---------i----~~~~~ 235 (423)
T PRK04837 209 ---FEH----------------MNNPEYVEV--EPEQK-------------------TGHR---------I----KEELF 235 (423)
T ss_pred ---HHH----------------CCCCEEEEE--cCCCc-------------------CCCc---------e----eEEEE
Confidence 000 000000000 00000 0000 0 00000
Q ss_pred ccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHH
Q 000883 586 LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQI 665 (1238)
Q Consensus 586 ~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~ 665 (1238)
.. ....|+..|..++.. ....++|||++.....+.|...|...|+++..++|.++..+|..
T Consensus 236 ~~-----------------~~~~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~ 296 (423)
T PRK04837 236 YP-----------------SNEEKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLR 296 (423)
T ss_pred eC-----------------CHHHHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHH
Confidence 00 012355566666543 24679999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 666 RIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 666 ~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
+++.|+++... +|++|.++++|||++.+++||+||+++++..++|++||++|.|+.-.+ +-|++.
T Consensus 297 ~l~~F~~g~~~---vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~a--i~~~~~ 361 (423)
T PRK04837 297 ILEEFTRGDLD---ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHS--ISLACE 361 (423)
T ss_pred HHHHHHcCCCc---EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCeeE--EEEeCH
Confidence 99999876544 899999999999999999999999999999999999999999976543 445544
No 36
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.89 E-value=2.1e-21 Score=234.91 Aligned_cols=313 Identities=16% Similarity=0.191 Sum_probs=208.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHH-HHHHhhC-----CCCCeEEEeCC-ccHHHHHHHHHHHc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAF-LASLFGE-----RISPHLVVAPL-STLRNWEREFATWA 356 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~-l~~l~~~-----~~~p~LIVvP~-sll~qW~~E~~~~~ 356 (1238)
.++.++|.+++..+ ..+.++|+...+|+|||+.++.. +..+... +...+||++|. .+..|+.+.+..+.
T Consensus 22 ~~p~~iQ~~ai~~~----~~g~d~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~~~lil~Pt~eLa~Q~~~~~~~l~ 97 (434)
T PRK11192 22 TRPTAIQAEAIPPA----LDGRDVLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPPRILILTPTRELAMQVADQARELA 97 (434)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHhhccccCCCCceEEEECCcHHHHHHHHHHHHHHH
Confidence 35889999999766 46788999999999999986543 4444321 12368999996 56678887777765
Q ss_pred C--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEE
Q 000883 357 P--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCM 432 (1238)
Q Consensus 357 p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~v 432 (1238)
. ++++..++|.......... -...++|+|+|++.+.... ..+..-.+++|
T Consensus 98 ~~~~~~v~~~~gg~~~~~~~~~--------------------------l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~l 151 (434)
T PRK11192 98 KHTHLDIATITGGVAYMNHAEV--------------------------FSENQDIVVATPGRLLQYIKEENFDCRAVETL 151 (434)
T ss_pred ccCCcEEEEEECCCCHHHHHHH--------------------------hcCCCCEEEEChHHHHHHHHcCCcCcccCCEE
Confidence 3 5778888886543322111 0125689999998886432 22333356789
Q ss_pred EecccccccCcc--cHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 433 IVDEGHRLKNKD--SKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN~~--S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
||||||++.... ..+...+..+. ....+++|||+-...+.++.. .
T Consensus 152 ViDEah~~l~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~------------------~-------------- 199 (434)
T PRK11192 152 ILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDAVQDFAE------------------R-------------- 199 (434)
T ss_pred EEECHHHHhCCCcHHHHHHHHHhCccccEEEEEEeecCHHHHHHHHH------------------H--------------
Confidence 999999986543 22222333332 235689999973211111110 0
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
++ ..... +.+..+.... ....|-+....
T Consensus 200 -~~----------------~~~~~--i~~~~~~~~~--------------------------------~~i~~~~~~~~- 227 (434)
T PRK11192 200 -LL----------------NDPVE--VEAEPSRRER--------------------------------KKIHQWYYRAD- 227 (434)
T ss_pred -Hc----------------cCCEE--EEecCCcccc--------------------------------cCceEEEEEeC-
Confidence 00 00000 1111000000 00000000000
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
....|+.+|..++.. ....++|||+.....++.|...|...|+.+..++|.++..+|..+++.
T Consensus 228 ---------------~~~~k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~ 290 (434)
T PRK11192 228 ---------------DLEHKTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKR 290 (434)
T ss_pred ---------------CHHHHHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHH
Confidence 012345555555542 246799999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
|..+.. .+|++|.++++|||++.+++||+||+++++..++|++||++|.|....+.++
T Consensus 291 f~~G~~---~vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~l 348 (434)
T PRK11192 291 LTDGRV---NVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISL 348 (434)
T ss_pred HhCCCC---cEEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEEE
Confidence 987544 4899999999999999999999999999999999999999999987655443
No 37
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.89 E-value=2e-22 Score=226.38 Aligned_cols=338 Identities=18% Similarity=0.324 Sum_probs=235.3
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc-HHHHHHHHHHHcC--CC
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST-LRNWEREFATWAP--QM 359 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl-l~qW~~E~~~~~p--~l 359 (1238)
..++||||...++-|. .-...+.||+..++|.|||+..+..+..+. +.+||+|..++ +.||+.+|..|.. +-
T Consensus 300 st~iRpYQEksL~KMF-GNgRARSGiIVLPCGAGKtLVGvTAa~tik----K~clvLcts~VSVeQWkqQfk~wsti~d~ 374 (776)
T KOG1123|consen 300 STQIRPYQEKSLSKMF-GNGRARSGIIVLPCGAGKTLVGVTAACTIK----KSCLVLCTSAVSVEQWKQQFKQWSTIQDD 374 (776)
T ss_pred ccccCchHHHHHHHHh-CCCcccCceEEEecCCCCceeeeeeeeeec----ccEEEEecCccCHHHHHHHHHhhcccCcc
Confidence 4679999999998772 112335689999999999998877766543 36799999654 7899999999982 33
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh----------hhcccCCCce
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL----------DSASLKPIKW 429 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~----------d~~~l~~i~w 429 (1238)
.+..|+.+.+++. .....|+||||.|+.. ...++..-.|
T Consensus 375 ~i~rFTsd~Ke~~-------------------------------~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EW 423 (776)
T KOG1123|consen 375 QICRFTSDAKERF-------------------------------PSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREW 423 (776)
T ss_pred ceEEeeccccccC-------------------------------CCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCee
Confidence 4555655544321 2356799999999843 2456788899
Q ss_pred eEEEecccccccCcccHHH-HHHHhcccccEEEEecCCCCCCHHHHHHHHhhhc-CCCCCChHHHHHHHhchhhHHHHHH
Q 000883 430 QCMIVDEGHRLKNKDSKLF-SSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLD-AGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~-~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~-p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
.++|+||+|-+- ++++ +.+..+.+..+|+||||-+... |-..=||||- |..+. .. ...
T Consensus 424 GllllDEVHvvP---A~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYE------An---------Wmd 483 (776)
T KOG1123|consen 424 GLLLLDEVHVVP---AKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYE------AN---------WMD 483 (776)
T ss_pred eeEEeehhccch---HHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhhh------cc---------HHH
Confidence 999999999763 3444 4455557888999999986543 1122244443 32221 11 111
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
|.+ ...+.......|+|+||++ .|+..+..+... ..+
T Consensus 484 L~~--------------kGhIA~VqCaEVWCpMt~e---Fy~eYL~~~t~k--------r~l------------------ 520 (776)
T KOG1123|consen 484 LQK--------------KGHIAKVQCAEVWCPMTPE---FYREYLRENTRK--------RML------------------ 520 (776)
T ss_pred HHh--------------CCceeEEeeeeeecCCCHH---HHHHHHhhhhhh--------hhe------------------
Confidence 110 0123344566899999985 555544432100 000
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRI 667 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I 667 (1238)
-.+-+..|++...-||+....+|.|+||||..+-.|. .|--..|-+| |.|.|+..+|-+++
T Consensus 521 --------------LyvMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk---~YAikl~Kpf--IYG~Tsq~ERm~IL 581 (776)
T KOG1123|consen 521 --------------LYVMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALK---EYAIKLGKPF--IYGPTSQNERMKIL 581 (776)
T ss_pred --------------eeecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHH---HHHHHcCCce--EECCCchhHHHHHH
Confidence 0122456888888888888889999999998876554 4444444454 78999999999999
Q ss_pred HHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC-ChhhhhHHHHHHhhhCCC----CceEEEEEecCCCHHH
Q 000883 668 DRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW-NPHADLQAMARAHRLGQT----NKVMIFRLITRGSIEE 740 (1238)
Q Consensus 668 ~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW-Np~~~~Qa~gR~hRiGQ~----k~V~VyrLvt~~TvEE 740 (1238)
+.|+..+.-..+|| +++|...|+|+.|+.+|-..+.. +..+..||+||+.|.-.. =++..|-||+++|.|-
T Consensus 582 qnFq~n~~vNTIFl--SKVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM 657 (776)
T KOG1123|consen 582 QNFQTNPKVNTIFL--SKVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEM 657 (776)
T ss_pred HhcccCCccceEEE--eeccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHH
Confidence 99987655444444 88999999999999999999875 566789999999996532 2688999999999884
No 38
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.89 E-value=3.4e-21 Score=238.33 Aligned_cols=308 Identities=16% Similarity=0.227 Sum_probs=207.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHH-HHHHhhCC--------CCCeEEEeCC-ccHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAF-LASLFGER--------ISPHLVVAPL-STLRNWEREFA 353 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~-l~~l~~~~--------~~p~LIVvP~-sll~qW~~E~~ 353 (1238)
..+.|.|..++..+ ..+.++|+..++|+|||+.++.. +..+.... ...+|||||. .+..|+..++.
T Consensus 30 ~~ptpiQ~~~ip~~----l~G~Dvi~~ApTGSGKTlafllpil~~l~~~~~~~~~~~~~~raLIl~PTreLa~Qi~~~~~ 105 (572)
T PRK04537 30 TRCTPIQALTLPVA----LPGGDVAGQAQTGTGKTLAFLVAVMNRLLSRPALADRKPEDPRALILAPTRELAIQIHKDAV 105 (572)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEEcCCCCcHHHHHHHHHHHHHHhcccccccccCCceEEEEeCcHHHHHHHHHHHH
Confidence 36889999999876 57889999999999999987554 44443211 1368999996 67788999998
Q ss_pred HHcCC--CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc---ccCCCc
Q 000883 354 TWAPQ--MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA---SLKPIK 428 (1238)
Q Consensus 354 ~~~p~--l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~---~l~~i~ 428 (1238)
++... +.+..++|........... ...++|+|+|++.+..... .+....
T Consensus 106 ~l~~~~~i~v~~l~Gg~~~~~q~~~l--------------------------~~~~dIiV~TP~rL~~~l~~~~~~~l~~ 159 (572)
T PRK04537 106 KFGADLGLRFALVYGGVDYDKQRELL--------------------------QQGVDVIIATPGRLIDYVKQHKVVSLHA 159 (572)
T ss_pred HHhccCCceEEEEECCCCHHHHHHHH--------------------------hCCCCEEEECHHHHHHHHHhccccchhh
Confidence 88744 5677777765432211110 1257899999998865432 233335
Q ss_pred eeEEEecccccccCcc--cHHHHHHHhcc---cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHH
Q 000883 429 WQCMIVDEGHRLKNKD--SKLFSSLKQYS---TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEE 503 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~--S~~~~~l~~l~---~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~ 503 (1238)
..+|||||||++-... ..+...+..+. ....+++|||.- +.+.++. .
T Consensus 160 v~~lViDEAh~lld~gf~~~i~~il~~lp~~~~~q~ll~SATl~-~~v~~l~---~------------------------ 211 (572)
T PRK04537 160 CEICVLDEADRMFDLGFIKDIRFLLRRMPERGTRQTLLFSATLS-HRVLELA---Y------------------------ 211 (572)
T ss_pred eeeeEecCHHHHhhcchHHHHHHHHHhcccccCceEEEEeCCcc-HHHHHHH---H------------------------
Confidence 6789999999985432 22333334343 345689999952 1111110 0
Q ss_pred HHHHHHHhh-chhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCC
Q 000883 504 QISRLHRML-APHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCH 582 (1238)
Q Consensus 504 ~~~~L~~~L-~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~h 582 (1238)
..+ .|..+...... ..+......+.
T Consensus 212 ------~~l~~p~~i~v~~~~---~~~~~i~q~~~--------------------------------------------- 237 (572)
T PRK04537 212 ------EHMNEPEKLVVETET---ITAARVRQRIY--------------------------------------------- 237 (572)
T ss_pred ------HHhcCCcEEEecccc---ccccceeEEEE---------------------------------------------
Confidence 000 00000000000 00000000000
Q ss_pred cccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHH
Q 000883 583 PYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAE 662 (1238)
Q Consensus 583 P~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~ 662 (1238)
+. ....|+..|..++.. ..+.++|||++.....+.|.+.|...|+.+..++|.++..+
T Consensus 238 ---~~-----------------~~~~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~e 295 (572)
T PRK04537 238 ---FP-----------------ADEEKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKK 295 (572)
T ss_pred ---ec-----------------CHHHHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHH
Confidence 00 012244444444433 34789999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 663 RQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 663 R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
|..+++.|.++.. .+||+|.++++|||++.+++||+||.++++..++|++||++|.|....+.
T Consensus 296 R~~il~~Fr~G~~---~VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~ai 358 (572)
T PRK04537 296 RESLLNRFQKGQL---EILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAI 358 (572)
T ss_pred HHHHHHHHHcCCC---eEEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceEE
Confidence 9999999987544 48999999999999999999999999999999999999999999865443
No 39
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.89 E-value=7.6e-21 Score=236.60 Aligned_cols=310 Identities=16% Similarity=0.226 Sum_probs=210.0
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHH-HHHHHHhhCCC-CCeEEEeCC-ccHHHHHHHHHHHc---C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSI-AFLASLFGERI-SPHLVVAPL-STLRNWEREFATWA---P 357 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqai-a~l~~l~~~~~-~p~LIVvP~-sll~qW~~E~~~~~---p 357 (1238)
.++.|+|.+++..+ ..+.++|+..++|+|||++.+ .++..+..... ..+||+||. .+..||..++..+. +
T Consensus 27 ~~ptpiQ~~ai~~l----l~g~dvl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LIL~PTreLa~Qv~~~l~~~~~~~~ 102 (629)
T PRK11634 27 EKPSPIQAECIPHL----LNGRDVLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILVLAPTRELAVQVAEAMTDFSKHMR 102 (629)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEEEeCcHHHHHHHHHHHHHHHhhcC
Confidence 46899999999776 467889999999999999864 44444433322 368999996 67789988887764 6
Q ss_pred CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEec
Q 000883 358 QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVD 435 (1238)
Q Consensus 358 ~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvD 435 (1238)
+++++.++|.......+... ....+|||+|+..+.... ..+.--...+||||
T Consensus 103 ~i~v~~~~gG~~~~~q~~~l--------------------------~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlD 156 (629)
T PRK11634 103 GVNVVALYGGQRYDVQLRAL--------------------------RQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLD 156 (629)
T ss_pred CceEEEEECCcCHHHHHHHh--------------------------cCCCCEEEECHHHHHHHHHcCCcchhhceEEEec
Confidence 78888888775443322221 124689999998886432 22222356789999
Q ss_pred ccccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhh
Q 000883 436 EGHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRML 512 (1238)
Q Consensus 436 EaHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L 512 (1238)
|||.+-+.. ..+...+..+.. ...+++|||.- ..+.++. ..
T Consensus 157 EAd~ml~~gf~~di~~Il~~lp~~~q~llfSAT~p-~~i~~i~------------------~~----------------- 200 (629)
T PRK11634 157 EADEMLRMGFIEDVETIMAQIPEGHQTALFSATMP-EAIRRIT------------------RR----------------- 200 (629)
T ss_pred cHHHHhhcccHHHHHHHHHhCCCCCeEEEEEccCC-hhHHHHH------------------HH-----------------
Confidence 999886543 234455555543 35688999951 1111100 00
Q ss_pred chhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCC
Q 000883 513 APHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPD 592 (1238)
Q Consensus 513 ~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~ 592 (1238)
+ +.......+..... ... ...+.|..
T Consensus 201 --~------------l~~~~~i~i~~~~~-----------------------~~~-----------~i~q~~~~------ 226 (629)
T PRK11634 201 --F------------MKEPQEVRIQSSVT-----------------------TRP-----------DISQSYWT------ 226 (629)
T ss_pred --H------------cCCCeEEEccCccc-----------------------cCC-----------ceEEEEEE------
Confidence 0 00000000000000 000 00000000
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhc
Q 000883 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNA 672 (1238)
Q Consensus 593 ~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~ 672 (1238)
+....|...|..+|.. ....++||||......+.|...|...|+....++|.++..+|..+++.|..
T Consensus 227 -----------v~~~~k~~~L~~~L~~--~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~ 293 (629)
T PRK11634 227 -----------VWGMRKNEALVRFLEA--EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKD 293 (629)
T ss_pred -----------echhhHHHHHHHHHHh--cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhC
Confidence 0112344555555543 234689999999999999999999999999999999999999999999987
Q ss_pred CCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEE
Q 000883 673 KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMI 729 (1238)
Q Consensus 673 ~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~V 729 (1238)
+... +||+|.+++.|||++.+++||+||.+.++..++|++||++|.|..-.+.+
T Consensus 294 G~~~---ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ai~ 347 (629)
T PRK11634 294 GRLD---ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALL 347 (629)
T ss_pred CCCC---EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceEEE
Confidence 5444 89999999999999999999999999999999999999999997654433
No 40
>PTZ00424 helicase 45; Provisional
Probab=99.88 E-value=1.1e-20 Score=226.59 Aligned_cols=317 Identities=18% Similarity=0.259 Sum_probs=206.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC--CCCCeEEEeCC-ccHHHHHHHHHHHcC--C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE--RISPHLVVAPL-STLRNWEREFATWAP--Q 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~--~~~p~LIVvP~-sll~qW~~E~~~~~p--~ 358 (1238)
..+.|+|..++..+ ..+.+.|+..++|+|||+.++..+...... ....+|||+|. .+..|+.+.+..... .
T Consensus 49 ~~~~~~Q~~ai~~i----~~~~d~ii~apTGsGKT~~~~l~~l~~~~~~~~~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~ 124 (401)
T PTZ00424 49 EKPSAIQQRGIKPI----LDGYDTIGQAQSGTGKTATFVIAALQLIDYDLNACQALILAPTRELAQQIQKVVLALGDYLK 124 (401)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHhcCCCCCceEEEECCCHHHHHHHHHHHHHHhhhcC
Confidence 36899999999876 577889999999999999875444444332 22479999996 566777777776653 3
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEecc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVDE 436 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvDE 436 (1238)
..+....|....+..+... ....+|+|+|++.+.... ..+..-.+++|||||
T Consensus 125 ~~~~~~~g~~~~~~~~~~~--------------------------~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDE 178 (401)
T PTZ00424 125 VRCHACVGGTVVRDDINKL--------------------------KAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDE 178 (401)
T ss_pred ceEEEEECCcCHHHHHHHH--------------------------cCCCCEEEECcHHHHHHHHhCCcccccccEEEEec
Confidence 4445555654433322111 123579999998875421 122233568999999
Q ss_pred cccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 437 GHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 437 aHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
||++.... ..+...+..+.. ...+++|||+- +...++.. .|. ..
T Consensus 179 ah~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~-~~~~~~~~------------------~~~--------------~~ 225 (401)
T PTZ00424 179 ADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMP-NEILELTT------------------KFM--------------RD 225 (401)
T ss_pred HHHHHhcchHHHHHHHHhhCCCCcEEEEEEecCC-HHHHHHHH------------------HHc--------------CC
Confidence 99986432 345555555543 35789999962 11111100 000 00
Q ss_pred hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 514 PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 514 p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
|..+ ..+.+- ..+.......+.+. .
T Consensus 226 ~~~~-~~~~~~-~~~~~~~~~~~~~~--~--------------------------------------------------- 250 (401)
T PTZ00424 226 PKRI-LVKKDE-LTLEGIRQFYVAVE--K--------------------------------------------------- 250 (401)
T ss_pred CEEE-EeCCCC-cccCCceEEEEecC--h---------------------------------------------------
Confidence 0000 000000 00000000011000 0
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAK 673 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~ 673 (1238)
...++..+..++.. ....++|||+......+.+...|...++.+..++|.++..+|+.+++.|.++
T Consensus 251 ------------~~~~~~~l~~~~~~--~~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g 316 (401)
T PTZ00424 251 ------------EEWKFDTLCDLYET--LTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSG 316 (401)
T ss_pred ------------HHHHHHHHHHHHHh--cCCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcC
Confidence 00122222233322 1346899999999999999999999999999999999999999999999875
Q ss_pred CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCC
Q 000883 674 NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGS 737 (1238)
Q Consensus 674 ~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~T 737 (1238)
.. .+|++|.++++|||++.+++||+||++.++..++|++||++|.|.. -.++.|++.+.
T Consensus 317 ~~---~vLvaT~~l~~GiDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~~ 375 (401)
T PTZ00424 317 ST---RVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRK--GVAINFVTPDD 375 (401)
T ss_pred CC---CEEEEcccccCCcCcccCCEEEEECCCCCHHHEeecccccccCCCC--ceEEEEEcHHH
Confidence 54 3899999999999999999999999999999999999999999864 44566776553
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=99.88 E-value=9.6e-21 Score=237.20 Aligned_cols=304 Identities=20% Similarity=0.219 Sum_probs=209.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
.+++|+|.++++-+ ..+.+++++.++|.|||+.+...+ +.. .+.+|||+|. +++.++...+... +..+.
T Consensus 12 ~~fr~~Q~~~i~~i----l~g~dvlv~~PTG~GKTl~y~lpa--l~~--~g~~lVisPl~sL~~dq~~~l~~~--gi~~~ 81 (591)
T TIGR01389 12 DDFRPGQEEIISHV----LDGRDVLVVMPTGGGKSLCYQVPA--LLL--KGLTVVISPLISLMKDQVDQLRAA--GVAAA 81 (591)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEcCCCccHhHHHHHHH--HHc--CCcEEEEcCCHHHHHHHHHHHHHc--CCcEE
Confidence 46999999999876 467899999999999999864332 222 3578999996 7778888888875 46677
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEecccccc
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEGHRL 440 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEaHrl 440 (1238)
.++++...........- ......+++++|++.+... ...+......+|||||||.+
T Consensus 82 ~~~s~~~~~~~~~~~~~----------------------l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i 139 (591)
T TIGR01389 82 YLNSTLSAKEQQDIEKA----------------------LVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCV 139 (591)
T ss_pred EEeCCCCHHHHHHHHHH----------------------HhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCccc
Confidence 77766443221111000 0123578999999988542 23455567899999999998
Q ss_pred cCccc-------HHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 441 KNKDS-------KLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 441 KN~~S-------~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
...+. .+......+.....++||||+-.....++...+.+-.+..+... +
T Consensus 140 ~~~g~~frp~y~~l~~l~~~~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~------~----------------- 196 (591)
T TIGR01389 140 SQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQDIRELLRLADANEFITS------F----------------- 196 (591)
T ss_pred ccccCccHHHHHHHHHHHHhCCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEecC------C-----------------
Confidence 64321 22233333444568999999854444444433332211111000 0
Q ss_pred hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 514 PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 514 p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
.-|.....++.
T Consensus 197 -------------~r~nl~~~v~~-------------------------------------------------------- 207 (591)
T TIGR01389 197 -------------DRPNLRFSVVK-------------------------------------------------------- 207 (591)
T ss_pred -------------CCCCcEEEEEe--------------------------------------------------------
Confidence 00000000000
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAK 673 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~ 673 (1238)
...+...+.++|... .+.++||||......+.|..+|...|+++..++|+++.++|..+++.|..+
T Consensus 208 ------------~~~~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g 273 (591)
T TIGR01389 208 ------------KNNKQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYD 273 (591)
T ss_pred ------------CCCHHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcC
Confidence 001122233333321 267899999999999999999999999999999999999999999999875
Q ss_pred CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 674 NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 674 ~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
.. .+|++|.+.|.|||+++++.||+||++.|+..+.|+.||++|.|+...+.
T Consensus 274 ~~---~vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~i 325 (591)
T TIGR01389 274 DV---KVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAI 325 (591)
T ss_pred CC---cEEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEE
Confidence 43 48999999999999999999999999999999999999999999765554
No 42
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.88 E-value=1.2e-20 Score=235.74 Aligned_cols=304 Identities=18% Similarity=0.176 Sum_probs=204.9
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
.+++|+|.+++.-+ ..+.++++..+||.|||+..+..+ +.. .+.+|||+|. +++.++...+... ++.+.
T Consensus 24 ~~~r~~Q~~ai~~i----l~g~dvlv~apTGsGKTl~y~lpa--l~~--~g~tlVisPl~sL~~dqv~~l~~~--gi~~~ 93 (607)
T PRK11057 24 QQFRPGQQEIIDAV----LSGRDCLVVMPTGGGKSLCYQIPA--LVL--DGLTLVVSPLISLMKDQVDQLLAN--GVAAA 93 (607)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEcCCCchHHHHHHHHH--HHc--CCCEEEEecHHHHHHHHHHHHHHc--CCcEE
Confidence 46999999999866 468899999999999998754322 222 2479999996 7778888888764 45566
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEecccccc
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEGHRL 440 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEaHrl 440 (1238)
.+.+............- ......+++++|++.+... ...+......+|||||||.+
T Consensus 94 ~~~s~~~~~~~~~~~~~----------------------~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i 151 (607)
T PRK11057 94 CLNSTQTREQQLEVMAG----------------------CRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCI 151 (607)
T ss_pred EEcCCCCHHHHHHHHHH----------------------HhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCcccc
Confidence 66555433221111100 0123567899999987642 23344556789999999998
Q ss_pred cCccc---HHHHHHH----hcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 441 KNKDS---KLFSSLK----QYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 441 KN~~S---~~~~~l~----~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
...+. ..+..+. .+.....++||||+-.....++...+.+-.|..+... |
T Consensus 152 ~~~G~~fr~~y~~L~~l~~~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~------~----------------- 208 (607)
T PRK11057 152 SQWGHDFRPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISS------F----------------- 208 (607)
T ss_pred ccccCcccHHHHHHHHHHHhCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECC------C-----------------
Confidence 65321 1222232 2334567999999854444444433332222110000 0
Q ss_pred hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 514 PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 514 p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
.-|.....++ .
T Consensus 209 -------------~r~nl~~~v~--------------------------------------------------~------ 219 (607)
T PRK11057 209 -------------DRPNIRYTLV--------------------------------------------------E------ 219 (607)
T ss_pred -------------CCCcceeeee--------------------------------------------------e------
Confidence 0000000000 0
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAK 673 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~ 673 (1238)
...++..+..++.. ..+.++||||......+.+...|...|+++..++|+++..+|..+++.|..+
T Consensus 220 ------------~~~~~~~l~~~l~~--~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g 285 (607)
T PRK11057 220 ------------KFKPLDQLMRYVQE--QRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRD 285 (607)
T ss_pred ------------ccchHHHHHHHHHh--cCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCC
Confidence 00011112222221 3578999999999999999999999999999999999999999999999875
Q ss_pred CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 674 NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 674 ~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
... +|++|.+.|.|||++.+++||+||.+.++..+.|+.||++|.|....+.
T Consensus 286 ~~~---VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~i 337 (607)
T PRK11057 286 DLQ---IVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAM 337 (607)
T ss_pred CCC---EEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEE
Confidence 443 8999999999999999999999999999999999999999999765543
No 43
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.87 E-value=3e-20 Score=218.47 Aligned_cols=312 Identities=19% Similarity=0.275 Sum_probs=222.8
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhh------CCCCC-eEEEeCC-ccHHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFG------ERISP-HLVVAPL-STLRNWEREFATW 355 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~------~~~~p-~LIVvP~-sll~qW~~E~~~~ 355 (1238)
.+.|-|..+.-.+ ..|+++|....+|+|||+.. |-.+.++.. .+.+| +||++|+ .+..|-..++..+
T Consensus 113 ~PtpIQaq~wp~~----l~GrD~v~iA~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRELA~QV~~~~~~~ 188 (519)
T KOG0331|consen 113 KPTPIQAQGWPIA----LSGRDLVGIARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRELAVQVQAEAREF 188 (519)
T ss_pred CCchhhhccccee----ccCCceEEEeccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 4666776664333 57899999999999999874 455666654 12245 8999997 5667888899888
Q ss_pred cCCCc--EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeE
Q 000883 356 APQMN--VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQC 431 (1238)
Q Consensus 356 ~p~l~--vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~ 431 (1238)
...+. .++++|.......++.. ....+|+|+|+..+.... ..+.--...+
T Consensus 189 ~~~~~~~~~cvyGG~~~~~Q~~~l--------------------------~~gvdiviaTPGRl~d~le~g~~~l~~v~y 242 (519)
T KOG0331|consen 189 GKSLRLRSTCVYGGAPKGPQLRDL--------------------------ERGVDVVIATPGRLIDLLEEGSLNLSRVTY 242 (519)
T ss_pred cCCCCccEEEEeCCCCccHHHHHH--------------------------hcCCcEEEeCChHHHHHHHcCCccccceeE
Confidence 86554 77777766555544442 136889999999987543 3344446779
Q ss_pred EEecccccccC--cccHHHHHHHhc-ccc-cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 432 MIVDEGHRLKN--KDSKLFSSLKQY-STR-HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 432 vIvDEaHrlKN--~~S~~~~~l~~l-~~~-~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
+|+|||.++-. ...+..+.+..+ .+. ..|+-|||-- .
T Consensus 243 lVLDEADrMldmGFe~qI~~Il~~i~~~~rQtlm~saTwp----~----------------------------------- 283 (519)
T KOG0331|consen 243 LVLDEADRMLDMGFEPQIRKILSQIPRPDRQTLMFSATWP----K----------------------------------- 283 (519)
T ss_pred EEeccHHhhhccccHHHHHHHHHhcCCCcccEEEEeeecc----H-----------------------------------
Confidence 99999999854 456788888888 443 3677788830 0
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
-+|.+..+.+. . +....+.... . .. ....+.++-
T Consensus 284 --------~v~~lA~~fl~-~-~~~i~ig~~~---~-~~----------------------a~~~i~qiv---------- 317 (519)
T KOG0331|consen 284 --------EVRQLAEDFLN-N-PIQINVGNKK---E-LK----------------------ANHNIRQIV---------- 317 (519)
T ss_pred --------HHHHHHHHHhc-C-ceEEEecchh---h-hh----------------------hhcchhhhh----------
Confidence 11111222222 1 1112221110 0 00 000011111
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHH-HcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLK-EQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~-~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
..+...+|...|.++|.... ..+.||||||......+.|+..|...+|+..-|+|..+..+|..+
T Consensus 318 --------------e~~~~~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~ 383 (519)
T KOG0331|consen 318 --------------EVCDETAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWV 383 (519)
T ss_pred --------------hhcCHHHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHH
Confidence 11234678888888888876 445699999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
++.|..+... +|++|..++.|||++..++||.||+|-|...|++|+||.+|.|++-...
T Consensus 384 L~~FreG~~~---vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~A~ 442 (519)
T KOG0331|consen 384 LKGFREGKSP---VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGTAI 442 (519)
T ss_pred HHhcccCCcc---eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCceEE
Confidence 9999876554 8999999999999999999999999999999999999999988875443
No 44
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.86 E-value=4.9e-20 Score=231.71 Aligned_cols=308 Identities=17% Similarity=0.173 Sum_probs=204.6
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
..+||+|.++++.+ ..+.++|+..++|.|||+....-+. .. .+.+|||+|+ +|+.++...+.. .++.+.
T Consensus 459 ~sFRp~Q~eaI~ai----L~GrDVLVimPTGSGKSLcYQLPAL--~~--~GiTLVISPLiSLmqDQV~~L~~--~GI~Aa 528 (1195)
T PLN03137 459 HSFRPNQREIINAT----MSGYDVFVLMPTGGGKSLTYQLPAL--IC--PGITLVISPLVSLIQDQIMNLLQ--ANIPAA 528 (1195)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEcCCCccHHHHHHHHHH--Hc--CCcEEEEeCHHHHHHHHHHHHHh--CCCeEE
Confidence 57999999999866 5788999999999999987643332 12 3579999996 666655555544 256666
Q ss_pred EEEcChhHHHH---HHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh---hcccCC----CceeEE
Q 000883 363 MYVGTSQARNI---IREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD---SASLKP----IKWQCM 432 (1238)
Q Consensus 363 ~~~g~~~~r~~---i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d---~~~l~~----i~w~~v 432 (1238)
.+.|....... ++... .....++++++|++.+... ...+.. -...+|
T Consensus 529 ~L~s~~s~~eq~~ilr~l~-----------------------s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslI 585 (1195)
T PLN03137 529 SLSAGMEWAEQLEILQELS-----------------------SEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARF 585 (1195)
T ss_pred EEECCCCHHHHHHHHHHHH-----------------------hcCCCCCEEEEChHHhhcchHHHHHHHhhhhcccccee
Confidence 66665433221 21110 0114678999999987532 112221 236789
Q ss_pred EecccccccCcccH---HHHH----HHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHH
Q 000883 433 IVDEGHRLKNKDSK---LFSS----LKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQI 505 (1238)
Q Consensus 433 IvDEaHrlKN~~S~---~~~~----l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~ 505 (1238)
||||||.+-..+.. -+.. ...+.....++||||.-.....++...|.+..+..|.. .|
T Consensus 586 VIDEAHcVSqWGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~------Sf--------- 650 (1195)
T PLN03137 586 VIDEAHCVSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQ------SF--------- 650 (1195)
T ss_pred ccCcchhhhhcccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeec------cc---------
Confidence 99999998653321 1222 22344556799999985555555444443222111100 00
Q ss_pred HHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccc
Q 000883 506 SRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM 585 (1238)
Q Consensus 506 ~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L 585 (1238)
.-|.....++. -. ..
T Consensus 651 ---------------------~RpNL~y~Vv~--k~---kk--------------------------------------- 665 (1195)
T PLN03137 651 ---------------------NRPNLWYSVVP--KT---KK--------------------------------------- 665 (1195)
T ss_pred ---------------------CccceEEEEec--cc---hh---------------------------------------
Confidence 00111111110 00 00
Q ss_pred ccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHH
Q 000883 586 LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQI 665 (1238)
Q Consensus 586 ~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~ 665 (1238)
.+..|.+++... ..+...||||......+.|..+|...|+.+..++|+++..+|..
T Consensus 666 -----------------------~le~L~~~I~~~-~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~ 721 (1195)
T PLN03137 666 -----------------------CLEDIDKFIKEN-HFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAF 721 (1195)
T ss_pred -----------------------HHHHHHHHHHhc-ccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHH
Confidence 001111222111 12457899999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEE
Q 000883 666 RIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFR 731 (1238)
Q Consensus 666 ~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vyr 731 (1238)
+++.|..+... +|++|.|.|.|||++.+++||+||.+-++..|.|++||++|.|+...+..|+
T Consensus 722 vqe~F~~Gei~---VLVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 722 VQKQWSKDEIN---IICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred HHHHHhcCCCc---EEEEechhhcCCCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 99999875543 8999999999999999999999999999999999999999999886665544
No 45
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.86 E-value=6.1e-20 Score=238.72 Aligned_cols=357 Identities=17% Similarity=0.216 Sum_probs=207.4
Q ss_pred CCCCcHHHHHHHHHHHHhhcC-CCceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeC-CccHHHHHHHHHHHcCCC
Q 000883 283 GGSLHPYQLEGLNFLRFSWSK-QTHVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAP-LSTLRNWEREFATWAPQM 359 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~-~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP-~sll~qW~~E~~~~~p~l 359 (1238)
+..|||||.++++.+...+.. .++++|.+.+|+|||+++++++..++.. +.+++||||| ..|+.||..+|..+.+..
T Consensus 411 ~~~lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~ 490 (1123)
T PRK11448 411 GLGLRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEG 490 (1123)
T ss_pred CCCCCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhccccc
Confidence 357999999999877666554 4678999999999999999998888764 3469999999 578899999999864321
Q ss_pred c--EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-------ccCCCcee
Q 000883 360 N--VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA-------SLKPIKWQ 430 (1238)
Q Consensus 360 ~--vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~-------~l~~i~w~ 430 (1238)
. +....+... +... .......|+|+|++++.+... .+..-.|+
T Consensus 491 ~~~~~~i~~i~~----L~~~------------------------~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fd 542 (1123)
T PRK11448 491 DQTFASIYDIKG----LEDK------------------------FPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYD 542 (1123)
T ss_pred ccchhhhhchhh----hhhh------------------------cccCCCCEEEEEHHHHHHhhhccccccccCCCCccc
Confidence 1 100011000 0000 011245799999999865321 12233688
Q ss_pred EEEecccccccCcc----------------cHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHH
Q 000883 431 CMIVDEGHRLKNKD----------------SKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQE 494 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~----------------S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~ 494 (1238)
+||||||||..... ...++.+..+-...+|+|||||..+. .++|. .| .+
T Consensus 543 lIIiDEaHRs~~~d~~~~~~~~~~~~~~~~~~~yr~iL~yFdA~~IGLTATP~r~t-~~~FG-----~p-v~-------- 607 (1123)
T PRK11448 543 CIIVDEAHRGYTLDKEMSEGELQFRDQLDYVSKYRRVLDYFDAVKIGLTATPALHT-TEIFG-----EP-VY-------- 607 (1123)
T ss_pred EEEEECCCCCCccccccccchhccchhhhHHHHHHHHHhhcCccEEEEecCCccch-hHHhC-----Ce-eE--------
Confidence 99999999963210 12233333333368999999997432 11111 00 00
Q ss_pred HHhchhhHHHHHHHHHhh-chhhhhhhHhHHhhcCCCcEEEEEe----ccCC-HHHHHHHHHHHHHHHHHHHhcCCcchh
Q 000883 495 EFKDINQEEQISRLHRML-APHLLRRVKKDVMKELPPKKELILR----VELS-SKQKEYYKAILTRNYQILTRRGGAQIS 568 (1238)
Q Consensus 495 ~~~~~~~~~~~~~L~~~L-~p~~lRR~k~dv~~~LP~k~e~~v~----v~ls-~~Q~~~Y~~il~~~~~~l~~~~~~~~~ 568 (1238)
... +.+.+ ..+++ ..-||....... +... ..+...|...... +... .
T Consensus 608 ---~Ys-------l~eAI~DG~Lv--------~~~~p~~i~t~~~~~gi~~~~~e~~~~~~~~~~~----i~~~--~--- 660 (1123)
T PRK11448 608 ---TYS-------YREAVIDGYLI--------DHEPPIRIETRLSQEGIHFEKGEEVEVINTQTGE----IDLA--T--- 660 (1123)
T ss_pred ---Eee-------HHHHHhcCCcc--------cCcCCEEEEEEeccccccccccchhhhcchhhhh----hhhc--c---
Confidence 000 00111 01111 001333322111 1111 1111222211100 0000 0
Q ss_pred HHHHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHH-HHHHHHHHHHH-cCCeEEEEecchhHHHHHHHHHhh
Q 000883 569 LINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQ-LLDKMMVKLKE-QGHRVLIYSQFQHMLDLLEDYLTF 646 (1238)
Q Consensus 569 l~~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~-~L~klL~~l~~-~g~KVLIFsq~~~~ldiL~~~L~~ 646 (1238)
.+.+.......+...+-...... ++..++..+.. .+.|+||||......+.+.+.|..
T Consensus 661 --------------------l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~ 720 (1123)
T PRK11448 661 --------------------LEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKE 720 (1123)
T ss_pred --------------------CcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHH
Confidence 00000000000011111111111 22233333322 236999999999998888777654
Q ss_pred C------CC---cEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHH
Q 000883 647 K------KW---QYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMAR 717 (1238)
Q Consensus 647 ~------g~---~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR 717 (1238)
. ++ .+..++|+++ +++.+|++|.++... .+|+++...++|+|.+.+++||++++.-++..+.|++||
T Consensus 721 ~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p--~IlVsvdmL~TG~DvP~v~~vVf~rpvkS~~lf~QmIGR 796 (1123)
T PRK11448 721 AFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLP--NIVVTVDLLTTGIDVPSICNLVFLRRVRSRILYEQMLGR 796 (1123)
T ss_pred HHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCC--eEEEEecccccCCCcccccEEEEecCCCCHHHHHHHHhh
Confidence 2 22 4567999885 578899999864433 579999999999999999999999999999999999999
Q ss_pred HhhhCC---CCceEEEEEe
Q 000883 718 AHRLGQ---TNKVMIFRLI 733 (1238)
Q Consensus 718 ~hRiGQ---~k~V~VyrLv 733 (1238)
+.|..- +....||.++
T Consensus 797 gtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 797 ATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred hccCCccCCCceEEEEehH
Confidence 999864 6677888875
No 46
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.85 E-value=3.9e-20 Score=203.96 Aligned_cols=323 Identities=21% Similarity=0.295 Sum_probs=228.8
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHH-HHHHHHHHhhCCCC-CeEEEeCCccH-HHHHHHHHHHc--CCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQ-SIAFLASLFGERIS-PHLVVAPLSTL-RNWEREFATWA--PQM 359 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiq-aia~l~~l~~~~~~-p~LIVvP~sll-~qW~~E~~~~~--p~l 359 (1238)
.+.+-|.+++-.+ ..|+.+|.+.|+|+|||.. +|-++..|+.+... ..||++|.--+ .|-...|+... -++
T Consensus 83 ~PT~IQ~~aiP~~----L~g~dvIglAeTGSGKT~afaLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~igl 158 (476)
T KOG0330|consen 83 KPTKIQSEAIPVA----LGGRDVIGLAETGSGKTGAFALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGL 158 (476)
T ss_pred CCchhhhhhcchh----hCCCcEEEEeccCCCchhhhHHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCe
Confidence 4566788887554 6889999999999999987 57778888886544 56999998555 45555677765 357
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCC---ceeEEEecc
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPI---KWQCMIVDE 436 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i---~w~~vIvDE 436 (1238)
.+.++.|..+........ ..+.||+|.|+..+......-+.+ ...++|+||
T Consensus 159 r~~~lvGG~~m~~q~~~L--------------------------~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDE 212 (476)
T KOG0330|consen 159 RVAVLVGGMDMMLQANQL--------------------------SKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDE 212 (476)
T ss_pred EEEEEecCchHHHHHHHh--------------------------hcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhch
Confidence 888888887766543331 136789999999997654432222 356899999
Q ss_pred cccccCcc--cHHHHHHHhccccc-EEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 437 GHRLKNKD--SKLFSSLKQYSTRH-RVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 437 aHrlKN~~--S~~~~~l~~l~~~~-rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
|.++-|.+ -.+-..|+.+.... .+|.|||- .. .+.+|...
T Consensus 213 ADrlLd~dF~~~ld~ILk~ip~erqt~LfsATM-t~----------------------------------kv~kL~ra-- 255 (476)
T KOG0330|consen 213 ADRLLDMDFEEELDYILKVIPRERQTFLFSATM-TK----------------------------------KVRKLQRA-- 255 (476)
T ss_pred HHhhhhhhhHHHHHHHHHhcCccceEEEEEeec-ch----------------------------------hhHHHHhh--
Confidence 99998865 35667777776544 47778884 11 22222100
Q ss_pred hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 514 PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 514 p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
.+-.. +.|.-+. .|. ++..|.+ -||+-
T Consensus 256 -------------sl~~p----~~v~~s~----ky~----------------------tv~~lkQ----~ylfv------ 282 (476)
T KOG0330|consen 256 -------------SLDNP----VKVAVSS----KYQ----------------------TVDHLKQ----TYLFV------ 282 (476)
T ss_pred -------------ccCCC----eEEeccc----hhc----------------------chHHhhh----heEec------
Confidence 01000 0111000 111 1111221 12221
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAK 673 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~ 673 (1238)
...-|-..|..+|.++ .|..+||||....+.+.+.-+|+..|+....++|.++...|-.+++.|+++
T Consensus 283 -----------~~k~K~~yLV~ll~e~--~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~ 349 (476)
T KOG0330|consen 283 -----------PGKDKDTYLVYLLNEL--AGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAG 349 (476)
T ss_pred -----------cccccchhHHHHHHhh--cCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhcc
Confidence 1122334556666653 478999999999999999999999999999999999999999999999886
Q ss_pred CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHH
Q 000883 674 NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTK 747 (1238)
Q Consensus 674 ~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~ 747 (1238)
.-+ +|++|+.++.|+|.+.+|+||.||-|-+...|++|.||+.|.| +.-.+..||+. +|-..+++.+
T Consensus 350 ~r~---iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtq--yDve~~qrIE 416 (476)
T KOG0330|consen 350 ARS---ILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQ--YDVELVQRIE 416 (476)
T ss_pred CCc---EEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEeh--hhhHHHHHHH
Confidence 555 8999999999999999999999999999999999999999999 66677789988 4444555443
No 47
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.85 E-value=2.6e-19 Score=231.50 Aligned_cols=322 Identities=18% Similarity=0.208 Sum_probs=201.7
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHH-HHHHHhhCC-------CCCeEEEeCC-ccHHHHHHH---
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIA-FLASLFGER-------ISPHLVVAPL-STLRNWERE--- 351 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia-~l~~l~~~~-------~~p~LIVvP~-sll~qW~~E--- 351 (1238)
..|+|+|.+++..+ ..+.++|++.+||+|||+.++. ++..+.... ...+|+|+|+ ++..++.+.
T Consensus 31 ~~~tpiQ~~Ai~~i----l~g~nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtraLa~di~~~L~~ 106 (876)
T PRK13767 31 GTFTPPQRYAIPLI----HEGKNVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRALNNDIHRNLEE 106 (876)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHHHHHHHHHHHHH
Confidence 45999999998765 5788999999999999998744 454554321 1258999996 555666553
Q ss_pred ----HHHHc-------CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh
Q 000883 352 ----FATWA-------PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD 420 (1238)
Q Consensus 352 ----~~~~~-------p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d 420 (1238)
+..++ |++.+.+.+|+.......+. .....+|+|||++.+...
T Consensus 107 ~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~--------------------------l~~~p~IlVtTPE~L~~l 160 (876)
T PRK13767 107 PLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKM--------------------------LKKPPHILITTPESLAIL 160 (876)
T ss_pred HHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHH--------------------------HhCCCCEEEecHHHHHHH
Confidence 33333 36788888887654332111 012568999999998532
Q ss_pred h------cccCCCceeEEEecccccccCcc--cHHHHHH---Hhcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCC
Q 000883 421 S------ASLKPIKWQCMIVDEGHRLKNKD--SKLFSSL---KQYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFG 487 (1238)
Q Consensus 421 ~------~~l~~i~w~~vIvDEaHrlKN~~--S~~~~~l---~~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~ 487 (1238)
. ..|. ...+|||||+|.+.+.. ..+...+ ..+. ...+++||||. .++.++... +......
T Consensus 161 l~~~~~~~~l~--~l~~VVIDE~H~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl--~~~~~va~~---L~~~~~~ 233 (876)
T PRK13767 161 LNSPKFREKLR--TVKWVIVDEIHSLAENKRGVHLSLSLERLEELAGGEFVRIGLSATI--EPLEEVAKF---LVGYEDD 233 (876)
T ss_pred hcChhHHHHHh--cCCEEEEechhhhccCccHHHHHHHHHHHHHhcCCCCeEEEEeccc--CCHHHHHHH---hcCcccc
Confidence 1 1233 34689999999987532 2232233 2222 34679999996 334443322 2111000
Q ss_pred ChHHHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcch
Q 000883 488 SLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQI 567 (1238)
Q Consensus 488 ~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~ 567 (1238)
. . -++..+ +...........+.++...
T Consensus 234 ~------------~----------~r~~~i------v~~~~~k~~~i~v~~p~~~------------------------- 260 (876)
T PRK13767 234 G------------E----------PRDCEI------VDARFVKPFDIKVISPVDD------------------------- 260 (876)
T ss_pred C------------C----------CCceEE------EccCCCccceEEEeccCcc-------------------------
Confidence 0 0 000000 0000000000001010000
Q ss_pred hHHHHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh-
Q 000883 568 SLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF- 646 (1238)
Q Consensus 568 ~l~~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~- 646 (1238)
+..... ......+.+.|..+...++++|||++.....+.+...|..
T Consensus 261 -----------------l~~~~~----------------~~~~~~l~~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~ 307 (876)
T PRK13767 261 -----------------LIHTPA----------------EEISEALYETLHELIKEHRTTLIFTNTRSGAERVLYNLRKR 307 (876)
T ss_pred -----------------cccccc----------------chhHHHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHh
Confidence 000000 0000112233444445688999999999999998888875
Q ss_pred -----CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhh
Q 000883 647 -----KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 647 -----~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRi 721 (1238)
.+..+..++|+++.++|..+.+.|.++.. .+|++|.+++.|||++.+|+||+|+++.+...++|++||++|-
T Consensus 308 ~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i---~vLVaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~ 384 (876)
T PRK13767 308 FPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGEL---KVVVSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHR 384 (876)
T ss_pred chhhccccceeeeeCCCCHHHHHHHHHHHHcCCC---eEEEECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCC
Confidence 24678899999999999999999987543 4899999999999999999999999999999999999999976
Q ss_pred -CCCCceEEEE
Q 000883 722 -GQTNKVMIFR 731 (1238)
Q Consensus 722 -GQ~k~V~Vyr 731 (1238)
|+.....++-
T Consensus 385 ~g~~~~g~ii~ 395 (876)
T PRK13767 385 LGEVSKGRIIV 395 (876)
T ss_pred CCCCCcEEEEE
Confidence 4555555554
No 48
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.84 E-value=4e-19 Score=225.37 Aligned_cols=330 Identities=17% Similarity=0.201 Sum_probs=213.3
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc-CCCcE
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERISPHLVVAPL-STLRNWEREFATWA-PQMNV 361 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~-p~l~v 361 (1238)
+|+++|.+++..+ ..|.++|++..||+|||+.. +.++..+........|||+|+ .|..|-.+++..+. .++++
T Consensus 36 ~p~~~Q~~ai~~i----l~G~nvvv~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v 111 (742)
T TIGR03817 36 RPWQHQARAAELA----HAGRHVVVATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLRAVRELTLRGVRP 111 (742)
T ss_pred cCCHHHHHHHHHH----HCCCCEEEECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHHHHHHhccCCeEE
Confidence 6999999999876 67899999999999999986 445555554433479999996 56677888888876 35788
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--------cccCCCceeEEE
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--------ASLKPIKWQCMI 433 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--------~~l~~i~w~~vI 433 (1238)
.+|+|+....... . -....+|+|||++++.... ..|. ...+||
T Consensus 112 ~~~~Gdt~~~~r~-~--------------------------i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~--~l~~vV 162 (742)
T TIGR03817 112 ATYDGDTPTEERR-W--------------------------AREHARYVLTNPDMLHRGILPSHARWARFLR--RLRYVV 162 (742)
T ss_pred EEEeCCCCHHHHH-H--------------------------HhcCCCEEEEChHHHHHhhccchhHHHHHHh--cCCEEE
Confidence 8898876532210 0 0123689999999986321 1122 346899
Q ss_pred ecccccccCc-ccHHHHHHHhc---c-----cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHH
Q 000883 434 VDEGHRLKNK-DSKLFSSLKQY---S-----TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQ 504 (1238)
Q Consensus 434 vDEaHrlKN~-~S~~~~~l~~l---~-----~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~ 504 (1238)
|||||.+.+. .+.+...+..+ . ....+++|||. +|+.++... +...
T Consensus 163 iDEah~~~g~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi--~n~~~~~~~---l~g~-------------------- 217 (742)
T TIGR03817 163 IDECHSYRGVFGSHVALVLRRLRRLCARYGASPVFVLASATT--ADPAAAASR---LIGA-------------------- 217 (742)
T ss_pred EeChhhccCccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCC--CCHHHHHHH---HcCC--------------------
Confidence 9999998652 33333333333 1 23578999995 233332211 1000
Q ss_pred HHHHHHhhchhhhhhhHhHHhhcCCCc-EEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCc
Q 000883 505 ISRLHRMLAPHLLRRVKKDVMKELPPK-KELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHP 583 (1238)
Q Consensus 505 ~~~L~~~L~p~~lRR~k~dv~~~LP~k-~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP 583 (1238)
|+.+ ... ..-|.. ....+..+ ... . + ....+.
T Consensus 218 ---------~~~~--i~~---~~~~~~~~~~~~~~p-~~~-----~-~--------~~~~~~------------------ 250 (742)
T TIGR03817 218 ---------PVVA--VTE---DGSPRGARTVALWEP-PLT-----E-L--------TGENGA------------------ 250 (742)
T ss_pred ---------CeEE--ECC---CCCCcCceEEEEecC-Ccc-----c-c--------cccccc------------------
Confidence 0000 000 011111 11111111 000 0 0 000000
Q ss_pred ccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC--------CCcEEEEe
Q 000883 584 YMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK--------KWQYERID 655 (1238)
Q Consensus 584 ~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~--------g~~~~rid 655 (1238)
+ ... .....+..+|..++ ..+.++|||++.....+.|..+|... +.++..+.
T Consensus 251 -------~-~r~--------~~~~~~~~~l~~l~----~~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~h 310 (742)
T TIGR03817 251 -------P-VRR--------SASAEAADLLADLV----AEGARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYR 310 (742)
T ss_pred -------c-ccc--------chHHHHHHHHHHHH----HCCCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhhee
Confidence 0 000 00112333343433 45889999999999999998887653 56778899
Q ss_pred CCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 656 GKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 656 G~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
|+++.++|..+.+.|.++. +.+|++|.++++|||+...|+||+||.|-+...++|++||++|.|+... ++-++..
T Consensus 311 gg~~~~eR~~ie~~f~~G~---i~vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~ 385 (742)
T TIGR03817 311 AGYLPEDRRELERALRDGE---LLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARD 385 (742)
T ss_pred cCCCHHHHHHHHHHHHcCC---ceEEEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCC
Confidence 9999999999999998644 3489999999999999999999999999999999999999999997643 4455666
Q ss_pred CCHHHHHHH
Q 000883 736 GSIEERMMQ 744 (1238)
Q Consensus 736 ~TvEE~I~~ 744 (1238)
+..|..++.
T Consensus 386 ~~~d~~~~~ 394 (742)
T TIGR03817 386 DPLDTYLVH 394 (742)
T ss_pred ChHHHHHHh
Confidence 677766554
No 49
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.84 E-value=5.2e-19 Score=222.08 Aligned_cols=305 Identities=16% Similarity=0.250 Sum_probs=197.6
Q ss_pred CCCcHHHHHHHHHHHHhhcCC--CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC--C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQ--THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAP--Q 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~--~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p--~ 358 (1238)
.+|.++|..++..+....... .+.+|..++|+|||+.++..+...... ...+||++|+ .+..|+.+++.++++ +
T Consensus 234 f~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~-g~qvlilaPT~~LA~Q~~~~~~~l~~~~g 312 (630)
T TIGR00643 234 FKLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAAIEA-GYQVALMAPTEILAEQHYNSLRNLLAPLG 312 (630)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHHHHc-CCcEEEECCHHHHHHHHHHHHHHHhcccC
Confidence 479999999998886654332 468999999999999876555444433 2389999997 555899999999986 4
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
+++.+++|+..........+. ......+|+|+|+..+.... .+. +..+|||||+|
T Consensus 313 i~v~lltg~~~~~~r~~~~~~----------------------i~~g~~~IiVgT~~ll~~~~-~~~--~l~lvVIDEaH 367 (630)
T TIGR00643 313 IEVALLTGSLKGKRRKELLET----------------------IASGQIHLVVGTHALIQEKV-EFK--RLALVIIDEQH 367 (630)
T ss_pred cEEEEEecCCCHHHHHHHHHH----------------------HhCCCCCEEEecHHHHhccc-ccc--ccceEEEechh
Confidence 788888887543321111100 01236789999998876422 222 45799999999
Q ss_pred cccCcccHHHHHHHhc-c---cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 439 RLKNKDSKLFSSLKQY-S---TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l-~---~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
++.-. ....+... . ..+.|++||||....+. +..+ .+. .
T Consensus 368 ~fg~~---qr~~l~~~~~~~~~~~~l~~SATp~prtl~----l~~~----------------~~l-------------~- 410 (630)
T TIGR00643 368 RFGVE---QRKKLREKGQGGFTPHVLVMSATPIPRTLA----LTVY----------------GDL-------------D- 410 (630)
T ss_pred hccHH---HHHHHHHhcccCCCCCEEEEeCCCCcHHHH----HHhc----------------CCc-------------c-
Confidence 97422 22223222 2 46789999999653211 1000 000 0
Q ss_pred hhhhhhHhHHhhcCCCcE--EEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCC
Q 000883 515 HLLRRVKKDVMKELPPKK--ELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPD 592 (1238)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~--e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~ 592 (1238)
..+...+|+.. .....+.-..
T Consensus 411 -------~~~i~~~p~~r~~i~~~~~~~~~-------------------------------------------------- 433 (630)
T TIGR00643 411 -------TSIIDELPPGRKPITTVLIKHDE-------------------------------------------------- 433 (630)
T ss_pred -------eeeeccCCCCCCceEEEEeCcch--------------------------------------------------
Confidence 00011222210 0000010000
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecch--------hHHHHHHHHHhh--CCCcEEEEeCCCCHHH
Q 000883 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQ--------HMLDLLEDYLTF--KKWQYERIDGKVGGAE 662 (1238)
Q Consensus 593 ~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~--------~~ldiL~~~L~~--~g~~~~ridG~~~~~~ 662 (1238)
+ ..+...+.+....|++++||+... .....+.+.|.. .++.+..++|.++..+
T Consensus 434 ----------------~-~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~e 496 (630)
T TIGR00643 434 ----------------K-DIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDE 496 (630)
T ss_pred ----------------H-HHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHH
Confidence 0 111122222334577888888654 223344444443 4788999999999999
Q ss_pred HHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC-ChhhhhHHHHHHhhhCCCCceE
Q 000883 663 RQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW-NPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 663 R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW-Np~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
|..+++.|.++... +|++|.+.++|||++.+++||+++.+. +-..+.|+.||++|-|....+.
T Consensus 497 R~~i~~~F~~g~~~---ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~i 560 (630)
T TIGR00643 497 KEAVMEEFREGEVD---ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCL 560 (630)
T ss_pred HHHHHHHHHcCCCC---EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEE
Confidence 99999999875544 899999999999999999999999984 6788999999999998754443
No 50
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.84 E-value=4.8e-19 Score=223.84 Aligned_cols=308 Identities=16% Similarity=0.203 Sum_probs=199.5
Q ss_pred CCCcHHHHHHHHHHHHhhcCC--CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCC--
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQ--THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQ-- 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~--~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~-- 358 (1238)
.+|+++|..++.-+...+..+ .+.+|..++|+|||+.++..+...... ...+||++|+ .+..|..+.|.++++.
T Consensus 260 f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~-g~q~lilaPT~~LA~Q~~~~l~~l~~~~~ 338 (681)
T PRK10917 260 FELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAIEA-GYQAALMAPTEILAEQHYENLKKLLEPLG 338 (681)
T ss_pred CCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHHHc-CCeEEEEeccHHHHHHHHHHHHHHHhhcC
Confidence 579999999998886655443 478999999999999886555444333 2379999997 5567899999999865
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
+++.+++|...........+- ......+|+|+|+..+.... .+. +..+|||||+|
T Consensus 339 i~v~ll~G~~~~~~r~~~~~~----------------------l~~g~~~IvVgT~~ll~~~v-~~~--~l~lvVIDE~H 393 (681)
T PRK10917 339 IRVALLTGSLKGKERREILEA----------------------IASGEADIVIGTHALIQDDV-EFH--NLGLVIIDEQH 393 (681)
T ss_pred cEEEEEcCCCCHHHHHHHHHH----------------------HhCCCCCEEEchHHHhcccc-hhc--ccceEEEechh
Confidence 778888887653221111100 01236789999998875421 232 45789999999
Q ss_pred cccCcccHHHHHHHhc-ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhh
Q 000883 439 RLKNKDSKLFSSLKQY-STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLL 517 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l-~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~l 517 (1238)
++. ......+... ...+.|++||||+...+ .+..+ .+ +...
T Consensus 394 rfg---~~qr~~l~~~~~~~~iL~~SATp~prtl----~~~~~----------------g~-------------~~~s-- 435 (681)
T PRK10917 394 RFG---VEQRLALREKGENPHVLVMTATPIPRTL----AMTAY----------------GD-------------LDVS-- 435 (681)
T ss_pred hhh---HHHHHHHHhcCCCCCEEEEeCCCCHHHH----HHHHc----------------CC-------------CceE--
Confidence 973 2233344433 24688999999953211 00000 00 0000
Q ss_pred hhhHhHHhhcCCCcE--EEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccc
Q 000883 518 RRVKKDVMKELPPKK--ELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIED 595 (1238)
Q Consensus 518 RR~k~dv~~~LP~k~--e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~ 595 (1238)
+...+|+.. .....+..
T Consensus 436 ------~i~~~p~~r~~i~~~~~~~------------------------------------------------------- 454 (681)
T PRK10917 436 ------VIDELPPGRKPITTVVIPD------------------------------------------------------- 454 (681)
T ss_pred ------EEecCCCCCCCcEEEEeCc-------------------------------------------------------
Confidence 001122210 00000000
Q ss_pred hHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchh--------HHHHHHHHHhhC--CCcEEEEeCCCCHHHHHH
Q 000883 596 TNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQH--------MLDLLEDYLTFK--KWQYERIDGKVGGAERQI 665 (1238)
Q Consensus 596 ~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~--------~ldiL~~~L~~~--g~~~~ridG~~~~~~R~~ 665 (1238)
.+...+.+.+....+.|++++|||..+. ....+.+.|... ++++..++|.++..+|+.
T Consensus 455 ------------~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~ 522 (681)
T PRK10917 455 ------------SRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDA 522 (681)
T ss_pred ------------ccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHH
Confidence 0001112223333367889999987532 233445555433 578999999999999999
Q ss_pred HHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC-ChhhhhHHHHHHhhhCCCCceEEEEEe
Q 000883 666 RIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW-NPHADLQAMARAHRLGQTNKVMIFRLI 733 (1238)
Q Consensus 666 ~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW-Np~~~~Qa~gR~hRiGQ~k~V~VyrLv 733 (1238)
++++|.++... +|++|.+.++|||++.+++||+++++. ....+.|+.||++|-|... .+|-+.
T Consensus 523 i~~~F~~g~~~---ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g--~~ill~ 586 (681)
T PRK10917 523 VMAAFKAGEID---ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQS--YCVLLY 586 (681)
T ss_pred HHHHHHcCCCC---EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCce--EEEEEE
Confidence 99999875544 899999999999999999999999984 5688899999999988654 444444
No 51
>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=99.83 E-value=8.4e-19 Score=224.42 Aligned_cols=309 Identities=17% Similarity=0.208 Sum_probs=203.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCC--CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC-
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQ--THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM- 359 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~--~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l- 359 (1238)
.++.|.|..++..+..-...+ .+.+++.++|.|||..++..+......+ ..+||+||+ .+..|....|.++++.+
T Consensus 450 f~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al~~g-~qvlvLvPT~~LA~Q~~~~f~~~~~~~~ 528 (926)
T TIGR00580 450 FEETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAVLDG-KQVAVLVPTTLLAQQHFETFKERFANFP 528 (926)
T ss_pred CCCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHHHhC-CeEEEEeCcHHHHHHHHHHHHHHhccCC
Confidence 468999999999886654443 5789999999999998765444333332 479999997 55578888899887654
Q ss_pred -cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 360 -NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 360 -~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
++.+++|.......-...+ .....+.+|||+|+..+.++. .++ +..+|||||+|
T Consensus 529 i~v~~Lsg~~~~~e~~~~~~----------------------~l~~g~~dIVIGTp~ll~~~v-~f~--~L~llVIDEah 583 (926)
T TIGR00580 529 VTIELLSRFRSAKEQNEILK----------------------ELASGKIDILIGTHKLLQKDV-KFK--DLGLLIIDEEQ 583 (926)
T ss_pred cEEEEEeccccHHHHHHHHH----------------------HHHcCCceEEEchHHHhhCCC-Ccc--cCCEEEeeccc
Confidence 5556666543222111100 001135789999997764322 222 45799999999
Q ss_pred cccCcccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhh
Q 000883 439 RLKNKDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLL 517 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~l 517 (1238)
++.- .....+..+. ..+.|+|||||....+. ..+.. ...+.++
T Consensus 584 rfgv---~~~~~L~~~~~~~~vL~~SATpiprtl~---~~l~g------------------------------~~d~s~I 627 (926)
T TIGR00580 584 RFGV---KQKEKLKELRTSVDVLTLSATPIPRTLH---MSMSG------------------------------IRDLSII 627 (926)
T ss_pred ccch---hHHHHHHhcCCCCCEEEEecCCCHHHHH---HHHhc------------------------------CCCcEEE
Confidence 9732 3344555554 45789999999643211 10000 0000000
Q ss_pred hhhHhHHhhcCCCcEEEEE---eccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 518 RRVKKDVMKELPPKKELIL---RVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 518 RR~k~dv~~~LP~k~e~~v---~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
..||.....+ .++.+. .
T Consensus 628 ---------~~~p~~R~~V~t~v~~~~~--~------------------------------------------------- 647 (926)
T TIGR00580 628 ---------ATPPEDRLPVRTFVMEYDP--E------------------------------------------------- 647 (926)
T ss_pred ---------ecCCCCccceEEEEEecCH--H-------------------------------------------------
Confidence 0111110000 000000 0
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC--CCcEEEEeCCCCHHHHHHHHHHHhc
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK--KWQYERIDGKVGGAERQIRIDRFNA 672 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~--g~~~~ridG~~~~~~R~~~I~~Fn~ 672 (1238)
.+...++.. ...|.+|+||++.+...+.+.+.|... ++++..++|.++..+|..++.+|.+
T Consensus 648 ----------------~i~~~i~~e-l~~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~ 710 (926)
T TIGR00580 648 ----------------LVREAIRRE-LLRGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYK 710 (926)
T ss_pred ----------------HHHHHHHHH-HHcCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHc
Confidence 000011112 235789999999999999999999874 7899999999999999999999987
Q ss_pred CCCCceEEEeeccccccccCcCCCCEEEEEcCC-CChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 673 KNSSRFCFLLSTRAGGLGINLATADTVIIYDSD-WNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 673 ~~s~~~v~LlStragg~GINL~~Ad~VIi~D~d-WNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
+..+ +||+|.+.+.|||++.+++||+++.+ +....+.|+.||++|.|.. -.+|-|+..+
T Consensus 711 Gk~~---ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~--g~aill~~~~ 770 (926)
T TIGR00580 711 GEFQ---VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKK--AYAYLLYPHQ 770 (926)
T ss_pred CCCC---EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCC--eEEEEEECCc
Confidence 6554 89999999999999999999999986 4566889999999998764 4555565443
No 52
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.82 E-value=1.3e-18 Score=227.09 Aligned_cols=302 Identities=19% Similarity=0.209 Sum_probs=198.6
Q ss_pred CCCcHHHHHHHHHHHHhhcC--CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH-HHHHHHHHHHcCC--
Q 000883 284 GSLHPYQLEGLNFLRFSWSK--QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL-RNWEREFATWAPQ-- 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~--~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll-~qW~~E~~~~~p~-- 358 (1238)
.++.+.|.+++.-+...... ..+.+++.++|+|||.+++-.+..... ....+||+||+..| .|..+.|.+++..
T Consensus 599 ~~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~~~-~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~ 677 (1147)
T PRK10689 599 FETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVE-NHKQVAVLVPTTLLAQQHYDNFRDRFANWP 677 (1147)
T ss_pred CCCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHHHH-cCCeEEEEeCcHHHHHHHHHHHHHhhccCC
Confidence 46899999999876554433 367899999999999987644333322 23489999997554 7788888876644
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
+++.+++|...........+- ......+|||+|++.+..+. .--+.++|||||+|
T Consensus 678 v~i~~l~g~~s~~e~~~il~~----------------------l~~g~~dIVVgTp~lL~~~v---~~~~L~lLVIDEah 732 (1147)
T PRK10689 678 VRIEMLSRFRSAKEQTQILAE----------------------AAEGKIDILIGTHKLLQSDV---KWKDLGLLIVDEEH 732 (1147)
T ss_pred ceEEEEECCCCHHHHHHHHHH----------------------HHhCCCCEEEECHHHHhCCC---CHhhCCEEEEechh
Confidence 455566654332221111000 01135789999998775322 22356899999999
Q ss_pred cccCcccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhh
Q 000883 439 RLKNKDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLL 517 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~l 517 (1238)
++.. .....++.+. ....|++||||++..+.- . +.++ ..+.++
T Consensus 733 rfG~---~~~e~lk~l~~~~qvLl~SATpiprtl~l--~-~~gl------------------------------~d~~~I 776 (1147)
T PRK10689 733 RFGV---RHKERIKAMRADVDILTLTATPIPRTLNM--A-MSGM------------------------------RDLSII 776 (1147)
T ss_pred hcch---hHHHHHHhcCCCCcEEEEcCCCCHHHHHH--H-HhhC------------------------------CCcEEE
Confidence 9832 2334455554 457899999996533211 0 0000 000000
Q ss_pred hhhHhHHhhcCCCcEEE---EEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 518 RRVKKDVMKELPPKKEL---ILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 518 RR~k~dv~~~LP~k~e~---~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
..||.... .+......
T Consensus 777 ---------~~~p~~r~~v~~~~~~~~~---------------------------------------------------- 795 (1147)
T PRK10689 777 ---------ATPPARRLAVKTFVREYDS---------------------------------------------------- 795 (1147)
T ss_pred ---------ecCCCCCCCceEEEEecCc----------------------------------------------------
Confidence 01111000 00000000
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC--CCcEEEEeCCCCHHHHHHHHHHHhc
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK--KWQYERIDGKVGGAERQIRIDRFNA 672 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~--g~~~~ridG~~~~~~R~~~I~~Fn~ 672 (1238)
......++..+. +|.+|+||++.+..++.+.+.|... ++.+..++|.++..+|..++.+|.+
T Consensus 796 ---------------~~~k~~il~el~-r~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~ 859 (1147)
T PRK10689 796 ---------------LVVREAILREIL-RGGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHH 859 (1147)
T ss_pred ---------------HHHHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHh
Confidence 000112222332 4678999999999999999999876 7899999999999999999999987
Q ss_pred CCCCceEEEeeccccccccCcCCCCEEEEEcCC-CChhhhhHHHHHHhhhCCCCce
Q 000883 673 KNSSRFCFLLSTRAGGLGINLATADTVIIYDSD-WNPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 673 ~~s~~~v~LlStragg~GINL~~Ad~VIi~D~d-WNp~~~~Qa~gR~hRiGQ~k~V 727 (1238)
+..+ +|++|.+.+.|||++.+++||+.+++ ++...+.|+.||++|.|.+..+
T Consensus 860 Gk~~---VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g~a 912 (1147)
T PRK10689 860 QRFN---VLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYA 912 (1147)
T ss_pred cCCC---EEEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCceEE
Confidence 6554 89999999999999999999998886 6778899999999999875433
No 53
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=4.7e-18 Score=207.92 Aligned_cols=328 Identities=20% Similarity=0.323 Sum_probs=224.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhh--CCCCC-eEEEeCC-ccHHHHHHHHHHHcC-
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFG--ERISP-HLVVAPL-STLRNWEREFATWAP- 357 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~--~~~~p-~LIVvP~-sll~qW~~E~~~~~p- 357 (1238)
..+.|.|..++--+ ..+..+|....+|+|||... |-++..+.. ....+ .||++|+ .+..|-.+++..+..
T Consensus 50 ~~pt~IQ~~~IP~~----l~g~Dvi~~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~aLil~PTRELA~Qi~~~~~~~~~~ 125 (513)
T COG0513 50 EEPTPIQLAAIPLI----LAGRDVLGQAQTGTGKTAAFLLPLLQKILKSVERKYVSALILAPTRELAVQIAEELRKLGKN 125 (513)
T ss_pred CCCCHHHHHHHHHH----hCCCCEEEECCCCChHHHHHHHHHHHHHhcccccCCCceEEECCCHHHHHHHHHHHHHHHhh
Confidence 46888999998655 56799999999999999874 445555442 22223 9999997 555677777777763
Q ss_pred --CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEE
Q 000883 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMI 433 (1238)
Q Consensus 358 --~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vI 433 (1238)
.+++.+++|...-...+... . ...||||.|+..+.... ..+..-...++|
T Consensus 126 ~~~~~~~~i~GG~~~~~q~~~l-------------------------~-~~~~ivVaTPGRllD~i~~~~l~l~~v~~lV 179 (513)
T COG0513 126 LGGLRVAVVYGGVSIRKQIEAL-------------------------K-RGVDIVVATPGRLLDLIKRGKLDLSGVETLV 179 (513)
T ss_pred cCCccEEEEECCCCHHHHHHHH-------------------------h-cCCCEEEECccHHHHHHHcCCcchhhcCEEE
Confidence 57778888776554443322 1 14899999999887432 234444667899
Q ss_pred ecccccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHH
Q 000883 434 VDEGHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHR 510 (1238)
Q Consensus 434 vDEaHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~ 510 (1238)
+|||.++-+.+ ..+...+..+.. ...++.|||--. .+ ..|..
T Consensus 180 lDEADrmLd~Gf~~~i~~I~~~~p~~~qtllfSAT~~~-~i----------------------------------~~l~~ 224 (513)
T COG0513 180 LDEADRMLDMGFIDDIEKILKALPPDRQTLLFSATMPD-DI----------------------------------RELAR 224 (513)
T ss_pred eccHhhhhcCCCHHHHHHHHHhCCcccEEEEEecCCCH-HH----------------------------------HHHHH
Confidence 99999998763 345555555554 567889999621 11 11110
Q ss_pred -hh-chhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccC
Q 000883 511 -ML-APHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 511 -~L-~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
.+ .|..+..-........+......+.|.-
T Consensus 225 ~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~------------------------------------------------ 256 (513)
T COG0513 225 RYLNDPVEIEVSVEKLERTLKKIKQFYLEVES------------------------------------------------ 256 (513)
T ss_pred HHccCCcEEEEccccccccccCceEEEEEeCC------------------------------------------------
Confidence 00 1110000000000001111111111110
Q ss_pred CCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHH
Q 000883 589 VEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRID 668 (1238)
Q Consensus 589 ~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~ 668 (1238)
...|+.+|..++.... ..++|||+......+.|...|...|+++..|+|++++.+|..+++
T Consensus 257 -----------------~~~k~~~L~~ll~~~~--~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~ 317 (513)
T COG0513 257 -----------------EEEKLELLLKLLKDED--EGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALE 317 (513)
T ss_pred -----------------HHHHHHHHHHHHhcCC--CCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHH
Confidence 0147777777776533 237999999999999999999999999999999999999999999
Q ss_pred HHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHH
Q 000883 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1238)
Q Consensus 669 ~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~ 748 (1238)
.|+++... +|++|++++.||+++..++||.||.+.++..|++++||.+|.|.+- ..+.|++. .-|...+....+
T Consensus 318 ~F~~g~~~---vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~~G--~ai~fv~~-~~e~~~l~~ie~ 391 (513)
T COG0513 318 KFKDGELR---VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRKG--VAISFVTE-EEEVKKLKRIEK 391 (513)
T ss_pred HHHcCCCC---EEEEechhhccCCccccceeEEccCCCCHHHheeccCccccCCCCC--eEEEEeCc-HHHHHHHHHHHH
Confidence 99965544 8999999999999999999999999999999999999999999443 55566665 235555555555
Q ss_pred H
Q 000883 749 K 749 (1238)
Q Consensus 749 K 749 (1238)
.
T Consensus 392 ~ 392 (513)
T COG0513 392 R 392 (513)
T ss_pred H
Confidence 4
No 54
>PRK02362 ski2-like helicase; Provisional
Probab=99.78 E-value=1.4e-17 Score=213.49 Aligned_cols=317 Identities=20% Similarity=0.180 Sum_probs=198.9
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHH-HHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC-CCc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIA-FLASLFGERISPHLVVAPL-STLRNWEREFATWAP-QMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia-~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p-~l~ 360 (1238)
.+|+|+|.+++.-+ +..+.+++++.++|.|||+.+.. ++..+. ..+++|+|+|. +++.|+.++|.++.+ +++
T Consensus 22 ~~l~p~Q~~ai~~~---~~~g~nvlv~APTGSGKTlia~lail~~l~--~~~kal~i~P~raLa~q~~~~~~~~~~~g~~ 96 (737)
T PRK02362 22 EELYPPQAEAVEAG---LLDGKNLLAAIPTASGKTLIAELAMLKAIA--RGGKALYIVPLRALASEKFEEFERFEELGVR 96 (737)
T ss_pred CcCCHHHHHHHHHH---HhCCCcEEEECCCcchHHHHHHHHHHHHHh--cCCcEEEEeChHHHHHHHHHHHHHhhcCCCE
Confidence 36999999998642 35788999999999999999854 444443 23589999995 788899999988753 678
Q ss_pred EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc----ccCCCceeEEEecc
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA----SLKPIKWQCMIVDE 436 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~----~l~~i~w~~vIvDE 436 (1238)
+.+++|+...... .....+|+|+|++.+..... .+. ..++|||||
T Consensus 97 v~~~tGd~~~~~~-----------------------------~l~~~~IiV~Tpek~~~llr~~~~~l~--~v~lvViDE 145 (737)
T PRK02362 97 VGISTGDYDSRDE-----------------------------WLGDNDIIVATSEKVDSLLRNGAPWLD--DITCVVVDE 145 (737)
T ss_pred EEEEeCCcCcccc-----------------------------ccCCCCEEEECHHHHHHHHhcChhhhh--hcCEEEEEC
Confidence 8888886432110 11356899999998744221 122 357999999
Q ss_pred cccccCcc--cHHHHHHHhc---c-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHH
Q 000883 437 GHRLKNKD--SKLFSSLKQY---S-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHR 510 (1238)
Q Consensus 437 aHrlKN~~--S~~~~~l~~l---~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~ 510 (1238)
+|.+.+.. ..+-..+..+ . ....++||||. .|..++...+ ....+.+
T Consensus 146 ~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl--~n~~~la~wl---~~~~~~~---------------------- 198 (737)
T PRK02362 146 VHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATI--GNADELADWL---DAELVDS---------------------- 198 (737)
T ss_pred ccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccC--CCHHHHHHHh---CCCcccC----------------------
Confidence 99986532 2222222222 2 34679999997 3455544332 2211100
Q ss_pred hhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCC
Q 000883 511 MLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVE 590 (1238)
Q Consensus 511 ~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e 590 (1238)
..+|. | ....+.... . ++ . ... +..+
T Consensus 199 ~~rpv-------------~-l~~~v~~~~--~----~~----------~---~~~----------------~~~~----- 224 (737)
T PRK02362 199 EWRPI-------------D-LREGVFYGG--A----IH----------F---DDS----------------QREV----- 224 (737)
T ss_pred CCCCC-------------C-CeeeEecCC--e----ec----------c---ccc----------------cccC-----
Confidence 00010 0 000000000 0 00 0 000 0000
Q ss_pred CCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC-----------------------
Q 000883 591 PDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK----------------------- 647 (1238)
Q Consensus 591 ~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~----------------------- 647 (1238)
....+.. ...++......+.++|||++.....+.+...|...
T Consensus 225 --------------~~~~~~~-~~~~~~~~~~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~ 289 (737)
T PRK02362 225 --------------EVPSKDD-TLNLVLDTLEEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREV 289 (737)
T ss_pred --------------CCccchH-HHHHHHHHHHcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhc
Confidence 0000000 11122222346789999999887766655555321
Q ss_pred -------------CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEE----Ec-----CC
Q 000883 648 -------------KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII----YD-----SD 705 (1238)
Q Consensus 648 -------------g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi----~D-----~d 705 (1238)
...+..++|+++..+|..+.+.|.++. +-+|++|.+++.|||+++..+||. || .+
T Consensus 290 ~~~~~~~~L~~~l~~gva~hHagl~~~eR~~ve~~Fr~G~---i~VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~ 366 (737)
T PRK02362 290 SDTETSKDLADCVAKGAAFHHAGLSREHRELVEDAFRDRL---IKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQP 366 (737)
T ss_pred cCccccHHHHHHHHhCEEeecCCCCHHHHHHHHHHHHcCC---CeEEEechhhhhhcCCCceEEEEecceeecCCCCcee
Confidence 135778899999999999999998744 348999999999999999877775 77 47
Q ss_pred CChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 706 WNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 706 WNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
.++..+.|++|||+|.|....-.++-++..
T Consensus 367 ~s~~~y~Qm~GRAGR~g~d~~G~~ii~~~~ 396 (737)
T PRK02362 367 IPVLEYHQMAGRAGRPGLDPYGEAVLLAKS 396 (737)
T ss_pred CCHHHHHHHhhcCCCCCCCCCceEEEEecC
Confidence 788999999999999998765556555543
No 55
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.77 E-value=2.7e-17 Score=194.22 Aligned_cols=328 Identities=14% Similarity=0.187 Sum_probs=196.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAPL-STLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKN 384 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~ 384 (1238)
+++..++|+|||.+++..+...... ..+++++|+|. +++.|+.+.+..++.. ++..++|...... .... .+.
T Consensus 2 vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~-~~~~~~~~~~~~~-~~~~----~~~ 75 (358)
T TIGR01587 2 LVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGS-NLGLLHSSSSFKR-IKEM----GDS 75 (358)
T ss_pred EEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCc-ccEEeeccHHHHH-Hhcc----CCc
Confidence 5789999999999988877665543 34589999995 7888999999988744 5666676543211 0000 000
Q ss_pred chhhhccccCccccccccccccccEEEecHHHHHhhhcc-c-------CCCceeEEEecccccccCccc-HHHHHHHhcc
Q 000883 385 PKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS-L-------KPIKWQCMIVDEGHRLKNKDS-KLFSSLKQYS 455 (1238)
Q Consensus 385 ~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~-l-------~~i~w~~vIvDEaHrlKN~~S-~~~~~l~~l~ 455 (1238)
. ...... .............+++++|++.+...... + ..+...+||+||+|.+..... .+...+..+.
T Consensus 76 ~-~~~~~~--~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~~~~l~~~l~~l~ 152 (358)
T TIGR01587 76 E-EFEHLF--PLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYTLALILAVLEVLK 152 (358)
T ss_pred h-hHHHHH--HHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence 0 000000 00000001123567999999987653222 1 122337899999999875422 2333333332
Q ss_pred --cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEE
Q 000883 456 --TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKE 533 (1238)
Q Consensus 456 --~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e 533 (1238)
....+++|||+- ..+-.++. .+.. ......+
T Consensus 153 ~~~~~~i~~SATlp----~~l~~~~~----------------------------------~~~~-----~~~~~~~---- 185 (358)
T TIGR01587 153 DNDVPILLMSATLP----KFLKEYAE----------------------------------KIGY-----VEFNEPL---- 185 (358)
T ss_pred HcCCCEEEEecCch----HHHHHHHh----------------------------------cCCC-----cccccCC----
Confidence 345799999962 00000000 0000 0000000
Q ss_pred EEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHH
Q 000883 534 LILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLL 613 (1238)
Q Consensus 534 ~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L 613 (1238)
...+.. ....|++..... ....|...+
T Consensus 186 -----~~~~~~---------------------------------~~~~~~~~~~~~---------------~~~~~~~~l 212 (358)
T TIGR01587 186 -----DLKEER---------------------------------RFERHRFIKIES---------------DKVGEISSL 212 (358)
T ss_pred -----CCcccc---------------------------------ccccccceeecc---------------ccccCHHHH
Confidence 000000 000111110000 011233445
Q ss_pred HHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCC--cEEEEeCCCCHHHHHHH----HHHHhcCCCCceEEEeecccc
Q 000883 614 DKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKW--QYERIDGKVGGAERQIR----IDRFNAKNSSRFCFLLSTRAG 687 (1238)
Q Consensus 614 ~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~--~~~ridG~~~~~~R~~~----I~~Fn~~~s~~~v~LlStrag 687 (1238)
.+++..+ ..+.++|||++.....+.+...|...+. .+..++|.++..+|... ++.|.++. ..+|++|.+.
T Consensus 213 ~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~---~~ilvaT~~~ 288 (358)
T TIGR01587 213 ERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNE---KFVIVATQVI 288 (358)
T ss_pred HHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCC---CeEEEECcch
Confidence 5555333 3578999999999999999999987766 48999999999999764 88887633 3489999999
Q ss_pred ccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC----ceEEEEEecCC---CHHHHHHHHHHHHH
Q 000883 688 GLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN----KVMIFRLITRG---SIEERMMQMTKKKM 750 (1238)
Q Consensus 688 g~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k----~V~VyrLvt~~---TvEE~I~~~~~~K~ 750 (1238)
+.|||+. +++||.++.+ +..++|++||++|.|.+. .|.||.....+ .++..++++..+++
T Consensus 289 ~~GiDi~-~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~t~~~~ 355 (358)
T TIGR01587 289 EASLDIS-ADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEGKLFPYPYELVERTIQKL 355 (358)
T ss_pred hceeccC-CCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCCCeecCCHHHHHHHHHHH
Confidence 9999995 8999988775 889999999999999763 45666555444 56667777666554
No 56
>PRK00254 ski2-like helicase; Provisional
Probab=99.76 E-value=7.6e-17 Score=206.14 Aligned_cols=317 Identities=19% Similarity=0.187 Sum_probs=194.0
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC-CCc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERISPHLVVAPL-STLRNWEREFATWAP-QMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p-~l~ 360 (1238)
.+|+|+|.+++.-. +..+.++|++.++|+|||+.+ ++++..+.. ..+.+|+|+|. +++.++.++|..|.. +.+
T Consensus 22 ~~l~~~Q~~ai~~~---~~~g~nvlv~apTGsGKT~~~~l~il~~l~~-~~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~ 97 (720)
T PRK00254 22 EELYPPQAEALKSG---VLEGKNLVLAIPTASGKTLVAEIVMVNKLLR-EGGKAVYLVPLKALAEEKYREFKDWEKLGLR 97 (720)
T ss_pred CCCCHHHHHHHHHH---HhCCCcEEEECCCCcHHHHHHHHHHHHHHHh-cCCeEEEEeChHHHHHHHHHHHHHHhhcCCE
Confidence 36999999998631 367899999999999999998 455555443 33589999996 677888888887753 567
Q ss_pred EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc----ccCCCceeEEEecc
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA----SLKPIKWQCMIVDE 436 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~----~l~~i~w~~vIvDE 436 (1238)
+..++|+...... .....+|+|+|++.+..... .+. ..++|||||
T Consensus 98 v~~~~Gd~~~~~~-----------------------------~~~~~~IiV~Tpe~~~~ll~~~~~~l~--~l~lvViDE 146 (720)
T PRK00254 98 VAMTTGDYDSTDE-----------------------------WLGKYDIIIATAEKFDSLLRHGSSWIK--DVKLVVADE 146 (720)
T ss_pred EEEEeCCCCCchh-----------------------------hhccCCEEEEcHHHHHHHHhCCchhhh--cCCEEEEcC
Confidence 7788876432110 01356899999998754321 222 457999999
Q ss_pred cccccC--cccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 437 GHRLKN--KDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 437 aHrlKN--~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
+|.+.. ....+...+..+. ....++||||. .|..++...+ ....+.. ..+
T Consensus 147 ~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl--~n~~~la~wl---~~~~~~~----------------------~~r 199 (720)
T PRK00254 147 IHLIGSYDRGATLEMILTHMLGRAQILGLSATV--GNAEELAEWL---NAELVVS----------------------DWR 199 (720)
T ss_pred cCccCCccchHHHHHHHHhcCcCCcEEEEEccC--CCHHHHHHHh---CCccccC----------------------CCC
Confidence 999864 3344445555554 34678999997 2355554322 2211100 000
Q ss_pred hhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 514 PHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 514 p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
| .|-... ++ ..-. ..+. .+... +
T Consensus 200 p-------------v~l~~~-~~-~~~~----~~~~-------------~~~~~----------~--------------- 222 (720)
T PRK00254 200 P-------------VKLRKG-VF-YQGF----LFWE-------------DGKIE----------R--------------- 222 (720)
T ss_pred C-------------Ccceee-Ee-cCCe----eecc-------------Ccchh----------c---------------
Confidence 0 110000 00 0000 0000 00000 0
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh---------------------------
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF--------------------------- 646 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~--------------------------- 646 (1238)
. ...+..++..+...|.++|||+......+.+...|..
T Consensus 223 ---------~------~~~~~~~~~~~i~~~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (720)
T PRK00254 223 ---------F------PNSWESLVYDAVKKGKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTN 287 (720)
T ss_pred ---------c------hHHHHHHHHHHHHhCCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCc
Confidence 0 0001112222233577888888776554433322210
Q ss_pred ------CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEE-------EcCCC-Chhhhh
Q 000883 647 ------KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII-------YDSDW-NPHADL 712 (1238)
Q Consensus 647 ------~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi-------~D~dW-Np~~~~ 712 (1238)
....+..++|+++.++|..+.+.|.++. ..+|++|.+++.|+|+++.++||. ++.+. ....+.
T Consensus 288 ~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~G~---i~VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~ 364 (720)
T PRK00254 288 EKLKKALRGGVAFHHAGLGRTERVLIEDAFREGL---IKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQ 364 (720)
T ss_pred HHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHCCC---CeEEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHH
Confidence 1235788999999999999999998754 348999999999999998877774 22222 345789
Q ss_pred HHHHHHhhhCCCCceEEEEEecCCC
Q 000883 713 QAMARAHRLGQTNKVMIFRLITRGS 737 (1238)
Q Consensus 713 Qa~gR~hRiGQ~k~V~VyrLvt~~T 737 (1238)
|++|||+|.|..+.-.++-+++.+.
T Consensus 365 Qm~GRAGR~~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 365 QMMGRAGRPKYDEVGEAIIVATTEE 389 (720)
T ss_pred HhhhccCCCCcCCCceEEEEecCcc
Confidence 9999999998776666666665543
No 57
>PRK01172 ski2-like helicase; Provisional
Probab=99.76 E-value=4.4e-17 Score=207.39 Aligned_cols=308 Identities=19% Similarity=0.201 Sum_probs=191.5
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC-CCcE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAP-QMNV 361 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p-~l~v 361 (1238)
.+|+|+|.++++.+ ..+.+++++.++|+|||+++...+...... .+.+++|+|. ++..++.+++.++.. +..+
T Consensus 21 ~~l~~~Q~~ai~~l----~~~~nvlv~apTGSGKTl~a~lail~~l~~-~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v 95 (674)
T PRK01172 21 FELYDHQRMAIEQL----RKGENVIVSVPTAAGKTLIAYSAIYETFLA-GLKSIYIVPLRSLAMEKYEELSRLRSLGMRV 95 (674)
T ss_pred CCCCHHHHHHHHHH----hcCCcEEEECCCCchHHHHHHHHHHHHHHh-CCcEEEEechHHHHHHHHHHHHHHhhcCCeE
Confidence 46999999999865 678899999999999999886555443332 2488999995 777888888887652 4666
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccCCCceeEEEeccc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~~i~w~~vIvDEa 437 (1238)
....|....... .....+|+|+|++.+... ...+. ++++|||||+
T Consensus 96 ~~~~G~~~~~~~-----------------------------~~~~~dIiv~Tpek~~~l~~~~~~~l~--~v~lvViDEa 144 (674)
T PRK01172 96 KISIGDYDDPPD-----------------------------FIKRYDVVILTSEKADSLIHHDPYIIN--DVGLIVADEI 144 (674)
T ss_pred EEEeCCCCCChh-----------------------------hhccCCEEEECHHHHHHHHhCChhHHh--hcCEEEEecc
Confidence 677765432110 012468999999876432 11222 4679999999
Q ss_pred ccccCcc--cHHHHHHH---hcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHh
Q 000883 438 HRLKNKD--SKLFSSLK---QYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRM 511 (1238)
Q Consensus 438 HrlKN~~--S~~~~~l~---~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~ 511 (1238)
|.+.... ..+...+. .+. ....++||||+ .|..++.. ++....+.. .
T Consensus 145 H~l~d~~rg~~le~ll~~~~~~~~~~riI~lSATl--~n~~~la~---wl~~~~~~~----------------------~ 197 (674)
T PRK01172 145 HIIGDEDRGPTLETVLSSARYVNPDARILALSATV--SNANELAQ---WLNASLIKS----------------------N 197 (674)
T ss_pred hhccCCCccHHHHHHHHHHHhcCcCCcEEEEeCcc--CCHHHHHH---HhCCCccCC----------------------C
Confidence 9986432 22222222 222 23578999997 23444332 222211100 0
Q ss_pred hchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCC
Q 000883 512 LAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEP 591 (1238)
Q Consensus 512 L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~ 591 (1238)
. ...| ....++... ..+ .+....
T Consensus 198 ~-------------r~vp-l~~~i~~~~------~~~-------------------------------------~~~~~~ 220 (674)
T PRK01172 198 F-------------RPVP-LKLGILYRK------RLI-------------------------------------LDGYER 220 (674)
T ss_pred C-------------CCCC-eEEEEEecC------eee-------------------------------------eccccc
Confidence 0 0011 111111100 000 000000
Q ss_pred CccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC------------------------
Q 000883 592 DIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK------------------------ 647 (1238)
Q Consensus 592 ~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~------------------------ 647 (1238)
.+. .+..++......|+++|||+......+.+...|...
T Consensus 221 ----------------~~~-~~~~~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~ 283 (674)
T PRK01172 221 ----------------SQV-DINSLIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEM 283 (674)
T ss_pred ----------------ccc-cHHHHHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHH
Confidence 000 012334444456788999998887776666665432
Q ss_pred -CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcC---------CCChhhhhHHHHH
Q 000883 648 -KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDS---------DWNPHADLQAMAR 717 (1238)
Q Consensus 648 -g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~---------dWNp~~~~Qa~gR 717 (1238)
...+..++|+++.++|..+.+.|.++.. -+|++|.+++.|+|+++ .+||++|. ++++..+.|++||
T Consensus 284 l~~gv~~~hagl~~~eR~~ve~~f~~g~i---~VLvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GR 359 (674)
T PRK01172 284 LPHGVAFHHAGLSNEQRRFIEEMFRNRYI---KVIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGR 359 (674)
T ss_pred HhcCEEEecCCCCHHHHHHHHHHHHcCCC---eEEEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhc
Confidence 1236678999999999999999986543 48999999999999996 67888764 3577788999999
Q ss_pred HhhhCCCCceEEEEE
Q 000883 718 AHRLGQTNKVMIFRL 732 (1238)
Q Consensus 718 ~hRiGQ~k~V~VyrL 732 (1238)
|+|.|....-..+-+
T Consensus 360 AGR~g~d~~g~~~i~ 374 (674)
T PRK01172 360 AGRPGYDQYGIGYIY 374 (674)
T ss_pred CCCCCCCCcceEEEE
Confidence 999997655333333
No 58
>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=99.75 E-value=2.7e-16 Score=198.11 Aligned_cols=362 Identities=15% Similarity=0.119 Sum_probs=200.1
Q ss_pred CCCcHHHHHHHHHHHHhhcC------CCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCC-ccHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSK------QTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPL-STLRNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~------~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~-sll~qW~~E~~~~ 355 (1238)
.-.|+||..||+-+...... .++|+|.+.+|+|||++++.++..+.... ..++|||||. .|..||.++|..+
T Consensus 237 ~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 237 PYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred eehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 34789999999988776654 46799999999999999999988877543 3479999995 7889999999998
Q ss_pred cCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh-hcccCCC----cee
Q 000883 356 APQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD-SASLKPI----KWQ 430 (1238)
Q Consensus 356 ~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d-~~~l~~i----~w~ 430 (1238)
.++... -.++ ...+... .......|+|||.+.+... ...+..+ ...
T Consensus 317 ~~~~~~--~~~s---~~~L~~~------------------------l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~ 367 (667)
T TIGR00348 317 QKDCAE--RIES---IAELKRL------------------------LEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEV 367 (667)
T ss_pred CCCCCc--ccCC---HHHHHHH------------------------HhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCE
Confidence 753111 0111 1111110 0012356999999999752 1112221 123
Q ss_pred EEEecccccccCcccHHHHHHH-hcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 431 CMIVDEGHRLKNKDSKLFSSLK-QYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~S~~~~~l~-~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
+||+|||||.-. ......++ .+....+++|||||+...-.+-+ ..|...|+.
T Consensus 368 lvIvDEaHrs~~--~~~~~~l~~~~p~a~~lGfTaTP~~~~d~~t~--------------~~f~~~fg~----------- 420 (667)
T TIGR00348 368 VVIFDEAHRSQY--GELAKNLKKALKNASFFGFTGTPIFKKDRDTS--------------LTFAYVFGR----------- 420 (667)
T ss_pred EEEEEcCccccc--hHHHHHHHhhCCCCcEEEEeCCCccccccccc--------------ccccCCCCC-----------
Confidence 899999998642 23444553 45677999999999753211100 111000100
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEecc--CCHHHHHHHHHHHHHHHHHHHhcCCc--chhHHHHHHHHHHHhCCccc
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVE--LSSKQKEYYKAILTRNYQILTRRGGA--QISLINVVMELRKLCCHPYM 585 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~--ls~~Q~~~Y~~il~~~~~~l~~~~~~--~~~l~~i~~~Lrk~c~hP~L 585 (1238)
.+..+-+...-+|- .+.|..+..+.+. ++... .+..+............. ...+......+...
T Consensus 421 -~i~~Y~~~~AI~dG--~~~~i~Y~~~~~~~~~~~~~---l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~------ 488 (667)
T TIGR00348 421 -YLHRYFITDAIRDG--LTVKIDYEDRLPEDHLDRKK---LDAFFDEIFELLPERIREITKESLKEKLQKTKKI------ 488 (667)
T ss_pred -eEEEeeHHHHhhcC--CeeeEEEEecchhhccChHH---HHHHHHHHHHhhhccccHHHHHHHHHHHHHHHhh------
Confidence 01111111111110 1222222222221 22111 111111111100000000 00111111111111
Q ss_pred ccCCCCCccchHHHHHHHHhhhhHHHHHHHHH-HH----HHHcCCeEEEEecchhHHHHHHHHHhhC-----CCcEEEEe
Q 000883 586 LEGVEPDIEDTNESFKQLLESSGKLQLLDKMM-VK----LKEQGHRVLIYSQFQHMLDLLEDYLTFK-----KWQYERID 655 (1238)
Q Consensus 586 ~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL-~~----l~~~g~KVLIFsq~~~~ldiL~~~L~~~-----g~~~~rid 655 (1238)
+.+...+..+.+.+ .. ....+.|.+|||........+.+.|... +...+.++
T Consensus 489 ------------------~~~~~~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s 550 (667)
T TIGR00348 489 ------------------LFNEDRLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMT 550 (667)
T ss_pred ------------------hcChHHHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEec
Confidence 11111112211111 11 1223579999999988887777666432 34566677
Q ss_pred CCCCHH---------------------HHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHH
Q 000883 656 GKVGGA---------------------ERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQA 714 (1238)
Q Consensus 656 G~~~~~---------------------~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa 714 (1238)
|+.... ....++++|.++ +..-+|+++....+|+|.+.++++++.-|--+ +..+|+
T Consensus 551 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~--~~~~ilIVvdmllTGFDaP~l~tLyldKplk~-h~LlQa 627 (667)
T TIGR00348 551 GKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKE--ENPKLLIVVDMLLTGFDAPILNTLYLDKPLKY-HGLLQA 627 (667)
T ss_pred CCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCC--CCceEEEEEcccccccCCCccceEEEeccccc-cHHHHH
Confidence 764432 234789999764 23347888899999999999999988887664 568999
Q ss_pred HHHHhhh-C-CCCceEEEEEec
Q 000883 715 MARAHRL-G-QTNKVMIFRLIT 734 (1238)
Q Consensus 715 ~gR~hRi-G-Q~k~V~VyrLvt 734 (1238)
+||+.|+ + .+....|+.++.
T Consensus 628 i~R~nR~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 628 IARTNRIDGKDKTFGLIVDYRG 649 (667)
T ss_pred HHHhccccCCCCCCEEEEECcC
Confidence 9999995 4 345567877764
No 59
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.75 E-value=1.4e-16 Score=197.45 Aligned_cols=326 Identities=21% Similarity=0.207 Sum_probs=217.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCC-C----C-CeEEEeCCccH-HHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGER-I----S-PHLVVAPLSTL-RNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~-~----~-p~LIVvP~sll-~qW~~E~~~~ 355 (1238)
.+++|.|..++.-+ ..|.|+++..+||+|||..| +.++..+...+ . + .+|-|.|+..| ..-.+.+..|
T Consensus 21 ~~~t~~Q~~a~~~i----~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkALn~Di~~rL~~~ 96 (814)
T COG1201 21 TSLTPPQRYAIPEI----HSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKALNNDIRRRLEEP 96 (814)
T ss_pred CCCCHHHHHHHHHH----hCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHHHHHHHHHHHHH
Confidence 46899999998766 69999999999999999998 45566666652 1 1 57999996554 4566666666
Q ss_pred c--CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh------hcccCCC
Q 000883 356 A--PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD------SASLKPI 427 (1238)
Q Consensus 356 ~--p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d------~~~l~~i 427 (1238)
. -++.+-+-||+...... .+.....+||+|||+|++... ...|..+
T Consensus 97 ~~~~G~~v~vRhGDT~~~er--------------------------~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~v 150 (814)
T COG1201 97 LRELGIEVAVRHGDTPQSEK--------------------------QKMLKNPPHILITTPESLAILLNSPKFRELLRDV 150 (814)
T ss_pred HHHcCCccceecCCCChHHh--------------------------hhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCC
Confidence 5 25666666666443221 111235789999999998542 3445555
Q ss_pred ceeEEEecccccccCc--ccHHHHHHHhcc----cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhh
Q 000883 428 KWQCMIVDEGHRLKNK--DSKLFSSLKQYS----TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQ 501 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~--~S~~~~~l~~l~----~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~ 501 (1238)
+ +|||||.|.+.+. +++++-.|..+. .-.|++||||- .++.++. .||.+..-
T Consensus 151 r--~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSATV--~~~~~va---rfL~g~~~--------------- 208 (814)
T COG1201 151 R--YVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSATV--GPPEEVA---KFLVGFGD--------------- 208 (814)
T ss_pred c--EEEeehhhhhhccccchhhhhhHHHHHhhCcccEEEeehhcc--CCHHHHH---HHhcCCCC---------------
Confidence 5 5999999999864 456666666553 24689999994 2444333 33332210
Q ss_pred HHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhC
Q 000883 502 EEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC 581 (1238)
Q Consensus 502 ~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~ 581 (1238)
+.- -+......+-.+.|.++--. ....
T Consensus 209 ------------~~~------Iv~~~~~k~~~i~v~~p~~~--~~~~--------------------------------- 235 (814)
T COG1201 209 ------------PCE------IVDVSAAKKLEIKVISPVED--LIYD--------------------------------- 235 (814)
T ss_pred ------------ceE------EEEcccCCcceEEEEecCCc--cccc---------------------------------
Confidence 000 00000111111111111000 0000
Q ss_pred CcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCC-CcEEEEeCCCCH
Q 000883 582 HPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKK-WQYERIDGKVGG 660 (1238)
Q Consensus 582 hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g-~~~~ridG~~~~ 660 (1238)
..-...+.+.+..+.++...+|||++...+.+.|...|...+ ..+..-+||.+.
T Consensus 236 -------------------------~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSr 290 (814)
T COG1201 236 -------------------------EELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSR 290 (814)
T ss_pred -------------------------cchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccH
Confidence 000112333444555566789999999999999999998876 889999999999
Q ss_pred HHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHH-hhhCCCCceEEEEEecCCCHH
Q 000883 661 AERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARA-HRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 661 ~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~-hRiGQ~k~V~VyrLvt~~TvE 739 (1238)
+.|..+-++|.++.- ..+++|....+|||.-..|.||.|.||-.-...+|++||+ ||+|.... .++++.+ .+
T Consensus 291 e~R~~vE~~lk~G~l---ravV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~Sk---g~ii~~~-r~ 363 (814)
T COG1201 291 ELRLEVEERLKEGEL---KAVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEVSK---GIIIAED-RD 363 (814)
T ss_pred HHHHHHHHHHhcCCc---eEEEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccCCccc---EEEEecC-HH
Confidence 999999999988663 3789999999999999999999999999999999999999 77776544 3444444 44
Q ss_pred HHHHHHH
Q 000883 740 ERMMQMT 746 (1238)
Q Consensus 740 E~I~~~~ 746 (1238)
+.+--.+
T Consensus 364 dllE~~v 370 (814)
T COG1201 364 DLLECLV 370 (814)
T ss_pred HHHHHHH
Confidence 4433333
No 60
>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=99.75 E-value=1.9e-16 Score=195.59 Aligned_cols=117 Identities=17% Similarity=0.173 Sum_probs=100.6
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|...+.+.+..+...|..|||||..+...+.|...|...|+++..++|.....+|..+...|+. + .++++|.
T Consensus 406 ~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~---g--~VlIATd 480 (762)
T TIGR03714 406 LPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQK---G--AVTVATS 480 (762)
T ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCC---C--eEEEEcc
Confidence 4679999999999888899999999999999999999999999999999999987777655554433 2 3799999
Q ss_pred ccccccCcC---------CCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 686 AGGLGINLA---------TADTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 686 agg~GINL~---------~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
.+|.|+|++ ..++||.|+++-+. .+.|+.||++|.|..-.+.
T Consensus 481 mAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r-id~qr~GRtGRqG~~G~s~ 531 (762)
T TIGR03714 481 MAGRGTDIKLGKGVAELGGLAVIGTERMENSR-VDLQLRGRSGRQGDPGSSQ 531 (762)
T ss_pred ccccccCCCCCccccccCCeEEEEecCCCCcH-HHHHhhhcccCCCCceeEE
Confidence 999999999 78999999999665 4599999999999765533
No 61
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.74 E-value=5.1e-17 Score=184.28 Aligned_cols=357 Identities=19% Similarity=0.258 Sum_probs=215.4
Q ss_pred CCcHHHHHHHHHHHHhhc-----CCCceEEEcCCCChHHHHH-HHHHHHHhhCCCC--CeEEEeCC-ccHHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWS-----KQTHVILADEMGLGKTIQS-IAFLASLFGERIS--PHLVVAPL-STLRNWEREFATW 355 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~-----~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~--p~LIVvP~-sll~qW~~E~~~~ 355 (1238)
.+.|-|...+-|+..-.. ..+.+.++..+|+|||+.. |-++..|.+.... +.|||+|. .+..|-.++|.+|
T Consensus 159 ~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr~L~~QV~~~f~~~ 238 (620)
T KOG0350|consen 159 RLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTRELALQVYDTFKRL 238 (620)
T ss_pred cccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHHHHHHHHHHHHHHh
Confidence 588999999999865544 3566789999999999984 5555555554343 88999996 5557899999999
Q ss_pred cCC--CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCC---cee
Q 000883 356 APQ--MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPI---KWQ 430 (1238)
Q Consensus 356 ~p~--l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i---~w~ 430 (1238)
++. +-|....|...-+...++..- .....+.||+|+|+..+......-+.| +-.
T Consensus 239 ~~~tgL~V~~~sgq~sl~~E~~qL~~---------------------~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~Lr 297 (620)
T KOG0350|consen 239 NSGTGLAVCSLSGQNSLEDEARQLAS---------------------DPPECRIDILVATPGRLVDHLNNTKSFDLKHLR 297 (620)
T ss_pred ccCCceEEEecccccchHHHHHHHhc---------------------CCCccccceEEcCchHHHHhccCCCCcchhhce
Confidence 975 455566666655554443210 111236799999999997765543333 456
Q ss_pred EEEecccccccCccc--HHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHH
Q 000883 431 CMIVDEGHRLKNKDS--KLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRL 508 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~S--~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L 508 (1238)
++|||||.||.+..- .+...+....+..++.+ ...++.+..-..|..+++. ...+
T Consensus 298 fLVIDEADRll~qsfQ~Wl~~v~~~~~~~k~~~~--------~~nii~~~~~~~pt~~~e~---------------~t~~ 354 (620)
T KOG0350|consen 298 FLVIDEADRLLDQSFQEWLDTVMSLCKTMKRVAC--------LDNIIRQRQAPQPTVLSEL---------------LTKL 354 (620)
T ss_pred EEEechHHHHHHHHHHHHHHHHHHHhCCchhhcC--------hhhhhhhcccCCchhhHHH---------------Hhhc
Confidence 899999999876432 23333333332222211 1111111111111111000 0000
Q ss_pred HHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccC
Q 000883 509 HRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 509 ~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
..+.|.+ ++-.+.+.+.+....+. .| -..||-++..
T Consensus 355 -~~~~~~l---------------------------~kL~~satLsqdP~Kl~--------------~l--~l~~Prl~~v 390 (620)
T KOG0350|consen 355 -GKLYPPL---------------------------WKLVFSATLSQDPSKLK--------------DL--TLHIPRLFHV 390 (620)
T ss_pred -CCcCchh---------------------------HhhhcchhhhcChHHHh--------------hh--hcCCCceEEe
Confidence 0001111 11111111111111110 11 1234433322
Q ss_pred CCCCc--cchHHHH-HHHHhhh--hHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh----hCCCcEEEEeCCCC
Q 000883 589 VEPDI--EDTNESF-KQLLESS--GKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT----FKKWQYERIDGKVG 659 (1238)
Q Consensus 589 ~e~~~--~~~~~~~-~~li~~S--~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~----~~g~~~~ridG~~~ 659 (1238)
..+.. ......+ ...+-.+ -|...+..+|.. ....++|+|+........|...|. .-..++-.++|+.+
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 SKPLIGRYSLPSSLSHRLVVTEPKFKPLAVYALITS--NKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLN 468 (620)
T ss_pred ecccceeeecChhhhhceeecccccchHhHHHHHHH--hhcceEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhh
Confidence 21100 0000001 1111122 244455566654 457899999999888777776665 34566777999999
Q ss_pred HHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 660 GAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 660 ~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
...|.+++.+|+.++.. +|+++++++.||++...+.||.||++-.-..|++|.||..|.||.. ++|.|+...
T Consensus 469 ~k~r~k~l~~f~~g~i~---vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~~ 540 (620)
T KOG0350|consen 469 GKRRYKMLEKFAKGDIN---VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDKH 540 (620)
T ss_pred HHHHHHHHHHHhcCCce---EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeeccc
Confidence 99999999999987665 8999999999999999999999999999999999999999999964 455665543
No 62
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.73 E-value=3.2e-16 Score=195.40 Aligned_cols=106 Identities=23% Similarity=0.405 Sum_probs=88.2
Q ss_pred HcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHH-----HHHHHHhc----CC----CCceEEEeeccccc
Q 000883 622 EQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQ-----IRIDRFNA----KN----SSRFCFLLSTRAGG 688 (1238)
Q Consensus 622 ~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~-----~~I~~Fn~----~~----s~~~v~LlStragg 688 (1238)
..+.++|||++.+...+.|...|...++ ..++|.+++.+|. .++++|.. +. .....+||+|.+++
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVae 347 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGE 347 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhh
Confidence 4578999999999999999999998887 8999999999999 78999975 21 11235899999999
Q ss_pred cccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCc--eEEEEE
Q 000883 689 LGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNK--VMIFRL 732 (1238)
Q Consensus 689 ~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~--V~VyrL 732 (1238)
.|||+.. ++||+++.+ +..++||+||++|.|.... +.|+.+
T Consensus 348 rGLDId~-d~VI~d~aP--~esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 348 VGVNISA-DHLVCDLAP--FESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred hcccCCc-ceEEECCCC--HHHHHHHhcccCCCCCCCCceEEEEee
Confidence 9999985 999997776 4789999999999998643 455444
No 63
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.73 E-value=1.1e-16 Score=169.85 Aligned_cols=315 Identities=18% Similarity=0.259 Sum_probs=218.6
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHH-HHHHHHHHhhCC-CCCeEEEeCCccH-HHHHHHHHHHcCCC--c
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQ-SIAFLASLFGER-ISPHLVVAPLSTL-RNWEREFATWAPQM--N 360 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiq-aia~l~~l~~~~-~~p~LIVvP~sll-~qW~~E~~~~~p~l--~ 360 (1238)
...-|..++--+ .+|+++|.-...|+|||.+ +|+++..+.-.. ...+||+.|.--+ .|-..-+......+ .
T Consensus 50 PS~IQqrAi~~I----lkGrdViaQaqSGTGKTa~~si~vlq~~d~~~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq 125 (400)
T KOG0328|consen 50 PSAIQQRAIPQI----LKGRDVIAQAQSGTGKTATFSISVLQSLDISVRETQALILSPTRELAVQIQKVILALGDYMNVQ 125 (400)
T ss_pred chHHHhhhhhhh----hcccceEEEecCCCCceEEEEeeeeeecccccceeeEEEecChHHHHHHHHHHHHHhcccccce
Confidence 334576776554 6889999999999999986 466666553322 2378999997544 55555565555444 4
Q ss_pred EEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEecccc
Q 000883 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEaH 438 (1238)
+....|.+.-...|+..+ ...+||.-|+..+... ...|..-...++|+|||.
T Consensus 126 ~hacigg~n~gedikkld--------------------------~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaD 179 (400)
T KOG0328|consen 126 CHACIGGKNLGEDIKKLD--------------------------YGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEAD 179 (400)
T ss_pred EEEEecCCccchhhhhhc--------------------------ccceEeeCCCchHHHHHHhccccccceeEEEeccHH
Confidence 455566655444333321 3567888888877543 345666677899999999
Q ss_pred cccC--cccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchh
Q 000883 439 RLKN--KDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPH 515 (1238)
Q Consensus 439 rlKN--~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~ 515 (1238)
.+.| ...+++...+.+. ....+++|||- ++|+..+.++..+++.
T Consensus 180 emL~kgfk~Qiydiyr~lp~~~Qvv~~SATl----p~eilemt~kfmtdpv----------------------------- 226 (400)
T KOG0328|consen 180 EMLNKGFKEQIYDIYRYLPPGAQVVLVSATL----PHEILEMTEKFMTDPV----------------------------- 226 (400)
T ss_pred HHHHhhHHHHHHHHHHhCCCCceEEEEeccC----cHHHHHHHHHhcCCce-----------------------------
Confidence 9865 4567888888887 56788999995 2344433333333221
Q ss_pred hhhhhHhHHhhcCCCcEEEEEeccCCHHH-HHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 516 LLRRVKKDVMKELPPKKELILRVELSSKQ-KEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 516 ~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q-~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
...+-+-+++-+- +++|-++-.
T Consensus 227 ----------------rilvkrdeltlEgIKqf~v~ve~----------------------------------------- 249 (400)
T KOG0328|consen 227 ----------------RILVKRDELTLEGIKQFFVAVEK----------------------------------------- 249 (400)
T ss_pred ----------------eEEEecCCCchhhhhhheeeech-----------------------------------------
Confidence 1111122222221 111110000
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCC
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKN 674 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~ 674 (1238)
..=|+..|..+-..|- -...+|||+.....|.|.+.|+...+.+..++|.++.++|.+++++|.++.
T Consensus 250 -----------EewKfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~ 316 (400)
T KOG0328|consen 250 -----------EEWKFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGK 316 (400)
T ss_pred -----------hhhhHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCC
Confidence 0114444444444432 247899999999999999999999999999999999999999999999887
Q ss_pred CCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCH
Q 000883 675 SSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSI 738 (1238)
Q Consensus 675 s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~Tv 738 (1238)
+. +|++|.+-+.||+++..+.||.||.|-|+..+++|+||.+|.|.+. .+..||..+.+
T Consensus 317 Sr---vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRkG--vainFVk~~d~ 375 (400)
T KOG0328|consen 317 SR---VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKG--VAINFVKSDDL 375 (400)
T ss_pred ce---EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCcc--eEEEEecHHHH
Confidence 76 8999999999999999999999999999999999999999999754 34467665533
No 64
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.71 E-value=2.1e-15 Score=188.25 Aligned_cols=131 Identities=19% Similarity=0.204 Sum_probs=109.2
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
....|...|.+.+......|.+|||||......+.|...|...|+++..++|.+...++..+...+.. + .++++|
T Consensus 409 ~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~---g--~VlIAT 483 (790)
T PRK09200 409 TLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQK---G--AVTVAT 483 (790)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCC---C--eEEEEc
Confidence 34678999999998887889999999999999999999999999999999999887777666655543 2 379999
Q ss_pred cccccccCc---CCCC-----EEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHH
Q 000883 685 RAGGLGINL---ATAD-----TVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQM 745 (1238)
Q Consensus 685 ragg~GINL---~~Ad-----~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~ 745 (1238)
..+|.|+|+ +.+. +||.+|.+-|+..+.|+.||++|.|..-.... |+ |.|+.++.+
T Consensus 484 dmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~s~~--~i---s~eD~l~~~ 547 (790)
T PRK09200 484 NMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGSSQF--FI---SLEDDLLKR 547 (790)
T ss_pred cchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCeeEEE--EE---cchHHHHHh
Confidence 999999999 4677 99999999999999999999999998754432 23 346666654
No 65
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.69 E-value=3.6e-15 Score=185.31 Aligned_cols=323 Identities=16% Similarity=0.200 Sum_probs=194.7
Q ss_pred CCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHH----------HHHh--h-C-CCCCeEEEeCC-ccHH
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFL----------ASLF--G-E-RISPHLVVAPL-STLR 346 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l----------~~l~--~-~-~~~p~LIVvP~-sll~ 346 (1238)
....|++.|.+.-.-+...+..++.+|+..++|+|||.|.--++ ..+. . . ..++++|++|. .+..
T Consensus 157 ~~~~l~~~~~~iQ~qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~ 236 (675)
T PHA02653 157 SKIPLASLQPDVQLKIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVR 236 (675)
T ss_pred ccccCCchhHHHHHHHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHH
Confidence 34678888888887788888999999999999999998842222 1111 1 1 23489999996 4456
Q ss_pred HHHHHHHHHc-----CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh
Q 000883 347 NWEREFATWA-----PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS 421 (1238)
Q Consensus 347 qW~~E~~~~~-----p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~ 421 (1238)
|...++.+.. +...+.+..|+..... ... .....+++|.|.....
T Consensus 237 qi~~~i~~~vg~~~~~g~~v~v~~Gg~~~~~--~~t-------------------------~~k~~~Ilv~T~~L~l--- 286 (675)
T PHA02653 237 LHSITLLKSLGFDEIDGSPISLKYGSIPDEL--INT-------------------------NPKPYGLVFSTHKLTL--- 286 (675)
T ss_pred HHHHHHHHHhCccccCCceEEEEECCcchHH--hhc-------------------------ccCCCCEEEEeCcccc---
Confidence 6677776432 3455556666554211 000 0114578888754311
Q ss_pred cccCCCceeEEEecccccccCcccHHHHHHHhccc--ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhch
Q 000883 422 ASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYST--RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI 499 (1238)
Q Consensus 422 ~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~--~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~ 499 (1238)
..|. ..++|||||||..-...-.+...++.+.. +..+++|||+-. ....+ ..|+..
T Consensus 287 ~~L~--~v~~VVIDEaHEr~~~~DllL~llk~~~~~~rq~ILmSATl~~-dv~~l---~~~~~~---------------- 344 (675)
T PHA02653 287 NKLF--DYGTVIIDEVHEHDQIGDIIIAVARKHIDKIRSLFLMTATLED-DRDRI---KEFFPN---------------- 344 (675)
T ss_pred cccc--cCCEEEccccccCccchhHHHHHHHHhhhhcCEEEEEccCCcH-hHHHH---HHHhcC----------------
Confidence 1222 46799999999976555444444444322 357999999721 12221 112110
Q ss_pred hhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHH
Q 000883 500 NQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKL 579 (1238)
Q Consensus 500 ~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~ 579 (1238)
|..+. .. ...+.|.....+.....+.+...|-.
T Consensus 345 --------------p~~I~-I~---grt~~pV~~~yi~~~~~~~~~~~y~~----------------------------- 377 (675)
T PHA02653 345 --------------PAFVH-IP---GGTLFPISEVYVKNKYNPKNKRAYIE----------------------------- 377 (675)
T ss_pred --------------CcEEE-eC---CCcCCCeEEEEeecCcccccchhhhH-----------------------------
Confidence 11110 00 00112222222221111111111100
Q ss_pred hCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHH-HHcCCeEEEEecchhHHHHHHHHHhhC--CCcEEEEeC
Q 000883 580 CCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKL-KEQGHRVLIYSQFQHMLDLLEDYLTFK--KWQYERIDG 656 (1238)
Q Consensus 580 c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l-~~~g~KVLIFsq~~~~ldiL~~~L~~~--g~~~~ridG 656 (1238)
..|..++ ..+... ...+.++|||+......+.+...|... ++.+..++|
T Consensus 378 ---------------------------~~k~~~l-~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG 429 (675)
T PHA02653 378 ---------------------------EEKKNIV-TALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHG 429 (675)
T ss_pred ---------------------------HHHHHHH-HHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccC
Confidence 0011111 111111 124568999999999999999999876 799999999
Q ss_pred CCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEc----CC--------CChhhhhHHHHHHhhhCCC
Q 000883 657 KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYD----SD--------WNPHADLQAMARAHRLGQT 724 (1238)
Q Consensus 657 ~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D----~d--------WNp~~~~Qa~gR~hRiGQ~ 724 (1238)
+++.. ++++++|.. .+...+|++|..++.||+++.+++||-++ |. .+.....||.||++|.
T Consensus 430 ~Lsq~--eq~l~~ff~--~gk~kILVATdIAERGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~--- 502 (675)
T PHA02653 430 KVPNI--DEILEKVYS--SKNPSIIISTPYLESSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV--- 502 (675)
T ss_pred CcCHH--HHHHHHHhc--cCceeEEeccChhhccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC---
Confidence 99864 566778742 23445899999999999999999999887 21 2566778888888886
Q ss_pred CceEEEEEecCCCH
Q 000883 725 NKVMIFRLITRGSI 738 (1238)
Q Consensus 725 k~V~VyrLvt~~Tv 738 (1238)
++-.+|+|+++...
T Consensus 503 ~~G~c~rLyt~~~~ 516 (675)
T PHA02653 503 SPGTYVYFYDLDLL 516 (675)
T ss_pred CCCeEEEEECHHHh
Confidence 46889999988764
No 66
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.69 E-value=4.8e-15 Score=167.63 Aligned_cols=313 Identities=19% Similarity=0.304 Sum_probs=213.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHh-h-CC---CC--CeEEEeCCccHHH----HHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLF-G-ER---IS--PHLVVAPLSTLRN----WEREF 352 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~-~-~~---~~--p~LIVvP~sll~q----W~~E~ 352 (1238)
..+.|-|..++-.+ .++..+++-..+|+|||+..+.=+.... . .. ++ -.|||+|+--+.- -...|
T Consensus 27 ~~mTpVQa~tIPll----l~~KDVvveavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTRELa~QI~~V~~~F 102 (567)
T KOG0345|consen 27 EKMTPVQAATIPLL----LKNKDVVVEAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTRELARQIREVAQPF 102 (567)
T ss_pred cccCHHHHhhhHHH----hcCCceEEEcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHHHHHHHHHHHHH
Confidence 46889999998766 7889999999999999988655444443 2 21 12 3599999754433 34445
Q ss_pred HHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccCCCc
Q 000883 353 ATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLKPIK 428 (1238)
Q Consensus 353 ~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~~i~ 428 (1238)
....|++++.++.|.....+.+..+. ....+|+|.|+..+... ...+.--.
T Consensus 103 ~~~l~~l~~~l~vGG~~v~~Di~~fk-------------------------ee~~nIlVgTPGRL~di~~~~~~~l~~rs 157 (567)
T KOG0345|consen 103 LEHLPNLNCELLVGGRSVEEDIKTFK-------------------------EEGPNILVGTPGRLLDILQREAEKLSFRS 157 (567)
T ss_pred HHhhhccceEEEecCccHHHHHHHHH-------------------------HhCCcEEEeCchhHHHHHhchhhhccccc
Confidence 55668999999999977666554432 23567999999877543 33344345
Q ss_pred eeEEEecccccccCcc--cHHHHHHHhcccccEE-EEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHH
Q 000883 429 WQCMIVDEGHRLKNKD--SKLFSSLKQYSTRHRV-LLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQI 505 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~--S~~~~~l~~l~~~~rl-lLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~ 505 (1238)
-.++|+|||.|+-..+ ..+...|..+...+|- |.|||-- ..+
T Consensus 158 Le~LVLDEADrLldmgFe~~~n~ILs~LPKQRRTGLFSATq~-----------------------------------~~v 202 (567)
T KOG0345|consen 158 LEILVLDEADRLLDMGFEASVNTILSFLPKQRRTGLFSATQT-----------------------------------QEV 202 (567)
T ss_pred cceEEecchHhHhcccHHHHHHHHHHhcccccccccccchhh-----------------------------------HHH
Confidence 6799999999996543 4556666667666665 4566631 111
Q ss_pred HHHHHhhchhhhhhhHhHHhhcCCCcEEEEEecc-C--CHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCC
Q 000883 506 SRLHRMLAPHLLRRVKKDVMKELPPKKELILRVE-L--SSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCH 582 (1238)
Q Consensus 506 ~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~-l--s~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~h 582 (1238)
..|.. .-|| ......|... + +|. ++.+
T Consensus 203 ~dL~r----aGLR-----------Npv~V~V~~k~~~~tPS------------------------~L~~----------- 232 (567)
T KOG0345|consen 203 EDLAR----AGLR-----------NPVRVSVKEKSKSATPS------------------------SLAL----------- 232 (567)
T ss_pred HHHHH----hhcc-----------CceeeeecccccccCch------------------------hhcc-----------
Confidence 11111 0111 0011111000 0 110 0000
Q ss_pred cccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh--CCCcEEEEeCCCCH
Q 000883 583 PYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF--KKWQYERIDGKVGG 660 (1238)
Q Consensus 583 P~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~--~g~~~~ridG~~~~ 660 (1238)
-| ..+.+.-|+..|..+|.. ...+|+|||...-...++....|.. .+.+.+-|+|.++.
T Consensus 233 ~Y-----------------~v~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q 293 (567)
T KOG0345|consen 233 EY-----------------LVCEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQ 293 (567)
T ss_pred ee-----------------eEecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcc
Confidence 00 112344577777777776 4467999998877777766666543 47789999999999
Q ss_pred HHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 661 AERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 661 ~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
..|..++..|....+. +|++|++++.|||++..|.||.||||-+|..+.+|.||..|.|......||-+
T Consensus 294 ~~R~k~~~~F~~~~~~---vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aivfl~ 362 (567)
T KOG0345|consen 294 KARAKVLEAFRKLSNG---VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVFLN 362 (567)
T ss_pred hhHHHHHHHHHhccCc---eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEEEec
Confidence 9999999999874444 79999999999999999999999999999999999999999998876666543
No 67
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.69 E-value=3e-16 Score=192.63 Aligned_cols=119 Identities=18% Similarity=0.190 Sum_probs=105.7
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..+.+.+..+.+.|..|||||..+...+.|..+|...|+++..++|. ..+|+..|..|..... .++|+|.
T Consensus 387 ~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g---~VtIATn 461 (745)
T TIGR00963 387 EEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGRKG---AVTIATN 461 (745)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCCCc---eEEEEec
Confidence 3568888888888888999999999999999999999999999999999998 6789999999954333 4899999
Q ss_pred ccccccCcCC-------CCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEE
Q 000883 686 AGGLGINLAT-------ADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMI 729 (1238)
Q Consensus 686 agg~GINL~~-------Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~V 729 (1238)
.+|.|+|+.. .-+||.++.+-|+..+.|+.||++|.|..-....
T Consensus 462 mAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~~ 512 (745)
T TIGR00963 462 MAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSSRF 512 (745)
T ss_pred cccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcceEE
Confidence 9999999988 6699999999999999999999999998755443
No 68
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.68 E-value=2.9e-15 Score=183.27 Aligned_cols=131 Identities=18% Similarity=0.226 Sum_probs=106.2
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
....|...|.+++..+...|..||||+..+...+.|...|...|+++..|+|... +|+..+..|..... .++|+|
T Consensus 454 t~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g---~VlVAT 528 (656)
T PRK12898 454 TAAAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRG---RITVAT 528 (656)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCC---cEEEEc
Confidence 3466899999999988878899999999999999999999999999999999854 56666666653333 379999
Q ss_pred cccccccCcC---CCC-----EEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHH
Q 000883 685 RAGGLGINLA---TAD-----TVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQM 745 (1238)
Q Consensus 685 ragg~GINL~---~Ad-----~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~ 745 (1238)
..+|.|+|+. .+. +||.||.+-|+..|.|++||++|.|..-.+. .|+ |.|+.++.+
T Consensus 529 dmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s~--~~i---s~eD~l~~~ 592 (656)
T PRK12898 529 NMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSYE--AIL---SLEDDLLQS 592 (656)
T ss_pred cchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEEE--EEe---chhHHHHHh
Confidence 9999999998 443 9999999999999999999999999764433 233 345555544
No 69
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.68 E-value=3.6e-15 Score=179.02 Aligned_cols=305 Identities=20% Similarity=0.210 Sum_probs=211.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
..+||-|.++++.+ ..+.++|.-..+|-||++.. .|-.+.. .|.+|||.|+ ||+....+.+..-. +.+.
T Consensus 16 ~~FR~gQ~evI~~~----l~g~d~lvvmPTGgGKSlCy--QiPAll~--~G~TLVVSPLiSLM~DQV~~l~~~G--i~A~ 85 (590)
T COG0514 16 ASFRPGQQEIIDAL----LSGKDTLVVMPTGGGKSLCY--QIPALLL--EGLTLVVSPLISLMKDQVDQLEAAG--IRAA 85 (590)
T ss_pred cccCCCHHHHHHHH----HcCCcEEEEccCCCCcchHh--hhHHHhc--CCCEEEECchHHHHHHHHHHHHHcC--ceee
Confidence 46889999999877 57799999999999999754 1222222 4699999995 88888888887753 5555
Q ss_pred EEEcC--hhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEecccc
Q 000883 363 MYVGT--SQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 363 ~~~g~--~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEaH 438 (1238)
...++ ..++..+... ......+++..++|.+... ...|...+..+++|||||
T Consensus 86 ~lnS~l~~~e~~~v~~~------------------------l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAH 141 (590)
T COG0514 86 YLNSTLSREERQQVLNQ------------------------LKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAH 141 (590)
T ss_pred hhhcccCHHHHHHHHHH------------------------HhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHH
Confidence 55444 2333322221 1123578999999999764 456677888999999999
Q ss_pred cccCc-------ccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHh
Q 000883 439 RLKNK-------DSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRM 511 (1238)
Q Consensus 439 rlKN~-------~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~ 511 (1238)
.+... ...+......+....++.||||--+--..|+...|+.-.+..|...
T Consensus 142 CiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~s---------------------- 199 (590)
T COG0514 142 CISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIFRGS---------------------- 199 (590)
T ss_pred HHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceEEec----------------------
Confidence 88543 3345555555566678999998643333344443333222211100
Q ss_pred hchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCC
Q 000883 512 LAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEP 591 (1238)
Q Consensus 512 L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~ 591 (1238)
+ .+. |+..+.+..
T Consensus 200 --------------------------f--------------------------dRp---Ni~~~v~~~------------ 212 (590)
T COG0514 200 --------------------------F--------------------------DRP---NLALKVVEK------------ 212 (590)
T ss_pred --------------------------C--------------------------CCc---hhhhhhhhc------------
Confidence 0 000 000000000
Q ss_pred CccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHh
Q 000883 592 DIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFN 671 (1238)
Q Consensus 592 ~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn 671 (1238)
...--++.+|.+ .....+...||||......+-+...|...|++...++|+++.++|+..-+.|+
T Consensus 213 ------------~~~~~q~~fi~~---~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~ 277 (590)
T COG0514 213 ------------GEPSDQLAFLAT---VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFL 277 (590)
T ss_pred ------------ccHHHHHHHHHh---hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHh
Confidence 000011111222 12234556899999999999999999999999999999999999999999999
Q ss_pred cCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEE
Q 000883 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMI 729 (1238)
Q Consensus 672 ~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~V 729 (1238)
.++.. ++++|.|.|.|||=++...||+||.|-+...|.|-+|||+|-|....+..
T Consensus 278 ~~~~~---iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~ail 332 (590)
T COG0514 278 NDEIK---VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAIL 332 (590)
T ss_pred cCCCc---EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEE
Confidence 76655 89999999999999999999999999999999999999999998665544
No 70
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.68 E-value=4.1e-15 Score=195.44 Aligned_cols=96 Identities=18% Similarity=0.243 Sum_probs=84.1
Q ss_pred cCCeEEEEecchhHHHHHHHHHhhCC---------------------------------CcEEEEeCCCCHHHHHHHHHH
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTFKK---------------------------------WQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~~g---------------------------------~~~~ridG~~~~~~R~~~I~~ 669 (1238)
.+.++|||++.....+.|...|+... +....++|+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 47899999999999998888886431 114567899999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhh
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRi 721 (1238)
|.++.. .+|++|.+++.|||+..+|.||.|+++.+...++|++||++|.
T Consensus 323 fK~G~L---rvLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 323 LKSGEL---RCVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HHhCCc---eEEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 987554 4899999999999999999999999999999999999999885
No 71
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.67 E-value=1.1e-15 Score=184.46 Aligned_cols=345 Identities=16% Similarity=0.206 Sum_probs=216.9
Q ss_pred CCCCCcHHHHHHHHHHHHhhcCCC-ceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeC-CccHHHHHHHHHHHcCC
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQT-HVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAP-LSTLRNWEREFATWAPQ 358 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~-~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP-~sll~qW~~E~~~~~p~ 358 (1238)
....+|+||..+++.+...+.+++ .++|.+.+|+|||.+||+++..|+..+ .+++|+++- ++++.|-..+|..+.|+
T Consensus 162 s~i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~ 241 (875)
T COG4096 162 SAIGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPF 241 (875)
T ss_pred ccccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCC
Confidence 346799999999999998888765 488999999999999999999998764 579999999 68888988899999998
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-------ccCCCceeE
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA-------SLKPIKWQC 431 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~-------~l~~i~w~~ 431 (1238)
..++.+..... ....+.|.|+||+++..... .+..-.|++
T Consensus 242 ~~~~n~i~~~~---------------------------------~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDl 288 (875)
T COG4096 242 GTKMNKIEDKK---------------------------------GDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDL 288 (875)
T ss_pred ccceeeeeccc---------------------------------CCcceeEEEeehHHHHhhhhccccccccCCCCceeE
Confidence 76655433221 11257899999999976432 233336999
Q ss_pred EEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHh
Q 000883 432 MIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRM 511 (1238)
Q Consensus 432 vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~ 511 (1238)
||||||||- . .+.++.+..+-...+++|||||-..--..-|.+++ =.|
T Consensus 289 IvIDEaHRg--i-~~~~~~I~dYFdA~~~gLTATP~~~~d~~T~~~F~-g~P---------------------------- 336 (875)
T COG4096 289 IVIDEAHRG--I-YSEWSSILDYFDAATQGLTATPKETIDRSTYGFFN-GEP---------------------------- 336 (875)
T ss_pred EEechhhhh--H-HhhhHHHHHHHHHHHHhhccCcccccccccccccC-CCc----------------------------
Confidence 999999983 2 22333555555666778899995421111111111 000
Q ss_pred hchhhhhhhHhHHhh-cCCCcEEEEE--eccCCH-------HHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhC
Q 000883 512 LAPHLLRRVKKDVMK-ELPPKKELIL--RVELSS-------KQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC 581 (1238)
Q Consensus 512 L~p~~lRR~k~dv~~-~LP~k~e~~v--~v~ls~-------~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~ 581 (1238)
....-.+..|.. .|-|...+.| .+.... .+.+.+...+..
T Consensus 337 ---t~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~--------------------------- 386 (875)
T COG4096 337 ---TYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDE--------------------------- 386 (875)
T ss_pred ---ceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhccccCc---------------------------
Confidence 000001111111 1222222222 222111 011111100000
Q ss_pred CcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHc---C---CeEEEEecchhHHHHHHHHHhhC-----CCc
Q 000883 582 HPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQ---G---HRVLIYSQFQHMLDLLEDYLTFK-----KWQ 650 (1238)
Q Consensus 582 hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~---g---~KVLIFsq~~~~ldiL~~~L~~~-----g~~ 650 (1238)
.-..++..+ +...+....-...+.+.|.....+ | .|.||||......+.|...|... |-=
T Consensus 387 dd~~~~~~d---------~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~ 457 (875)
T COG4096 387 DDQNFEARD---------FDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRY 457 (875)
T ss_pred ccccccccc---------cchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCce
Confidence 000000000 001111122233444455444443 3 49999999999999999988653 333
Q ss_pred EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhC-------C
Q 000883 651 YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLG-------Q 723 (1238)
Q Consensus 651 ~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiG-------Q 723 (1238)
+..|+|... +-+..|+.|-. +...-.+.+|...+.+|||.+.+-.++++-.--+-..+.|.+||.-|+- |
T Consensus 458 a~~IT~d~~--~~q~~Id~f~~-ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~~~ 534 (875)
T COG4096 458 AMKITGDAE--QAQALIDNFID-KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQ 534 (875)
T ss_pred EEEEeccch--hhHHHHHHHHh-cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccccCccc
Confidence 567888764 45677999977 3333357899999999999999999999999999999999999999953 3
Q ss_pred CC-ceEEEEEe
Q 000883 724 TN-KVMIFRLI 733 (1238)
Q Consensus 724 ~k-~V~VyrLv 733 (1238)
.| ...|+.++
T Consensus 535 dK~~F~ifDf~ 545 (875)
T COG4096 535 DKEFFTIFDFV 545 (875)
T ss_pred cceeEEEEEhh
Confidence 33 46677765
No 72
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.66 E-value=4.5e-15 Score=172.16 Aligned_cols=309 Identities=19% Similarity=0.267 Sum_probs=205.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCC-----------CCeEEEeCC-ccHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERI-----------SPHLVVAPL-STLRNWER 350 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~-----------~p~LIVvP~-sll~qW~~ 350 (1238)
..+.|+|..++.-+ ..|++.+.+.++|+|||..- |-++.+++..+. ...||++|+ .+..|-..
T Consensus 95 ~~ptpvQk~sip~i----~~Grdl~acAqTGsGKT~aFLiPii~~~~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~n 170 (482)
T KOG0335|consen 95 TKPTPVQKYSIPII----SGGRDLMACAQTGSGKTAAFLIPIISYLLDEGPEDRGESGGGVYPRALILAPTRELVDQIYN 170 (482)
T ss_pred cCCCcceeecccee----ecCCceEEEccCCCcchHHHHHHHHHHHHhcCcccCcccCCCCCCceEEEeCcHHHhhHHHH
Confidence 35778999887655 78899999999999999875 445566655421 257999996 67788889
Q ss_pred HHHHHc--CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc----cc
Q 000883 351 EFATWA--PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA----SL 424 (1238)
Q Consensus 351 E~~~~~--p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~----~l 424 (1238)
|..++. ..++.++.+|....+...+. ....+|++++|...+..-.. .|
T Consensus 171 ea~k~~~~s~~~~~~~ygg~~~~~q~~~--------------------------~~~gcdIlvaTpGrL~d~~e~g~i~l 224 (482)
T KOG0335|consen 171 EARKFSYLSGMKSVVVYGGTDLGAQLRF--------------------------IKRGCDILVATPGRLKDLIERGKISL 224 (482)
T ss_pred HHHhhcccccceeeeeeCCcchhhhhhh--------------------------hccCccEEEecCchhhhhhhcceeeh
Confidence 988887 34566666666544443322 12478999999988864321 23
Q ss_pred CCCceeEEEecccccccCc---ccHHHHHHHhcc-----cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHH
Q 000883 425 KPIKWQCMIVDEGHRLKNK---DSKLFSSLKQYS-----TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEF 496 (1238)
Q Consensus 425 ~~i~w~~vIvDEaHrlKN~---~S~~~~~l~~l~-----~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~ 496 (1238)
..+ .++|+|||.++-.. ...+.+.+.... ...-++.|||--
T Consensus 225 ~~~--k~~vLDEADrMlD~mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp----------------------------- 273 (482)
T KOG0335|consen 225 DNC--KFLVLDEADRMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFP----------------------------- 273 (482)
T ss_pred hhC--cEEEecchHHhhhhccccccHHHHhcccCCCCccceeEEEEeccCC-----------------------------
Confidence 333 48999999987542 223333333321 233456666620
Q ss_pred hchhhHHHHHHHHHhhchhhhh----hhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHH
Q 000883 497 KDINQEEQISRLHRMLAPHLLR----RVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINV 572 (1238)
Q Consensus 497 ~~~~~~~~~~~L~~~L~p~~lR----R~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i 572 (1238)
..+.+ +...|+.- -.-.-+...-......+++|.
T Consensus 274 ------~~iq~---l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~--------------------------------- 311 (482)
T KOG0335|consen 274 ------KEIQR---LAADFLKDNYIFLAVGRVGSTSENITQKILFVN--------------------------------- 311 (482)
T ss_pred ------hhhhh---hHHHHhhccceEEEEeeeccccccceeEeeeec---------------------------------
Confidence 00111 00000000 000000000111112222222
Q ss_pred HHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHH---Hc----CCeEEEEecchhHHHHHHHHHh
Q 000883 573 VMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLK---EQ----GHRVLIYSQFQHMLDLLEDYLT 645 (1238)
Q Consensus 573 ~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~---~~----g~KVLIFsq~~~~ldiL~~~L~ 645 (1238)
.+.|...|.++|.... .. -++++||+...++++.|+.+|.
T Consensus 312 ---------------------------------~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~ 358 (482)
T KOG0335|consen 312 ---------------------------------EMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLS 358 (482)
T ss_pred ---------------------------------chhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHh
Confidence 1223333333333222 11 2589999999999999999999
Q ss_pred hCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC
Q 000883 646 FKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN 725 (1238)
Q Consensus 646 ~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k 725 (1238)
..++++.-|+|..+..+|.++++.|...... +||+|..++.|||.+...+||+||.+-+-..|+.|+||.+|.|+.-
T Consensus 359 ~~~~~~~sIhg~~tq~er~~al~~Fr~g~~p---vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G 435 (482)
T KOG0335|consen 359 SNGYPAKSIHGDRTQIEREQALNDFRNGKAP---VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGG 435 (482)
T ss_pred cCCCCceeecchhhhhHHHHHHHHhhcCCcc---eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCc
Confidence 9999999999999999999999999876555 8999999999999999999999999999999999999999999987
Q ss_pred ceEEEE
Q 000883 726 KVMIFR 731 (1238)
Q Consensus 726 ~V~Vyr 731 (1238)
..+.|.
T Consensus 436 ~atsf~ 441 (482)
T KOG0335|consen 436 RATSFF 441 (482)
T ss_pred eeEEEe
Confidence 666554
No 73
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.64 E-value=1.1e-14 Score=166.20 Aligned_cols=339 Identities=17% Similarity=0.249 Sum_probs=213.1
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH----HHHHHHHh------hCCCC-CeEEEeCCccH-HHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS----IAFLASLF------GERIS-PHLVVAPLSTL-RNWEREF 352 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa----ia~l~~l~------~~~~~-p~LIVvP~sll-~qW~~E~ 352 (1238)
...|-|..++--+ ..+++.|...|+|+|||... +..|..+- +...+ ..+|++|+--| .|-..|-
T Consensus 267 eptpIqR~aipl~----lQ~rD~igvaETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt 342 (673)
T KOG0333|consen 267 EPTPIQRQAIPLG----LQNRDPIGVAETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEET 342 (673)
T ss_pred CCchHHHhhccch----hccCCeeeEEeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHH
Confidence 4667888887533 67889999999999999442 22222221 11123 46899997544 6677777
Q ss_pred HHHcC--CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCc
Q 000883 353 ATWAP--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIK 428 (1238)
Q Consensus 353 ~~~~p--~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~ 428 (1238)
.+++- ..+++...|...--.. .| .-...++++|.|+..+.... ..|-.-.
T Consensus 343 ~kf~~~lg~r~vsvigg~s~EEq----~f----------------------qls~gceiviatPgrLid~Lenr~lvl~q 396 (673)
T KOG0333|consen 343 NKFGKPLGIRTVSVIGGLSFEEQ----GF----------------------QLSMGCEIVIATPGRLIDSLENRYLVLNQ 396 (673)
T ss_pred HHhcccccceEEEEecccchhhh----hh----------------------hhhccceeeecCchHHHHHHHHHHHHhcc
Confidence 77762 3566666665432111 00 11246889999998886432 2233335
Q ss_pred eeEEEecccccccCcc--cHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHH
Q 000883 429 WQCMIVDEGHRLKNKD--SKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQIS 506 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~--S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~ 506 (1238)
..+||+|||.++-... -...+.|..+ |..|- .| +.+++ +...
T Consensus 397 ctyvvldeadrmiDmgfE~dv~~iL~~m-----------Pssn~-----------k~----~tde~----------~~~~ 440 (673)
T KOG0333|consen 397 CTYVVLDEADRMIDMGFEPDVQKILEQM-----------PSSNA-----------KP----DTDEK----------EGEE 440 (673)
T ss_pred CceEeccchhhhhcccccHHHHHHHHhC-----------Ccccc-----------CC----Cccch----------hhHH
Confidence 6789999999874322 2222222222 11111 00 00111 1111
Q ss_pred HHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccc
Q 000883 507 RLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML 586 (1238)
Q Consensus 507 ~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~ 586 (1238)
.+.+.+.. .| -=.......+.|++.-..+-+..+. .|..+
T Consensus 441 ~~~~~~~~-----~k-------~yrqT~mftatm~p~verlar~ylr----------------------------~pv~v 480 (673)
T KOG0333|consen 441 RVRKNFSS-----SK-------KYRQTVMFTATMPPAVERLARSYLR----------------------------RPVVV 480 (673)
T ss_pred HHHhhccc-----cc-------ceeEEEEEecCCChHHHHHHHHHhh----------------------------CCeEE
Confidence 11111100 00 0012234556676654444333322 22222
Q ss_pred c-CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHH
Q 000883 587 E-GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQI 665 (1238)
Q Consensus 587 ~-~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~ 665 (1238)
. +.........+..-.++..+.|...|.++|... ....+|||.+.....|.|++.|.+.||++++++|+-+.++|+.
T Consensus 481 tig~~gk~~~rveQ~v~m~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~ 558 (673)
T KOG0333|consen 481 TIGSAGKPTPRVEQKVEMVSEDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQREN 558 (673)
T ss_pred EeccCCCCccchheEEEEecchHHHHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHH
Confidence 1 111111111111112345677877788887764 3579999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 666 RIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 666 ~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
++..|.++..+ +|++|.++|.||+++.+++||.||..-+...|+++|||.+|.|+.-.+. -|+|..
T Consensus 559 aL~~fr~~t~d---IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gtai--Sflt~~ 624 (673)
T KOG0333|consen 559 ALADFREGTGD---ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTAI--SFLTPA 624 (673)
T ss_pred HHHHHHhcCCC---EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCceeE--EEeccc
Confidence 99999987776 8999999999999999999999999999999999999999999876554 344543
No 74
>COG4889 Predicted helicase [General function prediction only]
Probab=99.64 E-value=4.6e-15 Score=176.16 Aligned_cols=403 Identities=17% Similarity=0.164 Sum_probs=202.9
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc-CCCc
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA-PQMN 360 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~-p~l~ 360 (1238)
..+|||||.++++-....+..+.+|=|.+.+|+|||++++-+...+.. .++|.+||. ++|.|-.+|...-. -+++
T Consensus 159 ~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala~---~~iL~LvPSIsLLsQTlrew~~~~~l~~~ 235 (1518)
T COG4889 159 PKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALAA---ARILFLVPSISLLSQTLREWTAQKELDFR 235 (1518)
T ss_pred CCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHhh---hheEeecchHHHHHHHHHHHhhccCccce
Confidence 468999999999999899999999999999999999999988887765 478999996 88887655543322 1233
Q ss_pred EE-EEEcChhHHH--HHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEec
Q 000883 361 VV-MYVGTSQARN--IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVD 435 (1238)
Q Consensus 361 vv-~~~g~~~~r~--~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvD 435 (1238)
.. +...++-+|. .|.-+++-+|.......-. ..........+.-||.+||+++..-. ....--.|++||+|
T Consensus 236 a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il----~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDliicD 311 (1518)
T COG4889 236 ASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDIL----SEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLIICD 311 (1518)
T ss_pred eEEEecCccccccccccccccCCCCCcccHHHHH----HHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEEEec
Confidence 33 3333333332 2333333333322100000 00001112345569999999986543 33444579999999
Q ss_pred ccccccC-----c-ccHHHHH--HHhcccccEEEEecCCCC------CCHHHHHHHHhhhcCCCCCChHHHHHHHhchhh
Q 000883 436 EGHRLKN-----K-DSKLFSS--LKQYSTRHRVLLTGTPLQ------NNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQ 501 (1238)
Q Consensus 436 EaHrlKN-----~-~S~~~~~--l~~l~~~~rllLTGTPlq------Nn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~ 501 (1238)
||||--+ . .|...+. -..+++..||-+||||-- .+..+=-+.+ ..+.+...|-+.|..+.-
T Consensus 312 EAHRTtGa~~a~dd~saFt~vHs~~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~l-----~SMDDe~~fGeef~rl~F 386 (1518)
T COG4889 312 EAHRTTGATLAGDDKSAFTRVHSDQNIKAAKRLYMTATPKIYSESSKAKAKDHSAEL-----SSMDDELTFGEEFHRLGF 386 (1518)
T ss_pred chhccccceecccCcccceeecCcchhHHHHhhhcccCchhhchhhhhhhhhcccee-----eccchhhhhchhhhcccH
Confidence 9999633 1 1111111 112346688999999921 1111100000 011223334444433332
Q ss_pred HHHHHHHHHhhchhhhhhhHhHHhhc-CCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHh-cCCcchhHHHHHHHHHHH
Q 000883 502 EEQISRLHRMLAPHLLRRVKKDVMKE-LPPKKELILRVELSSKQKEYYKAILTRNYQILTR-RGGAQISLINVVMELRKL 579 (1238)
Q Consensus 502 ~~~~~~L~~~L~p~~lRR~k~dv~~~-LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~-~~~~~~~l~~i~~~Lrk~ 579 (1238)
.+. |..+ |...+..++.|.-...+..+-..+. .-...|.. ..+......|.++.--.
T Consensus 387 geA-------------------v~rdlLTDYKVmvlaVd~~~i~~~~~~~~~-~~~~~L~~dd~~kIvG~wnGlakr~g- 445 (1518)
T COG4889 387 GEA-------------------VERDLLTDYKVMVLAVDKEVIAGVLQSVLS-GPSKGLALDDVSKIVGCWNGLAKRNG- 445 (1518)
T ss_pred HHH-------------------HHhhhhccceEEEEEechhhhhhhhhhhcc-Ccccccchhhhhhhhhhhhhhhhhcc-
Confidence 222 1111 3344455554442111111111000 00000000 00001111222221000
Q ss_pred hCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCC
Q 000883 580 CCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVG 659 (1238)
Q Consensus 580 c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~ 659 (1238)
-..|-.-......+....-++..-+..|.++.-...-+.+.. ..++..+ .....++..-+||+|.
T Consensus 446 ~~n~~~~~~~d~ap~~RAIaF~k~I~tSK~i~~sFe~Vve~Y--------------~~Elk~d-~~nL~iSi~HvDGtmN 510 (1518)
T COG4889 446 EDNDLKNIKADTAPMQRAIAFAKDIKTSKQIAESFETVVEAY--------------DEELKKD-FKNLKISIDHVDGTMN 510 (1518)
T ss_pred ccccccCCcCCchHHHHHHHHHHhhHHHHHHHHHHHHHHHHH--------------HHHHHhc-CCCceEEeeccccccc
Confidence 000000000000011111112222333333221111110000 0111222 1223456677999999
Q ss_pred HHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC-ceEEEEEe
Q 000883 660 GAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN-KVMIFRLI 733 (1238)
Q Consensus 660 ~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k-~V~VyrLv 733 (1238)
..+|......-|.-......+|-..|++++|+++++.|.||||||--+--..+||.||+-|..-.| --+|.--|
T Consensus 511 al~R~~l~~l~~~~~~neckIlSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~yGYIILPI 585 (1518)
T COG4889 511 ALERLDLLELKNTFEPNECKILSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKKYGYIILPI 585 (1518)
T ss_pred HHHHHHHHhccCCCCcchheeeccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCccceEEEEe
Confidence 999965554443323333447888999999999999999999999877777789999999976543 33444433
No 75
>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=99.64 E-value=4.2e-14 Score=166.27 Aligned_cols=85 Identities=24% Similarity=0.292 Sum_probs=71.4
Q ss_pred cCCeEEEEecchhHHHHHHHHHhhCC--CcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTFKK--WQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~~g--~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VI 700 (1238)
.+.++|||++.....+.+...|...| +.+..++|.++..+|..+. ...+|++|.+.+.|||+.. +.||
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~---------~~~iLVaTdv~~rGiDi~~-~~vi 340 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM---------QFDILLGTSTVDVGVDFKR-DWLI 340 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc---------cCCEEEEecHHhcccCCCC-ceEE
Confidence 57899999999999999999998764 5788999999999887653 2348999999999999986 4666
Q ss_pred EEcCCCChhhhhHHHHHHh
Q 000883 701 IYDSDWNPHADLQAMARAH 719 (1238)
Q Consensus 701 i~D~dWNp~~~~Qa~gR~h 719 (1238)
++ +-++..++||+||++
T Consensus 341 -~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 341 -FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred -EC-CCCHHHHhhhcccCC
Confidence 66 567889999999974
No 76
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.63 E-value=3.7e-14 Score=169.70 Aligned_cols=303 Identities=17% Similarity=0.287 Sum_probs=201.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCC--CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH-HHHHHHHHHHcC--C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQ--THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL-RNWEREFATWAP--Q 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~--~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll-~qW~~E~~~~~p--~ 358 (1238)
.+|...|..+++=+..-.... -+-+|--++|+|||+.|+..+......+ .-..+++|+.++ .|=...|.+|++ +
T Consensus 261 F~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~ai~~G-~Q~ALMAPTEILA~QH~~~~~~~l~~~~ 339 (677)
T COG1200 261 FKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAAIEAG-YQAALMAPTEILAEQHYESLRKWLEPLG 339 (677)
T ss_pred CCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHHHHcC-CeeEEeccHHHHHHHHHHHHHHHhhhcC
Confidence 568899999998775444443 3458889999999998876666555543 367889999888 466788999996 5
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
+.|....|+-.....-...+ .......|+||-|+..+.....+- +..+||+||=|
T Consensus 340 i~V~lLtG~~kgk~r~~~l~----------------------~l~~G~~~ivVGTHALiQd~V~F~---~LgLVIiDEQH 394 (677)
T COG1200 340 IRVALLTGSLKGKARKEILE----------------------QLASGEIDIVVGTHALIQDKVEFH---NLGLVIIDEQH 394 (677)
T ss_pred CeEEEeecccchhHHHHHHH----------------------HHhCCCCCEEEEcchhhhcceeec---ceeEEEEeccc
Confidence 77888888765433211111 012356789999999887544322 45799999999
Q ss_pred cccCcccHHHHHHHhcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhh
Q 000883 439 RLKNKDSKLFSSLKQYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHL 516 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~ 516 (1238)
|+.- .....|+.-. ..|.|.|||||++-.+. ...|+++..
T Consensus 395 RFGV---~QR~~L~~KG~~~Ph~LvMTATPIPRTLA--------------------lt~fgDldv--------------- 436 (677)
T COG1200 395 RFGV---HQRLALREKGEQNPHVLVMTATPIPRTLA--------------------LTAFGDLDV--------------- 436 (677)
T ss_pred cccH---HHHHHHHHhCCCCCcEEEEeCCCchHHHH--------------------HHHhccccc---------------
Confidence 9853 3333444432 47999999999866531 111222211
Q ss_pred hhhhHhHHhhcCCCcEEEEEeccCC-HHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccc
Q 000883 517 LRRVKKDVMKELPPKKELILRVELS-SKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIED 595 (1238)
Q Consensus 517 lRR~k~dv~~~LP~k~e~~v~v~ls-~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~ 595 (1238)
.+++++||...-+...-+. ..-.++|..|.
T Consensus 437 ------S~IdElP~GRkpI~T~~i~~~~~~~v~e~i~------------------------------------------- 467 (677)
T COG1200 437 ------SIIDELPPGRKPITTVVIPHERRPEVYERIR------------------------------------------- 467 (677)
T ss_pred ------hhhccCCCCCCceEEEEeccccHHHHHHHHH-------------------------------------------
Confidence 1345788763322222222 11122333221
Q ss_pred hHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhH--------HHHHHHHHh--hCCCcEEEEeCCCCHHHHHH
Q 000883 596 TNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHM--------LDLLEDYLT--FKKWQYERIDGKVGGAERQI 665 (1238)
Q Consensus 596 ~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~--------ldiL~~~L~--~~g~~~~ridG~~~~~~R~~ 665 (1238)
+-..+|+++.+.|.-+.. ...+...|. ..++.+..++|.++++++++
T Consensus 468 -----------------------~ei~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~ 524 (677)
T COG1200 468 -----------------------EEIAKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDA 524 (677)
T ss_pred -----------------------HHHHcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHH
Confidence 111245555555554321 122223332 13677899999999999999
Q ss_pred HHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCC-CChhhhhHHHHHHhhhCCCC
Q 000883 666 RIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSD-WNPHADLQAMARAHRLGQTN 725 (1238)
Q Consensus 666 ~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~d-WNp~~~~Qa~gR~hRiGQ~k 725 (1238)
++.+|+++..+ +|+||.+..+|||++.|..+||++.+ +--++.-|-.||++|=+...
T Consensus 525 vM~~Fk~~e~~---ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qS 582 (677)
T COG1200 525 VMEAFKEGEID---ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQS 582 (677)
T ss_pred HHHHHHcCCCc---EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcce
Confidence 99999987666 89999999999999999999999997 77888899999999965443
No 77
>PRK09401 reverse gyrase; Reviewed
Probab=99.63 E-value=4.3e-14 Score=185.60 Aligned_cols=294 Identities=16% Similarity=0.199 Sum_probs=183.8
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC--
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM-- 359 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l-- 359 (1238)
|..+.|+|..++..+ ..+.++++..++|+|||..++..+..+. .....+|||+|+ .++.|+...|..++...
T Consensus 78 G~~pt~iQ~~~i~~i----l~g~dv~i~ApTGsGKT~f~l~~~~~l~-~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~ 152 (1176)
T PRK09401 78 GSKPWSLQRTWAKRL----LLGESFAIIAPTGVGKTTFGLVMSLYLA-KKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGC 152 (1176)
T ss_pred CCCCcHHHHHHHHHH----HCCCcEEEEcCCCCCHHHHHHHHHHHHH-hcCCeEEEEeccHHHHHHHHHHHHHHhhhcCc
Confidence 356889999887655 5788999999999999965444333332 233589999996 67789999999987543
Q ss_pred cEEEEEcCh----hHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEec
Q 000883 360 NVVMYVGTS----QARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVD 435 (1238)
Q Consensus 360 ~vv~~~g~~----~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvD 435 (1238)
.+.+..|.. ..+..... . .....++|+|+|++.+......+....+++||||
T Consensus 153 ~~~~~~g~~~~~~~ek~~~~~-~-----------------------l~~~~~~IlV~Tp~rL~~~~~~l~~~~~~~lVvD 208 (1176)
T PRK09401 153 GVKILYYHSSLKKKEKEEFLE-R-----------------------LKEGDFDILVTTSQFLSKNFDELPKKKFDFVFVD 208 (1176)
T ss_pred eEEEEEccCCcchhHHHHHHH-H-----------------------HhcCCCCEEEECHHHHHHHHHhccccccCEEEEE
Confidence 333333332 11111100 0 0113589999999999877666666679999999
Q ss_pred ccccccCcc--------------cHHHHHHHhcc-------------------------cccEEEEecCCCCCCHHH-HH
Q 000883 436 EGHRLKNKD--------------SKLFSSLKQYS-------------------------TRHRVLLTGTPLQNNLDE-LF 475 (1238)
Q Consensus 436 EaHrlKN~~--------------S~~~~~l~~l~-------------------------~~~rllLTGTPlqNn~~E-L~ 475 (1238)
|||++-..+ ..+..++..++ ....++.|||.-...... ++
T Consensus 209 EaD~~L~~~k~id~~l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~~l~ 288 (1176)
T PRK09401 209 DVDAVLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRVKLF 288 (1176)
T ss_pred ChHHhhhcccchhhHHHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHHHHh
Confidence 999975311 11112222221 123455566642211100 00
Q ss_pred HHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHH
Q 000883 476 MLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRN 555 (1238)
Q Consensus 476 ~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~ 555 (1238)
..++. +.+.
T Consensus 289 ---------------------------------~~ll~----------------------~~v~---------------- 297 (1176)
T PRK09401 289 ---------------------------------RELLG----------------------FEVG---------------- 297 (1176)
T ss_pred ---------------------------------hccce----------------------EEec----------------
Confidence 00000 0000
Q ss_pred HHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchh
Q 000883 556 YQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQH 635 (1238)
Q Consensus 556 ~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~ 635 (1238)
..... ++.+ .|-|.. ...|...|.+++..+ |..+|||++...
T Consensus 298 --------~~~~~-------~rnI-~~~yi~-------------------~~~k~~~L~~ll~~l---~~~~LIFv~t~~ 339 (1176)
T PRK09401 298 --------SPVFY-------LRNI-VDSYIV-------------------DEDSVEKLVELVKRL---GDGGLIFVPSDK 339 (1176)
T ss_pred --------Ccccc-------cCCc-eEEEEE-------------------cccHHHHHHHHHHhc---CCCEEEEEeccc
Confidence 00000 0000 011110 012444555555543 568999999877
Q ss_pred H---HHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEee----ccccccccCcCC-CCEEEEEcCCC-
Q 000883 636 M---LDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLS----TRAGGLGINLAT-ADTVIIYDSDW- 706 (1238)
Q Consensus 636 ~---ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlS----tragg~GINL~~-Ad~VIi~D~dW- 706 (1238)
. ++.|.++|...|+++..++|++ ...+++|.++..+ +|++ |..++.|||++. ...||+||.|-
T Consensus 340 ~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G~~~---VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~ 411 (1176)
T PRK09401 340 GKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEEGEVD---VLVGVASYYGVLVRGIDLPERIRYAIFYGVPKF 411 (1176)
T ss_pred ChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCCCCC---EEEEecCCCCceeecCCCCcceeEEEEeCCCCE
Confidence 6 9999999999999999999998 2346999876655 6777 689999999998 89999999987
Q ss_pred -----ChhhhhHHHHHHhhhC
Q 000883 707 -----NPHADLQAMARAHRLG 722 (1238)
Q Consensus 707 -----Np~~~~Qa~gR~hRiG 722 (1238)
.......+++|...+-
T Consensus 412 ~~~~~~~~~~~~~~~r~~~~~ 432 (1176)
T PRK09401 412 KFSLEEELAPPFLLLRLLSLL 432 (1176)
T ss_pred EEeccccccCHHHHHHHHhhc
Confidence 5667778888887543
No 78
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.63 E-value=1.6e-13 Score=173.21 Aligned_cols=153 Identities=18% Similarity=0.217 Sum_probs=103.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
..|.++|.++++.+...+ .+...+|...+|+|||...+..+......+ +.+||++|. .+..|+.+.|.+.+ +..+.
T Consensus 143 ~~Lt~~Q~~ai~~i~~~~-~~~~~Ll~~~TGSGKT~v~l~~i~~~l~~g-~~vLvLvPt~~L~~Q~~~~l~~~f-g~~v~ 219 (679)
T PRK05580 143 PTLNPEQAAAVEAIRAAA-GFSPFLLDGVTGSGKTEVYLQAIAEVLAQG-KQALVLVPEIALTPQMLARFRARF-GAPVA 219 (679)
T ss_pred CCCCHHHHHHHHHHHhcc-CCCcEEEECCCCChHHHHHHHHHHHHHHcC-CeEEEEeCcHHHHHHHHHHHHHHh-CCCEE
Confidence 469999999998885543 456789999999999999877766655542 479999996 67799999999887 46888
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccC
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKN 442 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN 442 (1238)
+++|..........+.- ......+|||+|+..+.. .+ -+..+|||||+|...-
T Consensus 220 ~~~s~~s~~~r~~~~~~----------------------~~~g~~~IVVgTrsal~~---p~--~~l~liVvDEeh~~s~ 272 (679)
T PRK05580 220 VLHSGLSDGERLDEWRK----------------------AKRGEAKVVIGARSALFL---PF--KNLGLIIVDEEHDSSY 272 (679)
T ss_pred EEECCCCHHHHHHHHHH----------------------HHcCCCCEEEeccHHhcc---cc--cCCCEEEEECCCcccc
Confidence 88886543322111100 011356899999876531 22 2467999999997632
Q ss_pred --cccHHH-----HHHHh-cccccEEEEecCC
Q 000883 443 --KDSKLF-----SSLKQ-YSTRHRVLLTGTP 466 (1238)
Q Consensus 443 --~~S~~~-----~~l~~-l~~~~rllLTGTP 466 (1238)
.....+ ..++. ......+++||||
T Consensus 273 ~~~~~p~y~~r~va~~ra~~~~~~~il~SATp 304 (679)
T PRK05580 273 KQQEGPRYHARDLAVVRAKLENIPVVLGSATP 304 (679)
T ss_pred ccCcCCCCcHHHHHHHHhhccCCCEEEEcCCC
Confidence 111111 11112 2345678999999
No 79
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.62 E-value=9.4e-15 Score=166.54 Aligned_cols=307 Identities=19% Similarity=0.286 Sum_probs=202.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHH-HhhCC----CC-CeEEEeCCccH-HHHH---HHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLAS-LFGER----IS-PHLVVAPLSTL-RNWE---REFA 353 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~-l~~~~----~~-p~LIVvP~sll-~qW~---~E~~ 353 (1238)
.+|.+-|...+.=+ ..+..++.+.-+|+|||+..+.-+.. ++... .+ -+|||||+--+ .|-. +++.
T Consensus 103 ~~MT~VQ~~ti~pl----l~gkDvl~~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTRELA~Q~~~eak~Ll 178 (543)
T KOG0342|consen 103 ETMTPVQQKTIPPL----LEGKDVLAAAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTRELAMQIFAEAKELL 178 (543)
T ss_pred cchhHHHHhhcCcc----CCCccceeeeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHHHHHHHHHHHHHH
Confidence 35778887776544 57779999999999999875433333 32221 12 67999997554 4444 4455
Q ss_pred HHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCC---cee
Q 000883 354 TWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPI---KWQ 430 (1238)
Q Consensus 354 ~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i---~w~ 430 (1238)
++.+...+.+..|...-+...... . ...+++|.|+..+......-..+ .-.
T Consensus 179 ~~h~~~~v~~viGG~~~~~e~~kl-------------------------~-k~~niliATPGRLlDHlqNt~~f~~r~~k 232 (543)
T KOG0342|consen 179 KYHESITVGIVIGGNNFSVEADKL-------------------------V-KGCNILIATPGRLLDHLQNTSGFLFRNLK 232 (543)
T ss_pred hhCCCcceEEEeCCccchHHHHHh-------------------------h-ccccEEEeCCchHHhHhhcCCcchhhccc
Confidence 666777777777765544322211 1 26789999999986543222211 226
Q ss_pred EEEecccccccCcc--cHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 431 CMIVDEGHRLKNKD--SKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 431 ~vIvDEaHrlKN~~--S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
++|+|||.|+...+ --+-+.+..+. ....+|.|||-
T Consensus 233 ~lvlDEADrlLd~GF~~di~~Ii~~lpk~rqt~LFSAT~----------------------------------------- 271 (543)
T KOG0342|consen 233 CLVLDEADRLLDIGFEEDVEQIIKILPKQRQTLLFSATQ----------------------------------------- 271 (543)
T ss_pred eeEeecchhhhhcccHHHHHHHHHhccccceeeEeeCCC-----------------------------------------
Confidence 89999999985432 22333333333 23446667663
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
++.-+++.+-++.+ .|-.++
T Consensus 272 ---------------------------------~~kV~~l~~~~L~~---------------------------d~~~v~ 291 (543)
T KOG0342|consen 272 ---------------------------------PSKVKDLARGALKR---------------------------DPVFVN 291 (543)
T ss_pred ---------------------------------cHHHHHHHHHhhcC---------------------------CceEee
Confidence 11111111111000 000001
Q ss_pred CCCCCccchHHHHHH---HHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHH
Q 000883 588 GVEPDIEDTNESFKQ---LLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQ 664 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~---li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~ 664 (1238)
...+....+.+.+.+ +.....++.+|..+|++.... .||+||+....+...+.+.|+...+++.-|+|..++..|.
T Consensus 292 ~~d~~~~~The~l~Qgyvv~~~~~~f~ll~~~LKk~~~~-~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT 370 (543)
T KOG0342|consen 292 VDDGGERETHERLEQGYVVAPSDSRFSLLYTFLKKNIKR-YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRT 370 (543)
T ss_pred cCCCCCcchhhcccceEEeccccchHHHHHHHHHHhcCC-ceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccc
Confidence 111000001111111 111233467777888776543 8999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN 725 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k 725 (1238)
....+|....+. +|++|++++.|+|.+.+|-||-||+|-+|.+|++|+||..|-|-+-
T Consensus 371 ~~~~~F~kaesg---IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~G 428 (543)
T KOG0342|consen 371 STFFEFCKAESG---ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKEG 428 (543)
T ss_pred hHHHHHhhcccc---eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCCc
Confidence 999999988877 8999999999999999999999999999999999999999977653
No 80
>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=99.61 E-value=2.5e-15 Score=150.08 Aligned_cols=120 Identities=28% Similarity=0.457 Sum_probs=111.0
Q ss_pred hHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecccc
Q 000883 608 GKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAG 687 (1238)
Q Consensus 608 ~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStrag 687 (1238)
.|+..+..++.+..+.+.++|||+.....++.+.++|...+..+..++|+++..+|..+++.|+.+. ..+|++|.++
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~---~~ili~t~~~ 88 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGE---IVVLVATDVI 88 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCC---CcEEEEcChh
Confidence 6888888888887767899999999999999999999988999999999999999999999998765 3588999999
Q ss_pred ccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 688 GLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 688 g~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
++|+|++.+++||+++++||+..++|++||++|.||+..|.+|
T Consensus 89 ~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 89 ARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred hcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 9999999999999999999999999999999999998877764
No 81
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.61 E-value=2.9e-15 Score=164.68 Aligned_cols=320 Identities=19% Similarity=0.300 Sum_probs=209.2
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhh--------CCCCCe-EEEeCCccH-HHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFG--------ERISPH-LVVAPLSTL-RNWEREFA 353 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~--------~~~~p~-LIVvP~sll-~qW~~E~~ 353 (1238)
...|-|.+|+--+ -.|+..|=..-+|+|||++. +-++...+. .+.||+ |||||.--+ .|-..-+.
T Consensus 192 ~PTpIQvQGlPvv----LsGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie 267 (610)
T KOG0341|consen 192 HPTPIQVQGLPVV----LSGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIE 267 (610)
T ss_pred CCCceeecCcceE----eecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHH
Confidence 5677898887543 46777776677999999863 222222111 233565 999997554 33333333
Q ss_pred HH--------cCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cc
Q 000883 354 TW--------APQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--AS 423 (1238)
Q Consensus 354 ~~--------~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~ 423 (1238)
.+ .|.++.....|.-..+..+... .-..|++|.|+..+.... ..
T Consensus 268 ~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v--------------------------~~GvHivVATPGRL~DmL~KK~ 321 (610)
T KOG0341|consen 268 QYVAALQEAGYPELRSLLCIGGVPVREQLDVV--------------------------RRGVHIVVATPGRLMDMLAKKI 321 (610)
T ss_pred HHHHHHHhcCChhhhhhhhhcCccHHHHHHHH--------------------------hcCeeEEEcCcchHHHHHHHhh
Confidence 33 2667776666766655543321 135789999998775421 11
Q ss_pred cCCCceeEEEecccccccCcc--cHHHHHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchh
Q 000883 424 LKPIKWQCMIVDEGHRLKNKD--SKLFSSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN 500 (1238)
Q Consensus 424 l~~i~w~~vIvDEaHrlKN~~--S~~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~ 500 (1238)
+..--..++.+|||.|+-... -.....+..|++ +..||.|||- |.. .+.|.
T Consensus 322 ~sLd~CRyL~lDEADRmiDmGFEddir~iF~~FK~QRQTLLFSATM----------------P~K-------IQ~FA--- 375 (610)
T KOG0341|consen 322 MSLDACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQRQTLLFSATM----------------PKK-------IQNFA--- 375 (610)
T ss_pred ccHHHHHHhhhhhHHHHhhccchhhHHHHHHHHhhhhheeeeeccc----------------cHH-------HHHHH---
Confidence 111124589999999985433 233334444444 3468888884 000 00000
Q ss_pred hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHh
Q 000883 501 QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLC 580 (1238)
Q Consensus 501 ~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c 580 (1238)
-..+++| .+|.|. .....-++++.+
T Consensus 376 -------kSALVKP-------------------vtvNVG------------------------RAGAAsldViQe----- 400 (610)
T KOG0341|consen 376 -------KSALVKP-------------------VTVNVG------------------------RAGAASLDVIQE----- 400 (610)
T ss_pred -------Hhhcccc-------------------eEEecc------------------------cccccchhHHHH-----
Confidence 0011111 122221 111112222222
Q ss_pred CCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCH
Q 000883 581 CHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGG 660 (1238)
Q Consensus 581 ~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~ 660 (1238)
-..+..-+|+..|.+.|++ ..-+||||+.-..-.|-|.+||-.+|...+.|+|+-..
T Consensus 401 --------------------vEyVkqEaKiVylLeCLQK---T~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQ 457 (610)
T KOG0341|consen 401 --------------------VEYVKQEAKIVYLLECLQK---TSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQ 457 (610)
T ss_pred --------------------HHHHHhhhhhhhHHHHhcc---CCCceEEEeccccChHHHHHHHHHccceeEEeecCcch
Confidence 2345566788877777755 56799999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHH
Q 000883 661 AERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEE 740 (1238)
Q Consensus 661 ~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE 740 (1238)
++|..+|+.|..+..+ +|+.|.+++-|+++++..+||.||.+-.-.+|..++||.+|-|.+.-.+ .||-+++-|.
T Consensus 458 edR~~ai~afr~gkKD---VLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~GiAT--TfINK~~~es 532 (610)
T KOG0341|consen 458 EDRHYAIEAFRAGKKD---VLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGIAT--TFINKNQEES 532 (610)
T ss_pred hHHHHHHHHHhcCCCc---eEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcceee--eeecccchHH
Confidence 9999999999987766 8999999999999999999999999999999999999999999775433 4566665444
Q ss_pred HHH
Q 000883 741 RMM 743 (1238)
Q Consensus 741 ~I~ 743 (1238)
-++
T Consensus 533 vLl 535 (610)
T KOG0341|consen 533 VLL 535 (610)
T ss_pred HHH
Confidence 433
No 82
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.60 E-value=8.3e-14 Score=159.40 Aligned_cols=121 Identities=18% Similarity=0.407 Sum_probs=93.0
Q ss_pred hhHHH--HHHHHHHHHHH--cCCeEEEEecchhHHHH----HHHHHhh------------------CCCcEEEEeCCCCH
Q 000883 607 SGKLQ--LLDKMMVKLKE--QGHRVLIYSQFQHMLDL----LEDYLTF------------------KKWQYERIDGKVGG 660 (1238)
Q Consensus 607 S~Kl~--~L~klL~~l~~--~g~KVLIFsq~~~~ldi----L~~~L~~------------------~g~~~~ridG~~~~ 660 (1238)
.+|+. .|..+|....+ ...|+|||....++.+. +...+.. .+.++.|++|+++.
T Consensus 404 PpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~Q 483 (708)
T KOG0348|consen 404 PPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQ 483 (708)
T ss_pred CCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhH
Confidence 44443 34455544332 24588999777666553 3333321 24579999999999
Q ss_pred HHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 661 AERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 661 ~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
++|..+...|..... ++|++|++++.||||+....||-||++..+..++.|+||.-|+|-+-.-..|
T Consensus 484 eeRts~f~~Fs~~~~---~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alLf 550 (708)
T KOG0348|consen 484 EERTSVFQEFSHSRR---AVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALLF 550 (708)
T ss_pred HHHHHHHHhhccccc---eEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEEE
Confidence 999999999987554 4899999999999999999999999999999999999999999988665543
No 83
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.60 E-value=1e-13 Score=159.12 Aligned_cols=325 Identities=16% Similarity=0.244 Sum_probs=220.9
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCC-----CeEEEeCCccH-HHHHHHHHHHc-
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERIS-----PHLVVAPLSTL-RNWEREFATWA- 356 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~-----p~LIVvP~sll-~qW~~E~~~~~- 356 (1238)
.+..-|...+-.. -.|..++=|.-+|+|||+.. +-+|..|+....+ -.|||.|+--| .|--.-+.+-.
T Consensus 91 ~~teiQ~~~Ip~a----L~G~DvlGAAkTGSGKTLAFlvPvlE~L~r~kWs~~DGlGalIISPTRELA~QtFevL~kvgk 166 (758)
T KOG0343|consen 91 KMTEIQRDTIPMA----LQGHDVLGAAKTGSGKTLAFLVPVLEALYRLKWSPTDGLGALIISPTRELALQTFEVLNKVGK 166 (758)
T ss_pred cHHHHHHhhcchh----ccCcccccccccCCCceeeehHHHHHHHHHcCCCCCCCceeEEecchHHHHHHHHHHHHHHhh
Confidence 4677888877543 46788888999999999874 4566777665433 57999997444 45444444332
Q ss_pred -CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh---hcccCCCceeEE
Q 000883 357 -PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD---SASLKPIKWQCM 432 (1238)
Q Consensus 357 -p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d---~~~l~~i~w~~v 432 (1238)
-++..-.+.|..+...... .....+|+|+|+..+... ...|..-...++
T Consensus 167 ~h~fSaGLiiGG~~~k~E~e---------------------------Ri~~mNILVCTPGRLLQHmde~~~f~t~~lQmL 219 (758)
T KOG0343|consen 167 HHDFSAGLIIGGKDVKFELE---------------------------RISQMNILVCTPGRLLQHMDENPNFSTSNLQML 219 (758)
T ss_pred ccccccceeecCchhHHHHH---------------------------hhhcCCeEEechHHHHHHhhhcCCCCCCcceEE
Confidence 2566666777765433211 124678999999999764 334555577899
Q ss_pred EecccccccCcc--cHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 433 IVDEGHRLKNKD--SKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN~~--S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
|+|||.|+-..+ ..+-..+..+. .+..||.|||+- +++.+|.-|
T Consensus 220 vLDEADR~LDMGFk~tL~~Ii~~lP~~RQTLLFSATqt-~svkdLaRL-------------------------------- 266 (758)
T KOG0343|consen 220 VLDEADRMLDMGFKKTLNAIIENLPKKRQTLLFSATQT-KSVKDLARL-------------------------------- 266 (758)
T ss_pred EeccHHHHHHHhHHHHHHHHHHhCChhheeeeeecccc-hhHHHHHHh--------------------------------
Confidence 999999986544 23444455554 446699999982 233332211
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEe---ccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccc
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILR---VELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML 586 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~---v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~ 586 (1238)
.|-....+.|. +.-+|. .|+|. |++
T Consensus 267 -----------------sL~dP~~vsvhe~a~~atP~-------------------------------~L~Q~----y~~ 294 (758)
T KOG0343|consen 267 -----------------SLKDPVYVSVHENAVAATPS-------------------------------NLQQS----YVI 294 (758)
T ss_pred -----------------hcCCCcEEEEeccccccChh-------------------------------hhhhe----EEE
Confidence 11111111111 011111 01110 111
Q ss_pred cCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh--CCCcEEEEeCCCCHHHHH
Q 000883 587 EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF--KKWQYERIDGKVGGAERQ 664 (1238)
Q Consensus 587 ~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~--~g~~~~ridG~~~~~~R~ 664 (1238)
+.-.-|+.+|.-.|.... ..|.|||...-.....+...+.. -|++..-++|.++...|.
T Consensus 295 -----------------v~l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ 355 (758)
T KOG0343|consen 295 -----------------VPLEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRI 355 (758)
T ss_pred -----------------EehhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHH
Confidence 122347777777777644 45899998888877777776654 399999999999999999
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHH
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQ 744 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~ 744 (1238)
.+..+|.... -++|.+|..++.||+++++|.||-+|.|-+-..|++|.||.-|.+......+|-+ -+-||.|+.
T Consensus 356 ev~~~F~~~~---~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L~---psEeE~~l~ 429 (758)
T KOG0343|consen 356 EVYKKFVRKR---AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLT---PSEEEAMLK 429 (758)
T ss_pred HHHHHHHHhc---ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEEc---chhHHHHHH
Confidence 9999997633 3589999999999999999999999999999999999999999987766655433 455788888
Q ss_pred HHHHHH
Q 000883 745 MTKKKM 750 (1238)
Q Consensus 745 ~~~~K~ 750 (1238)
..++|.
T Consensus 430 ~Lq~k~ 435 (758)
T KOG0343|consen 430 KLQKKK 435 (758)
T ss_pred HHHHcC
Confidence 887774
No 84
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.60 E-value=6.2e-14 Score=178.94 Aligned_cols=331 Identities=19% Similarity=0.222 Sum_probs=221.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc---C-C
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERISPHLVVAPL-STLRNWEREFATWA---P-Q 358 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~---p-~ 358 (1238)
.|+.||.++++.+ .+|+++|+.-.||+|||... +.++..+........|+|-|. .|.......|.+|. | .
T Consensus 70 ~lY~HQ~~A~~~~----~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~ 145 (851)
T COG1205 70 RLYSHQVDALRLI----REGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGK 145 (851)
T ss_pred cccHHHHHHHHHH----HCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCc
Confidence 4999999999877 78899999999999999986 455566666666689999995 56667888888886 3 4
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh------hcccCCCceeEE
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD------SASLKPIKWQCM 432 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d------~~~l~~i~w~~v 432 (1238)
+++..|+|+........ + -..+.+|++|+|+|+... ......-.+.+|
T Consensus 146 v~~~~y~Gdt~~~~r~~---~-----------------------~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~l 199 (851)
T COG1205 146 VTFGRYTGDTPPEERRA---I-----------------------IRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYL 199 (851)
T ss_pred ceeeeecCCCChHHHHH---H-----------------------HhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEE
Confidence 67788988765432110 0 124789999999999652 111111237899
Q ss_pred EecccccccCc-ccHHHHHHHhcc--------cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHH
Q 000883 433 IVDEGHRLKNK-DSKLFSSLKQYS--------TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEE 503 (1238)
Q Consensus 433 IvDEaHrlKN~-~S~~~~~l~~l~--------~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~ 503 (1238)
||||+|-..+. .|.+.-.++.+. ....++.|||- .+..+|...+....-.
T Consensus 200 VvDElHtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~--------------------~np~e~~~~l~~~~f~- 258 (851)
T COG1205 200 VVDELHTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATL--------------------ANPGEFAEELFGRDFE- 258 (851)
T ss_pred EEecceeccccchhHHHHHHHHHHHHHhccCCCceEEEEeccc--------------------cChHHHHHHhcCCcce-
Confidence 99999999764 344444444332 23568888884 2223333222110000
Q ss_pred HHHHHHHhhchhhhhhhHhHHhhc-CCCcEE-EEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhC
Q 000883 504 QISRLHRMLAPHLLRRVKKDVMKE-LPPKKE-LILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCC 581 (1238)
Q Consensus 504 ~~~~L~~~L~p~~lRR~k~dv~~~-LP~k~e-~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~ 581 (1238)
..+..+ -|.... .+++-+........
T Consensus 259 ------------------~~v~~~g~~~~~~~~~~~~p~~~~~~~~---------------------------------- 286 (851)
T COG1205 259 ------------------VPVDEDGSPRGLRYFVRREPPIRELAES---------------------------------- 286 (851)
T ss_pred ------------------eeccCCCCCCCceEEEEeCCcchhhhhh----------------------------------
Confidence 001111 111111 11111111100000
Q ss_pred CcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHH----HHHhhCC----CcEEE
Q 000883 582 HPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLE----DYLTFKK----WQYER 653 (1238)
Q Consensus 582 hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~----~~L~~~g----~~~~r 653 (1238)
..-.+...+..++..+...|-++|+|+.+...+..+. ..+...+ ..+..
T Consensus 287 -----------------------~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~ 343 (851)
T COG1205 287 -----------------------IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVST 343 (851)
T ss_pred -----------------------cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheee
Confidence 0123455566777778888999999999999988885 3333344 56888
Q ss_pred EeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC-ChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 654 IDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW-NPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 654 idG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW-Np~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
..|++...+|..+...|..++.. ++++|.|.-.||++.+.|.||.+--+- .-..+.|+.||++|-||.- .++..
T Consensus 344 ~~~~~~~~er~~ie~~~~~g~~~---~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~--l~~~v 418 (851)
T COG1205 344 YRAGLHREERRRIEAEFKEGELL---GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQES--LVLVV 418 (851)
T ss_pred ccccCCHHHHHHHHHHHhcCCcc---EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCc--eEEEE
Confidence 89999999999999999876654 899999999999999999999999988 7789999999999999543 33333
Q ss_pred ecCCCHHHHHHHHH
Q 000883 733 ITRGSIEERMMQMT 746 (1238)
Q Consensus 733 vt~~TvEE~I~~~~ 746 (1238)
.-.+.++..++..-
T Consensus 419 ~~~~~~d~yy~~~p 432 (851)
T COG1205 419 LRSDPLDSYYLRHP 432 (851)
T ss_pred eCCCccchhhhhCc
Confidence 33677777665543
No 85
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.60 E-value=1.1e-13 Score=152.01 Aligned_cols=318 Identities=18% Similarity=0.244 Sum_probs=206.3
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHH-HHHHHHHHhhCCCC-CeEEEeCCccHH-HHHHHHHHHc--CCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQ-SIAFLASLFGERIS-PHLVVAPLSTLR-NWEREFATWA--PQM 359 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiq-aia~l~~l~~~~~~-p~LIVvP~sll~-qW~~E~~~~~--p~l 359 (1238)
+..|-|...+--+ -.|++||=+.-+|+|||.. ++-++..|.....+ -.||++|..-+. |-...|.-.. -++
T Consensus 29 ~pTpiQ~~cIpkI----LeGrdcig~AkTGsGKT~AFaLPil~rLsedP~giFalvlTPTrELA~QiaEQF~alGk~l~l 104 (442)
T KOG0340|consen 29 KPTPIQQACIPKI----LEGRDCIGCAKTGSGKTAAFALPILNRLSEDPYGIFALVLTPTRELALQIAEQFIALGKLLNL 104 (442)
T ss_pred CCCchHhhhhHHH----hcccccccccccCCCcchhhhHHHHHhhccCCCcceEEEecchHHHHHHHHHHHHHhcccccc
Confidence 4567888877655 5789999999999999976 45556666666556 569999986554 4444454333 246
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-ccCCC-----ceeEEE
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA-SLKPI-----KWQCMI 433 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~-~l~~i-----~w~~vI 433 (1238)
++-+++|..+--.. .. .-..+.||||+|.+.+..... .+... +-.++|
T Consensus 105 K~~vivGG~d~i~q--a~------------------------~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflV 158 (442)
T KOG0340|consen 105 KVSVIVGGTDMIMQ--AA------------------------ILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLV 158 (442)
T ss_pred eEEEEEccHHHhhh--hh------------------------hcccCCCeEecCccccccccccCCccchhhhhceeeEE
Confidence 77777776543211 10 112467899999988743211 11111 346899
Q ss_pred ecccccccCccc--HHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHH
Q 000883 434 VDEGHRLKNKDS--KLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHR 510 (1238)
Q Consensus 434 vDEaHrlKN~~S--~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~ 510 (1238)
+|||.++-+..- .+......+. .+.-+++|||- .+++.+++..
T Consensus 159 lDEADrvL~~~f~d~L~~i~e~lP~~RQtLlfSATi-td~i~ql~~~--------------------------------- 204 (442)
T KOG0340|consen 159 LDEADRVLAGCFPDILEGIEECLPKPRQTLLFSATI-TDTIKQLFGC--------------------------------- 204 (442)
T ss_pred ecchhhhhccchhhHHhhhhccCCCccceEEEEeeh-hhHHHHhhcC---------------------------------
Confidence 999999865421 1222222222 23557777773 2222222110
Q ss_pred hhchhhhhhhHhHHhhcCCCcE--EEEEec-cCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 511 MLAPHLLRRVKKDVMKELPPKK--ELILRV-ELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 511 ~L~p~~lRR~k~dv~~~LP~k~--e~~v~v-~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
|-.. -+.+.+ +-.+.-..+|..
T Consensus 205 ------------------~i~k~~a~~~e~~~~vstvetL~q~------------------------------------- 229 (442)
T KOG0340|consen 205 ------------------PITKSIAFELEVIDGVSTVETLYQG------------------------------------- 229 (442)
T ss_pred ------------------CcccccceEEeccCCCCchhhhhhh-------------------------------------
Confidence 0000 000000 000000000000
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHH-cCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKE-QGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~-~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
-.++...+|-..|..+|....+ ....++||.|-+....+|...|+..++.+..+++.++..+|-.+
T Consensus 230 -------------yI~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~a 296 (442)
T KOG0340|consen 230 -------------YILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAA 296 (442)
T ss_pred -------------eeecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHH
Confidence 0112234566667777777766 56789999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHH
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvE 739 (1238)
+.+|.++.. -+|++|++++.|+++++.+.||.||.|-.|..|+++.||.-|.|..... .-+++.-.||
T Consensus 297 LsrFrs~~~---~iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~G~a--iSivt~rDv~ 364 (442)
T KOG0340|consen 297 LSRFRSNAA---RILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKGMA--ISIVTQRDVE 364 (442)
T ss_pred HHHHhhcCc---cEEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCCcce--EEEechhhHH
Confidence 999987544 4899999999999999999999999999999999999999998876422 2344444443
No 86
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.60 E-value=6.1e-15 Score=156.30 Aligned_cols=165 Identities=26% Similarity=0.408 Sum_probs=110.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM 359 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l 359 (1238)
.+|||||.++++-++..+... .+++|..+||+|||++++.++..+.. ++|||||. +++.||..+|..+.+..
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~~~~~ 77 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDFGSEK 77 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHHSTTS
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHhhhhh
Confidence 368999999998887777654 88999999999999999998888877 89999997 78899999998888655
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcc-------------cCC
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS-------------LKP 426 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~-------------l~~ 426 (1238)
............. ....... ...............++++++++.+...... +..
T Consensus 78 ~~~~~~~~~~~~~----~~~~~~~---------~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 144 (184)
T PF04851_consen 78 YNFFEKSIKPAYD----SKEFISI---------QDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLK 144 (184)
T ss_dssp EEEEE--GGGCCE-----SEEETT---------TTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGG
T ss_pred hhhcccccccccc----ccccccc---------ccccccccccccccccchhhHHHHHHhhcccccccccchhhhhhhcc
Confidence 4443321110000 0000000 0000001111234678999999999765322 122
Q ss_pred CceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCC
Q 000883 427 IKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPL 467 (1238)
Q Consensus 427 i~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPl 467 (1238)
-.+++||+||||++.+... ++.+..+...++|+|||||.
T Consensus 145 ~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 145 NKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp GSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred ccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 3688999999999876553 55555577889999999994
No 87
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.58 E-value=2.6e-14 Score=162.53 Aligned_cols=324 Identities=15% Similarity=0.252 Sum_probs=210.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHH-HHHHHHHHhhCCC----CCeEEEeCCccH----HHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQ-SIAFLASLFGERI----SPHLVVAPLSTL----RNWEREFATW 355 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiq-aia~l~~l~~~~~----~p~LIVvP~sll----~qW~~E~~~~ 355 (1238)
...|-|...+--. .-|+..+-+..+|+|||.. ++-+|..|+.... .++||+||+--| .+-.+.+.+|
T Consensus 203 ~PTpIQ~a~IPva----llgkDIca~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELaiQv~sV~~qlaqF 278 (691)
T KOG0338|consen 203 KPTPIQVATIPVA----LLGKDICACAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELAIQVHSVTKQLAQF 278 (691)
T ss_pred CCCchhhhcccHH----hhcchhhheecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHHHHHHHHHHHHHhh
Confidence 3556666654311 2366677788999999976 3555666654432 389999997444 4566777888
Q ss_pred cCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCC---CceeEE
Q 000883 356 APQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKP---IKWQCM 432 (1238)
Q Consensus 356 ~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~---i~w~~v 432 (1238)
+ ++.+....|.-+-+..-.. -....||||.|+..+......-.+ -...++
T Consensus 279 t-~I~~~L~vGGL~lk~QE~~--------------------------LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVL 331 (691)
T KOG0338|consen 279 T-DITVGLAVGGLDLKAQEAV--------------------------LRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVL 331 (691)
T ss_pred c-cceeeeeecCccHHHHHHH--------------------------HhhCCCEEEecchhHHHHhccCCCccccceeEE
Confidence 8 6888888888766543211 124679999999999764333223 345689
Q ss_pred EecccccccCccc-HHHHHHHhcccc--cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 433 IVDEGHRLKNKDS-KLFSSLKQYSTR--HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN~~S-~~~~~l~~l~~~--~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
|+|||.|+....- --...+..+.++ ..+|.|||- .. .+..|.
T Consensus 332 vlDEADRMLeegFademnEii~lcpk~RQTmLFSATM-te----------------------------------eVkdL~ 376 (691)
T KOG0338|consen 332 VLDEADRMLEEGFADEMNEIIRLCPKNRQTMLFSATM-TE----------------------------------EVKDLA 376 (691)
T ss_pred EechHHHHHHHHHHHHHHHHHHhccccccceeehhhh-HH----------------------------------HHHHHH
Confidence 9999999865432 122334444444 448889984 11 222221
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
.+ +| +....|+|..+..- ...|..-+.++|-
T Consensus 377 sl---------------SL--~kPvrifvd~~~~~---------------------a~~LtQEFiRIR~----------- 407 (691)
T KOG0338|consen 377 SL---------------SL--NKPVRIFVDPNKDT---------------------APKLTQEFIRIRP----------- 407 (691)
T ss_pred Hh---------------hc--CCCeEEEeCCcccc---------------------chhhhHHHheecc-----------
Confidence 11 11 11112222221100 0000000000000
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
.. ..-+-.+|..++.++. ..+++||.+.......|.-.|...|+++.-++|+.++.+|-..+..
T Consensus 408 --~r------------e~dRea~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~k 471 (691)
T KOG0338|consen 408 --KR------------EGDREAMLASLITRTF--QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEK 471 (691)
T ss_pred --cc------------ccccHHHHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHH
Confidence 00 0011223444454444 5699999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHH
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMT 746 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~ 746 (1238)
|....-+ +|++|..++.||++...-+||.|+.|-....|+++.||.-|.|... .-.-|+.++ |.+|+.-+
T Consensus 472 Fk~~eid---vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRaG--rsVtlvgE~--dRkllK~i 541 (691)
T KOG0338|consen 472 FKKEEID---VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRAG--RSVTLVGES--DRKLLKEI 541 (691)
T ss_pred HHhccCC---EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccCc--ceEEEeccc--cHHHHHHH
Confidence 9876655 8999999999999999999999999999999999999999998652 233467666 55555433
No 88
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.58 E-value=1.1e-13 Score=157.09 Aligned_cols=319 Identities=18% Similarity=0.281 Sum_probs=211.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHH-HHHHhh-----CCCCCe-EEEeCC-ccHHHHHHHHHHHc
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAF-LASLFG-----ERISPH-LVVAPL-STLRNWEREFATWA 356 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~-l~~l~~-----~~~~p~-LIVvP~-sll~qW~~E~~~~~ 356 (1238)
+..|-|-.+|--. -.++.+|=..-+|+|||-..+.- +.++.. .+.+|+ ||+||. ++..|-..|.++|.
T Consensus 245 kptpiq~qalpta----lsgrdvigIAktgSgktaAfi~pm~~himdq~eL~~g~gPi~vilvPTrela~Qi~~eaKkf~ 320 (731)
T KOG0339|consen 245 KPTPIQCQALPTA----LSGRDVIGIAKTGSGKTAAFIWPMIVHIMDQPELKPGEGPIGVILVPTRELASQIFSEAKKFG 320 (731)
T ss_pred cCCcccccccccc----cccccchheeeccCcchhHHHHHHHHHhcchhhhcCCCCCeEEEEeccHHHHHHHHHHHHHhh
Confidence 3555666665322 34666676667999999644322 222222 134576 677886 67788899999885
Q ss_pred --CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEE
Q 000883 357 --PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCM 432 (1238)
Q Consensus 357 --p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~v 432 (1238)
-+++++..+|....-..+... ...+.+||+|++.+.... ....-.+..+|
T Consensus 321 K~ygl~~v~~ygGgsk~eQ~k~L--------------------------k~g~EivVaTPgRlid~VkmKatn~~rvS~L 374 (731)
T KOG0339|consen 321 KAYGLRVVAVYGGGSKWEQSKEL--------------------------KEGAEIVVATPGRLIDMVKMKATNLSRVSYL 374 (731)
T ss_pred hhccceEEEeecCCcHHHHHHhh--------------------------hcCCeEEEechHHHHHHHHhhcccceeeeEE
Confidence 468888877766544443332 135779999999886432 12222356789
Q ss_pred EecccccccCc--ccHHHHHHHhcccc-cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 433 IVDEGHRLKNK--DSKLFSSLKQYSTR-HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN~--~S~~~~~l~~l~~~-~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
|+|||.|+-.. ..+.......++.. ..|+.|+|- ...+.+|.
T Consensus 375 V~DEadrmfdmGfe~qVrSI~~hirpdrQtllFsaTf-----------------------------------~~kIe~la 419 (731)
T KOG0339|consen 375 VLDEADRMFDMGFEPQVRSIKQHIRPDRQTLLFSATF-----------------------------------KKKIEKLA 419 (731)
T ss_pred EEechhhhhccccHHHHHHHHhhcCCcceEEEeeccc-----------------------------------hHHHHHHH
Confidence 99999998653 33444444455544 468888883 01122221
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
.+++. -|.......|.+-.. . +.+.--+|
T Consensus 420 ------------rd~L~--dpVrvVqg~vgean~------------------------d----ITQ~V~V~--------- 448 (731)
T KOG0339|consen 420 ------------RDILS--DPVRVVQGEVGEANE------------------------D----ITQTVSVC--------- 448 (731)
T ss_pred ------------HHHhc--CCeeEEEeehhcccc------------------------c----hhheeeec---------
Confidence 11111 111111111111000 0 00000001
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
-....|+..|.+-|......| +||||..-....+-|...|..+|+++..++|++...+|.+.|..
T Consensus 449 --------------~s~~~Kl~wl~~~L~~f~S~g-kvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~ 513 (731)
T KOG0339|consen 449 --------------PSEEKKLNWLLRHLVEFSSEG-KVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSK 513 (731)
T ss_pred --------------cCcHHHHHHHHHHhhhhccCC-cEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHH
Confidence 012236666666666655544 89999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHH
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvE 739 (1238)
|...... +|+.|....+|+++....|||+||.--.-....|++||.+|-|-+ -..|.|||+...+
T Consensus 514 fKkk~~~---VlvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 514 FKKKRKP---VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred HhhcCCc---eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 9886665 899999999999999999999999999999999999999999976 6678899876554
No 89
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=99.58 E-value=5.6e-17 Score=156.56 Aligned_cols=100 Identities=25% Similarity=0.346 Sum_probs=80.5
Q ss_pred CCcccCCCccCccchHHHHHHHHHHHHHHHHHHhccCCCCCCCcccccccccCCCCCCCCcCHHHHHHHHHHHHhhch--
Q 000883 1024 SPTFSDGVPKEGLRIQDVLVRIAVLLLIRDKVKFLSQKPGTPLFTDDIYLRYPGLRGGKFWKEEHDSLLLRAVLKHGY-- 1101 (1238)
Q Consensus 1024 ~~~~~~~i~k~~~k~~~vl~ri~~~~ll~~Kv~~~~~~p~~~~~~~~~~~~~~~~~~~~~w~~eeD~~LL~gi~~~Gy-- 1101 (1238)
|+++++.|++|+.|++.. ...+.+|++||+.|. +| + .+|.++||++++++.||+++|||||+++|+|||
T Consensus 1 ~ek~i~~IE~gE~k~~k~---~~~~~~l~~Kv~~~~-~P---~--~~L~i~y~~~~~~k~yseeEDRfLl~~~~~~G~~~ 71 (118)
T PF09111_consen 1 WEKIIKRIEKGEKKIEKR---KEQQEALRKKVEQYK-NP---W--QELKINYPPNNKKKVYSEEEDRFLLCMLYKYGYDA 71 (118)
T ss_dssp HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHCC-S-SH---H--HH---SSTSTSS-SSS-HHHHHHHHHHHHHHTTTS
T ss_pred ChHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHcc-CC---H--HHCeeccCCCCCCCCcCcHHHHHHHHHHHHhCCCC
Confidence 456778899998887644 456899999999996 66 5 678999998888999999999999999999999
Q ss_pred -hhHHHhhcCc--------ccChhHHHHHhhCCCCccCCC
Q 000883 1102 -GRWQAIVDDK--------DLKVQEVICQELNLPFINLPV 1132 (1238)
Q Consensus 1102 -g~we~Ik~D~--------~l~l~~~~~~e~~~~~~~~~~ 1132 (1238)
|.|+.|++++ ||++++++++|+++||.+|+.
T Consensus 72 ~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~ 111 (118)
T PF09111_consen 72 EGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIK 111 (118)
T ss_dssp TTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHH
Confidence 9999988887 999999999999999999864
No 90
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.58 E-value=4.5e-14 Score=163.95 Aligned_cols=316 Identities=18% Similarity=0.231 Sum_probs=208.2
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCC-CeEEEeCCccH-HHHHHHHHHHcC---CC
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERIS-PHLVVAPLSTL-RNWEREFATWAP---QM 359 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~-p~LIVvP~sll-~qW~~E~~~~~p---~l 359 (1238)
..+-|..|+-.. ..+-..|+-.-.|+|||+.. ++.+..|-..... -.|||+|+--+ .|-+..|.+.+| ++
T Consensus 48 ptkiQaaAIP~~----~~kmDliVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREiaVQI~~tv~~v~~sf~g~ 123 (980)
T KOG4284|consen 48 PTKIQAAAIPAI----FSKMDLIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIAVQIKETVRKVAPSFTGA 123 (980)
T ss_pred CCchhhhhhhhh----hcccceEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhhhHHHHHHHHhcccccCc
Confidence 334666665433 34567899999999999874 3334444333222 67999997544 677777877776 57
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEeccc
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEa 437 (1238)
++.+|.|...-...... ..+.+|+|-|+..+... ...+..-+.+++|+|||
T Consensus 124 ~csvfIGGT~~~~d~~r---------------------------lk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEA 176 (980)
T KOG4284|consen 124 RCSVFIGGTAHKLDLIR---------------------------LKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEA 176 (980)
T ss_pred ceEEEecCchhhhhhhh---------------------------hhhceEEecCchHHHHHHHhcCCCccceeEEEeccH
Confidence 78888887654322111 13567999999988653 34555557789999999
Q ss_pred ccccCccc---HHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhc
Q 000883 438 HRLKNKDS---KLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLA 513 (1238)
Q Consensus 438 HrlKN~~S---~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~ 513 (1238)
..|-...| .+...+..+. .+..+..|||=- .|+. ..|.+.++
T Consensus 177 DkL~~t~sfq~~In~ii~slP~~rQv~a~SATYp-~nLd---------------------------------n~Lsk~mr 222 (980)
T KOG4284|consen 177 DKLMDTESFQDDINIIINSLPQIRQVAAFSATYP-RNLD---------------------------------NLLSKFMR 222 (980)
T ss_pred HhhhchhhHHHHHHHHHHhcchhheeeEEeccCc-hhHH---------------------------------HHHHHHhc
Confidence 99866554 3445555554 456788999942 1111 12333332
Q ss_pred hhhhhhhHh-HHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCC
Q 000883 514 PHLLRRVKK-DVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPD 592 (1238)
Q Consensus 514 p~~lRR~k~-dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~ 592 (1238)
.-+|-|.-+ |+. -+.-+.++.+.+... +....
T Consensus 223 dp~lVr~n~~d~~-L~GikQyv~~~~s~n-----------------------------nsvee----------------- 255 (980)
T KOG4284|consen 223 DPALVRFNADDVQ-LFGIKQYVVAKCSPN-----------------------------NSVEE----------------- 255 (980)
T ss_pred ccceeecccCCce-eechhheeeeccCCc-----------------------------chHHH-----------------
Confidence 222222222 220 011111111111100 00000
Q ss_pred ccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhc
Q 000883 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNA 672 (1238)
Q Consensus 593 ~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~ 672 (1238)
.--|++.|..++..+. -...||||....-.+-+.++|...|+.+..|.|.|+..+|..+++.+.+
T Consensus 256 -------------mrlklq~L~~vf~~ip--y~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~ 320 (980)
T KOG4284|consen 256 -------------MRLKLQKLTHVFKSIP--YVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRA 320 (980)
T ss_pred -------------HHHHHHHHHHHHhhCc--hHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhh
Confidence 1124444555554432 2357999999999999999999999999999999999999999999865
Q ss_pred CCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 673 KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 673 ~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
....+|+||+..+.||+-..++.||.+|++-+-..|.+|||||+|.|... ..|-.+
T Consensus 321 ---f~~rILVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~G-~aVT~~ 376 (980)
T KOG4284|consen 321 ---FRVRILVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHG-AAVTLL 376 (980)
T ss_pred ---ceEEEEEecchhhccCCccccceEEecCCCcchHHHHHHhhhcccccccc-eeEEEe
Confidence 34568999999999999999999999999999999999999999999654 444333
No 91
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=99.56 E-value=1.9e-15 Score=148.28 Aligned_cols=80 Identities=38% Similarity=0.703 Sum_probs=71.7
Q ss_pred CCCcCHHHHHHHHHHHHhhchhhHHHhhcCcccChhHHHHHhhCCCCccCCCCCCCCCCCCCCCCCCchhhhhcCCCCCC
Q 000883 1081 GKFWKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVICQELNLPFINLPVPGASSQAPNGANSANPEALQMQGNSTGN 1160 (1238)
Q Consensus 1081 ~~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~~l~l~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1160 (1238)
..+|+..||+|||.||..||||+|+.|.+||++.| +|.||.+....+
T Consensus 3 ~~iw~r~hdywll~gi~~hgy~rwqdi~nd~~f~I-------iNEPFk~e~~kg-------------------------- 49 (173)
T PF08074_consen 3 YEIWHRRHDYWLLAGIVKHGYGRWQDIQNDPRFAI-------INEPFKTESQKG-------------------------- 49 (173)
T ss_pred hhhhhhhhhHHHHhHHhhccchhHHHHhcCCceee-------eccccccccccc--------------------------
Confidence 46899999999999999999999999999999999 888887644333
Q ss_pred CcccccccCCCccchhhhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHhccC
Q 000883 1161 DSAAAGVQGTTDAANQAQVYQDSSVLYHFRDMQRRQVEFIKKRVLLLEKGLNAEYQKEYFVYS 1223 (1238)
Q Consensus 1161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1223 (1238)
+|-+|++| ||.+|++|||+||.+|.|+++.++.
T Consensus 50 ---------------------------nfle~KNk---FLaRRfKLLEQaLvIEEqLrRAa~l 82 (173)
T PF08074_consen 50 ---------------------------NFLEMKNK---FLARRFKLLEQALVIEEQLRRAAYL 82 (173)
T ss_pred ---------------------------chHHHHHH---HHHHHHHHHHHHHhhhccccchhhc
Confidence 57799999 9999999999999999999998553
No 92
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.56 E-value=4.9e-13 Score=163.14 Aligned_cols=93 Identities=20% Similarity=0.262 Sum_probs=75.2
Q ss_pred HHHHHHHHhhC--CCcEEEEeCCCCHHHH--HHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC---Ch-
Q 000883 637 LDLLEDYLTFK--KWQYERIDGKVGGAER--QIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW---NP- 708 (1238)
Q Consensus 637 ldiL~~~L~~~--g~~~~ridG~~~~~~R--~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW---Np- 708 (1238)
.+.+++.|... +.++.++|+.++...+ +.+++.|.++..+ +|++|...+.|+|++.++.|+++|.|- .|
T Consensus 271 te~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~---ILVgT~~i~kG~d~~~v~lV~vl~aD~~l~~pd 347 (505)
T TIGR00595 271 TEQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKAD---ILIGTQMIAKGHHFPNVTLVGVLDADSGLHSPD 347 (505)
T ss_pred HHHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCC---EEEeCcccccCCCCCcccEEEEEcCcccccCcc
Confidence 46677777654 7899999999876655 8899999876554 899999999999999999998887763 23
Q ss_pred --------hhhhHHHHHHhhhCCCCceEEEEE
Q 000883 709 --------HADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 709 --------~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
+.+.|+.||++|-+....|.|...
T Consensus 348 ~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~ 379 (505)
T TIGR00595 348 FRAAERGFQLLTQVAGRAGRAEDPGQVIIQTY 379 (505)
T ss_pred cchHHHHHHHHHHHHhccCCCCCCCEEEEEeC
Confidence 678999999999887777765443
No 93
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.55 E-value=3e-13 Score=170.46 Aligned_cols=158 Identities=18% Similarity=0.207 Sum_probs=110.8
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc-CCCcEE
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA-PQMNVV 362 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~-p~l~vv 362 (1238)
+|.|.|.+++.-. ...+.|++++.+||.|||+.|..++..-..++.++++-|||. ++..+=.++|.+|. -+++|.
T Consensus 31 el~~~qq~av~~~---~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~ 107 (766)
T COG1204 31 ELFNPQQEAVEKG---LLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLEELGIRVG 107 (766)
T ss_pred HhhHHHHHHhhcc---ccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHHhcCCEEE
Confidence 7999999998533 233899999999999999999877777666666799999995 77777888888443 278999
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhccc--CCCceeEEEecccccc
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASL--KPIKWQCMIVDEGHRL 440 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l--~~i~w~~vIvDEaHrl 440 (1238)
+++|+..... .....++|+|||||.+-.-.... -....++|||||+|-+
T Consensus 108 ~~TgD~~~~~-----------------------------~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l 158 (766)
T COG1204 108 ISTGDYDLDD-----------------------------ERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLL 158 (766)
T ss_pred EecCCcccch-----------------------------hhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeec
Confidence 9999876432 12357899999999885321111 1225689999999999
Q ss_pred cCc--ccH---HHHHHHhccc-ccEEEEecCCCCCCHHHHHH
Q 000883 441 KNK--DSK---LFSSLKQYST-RHRVLLTGTPLQNNLDELFM 476 (1238)
Q Consensus 441 KN~--~S~---~~~~l~~l~~-~~rllLTGTPlqNn~~EL~~ 476 (1238)
... +.- +...++.+.. -..++||||- .|..|+..
T Consensus 159 ~d~~RG~~lE~iv~r~~~~~~~~rivgLSATl--pN~~evA~ 198 (766)
T COG1204 159 GDRTRGPVLESIVARMRRLNELIRIVGLSATL--PNAEEVAD 198 (766)
T ss_pred CCcccCceehhHHHHHHhhCcceEEEEEeeec--CCHHHHHH
Confidence 765 111 1122222222 3568999994 34455444
No 94
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.55 E-value=5.8e-13 Score=166.00 Aligned_cols=130 Identities=18% Similarity=0.204 Sum_probs=112.4
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|...+.+-+..+.+.|..|||||.++...+.|..+|...|+++..++|.....+|+.+.+.|..+ .++|+|.
T Consensus 426 ~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G-----~VtIATN 500 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPG-----AVTIATN 500 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCC-----cEEEecc
Confidence 46789999999999999999999999999999999999999999999999999999999999999765 2799999
Q ss_pred ccccccCcCCC--------------------------------------CEEEEEcCCCChhhhhHHHHHHhhhCCCCce
Q 000883 686 AGGLGINLATA--------------------------------------DTVIIYDSDWNPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 686 agg~GINL~~A--------------------------------------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V 727 (1238)
.+|.|+++.=. =+||.-.-.-|...|.|..||++|.|..-..
T Consensus 501 mAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss 580 (896)
T PRK13104 501 MAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSS 580 (896)
T ss_pred CccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCce
Confidence 99999997621 2789899999999999999999999987665
Q ss_pred EEEEEecCCCHHHHHHHH
Q 000883 728 MIFRLITRGSIEERMMQM 745 (1238)
Q Consensus 728 ~VyrLvt~~TvEE~I~~~ 745 (1238)
..|- |+|..++.+
T Consensus 581 ~f~l-----SleD~l~~~ 593 (896)
T PRK13104 581 RFYL-----SLEDNLMRI 593 (896)
T ss_pred EEEE-----EcCcHHHHH
Confidence 5543 355555544
No 95
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.54 E-value=6.6e-13 Score=174.83 Aligned_cols=131 Identities=16% Similarity=0.169 Sum_probs=91.5
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC--c
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM--N 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l--~ 360 (1238)
..+.|.|..++..+ ..|.+.++..++|+|||..++.++..+... ...+|||+|+ .+..|+...|..++..+ .
T Consensus 77 ~~p~~iQ~~~i~~i----l~G~d~vi~ApTGsGKT~f~l~~~~~l~~~-g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~ 151 (1171)
T TIGR01054 77 SEPWSIQKMWAKRV----LRGDSFAIIAPTGVGKTTFGLAMSLFLAKK-GKRCYIILPTTLLVIQVAEKISSLAEKAGVG 151 (1171)
T ss_pred CCCcHHHHHHHHHH----hCCCeEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEeCHHHHHHHHHHHHHHHHHhcCCc
Confidence 35788999988655 578899999999999998665555544333 3479999996 66688999999887543 2
Q ss_pred E---EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEeccc
Q 000883 361 V---VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 361 v---v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEa 437 (1238)
+ ..|+|...........+- .....++|+|+|+..+......+.. .++++|||||
T Consensus 152 ~~~i~~~~Gg~~~~e~~~~~~~----------------------l~~~~~dIlV~Tp~rL~~~~~~l~~-~~~~iVvDEa 208 (1171)
T TIGR01054 152 TVNIGAYHSRLPTKEKKEFMER----------------------IENGDFDILITTTMFLSKNYDELGP-KFDFIFVDDV 208 (1171)
T ss_pred eeeeeeecCCCCHHHHHHHHHH----------------------HhcCCCCEEEECHHHHHHHHHHhcC-CCCEEEEeCh
Confidence 2 346675433221110000 0113589999999999876665554 7899999999
Q ss_pred ccccC
Q 000883 438 HRLKN 442 (1238)
Q Consensus 438 HrlKN 442 (1238)
|++-.
T Consensus 209 D~~L~ 213 (1171)
T TIGR01054 209 DALLK 213 (1171)
T ss_pred Hhhhh
Confidence 99854
No 96
>PRK09694 helicase Cas3; Provisional
Probab=99.53 E-value=1.1e-12 Score=166.81 Aligned_cols=357 Identities=16% Similarity=0.136 Sum_probs=191.6
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCC-ccHHHHHHHHHH----Hc
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPL-STLRNWEREFAT----WA 356 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~-sll~qW~~E~~~----~~ 356 (1238)
+..++|+|....+-. ..++..||-.+||.|||-.++.++..+...+ .+.+++..|. .+..+-...+.. .+
T Consensus 284 ~~~p~p~Q~~~~~~~----~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f 359 (878)
T PRK09694 284 GYQPRQLQTLVDALP----LQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLF 359 (878)
T ss_pred CCCChHHHHHHHhhc----cCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhc
Confidence 467999999774321 3466789999999999999999888776643 3588999996 455555555543 34
Q ss_pred CCCcEEEEEcChhHHHHHHHhhhc-CCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-----ccC--CCc
Q 000883 357 PQMNVVMYVGTSQARNIIREYEFY-FPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA-----SLK--PIK 428 (1238)
Q Consensus 357 p~l~vv~~~g~~~~r~~i~~~e~~-~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~-----~l~--~i~ 428 (1238)
++.++...||............-. .........................-.+|+|+|.+.+....- .++ .+.
T Consensus 360 ~~~~v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La 439 (878)
T PRK09694 360 PSPNLILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLG 439 (878)
T ss_pred CCCceEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhc
Confidence 566788888876432111110000 000000000000000000011112336899999988864211 111 122
Q ss_pred eeEEEecccccccCcccHH-HHHHHhcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHH
Q 000883 429 WQCMIVDEGHRLKNKDSKL-FSSLKQYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQI 505 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~S~~-~~~l~~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~ 505 (1238)
-.+|||||+|-+-...+.+ ...|..+. ....++||||+-..-..+|...+..-.+ ..
T Consensus 440 ~svvIiDEVHAyD~ym~~lL~~~L~~l~~~g~~vIllSATLP~~~r~~L~~a~~~~~~--~~------------------ 499 (878)
T PRK09694 440 RSVLIVDEVHAYDAYMYGLLEAVLKAQAQAGGSVILLSATLPATLKQKLLDTYGGHDP--VE------------------ 499 (878)
T ss_pred cCeEEEechhhCCHHHHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhccccc--cc------------------
Confidence 3589999999885433333 33333332 3468999999732211122111100000 00
Q ss_pred HHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccc
Q 000883 506 SRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM 585 (1238)
Q Consensus 506 ~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L 585 (1238)
.....|-.... +... . .. + .+..|+..
T Consensus 500 ------------------~~~~YPlvt~~------~~~~------~-------------~~---------~-~~~~~~~~ 526 (878)
T PRK09694 500 ------------------LSSAYPLITWR------GVNG------A-------------QR---------F-DLSAHPEQ 526 (878)
T ss_pred ------------------ccccccccccc------cccc------c-------------ee---------e-eccccccc
Confidence 00000000000 0000 0 00 0 00000000
Q ss_pred ccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCC---CcEEEEeCCCCHHH
Q 000883 586 LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKK---WQYERIDGKVGGAE 662 (1238)
Q Consensus 586 ~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g---~~~~ridG~~~~~~ 662 (1238)
... ........ ..+-.....-.++..++.. ...|++||||++.+.....+.+.|...+ +++..++|.++..+
T Consensus 527 ~~~--~~~v~v~~--~~~~~~~~~~~~l~~i~~~-~~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~d 601 (878)
T PRK09694 527 LPA--RFTIQLEP--ICLADMLPDLTLLQRMIAA-ANAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLND 601 (878)
T ss_pred cCc--ceEEEEEe--eccccccCHHHHHHHHHHH-HhcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHH
Confidence 000 00000000 0000000111223333333 3568999999999999999999998654 67999999999998
Q ss_pred H----HHHHHHHhcCCC-CceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCC
Q 000883 663 R----QIRIDRFNAKNS-SRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQT 724 (1238)
Q Consensus 663 R----~~~I~~Fn~~~s-~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~ 724 (1238)
| +++++.|...+. ....+||+|.+...|||+ .+|.+|....+ ...++|++||+||.|.+
T Consensus 602 R~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 602 RREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred HHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 8 467888943222 223589999999999999 57988886665 56899999999999874
No 97
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.52 E-value=5.5e-13 Score=147.93 Aligned_cols=313 Identities=18% Similarity=0.282 Sum_probs=206.2
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHH--HHHH-----hhCCCC-CeEEEeCCc-cHHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAF--LASL-----FGERIS-PHLVVAPLS-TLRNWEREFATW 355 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~--l~~l-----~~~~~~-p~LIVvP~s-ll~qW~~E~~~~ 355 (1238)
+..|-|-++ |= ..-+|..+|-...+|.|||+.-+.- +... +....+ ..||++|.. |-.|-+-|..++
T Consensus 242 KPtPIqSQa--WP--I~LQG~DliGVAQTgtgKtL~~L~pg~ihi~aqp~~~~qr~~p~~lvl~ptreLalqie~e~~ky 317 (629)
T KOG0336|consen 242 KPTPIQSQA--WP--ILLQGIDLIGVAQTGTGKTLAFLLPGFIHIDAQPKRREQRNGPGVLVLTPTRELALQIEGEVKKY 317 (629)
T ss_pred CCCcchhcc--cc--eeecCcceEEEEecCCCcCHHHhccceeeeeccchhhhccCCCceEEEeccHHHHHHHHhHHhHh
Confidence 456666655 42 2367889999999999999764321 1111 112334 578889964 445666776665
Q ss_pred c-CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEE
Q 000883 356 A-PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCM 432 (1238)
Q Consensus 356 ~-p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~v 432 (1238)
. ..+..++++|...-...+.+. ..+.+++|.|+..+... ...+..-...+|
T Consensus 318 syng~ksvc~ygggnR~eqie~l--------------------------krgveiiiatPgrlndL~~~n~i~l~siTYl 371 (629)
T KOG0336|consen 318 SYNGLKSVCVYGGGNRNEQIEDL--------------------------KRGVEIIIATPGRLNDLQMDNVINLASITYL 371 (629)
T ss_pred hhcCcceEEEecCCCchhHHHHH--------------------------hcCceEEeeCCchHhhhhhcCeeeeeeeEEE
Confidence 4 456666666655443333332 13678999999888653 223333345789
Q ss_pred EecccccccC--cccHHHHHHHhcccccEEE-EecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHH
Q 000883 433 IVDEGHRLKN--KDSKLFSSLKQYSTRHRVL-LTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLH 509 (1238)
Q Consensus 433 IvDEaHrlKN--~~S~~~~~l~~l~~~~rll-LTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~ 509 (1238)
|+|||.++.. ...++.+.|..++..+-.. -|||- + +.
T Consensus 372 VlDEADrMLDMgFEpqIrkilldiRPDRqtvmTSATW-P----------------------------------~~----- 411 (629)
T KOG0336|consen 372 VLDEADRMLDMGFEPQIRKILLDIRPDRQTVMTSATW-P----------------------------------EG----- 411 (629)
T ss_pred EecchhhhhcccccHHHHHHhhhcCCcceeeeecccC-c----------------------------------hH-----
Confidence 9999999965 4568888898888766544 45663 1 11
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEecc---CCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccc
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVE---LSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML 586 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~---ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~ 586 (1238)
+||+....++ ...+++|. |... . + .++. ++
T Consensus 412 -------VrrLa~sY~K-----ep~~v~vGsLdL~a~------------------~-----s-------VkQ~----i~- 444 (629)
T KOG0336|consen 412 -------VRRLAQSYLK-----EPMIVYVGSLDLVAV------------------K-----S-------VKQN----II- 444 (629)
T ss_pred -------HHHHHHHhhh-----CceEEEecccceeee------------------e-----e-------eeee----EE-
Confidence 1222211111 11122221 1100 0 0 0000 00
Q ss_pred cCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHH
Q 000883 587 EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIR 666 (1238)
Q Consensus 587 ~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~ 666 (1238)
.-..+.|+..+..++..+ ....|||||+....+.|-|..-|...|+...-++|.-...+|+.+
T Consensus 445 ----------------v~~d~~k~~~~~~f~~~m-s~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~a 507 (629)
T KOG0336|consen 445 ----------------VTTDSEKLEIVQFFVANM-SSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMA 507 (629)
T ss_pred ----------------ecccHHHHHHHHHHHHhc-CCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHH
Confidence 001244555555555443 457899999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
++.|.. +.+.+|++|..++.||+++...+|+.||.+-|-..|.+++||.+|.|.+-.- .-|++.+
T Consensus 508 l~~~ks---G~vrILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~s--is~lt~~ 572 (629)
T KOG0336|consen 508 LEDFKS---GEVRILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGTS--ISFLTRN 572 (629)
T ss_pred HHhhhc---CceEEEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcce--EEEEehh
Confidence 999965 5566999999999999999999999999999999999999999999976432 2344544
No 98
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.52 E-value=3.2e-13 Score=149.00 Aligned_cols=337 Identities=18% Similarity=0.273 Sum_probs=202.7
Q ss_pred CCcccccccCCCCCCCCC------CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHH-HHHHHhhCCCC-CeEE
Q 000883 267 KPKEFQQYEHSPEFLSGG------SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIA-FLASLFGERIS-PHLV 338 (1238)
Q Consensus 267 ~~~~~~~~~~~P~~~~~~------~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia-~l~~l~~~~~~-p~LI 338 (1238)
..+.|..+.-.|..+.|. ....-|..++-.| +....+|.|--...|+|||...+. .|...-..... -.+.
T Consensus 88 S~ksFeeL~LkPellkgly~M~F~kPskIQe~aLPll--l~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~~~~PQ~iC 165 (477)
T KOG0332|consen 88 SAKSFEELRLKPELLKGLYAMKFQKPSKIQETALPLL--LAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPDVVVPQCIC 165 (477)
T ss_pred ccccHHhhCCCHHHHhHHHHhccCCcchHHHhhcchh--hcCCchhhhhhhcCCCchhHHHHHHHHHhcCccccCCCcee
Confidence 346788888888877652 3444666666544 334567778788999999965322 22221111112 3466
Q ss_pred EeCC-ccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHH
Q 000883 339 VAPL-STLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMI 417 (1238)
Q Consensus 339 VvP~-sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l 417 (1238)
++|. .+..|-..-+.+...-..+..-+.-+.++. .+.....-+|+|-|..++
T Consensus 166 LaPtrELA~Q~~eVv~eMGKf~~ita~yair~sk~---------------------------~rG~~i~eqIviGTPGtv 218 (477)
T KOG0332|consen 166 LAPTRELAPQTGEVVEEMGKFTELTASYAIRGSKA---------------------------KRGNKLTEQIVIGTPGTV 218 (477)
T ss_pred eCchHHHHHHHHHHHHHhcCceeeeEEEEecCccc---------------------------ccCCcchhheeeCCCccH
Confidence 6996 455555444444332112222111111100 011234567999999998
Q ss_pred HhhhcccCCC---ceeEEEecccccccCccc---HHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChH
Q 000883 418 NLDSASLKPI---KWQCMIVDEGHRLKNKDS---KLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLE 490 (1238)
Q Consensus 418 ~~d~~~l~~i---~w~~vIvDEaHrlKN~~S---~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~ 490 (1238)
......|+.+ +..++++|||..+-+... ...+..+.+. ....++.|||-. + ...
T Consensus 219 ~Dlm~klk~id~~kikvfVlDEAD~Mi~tqG~~D~S~rI~~~lP~~~QllLFSATf~----e---------------~V~ 279 (477)
T KOG0332|consen 219 LDLMLKLKCIDLEKIKVFVLDEADVMIDTQGFQDQSIRIMRSLPRNQQLLLFSATFV----E---------------KVA 279 (477)
T ss_pred HHHHHHHHhhChhhceEEEecchhhhhhcccccccchhhhhhcCCcceEEeeechhH----H---------------HHH
Confidence 7765554443 457899999998766542 1222233333 456678888831 0 000
Q ss_pred HHHHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHH
Q 000883 491 EFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLI 570 (1238)
Q Consensus 491 ~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~ 570 (1238)
.|...+ -.--.+.+|||- ++ .|++..+..+-
T Consensus 280 ~Fa~ki------------vpn~n~i~Lk~e--el--~L~~IkQlyv~--------------------------------- 310 (477)
T KOG0332|consen 280 AFALKI------------VPNANVIILKRE--EL--ALDNIKQLYVL--------------------------------- 310 (477)
T ss_pred HHHHHh------------cCCCceeeeehh--hc--cccchhhheee---------------------------------
Confidence 010000 000011122110 00 12222222221
Q ss_pred HHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCc
Q 000883 571 NVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQ 650 (1238)
Q Consensus 571 ~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~ 650 (1238)
|.+ ...|+.+|..+. .+..-| ..||||+-..+...|...|...|+.
T Consensus 311 ---------C~~-----------------------~~~K~~~l~~ly-g~~tig-qsiIFc~tk~ta~~l~~~m~~~Gh~ 356 (477)
T KOG0332|consen 311 ---------CAC-----------------------RDDKYQALVNLY-GLLTIG-QSIIFCHTKATAMWLYEEMRAEGHQ 356 (477)
T ss_pred ---------ccc-----------------------hhhHHHHHHHHH-hhhhhh-heEEEEeehhhHHHHHHHHHhcCce
Confidence 211 123555555533 233323 6799999999999999999999999
Q ss_pred EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC------ChhhhhHHHHHHhhhCCC
Q 000883 651 YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW------NPHADLQAMARAHRLGQT 724 (1238)
Q Consensus 651 ~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW------Np~~~~Qa~gR~hRiGQ~ 724 (1238)
+..++|.+...+|..+|++|..+.+. +|++|.+++.||+.+..+.||.||.+- .|..|++|+||.+|.|.+
T Consensus 357 V~~l~G~l~~~~R~~ii~~Fr~g~~k---VLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkk 433 (477)
T KOG0332|consen 357 VSLLHGDLTVEQRAAIIDRFREGKEK---VLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKK 433 (477)
T ss_pred eEEeeccchhHHHHHHHHHHhcCcce---EEEEechhhcccccceEEEEEecCCccccCCCCCHHHHHHHhccccccccc
Confidence 99999999999999999999886654 899999999999999999999999864 578999999999999964
Q ss_pred CceEEEEEe-cCCCHH
Q 000883 725 NKVMIFRLI-TRGSIE 739 (1238)
Q Consensus 725 k~V~VyrLv-t~~TvE 739 (1238)
. +.| .|+ .+++.+
T Consensus 434 G-~a~-n~v~~~~s~~ 447 (477)
T KOG0332|consen 434 G-LAI-NLVDDKDSMN 447 (477)
T ss_pred c-eEE-EeecccCcHH
Confidence 3 333 354 344443
No 99
>PRK14701 reverse gyrase; Provisional
Probab=99.51 E-value=1.5e-12 Score=174.56 Aligned_cols=336 Identities=15% Similarity=0.218 Sum_probs=185.8
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcC----C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAP----Q 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p----~ 358 (1238)
.++++.|..++..+ ..+++.++..+||+|||+..+..+..+ ......+|||+|+ .++.|....|..++. +
T Consensus 78 ~~pt~iQ~~~i~~i----l~G~d~li~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~ 152 (1638)
T PRK14701 78 FEFWSIQKTWAKRI----LRGKSFSIVAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEKIESFCEKANLD 152 (1638)
T ss_pred CCCCHHHHHHHHHH----HcCCCEEEEEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCc
Confidence 35789999998765 567899999999999998433222222 2222379999996 667888899988764 3
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
.++..++|...........+- .....++|+|+|++.+......+....+++|||||||
T Consensus 153 v~v~~~~g~~s~~e~~~~~~~----------------------l~~g~~dILV~TPgrL~~~~~~l~~~~i~~iVVDEAD 210 (1638)
T PRK14701 153 VRLVYYHSNLRKKEKEEFLER----------------------IENGDFDILVTTAQFLARNFPEMKHLKFDFIFVDDVD 210 (1638)
T ss_pred eeEEEEeCCCCHHHHHHHHHH----------------------HhcCCCCEEEECCchhHHhHHHHhhCCCCEEEEECce
Confidence 466777777543322111000 0123588999999988754443333568999999999
Q ss_pred cccCcccHHHHHHHhcccccEEEEecCCCCCCHHHHHH-HHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhchhhh
Q 000883 439 RLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFM-LMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLL 517 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~-ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~l 517 (1238)
++-.. ++....+ |-|-|- ..|+.. .+..+......+. ....+.+..|...+.
T Consensus 211 ~ml~~-~knid~~--------L~llGF-----~~e~~~~~~~il~~~~~~~~---------~~~~~~~~~l~~~~~---- 263 (1638)
T PRK14701 211 AFLKA-SKNIDRS--------LQLLGF-----YEEIIEKAWKIIYLKKQGNI---------EDAMEKREILNKEIE---- 263 (1638)
T ss_pred ecccc-ccccchh--------hhcCCC-----hHHHHHHHHHhhhccccccc---------chhhhhhhhhhhhhh----
Confidence 98431 1100000 000000 011110 0111100000000 000112223322221
Q ss_pred hhhHhHHhhcCCCcEEEE--EeccCCHHHHHHHHHHHHHHHHHHHhc-CCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 518 RRVKKDVMKELPPKKELI--LRVELSSKQKEYYKAILTRNYQILTRR-GGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 518 RR~k~dv~~~LP~k~e~~--v~v~ls~~Q~~~Y~~il~~~~~~l~~~-~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
.+|...... ....+++... ...++.. .+.-. +..... ++.+ .|.|...
T Consensus 264 ---------~~~~~~~~ll~~SAT~~~r~~--~~~l~~~---~l~f~v~~~~~~-------lr~i-~~~yi~~------- 314 (1638)
T PRK14701 264 ---------KIGNKIGCLIVASATGKAKGD--RVKLYRE---LLGFEVGSGRSA-------LRNI-VDVYLNP------- 314 (1638)
T ss_pred ---------hcCCCccEEEEEecCCCchhH--HHHHhhc---CeEEEecCCCCC-------CCCc-EEEEEEC-------
Confidence 122222222 2233332111 1111110 00000 000000 0000 1111110
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhH---HHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHh
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHM---LDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFN 671 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~---ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn 671 (1238)
....| ..|..++..+ |..+|||++.... ++.|..+|...|+++..++|. |..++++|.
T Consensus 315 ----------~~~~k-~~L~~ll~~~---g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~ 375 (1638)
T PRK14701 315 ----------EKIIK-EHVRELLKKL---GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFE 375 (1638)
T ss_pred ----------CHHHH-HHHHHHHHhC---CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHH
Confidence 01112 2344555543 6789999987654 589999999999999999984 899999998
Q ss_pred cCCCCceEEEeecc----ccccccCcCC-CCEEEEEcCCC---ChhhhhH-------------HHHHHhhhCCC
Q 000883 672 AKNSSRFCFLLSTR----AGGLGINLAT-ADTVIIYDSDW---NPHADLQ-------------AMARAHRLGQT 724 (1238)
Q Consensus 672 ~~~s~~~v~LlStr----agg~GINL~~-Ad~VIi~D~dW---Np~~~~Q-------------a~gR~hRiGQ~ 724 (1238)
++... +|++|. .++.|||++. ..+||+||.|- |...+.| ..+|+.|-|..
T Consensus 376 ~G~~~---VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 376 EGEID---YLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred cCCCC---EEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 86665 788884 6889999998 99999999987 5554444 45999988853
No 100
>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=99.50 E-value=1.7e-12 Score=165.28 Aligned_cols=109 Identities=17% Similarity=0.180 Sum_probs=91.7
Q ss_pred cCCeEEEEecchhHHHHHHHHHhh---CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTF---KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~---~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~V 699 (1238)
.+.++|||......++.+...|.. .++.+..++|+++.++|..+++.|..+ ..-+|++|..++.||+++.+++|
T Consensus 208 ~~g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G---~rkVlVATnIAErgItIp~V~~V 284 (819)
T TIGR01970 208 ETGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQG---RRKVVLATNIAETSLTIEGIRVV 284 (819)
T ss_pred cCCcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccC---CeEEEEecchHhhcccccCceEE
Confidence 356899999999999989888876 478999999999999999999999653 33489999999999999999999
Q ss_pred EEEcCC----CChhh--------------hhHHHHHHhhhCCCCceEEEEEecCCC
Q 000883 700 IIYDSD----WNPHA--------------DLQAMARAHRLGQTNKVMIFRLITRGS 737 (1238)
Q Consensus 700 Ii~D~d----WNp~~--------------~~Qa~gR~hRiGQ~k~V~VyrLvt~~T 737 (1238)
|.++.. +||.. ..||.||++|. ++-.+|+|+++..
T Consensus 285 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 285 IDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred EEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 998864 56655 57888888886 5778999998653
No 101
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.50 E-value=1.3e-11 Score=135.44 Aligned_cols=312 Identities=18% Similarity=0.200 Sum_probs=209.3
Q ss_pred CCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCC
Q 000883 280 FLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQ 358 (1238)
Q Consensus 280 ~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~ 358 (1238)
...+|+|.|+|..+.+-+...+.+....|+..-+|.|||-+....+...++.+ +.+.|..|. .++..-...+..-+++
T Consensus 92 L~W~G~Ls~~Q~~as~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~al~~G-~~vciASPRvDVclEl~~Rlk~aF~~ 170 (441)
T COG4098 92 LQWKGTLSPGQKKASNQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQALNQG-GRVCIASPRVDVCLELYPRLKQAFSN 170 (441)
T ss_pred eeeccccChhHHHHHHHHHHHHHhcCcEEEEEecCCCchhhhHHHHHHHHhcC-CeEEEecCcccchHHHHHHHHHhhcc
Confidence 34579999999999999999999999999999999999988877777776654 589999994 6666667777887888
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCcccccccccccccc-EEEecHHHHHhhhcccCCCceeEEEeccc
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFD-VLLTSYEMINLDSASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fd-VvItSye~l~~d~~~l~~i~w~~vIvDEa 437 (1238)
..+...+|+..... ..+ ||-||++.++- . -.|+++||||+
T Consensus 171 ~~I~~Lyg~S~~~f---------------------------------r~plvVaTtHQLlrF-k-----~aFD~liIDEV 211 (441)
T COG4098 171 CDIDLLYGDSDSYF---------------------------------RAPLVVATTHQLLRF-K-----QAFDLLIIDEV 211 (441)
T ss_pred CCeeeEecCCchhc---------------------------------cccEEEEehHHHHHH-H-----hhccEEEEecc
Confidence 88999988875421 122 55666666542 2 24799999999
Q ss_pred ccccC-cccHHHHHHHhcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 438 HRLKN-KDSKLFSSLKQYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 438 HrlKN-~~S~~~~~l~~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
.-+-= .+-.+..+++.-. ...++.|||||-..-.. +-++.-+.+
T Consensus 212 DAFP~~~d~~L~~Av~~ark~~g~~IylTATp~k~l~r---------------------------------~~~~g~~~~ 258 (441)
T COG4098 212 DAFPFSDDQSLQYAVKKARKKEGATIYLTATPTKKLER---------------------------------KILKGNLRI 258 (441)
T ss_pred ccccccCCHHHHHHHHHhhcccCceEEEecCChHHHHH---------------------------------HhhhCCeeE
Confidence 98742 2334555555443 34689999999210000 001111111
Q ss_pred h-hhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 515 H-LLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 515 ~-~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
. +-+|.- .+.||-.....+ . ..-+. +
T Consensus 259 ~klp~RfH---~~pLpvPkf~w~--~--~~~k~--------------------------l-------------------- 285 (441)
T COG4098 259 LKLPARFH---GKPLPVPKFVWI--G--NWNKK--------------------------L-------------------- 285 (441)
T ss_pred eecchhhc---CCCCCCCceEEe--c--cHHHH--------------------------h--------------------
Confidence 1 111111 123332222221 1 10000 0
Q ss_pred cchHHHHHHHHhhhhHHH-HHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCC-CCHHHHHHHHHHHh
Q 000883 594 EDTNESFKQLLESSGKLQ-LLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGK-VGGAERQIRIDRFN 671 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~-~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~-~~~~~R~~~I~~Fn 671 (1238)
.-+|+. .|...|++....|..||||...+.+++-+...|+. ++++..+..- .....|.+.+..|.
T Consensus 286 ------------~r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~-~~~~~~i~~Vhs~d~~R~EkV~~fR 352 (441)
T COG4098 286 ------------QRNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKK-KLPKETIASVHSEDQHRKEKVEAFR 352 (441)
T ss_pred ------------hhccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHh-hCCccceeeeeccCccHHHHHHHHH
Confidence 011222 35667777788899999999999999999999853 4454443321 12367899999998
Q ss_pred cCCCCceEEEeeccccccccCcCCCCEEEEEcCC--CChhhhhHHHHHHhhhCCCCceEEEEEe
Q 000883 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSD--WNPHADLQAMARAHRLGQTNKVMIFRLI 733 (1238)
Q Consensus 672 ~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~d--WNp~~~~Qa~gR~hRiGQ~k~V~VyrLv 733 (1238)
++. +-+|++|..+..|++++..|++++=.-. +.-+..+|.-||++|--....-.|+.|-
T Consensus 353 ~G~---~~lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH 413 (441)
T COG4098 353 DGK---ITLLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFH 413 (441)
T ss_pred cCc---eEEEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEe
Confidence 754 4489999999999999999999886655 8899999999999997655444444444
No 102
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.50 E-value=2.1e-12 Score=161.11 Aligned_cols=130 Identities=18% Similarity=0.230 Sum_probs=110.0
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..|.+.+..+...|..|||||..+...+.|...|...|+++..++|. ..+|++.|..|..... .++|+|.
T Consensus 412 ~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g---~VtIATN 486 (830)
T PRK12904 412 EKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGRPG---AVTIATN 486 (830)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCCCc---eEEEecc
Confidence 4568999999999988999999999999999999999999999999999996 6789999999965443 4899999
Q ss_pred ccccccCcCCC--------------------------------------CEEEEEcCCCChhhhhHHHHHHhhhCCCCce
Q 000883 686 AGGLGINLATA--------------------------------------DTVIIYDSDWNPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 686 agg~GINL~~A--------------------------------------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V 727 (1238)
.+|.|+|+.-. =+||.-..+=|...+.|..||++|.|..-..
T Consensus 487 mAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss 566 (830)
T PRK12904 487 MAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSS 566 (830)
T ss_pred cccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCce
Confidence 99999998643 2788889899999999999999999988666
Q ss_pred EEEEEecCCCHHHHHHHH
Q 000883 728 MIFRLITRGSIEERMMQM 745 (1238)
Q Consensus 728 ~VyrLvt~~TvEE~I~~~ 745 (1238)
..|- |+|..++.+
T Consensus 567 ~f~l-----SleD~l~~~ 579 (830)
T PRK12904 567 RFYL-----SLEDDLMRI 579 (830)
T ss_pred eEEE-----EcCcHHHHh
Confidence 5543 345555543
No 103
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.50 E-value=1.3e-12 Score=162.20 Aligned_cols=118 Identities=17% Similarity=0.158 Sum_probs=101.3
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|...|.+.+....+.|..|||||..+...+.|...|...|+++..++|.....+++.+...+.. + .++|+|.
T Consensus 422 ~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~---g--~VtIATn 496 (796)
T PRK12906 422 LDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQR---G--AVTIATN 496 (796)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCC---c--eEEEEec
Confidence 3568889999998888899999999999999999999999999999999999875555554444432 2 3799999
Q ss_pred ccccccCcC---CCC-----EEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 686 AGGLGINLA---TAD-----TVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 686 agg~GINL~---~Ad-----~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
.+|.|+++. .+. +||.++.+-|+..+.|+.||++|.|..-...
T Consensus 497 mAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~ 547 (796)
T PRK12906 497 MAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSSR 547 (796)
T ss_pred cccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcceE
Confidence 999999995 566 9999999999999999999999999876553
No 104
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.47 E-value=1.1e-13 Score=149.43 Aligned_cols=301 Identities=19% Similarity=0.231 Sum_probs=198.3
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCC-CCeEEEeCCccH----HHHHHHHHHHcCCC
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERI-SPHLVVAPLSTL----RNWEREFATWAPQM 359 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~-~p~LIVvP~sll----~qW~~E~~~~~p~l 359 (1238)
..|.|.+++--. -.|++.+.-.--|+|||-.. |-.+..+-.... --.+|+||.--+ +|-..++.++. ++
T Consensus 108 PSPiQeesIPia----LtGrdiLaRaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ilVPtrelALQtSqvc~~lskh~-~i 182 (459)
T KOG0326|consen 108 PSPIQEESIPIA----LTGRDILARAKNGTGKTAAYCIPVLEKIDPKKNVIQAIILVPTRELALQTSQVCKELSKHL-GI 182 (459)
T ss_pred CCCcccccccee----ecchhhhhhccCCCCCccceechhhhhcCccccceeEEEEeecchhhHHHHHHHHHHhccc-Ce
Confidence 445555554211 23444444456799999653 333333322221 267999996433 56778888887 58
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCceeEEEeccc
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIVDEG 437 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w~~vIvDEa 437 (1238)
.|.+-.|....|..|.. -....|++|.|+..+..-.. .-.--+..++|+|||
T Consensus 183 ~vmvttGGT~lrDDI~R--------------------------l~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEA 236 (459)
T KOG0326|consen 183 KVMVTTGGTSLRDDIMR--------------------------LNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEA 236 (459)
T ss_pred EEEEecCCcccccceee--------------------------ecCceEEEEcCChhHHHHHhcccccchhceEEEechh
Confidence 88888888766654322 12467899999988864321 111224568999999
Q ss_pred ccccCccc--HHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 438 HRLKNKDS--KLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 438 HrlKN~~S--~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
..+.+..- .+.+.+..+. .+..+|.|||-- . ....|...|- -+|
T Consensus 237 DKlLs~~F~~~~e~li~~lP~~rQillySATFP-~------------------tVk~Fm~~~l--------------~kP 283 (459)
T KOG0326|consen 237 DKLLSVDFQPIVEKLISFLPKERQILLYSATFP-L------------------TVKGFMDRHL--------------KKP 283 (459)
T ss_pred hhhhchhhhhHHHHHHHhCCccceeeEEecccc-h------------------hHHHHHHHhc--------------cCc
Confidence 98876442 2333344443 445677787730 0 1112222110 011
Q ss_pred hhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 515 HLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
+ ++.+.-+|+..-
T Consensus 284 y-----------------~INLM~eLtl~G-------------------------------------------------- 296 (459)
T KOG0326|consen 284 Y-----------------EINLMEELTLKG-------------------------------------------------- 296 (459)
T ss_pred c-----------------eeehhhhhhhcc--------------------------------------------------
Confidence 1 111111111100
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCC
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKN 674 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~ 674 (1238)
-..+-..+..+-|+..|.-++.+|.- ...||||+.+...++|+..+...||++..++..|..+.|..+..+|.++.
T Consensus 297 --vtQyYafV~e~qKvhCLntLfskLqI--NQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~ 372 (459)
T KOG0326|consen 297 --VTQYYAFVEERQKVHCLNTLFSKLQI--NQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGK 372 (459)
T ss_pred --hhhheeeechhhhhhhHHHHHHHhcc--cceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccc
Confidence 00112234566788888888887643 47899999999999999999999999999999999999999999998754
Q ss_pred CCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCC
Q 000883 675 SSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQT 724 (1238)
Q Consensus 675 s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~ 724 (1238)
- .-|++|+..-.||+.++.++||.||.+-|+..|+.++||.+|.|--
T Consensus 373 c---rnLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhl 419 (459)
T KOG0326|consen 373 C---RNLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHL 419 (459)
T ss_pred c---ceeeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCc
Confidence 3 3799999999999999999999999999999999999999999954
No 105
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.46 E-value=4.6e-12 Score=157.54 Aligned_cols=130 Identities=20% Similarity=0.239 Sum_probs=111.1
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|...+.+-+..+.+.|..|||||..+...+.|..+|...|+++..+++.....+|..+.+.|+.+. ++|+|.
T Consensus 431 ~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~-----VtIATn 505 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA-----VTIATN 505 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc-----EEEecC
Confidence 467888898889999999999999999999999999999999999999999999999999999997643 799999
Q ss_pred ccccccCcCCC-------------------------------------CEEEEEcCCCChhhhhHHHHHHhhhCCCCceE
Q 000883 686 AGGLGINLATA-------------------------------------DTVIIYDSDWNPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 686 agg~GINL~~A-------------------------------------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
.+|.|+|+.=. =+||.-...=|...|.|..||++|.|..-...
T Consensus 506 mAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~ 585 (908)
T PRK13107 506 MAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSR 585 (908)
T ss_pred CcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCcee
Confidence 99999997622 27899999999999999999999999876554
Q ss_pred EEEEecCCCHHHHHHHH
Q 000883 729 IFRLITRGSIEERMMQM 745 (1238)
Q Consensus 729 VyrLvt~~TvEE~I~~~ 745 (1238)
.|- |+|..++.+
T Consensus 586 f~l-----SlED~L~r~ 597 (908)
T PRK13107 586 FYL-----SMEDSLMRI 597 (908)
T ss_pred EEE-----EeCcHHHHH
Confidence 433 345555543
No 106
>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=99.46 E-value=9.4e-14 Score=126.31 Aligned_cols=78 Identities=35% Similarity=0.570 Sum_probs=73.8
Q ss_pred HHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhh
Q 000883 642 DYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 642 ~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRi 721 (1238)
.+|+..|+.+..++|.++..+|+.+++.|+.+.. .+|++|.++++|||++.+++||+++++||+..+.|++||++|.
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~---~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~ 77 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEI---RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRI 77 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSS---SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCc---eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCC
Confidence 3688899999999999999999999999998766 3899999999999999999999999999999999999999998
Q ss_pred C
Q 000883 722 G 722 (1238)
Q Consensus 722 G 722 (1238)
|
T Consensus 78 g 78 (78)
T PF00271_consen 78 G 78 (78)
T ss_dssp T
T ss_pred C
Confidence 7
No 107
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.45 E-value=2.1e-12 Score=149.09 Aligned_cols=314 Identities=20% Similarity=0.281 Sum_probs=207.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCCCeEEEeCCccHHH-HHHHHHHHcCC--C
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERISPHLVVAPLSTLRN-WEREFATWAPQ--M 359 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~p~LIVvP~sll~q-W~~E~~~~~p~--l 359 (1238)
.+|.|-|.-+|.. ..-.|.+-++...+++|||+++ +|-+..++.. .+++|.+||+-.+.| =.++|..-+.. +
T Consensus 215 ~eLlPVQ~laVe~---GLLeG~nllVVSaTasGKTLIgElAGi~~~l~~-g~KmlfLvPLVALANQKy~dF~~rYs~Lgl 290 (830)
T COG1202 215 EELLPVQVLAVEA---GLLEGENLLVVSATASGKTLIGELAGIPRLLSG-GKKMLFLVPLVALANQKYEDFKERYSKLGL 290 (830)
T ss_pred ceecchhhhhhhh---ccccCCceEEEeccCCCcchHHHhhCcHHHHhC-CCeEEEEehhHHhhcchHHHHHHHhhcccc
Confidence 4699999998853 3468899999999999999976 5555555443 358999999866654 45667654433 4
Q ss_pred cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh---hcccCCCceeEEEecc
Q 000883 360 NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD---SASLKPIKWQCMIVDE 436 (1238)
Q Consensus 360 ~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d---~~~l~~i~w~~vIvDE 436 (1238)
.+-+-.|...-+. .+ . +.......+.||+|-||+-+--. ...+. +...|||||
T Consensus 291 kvairVG~srIk~----~~---------------~---pv~~~t~~dADIIVGTYEGiD~lLRtg~~lg--diGtVVIDE 346 (830)
T COG1202 291 KVAIRVGMSRIKT----RE---------------E---PVVVDTSPDADIIVGTYEGIDYLLRTGKDLG--DIGTVVIDE 346 (830)
T ss_pred eEEEEechhhhcc----cC---------------C---ccccCCCCCCcEEEeechhHHHHHHcCCccc--ccceEEeee
Confidence 4445555543221 00 0 01112346889999999987432 22333 456899999
Q ss_pred cccccCc--ccH---HHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHH
Q 000883 437 GHRLKNK--DSK---LFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHR 510 (1238)
Q Consensus 437 aHrlKN~--~S~---~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~ 510 (1238)
.|.+... .+. +...|+.+. ....+.||||- .|+.||...|+.-
T Consensus 347 iHtL~deERG~RLdGLI~RLr~l~~~AQ~i~LSATV--gNp~elA~~l~a~----------------------------- 395 (830)
T COG1202 347 IHTLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATV--GNPEELAKKLGAK----------------------------- 395 (830)
T ss_pred eeeccchhcccchhhHHHHHHHhCCCCeEEEEEeec--CChHHHHHHhCCe-----------------------------
Confidence 9999752 233 333344443 36779999995 5566655443310
Q ss_pred hhchhhhhhhHhHHhhcCC-CcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 511 MLAPHLLRRVKKDVMKELP-PKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 511 ~L~p~~lRR~k~dv~~~LP-~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
++.. ..-| |...+.+++.=.
T Consensus 396 -----lV~y------~~RPVplErHlvf~~~e------------------------------------------------ 416 (830)
T COG1202 396 -----LVLY------DERPVPLERHLVFARNE------------------------------------------------ 416 (830)
T ss_pred -----eEee------cCCCCChhHeeeeecCc------------------------------------------------
Confidence 0000 0001 122223322211
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHH----HcC--CeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLK----EQG--HRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAER 663 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~----~~g--~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R 663 (1238)
+.|..++.++.+.-. ..| -.+|||+.+.+-...|+++|..+|++..-++++++-.+|
T Consensus 417 -----------------~eK~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eR 479 (830)
T COG1202 417 -----------------SEKWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKER 479 (830)
T ss_pred -----------------hHHHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHH
Confidence 112222222222111 112 369999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEE----EcCCC-ChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 664 QIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII----YDSDW-NPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 664 ~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi----~D~dW-Np~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
+.+-..|.+..-. .+++|.|+|-|+++++. .||| +-.+| +|+.+.|..|||+|.|=...-.||-++-.|
T Consensus 480 k~vE~~F~~q~l~---~VVTTAAL~AGVDFPAS-QVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 480 KSVERAFAAQELA---AVVTTAALAAGVDFPAS-QVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred HHHHHHHhcCCcc---eEeehhhhhcCCCCchH-HHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 9999999875544 78999999999999974 4544 33344 999999999999999988888888888655
No 108
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.45 E-value=1.8e-11 Score=154.49 Aligned_cols=325 Identities=17% Similarity=0.214 Sum_probs=215.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCC--ceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHH-HHHHHHHcCCCc
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQT--HVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNW-EREFATWAPQMN 360 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~--~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW-~~E~~~~~p~l~ 360 (1238)
.+-.|-|+.+++-+..=..++. .-+||-++|.|||=.|+=.+-..... .+-+.|+||+.+|.+. .+.|..-+-++.
T Consensus 593 yeET~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~-GKQVAvLVPTTlLA~QHy~tFkeRF~~fP 671 (1139)
T COG1197 593 YEETPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKAVMD-GKQVAVLVPTTLLAQQHYETFKERFAGFP 671 (1139)
T ss_pred CcCCHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHHhcC-CCeEEEEcccHHhHHHHHHHHHHHhcCCC
Confidence 4677899999998866666554 46999999999998775333222222 2578999999888543 444554444555
Q ss_pred EEEE-----EcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEec
Q 000883 361 VVMY-----VGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVD 435 (1238)
Q Consensus 361 vv~~-----~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvD 435 (1238)
|-+- .+.+..+..+... ...+.||||-|+..+.++..+- +-.+||||
T Consensus 672 V~I~~LSRF~s~kE~~~il~~l-------------------------a~G~vDIvIGTHrLL~kdv~Fk---dLGLlIID 723 (1139)
T COG1197 672 VRIEVLSRFRSAKEQKEILKGL-------------------------AEGKVDIVIGTHRLLSKDVKFK---DLGLLIID 723 (1139)
T ss_pred eeEEEecccCCHHHHHHHHHHH-------------------------hcCCccEEEechHhhCCCcEEe---cCCeEEEe
Confidence 5442 2333333333321 2368899999999998765543 34699999
Q ss_pred ccccccCcccHHHHHHHhcccc-cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 436 EGHRLKNKDSKLFSSLKQYSTR-HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 436 EaHrlKN~~S~~~~~l~~l~~~-~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
|=||+.= +.-..|+.++++ +.|-|||||++-.+.= +| . .+..|
T Consensus 724 EEqRFGV---k~KEkLK~Lr~~VDvLTLSATPIPRTL~M--sm-----~--------------------GiRdl------ 767 (1139)
T COG1197 724 EEQRFGV---KHKEKLKELRANVDVLTLSATPIPRTLNM--SL-----S--------------------GIRDL------ 767 (1139)
T ss_pred chhhcCc---cHHHHHHHHhccCcEEEeeCCCCcchHHH--HH-----h--------------------cchhh------
Confidence 9999843 334567777655 7899999998766310 00 0 00000
Q ss_pred hhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCcc
Q 000883 515 HLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIE 594 (1238)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~ 594 (1238)
..-.-||.....|..-..+..-...+
T Consensus 768 ---------SvI~TPP~~R~pV~T~V~~~d~~~ir--------------------------------------------- 793 (1139)
T COG1197 768 ---------SVIATPPEDRLPVKTFVSEYDDLLIR--------------------------------------------- 793 (1139)
T ss_pred ---------hhccCCCCCCcceEEEEecCChHHHH---------------------------------------------
Confidence 01134555544443322221111110
Q ss_pred chHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC--CCcEEEEeCCCCHHHHHHHHHHHhc
Q 000883 595 DTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK--KWQYERIDGKVGGAERQIRIDRFNA 672 (1238)
Q Consensus 595 ~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~--g~~~~ridG~~~~~~R~~~I~~Fn~ 672 (1238)
..+++++ .+|-.|....+.+..+.-+...|+.. ..++...+|.|+..+-+.++..|.+
T Consensus 794 -------------------eAI~REl-~RgGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~ 853 (1139)
T COG1197 794 -------------------EAILREL-LRGGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYN 853 (1139)
T ss_pred -------------------HHHHHHH-hcCCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHc
Confidence 1122232 35667777777788888888888654 5578889999999999999999988
Q ss_pred CCCCceEEEeeccccccccCcCCCCEEEEEcCC-CChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHHHHH
Q 000883 673 KNSSRFCFLLSTRAGGLGINLATADTVIIYDSD-WNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMV 751 (1238)
Q Consensus 673 ~~s~~~v~LlStragg~GINL~~Ad~VIi~D~d-WNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~K~~ 751 (1238)
+..+ +||||.....|||+++|||+||-+.| +--++.-|-.||++|- ++.-+.|-|+-.+ ..|-+.+.+++.
T Consensus 854 g~~d---VLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS--~~~AYAYfl~p~~---k~lT~~A~kRL~ 925 (1139)
T COG1197 854 GEYD---VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRS--NKQAYAYFLYPPQ---KALTEDAEKRLE 925 (1139)
T ss_pred CCCC---EEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCc--cceEEEEEeecCc---cccCHHHHHHHH
Confidence 7666 89999999999999999999999987 7788889999999995 3466777776543 234455555554
Q ss_pred HHHH
Q 000883 752 LEHL 755 (1238)
Q Consensus 752 l~~~ 755 (1238)
..+.
T Consensus 926 aI~~ 929 (1139)
T COG1197 926 AIAS 929 (1139)
T ss_pred HHHh
Confidence 4433
No 109
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.43 E-value=2.6e-12 Score=147.81 Aligned_cols=361 Identities=19% Similarity=0.281 Sum_probs=216.0
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHH-HHHHHHHHhhC-------------CCCC-eEEEeCC-ccHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQ-SIAFLASLFGE-------------RISP-HLVVAPL-STLRN 347 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiq-aia~l~~l~~~-------------~~~p-~LIVvP~-sll~q 347 (1238)
|-.+|-+++++-- -........++=|.|+|+|||+. +|-++..+.+. .+.| .|||+|+ .+..|
T Consensus 200 gFs~Pt~IQsl~l-p~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~s~e~~~~~~k~~k~~~LV~tPTRELa~Q 278 (731)
T KOG0347|consen 200 GFSRPTEIQSLVL-PAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDDSQELSNTSAKYVKPIALVVTPTRELAHQ 278 (731)
T ss_pred CCCCCccchhhcc-cHhhccchhcccccccCCCceeeecchhhhhhhhccchHhhhhhHHhccCcceeEEecChHHHHHH
Confidence 3455555555421 11112335677799999999986 35555533211 1222 6999997 56677
Q ss_pred HHHHHHHHc--CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh----hh
Q 000883 348 WEREFATWA--PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL----DS 421 (1238)
Q Consensus 348 W~~E~~~~~--p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~----d~ 421 (1238)
-...|...+ +++.+..+.|.-.....-+-. ....+|||.|+..+-. +.
T Consensus 279 V~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL--------------------------~~~p~IVVATPGRlweli~e~n 332 (731)
T KOG0347|consen 279 VKQHLKAIAEKTQIRVASITGGLAVQKQQRLL--------------------------NQRPDIVVATPGRLWELIEEDN 332 (731)
T ss_pred HHHHHHHhccccCeEEEEeechhHHHHHHHHH--------------------------hcCCCEEEecchHHHHHHHhhh
Confidence 777776655 578888888886554432211 1257899999987743 22
Q ss_pred cccCCC-ceeEEEecccccc--cCcccHHHHHHHhcc------cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHH
Q 000883 422 ASLKPI-KWQCMIVDEGHRL--KNKDSKLFSSLKQYS------TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEF 492 (1238)
Q Consensus 422 ~~l~~i-~w~~vIvDEaHrl--KN~~S~~~~~l~~l~------~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F 492 (1238)
..+..+ +..|+|||||.|+ +++-..+.+.|..+. -+..+..|||-- +..+.. ..
T Consensus 333 ~~l~~~k~vkcLVlDEaDRmvekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt---------~~~~~~------~~-- 395 (731)
T KOG0347|consen 333 THLGNFKKVKCLVLDEADRMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLT---------LVLQQP------LS-- 395 (731)
T ss_pred hhhhhhhhceEEEEccHHHHhhhccHHHHHHHHHHhhhhhcccccceEEEEEEee---------hhhcCh------hH--
Confidence 334444 4579999999998 444445555555554 123488888841 111000 00
Q ss_pred HHHHhchhhHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHH
Q 000883 493 QEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINV 572 (1238)
Q Consensus 493 ~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i 572 (1238)
...-........-..+..+++..-+ .-+| ..+++++.+...- .
T Consensus 396 ~~~k~~~k~~~~~~kiq~Lmk~ig~---------~~kp-----kiiD~t~q~~ta~-----------------------~ 438 (731)
T KOG0347|consen 396 SSRKKKDKEDELNAKIQHLMKKIGF---------RGKP-----KIIDLTPQSATAS-----------------------T 438 (731)
T ss_pred HhhhccchhhhhhHHHHHHHHHhCc---------cCCC-----eeEecCcchhHHH-----------------------H
Confidence 0000000001111122222211111 1122 2344555433211 1
Q ss_pred HHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEE
Q 000883 573 VMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYE 652 (1238)
Q Consensus 573 ~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ 652 (1238)
+.+-+--| .| + +.+. .|.-+|. .--.|.||||+.++.+..|.-+|...+++..
T Consensus 439 l~Es~I~C-~~-~----eKD~------------------ylyYfl~---ryPGrTlVF~NsId~vKRLt~~L~~L~i~p~ 491 (731)
T KOG0347|consen 439 LTESLIEC-PP-L----EKDL------------------YLYYFLT---RYPGRTLVFCNSIDCVKRLTVLLNNLDIPPL 491 (731)
T ss_pred HHHHhhcC-Cc-c----ccce------------------eEEEEEe---ecCCceEEEechHHHHHHHHHHHhhcCCCCc
Confidence 11112222 11 0 0000 0000000 0123899999999999999999999999999
Q ss_pred EEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 653 RIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 653 ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
.++.+|...+|-+.+++|....+. +||+|++++.||+++..+|||+|.-|-....|++|-||.-|.+.. -|.|. |
T Consensus 492 ~LHA~M~QKqRLknLEkF~~~~~~---VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~~-Gvsvm-l 566 (731)
T KOG0347|consen 492 PLHASMIQKQRLKNLEKFKQSPSG---VLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHRSGRTARANSE-GVSVM-L 566 (731)
T ss_pred hhhHHHHHHHHHHhHHHHhcCCCe---EEEeehhhhccCCCCCcceEEEeecCCccceeEecccccccccCC-CeEEE-E
Confidence 999999999999999999876554 899999999999999999999999999999999999999997643 22221 2
Q ss_pred ecCC---------------------CHHHHHHHHHHHHHHHHHHHh
Q 000883 733 ITRG---------------------SIEERMMQMTKKKMVLEHLVV 757 (1238)
Q Consensus 733 vt~~---------------------TvEE~I~~~~~~K~~l~~~vi 757 (1238)
+... .|++.|+...+.+-.|+..+.
T Consensus 567 ~~P~e~~~~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei~ 612 (731)
T KOG0347|consen 567 CGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREID 612 (731)
T ss_pred eChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHHH
Confidence 2111 356777777777777766553
No 110
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.41 E-value=3.3e-12 Score=136.05 Aligned_cols=156 Identities=28% Similarity=0.340 Sum_probs=110.6
Q ss_pred CCCCcHHHHHHHHHHHHhhcCC-CceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeC-CccHHHHHHHHHHHcCCC
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQ-THVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAP-LSTLRNWEREFATWAPQM 359 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~-~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP-~sll~qW~~E~~~~~p~l 359 (1238)
..+++|+|.+++..+. .. .++++..++|+|||..++.++....... ..++||++| .++..+|..++..+.+..
T Consensus 6 ~~~~~~~Q~~~~~~~~----~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~ 81 (201)
T smart00487 6 FEPLRPYQKEAIEALL----SGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSL 81 (201)
T ss_pred CCCCCHHHHHHHHHHH----cCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccC
Confidence 3679999999998773 33 8899999999999998777776665543 468999999 577789999999988663
Q ss_pred ---cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcc--cCCCceeEEEe
Q 000883 360 ---NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--LKPIKWQCMIV 434 (1238)
Q Consensus 360 ---~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~--l~~i~w~~vIv 434 (1238)
....+.+.... ..+... .....+|+++|++.+...... +....++++|+
T Consensus 82 ~~~~~~~~~~~~~~-~~~~~~-------------------------~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIi 135 (201)
T smart00487 82 GLKVVGLYGGDSKR-EQLRKL-------------------------ESGKTDILVTTPGRLLDLLENDLLELSNVDLVIL 135 (201)
T ss_pred CeEEEEEeCCcchH-HHHHHH-------------------------hcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEE
Confidence 33344443322 211111 012238999999998775544 44557889999
Q ss_pred cccccccC-ccc-HHHHHHHhc-ccccEEEEecCCCC
Q 000883 435 DEGHRLKN-KDS-KLFSSLKQY-STRHRVLLTGTPLQ 468 (1238)
Q Consensus 435 DEaHrlKN-~~S-~~~~~l~~l-~~~~rllLTGTPlq 468 (1238)
||||.+.+ ... .....+..+ ...+++++||||.+
T Consensus 136 DE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~ 172 (201)
T smart00487 136 DEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172 (201)
T ss_pred ECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCch
Confidence 99999985 333 333344444 46788999999963
No 111
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.39 E-value=1.6e-11 Score=138.28 Aligned_cols=120 Identities=16% Similarity=0.160 Sum_probs=98.9
Q ss_pred hHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc--
Q 000883 608 GKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR-- 685 (1238)
Q Consensus 608 ~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr-- 685 (1238)
-|+.++..||+--.= ..|.|||.+.++..-.|.-+|+.-|++.|.+.|.++..-|..+|++||.+--+ ++|+|+
T Consensus 253 DKflllyallKL~LI-~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~Yd---ivIAtD~s 328 (569)
T KOG0346|consen 253 DKFLLLYALLKLRLI-RGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYD---IVIATDDS 328 (569)
T ss_pred hhHHHHHHHHHHHHh-cCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCccee---EEEEccCc
Confidence 466666666653222 34899999999999999999999999999999999999999999999975433 666666
Q ss_pred ------------------------c---------cccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEE
Q 000883 686 ------------------------A---------GGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFR 731 (1238)
Q Consensus 686 ------------------------a---------gg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vyr 731 (1238)
+ .+.||+++.+++||.||.|-++..|++|+||..|-|.+..+.-|-
T Consensus 329 ~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~GtalSfv 407 (569)
T KOG0346|consen 329 ADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTALSFV 407 (569)
T ss_pred cchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCceEEEe
Confidence 1 257999999999999999999999999999999988776555443
No 112
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.39 E-value=4.5e-12 Score=148.29 Aligned_cols=115 Identities=23% Similarity=0.327 Sum_probs=100.6
Q ss_pred hhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHH-hhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 607 SGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYL-TFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 607 S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L-~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
-+|+..+..++.... .-.+|||.|...-...|-..| ...++.+..|+|..+..+|...+++|..+. +-+|++|.
T Consensus 372 ~~K~lA~rq~v~~g~--~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~---IwvLicTd 446 (593)
T KOG0344|consen 372 KGKLLALRQLVASGF--KPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGK---IWVLICTD 446 (593)
T ss_pred hhHHHHHHHHHhccC--CCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccC---eeEEEehh
Confidence 467777777776542 358999999999888888888 788999999999999999999999998743 34899999
Q ss_pred ccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCc
Q 000883 686 AGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNK 726 (1238)
Q Consensus 686 agg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~ 726 (1238)
..+.||++.+++.||+||.+-.-..++.++||.+|.|+...
T Consensus 447 ll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~ 487 (593)
T KOG0344|consen 447 LLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGK 487 (593)
T ss_pred hhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcc
Confidence 99999999999999999999999999999999999998744
No 113
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.38 E-value=1.1e-11 Score=153.46 Aligned_cols=123 Identities=20% Similarity=0.249 Sum_probs=108.6
Q ss_pred hhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccc
Q 000883 607 SGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRA 686 (1238)
Q Consensus 607 S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStra 686 (1238)
+.|+.-|..||....+ .-++|||++...-+|.|.+-|...||.+..++|.++..+|...|..|.++.. .+|+.|..
T Consensus 597 ~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~---~LLvaTsv 672 (997)
T KOG0334|consen 597 NEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVV---NLLVATSV 672 (997)
T ss_pred hHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCc---eEEEehhh
Confidence 5578888888887766 5699999999999999999999999999999999999999999999987554 49999999
Q ss_pred cccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 687 GGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 687 gg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
.+.||++.....||+||.+-....+..|.||.+|.|-+. .-|-|++.
T Consensus 673 varGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 673 VARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred hhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 999999999999999999888888999999999988776 55566665
No 114
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.37 E-value=4.2e-12 Score=127.20 Aligned_cols=136 Identities=25% Similarity=0.295 Sum_probs=99.4
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeCCccHH-HHHHHHHHHcC-CCcEEEEEcChhHHHHHHHhhhcC
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAPLSTLR-NWEREFATWAP-QMNVVMYVGTSQARNIIREYEFYF 381 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP~sll~-qW~~E~~~~~p-~l~vv~~~g~~~~r~~i~~~e~~~ 381 (1238)
.++++..++|+|||.+++.++..+... ..+++||+||...+. +|...+..+.. ...+.++++..........
T Consensus 1 ~~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 75 (144)
T cd00046 1 RDVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQEKL----- 75 (144)
T ss_pred CCEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHHHH-----
Confidence 368999999999999999999988765 446999999986665 55666777764 4667777766544332211
Q ss_pred CCCchhhhccccCccccccccccccccEEEecHHHHHhhhccc--CCCceeEEEecccccccCcccHHH---HHHHhccc
Q 000883 382 PKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASL--KPIKWQCMIVDEGHRLKNKDSKLF---SSLKQYST 456 (1238)
Q Consensus 382 ~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l--~~i~w~~vIvDEaHrlKN~~S~~~---~~l~~l~~ 456 (1238)
.....+++++||+.+....... ..-.|++||+||+|.+.+...... ........
T Consensus 76 ---------------------~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~ 134 (144)
T cd00046 76 ---------------------LSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKD 134 (144)
T ss_pred ---------------------hcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCcc
Confidence 1246789999999887654332 344789999999999988765553 34444567
Q ss_pred ccEEEEecCC
Q 000883 457 RHRVLLTGTP 466 (1238)
Q Consensus 457 ~~rllLTGTP 466 (1238)
..++++||||
T Consensus 135 ~~~i~~saTp 144 (144)
T cd00046 135 RQVLLLSATP 144 (144)
T ss_pred ceEEEEeccC
Confidence 7899999998
No 115
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.37 E-value=2.6e-10 Score=142.73 Aligned_cols=124 Identities=19% Similarity=0.196 Sum_probs=106.7
Q ss_pred hhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccc
Q 000883 607 SGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRA 686 (1238)
Q Consensus 607 S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStra 686 (1238)
.+++..|.+-|....+.|.+||||+......+.|.++|...|+++..++|.++..+|.+++..|..+ .+.+|++|..
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 DGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLG---EFDVLVGINL 501 (655)
T ss_pred cchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcC---CceEEEEcCh
Confidence 4677777778888788899999999999999999999999999999999999999999999999764 3458999999
Q ss_pred cccccCcCCCCEEEEEc-----CCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 687 GGLGINLATADTVIIYD-----SDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 687 gg~GINL~~Ad~VIi~D-----~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
+++|++++.++.||++| .+-+...++|++||++|.. .. .++.++...
T Consensus 502 L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~-~G--~vi~~~~~~ 553 (655)
T TIGR00631 502 LREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV-NG--KVIMYADKI 553 (655)
T ss_pred hcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC-CC--EEEEEEcCC
Confidence 99999999999999999 4557889999999999973 22 345555544
No 116
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.36 E-value=3.8e-11 Score=153.45 Aligned_cols=110 Identities=17% Similarity=0.170 Sum_probs=91.2
Q ss_pred cCCeEEEEecchhHHHHHHHHHhh---CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTF---KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~---~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~V 699 (1238)
.+..+|||......++.+.+.|.. .++.+..++|+++..+|+.++..|..+ ...+|++|..+..||+++.+++|
T Consensus 211 ~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G---~rkVlvATnIAErsLtIp~V~~V 287 (812)
T PRK11664 211 ESGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAG---RRKVVLATNIAETSLTIEGIRLV 287 (812)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCC---CeEEEEecchHHhcccccCceEE
Confidence 457899999999999999999976 578899999999999999999888543 34589999999999999999999
Q ss_pred EEEcCC----CChh--------------hhhHHHHHHhhhCCCCceEEEEEecCCCH
Q 000883 700 IIYDSD----WNPH--------------ADLQAMARAHRLGQTNKVMIFRLITRGSI 738 (1238)
Q Consensus 700 Ii~D~d----WNp~--------------~~~Qa~gR~hRiGQ~k~V~VyrLvt~~Tv 738 (1238)
|.++.. |+|. ...||.||++|. .+-.+|+|+++...
T Consensus 288 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 288 VDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred EECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 996654 3333 467877877775 58899999987654
No 117
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.33 E-value=1.3e-10 Score=145.42 Aligned_cols=117 Identities=16% Similarity=0.211 Sum_probs=103.1
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..|.+.+..+...|..|||||.++...+.|..+|...|+++..|++ ...+|++.|..|..... .++|+|.
T Consensus 580 ~~eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g---~VtIATN 654 (1025)
T PRK12900 580 RREKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKG---AVTIATN 654 (1025)
T ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCC---eEEEecc
Confidence 456999999999999999999999999999999999999999999999998 57799999999965433 4899999
Q ss_pred ccccccCcCCCC--------EEEEEcCCCChhhhhHHHHHHhhhCCCCce
Q 000883 686 AGGLGINLATAD--------TVIIYDSDWNPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 686 agg~GINL~~Ad--------~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V 727 (1238)
.+|.|+++.-.+ +||.++.+-+...+.|++||++|.|..-..
T Consensus 655 MAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS 704 (1025)
T PRK12900 655 MAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGES 704 (1025)
T ss_pred CcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcce
Confidence 999999998443 448889999999999999999999987655
No 118
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.32 E-value=3e-11 Score=153.58 Aligned_cols=312 Identities=15% Similarity=0.154 Sum_probs=214.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeCC-ccHHHHHHHHHHHcCCCcE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAPL-STLRNWEREFATWAPQMNV 361 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP~-sll~qW~~E~~~~~p~l~v 361 (1238)
...||-|.++|+-. ..|..+++-..+|-||++.- .|-.- -.+-+|||-|+ ||+......+.. .++..
T Consensus 263 ~~FR~~Q~eaI~~~----l~Gkd~fvlmpTG~GKSLCY-----QlPA~l~~gitvVISPL~SLm~DQv~~L~~--~~I~a 331 (941)
T KOG0351|consen 263 KGFRPNQLEAINAT----LSGKDCFVLMPTGGGKSLCY-----QLPALLLGGVTVVISPLISLMQDQVTHLSK--KGIPA 331 (941)
T ss_pred ccCChhHHHHHHHH----HcCCceEEEeecCCceeeEe-----eccccccCCceEEeccHHHHHHHHHHhhhh--cCcce
Confidence 46999999999743 68899999999999999643 11110 12368999996 777665555522 36777
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhccc---CCC----ceeEEEe
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASL---KPI----KWQCMIV 434 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l---~~i----~w~~vIv 434 (1238)
..+.+..........+... .......+++-.|+|.+......+ ... .-.++||
T Consensus 332 ~~L~s~q~~~~~~~i~q~l--------------------~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vI 391 (941)
T KOG0351|consen 332 CFLSSIQTAAERLAILQKL--------------------ANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVI 391 (941)
T ss_pred eeccccccHHHHHHHHHHH--------------------hCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEe
Confidence 7777776654332222111 112246789999999997643322 111 2578999
Q ss_pred cccccccCcc-------cHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 435 DEGHRLKNKD-------SKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 435 DEaHrlKN~~-------S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
||||...... .++......+..--.|.||||--..--.++...|++-.|..|.+.
T Consensus 392 DEAHCVSqWgHdFRp~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~~~~s------------------ 453 (941)
T KOG0351|consen 392 DEAHCVSQWGHDFRPSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPELFKSS------------------ 453 (941)
T ss_pred cHHHHhhhhcccccHHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcceeccc------------------
Confidence 9999875432 223333333334467899999765555666666665555433211
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
..++.-.+-|....+ ...+..++...+
T Consensus 454 -------------------fnR~NL~yeV~~k~~------------------------~~~~~~~~~~~~---------- 480 (941)
T KOG0351|consen 454 -------------------FNRPNLKYEVSPKTD------------------------KDALLDILEESK---------- 480 (941)
T ss_pred -------------------CCCCCceEEEEeccC------------------------ccchHHHHHHhh----------
Confidence 122333333332222 011111111111
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRI 667 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I 667 (1238)
....+...||||....+.+.+...|...|++...++.+++..+|+.+-
T Consensus 481 --------------------------------~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq 528 (941)
T KOG0351|consen 481 --------------------------------LRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQ 528 (941)
T ss_pred --------------------------------hcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHH
Confidence 123466899999999999999999999999999999999999999999
Q ss_pred HHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 668 DRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 668 ~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
..|..+. +.+++.|=|.|.|||-+++..||+|..+-+-.-+-|..|||+|-|+...+..|+=
T Consensus 529 ~~w~~~~---~~VivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~ 590 (941)
T KOG0351|consen 529 KAWMSDK---IRVIVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYG 590 (941)
T ss_pred HHHhcCC---CeEEEEEeeccCCCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecc
Confidence 9998755 4589999999999999999999999999999999999999999999877766553
No 119
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=99.32 E-value=2.8e-11 Score=137.00 Aligned_cols=216 Identities=25% Similarity=0.302 Sum_probs=132.8
Q ss_pred EEEEEeccCCHHHHHHHHHHHHHHHHHHHh---cCCc------------chhHHHHHHHHHHHhCCcccc-cCCCCCccc
Q 000883 532 KELILRVELSSKQKEYYKAILTRNYQILTR---RGGA------------QISLINVVMELRKLCCHPYML-EGVEPDIED 595 (1238)
Q Consensus 532 ~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~---~~~~------------~~~l~~i~~~Lrk~c~hP~L~-~~~e~~~~~ 595 (1238)
.++.++++|+..|+++|+.++.-.+..+.+ .... ...+...+.+|+.+|+||+|+ +...+....
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~ll 83 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQLL 83 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCccccc
Confidence 367899999999999999999876655532 1111 123455677899999999986 333333333
Q ss_pred hHHHHHHHHhhhhHHHHHHHHHHHH-----HHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHH---
Q 000883 596 TNESFKQLLESSGKLQLLDKMMVKL-----KEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRI--- 667 (1238)
Q Consensus 596 ~~~~~~~li~~S~Kl~~L~klL~~l-----~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I--- 667 (1238)
..+....+...|||+.+|..+|..+ ...+.+++|.++..+++|+|+.+|..+++.|.|++|.....+....-
T Consensus 84 ~~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~ 163 (297)
T PF11496_consen 84 LSEPAEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNG 163 (297)
T ss_dssp STTHHHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S---S----
T ss_pred cchHHHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccccCCccc
Confidence 4445577889999999999999999 66688999999999999999999999999999999986544333222
Q ss_pred ---------HHHhcCCC-CceEEEeecccccc----ccCcCCCCEEEEEcCCCChhhhhHHHHHH-hhhCCCCceEEEEE
Q 000883 668 ---------DRFNAKNS-SRFCFLLSTRAGGL----GINLATADTVIIYDSDWNPHADLQAMARA-HRLGQTNKVMIFRL 732 (1238)
Q Consensus 668 ---------~~Fn~~~s-~~~v~LlStragg~----GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~-hRiGQ~k~V~VyrL 732 (1238)
.......+ ...++|++|.-... .++-...|.||-||+.+++....-..-|. +|-+ +.+-|++|
T Consensus 164 ~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~--~~~PiirL 241 (297)
T PF11496_consen 164 NTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN--RLCPIIRL 241 (297)
T ss_dssp ------------------SEEEEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH---------S--EEEE
T ss_pred ccccccccccccccccccceEEEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC--CCCcEEEE
Confidence 11112222 33455665554433 13344679999999999998864444444 4433 88999999
Q ss_pred ecCCCHHHHHHHHHHHH
Q 000883 733 ITRGSIEERMMQMTKKK 749 (1238)
Q Consensus 733 vt~~TvEE~I~~~~~~K 749 (1238)
|..+|+|.-++......
T Consensus 242 v~~nSiEHi~L~~~~~~ 258 (297)
T PF11496_consen 242 VPSNSIEHIELCFPKSS 258 (297)
T ss_dssp EETTSHHHHHHHHTTTS
T ss_pred eeCCCHHHHHHHccCcc
Confidence 99999999888766544
No 120
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.31 E-value=4.5e-12 Score=115.47 Aligned_cols=81 Identities=31% Similarity=0.507 Sum_probs=75.5
Q ss_pred HHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHH
Q 000883 639 LLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARA 718 (1238)
Q Consensus 639 iL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~ 718 (1238)
.|.++|...++.+..++|.++..+|..+++.|+.+.. .+|++|.++++|+|++.+++||+++++||+..+.|++||+
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~---~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~ 78 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKI---KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRA 78 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCC---eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhccc
Confidence 4677888889999999999999999999999997654 5899999999999999999999999999999999999999
Q ss_pred hhhC
Q 000883 719 HRLG 722 (1238)
Q Consensus 719 hRiG 722 (1238)
+|.|
T Consensus 79 ~R~g 82 (82)
T smart00490 79 GRAG 82 (82)
T ss_pred ccCC
Confidence 9987
No 121
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.30 E-value=1.8e-09 Score=136.25 Aligned_cols=123 Identities=21% Similarity=0.254 Sum_probs=106.6
Q ss_pred hhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccc
Q 000883 607 SGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRA 686 (1238)
Q Consensus 607 S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStra 686 (1238)
.+++..|...|......|.+||||+.....++.|.++|...|+++..++|.++..+|..++..|..+. +.+|++|..
T Consensus 429 ~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~---i~vlV~t~~ 505 (652)
T PRK05298 429 KGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGE---FDVLVGINL 505 (652)
T ss_pred cccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCC---ceEEEEeCH
Confidence 45677777888888888999999999999999999999999999999999999999999999997543 458899999
Q ss_pred cccccCcCCCCEEEEEcCC-----CChhhhhHHHHHHhhhCCCCceEEEEEecC
Q 000883 687 GGLGINLATADTVIIYDSD-----WNPHADLQAMARAHRLGQTNKVMIFRLITR 735 (1238)
Q Consensus 687 gg~GINL~~Ad~VIi~D~d-----WNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~ 735 (1238)
++.|++++.+++||++|.+ -++..++|++||++|- . .-.++.|++.
T Consensus 506 L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~~~~ 556 (652)
T PRK05298 506 LREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-V--NGKVILYADK 556 (652)
T ss_pred HhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-C--CCEEEEEecC
Confidence 9999999999999999974 5889999999999994 3 3345566653
No 122
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.28 E-value=1.8e-10 Score=141.57 Aligned_cols=307 Identities=18% Similarity=0.224 Sum_probs=175.5
Q ss_pred HhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC---------CCCCeEEEeCC-ccH----HHHHHHHHHHcCCCcEEEE
Q 000883 299 FSWSKQTHVILADEMGLGKTIQSIAFLASLFGE---------RISPHLVVAPL-STL----RNWEREFATWAPQMNVVMY 364 (1238)
Q Consensus 299 ~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~---------~~~p~LIVvP~-sll----~qW~~E~~~~~p~l~vv~~ 364 (1238)
..|+.+.|.|++.++|.|||..|...+..+..+ ..-+++-|+|. ++. .+|..-|.-| ++.|..+
T Consensus 121 ~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~--gi~v~EL 198 (1230)
T KOG0952|consen 121 VAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPL--GISVREL 198 (1230)
T ss_pred hhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccc--cceEEEe
Confidence 356889999999999999999986666555542 11278999995 443 3455555444 6889999
Q ss_pred EcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHh-------hhcccCCCceeEEEeccc
Q 000883 365 VGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINL-------DSASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 365 ~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~-------d~~~l~~i~w~~vIvDEa 437 (1238)
+|+...-.. ...+.+|+|||+|..-- +...+. ...+|||||.
T Consensus 199 TGD~ql~~t-----------------------------ei~~tqiiVTTPEKwDvvTRk~~~d~~l~~--~V~LviIDEV 247 (1230)
T KOG0952|consen 199 TGDTQLTKT-----------------------------EIADTQIIVTTPEKWDVVTRKSVGDSALFS--LVRLVIIDEV 247 (1230)
T ss_pred cCcchhhHH-----------------------------HHHhcCEEEecccceeeeeeeeccchhhhh--heeeEEeeee
Confidence 998653221 13567899999987621 111122 3469999999
Q ss_pred ccccCccc-----HHHHHHHhc----ccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHH
Q 000883 438 HRLKNKDS-----KLFSSLKQY----STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRL 508 (1238)
Q Consensus 438 HrlKN~~S-----~~~~~l~~l----~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L 508 (1238)
|-|...-. ...+.++.. ..-+.++||||- -|..|+. .||..+.....-.|...|...
T Consensus 248 HlLhd~RGpvlEtiVaRtlr~vessqs~IRivgLSATl--PN~eDvA---~fL~vn~~~glfsFd~~yRPv--------- 313 (1230)
T KOG0952|consen 248 HLLHDDRGPVLETIVARTLRLVESSQSMIRIVGLSATL--PNYEDVA---RFLRVNPYAGLFSFDQRYRPV--------- 313 (1230)
T ss_pred hhhcCcccchHHHHHHHHHHHHHhhhhheEEEEeeccC--CCHHHHH---HHhcCCCccceeeeccccccc---------
Confidence 99976543 333444332 223568999994 2444443 444444433333444333211
Q ss_pred HHhhchhhhhhhHhHHhhcCCCcEEEEEeccCC--HHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccc
Q 000883 509 HRMLAPHLLRRVKKDVMKELPPKKELILRVELS--SKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML 586 (1238)
Q Consensus 509 ~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls--~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~ 586 (1238)
- .....+-+.-. ..|.+..
T Consensus 314 -------p--------------L~~~~iG~k~~~~~~~~~~~-------------------------------------- 334 (1230)
T KOG0952|consen 314 -------P--------------LTQGFIGIKGKKNRQQKKNI-------------------------------------- 334 (1230)
T ss_pred -------c--------------eeeeEEeeecccchhhhhhH--------------------------------------
Confidence 0 01111111000 0011100
Q ss_pred cCCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHH----hhCCCc------------
Q 000883 587 EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYL----TFKKWQ------------ 650 (1238)
Q Consensus 587 ~~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L----~~~g~~------------ 650 (1238)
..++...+.+ +..+||.|+||+......--.+..| ...|..
T Consensus 335 -------------------d~~~~~kv~e----~~~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l 391 (1230)
T KOG0952|consen 335 -------------------DEVCYDKVVE----FLQEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQL 391 (1230)
T ss_pred -------------------HHHHHHHHHH----HHHcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHH
Confidence 0111222222 2345888888887654322222222 222221
Q ss_pred -------EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhh----------hhH
Q 000883 651 -------YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHA----------DLQ 713 (1238)
Q Consensus 651 -------~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~----------~~Q 713 (1238)
...-+.++.-.+|+..-+.|..+.-. +|++|...+.|+||++--.+|-=-.-|++.. -+|
T Consensus 392 ~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~---vL~cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQ 468 (1230)
T KOG0952|consen 392 KELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIK---VLCCTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQ 468 (1230)
T ss_pred HHHHHhhhhhcccccchhhHHHHHHHHhcCCce---EEEecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHH
Confidence 22234456667888888889775544 7999999999999997545543333455544 589
Q ss_pred HHHHHhhhCCCCceEEEEEecCCC
Q 000883 714 AMARAHRLGQTNKVMIFRLITRGS 737 (1238)
Q Consensus 714 a~gR~hRiGQ~k~V~VyrLvt~~T 737 (1238)
.+|||+|.+=.+.-..+.+.+.++
T Consensus 469 ifGRAGRPqFd~~G~giIiTt~dk 492 (1230)
T KOG0952|consen 469 IFGRAGRPQFDSSGEGIIITTRDK 492 (1230)
T ss_pred HHhccCCCCCCCCceEEEEecccH
Confidence 999999987555555555555443
No 123
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.27 E-value=1.2e-09 Score=136.63 Aligned_cols=130 Identities=20% Similarity=0.250 Sum_probs=102.5
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|...+.+-+..+.+.|..|||-+.++..-+.|..+|...|+++..++.... +.-..+|.+ ++..+ .+.|+|.
T Consensus 550 ~~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~-~~Ea~iia~--AG~~g--~VTIATN 624 (970)
T PRK12899 550 EREKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH-AQEAEIIAG--AGKLG--AVTVATN 624 (970)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchh-hhHHHHHHh--cCCCC--cEEEeec
Confidence 457888899989999999999999999999999999999999999999998743 333345543 23333 4789999
Q ss_pred ccccccCcCCC--------CEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHH
Q 000883 686 AGGLGINLATA--------DTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQM 745 (1238)
Q Consensus 686 agg~GINL~~A--------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~ 745 (1238)
.+|.|.++.-. =+||.-..+-|...+.|..||++|.|..-....|- |+|..++.+
T Consensus 625 mAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~f~l-----SlEDdL~~~ 687 (970)
T PRK12899 625 MAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFFL-----SFEDRLMRL 687 (970)
T ss_pred cccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCceeEEE-----EcchHHHHH
Confidence 99999887533 37899999999999999999999999876554443 345555543
No 124
>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=99.25 E-value=3.3e-10 Score=147.99 Aligned_cols=110 Identities=13% Similarity=0.141 Sum_probs=88.2
Q ss_pred cCCeEEEEecchhHHHHHHHHHhhCC---CcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTFKK---WQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~~g---~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~V 699 (1238)
....+|||......++.+.+.|...+ +.+.-++|+++.++|+.++..+ . . ..+|++|..+..||++++.++|
T Consensus 278 ~~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~-~-rkIVLATNIAEtSLTIpgV~yV 352 (1283)
T TIGR01967 278 GPGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---S-G-RRIVLATNVAETSLTVPGIHYV 352 (1283)
T ss_pred CCCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---C-C-ceEEEeccHHHhccccCCeeEE
Confidence 34689999999999999999998764 4578899999999999885443 2 2 2479999999999999999999
Q ss_pred EEEcCC----C--------------ChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHH
Q 000883 700 IIYDSD----W--------------NPHADLQAMARAHRLGQTNKVMIFRLITRGSIEE 740 (1238)
Q Consensus 700 Ii~D~d----W--------------Np~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE 740 (1238)
|-++.. + +-....||.||++|.| +-.+|+|+++...+.
T Consensus 353 IDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~~ 408 (1283)
T TIGR01967 353 IDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFNS 408 (1283)
T ss_pred EeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHHh
Confidence 987621 2 3357889999999987 677899998765543
No 125
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.25 E-value=3.8e-10 Score=146.83 Aligned_cols=109 Identities=15% Similarity=0.131 Sum_probs=87.2
Q ss_pred cCCeEEEEecchhHHHHHHHHHhhCCCc---EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEE
Q 000883 623 QGHRVLIYSQFQHMLDLLEDYLTFKKWQ---YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 623 ~g~KVLIFsq~~~~ldiL~~~L~~~g~~---~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~V 699 (1238)
....+|||+.....++.+.+.|...+++ +.-++|.++..+|+.+++.+ +...+|++|..++.||++++.++|
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~-----g~rkIIVATNIAEtSITIpgI~yV 359 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH-----SGRRIVLATNVAETSLTVPGIKYV 359 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc-----CCeeEEEeccHHhhccccCcceEE
Confidence 3568999999999999999999887765 56789999999999886542 234589999999999999999999
Q ss_pred EEEc---------------CCCCh---hhhhHHHHHHhhhCCCCceEEEEEecCCCHH
Q 000883 700 IIYD---------------SDWNP---HADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 700 Ii~D---------------~dWNp---~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvE 739 (1238)
|.++ .+-.| ....||.||++|. .+-.+|+|+++..++
T Consensus 360 ID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 360 IDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred EECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 9874 22223 5678888888887 467789999876544
No 126
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.25 E-value=3.7e-10 Score=144.30 Aligned_cols=355 Identities=15% Similarity=0.150 Sum_probs=207.7
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC---CCCeEEEeCC-ccHHHHHHHHHHHcCCC
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER---ISPHLVVAPL-STLRNWEREFATWAPQM 359 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~---~~p~LIVvP~-sll~qW~~E~~~~~p~l 359 (1238)
...+++|..+++.....+..+.-++|..++|.|||..++....+..... ..+++.|.|. +++.+-.+.+..++...
T Consensus 194 ~~~~~~~~~~~~~~~~~~~~~~~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~ 273 (733)
T COG1203 194 HEGYELQEKALELILRLEKRSLLVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLF 273 (733)
T ss_pred chhhHHHHHHHHHHHhcccccccEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhccc
Confidence 3468999999998877766666899999999999999998888887763 3478888886 45566777788877555
Q ss_pred cEEEE--EcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEE-ecHHHHHhh-----hcccCCCceeE
Q 000883 360 NVVMY--VGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLL-TSYEMINLD-----SASLKPIKWQC 431 (1238)
Q Consensus 360 ~vv~~--~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvI-tSye~l~~d-----~~~l~~i~w~~ 431 (1238)
.+..- +|........ ..+. . .......... ....-+.+.+ ++.+.+... ...+..+.-.+
T Consensus 274 ~~~~~~~h~~~~~~~~~-~~~~---~-------~~~~~~~~ds-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~ 341 (733)
T COG1203 274 SVIGKSLHSSSKEPLLL-EPDQ---D-------ILLTLTTNDS-YKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSL 341 (733)
T ss_pred ccccccccccccchhhh-cccc---c-------cceeEEeccc-ccceeccccccCHhHhhhhhccccchHHHHHHHhhc
Confidence 44443 5554433211 1100 0 0000000000 0111223333 333333211 01123345578
Q ss_pred EEecccccccCc-ccHHHHHHH-hcc--cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHH
Q 000883 432 MIVDEGHRLKNK-DSKLFSSLK-QYS--TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISR 507 (1238)
Q Consensus 432 vIvDEaHrlKN~-~S~~~~~l~-~l~--~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~ 507 (1238)
+|+||+|-+--. ......++. .+. ....|++|||+- ..|. ..
T Consensus 342 vIlDE~h~~~~~~~~~~l~~~i~~l~~~g~~ill~SATlP----------------------~~~~------------~~ 387 (733)
T COG1203 342 VILDEVHLYADETMLAALLALLEALAEAGVPVLLMSATLP----------------------PFLK------------EK 387 (733)
T ss_pred hhhccHHhhcccchHHHHHHHHHHHHhCCCCEEEEecCCC----------------------HHHH------------HH
Confidence 999999988655 333333322 222 457899999971 0011 11
Q ss_pred HHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCccccc
Q 000883 508 LHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLE 587 (1238)
Q Consensus 508 L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~ 587 (1238)
|...+.... .. ..+.+ .++ .++.|.+..
T Consensus 388 l~~~~~~~~-----~~---~~~~~-----~~~---------------------------------------~~~e~~~~~ 415 (733)
T COG1203 388 LKKALGKGR-----EV---VENAK-----FCP---------------------------------------KEDEPGLKR 415 (733)
T ss_pred HHHHHhccc-----ce---ecccc-----ccc---------------------------------------ccccccccc
Confidence 111110000 00 00000 000 001111100
Q ss_pred CCCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHH
Q 000883 588 GVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRI 667 (1238)
Q Consensus 588 ~~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I 667 (1238)
....... .... ..+...+..-...|.+|+|.++.+..+-.+-..|+..+.+++.+++......|.+.+
T Consensus 416 ~~~~~~~-----------~~~~-~~~~~~~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke 483 (733)
T COG1203 416 KERVDVE-----------DGPQ-EELIELISEEVKEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKE 483 (733)
T ss_pred ccchhhh-----------hhhh-HhhhhcchhhhccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHH
Confidence 0000000 0000 112222333345689999999999999999999988887899999999999999998
Q ss_pred HHHhcC--CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhC--CCCceEEEEEecCCCHHHHHH
Q 000883 668 DRFNAK--NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLG--QTNKVMIFRLITRGSIEERMM 743 (1238)
Q Consensus 668 ~~Fn~~--~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiG--Q~k~V~VyrLvt~~TvEE~I~ 743 (1238)
+...+- .... .++|+|.+...|+|+. .|.+|- |+. -....+||.||++|-| ....+.||...-......+.+
T Consensus 484 ~~l~~~~~~~~~-~IvVaTQVIEagvDid-fd~mIT-e~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~ 559 (733)
T COG1203 484 RELKKLFKQNEG-FIVVATQVIEAGVDID-FDVLIT-ELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSY 559 (733)
T ss_pred HHHHHHHhccCC-eEEEEeeEEEEEeccc-cCeeee-cCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhh
Confidence 865531 2222 3899999999999998 566653 332 1566899999999999 567888888888888877777
Q ss_pred HHHHHHHHH
Q 000883 744 QMTKKKMVL 752 (1238)
Q Consensus 744 ~~~~~K~~l 752 (1238)
+....++.-
T Consensus 560 ~~~~~~~~~ 568 (733)
T COG1203 560 EKLEKKLKS 568 (733)
T ss_pred hcchhhhcc
Confidence 776665543
No 127
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.23 E-value=1.2e-09 Score=133.36 Aligned_cols=121 Identities=20% Similarity=0.172 Sum_probs=99.0
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..+.+-+..+.+.|..|||.+..+..-+.|...|...|+++..+..... +.-..+|.+= +..+ .+-|+|.
T Consensus 409 ~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~-~~EA~IIa~A--G~~g--aVTIATN 483 (764)
T PRK12326 409 AAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKND-AEEARIIAEA--GKYG--AVTVSTQ 483 (764)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCch-HhHHHHHHhc--CCCC--cEEEEec
Confidence 456888899999999999999999999999999999999999999999998743 3335555543 2233 4789999
Q ss_pred ccccccCcCCC---------------CEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEE
Q 000883 686 AGGLGINLATA---------------DTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFR 731 (1238)
Q Consensus 686 agg~GINL~~A---------------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vyr 731 (1238)
.+|.|.|+.-. =+||.....-|...+.|..||++|.|..-....|-
T Consensus 484 MAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~l 544 (764)
T PRK12326 484 MAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFFV 544 (764)
T ss_pred CCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEEE
Confidence 99999887632 38899989999999999999999999876655443
No 128
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=99.20 E-value=2.1e-10 Score=128.48 Aligned_cols=310 Identities=19% Similarity=0.269 Sum_probs=199.4
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCC--CCeEEEeCCccHHHH-HHHHHHHcCCC--c
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERI--SPHLVVAPLSTLRNW-EREFATWAPQM--N 360 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~--~p~LIVvP~sll~qW-~~E~~~~~p~l--~ 360 (1238)
...-|..|+-=+ ..|.+++.-...|+|||.+-...+........ .-+||++|...+.+. ..-...+.+.. +
T Consensus 49 PSaIQqraI~p~----i~G~dv~~qaqsgTgKt~af~i~iLq~iD~~~ke~qalilaPtreLa~qi~~v~~~lg~~~~~~ 124 (397)
T KOG0327|consen 49 PSAIQQRAILPC----IKGHDVIAQAQSGTGKTAAFLISILQQIDMSVKETQALILAPTRELAQQIQKVVRALGDHMDVS 124 (397)
T ss_pred chHHHhcccccc----ccCCceeEeeeccccchhhhHHHHHhhcCcchHHHHHHHhcchHHHHHHHHHHHHhhhccccee
Confidence 444566665322 57889999999999999884433333322211 267999998877553 33444555444 4
Q ss_pred EEEEEcChhHH-HHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh--hcccCCCceeEEEeccc
Q 000883 361 VVMYVGTSQAR-NIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD--SASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 361 vv~~~g~~~~r-~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d--~~~l~~i~w~~vIvDEa 437 (1238)
+....|....+ +.- .......+|++.|...+... ...|..-.-.+.|+|||
T Consensus 125 v~~~igg~~~~~~~~--------------------------~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEa 178 (397)
T KOG0327|consen 125 VHACIGGTNVRREDQ--------------------------ALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEA 178 (397)
T ss_pred eeeecCcccchhhhh--------------------------hhhccCceeecCCchhHHHhhccccccccceeEEeecch
Confidence 44344432221 110 00123568999998666432 23555556789999999
Q ss_pred ccccCc--ccHHHHHHHhcccc-cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 438 HRLKNK--DSKLFSSLKQYSTR-HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 438 HrlKN~--~S~~~~~l~~l~~~-~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
..++.. .-+.+..+..+..+ ..+++|||-- .++.-+ .+.|. -.|
T Consensus 179 DEmLs~gfkdqI~~if~~lp~~vQv~l~SAT~p----~~vl~v---------------t~~f~--------------~~p 225 (397)
T KOG0327|consen 179 DEMLSRGFKDQIYDIFQELPSDVQVVLLSATMP----SDVLEV---------------TKKFM--------------REP 225 (397)
T ss_pred HhhhccchHHHHHHHHHHcCcchhheeecccCc----HHHHHH---------------HHHhc--------------cCc
Confidence 887544 34566666666544 5577888841 110000 00000 000
Q ss_pred hhhhhhHhHHhhcCCCcEEEEEeccCCH-HHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCc
Q 000883 515 HLLRRVKKDVMKELPPKKELILRVELSS-KQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDI 593 (1238)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~~v~v~ls~-~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~ 593 (1238)
..+-+-| .++|. -|+..|-..
T Consensus 226 v~i~vkk----------------~~ltl~gikq~~i~v------------------------------------------ 247 (397)
T KOG0327|consen 226 VRILVKK----------------DELTLEGIKQFYINV------------------------------------------ 247 (397)
T ss_pred eEEEecc----------------hhhhhhheeeeeeec------------------------------------------
Confidence 0000000 01110 000111000
Q ss_pred cchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcC
Q 000883 594 EDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAK 673 (1238)
Q Consensus 594 ~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~ 673 (1238)
....|+..|..+.. .-...+||++..+-++.|.+.|..+|+....++|.+...+|..++..|+.+
T Consensus 248 -----------~k~~k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~g 312 (397)
T KOG0327|consen 248 -----------EKEEKLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSG 312 (397)
T ss_pred -----------cccccccHHHHHHH----hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcC
Confidence 00116777777776 234689999999999999999999999999999999999999999999987
Q ss_pred CCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 674 NSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 674 ~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
.+. +|++|...+.||+++.++.||+||.|-|..+++.++||++|.|-+- ....++++.
T Consensus 313 ssr---vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~grkg--~~in~v~~~ 370 (397)
T KOG0327|consen 313 SSR---VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRKG--VAINFVTEE 370 (397)
T ss_pred Cce---EEeeccccccccchhhcceeeeeccccchhhhhhhcccccccCCCc--eeeeeehHh
Confidence 665 8999999999999999999999999999999999999999999643 334566554
No 129
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.17 E-value=2.1e-10 Score=128.94 Aligned_cols=311 Identities=18% Similarity=0.250 Sum_probs=206.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCC-CC-CeEEEeCCccH-HH---HHHHHHHHcC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGER-IS-PHLVVAPLSTL-RN---WEREFATWAP 357 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~-~~-p~LIVvP~sll-~q---W~~E~~~~~p 357 (1238)
+..|-|...++-+ -.+...+=..=+|.|||..- |-.+..|.... .+ +.||+.|+.-| .| ...++.+++
T Consensus 43 ~ptpiqRKTipli----Le~~dvv~martgsgktaaf~ipm~e~Lk~~s~~g~RalilsptreLa~qtlkvvkdlgrgt- 117 (529)
T KOG0337|consen 43 TPTPIQRKTIPLI----LEGRDVVGMARTGSGKTAAFLIPMIEKLKSHSQTGLRALILSPTRELALQTLKVVKDLGRGT- 117 (529)
T ss_pred CCCchhcccccce----eeccccceeeecCCcchhhHHHHHHHHHhhccccccceeeccCcHHHHHHHHHHHHHhcccc-
Confidence 4667777776544 44555565667999999764 33444554432 23 89999997544 34 344555555
Q ss_pred CCcEE-EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--ccCCCceeEEEe
Q 000883 358 QMNVV-MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIV 434 (1238)
Q Consensus 358 ~l~vv-~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l~~i~w~~vIv 434 (1238)
+++.. .++|++.+.+.+.- ....|||+.|...+..-.. .|.--...|||+
T Consensus 118 ~lr~s~~~ggD~~eeqf~~l---------------------------~~npDii~ATpgr~~h~~vem~l~l~sveyVVf 170 (529)
T KOG0337|consen 118 KLRQSLLVGGDSIEEQFILL---------------------------NENPDIIIATPGRLLHLGVEMTLTLSSVEYVVF 170 (529)
T ss_pred chhhhhhcccchHHHHHHHh---------------------------ccCCCEEEecCceeeeeehheeccccceeeeee
Confidence 55555 55666655443221 1256899988877643211 133334679999
Q ss_pred cccccccC--cccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHh
Q 000883 435 DEGHRLKN--KDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRM 511 (1238)
Q Consensus 435 DEaHrlKN--~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~ 511 (1238)
|||.+|-. ..-++.+.+..+. +...+++|||- .+.+-+ |. +.-
T Consensus 171 dEadrlfemgfqeql~e~l~rl~~~~QTllfSatl-p~~lv~------------------fa---------------kaG 216 (529)
T KOG0337|consen 171 DEADRLFEMGFQEQLHEILSRLPESRQTLLFSATL-PRDLVD------------------FA---------------KAG 216 (529)
T ss_pred hhhhHHHhhhhHHHHHHHHHhCCCcceEEEEeccC-chhhHH------------------HH---------------Hcc
Confidence 99999854 4567788888886 44679999994 111111 10 000
Q ss_pred hchhhhhhhHhHHhhcCCCcEEEEEec--cCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 512 LAPHLLRRVKKDVMKELPPKKELILRV--ELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 512 L~p~~lRR~k~dv~~~LP~k~e~~v~v--~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
+ .||.... +-| .+++. .+++
T Consensus 217 l---------------~~p~lVR-ldvetkise~------------------------------lk~~------------ 238 (529)
T KOG0337|consen 217 L---------------VPPVLVR-LDVETKISEL------------------------------LKVR------------ 238 (529)
T ss_pred C---------------CCCceEE-eehhhhcchh------------------------------hhhh------------
Confidence 1 1111111 111 01110 0011
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
...+....|...|..++..... .++.+||+......+.+...|...|+....|.|++....|..-+.+
T Consensus 239 -----------f~~~~~a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~ 306 (529)
T KOG0337|consen 239 -----------FFRVRKAEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRD 306 (529)
T ss_pred -----------eeeeccHHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhcccc
Confidence 1112234566666666655433 4589999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
|+..... +|++|+.+..|++.+-.|.||.||.+-.+..+..+.||+.|-|.+ -..|-||+..
T Consensus 307 F~~~k~~---~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt--g~aYs~V~~~ 368 (529)
T KOG0337|consen 307 FRGRKTS---ILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT--GRAYSLVAST 368 (529)
T ss_pred ccCCccc---eEEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc--ceEEEEEecc
Confidence 9875544 899999999999999999999999999999999999999999865 3456677654
No 130
>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=99.16 E-value=4.3e-10 Score=121.82 Aligned_cols=153 Identities=20% Similarity=0.208 Sum_probs=105.2
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhC--CC-CCeEEEeCC-ccHHHHHHHHHHHcC--
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGE--RI-SPHLVVAPL-STLRNWEREFATWAP-- 357 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~--~~-~p~LIVvP~-sll~qW~~E~~~~~p-- 357 (1238)
.+++||.++++-+ .++.++++..++|.|||+.. +.++..+... .. ..+|||+|. .++.|+...+..+..
T Consensus 21 ~~~~~Q~~~~~~~----~~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~~~~~~~~~~~ 96 (203)
T cd00268 21 KPTPIQARAIPPL----LSGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIAEVARKLGKHT 96 (203)
T ss_pred CCCHHHHHHHHHH----hcCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHHHHHHHHhccC
Confidence 5899999999776 34889999999999999885 4445555544 23 379999995 677889998888864
Q ss_pred CCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh--cccCCCceeEEEec
Q 000883 358 QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS--ASLKPIKWQCMIVD 435 (1238)
Q Consensus 358 ~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~--~~l~~i~w~~vIvD 435 (1238)
+.++..++|..........+ ....+|+|+|.+.+.... ..+.--.++++|+|
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~--------------------------~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvD 150 (203)
T cd00268 97 NLKVVVIYGGTSIDKQIRKL--------------------------KRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLD 150 (203)
T ss_pred CceEEEEECCCCHHHHHHHh--------------------------cCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEe
Confidence 56777788876543322211 125689999988775421 11222356899999
Q ss_pred ccccccCcc-c-HHHHHHHhcc-cccEEEEecCCC
Q 000883 436 EGHRLKNKD-S-KLFSSLKQYS-TRHRVLLTGTPL 467 (1238)
Q Consensus 436 EaHrlKN~~-S-~~~~~l~~l~-~~~rllLTGTPl 467 (1238)
|+|.+.+.. . .+...+..+. ....+++||||-
T Consensus 151 E~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 151 EADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred ChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 999986543 1 2223333444 356799999985
No 131
>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=99.15 E-value=3.1e-10 Score=118.80 Aligned_cols=155 Identities=21% Similarity=0.272 Sum_probs=107.2
Q ss_pred HHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCC-ccHHHHHHHHHHHcC--CCcEEE
Q 000883 288 PYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPL-STLRNWEREFATWAP--QMNVVM 363 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~-sll~qW~~E~~~~~p--~l~vv~ 363 (1238)
|+|.+++.-+. .+.+.++..++|.|||..++..+....... ...+||++|. +++.+-..++..++. +.++..
T Consensus 2 ~~Q~~~~~~i~----~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~ 77 (169)
T PF00270_consen 2 PLQQEAIEAII----SGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVL 77 (169)
T ss_dssp HHHHHHHHHHH----TTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEE
T ss_pred HHHHHHHHHHH----cCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeeccccccccccccccccccccccccc
Confidence 79999988763 678899999999999999876665544433 3489999996 677888888988885 468888
Q ss_pred EEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcc--cCCCceeEEEeccccccc
Q 000883 364 YVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--LKPIKWQCMIVDEGHRLK 441 (1238)
Q Consensus 364 ~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~--l~~i~w~~vIvDEaHrlK 441 (1238)
++|.......... + -....+|+|+|++.+...... +.-...++||+||+|.+-
T Consensus 78 ~~~~~~~~~~~~~--~-----------------------~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~ 132 (169)
T PF00270_consen 78 LHGGQSISEDQRE--V-----------------------LSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLS 132 (169)
T ss_dssp ESTTSCHHHHHHH--H-----------------------HHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHH
T ss_pred ccccccccccccc--c-----------------------ccccccccccCcchhhccccccccccccceeeccCcccccc
Confidence 8776542211111 0 013578999999999765443 112247899999999996
Q ss_pred Cc--ccHHHHHHHhc---ccccEEEEecCCCCCCHH
Q 000883 442 NK--DSKLFSSLKQY---STRHRVLLTGTPLQNNLD 472 (1238)
Q Consensus 442 N~--~S~~~~~l~~l---~~~~rllLTGTPlqNn~~ 472 (1238)
.. .......+..+ ...+.+++||||- .+++
T Consensus 133 ~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~ 167 (169)
T PF00270_consen 133 DETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVE 167 (169)
T ss_dssp HTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHH
T ss_pred cccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHh
Confidence 63 22333334443 2356899999996 4443
No 132
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=3.6e-09 Score=132.27 Aligned_cols=122 Identities=16% Similarity=0.157 Sum_probs=99.2
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
....|...+.+-+..+.+.|..|||-+.++..-+.|..+|...|+++..+..... +.-..+|. +++..+ .+-|+|
T Consensus 430 t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~-~~EA~IIa--~AG~~G--aVTIAT 504 (913)
T PRK13103 430 TAEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYH-EKEAEIIA--QAGRPG--ALTIAT 504 (913)
T ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccc-hhHHHHHH--cCCCCC--cEEEec
Confidence 3467999999999999999999999999999999999999999999988887643 33344555 344444 468999
Q ss_pred cccccccCcC-------------------------------------CCCEEEEEcCCCChhhhhHHHHHHhhhCCCCce
Q 000883 685 RAGGLGINLA-------------------------------------TADTVIIYDSDWNPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 685 ragg~GINL~-------------------------------------~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V 727 (1238)
..+|.|.|+. ..=+||.-...=|...|.|..||++|.|..-..
T Consensus 505 NMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS 584 (913)
T PRK13103 505 NMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSS 584 (913)
T ss_pred cCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCce
Confidence 9999998874 223789999999999999999999999987655
Q ss_pred EEEE
Q 000883 728 MIFR 731 (1238)
Q Consensus 728 ~Vyr 731 (1238)
..|-
T Consensus 585 ~f~l 588 (913)
T PRK13103 585 RFYL 588 (913)
T ss_pred EEEE
Confidence 5443
No 133
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.08 E-value=2.4e-09 Score=117.96 Aligned_cols=300 Identities=17% Similarity=0.153 Sum_probs=190.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv 362 (1238)
.+.||.|++++|-. ..+..++|...+|-||++..- +-.|.. .|-.|||||+ |++....-.++...-+...+
T Consensus 93 ekfrplq~~ain~~----ma~ed~~lil~tgggkslcyq--lpal~a--dg~alvi~plislmedqil~lkqlgi~as~l 164 (695)
T KOG0353|consen 93 EKFRPLQLAAINAT----MAGEDAFLILPTGGGKSLCYQ--LPALCA--DGFALVICPLISLMEDQILQLKQLGIDASML 164 (695)
T ss_pred HhcChhHHHHhhhh----hccCceEEEEeCCCccchhhh--hhHHhc--CCceEeechhHHHHHHHHHHHHHhCcchhhc
Confidence 46899999999865 678899999999999997431 111112 2578999996 77777777777765333322
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-------ccCCCceeEEEec
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA-------SLKPIKWQCMIVD 435 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~-------~l~~i~w~~vIvD 435 (1238)
--..++..-.. ...++ .+....|..+.+|++.+.+... .+..-.|.+|-||
T Consensus 165 nansske~~k~-v~~~i---------------------~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~~~iaid 222 (695)
T KOG0353|consen 165 NANSSKEEAKR-VEAAI---------------------TNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAID 222 (695)
T ss_pred cCcccHHHHHH-HHHHH---------------------cCCCceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeec
Confidence 22222222111 11111 1123578888899988865433 2333467899999
Q ss_pred ccccccC-------cccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHH
Q 000883 436 EGHRLKN-------KDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRL 508 (1238)
Q Consensus 436 EaHrlKN-------~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L 508 (1238)
|+|.+.. ..+.+...-+.++....++||||...+-+.+.-.+|..-..
T Consensus 223 evhccsqwghdfr~dy~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~------------------------- 277 (695)
T KOG0353|consen 223 EVHCCSQWGHDFRPDYKALGILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAA------------------------- 277 (695)
T ss_pred ceeehhhhCcccCcchHHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhh-------------------------
Confidence 9998743 22333333455677788999999865555444333321000
Q ss_pred HHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccC
Q 000883 509 HRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 509 ~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
|. .|--.|.|-|...
T Consensus 278 ------~t-----------------------------------------------------------f~a~fnr~nl~ye 292 (695)
T KOG0353|consen 278 ------FT-----------------------------------------------------------FRAGFNRPNLKYE 292 (695)
T ss_pred ------he-----------------------------------------------------------eecccCCCCceeE
Confidence 00 0000111111111
Q ss_pred CCCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHH
Q 000883 589 VEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRID 668 (1238)
Q Consensus 589 ~e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~ 668 (1238)
+...+...++- +.-+.+++..-. .|..-||||-...-.+.+...|...|+...-++..+.+++|.-+-.
T Consensus 293 v~qkp~n~dd~----------~edi~k~i~~~f-~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq 361 (695)
T KOG0353|consen 293 VRQKPGNEDDC----------IEDIAKLIKGDF-AGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQ 361 (695)
T ss_pred eeeCCCChHHH----------HHHHHHHhcccc-CCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccc
Confidence 11111111110 111223332211 3778899998888889999999999999999999999998888877
Q ss_pred HHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHH
Q 000883 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMAR 717 (1238)
Q Consensus 669 ~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR 717 (1238)
.+-++ .+-+++.|-|.|.||+-+....||+-..+-+-.++-||-+|
T Consensus 362 ~w~a~---eiqvivatvafgmgidkpdvrfvihhsl~ksienyyqasar 407 (695)
T KOG0353|consen 362 GWIAG---EIQVIVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASAR 407 (695)
T ss_pred ccccc---ceEEEEEEeeecccCCCCCeeEEEecccchhHHHHHHHHHH
Confidence 77553 44588999999999999999999999999999999995433
No 134
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.06 E-value=1.1e-07 Score=110.44 Aligned_cols=132 Identities=19% Similarity=0.274 Sum_probs=108.3
Q ss_pred HHHHHHHH---HHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecccccc
Q 000883 613 LDKMMVKL---KEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGL 689 (1238)
Q Consensus 613 L~klL~~l---~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~ 689 (1238)
+++++.++ .+.|.||||-+-..+|.+-|.+||...|+++..+++.+..-+|.++|.....+.-+ +|+....+-+
T Consensus 432 vdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~D---vLVGINLLRE 508 (663)
T COG0556 432 VDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFD---VLVGINLLRE 508 (663)
T ss_pred HHHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCcc---EEEeehhhhc
Confidence 45555544 45799999999999999999999999999999999999999999999999875544 8999999999
Q ss_pred ccCcCCCCEEEEEcCCC-----ChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHHHHHH
Q 000883 690 GINLATADTVIIYDSDW-----NPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1238)
Q Consensus 690 GINL~~Ad~VIi~D~dW-----Np~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~~~~~ 748 (1238)
||+|+.++.|.|+|-|- +-...+|-+|||-|--.. .|..|-=...+|+++.|-+...+
T Consensus 509 GLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~G-kvIlYAD~iT~sM~~Ai~ET~RR 571 (663)
T COG0556 509 GLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNG-KVILYADKITDSMQKAIDETERR 571 (663)
T ss_pred cCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCC-eEEEEchhhhHHHHHHHHHHHHH
Confidence 99999999999999874 778899999999995433 45545444455677666654433
No 135
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.05 E-value=1.4e-08 Score=114.18 Aligned_cols=319 Identities=16% Similarity=0.181 Sum_probs=199.1
Q ss_pred HHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEEEEEc
Q 000883 288 PYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVVMYVG 366 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv~~~g 366 (1238)
|.|..+++-+ ...+..+.+++++|.||++..- |-.|...+ -++||.|+ .++....+.+.+.- +++-.+..
T Consensus 23 ~LQE~A~~c~---VK~k~DVyVsMPTGaGKSLCyQ--LPaL~~~g--ITIV~SPLiALIkDQiDHL~~LK--Vp~~SLNS 93 (641)
T KOG0352|consen 23 RLQEQAINCI---VKRKCDVYVSMPTGAGKSLCYQ--LPALVHGG--ITIVISPLIALIKDQIDHLKRLK--VPCESLNS 93 (641)
T ss_pred hHHHHHHHHH---HhccCcEEEeccCCCchhhhhh--chHHHhCC--eEEEehHHHHHHHHHHHHHHhcC--CchhHhcc
Confidence 6888898765 3567889999999999997431 12233333 67888885 56655666665432 11111111
Q ss_pred --ChhHHH-HHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh-----hccc-CCCceeEEEeccc
Q 000883 367 --TSQARN-IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD-----SASL-KPIKWQCMIVDEG 437 (1238)
Q Consensus 367 --~~~~r~-~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d-----~~~l-~~i~w~~vIvDEa 437 (1238)
+..+|. ++...+ .....-.++-+|+|+...+ ...| +.-...+++||||
T Consensus 94 KlSt~ER~ri~~DL~-----------------------~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEA 150 (641)
T KOG0352|consen 94 KLSTVERSRIMGDLA-----------------------KEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEA 150 (641)
T ss_pred hhhHHHHHHHHHHHH-----------------------hcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechh
Confidence 112222 222221 1223445677788876543 1122 2234679999999
Q ss_pred ccccC------cccHHHHHHHhcc-cccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHH-HhchhhHHHHHHHH
Q 000883 438 HRLKN------KDSKLFSSLKQYS-TRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEE-FKDINQEEQISRLH 509 (1238)
Q Consensus 438 HrlKN------~~S~~~~~l~~l~-~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~-~~~~~~~~~~~~L~ 509 (1238)
|...- ++-...-+|++.. .--.+.||||.-..--+|+|..|++-.|-..-.-..|... |-+
T Consensus 151 HCVSQWGHDFRPDYL~LG~LRS~~~~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~FR~NLFYD----------- 219 (641)
T KOG0352|consen 151 HCVSQWGHDFRPDYLTLGSLRSVCPGVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTFRDNLFYD----------- 219 (641)
T ss_pred hhHhhhccccCcchhhhhhHHhhCCCCceEEeecccChhHHHHHHHHHhhcCcHHhccCcchhhhhhHH-----------
Confidence 98743 2223333344332 2345789999876667788888877665321111111110 000
Q ss_pred HhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCC
Q 000883 510 RMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGV 589 (1238)
Q Consensus 510 ~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~ 589 (1238)
..|+.+++..+..|. .--+++...|--+...
T Consensus 220 ------------------------------------~~~K~~I~D~~~~La-------------DF~~~~LG~~~~~~~~ 250 (641)
T KOG0352|consen 220 ------------------------------------NHMKSFITDCLTVLA-------------DFSSSNLGKHEKASQN 250 (641)
T ss_pred ------------------------------------HHHHHHhhhHhHhHH-------------HHHHHhcCChhhhhcC
Confidence 012222222111111 1122232222111100
Q ss_pred CCCccchHHHHHHHHhhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHH
Q 000883 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDR 669 (1238)
Q Consensus 590 e~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~ 669 (1238)
. +....--||||......+.+.-.|..+|++..-++.+....+|..+-+.
T Consensus 251 ~------------------------------K~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~ 300 (641)
T KOG0352|consen 251 K------------------------------KTFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEK 300 (641)
T ss_pred C------------------------------CCcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHH
Confidence 0 0112357999999999999999999999999999999999999999999
Q ss_pred HhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEE
Q 000883 670 FNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFR 731 (1238)
Q Consensus 670 Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vyr 731 (1238)
+..++.. +++.|-+.|.|++=++...||+.+++-|-.-+-|--||++|-|-..-+..|+
T Consensus 301 WM~~~~P---vI~AT~SFGMGVDKp~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYY 359 (641)
T KOG0352|consen 301 WMNNEIP---VIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYY 359 (641)
T ss_pred HhcCCCC---EEEEEeccccccCCcceeEEEecCchhhhHHHHHhccccccCCCccceeeee
Confidence 9876665 7899999999999999999999999999999999999999999887777776
No 136
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=99.01 E-value=6.1e-09 Score=135.90 Aligned_cols=86 Identities=14% Similarity=0.134 Sum_probs=63.0
Q ss_pred CCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc-HHHHHH-HHH---HHc
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST-LRNWER-EFA---TWA 356 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl-l~qW~~-E~~---~~~ 356 (1238)
.|.+.||.|.+.+..+...+..+..+++-..+|+|||+..+.-+..... ...+++|.||+.. ..|+.. ++. +.+
T Consensus 242 ~~~~~r~~Q~~~~~~i~~~~~~~~~~~~eA~TG~GKT~ayLlp~~~~~~-~~~~vvi~t~t~~Lq~Ql~~~~~~~l~~~~ 320 (850)
T TIGR01407 242 LGLEYRPEQLKLAELVLDQLTHSEKSLIEAPTGTGKTLGYLLPALYYAI-TEKPVVISTNTKVLQSQLLEKDIPLLNEIL 320 (850)
T ss_pred cCCccCHHHHHHHHHHHHHhccCCcEEEECCCCCchhHHHHHHHHHHhc-CCCeEEEEeCcHHHHHHHHHHHHHHHHHHc
Confidence 4567999999988888778888888889999999999987665544333 3359999999754 567643 444 333
Q ss_pred C-CCcEEEEEcCh
Q 000883 357 P-QMNVVMYVGTS 368 (1238)
Q Consensus 357 p-~l~vv~~~g~~ 368 (1238)
+ ++++++..|..
T Consensus 321 ~~~~~~~~~kG~~ 333 (850)
T TIGR01407 321 NFKINAALIKGKS 333 (850)
T ss_pred CCCceEEEEEcch
Confidence 3 47777777765
No 137
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.01 E-value=4.6e-08 Score=121.29 Aligned_cols=120 Identities=18% Similarity=0.211 Sum_probs=99.2
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..+.+-+..+.+.|..|||.+..+...+.|..+|...|+++..++.... +.-..+|. +++..+ .+.|+|.
T Consensus 408 ~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~-e~EA~IIa--~AG~~G--aVTIATN 482 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQN-AREAEIIA--KAGQKG--AITIATN 482 (925)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccch-hhHHHHHH--hCCCCC--eEEEecc
Confidence 467888888888989999999999999999999999999999999999998743 33334443 344333 5789999
Q ss_pred ccccccCcCCCC--------EEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 686 AGGLGINLATAD--------TVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 686 agg~GINL~~Ad--------~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
.+|.|.++.-.. +||....+=|...+.|..||++|.|..-....|
T Consensus 483 MAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f~ 535 (925)
T PRK12903 483 MAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRFF 535 (925)
T ss_pred cccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcceEE
Confidence 999999987544 899999999999999999999999987655544
No 138
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.97 E-value=1.9e-08 Score=125.53 Aligned_cols=72 Identities=29% Similarity=0.469 Sum_probs=60.2
Q ss_pred CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEE-----EcCC---C---ChhhhhHHHH
Q 000883 648 KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII-----YDSD---W---NPHADLQAMA 716 (1238)
Q Consensus 648 g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi-----~D~d---W---Np~~~~Qa~g 716 (1238)
.|.+..-+.+++..+|+..-+-|.++.- -+|+||...+-|+||++ +|||| |||. | .|...+|.+|
T Consensus 607 pygfaIHhAGl~R~dR~~~EdLf~~g~i---qvlvstatlawgvnlpa-htViikgtqvy~pekg~w~elsp~dv~qmlg 682 (1674)
T KOG0951|consen 607 PYGFAIHHAGLNRKDRELVEDLFADGHI---QVLVSTATLAWGVNLPA-HTVIIKGTQVYDPEKGRWTELSPLDVMQMLG 682 (1674)
T ss_pred hccceeeccCCCcchHHHHHHHHhcCce---eEEEeehhhhhhcCCCc-ceEEecCccccCcccCccccCCHHHHHHHHh
Confidence 4678888899999999999999977544 38999999999999996 78877 6664 3 6889999999
Q ss_pred HHhhhCC
Q 000883 717 RAHRLGQ 723 (1238)
Q Consensus 717 R~hRiGQ 723 (1238)
|++|.+-
T Consensus 683 ragrp~~ 689 (1674)
T KOG0951|consen 683 RAGRPQY 689 (1674)
T ss_pred hcCCCcc
Confidence 9999763
No 139
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.85 E-value=2.6e-08 Score=111.01 Aligned_cols=238 Identities=21% Similarity=0.253 Sum_probs=146.0
Q ss_pred CCCC-CCCCCCCcHHHHHHHHHHHHhhc------CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC-CccHHH
Q 000883 276 HSPE-FLSGGSLHPYQLEGLNFLRFSWS------KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP-LSTLRN 347 (1238)
Q Consensus 276 ~~P~-~~~~~~LrpyQlegv~wL~~~~~------~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP-~sll~q 347 (1238)
..|. .+..+.|..-|+|+|-+....+. .+.+.+|.|.+|.||.-|+.++|..-+..+..+.+.|.. ..|...
T Consensus 27 ~lp~~~~~~g~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~D 106 (303)
T PF13872_consen 27 HLPEEVIDSGLLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYD 106 (303)
T ss_pred CCCHHHHhcccccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhH
Confidence 3344 45668999999999998866665 367889999999999999999998877666655555555 566666
Q ss_pred HHHHHHHHcCC-CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhh-----
Q 000883 348 WEREFATWAPQ-MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS----- 421 (1238)
Q Consensus 348 W~~E~~~~~p~-l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~----- 421 (1238)
-.+.+..-.-. +.+..+.. + +.+ .....+..|+.+||.++....
T Consensus 107 a~RDl~DIG~~~i~v~~l~~------------~------------~~~------~~~~~~~GvlF~TYs~L~~~~~~~~~ 156 (303)
T PF13872_consen 107 AERDLRDIGADNIPVHPLNK------------F------------KYG------DIIRLKEGVLFSTYSTLISESQSGGK 156 (303)
T ss_pred HHHHHHHhCCCcccceechh------------h------------ccC------cCCCCCCCccchhHHHHHhHHhccCC
Confidence 66666654311 11111111 0 000 001246679999999997653
Q ss_pred --cccCCC-ce------eEEEecccccccCccc------HHHHHHHhc----ccccEEEEecCCCCCCHHHHH--HHHhh
Q 000883 422 --ASLKPI-KW------QCMIVDEGHRLKNKDS------KLFSSLKQY----STRHRVLLTGTPLQNNLDELF--MLMHF 480 (1238)
Q Consensus 422 --~~l~~i-~w------~~vIvDEaHrlKN~~S------~~~~~l~~l----~~~~rllLTGTPlqNn~~EL~--~ll~f 480 (1238)
..|..+ .| .+||+||||+.||..+ +...++..+ ...+.+..|||.... +..|- .-|.+
T Consensus 157 ~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~NmaYm~RLGL 235 (303)
T PF13872_consen 157 YRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNMAYMSRLGL 235 (303)
T ss_pred ccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Cceeeeeeeccc
Confidence 233322 34 4899999999999655 555665554 344678899998632 22221 11111
Q ss_pred hcC-CCCCChHHHHHHHhchhhHHHHHHHHHhh--chhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHH
Q 000883 481 LDA-GKFGSLEEFQEEFKDINQEEQISRLHRML--APHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKA 550 (1238)
Q Consensus 481 L~p-~~f~~~~~F~~~~~~~~~~~~~~~L~~~L--~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~ 550 (1238)
-.+ ..|.+..+|.+....-. ....+-+...| ...+++|.. ++-.....++.++|++.|.++|+.
T Consensus 236 WG~gtpf~~~~~f~~a~~~gG-v~amE~vA~dlKa~G~yiaR~L-----Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 236 WGPGTPFPDFDDFLEAMEKGG-VGAMEMVAMDLKARGMYIARQL-----SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred cCCCCCCCCHHHHHHHHHhcC-chHHHHHHHHHHhcchheeeec-----ccCCceEEEEEecCCHHHHHHhcC
Confidence 121 24778888877765421 11111111111 223444433 344556788999999999999974
No 140
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.74 E-value=5.2e-07 Score=112.89 Aligned_cols=84 Identities=14% Similarity=0.211 Sum_probs=67.6
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCC-HHHHHHHHHHHhcCCCCceEEEeec
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVG-GAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~-~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
...|...+.+-+..+.+.|..|||-+.++..-+.|...|...|+++..+..... .+.-.++|.+ ++..+ .+-|+|
T Consensus 406 ~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~--AG~~G--~VTIAT 481 (870)
T CHL00122 406 ELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQ--AGRKG--SITIAT 481 (870)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh--cCCCC--cEEEec
Confidence 346888888888888999999999999999999999999999999999999743 3444556665 33333 478999
Q ss_pred cccccccCc
Q 000883 685 RAGGLGINL 693 (1238)
Q Consensus 685 ragg~GINL 693 (1238)
..+|.|.|+
T Consensus 482 NMAGRGTDI 490 (870)
T CHL00122 482 NMAGRGTDI 490 (870)
T ss_pred cccCCCcCe
Confidence 999999664
No 141
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.74 E-value=2.6e-07 Score=117.43 Aligned_cols=42 Identities=26% Similarity=0.350 Sum_probs=35.8
Q ss_pred hhhhHHHHHHHHHHHHHHc---------CCeEEEEecchhHHHHHHHHHhh
Q 000883 605 ESSGKLQLLDKMMVKLKEQ---------GHRVLIYSQFQHMLDLLEDYLTF 646 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~---------g~KVLIFsq~~~~ldiL~~~L~~ 646 (1238)
+..+|+..|.++|.+.... ..+|||||++.++...|.++|..
T Consensus 267 Ee~PKw~~L~eiL~eI~~~~~~~~~~~~~~~iLI~~~d~~T~~qL~~~L~~ 317 (814)
T TIGR00596 267 EENPKWEVLTDVLKEISHEMRMTNRLQGPGKVLIMCSDNRTCLQLRDYLTT 317 (814)
T ss_pred ccCCCHHHHHHHHHHHHhHHhhhcccCCCCcEEEEEcchHHHHHHHHHHHh
Confidence 4789999999999876544 46899999999999999999965
No 142
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.73 E-value=9.3e-07 Score=109.83 Aligned_cols=126 Identities=18% Similarity=0.265 Sum_probs=87.7
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH-HHHHHHHHHHcC-----C
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL-RNWEREFATWAP-----Q 358 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll-~qW~~E~~~~~p-----~ 358 (1238)
.+...|.- |.+... .|.+.-+..++|+|||.-.+....++...+ ++.+||+|+.+| .|-.+-+.++++ .
T Consensus 82 ~~ws~QR~---WakR~~-rg~SFaiiAPTGvGKTTfg~~~sl~~a~kg-kr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~ 156 (1187)
T COG1110 82 RPWSAQRV---WAKRLV-RGKSFAIIAPTGVGKTTFGLLMSLYLAKKG-KRVYIIVPTTTLVRQVYERLKKFAEDAGSLD 156 (1187)
T ss_pred CchHHHHH---HHHHHH-cCCceEEEcCCCCchhHHHHHHHHHHHhcC-CeEEEEecCHHHHHHHHHHHHHHHhhcCCcc
Confidence 45567765 555444 455554555999999976655555554444 699999997555 677778888873 3
Q ss_pred CcEEEEEcChhHH--HHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecc
Q 000883 359 MNVVMYVGTSQAR--NIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDE 436 (1238)
Q Consensus 359 l~vv~~~g~~~~r--~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDE 436 (1238)
..++ ||+.-..+ ..+.+ +.....|||+|||-..+.+....|.+++|++|+||.
T Consensus 157 ~~~~-yh~~l~~~ekee~le------------------------~i~~gdfdIlitTs~FL~k~~e~L~~~kFdfifVDD 211 (1187)
T COG1110 157 VLVV-YHSALPTKEKEEALE------------------------RIESGDFDILITTSQFLSKRFEELSKLKFDFIFVDD 211 (1187)
T ss_pred eeee-eccccchHHHHHHHH------------------------HHhcCCccEEEEeHHHHHhhHHHhcccCCCEEEEcc
Confidence 3344 88873322 22111 012358999999999999999999999999999999
Q ss_pred cccc
Q 000883 437 GHRL 440 (1238)
Q Consensus 437 aHrl 440 (1238)
+..+
T Consensus 212 VDA~ 215 (1187)
T COG1110 212 VDAI 215 (1187)
T ss_pred HHHH
Confidence 8754
No 143
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.73 E-value=1.7e-07 Score=122.34 Aligned_cols=139 Identities=19% Similarity=0.174 Sum_probs=89.4
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeC-CccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhc
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAP-LSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFY 380 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP-~sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~ 380 (1238)
.+.+|++.+-+|+|||++++-++..+...... .++|||- ..|-.|-..+|..+........ ...+...+++.-
T Consensus 272 ~~~~G~IWHtqGSGKTlTm~~~A~~l~~~~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~---~~~s~~~Lk~~l-- 346 (962)
T COG0610 272 DGKGGYIWHTQGSGKTLTMFKLARLLLELPKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDP---KAESTSELKELL-- 346 (962)
T ss_pred cCCceEEEeecCCchHHHHHHHHHHHHhccCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcc---cccCHHHHHHHH--
Confidence 45679999999999999998887777766333 5677777 4666788999998875443322 222222222210
Q ss_pred CCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcc----cCCCceeEEEecccccccCcccHHHHHHHh-cc
Q 000883 381 FPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS----LKPIKWQCMIVDEGHRLKNKDSKLFSSLKQ-YS 455 (1238)
Q Consensus 381 ~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~----l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~-l~ 455 (1238)
....-.|+|||-+.+...... ...-+.-+||+|||||- ....+.+.++. +.
T Consensus 347 ----------------------~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHRS--Q~G~~~~~~~~~~~ 402 (962)
T COG0610 347 ----------------------EDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHRS--QYGELAKLLKKALK 402 (962)
T ss_pred ----------------------hcCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhhc--cccHHHHHHHHHhc
Confidence 001235999999888654322 22335568999999984 33344444433 34
Q ss_pred cccEEEEecCCCCCC
Q 000883 456 TRHRVLLTGTPLQNN 470 (1238)
Q Consensus 456 ~~~rllLTGTPlqNn 470 (1238)
...-++.||||+...
T Consensus 403 ~a~~~gFTGTPi~~~ 417 (962)
T COG0610 403 KAIFIGFTGTPIFKE 417 (962)
T ss_pred cceEEEeeCCccccc
Confidence 467799999997544
No 144
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.69 E-value=1.6e-07 Score=114.93 Aligned_cols=167 Identities=19% Similarity=0.271 Sum_probs=111.7
Q ss_pred cccccCCCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH-HH
Q 000883 271 FQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN-WE 349 (1238)
Q Consensus 271 ~~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q-W~ 349 (1238)
|.++-..|....+.+|-++|.+|+-.| ..|..+++|.-+-.|||+.|=..++.- ..+..+++--.|...+.| =-
T Consensus 283 f~~lVpe~a~~~pFelD~FQk~Ai~~l----erg~SVFVAAHTSAGKTvVAEYAiala-q~h~TR~iYTSPIKALSNQKf 357 (1248)
T KOG0947|consen 283 FYQLVPEMALIYPFELDTFQKEAIYHL----ERGDSVFVAAHTSAGKTVVAEYAIALA-QKHMTRTIYTSPIKALSNQKF 357 (1248)
T ss_pred HHHhchhHHhhCCCCccHHHHHHHHHH----HcCCeEEEEecCCCCcchHHHHHHHHH-HhhccceEecchhhhhccchH
Confidence 333333444445578999999998665 889999999999999999874333321 223347788889766655 46
Q ss_pred HHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccC
Q 000883 350 REFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLK 425 (1238)
Q Consensus 350 ~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~ 425 (1238)
++|+.-+.+.. +++|+..- ......+|+|-|+++.. ...++
T Consensus 358 RDFk~tF~Dvg--LlTGDvqi---------------------------------nPeAsCLIMTTEILRsMLYrgadliR 402 (1248)
T KOG0947|consen 358 RDFKETFGDVG--LLTGDVQI---------------------------------NPEASCLIMTTEILRSMLYRGADLIR 402 (1248)
T ss_pred HHHHHhccccc--eeecceee---------------------------------CCCcceEeehHHHHHHHHhcccchhh
Confidence 77877665655 56666432 24567899999998763 34455
Q ss_pred CCceeEEEecccccccCcc-cHHHHHHHhccccc--EEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhch
Q 000883 426 PIKWQCMIVDEGHRLKNKD-SKLFSSLKQYSTRH--RVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI 499 (1238)
Q Consensus 426 ~i~w~~vIvDEaHrlKN~~-S~~~~~l~~l~~~~--rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~ 499 (1238)
.+. .||+||+|.+.+.. .-.+..+.-+-.+| -++||||- ++..+|..|.+..
T Consensus 403 DvE--~VIFDEVHYiND~eRGvVWEEViIMlP~HV~~IlLSATV--------------------PN~~EFA~WIGRt 457 (1248)
T KOG0947|consen 403 DVE--FVIFDEVHYINDVERGVVWEEVIIMLPRHVNFILLSATV--------------------PNTLEFADWIGRT 457 (1248)
T ss_pred ccc--eEEEeeeeecccccccccceeeeeeccccceEEEEeccC--------------------CChHHHHHHhhhc
Confidence 555 59999999996643 23444444444444 48999994 3556777777644
No 145
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.69 E-value=2.7e-06 Score=106.33 Aligned_cols=372 Identities=18% Similarity=0.174 Sum_probs=201.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC-CccHHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP-LSTLRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP-~sll~qW~~E~~~~~p~l~vv 362 (1238)
..|-+-|..+++-+..........+|.--+|+|||-.-+.++...+..+ +-+||+|| -++++|-...|+..++ .++.
T Consensus 197 ~~Ln~~Q~~a~~~i~~~~~~~~~~Ll~GvTGSGKTEvYl~~i~~~L~~G-kqvLvLVPEI~Ltpq~~~rf~~rFg-~~v~ 274 (730)
T COG1198 197 LALNQEQQAAVEAILSSLGGFAPFLLDGVTGSGKTEVYLEAIAKVLAQG-KQVLVLVPEIALTPQLLARFKARFG-AKVA 274 (730)
T ss_pred cccCHHHHHHHHHHHHhcccccceeEeCCCCCcHHHHHHHHHHHHHHcC-CEEEEEeccccchHHHHHHHHHHhC-CChh
Confidence 4688899999998876653456689999999999998888888877765 58999999 4889998888888884 8888
Q ss_pred EEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccc--
Q 000883 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRL-- 440 (1238)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrl-- 440 (1238)
++|+.-........ |. +.......|||-|...+-.-.. +-.+|||||=|.-
T Consensus 275 vlHS~Ls~~er~~~--W~--------------------~~~~G~~~vVIGtRSAlF~Pf~-----~LGLIIvDEEHD~sY 327 (730)
T COG1198 275 VLHSGLSPGERYRV--WR--------------------RARRGEARVVIGTRSALFLPFK-----NLGLIIVDEEHDSSY 327 (730)
T ss_pred hhcccCChHHHHHH--HH--------------------HHhcCCceEEEEechhhcCchh-----hccEEEEeccccccc
Confidence 88876544332221 10 0012456789988766532211 3468999999974
Q ss_pred cCcccHHH-----HHHH-hcccccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhchhhHHHHHHHHHhhch
Q 000883 441 KNKDSKLF-----SSLK-QYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAP 514 (1238)
Q Consensus 441 KN~~S~~~-----~~l~-~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~~~~~~~~~L~~~L~p 514 (1238)
|..++-.+ ..++ .......+|=||||- ++-+++. ... .
T Consensus 328 Kq~~~prYhARdvA~~Ra~~~~~pvvLgSATPS---LES~~~~---~~g------------------------------~ 371 (730)
T COG1198 328 KQEDGPRYHARDVAVLRAKKENAPVVLGSATPS---LESYANA---ESG------------------------------K 371 (730)
T ss_pred cCCcCCCcCHHHHHHHHHHHhCCCEEEecCCCC---HHHHHhh---hcC------------------------------c
Confidence 33332211 1111 122345788899992 1111111 000 0
Q ss_pred hhhhhhHhHHhh-cCCCcEEEEEeccCCHHHHHHHHHHHHHHHHHHHhcCCcc-----hhHHHHHHHHHHHhCCcccccC
Q 000883 515 HLLRRVKKDVMK-ELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQ-----ISLINVVMELRKLCCHPYMLEG 588 (1238)
Q Consensus 515 ~~lRR~k~dv~~-~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~-----~~l~~i~~~Lrk~c~hP~L~~~ 588 (1238)
+.+-+++.-... .+|......+.-+....-..+-..+++.....+.++...- ..+... -+.+-|.|..-...
T Consensus 372 y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~geQ~llflnRRGys~~--l~C~~Cg~v~~Cp~ 449 (730)
T COG1198 372 YKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTLERGEQVLLFLNRRGYAPL--LLCRDCGYIAECPN 449 (730)
T ss_pred eEEEEccccccccCCCcceEEeccccccccCccCCHHHHHHHHHHHhcCCeEEEEEccCCccce--eecccCCCcccCCC
Confidence 100011111111 1333222221111111100011222222233333221110 000001 12233444332222
Q ss_pred CCCCccchHHHHHHHHhhhhHHHHH-----HHHHHHHHHcCCeEEEEecc--hhHHHHHHHHHhhCCCcEEEEeCCCCHH
Q 000883 589 VEPDIEDTNESFKQLLESSGKLQLL-----DKMMVKLKEQGHRVLIYSQF--QHMLDLLEDYLTFKKWQYERIDGKVGGA 661 (1238)
Q Consensus 589 ~e~~~~~~~~~~~~li~~S~Kl~~L-----~klL~~l~~~g~KVLIFsq~--~~~ldiL~~~L~~~g~~~~ridG~~~~~ 661 (1238)
-........ ..++|.-= ..+-...-+=|...|++.-. .+..+.|..++. +.++.|+|++++..
T Consensus 450 Cd~~lt~H~--------~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP--~~rv~r~d~Dtt~~ 519 (730)
T COG1198 450 CDSPLTLHK--------ATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFP--GARIIRIDSDTTRR 519 (730)
T ss_pred CCcceEEec--------CCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHHCC--CCcEEEEccccccc
Confidence 111111010 00000000 00000001113445555432 123344444443 78999999998754
Q ss_pred H--HHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC------------ChhhhhHHHHHHhhhCCCCce
Q 000883 662 E--RQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW------------NPHADLQAMARAHRLGQTNKV 727 (1238)
Q Consensus 662 ~--R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW------------Np~~~~Qa~gR~hRiGQ~k~V 727 (1238)
. -..+++.|.++..+ +|+.|....-|.|++....|.++|.|- -.+.+.|..||++|-+-...|
T Consensus 520 k~~~~~~l~~~~~ge~d---ILiGTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~V 596 (730)
T COG1198 520 KGALEDLLDQFANGEAD---ILIGTQMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEV 596 (730)
T ss_pred hhhHHHHHHHHhCCCCC---eeecchhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeE
Confidence 3 46789999987776 899999999999999999998887652 235678999999998766677
Q ss_pred EEEEEecC
Q 000883 728 MIFRLITR 735 (1238)
Q Consensus 728 ~VyrLvt~ 735 (1238)
.|--.-..
T Consensus 597 vIQT~~P~ 604 (730)
T COG1198 597 VIQTYNPD 604 (730)
T ss_pred EEEeCCCC
Confidence 66554433
No 146
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.68 E-value=6.5e-07 Score=114.06 Aligned_cols=158 Identities=19% Similarity=0.251 Sum_probs=106.0
Q ss_pred CCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCC-
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQM- 359 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l- 359 (1238)
.+.+|-|+|.+++.-| ..+.+++++..+|.|||+.+-.++..-...+. ++.-..|. ++-.|=.++|..-+.++
T Consensus 116 ~~F~LD~fQ~~a~~~L----er~esVlV~ApTssGKTvVaeyAi~~al~~~q-rviYTsPIKALsNQKyrdl~~~fgdv~ 190 (1041)
T COG4581 116 YPFELDPFQQEAIAIL----ERGESVLVCAPTSSGKTVVAEYAIALALRDGQ-RVIYTSPIKALSNQKYRDLLAKFGDVA 190 (1041)
T ss_pred CCCCcCHHHHHHHHHH----hCCCcEEEEccCCCCcchHHHHHHHHHHHcCC-ceEeccchhhhhhhHHHHHHHHhhhhh
Confidence 3589999999998766 89999999999999999998776665554443 48888995 55555566665544322
Q ss_pred -cEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccCCCceeEEEe
Q 000883 360 -NVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLKPIKWQCMIV 434 (1238)
Q Consensus 360 -~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~~i~w~~vIv 434 (1238)
-|-+++|+.. -.....++|+|-|.++.. ...+..+. .||+
T Consensus 191 ~~vGL~TGDv~---------------------------------IN~~A~clvMTTEILRnMlyrg~~~~~~i~--~ViF 235 (1041)
T COG4581 191 DMVGLMTGDVS---------------------------------INPDAPCLVMTTEILRNMLYRGSESLRDIE--WVVF 235 (1041)
T ss_pred hhccceeccee---------------------------------eCCCCceEEeeHHHHHHHhccCcccccccc--eEEE
Confidence 2334444432 123556777777888653 34445554 5999
Q ss_pred cccccccCccc-HHHHHHH-hcccc-cEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhch
Q 000883 435 DEGHRLKNKDS-KLFSSLK-QYSTR-HRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI 499 (1238)
Q Consensus 435 DEaHrlKN~~S-~~~~~l~-~l~~~-~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~~ 499 (1238)
||.|.+....- ..+..+. .+... .-++||||- ++..+|.+|+...
T Consensus 236 DEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv--------------------~N~~EF~~Wi~~~ 283 (1041)
T COG4581 236 DEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATV--------------------PNAEEFAEWIQRV 283 (1041)
T ss_pred EeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC--------------------CCHHHHHHHHHhc
Confidence 99999965432 3333333 33333 678999994 5677888887643
No 147
>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain, with weak but significant sequence similarity to the N-terminal chromo domain,[], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1). The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigen and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1. Functional dissections of chromo domain proteins suggests a mechanistic role for chromo domains in targeting chromo domain proteins to specific regions of the nucleus. The mechanism of targeting may involve protein-protein and/or protein/nucleic acid interactions. Hence, several line of evidence show that the HP1 chromo domain is a methyl-specific histone binding module, whereas the chromo domain of two protein components of the drosophila dosage compensation complex, MSL3 and MOF, contain chromo domains that bind to RNA in vitro []. The high resolution structures of HP1-family protein chromo and chromo shadow domain reveal a conserved chromo domain fold motif consisting of three beta strands packed against an alpha helix. The chromo domain fold belongs to the OB (oligonucleotide/oligosaccharide binding)-fold class found in a variety of prokaryotic and eukaryotic nucleic acid binding protein [].; PDB: 2H1E_B 3MWY_W 2DY8_A 1KNE_A 1KNA_A 1Q3L_A 2EE1_A 1AP0_A 1GUW_A 1X3P_A ....
Probab=98.68 E-value=7.6e-09 Score=87.41 Aligned_cols=49 Identities=41% Similarity=0.605 Sum_probs=42.3
Q ss_pred chhhhhhhccCCCce---eEEEeeeccccccccccccCCcCcc-HHHHHHHHh
Q 000883 193 TVDRILACRGEDDEK---EYLVKYKELSYDECYWEYESDISAF-QPEIERFIK 241 (1238)
Q Consensus 193 ~veRIi~~r~~~~~~---eyLVKWkgL~Y~~~tWE~~~~~~~~-~~~i~~~~~ 241 (1238)
+|+|||++|...+.. +|||||+|+||++||||.+..+... +..|++|.+
T Consensus 2 ~Ve~Il~~r~~~~~~~~~~ylVkW~g~~~~~~tWe~~~~l~~~~~~li~~f~~ 54 (55)
T PF00385_consen 2 EVERILDHRVVKGGNKVYEYLVKWKGYPYSENTWEPEENLKNCFPELIEEFEK 54 (55)
T ss_dssp EEEEEEEEEEETTEESEEEEEEEETTSSGGGEEEEEGGGCSSHCHHHHHHHHH
T ss_pred EEEEEEEEEEeCCCcccEEEEEEECCCCCCCCeEeeHHHHhHhhHHHHHHHhC
Confidence 689999999766555 9999999999999999999887654 677999975
No 148
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.66 E-value=1.8e-06 Score=107.90 Aligned_cols=84 Identities=15% Similarity=0.198 Sum_probs=68.1
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCC-CCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGK-VGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~-~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
...|...+.+-+..+.+.|..|||-+..+..-+.|...|...|+++..++.. ...+.-..+|.+ ++..+ .+-|+|
T Consensus 421 ~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~--AG~~G--aVTIAT 496 (939)
T PRK12902 421 EIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQ--AGRKG--AVTIAT 496 (939)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHh--cCCCC--cEEEec
Confidence 4678888988888999999999999999999999999999999999999997 333444556655 33333 468899
Q ss_pred cccccccCc
Q 000883 685 RAGGLGINL 693 (1238)
Q Consensus 685 ragg~GINL 693 (1238)
..+|.|-|+
T Consensus 497 NMAGRGTDI 505 (939)
T PRK12902 497 NMAGRGTDI 505 (939)
T ss_pred cCCCCCcCE
Confidence 999988654
No 149
>PF06465 DUF1087: Domain of Unknown Function (DUF1087); InterPro: IPR009463 This is a group of proteins of unknown function.
Probab=98.62 E-value=4.6e-08 Score=83.25 Aligned_cols=42 Identities=60% Similarity=0.900 Sum_probs=38.1
Q ss_pred ccchhhHHHHHHHHHHHHHHHHhhhcCCCCCCcccccccchh
Q 000883 863 SERSSYWEELLKDRYEVHKVEEFNALGKGKRSRKQMVSVEED 904 (1238)
Q Consensus 863 ~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~ 904 (1238)
..+++||++||+++|+++++++...||||||.||||+|...+
T Consensus 21 ~~~~~yWe~LLr~~ye~~q~e~~~~LGKGKR~RKqV~y~~~~ 62 (66)
T PF06465_consen 21 STDPNYWEKLLRHRYEQQQEEEEKALGKGKRSRKQVNYAEED 62 (66)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHhcccccccccccccccc
Confidence 458999999999999999999999999999999999986543
No 150
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.61 E-value=3.5e-06 Score=106.41 Aligned_cols=120 Identities=18% Similarity=0.235 Sum_probs=98.0
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
...|+..+.+-+..+.+.|..|||-+.++..-++|..+|..+|+++..+....- +.-.++|.+= +..+ .+-|+|.
T Consensus 610 ~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h-~~EAeIVA~A--G~~G--aVTIATN 684 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLH-QKEAEIVAEA--GQPG--TVTIATN 684 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccch-hhHHHHHHhc--CCCC--cEEEecc
Confidence 467899999999999999999999999999999999999999999999887643 3334455442 3333 4689999
Q ss_pred ccccccCcC--------CCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEE
Q 000883 686 AGGLGINLA--------TADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIF 730 (1238)
Q Consensus 686 agg~GINL~--------~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~Vy 730 (1238)
.+|.|.++. ..=+||.-..+-|...+.|..||++|.|..-....|
T Consensus 685 MAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~ 737 (1112)
T PRK12901 685 MAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFY 737 (1112)
T ss_pred CcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEE
Confidence 999998875 334889999999999999999999999987655444
No 151
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.59 E-value=1.1e-08 Score=108.28 Aligned_cols=50 Identities=48% Similarity=1.133 Sum_probs=44.7
Q ss_pred cccccccccCCCC---eeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCC
Q 000883 50 KDDSCQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPL 99 (1238)
Q Consensus 50 ~~~~C~~C~~~~~---ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 99 (1238)
.+.+|.+||.+++ ||+||.|++.||++||.||+..+|+|.|.|..|....
T Consensus 280 eck~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~ 332 (336)
T KOG1244|consen 280 ECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEEL 332 (336)
T ss_pred ecceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHH
Confidence 3578999997654 9999999999999999999999999999999998644
No 152
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.52 E-value=3.1e-06 Score=108.65 Aligned_cols=71 Identities=20% Similarity=0.217 Sum_probs=57.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh-CC-CCCeEEEeCC-ccHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG-ER-ISPHLVVAPL-STLRNWEREFAT 354 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~-~~-~~p~LIVvP~-sll~qW~~E~~~ 354 (1238)
..+||.|.+.+..+...+..+++++|-.++|+|||+.+|+....... .+ ..+++..+.+ +.+.|-.+|+++
T Consensus 9 ~~~y~~Q~~~m~~v~~~l~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~~~~kIiy~sRThsQl~q~i~Elk~ 82 (705)
T TIGR00604 9 EKIYPEQRSYMRDLKRSLDRGDEAILEMPSGTGKTISLLSLILAYQQEKPEVRKIIYASRTHSQLEQATEELRK 82 (705)
T ss_pred CCCCHHHHHHHHHHHHHhccCCceEEeCCCCCCccHHHHHHHHHHHHhccccccEEEEcccchHHHHHHHHHHh
Confidence 45799999999999999999999999999999999998776655444 22 2356666664 677899999988
No 153
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.49 E-value=1.2e-05 Score=104.00 Aligned_cols=89 Identities=17% Similarity=0.152 Sum_probs=62.9
Q ss_pred HHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccC
Q 000883 613 LDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGIN 692 (1238)
Q Consensus 613 L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GIN 692 (1238)
+.+.|..+...+.++||+..+..+++.+.+.|....++. ...|... .|..++++|...+.. +|+.|.+..+|||
T Consensus 636 ~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~---vLlG~~sFwEGVD 709 (820)
T PRK07246 636 IAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQ---ILLGLGSFWEGVD 709 (820)
T ss_pred HHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCe---EEEecchhhCCCC
Confidence 344444444567789998888899998888887655444 5556433 356789999874443 7888999999999
Q ss_pred cC--CCCEEEEEcCCCC
Q 000883 693 LA--TADTVIIYDSDWN 707 (1238)
Q Consensus 693 L~--~Ad~VIi~D~dWN 707 (1238)
++ .+..|||.-.|+-
T Consensus 710 ~p~~~~~~viI~kLPF~ 726 (820)
T PRK07246 710 FVQADRMIEVITRLPFD 726 (820)
T ss_pred CCCCCeEEEEEecCCCC
Confidence 97 3566778775643
No 154
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.48 E-value=3.8e-08 Score=116.56 Aligned_cols=49 Identities=45% Similarity=1.065 Sum_probs=43.8
Q ss_pred ccccccccCCCCe---eecCCCCCccccCcCCCCC--CCCCCCCCCCCccCCCC
Q 000883 51 DDSCQACGESENL---MSCDTCTYAYHAKCLVPPL--KAPPSGSWRCPECVSPL 99 (1238)
Q Consensus 51 ~~~C~~C~~~~~l---l~C~~C~~~~H~~Cl~p~l--~~~p~~~W~C~~C~~~~ 99 (1238)
+++|..|++.|.. ++||+|+++||+.||.||+ ..+|.|.|+|++|....
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~ 306 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKS 306 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeee
Confidence 4599999999875 9999999999999999995 67899999999998643
No 155
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.45 E-value=1.7e-05 Score=95.46 Aligned_cols=242 Identities=17% Similarity=0.228 Sum_probs=133.0
Q ss_pred CCCCCCCCCCCcHHHHHHHHHHHHhhcC------CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEE-eCCccHHHH
Q 000883 276 HSPEFLSGGSLHPYQLEGLNFLRFSWSK------QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVV-APLSTLRNW 348 (1238)
Q Consensus 276 ~~P~~~~~~~LrpyQlegv~wL~~~~~~------~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIV-vP~sll~qW 348 (1238)
..|. +..+-|...|+++|-+....... .-|.+|.|..|.||--++..+|..-+-.+.++.|.+ |.+.+-..-
T Consensus 256 alP~-i~sg~lSALQLEav~YAcQ~He~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLkGRKrAlW~SVSsDLKfDA 334 (1300)
T KOG1513|consen 256 ALPS-IDSGHLSALQLEAVTYACQAHEVLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLKGRKRALWFSVSSDLKFDA 334 (1300)
T ss_pred eccc-CcccchhHHHHHHHHHHHhhhhhcCCCCccceeeeccCcccCCCceeEEEEehhhhcccceeEEEEeccccccch
Confidence 4454 55688999999999987554432 335789999999987666555544333444455544 555666666
Q ss_pred HHHHHHHc-CCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc-----
Q 000883 349 EREFATWA-PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA----- 422 (1238)
Q Consensus 349 ~~E~~~~~-p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~----- 422 (1238)
++.+.... +.+.|..+..- +.+++ ....+...+-.|++.||..+.-+..
T Consensus 335 ERDL~DigA~~I~V~alnK~------------------------KYakI-ss~en~n~krGViFaTYtaLIGEs~~~~~k 389 (1300)
T KOG1513|consen 335 ERDLRDIGATGIAVHALNKF------------------------KYAKI-SSKENTNTKRGVIFATYTALIGESQGKGGK 389 (1300)
T ss_pred hhchhhcCCCCccceehhhc------------------------ccccc-cccccCCccceeEEEeeHhhhhhccccCch
Confidence 67666543 33333222110 00100 0111233566799999999865422
Q ss_pred ---ccCC-Cce------eEEEecccccccC-------cccHHHHHHHhcc----cccEEEEecCCCCCCHHHHHHHHhhh
Q 000883 423 ---SLKP-IKW------QCMIVDEGHRLKN-------KDSKLFSSLKQYS----TRHRVLLTGTPLQNNLDELFMLMHFL 481 (1238)
Q Consensus 423 ---~l~~-i~w------~~vIvDEaHrlKN-------~~S~~~~~l~~l~----~~~rllLTGTPlqNn~~EL~~ll~fL 481 (1238)
.|.. +.| .+||+||||+.|| ..++.-+.+..++ ..+.+..|||-... =-++.-+.
T Consensus 390 yrtR~rQllqW~Ge~feGvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGAsE----PrNMaYM~ 465 (1300)
T KOG1513|consen 390 YRTRFRQLLQWCGEDFEGVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGASE----PRNMAYMV 465 (1300)
T ss_pred HHHHHHHHHHHhhhccceeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCCCC----cchhhhhh
Confidence 2222 244 4899999999999 3456666665553 45667788885321 12222223
Q ss_pred cC------CCCCChHHHHHHHhchh--hHHHHHHHHHhhchhhhhhhHhHHhhcCCCcEEEEEeccCCHHHHHHHHHHHH
Q 000883 482 DA------GKFGSLEEFQEEFKDIN--QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILT 553 (1238)
Q Consensus 482 ~p------~~f~~~~~F~~~~~~~~--~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~ 553 (1238)
.. ..|+++.+|......-. ..+.+. ..-.++...+-|-- .+-.....+-.|+|+++=++.|..-..
T Consensus 466 RLGlWGegtaf~eF~eFi~AvEkRGvGAMEIVA-MDMK~rGmYiARQL-----SFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 466 RLGLWGEGTAFPEFEEFIHAVEKRGVGAMEIVA-MDMKLRGMYIARQL-----SFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred hhccccCCCcCccHHHHHHHHHhcCCceeeeee-hhhhhhhhhhhhhc-----cccCceEEEEecccCHHHHHHHHHHHH
Confidence 33 34566666655442210 011110 00111222222211 233455678889999999999986544
No 156
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.43 E-value=5.4e-05 Score=99.83 Aligned_cols=90 Identities=14% Similarity=0.187 Sum_probs=64.6
Q ss_pred CCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH--HHHHH---HH
Q 000883 280 FLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN--WEREF---AT 354 (1238)
Q Consensus 280 ~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q--W~~E~---~~ 354 (1238)
.+.+.+.||-|.+-++.+...+..+...++-..+|+|||+..+.-+.........|++|.+++..+.+ +.+++ .+
T Consensus 252 ~~~~~e~R~~Q~~m~~~v~~~l~~~~~~~iEA~TGtGKTlaYLlpa~~~a~~~~~~vvIsT~T~~LQ~Ql~~kDiP~L~~ 331 (928)
T PRK08074 252 AMPKYEKREGQQEMMKEVYTALRDSEHALIEAGTGTGKSLAYLLPAAYFAKKKEEPVVISTYTIQLQQQLLEKDIPLLQK 331 (928)
T ss_pred hCCCCcCCHHHHHHHHHHHHHHhcCCCEEEECCCCCchhHHHHHHHHHHhhccCCeEEEEcCCHHHHHHHHHhhHHHHHH
Confidence 34567899999999988888888888888889999999988755444333334468999999766654 34443 44
Q ss_pred HcC-CCcEEEEEcChh
Q 000883 355 WAP-QMNVVMYVGTSQ 369 (1238)
Q Consensus 355 ~~p-~l~vv~~~g~~~ 369 (1238)
.+| ++++++..|...
T Consensus 332 ~~~~~~~~~~lKGr~n 347 (928)
T PRK08074 332 IFPFPVEAALLKGRSH 347 (928)
T ss_pred HcCCCceEEEEEcccc
Confidence 443 567777776553
No 157
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.39 E-value=4.9e-06 Score=88.47 Aligned_cols=45 Identities=29% Similarity=0.440 Sum_probs=42.7
Q ss_pred EeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCC
Q 000883 681 LLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTN 725 (1238)
Q Consensus 681 LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k 725 (1238)
|++|...|.|+++...+.||.||.+-.+..++.+.+||+|.|.+.
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 788999999999999999999999999999999999999999654
No 158
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=98.35 E-value=0.00021 Score=89.09 Aligned_cols=79 Identities=15% Similarity=0.084 Sum_probs=58.2
Q ss_pred HHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHH-HHhhCCCCCeEEEeCC-ccHHHHHHHHHHHc-----CCCcEE
Q 000883 290 QLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLA-SLFGERISPHLVVAPL-STLRNWEREFATWA-----PQMNVV 362 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~-~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~-----p~l~vv 362 (1238)
|.+-+..+...+..+...++-..+|+|||+..+.-+. ++......++||++|+ .+..|+.+++.... ..++++
T Consensus 2 Q~~~~~~i~~al~~~~~lliEA~TGtGKTlAYLlpal~~~~~~~~~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~ 81 (636)
T TIGR03117 2 QALFYLNCLTSLRQKRIGMLEASTGVGKTLAMIMAALTMLKERPDQKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAG 81 (636)
T ss_pred HHHHHHHHHHHHhcCCeEEEEcCCCCcHHHHHHHHHHHHHHhccCceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEE
Confidence 7777888888888888889999999999988765543 3332334699999996 56678888876554 256677
Q ss_pred EEEcCh
Q 000883 363 MYVGTS 368 (1238)
Q Consensus 363 ~~~g~~ 368 (1238)
+..|..
T Consensus 82 ~lkGr~ 87 (636)
T TIGR03117 82 FFPGSQ 87 (636)
T ss_pred EEECCc
Confidence 766654
No 159
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.32 E-value=3.8e-05 Score=98.35 Aligned_cols=81 Identities=16% Similarity=0.164 Sum_probs=62.6
Q ss_pred HHcCCeEEEEecchhHHHHHHHHHhhCCCc-EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCC--CC
Q 000883 621 KEQGHRVLIYSQFQHMLDLLEDYLTFKKWQ-YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLAT--AD 697 (1238)
Q Consensus 621 ~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~-~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~--Ad 697 (1238)
...+.++|||...-.++..+.+.|...... .....|..+ +...++.|.+.... .|++.+....+|||++. +.
T Consensus 476 ~~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~--~~lv~~gsf~EGVD~~g~~l~ 550 (654)
T COG1199 476 KASPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEG--LILVGGGSFWEGVDFPGDALR 550 (654)
T ss_pred hhcCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCC--eEEEeeccccCcccCCCCCee
Confidence 344558999999999999999999866553 444445443 34889999887664 48999999999999985 58
Q ss_pred EEEEEcCCC
Q 000883 698 TVIIYDSDW 706 (1238)
Q Consensus 698 ~VIi~D~dW 706 (1238)
.|||.-.||
T Consensus 551 ~vvI~~lPf 559 (654)
T COG1199 551 LVVIVGLPF 559 (654)
T ss_pred EEEEEecCC
Confidence 899987777
No 160
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.31 E-value=6.7e-06 Score=104.79 Aligned_cols=143 Identities=18% Similarity=0.288 Sum_probs=90.5
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeCCccHH-HHHHH---------HHHHcCC--CcEEEEEcChh--
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAPLSTLR-NWERE---------FATWAPQ--MNVVMYVGTSQ-- 369 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP~sll~-qW~~E---------~~~~~p~--l~vv~~~g~~~-- 369 (1238)
.+..+.+++|+|||.+++..+.+|... +...+|||||...+. ....- |...+++ +...+|.+.+.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~~k 139 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDKKK 139 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcccc
Confidence 467899999999999999999998775 556999999975442 22222 2222222 34445543321
Q ss_pred -HH----HHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhc--cc------C--CCce-----
Q 000883 370 -AR----NIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SL------K--PIKW----- 429 (1238)
Q Consensus 370 -~r----~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~--~l------~--~i~w----- 429 (1238)
.| ..++.+- . .........+|+|+|.+++.++.. .. . ..+|
T Consensus 140 ~gr~~~~~~i~~Fa---~----------------~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~ 200 (986)
T PRK15483 140 SGRKNFPAQLSNFV---K----------------ASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAA 200 (986)
T ss_pred cccccChHHHHHHH---h----------------ccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHh
Confidence 11 1122210 0 000112356899999999976421 11 1 1234
Q ss_pred --eEEEecccccccCcccHHHHHHHhcccccEEEEecCCC
Q 000883 430 --QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPL 467 (1238)
Q Consensus 430 --~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPl 467 (1238)
-+||+||+|++.. ..+.+.++..++..+.|.-|||--
T Consensus 201 ~~PivIiDEPh~~~~-~~k~~~~i~~lnpl~~lrysAT~~ 239 (986)
T PRK15483 201 TRPVVIIDEPHRFPR-DNKFYQAIEALKPQMIIRFGATFP 239 (986)
T ss_pred CCCEEEEECCCCCCc-chHHHHHHHhcCcccEEEEeeecC
Confidence 3899999999966 235668889999999999999963
No 161
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=98.30 E-value=4e-05 Score=95.28 Aligned_cols=114 Identities=11% Similarity=0.293 Sum_probs=82.7
Q ss_pred hhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccc
Q 000883 607 SGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRA 686 (1238)
Q Consensus 607 S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStra 686 (1238)
+....+...|+..|. .|++|-|||....+.+++++++...+.++..++|..+..+. +.+ ..+-+++=|.+
T Consensus 266 ~~~~tF~~~L~~~L~-~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~dv----~~W-----~~~~VviYT~~ 335 (824)
T PF02399_consen 266 NDETTFFSELLARLN-AGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLEDV----ESW-----KKYDVVIYTPV 335 (824)
T ss_pred cchhhHHHHHHHHHh-CCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcccc----ccc-----cceeEEEEece
Confidence 334456666666654 69999999999999999999999989999999887765522 222 23446788888
Q ss_pred cccccCcCC--CCEEEEE--cCCCChhh--hhHHHHHHhhhCCCCceEEEE
Q 000883 687 GGLGINLAT--ADTVIIY--DSDWNPHA--DLQAMARAHRLGQTNKVMIFR 731 (1238)
Q Consensus 687 gg~GINL~~--Ad~VIi~--D~dWNp~~--~~Qa~gR~hRiGQ~k~V~Vyr 731 (1238)
...|+++-. .|.|..| ....-|.. ..|.+||+..+.. +++.||.
T Consensus 336 itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~-~ei~v~~ 385 (824)
T PF02399_consen 336 ITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLD-NEIYVYI 385 (824)
T ss_pred EEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhcc-CeEEEEE
Confidence 888888864 5667666 33344554 5899999988874 4455554
No 162
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=98.28 E-value=0.00016 Score=89.56 Aligned_cols=161 Identities=19% Similarity=0.205 Sum_probs=107.0
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeCC-ccHHHHHHHHHH-H-cCCCcE
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAPL-STLRNWEREFAT-W-APQMNV 361 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP~-sll~qW~~E~~~-~-~p~l~v 361 (1238)
.-.+|.+-+.-+ ..+..++|..++-.|||...--++...+.. ..+-++-|+|. +++.|-..++.. + ++.++.
T Consensus 512 Pd~WQ~elLDsv----Dr~eSavIVAPTSaGKTfisfY~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~r 587 (1330)
T KOG0949|consen 512 PDEWQRELLDSV----DRNESAVIVAPTSAGKTFISFYAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLR 587 (1330)
T ss_pred CcHHHHHHhhhh----hcccceEEEeeccCCceeccHHHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCcccc
Confidence 345787766543 788999999999999999988888777664 45689999995 666666666543 2 222221
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcc----cCCC-ceeEEEecc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS----LKPI-KWQCMIVDE 436 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~----l~~i-~w~~vIvDE 436 (1238)
.+ .-.-..-++|. .....++|+||-++.+..-.-. ..-+ +..+||+||
T Consensus 588 g~----sl~g~ltqEYs-----------------------inp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDE 640 (1330)
T KOG0949|consen 588 GV----SLLGDLTQEYS-----------------------INPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDE 640 (1330)
T ss_pred ch----hhHhhhhHHhc-----------------------CCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEech
Confidence 11 11111122221 1235789999999887542111 1111 346999999
Q ss_pred cccccCc-ccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHh
Q 000883 437 GHRLKNK-DSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMH 479 (1238)
Q Consensus 437 aHrlKN~-~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~ 479 (1238)
+|.+.|. .+.....+..+...--|+|||| ++|+..+..-++
T Consensus 641 VH~iG~~ed~l~~Eqll~li~CP~L~LSAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 641 VHLIGNEEDGLLWEQLLLLIPCPFLVLSAT--IGNPNLFQKWLN 682 (1330)
T ss_pred hhhccccccchHHHHHHHhcCCCeeEEecc--cCCHHHHHHHHH
Confidence 9999885 5667777777777788999999 577777776666
No 163
>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Probab=98.22 E-value=6.4e-07 Score=75.55 Aligned_cols=49 Identities=41% Similarity=0.650 Sum_probs=41.4
Q ss_pred chhhhhhhccCC--CceeEEEeeeccccccccccccCCcCccHHHHHHHHh
Q 000883 193 TVDRILACRGED--DEKEYLVKYKELSYDECYWEYESDISAFQPEIERFIK 241 (1238)
Q Consensus 193 ~veRIi~~r~~~--~~~eyLVKWkgL~Y~~~tWE~~~~~~~~~~~i~~~~~ 241 (1238)
.|++||++|... +..+|||||+|++|++||||....+......+++|..
T Consensus 4 ~ve~Il~~r~~~~~~~~~y~VkW~g~~~~~~tWe~~~~l~~~~~~i~~~~~ 54 (55)
T cd00024 4 EVEKILDHRKKKDGGEYEYLVKWKGYSYSEDTWEPEENLEDCKELIDEFKK 54 (55)
T ss_pred eEeeeeeeeecCCCCcEEEEEEECCCCCccCccccHHHhCchHHHHHHHHh
Confidence 469999999776 7899999999999999999998877655677887763
No 164
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.14 E-value=0.00036 Score=89.39 Aligned_cols=88 Identities=16% Similarity=0.243 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC-CCcEEEEeCCCCHHHHHHHHHHHhc----CCCCceEEEeeccc
Q 000883 612 LLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFNA----KNSSRFCFLLSTRA 686 (1238)
Q Consensus 612 ~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~I~~Fn~----~~s~~~v~LlStra 686 (1238)
.+.+.|..+...+.++|||.....+++.+.+.|... ++. +.+.|. ..|.++++.|.+ ++. .+|+.+..
T Consensus 522 ~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~---~VL~g~~s 594 (697)
T PRK11747 522 EMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEG---SVLFGLQS 594 (697)
T ss_pred HHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCC---eEEEEecc
Confidence 344444444445556888888888888888888642 333 344553 357788877764 222 36778889
Q ss_pred cccccCcCC--CCEEEEEcCCC
Q 000883 687 GGLGINLAT--ADTVIIYDSDW 706 (1238)
Q Consensus 687 gg~GINL~~--Ad~VIi~D~dW 706 (1238)
..+|||++. +..|||.-.|+
T Consensus 595 f~EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 595 FAEGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred ccccccCCCCceEEEEEEcCCC
Confidence 999999985 78999988776
No 165
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=98.13 E-value=1.1e-05 Score=97.02 Aligned_cols=152 Identities=20% Similarity=0.300 Sum_probs=100.6
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH-HHHHHHHhhCCCCCeEEEeCCccH-HHHHHHHHHHcCCCcE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS-IAFLASLFGERISPHLVVAPLSTL-RNWEREFATWAPQMNV 361 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa-ia~l~~l~~~~~~p~LIVvP~sll-~qW~~E~~~~~p~l~v 361 (1238)
.+|-|+|..++. +..++..+++..-+..|||+.| .|++..|+... +++--.|-..| .|=.+|+..-+.+ |
T Consensus 128 F~LDpFQ~~aI~----Cidr~eSVLVSAHTSAGKTVVAeYAIA~sLr~kQ--RVIYTSPIKALSNQKYREl~~EF~D--V 199 (1041)
T KOG0948|consen 128 FTLDPFQSTAIK----CIDRGESVLVSAHTSAGKTVVAEYAIAMSLREKQ--RVIYTSPIKALSNQKYRELLEEFKD--V 199 (1041)
T ss_pred cccCchHhhhhh----hhcCCceEEEEeecCCCcchHHHHHHHHHHHhcC--eEEeeChhhhhcchhHHHHHHHhcc--c
Confidence 579999999976 4489999999999999999987 55555665543 67777885555 4556777654433 2
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccCCCceeEEEeccc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLKPIKWQCMIVDEG 437 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~~i~w~~vIvDEa 437 (1238)
-..+|+-. -.+....+|+|-++++.. ....+.+.| ||+||.
T Consensus 200 GLMTGDVT---------------------------------InP~ASCLVMTTEILRsMLYRGSEvmrEVaW--VIFDEI 244 (1041)
T KOG0948|consen 200 GLMTGDVT---------------------------------INPDASCLVMTTEILRSMLYRGSEVMREVAW--VIFDEI 244 (1041)
T ss_pred ceeeccee---------------------------------eCCCCceeeeHHHHHHHHHhccchHhheeee--EEeeee
Confidence 23344321 113556789999988653 455666777 999999
Q ss_pred ccccCcccH-HH-HHHHhccc-ccEEEEecCCCCCCHHHHHHHHhhhcCCCCCChHHHHHHHhc
Q 000883 438 HRLKNKDSK-LF-SSLKQYST-RHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKD 498 (1238)
Q Consensus 438 HrlKN~~S~-~~-~~l~~l~~-~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~~~~ 498 (1238)
|.++....- .+ ..+.-+.. -+-+.||||- ++..+|.+|...
T Consensus 245 HYMRDkERGVVWEETIIllP~~vr~VFLSATi--------------------PNA~qFAeWI~~ 288 (1041)
T KOG0948|consen 245 HYMRDKERGVVWEETIILLPDNVRFVFLSATI--------------------PNARQFAEWICH 288 (1041)
T ss_pred hhccccccceeeeeeEEeccccceEEEEeccC--------------------CCHHHHHHHHHH
Confidence 999864421 11 11222232 2457899993 466778777654
No 166
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.12 E-value=1.4e-05 Score=79.99 Aligned_cols=130 Identities=18% Similarity=0.153 Sum_probs=71.9
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcC
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYF 381 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~ 381 (1238)
.++.-.+|-.-.|.|||-..+--+..-.-....++||+.|.-.+ .+|+.+...+..+ -++.....+.
T Consensus 2 ~kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvv---a~em~~aL~~~~~-~~~t~~~~~~--------- 68 (148)
T PF07652_consen 2 RKGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVV---AEEMYEALKGLPV-RFHTNARMRT--------- 68 (148)
T ss_dssp STTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHH---HHHHHHHTTTSSE-EEESTTSS-----------
T ss_pred CCCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHH---HHHHHHHHhcCCc-ccCceeeecc---------
Confidence 45666789999999999987654332222233599999998776 3566665555553 2222211110
Q ss_pred CCCchhhhccccCccccccccccccccEEEecHHHHHhh-hcccCCCceeEEEecccccccCcccHHHHH-HHhcc-c--
Q 000883 382 PKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD-SASLKPIKWQCMIVDEGHRLKNKDSKLFSS-LKQYS-T-- 456 (1238)
Q Consensus 382 ~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d-~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~-l~~l~-~-- 456 (1238)
....--|-+++|.++... .......+|++||+||||-. ...|..... +..+. .
T Consensus 69 ---------------------~~g~~~i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~ 126 (148)
T PF07652_consen 69 ---------------------HFGSSIIDVMCHATYGHFLLNPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGE 126 (148)
T ss_dssp -----------------------SSSSEEEEEHHHHHHHHHTSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS
T ss_pred ---------------------ccCCCcccccccHHHHHHhcCcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccC
Confidence 112334777888887653 23444568999999999963 444433332 23332 1
Q ss_pred ccEEEEecCC
Q 000883 457 RHRVLLTGTP 466 (1238)
Q Consensus 457 ~~rllLTGTP 466 (1238)
...+++||||
T Consensus 127 ~~~i~mTATP 136 (148)
T PF07652_consen 127 AKVIFMTATP 136 (148)
T ss_dssp -EEEEEESS-
T ss_pred eeEEEEeCCC
Confidence 2578999999
No 167
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=98.07 E-value=0.00026 Score=85.62 Aligned_cols=108 Identities=21% Similarity=0.263 Sum_probs=78.0
Q ss_pred eEEEEecchhHHHHHHHHHhh----CCC----cEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCC
Q 000883 626 RVLIYSQFQHMLDLLEDYLTF----KKW----QYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATAD 697 (1238)
Q Consensus 626 KVLIFsq~~~~ldiL~~~L~~----~g~----~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad 697 (1238)
-+|||=.-...++.+.+.|.. .+- -+.-+.|+.+.++...+ |...+.+..-+++||..+...|.+...-
T Consensus 260 DILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~GI~ 336 (674)
T KOG0922|consen 260 DILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTIDGIR 336 (674)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEecceE
Confidence 588887776666555555543 221 24568899988765444 7666655556899999999999999987
Q ss_pred EEEEEcC------CCChh-----------hhhHHHHHHhhhCCCCceEEEEEecCCCH
Q 000883 698 TVIIYDS------DWNPH-----------ADLQAMARAHRLGQTNKVMIFRLITRGSI 738 (1238)
Q Consensus 698 ~VIi~D~------dWNp~-----------~~~Qa~gR~hRiGQ~k~V~VyrLvt~~Tv 738 (1238)
.|| |+ -|||. .-.||.-|++|-|.+.+..+|||+++.-+
T Consensus 337 YVV--DsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~ 392 (674)
T KOG0922|consen 337 YVV--DSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAY 392 (674)
T ss_pred EEE--cCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHH
Confidence 775 44 24442 44688888888888999999999998766
No 168
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.04 E-value=2e-06 Score=102.72 Aligned_cols=48 Identities=33% Similarity=0.879 Sum_probs=42.4
Q ss_pred ccccccccCCC---CeeecCCCCCc-cccCcCCCCCCCCCCCCCCCCccCCC
Q 000883 51 DDSCQACGESE---NLMSCDTCTYA-YHAKCLVPPLKAPPSGSWRCPECVSP 98 (1238)
Q Consensus 51 ~~~C~~C~~~~---~ll~C~~C~~~-~H~~Cl~p~l~~~p~~~W~C~~C~~~ 98 (1238)
..-|.+|...+ .||+||.|..+ ||++||+|++-.+|-+.|+|++|...
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred cccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence 35688888764 39999999999 99999999999999999999999853
No 169
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=98.02 E-value=0.00036 Score=88.78 Aligned_cols=129 Identities=19% Similarity=0.268 Sum_probs=88.0
Q ss_pred hHHHHHHHHHHHHHHc--CCeEEEEecchhHHHHHHHHHh----hCC---CcEEEEeCCCCHHHHHHHHHHHhcCCCCce
Q 000883 608 GKLQLLDKMMVKLKEQ--GHRVLIYSQFQHMLDLLEDYLT----FKK---WQYERIDGKVGGAERQIRIDRFNAKNSSRF 678 (1238)
Q Consensus 608 ~Kl~~L~klL~~l~~~--g~KVLIFsq~~~~ldiL~~~L~----~~g---~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~ 678 (1238)
-...++..++..+.+. ...+|||-.-..-+..+.+.|. ... +-...++++++..+.+.+ |+.+..+..
T Consensus 395 id~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~g~R 471 (924)
T KOG0920|consen 395 IDYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPKGTR 471 (924)
T ss_pred ccHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCCCcc
Confidence 3455566666655544 3589999887776666666664 232 556778999998776655 888888777
Q ss_pred EEEeeccccccccCcCCCCEEE--------EEcCCCC----------hhhhhHHHHHHhhhCCCCceEEEEEecCCCHHH
Q 000883 679 CFLLSTRAGGLGINLATADTVI--------IYDSDWN----------PHADLQAMARAHRLGQTNKVMIFRLITRGSIEE 740 (1238)
Q Consensus 679 v~LlStragg~GINL~~Ad~VI--------i~D~dWN----------p~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE 740 (1238)
-++++|..+..+|++.++-.|| .||+.-| -++-.||.|||+| ..+-.+|+|+++.-.+.
T Consensus 472 KIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~~~~ 548 (924)
T KOG0920|consen 472 KIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSRYEK 548 (924)
T ss_pred hhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhhhhh
Confidence 7899999999999998876665 3444222 2233466666655 67788999998875554
Q ss_pred HH
Q 000883 741 RM 742 (1238)
Q Consensus 741 ~I 742 (1238)
.+
T Consensus 549 ~~ 550 (924)
T KOG0920|consen 549 LM 550 (924)
T ss_pred cc
Confidence 33
No 170
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.99 E-value=0.00015 Score=86.64 Aligned_cols=94 Identities=18% Similarity=0.205 Sum_probs=65.4
Q ss_pred CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEc----CCCChh-----------hhh
Q 000883 648 KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYD----SDWNPH-----------ADL 712 (1238)
Q Consensus 648 g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D----~dWNp~-----------~~~ 712 (1238)
++.+.-|....+.....+ -|+....+..-++++|..+.+.|.++..-.||=.- .-+||. .-.
T Consensus 597 ~L~vlpiYSQLp~dlQ~k---iFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~A 673 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQAK---IFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQA 673 (1042)
T ss_pred ceEEEeehhhCchhhhhh---hcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechhc
Confidence 455666666666543333 37755556566899999999999999988887321 123433 334
Q ss_pred HHHHHHhhhCCCCceEEEEEecCCCHHHHHHH
Q 000883 713 QAMARAHRLGQTNKVMIFRLITRGSIEERMMQ 744 (1238)
Q Consensus 713 Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~ 744 (1238)
||-.|++|.|.+.+-..|||+|++++...|+.
T Consensus 674 nA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~ 705 (1042)
T KOG0924|consen 674 NADQRAGRAGRTGPGTCYRLYTEDAYKNEMLP 705 (1042)
T ss_pred cchhhccccCCCCCcceeeehhhhHHHhhccc
Confidence 56667777777889999999999998888764
No 171
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.99 E-value=4.2e-05 Score=87.53 Aligned_cols=72 Identities=17% Similarity=0.088 Sum_probs=53.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHH-HHhhCCC----CCeEEEeCCc-cHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLA-SLFGERI----SPHLVVAPLS-TLRNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~-~l~~~~~----~p~LIVvP~s-ll~qW~~E~~~~ 355 (1238)
.+.||.|++-+.-+...+..+..+|+-.++|+|||+..+..+. ++..... .++++++++. .+.+=..++++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00488 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 3469999999999988999999999999999999999877664 3333332 2778888753 334445555554
No 172
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.99 E-value=4.2e-05 Score=87.53 Aligned_cols=72 Identities=17% Similarity=0.088 Sum_probs=53.1
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHH-HHhhCCC----CCeEEEeCCc-cHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLA-SLFGERI----SPHLVVAPLS-TLRNWEREFATW 355 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~-~l~~~~~----~p~LIVvP~s-ll~qW~~E~~~~ 355 (1238)
.+.||.|++-+.-+...+..+..+|+-.++|+|||+..+..+. ++..... .++++++++. .+.+=..++++.
T Consensus 7 y~~r~~Q~~~m~~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~~ 84 (289)
T smart00489 7 YEPYPIQYEFMEELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRKL 84 (289)
T ss_pred CCCCHHHHHHHHHHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHhc
Confidence 3469999999999988999999999999999999999877664 3333332 2778888753 334445555554
No 173
>smart00298 CHROMO Chromatin organization modifier domain.
Probab=97.98 E-value=3e-06 Score=71.33 Aligned_cols=49 Identities=37% Similarity=0.630 Sum_probs=41.6
Q ss_pred chhhhhhhc-cCCCceeEEEeeeccccccccccccCCcCccHHHHHHHHh
Q 000883 193 TVDRILACR-GEDDEKEYLVKYKELSYDECYWEYESDISAFQPEIERFIK 241 (1238)
Q Consensus 193 ~veRIi~~r-~~~~~~eyLVKWkgL~Y~~~tWE~~~~~~~~~~~i~~~~~ 241 (1238)
.|++||++| ...+..+|||||+|++|.++||+....+..+...+.+|..
T Consensus 3 ~v~~Il~~r~~~~~~~~ylVkW~g~~~~~~tW~~~~~l~~~~~~v~~~~~ 52 (55)
T smart00298 3 EVEKILDHRWKKKGELEYLVKWKGYSYSEDTWEPEENLLNCSKKLDNYKK 52 (55)
T ss_pred chheeeeeeecCCCcEEEEEEECCCCCccCceeeHHHHHHHHHHHHHHHH
Confidence 389999999 7778899999999999999999988766545677777765
No 174
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=97.98 E-value=2.1e-06 Score=71.23 Aligned_cols=44 Identities=43% Similarity=1.192 Sum_probs=37.5
Q ss_pred ccccccC---CCCeeecCCCCCccccCcCCCCCC--CCCCCCCCCCccC
Q 000883 53 SCQACGE---SENLMSCDTCTYAYHAKCLVPPLK--APPSGSWRCPECV 96 (1238)
Q Consensus 53 ~C~~C~~---~~~ll~C~~C~~~~H~~Cl~p~l~--~~p~~~W~C~~C~ 96 (1238)
+|.+|+. .+.+|.|+.|.+.||+.|+.|+.. ..+.+.|+|+.|.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 5888987 456999999999999999999877 4445699999996
No 175
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.95 E-value=9.9e-05 Score=91.99 Aligned_cols=154 Identities=19% Similarity=0.176 Sum_probs=88.6
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH-HHHHHHHHcC--CCcE
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN-WEREFATWAP--QMNV 361 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q-W~~E~~~~~p--~l~v 361 (1238)
.|+++|.+.+.- .....++|.|.+.+++-|||+.+=-++....-...+..|.+.|--.+.+ =..++..+.- +++|
T Consensus 223 ~~fewq~ecls~--~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~~G~~v 300 (1008)
T KOG0950|consen 223 KLFEWQAECLSL--PRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSIDLGFPV 300 (1008)
T ss_pred HHHHHHHHHhcc--hhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccccCCcc
Confidence 577788887742 2224788999999999999998733332222222346788888544433 2233333331 3455
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCC----CceeEEEeccc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKP----IKWQCMIVDEG 437 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~----i~w~~vIvDEa 437 (1238)
-.|.|.-. |. .....-+|.|+|.|........|-. -.-.+|||||-
T Consensus 301 e~y~g~~~------------p~------------------~~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdEl 350 (1008)
T KOG0950|consen 301 EEYAGRFP------------PE------------------KRRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDEL 350 (1008)
T ss_pred hhhcccCC------------CC------------------CcccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeee
Confidence 45543211 11 0123457899999988776554422 13468999999
Q ss_pred ccccC--cccHHHHHHHhc----ccc--cEEEEecCCCCCC
Q 000883 438 HRLKN--KDSKLFSSLKQY----STR--HRVLLTGTPLQNN 470 (1238)
Q Consensus 438 HrlKN--~~S~~~~~l~~l----~~~--~rllLTGTPlqNn 470 (1238)
|-+.. .+..+-..|..+ ... ..+++|||-..|.
T Consensus 351 hmi~d~~rg~~lE~~l~k~~y~~~~~~~~iIGMSATi~N~~ 391 (1008)
T KOG0950|consen 351 HMIGDKGRGAILELLLAKILYENLETSVQIIGMSATIPNNS 391 (1008)
T ss_pred eeeeccccchHHHHHHHHHHHhccccceeEeeeecccCChH
Confidence 98843 333333333322 222 3689999964433
No 176
>PF13871 Helicase_C_4: Helicase_C-like
Probab=97.94 E-value=1.8e-05 Score=88.44 Aligned_cols=90 Identities=19% Similarity=0.251 Sum_probs=71.3
Q ss_pred HHHHHHhcCCCCceEEEeeccccccccCcCCC--------CEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCC
Q 000883 665 IRIDRFNAKNSSRFCFLLSTRAGGLGINLATA--------DTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRG 736 (1238)
Q Consensus 665 ~~I~~Fn~~~s~~~v~LlStragg~GINL~~A--------d~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~ 736 (1238)
...+.|+++... ++|-++||+.||+|++- ..-|+++++|+....+|.+||+||.||..+..+..+++.-
T Consensus 52 ~e~~~F~~g~k~---v~iis~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~ 128 (278)
T PF13871_consen 52 AEKQAFMDGEKD---VAIISDAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDL 128 (278)
T ss_pred HHHHHHhCCCce---EEEEecccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCC
Confidence 456689886533 44556999999999953 1457899999999999999999999999876666677777
Q ss_pred CHHHHHHHHHHHHHHHHHHHh
Q 000883 737 SIEERMMQMTKKKMVLEHLVV 757 (1238)
Q Consensus 737 TvEE~I~~~~~~K~~l~~~vi 757 (1238)
..|.+......+|+.--.++.
T Consensus 129 ~gE~Rfas~va~rL~sLgAlt 149 (278)
T PF13871_consen 129 PGERRFASTVARRLESLGALT 149 (278)
T ss_pred HHHHHHHHHHHHHHhhccccc
Confidence 889999999988876544443
No 177
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.92 E-value=0.0012 Score=83.00 Aligned_cols=122 Identities=20% Similarity=0.197 Sum_probs=92.9
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
....|+..+.+-+....+.|..|||-+..+..-+.+...|...|++...++-.-. .|+.-|-.+ ++..+ .+-++|
T Consensus 410 t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~-AG~~g--aVTiAT 484 (822)
T COG0653 410 TEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQ-AGQPG--AVTIAT 484 (822)
T ss_pred chHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhh-cCCCC--cccccc
Confidence 3467899999999999999999999999999999999999999999999988754 333333333 23333 357899
Q ss_pred cccccccCcC-CCC----------EEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEE
Q 000883 685 RAGGLGINLA-TAD----------TVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRL 732 (1238)
Q Consensus 685 ragg~GINL~-~Ad----------~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrL 732 (1238)
..+|.|-++. ..+ +||--.-.=+-..+.|-.||++|.| ..-...|.|
T Consensus 485 NMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQG-DpG~S~F~l 542 (822)
T COG0653 485 NMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQG-DPGSSRFYL 542 (822)
T ss_pred ccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCC-Ccchhhhhh
Confidence 9999999886 333 4666666666777889999999999 333444444
No 178
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=97.89 E-value=0.0091 Score=76.87 Aligned_cols=189 Identities=13% Similarity=0.143 Sum_probs=104.3
Q ss_pred cHHHHHHHHHHHHhh----cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeCC-ccHHHHHHHHHHHc--CC
Q 000883 287 HPYQLEGLNFLRFSW----SKQTHVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAPL-STLRNWEREFATWA--PQ 358 (1238)
Q Consensus 287 rpyQlegv~wL~~~~----~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP~-sll~qW~~E~~~~~--p~ 358 (1238)
+-+|-.+++.+...- ..|--+|-...||.|||+.-.=+++.|.....+ ++-|..=+ ++.-|=-.++.+-. .+
T Consensus 410 F~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARImyaLsd~~~g~RfsiALGLRTLTLQTGda~r~rL~L~~ 489 (1110)
T TIGR02562 410 FRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAMYALRDDKQGARFAIALGLRSLTLQTGHALKTRLNLSD 489 (1110)
T ss_pred cchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHHHHhCCCCCCceEEEEccccceeccchHHHHHhcCCCc
Confidence 448888887764422 223335667799999999988888888777666 55555554 44456666665533 34
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCC----CCchhh---h--------ccccCcc---------c-cccccccccccEEEec
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFP----KNPKKV---K--------KKKSGQV---------V-SESKQDRIKFDVLLTS 413 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~----~~~~~~---~--------~~~~~~~---------~-~~~~~~~~~fdVvItS 413 (1238)
-...|..|+...++.....+--.. .++... . -...+.+ . ...........|+|+|
T Consensus 490 ddLAVlIGs~Av~~L~e~~~~~~~~~~~~GSeS~e~l~~e~~~~~~~~~~g~l~~~~l~~~l~~~~k~~rll~apv~V~T 569 (1110)
T TIGR02562 490 DDLAVLIGGTAVQTLFDLSKEKIEQVDEDGSESAPIFLAEGQDCNLPDWDGPLDTIELLGRLSLDDKEKTLLAAPVLVCT 569 (1110)
T ss_pred cceEEEECHHHHHHHHHHHhhhccccccCCCccchhhhcccCcCCeeeccCCccchhhhhhhccChhhhhhhcCCeEEec
Confidence 456778888887776531111000 000000 0 0000000 0 0011222345789999
Q ss_pred HHHHHhhhcccC---------CCceeEEEecccccccCcccHHHHHHHh---cccccEEEEecCCCCCCHHHHH
Q 000883 414 YEMINLDSASLK---------PIKWQCMIVDEGHRLKNKDSKLFSSLKQ---YSTRHRVLLTGTPLQNNLDELF 475 (1238)
Q Consensus 414 ye~l~~d~~~l~---------~i~w~~vIvDEaHrlKN~~S~~~~~l~~---l~~~~rllLTGTPlqNn~~EL~ 475 (1238)
.+.+..-...++ .+.=..|||||+|-+-.........+.. .-....++||||--..-...|+
T Consensus 570 IDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~~~~~L~rlL~w~~~lG~~VlLmSATLP~~l~~~L~ 643 (1110)
T TIGR02562 570 IDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPEDLPALLRLVQLAGLLGSRVLLSSATLPPALVKTLF 643 (1110)
T ss_pred HHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHHHHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHH
Confidence 988876543322 2233689999999764433322222222 2346789999996544444443
No 179
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.79 E-value=5.4e-05 Score=85.86 Aligned_cols=95 Identities=17% Similarity=0.264 Sum_probs=85.6
Q ss_pred CCeEEEEecchhHHHHHHHHHhhC---CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEE
Q 000883 624 GHRVLIYSQFQHMLDLLEDYLTFK---KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1238)
Q Consensus 624 g~KVLIFsq~~~~ldiL~~~L~~~---g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VI 700 (1238)
-.|.||||....-.|-|+.++..+ .|+++.+.|...+.+|.+-++.|...+ +.||++|.+++.||+++..-.+|
T Consensus 505 mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~d---vkflictdvaargldi~g~p~~i 581 (725)
T KOG0349|consen 505 MDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFD---VKFLICTDVAARGLDITGLPFMI 581 (725)
T ss_pred cCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcC---eEEEEEehhhhccccccCCceEE
Confidence 468999999999999999999765 468889999999999999999997643 45999999999999999999999
Q ss_pred EEcCCCChhhhhHHHHHHhhh
Q 000883 701 IYDSDWNPHADLQAMARAHRL 721 (1238)
Q Consensus 701 i~D~dWNp~~~~Qa~gR~hRi 721 (1238)
....+-.-+++..++||++|.
T Consensus 582 nvtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 582 NVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred EEecCcccchhhhhhhccchh
Confidence 999999999999999988874
No 180
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain, with weak but significant sequence similarity to the N-terminal chromo domain,[], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1). The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigen and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1. Functional dissections of chromo domain proteins suggests a mechanistic role for chromo domains in targeting chromo domain proteins to specific regions of the nucleus. The mechanism of targeting may involve protein-protein and/or protein/nucleic acid interactions. Hence, several line of evidence show that the HP1 chromo domain is a methyl-specific histone binding module, whereas the chromo domain of two protein components of the drosophila dosage compensation complex, MSL3 and MOF, contain chromo domains that bind to RNA in vitro []. The high resolution structures of HP1-family protein chromo and chromo shadow domain reveal a conserved chromo domain fold motif consisting of three beta strands packed against an alpha helix. The chromo domain fold belongs to the OB (oligonucleotide/oligosaccharide binding)-fold class found in a variety of prokaryotic and eukaryotic nucleic acid binding protein [].; PDB: 2H1E_B 3MWY_W 2DY8_A 1KNE_A 1KNA_A 1Q3L_A 2EE1_A 1AP0_A 1GUW_A 1X3P_A ....
Probab=97.70 E-value=3.8e-06 Score=70.93 Aligned_cols=53 Identities=34% Similarity=0.703 Sum_probs=37.4
Q ss_pred cccccccccccCccCCCCcccccchhhhhHHHHhhccCCCcccccccchhhHHHHhhcChhHHHHHHhhhhh
Q 000883 102 IDKILDCEMRPTVAGDSDVSKLGSKQIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ 173 (1238)
Q Consensus 102 iekIl~~R~rP~~~~~~~~~~~~~~~~~~~eYlVKWkg~Sy~h~tW~pe~~l~~~~~~~~~~k~kl~~f~k~ 173 (1238)
+++|++.|....... ..+|||||+|++|.||||+|++.|... +| ..++.|.++
T Consensus 3 Ve~Il~~r~~~~~~~-------------~~~ylVkW~g~~~~~~tWe~~~~l~~~---~~---~li~~f~~r 55 (55)
T PF00385_consen 3 VERILDHRVVKGGNK-------------VYEYLVKWKGYPYSENTWEPEENLKNC---FP---ELIEEFEKR 55 (55)
T ss_dssp EEEEEEEEEETTEES-------------EEEEEEEETTSSGGGEEEEEGGGCSSH---CH---HHHHHHHHH
T ss_pred EEEEEEEEEeCCCcc-------------cEEEEEEECCCCCCCCeEeeHHHHhHh---hH---HHHHHHhCC
Confidence 678888764322111 359999999999999999999988643 22 357777653
No 182
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.69 E-value=0.0013 Score=83.98 Aligned_cols=111 Identities=20% Similarity=0.304 Sum_probs=80.1
Q ss_pred CCeEEEEecchhHHHHHHHHHhh----CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEE
Q 000883 624 GHRVLIYSQFQHMLDLLEDYLTF----KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1238)
Q Consensus 624 g~KVLIFsq~~~~ldiL~~~L~~----~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~V 699 (1238)
..-+|||-.-...++-..+.|.. ....++-+.|..+.++...+ |+....++.-+++||..+.++|++...-.|
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rv---F~p~~~~~RKVVlATNIAETSLTI~gIr~V 335 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVRV---FEPAPGGKRKVVLATNIAETSLTIPGIRYV 335 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHhh---cCCCCCCcceEEEEccccccceeeCCeEEE
Confidence 34788998877777777777765 35778889999998877664 665555533379999999999999998877
Q ss_pred EEEcC------CCChhhhh-----------HHHHHHhhhCCCCceEEEEEecCCCHH
Q 000883 700 IIYDS------DWNPHADL-----------QAMARAHRLGQTNKVMIFRLITRGSIE 739 (1238)
Q Consensus 700 Ii~D~------dWNp~~~~-----------Qa~gR~hRiGQ~k~V~VyrLvt~~TvE 739 (1238)
| |+ -|||..-+ .|.-|++|-|-+.+-.+|||.+++..+
T Consensus 336 I--DsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~ 390 (845)
T COG1643 336 I--DSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFL 390 (845)
T ss_pred e--cCCcccccccccccCceeeeEEEechhhhhhhccccccCCCceEEEecCHHHHH
Confidence 6 33 23333322 345566666667789999999986655
No 183
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=97.62 E-value=3.8e-05 Score=76.78 Aligned_cols=28 Identities=46% Similarity=1.066 Sum_probs=26.0
Q ss_pred ccccCcCCCCCCCCCCCCCCCCccCCCC
Q 000883 72 AYHAKCLVPPLKAPPSGSWRCPECVSPL 99 (1238)
Q Consensus 72 ~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 99 (1238)
+||+.||.|||..+|.|+|+||.|....
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~ 28 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEK 28 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCC
Confidence 5999999999999999999999999754
No 184
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.59 E-value=0.00044 Score=75.99 Aligned_cols=66 Identities=23% Similarity=0.292 Sum_probs=46.0
Q ss_pred CCcHHHHHHHHHHHHhhcCCCc-eEEEcCCCChHHHHHHHHHHHHh-------hCCCCCeEEEeCC-ccHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTH-VILADEMGLGKTIQSIAFLASLF-------GERISPHLVVAPL-STLRNWEREFAT 354 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~-~ILaDemGlGKTiqaia~l~~l~-------~~~~~p~LIVvP~-sll~qW~~E~~~ 354 (1238)
+|-+.|.+++..+ ..... +++.-..|+|||.+..+++..+. ....+++||++|. ..+.+-...+.+
T Consensus 1 ~ln~~Q~~Ai~~~----~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 1 KLNESQREAIQSA----LSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp ---HHHHHHHHHH----CTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred CCCHHHHHHHHHH----HcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 4778999999755 44555 88999999999988888887773 2344599999995 566776666666
No 185
>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus. Experimental evidence implicates the chromo domain in the binding activity of these proteins to methylated histone tails and maybe RNA. May occur as single instance, in a tandem arrangement or followd by a related "chromo shadow" domain.
Probab=97.59 E-value=2.1e-05 Score=66.26 Aligned_cols=51 Identities=35% Similarity=0.686 Sum_probs=37.2
Q ss_pred ccccccccccccCccCCCCcccccchhhhhHHHHhhccCCCcccccccchhhHHHHhhcChhHHHHHHhhhh
Q 000883 101 DIDKILDCEMRPTVAGDSDVSKLGSKQIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHR 172 (1238)
Q Consensus 101 ~iekIl~~R~rP~~~~~~~~~~~~~~~~~~~eYlVKWkg~Sy~h~tW~pe~~l~~~~~~~~~~k~kl~~f~k 172 (1238)
.+++|++.|.... ....+|||||+|++|.||||+|++.|... ..++..|.+
T Consensus 4 ~ve~Il~~r~~~~--------------~~~~~y~VkW~g~~~~~~tWe~~~~l~~~-------~~~i~~~~~ 54 (55)
T cd00024 4 EVEKILDHRKKKD--------------GGEYEYLVKWKGYSYSEDTWEPEENLEDC-------KELIDEFKK 54 (55)
T ss_pred eEeeeeeeeecCC--------------CCcEEEEEEECCCCCccCccccHHHhCch-------HHHHHHHHh
Confidence 3578888764432 01249999999999999999999998643 246677764
No 186
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.48 E-value=0.00032 Score=82.61 Aligned_cols=99 Identities=21% Similarity=0.249 Sum_probs=78.3
Q ss_pred HcCCeEEEEecchhHHHHHHHHHhhCCCc-EEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEE
Q 000883 622 EQGHRVLIYSQFQHMLDLLEDYLTFKKWQ-YERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1238)
Q Consensus 622 ~~g~KVLIFsq~~~~ldiL~~~L~~~g~~-~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VI 700 (1238)
..|..|+-||.-. +-.+...+..+|.. ++.|.|+.+++.|.+--..||++.++.- +|++|+|.|.|+||. .++||
T Consensus 356 k~GDCvV~FSkk~--I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~d-vlVAsDAIGMGLNL~-IrRii 431 (700)
T KOG0953|consen 356 KPGDCVVAFSKKD--IFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECD-VLVASDAIGMGLNLN-IRRII 431 (700)
T ss_pred CCCCeEEEeehhh--HHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccc-eEEeecccccccccc-eeEEE
Confidence 4589999999742 22344455556555 9999999999999999999998766544 899999999999996 57899
Q ss_pred EEcCC---------CChhhhhHHHHHHhhhCCC
Q 000883 701 IYDSD---------WNPHADLQAMARAHRLGQT 724 (1238)
Q Consensus 701 i~D~d---------WNp~~~~Qa~gR~hRiGQ~ 724 (1238)
|++.- -...+..|.-|||+|.|.+
T Consensus 432 F~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~ 464 (700)
T KOG0953|consen 432 FYSLIKYSGRETEDITVSQIKQIAGRAGRFGSK 464 (700)
T ss_pred EeecccCCcccceeccHHHHHHHhhcccccccC
Confidence 98764 3455678999999999876
No 187
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.45 E-value=6.8e-05 Score=80.07 Aligned_cols=47 Identities=36% Similarity=1.066 Sum_probs=40.2
Q ss_pred cccccccccccCC--CCeeecC--CCCCc-cccCcCCCCCCCCCCCCCCCCccCC
Q 000883 48 DAKDDSCQACGES--ENLMSCD--TCTYA-YHAKCLVPPLKAPPSGSWRCPECVS 97 (1238)
Q Consensus 48 ~~~~~~C~~C~~~--~~ll~C~--~C~~~-~H~~Cl~p~l~~~p~~~W~C~~C~~ 97 (1238)
+++..+| -|++. |.|+-|| .|++- ||+.|. .|..+|.|.|+|++|..
T Consensus 218 e~e~lYC-fCqqvSyGqMVaCDn~nCkrEWFH~~CV--GLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 218 EGEELYC-FCQQVSYGQMVACDNANCKREWFHLECV--GLKEPPKGKWYCPECKK 269 (271)
T ss_pred cCceeEE-EecccccccceecCCCCCchhheecccc--ccCCCCCCcEeCHHhHh
Confidence 4566788 57765 7899999 69986 999999 99999999999999974
No 188
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=97.30 E-value=8.1e-05 Score=85.39 Aligned_cols=48 Identities=46% Similarity=1.041 Sum_probs=41.6
Q ss_pred ccccccccccCCCC---eeecCCCCCccccCcCCCCCCCCCCC----CCCCCccC
Q 000883 49 AKDDSCQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSG----SWRCPECV 96 (1238)
Q Consensus 49 ~~~~~C~~C~~~~~---ll~C~~C~~~~H~~Cl~p~l~~~p~~----~W~C~~C~ 96 (1238)
...-.|.+|....+ |+.||+|...||+-||.|||...|.. .|.|.+|.
T Consensus 542 a~~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 542 AMNYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ccceeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 34467999998765 89999999999999999999998864 49999993
No 189
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.24 E-value=0.00013 Score=82.45 Aligned_cols=45 Identities=31% Similarity=0.835 Sum_probs=38.1
Q ss_pred cccccc-ccCCCCeeecCC--CC-CccccCcCCCCCCCCCCCCCCCCccCC
Q 000883 51 DDSCQA-CGESENLMSCDT--CT-YAYHAKCLVPPLKAPPSGSWRCPECVS 97 (1238)
Q Consensus 51 ~~~C~~-C~~~~~ll~C~~--C~-~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 97 (1238)
..+|.. |...|.++-||. |+ ..||+.|. .|...|.|.|+||.|..
T Consensus 219 ~~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CV--GL~~~PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 219 PTYCICNQVSYGKMIGCDNPGCPIEWFHFTCV--GLKTKPKGKWYCPRCKA 267 (274)
T ss_pred CEEEEecccccccccccCCCCCCcceEEEecc--ccccCCCCcccchhhhh
Confidence 355544 445688999997 99 88999999 99999999999999975
No 190
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.23 E-value=0.011 Score=71.40 Aligned_cols=84 Identities=21% Similarity=0.200 Sum_probs=56.5
Q ss_pred CcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCCCCEEEEEcCCC------Chh-------------
Q 000883 649 WQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDW------NPH------------- 709 (1238)
Q Consensus 649 ~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VIi~D~dW------Np~------------- 709 (1238)
+-++-|..+.+.+....+ |...+.+..-++|+|..+.+.|.+.+...|| ||.+ ||.
T Consensus 507 liv~PiYaNLPselQakI---FePtP~gaRKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~piSK 581 (902)
T KOG0923|consen 507 LIVLPIYANLPSELQAKI---FEPTPPGARKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPISK 581 (902)
T ss_pred EEEeeccccCChHHHHhh---cCCCCCCceeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeeech
Confidence 345667788887655544 6544444445789999999999998877775 6644 332
Q ss_pred -hhhHHHHHHhhhCCCCceEEEEEecCCCHHH
Q 000883 710 -ADLQAMARAHRLGQTNKVMIFRLITRGSIEE 740 (1238)
Q Consensus 710 -~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE 740 (1238)
.-.||-|||+|. .+-.+|||+|.-+++.
T Consensus 582 AsA~QRaGRAGRt---gPGKCfRLYt~~aY~~ 610 (902)
T KOG0923|consen 582 ASANQRAGRAGRT---GPGKCFRLYTAWAYEH 610 (902)
T ss_pred hhhhhhccccCCC---CCCceEEeechhhhhh
Confidence 334666666654 4778999999766554
No 191
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.22 E-value=0.00014 Score=78.19 Aligned_cols=45 Identities=29% Similarity=0.775 Sum_probs=38.9
Q ss_pred cccccccccCC---CCeeecCCCCCccccCcCCCCCCCCCCCCCCCC-ccC
Q 000883 50 KDDSCQACGES---ENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCP-ECV 96 (1238)
Q Consensus 50 ~~~~C~~C~~~---~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~-~C~ 96 (1238)
.+..|.+|+++ +++++||.|+++||..|. .|...|.|.|.|. .|.
T Consensus 313 ~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CV--GL~~lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 313 SCELCRICLGPVIESEHLFCDVCDRGPHTLCV--GLQDLPRGEWICDMRCR 361 (381)
T ss_pred ccHhhhccCCcccchheeccccccCCCCcccc--ccccccCccchhhhHHH
Confidence 35678999876 459999999999999999 9999999999998 343
No 192
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=97.21 E-value=0.0042 Score=69.71 Aligned_cols=122 Identities=19% Similarity=0.132 Sum_probs=75.0
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH----HHHHHHHHHHcCC
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL----RNWEREFATWAPQ 358 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll----~qW~~E~~~~~p~ 358 (1238)
|..+++-|+-|+--| ..|-|.-..+|=|||+++.. ++++..-...++=||+.+..| .+|...|-.++ +
T Consensus 75 g~~p~~vQll~~l~L------~~G~laEm~TGEGKTli~~l-~a~~~AL~G~~V~vvT~NdyLA~RD~~~~~~~y~~L-G 146 (266)
T PF07517_consen 75 GLRPYDVQLLGALAL------HKGRLAEMKTGEGKTLIAAL-PAALNALQGKGVHVVTSNDYLAKRDAEEMRPFYEFL-G 146 (266)
T ss_dssp S----HHHHHHHHHH------HTTSEEEESTTSHHHHHHHH-HHHHHHTTSS-EEEEESSHHHHHHHHHHHHHHHHHT-T
T ss_pred CCcccHHHHhhhhhc------ccceeEEecCCCCcHHHHHH-HHHHHHHhcCCcEEEeccHHHhhccHHHHHHHHHHh-h
Confidence 456777888886444 34559999999999998743 344444333578888888777 35888888888 7
Q ss_pred CcEEEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh---------hcccCCCce
Q 000883 359 MNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD---------SASLKPIKW 429 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d---------~~~l~~i~w 429 (1238)
+.+-...+........ .....||+-+|-..+.-| ......-.+
T Consensus 147 lsv~~~~~~~~~~~r~----------------------------~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~ 198 (266)
T PF07517_consen 147 LSVGIITSDMSSEERR----------------------------EAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGF 198 (266)
T ss_dssp --EEEEETTTEHHHHH----------------------------HHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSS
T ss_pred hccccCccccCHHHHH----------------------------HHHhCcccccccchhhHHHHHHHHhhccchhccCCC
Confidence 8777776654321110 124567888887776543 111123467
Q ss_pred eEEEecccccc
Q 000883 430 QCMIVDEGHRL 440 (1238)
Q Consensus 430 ~~vIvDEaHrl 440 (1238)
.++||||+..+
T Consensus 199 ~~~ivDEvDs~ 209 (266)
T PF07517_consen 199 DFAIVDEVDSI 209 (266)
T ss_dssp SEEEECTHHHH
T ss_pred CEEEEeccceE
Confidence 89999999765
No 193
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.18 E-value=0.0099 Score=69.35 Aligned_cols=62 Identities=29% Similarity=0.365 Sum_probs=48.4
Q ss_pred EEEeeccccccccCcCCCCEEEEEcCCC------C-----------hhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHH
Q 000883 679 CFLLSTRAGGLGINLATADTVIIYDSDW------N-----------PHADLQAMARAHRLGQTNKVMIFRLITRGSIEER 741 (1238)
Q Consensus 679 v~LlStragg~GINL~~Ad~VIi~D~dW------N-----------p~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~ 741 (1238)
.+++||..+...+.+.+.-.| .||.+ | |-.-.||..|++|.|.+++-..|+|+|+..++..
T Consensus 315 kvVvstniaetsltidgiv~V--IDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~e 392 (699)
T KOG0925|consen 315 KVVVSTNIAETSLTIDGIVFV--IDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEKE 392 (699)
T ss_pred eEEEEecchheeeeeccEEEE--ecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhhc
Confidence 368999999998888775444 46643 4 4455799999999999999999999998766544
Q ss_pred H
Q 000883 742 M 742 (1238)
Q Consensus 742 I 742 (1238)
+
T Consensus 393 m 393 (699)
T KOG0925|consen 393 M 393 (699)
T ss_pred C
Confidence 4
No 194
>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]
Probab=97.11 E-value=8.1e-05 Score=82.69 Aligned_cols=25 Identities=52% Similarity=0.929 Sum_probs=23.2
Q ss_pred HHHHhhccCCCcccccccchhhHHH
Q 000883 131 KQYLVKWKGLSYLHCTWVPEKEFLK 155 (1238)
Q Consensus 131 ~eYlVKWkg~Sy~h~tW~pe~~l~~ 155 (1238)
.||||||+|||+.||||+|+++++.
T Consensus 26 vEYlVKWkGWs~kyNTWEPEENILD 50 (369)
T KOG2748|consen 26 VEYLVKWKGWSQKYNTWEPEENILD 50 (369)
T ss_pred eEEEEEecccccccCccCccccccC
Confidence 3999999999999999999999874
No 195
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=96.88 E-value=0.00043 Score=83.37 Aligned_cols=91 Identities=25% Similarity=0.608 Sum_probs=61.1
Q ss_pred ccccccccccCC-----CCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCcccccccccccccCccCCCCcccc
Q 000883 49 AKDDSCQACGES-----ENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEMRPTVAGDSDVSKL 123 (1238)
Q Consensus 49 ~~~~~C~~C~~~-----~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~iekIl~~R~rP~~~~~~~~~~~ 123 (1238)
+++..|-+|..+ .+|++||.|.-..|+.|. .+..+|++.|.|..|.-... ..++- .|..-+.-.....
T Consensus 269 dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCy--GIle~p~gpWlCr~Calg~~--ppCvL---CPkkGGamK~~~s 341 (893)
T KOG0954|consen 269 DEDVICDVCRSPDSEEANEMVFCDKCNICVHQACY--GILEVPEGPWLCRTCALGIE--PPCVL---CPKKGGAMKPTKS 341 (893)
T ss_pred cccceeceecCCCccccceeEEeccchhHHHHhhh--ceeecCCCCeeehhccccCC--CCeee---ccccCCcccccCC
Confidence 356789999876 349999999999999999 89999999999999985311 11222 2332222111111
Q ss_pred cchhhhhHHHHhhccCCCcccc-cccchhhHHHHhhc
Q 000883 124 GSKQIFVKQYLVKWKGLSYLHC-TWVPEKEFLKAFKS 159 (1238)
Q Consensus 124 ~~~~~~~~eYlVKWkg~Sy~h~-tW~pe~~l~~~~~~ 159 (1238)
+. | |+|.-| -|+||-.+.+..+.
T Consensus 342 gT----------~---wAHvsCALwIPEVsie~~ekm 365 (893)
T KOG0954|consen 342 GT----------K---WAHVSCALWIPEVSIECPEKM 365 (893)
T ss_pred CC----------e---eeEeeeeeccceeeccCHhhc
Confidence 11 3 456666 79999988776433
No 196
>PRK10536 hypothetical protein; Provisional
Probab=96.84 E-value=0.011 Score=65.55 Aligned_cols=150 Identities=15% Similarity=0.161 Sum_probs=83.4
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHh-hCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEE
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLF-GERISPHLVVAPLSTLRNWEREFATWAPQMNVVMY 364 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~-~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~ 364 (1238)
.-..|...+.+| ..+..+++.-+.|+|||+.++++..... ......++|+=|.-.. .|.-.+.|
T Consensus 60 ~n~~Q~~~l~al----~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~----ge~LGfLP------- 124 (262)
T PRK10536 60 RNEAQAHYLKAI----ESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQA----DEDLGFLP------- 124 (262)
T ss_pred CCHHHHHHHHHH----hcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCc----hhhhCcCC-------
Confidence 456888888877 3456888999999999999999988654 4333445555443322 23333333
Q ss_pred EcChhHHH------HHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 365 VGTSQARN------IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 365 ~g~~~~r~------~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
|+..++- +....+....... ... .. ....-.|-|.+...++. ..+.-++|||||||
T Consensus 125 -G~~~eK~~p~~~pi~D~L~~~~~~~~--~~~-----~~-----~~~~~~Iei~~l~ymRG-----rtl~~~~vIvDEaq 186 (262)
T PRK10536 125 -GDIAEKFAPYFRPVYDVLVRRLGASF--MQY-----CL-----RPEIGKVEIAPFAYMRG-----RTFENAVVILDEAQ 186 (262)
T ss_pred -CCHHHHHHHHHHHHHHHHHHHhChHH--HHH-----HH-----HhccCcEEEecHHHhcC-----CcccCCEEEEechh
Confidence 2222211 0000010000000 000 00 00011244555444432 12344799999999
Q ss_pred cccCcccHHHHHHHhcccccEEEEecCCCCCC
Q 000883 439 RLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNN 470 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn 470 (1238)
++.- ..+...+..+....+++++|-|-|.+
T Consensus 187 n~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 187 NVTA--AQMKMFLTRLGENVTVIVNGDITQCD 216 (262)
T ss_pred cCCH--HHHHHHHhhcCCCCEEEEeCChhhcc
Confidence 7754 45556667778889999999997765
No 197
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.82 E-value=0.00053 Score=85.90 Aligned_cols=47 Identities=36% Similarity=0.880 Sum_probs=45.0
Q ss_pred ccccccccCCCCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCC
Q 000883 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVS 97 (1238)
Q Consensus 51 ~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 97 (1238)
++.|.+|.+.|+++||.+|++.||+.|..||+.+.|+..|.|-.|..
T Consensus 344 ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~ 390 (1414)
T KOG1473|consen 344 DDHCRFCHDLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNI 390 (1414)
T ss_pred cccccccCcccceeecccCCceEEeeecCCccccCCCccchhhhhhh
Confidence 57899999999999999999999999999999999999999999983
No 198
>smart00298 CHROMO Chromatin organization modifier domain.
Probab=96.80 E-value=0.00057 Score=57.41 Aligned_cols=36 Identities=44% Similarity=0.956 Sum_probs=28.5
Q ss_pred HHHHhhccCCCcccccccchhhHHHHhhcChhHHHHHHhhhhh
Q 000883 131 KQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQ 173 (1238)
Q Consensus 131 ~eYlVKWkg~Sy~h~tW~pe~~l~~~~~~~~~~k~kl~~f~k~ 173 (1238)
.+|||||+|+++.+|||+|.+.|... ...+.+|.++
T Consensus 18 ~~ylVkW~g~~~~~~tW~~~~~l~~~-------~~~v~~~~~~ 53 (55)
T smart00298 18 LEYLVKWKGYSYSEDTWEPEENLLNC-------SKKLDNYKKK 53 (55)
T ss_pred EEEEEEECCCCCccCceeeHHHHHHH-------HHHHHHHHHh
Confidence 48999999999999999999998631 1356666553
No 199
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=96.78 E-value=0.00059 Score=78.47 Aligned_cols=70 Identities=31% Similarity=0.708 Sum_probs=54.4
Q ss_pred hhhccccccccccccccCCCC-----eeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCcccccccccccccCccC
Q 000883 42 ERIVRIDAKDDSCQACGESEN-----LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEMRPTVAG 116 (1238)
Q Consensus 42 ~~~~~~~~~~~~C~~C~~~~~-----ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~iekIl~~R~rP~~~~ 116 (1238)
+.+..+|.-++.|.+|..... ++.||+|.-+.|..|. .+..+|+|.|+|..|.-... .+.+|-+.|...+
T Consensus 184 epi~~~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CY--GI~f~peG~WlCrkCi~~~~---~i~~C~fCps~dG 258 (669)
T COG5141 184 EPIEPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCY--GIQFLPEGFWLCRKCIYGEY---QIRCCSFCPSSDG 258 (669)
T ss_pred cccCCchhhhhhhHhccccccCCcceEEEecCcchhhhhhcc--cceecCcchhhhhhhccccc---ceeEEEeccCCCC
Confidence 344445556788999986543 9999999999999999 88899999999999986553 3555666776654
No 200
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=96.70 E-value=0.0011 Score=85.39 Aligned_cols=63 Identities=29% Similarity=0.737 Sum_probs=48.4
Q ss_pred ccccccccccCCC-----CeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCcccccccccccccCccC
Q 000883 49 AKDDSCQACGESE-----NLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEMRPTVAG 116 (1238)
Q Consensus 49 ~~~~~C~~C~~~~-----~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~iekIl~~R~rP~~~~ 116 (1238)
..+.+|.+|.++. .+|.||.|..++|++|.. ...+|+|.|.|..|.-.+... +.|-+.|...+
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cyg--i~~ipeg~WlCr~Cl~s~~~~---v~c~~cp~~~g 284 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYG--IPFIPEGQWLCRRCLQSPQRP---VRCLLCPSKGG 284 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCCCcchhhhhccC--CCCCCCCcEeehhhccCcCcc---cceEeccCCCC
Confidence 4567899999764 389999999999999994 667899999999998765444 34444555443
No 201
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.70 E-value=0.0059 Score=75.82 Aligned_cols=81 Identities=19% Similarity=0.145 Sum_probs=56.9
Q ss_pred eEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhC--CC-CceE-----EEEEecCCCHHHHHHHHHHHH
Q 000883 678 FCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLG--QT-NKVM-----IFRLITRGSIEERMMQMTKKK 749 (1238)
Q Consensus 678 ~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiG--Q~-k~V~-----VyrLvt~~TvEE~I~~~~~~K 749 (1238)
..|+.|--|+-+|-+-|.+=+++=+-+.-|-..-+|-+||..|+- |. ..|+ +++|..--.-+|+=+-.+-.|
T Consensus 484 lRFIFS~waLrEGWDNPNVFtIckL~~S~SeiSK~QeVGRGLRLaVNe~G~RV~~~~~~~n~L~vlv~~sek~Fv~~Lqk 563 (985)
T COG3587 484 LRFIFSKWALREGWDNPNVFTICKLRSSGSEISKLQEVGRGLRLAVNENGERVTKDFDFPNELTVLVNESEKDFVKALQK 563 (985)
T ss_pred ceeeeehhHHhhcCCCCCeeEEEEecCCCcchHHHHHhccceeeeeccccceecccccccceEEEEecccHHHHHHHHHH
Confidence 348999999999999999999999999999999999999999975 22 3444 344433222233333344445
Q ss_pred HHHHHHHhc
Q 000883 750 MVLEHLVVG 758 (1238)
Q Consensus 750 ~~l~~~vig 758 (1238)
...++..++
T Consensus 564 EI~~~s~i~ 572 (985)
T COG3587 564 EINDESFIK 572 (985)
T ss_pred HHHHhhhhc
Confidence 555555553
No 202
>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=96.62 E-value=0.015 Score=62.76 Aligned_cols=149 Identities=21% Similarity=0.266 Sum_probs=68.4
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCCccHHHHHHHHHHHcCCCcEEEE
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWAPQMNVVMY 364 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~ 364 (1238)
+-+.|...++.|. ...-+++.-..|+|||+.|++....+...+ ..+++|+-|..-.. +++- +.|
T Consensus 5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~---~~lG-flp------- 69 (205)
T PF02562_consen 5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAG---EDLG-FLP------- 69 (205)
T ss_dssp -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT--------SS--------
T ss_pred CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCc---cccc-cCC-------
Confidence 4468999998774 667889999999999999999888776654 35777777765332 2221 111
Q ss_pred EcChhHH------HHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccc
Q 000883 365 VGTSQAR------NIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGH 438 (1238)
Q Consensus 365 ~g~~~~r------~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaH 438 (1238)
|+..++ ......+..+....... ....-.|-+.+...++- ..++..+||||||+
T Consensus 70 -G~~~eK~~p~~~p~~d~l~~~~~~~~~~~--------------~~~~~~Ie~~~~~~iRG-----rt~~~~~iIvDEaQ 129 (205)
T PF02562_consen 70 -GDLEEKMEPYLRPIYDALEELFGKEKLEE--------------LIQNGKIEIEPLAFIRG-----RTFDNAFIIVDEAQ 129 (205)
T ss_dssp ---------TTTHHHHHHHTTTS-TTCHHH--------------HHHTTSEEEEEGGGGTT-------B-SEEEEE-SGG
T ss_pred -CCHHHHHHHHHHHHHHHHHHHhChHhHHH--------------HhhcCeEEEEehhhhcC-----ccccceEEEEeccc
Confidence 221111 11111111111110000 00112233333333321 23456899999999
Q ss_pred cccCcccHHHHHHHhcccccEEEEecCCCCCCH
Q 000883 439 RLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNL 471 (1238)
Q Consensus 439 rlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~ 471 (1238)
++.. ..+...+..+....++.++|-|.|.+.
T Consensus 130 N~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 130 NLTP--EELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp G--H--HHHHHHHTTB-TT-EEEEEE-------
T ss_pred CCCH--HHHHHHHcccCCCcEEEEecCceeecC
Confidence 7543 344455667777899999999977664
No 203
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.59 E-value=0.001 Score=79.97 Aligned_cols=46 Identities=37% Similarity=1.023 Sum_probs=41.7
Q ss_pred ccccccccCCCC---eeecCCCCCccccCcCCCCCCCCCCCCCCCCccC
Q 000883 51 DDSCQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96 (1238)
Q Consensus 51 ~~~C~~C~~~~~---ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~ 96 (1238)
+..|..|+.+|+ ++.|+.|.-+||-+|..|+...++.+.|.|+.|.
T Consensus 68 crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~ 116 (694)
T KOG4443|consen 68 CRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCT 116 (694)
T ss_pred ceeeeeccccCCcccccccccccccccccccCCccccccCcccccHHHH
Confidence 467888887665 9999999999999999999999999999999886
No 204
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=96.50 E-value=0.00062 Score=91.29 Aligned_cols=53 Identities=32% Similarity=0.871 Sum_probs=46.4
Q ss_pred ccccccccccccCCC---CeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCC
Q 000883 47 IDAKDDSCQACGESE---NLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPL 99 (1238)
Q Consensus 47 ~~~~~~~C~~C~~~~---~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~ 99 (1238)
.......|.+|...+ +++.|+.|..+||+.|+.|.+...|.++|+||.|....
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 345667899998654 49999999999999999999999999999999998644
No 205
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.48 E-value=0.0092 Score=73.26 Aligned_cols=66 Identities=23% Similarity=0.388 Sum_probs=48.9
Q ss_pred HHHHhcCCCCceEEEeeccccccccCcCCCCEEE--------EEcC---------CC-ChhhhhHHHHHHhhhCCCCceE
Q 000883 667 IDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI--------IYDS---------DW-NPHADLQAMARAHRLGQTNKVM 728 (1238)
Q Consensus 667 I~~Fn~~~s~~~v~LlStragg~GINL~~Ad~VI--------i~D~---------dW-Np~~~~Qa~gR~hRiGQ~k~V~ 728 (1238)
+.-|...+.+....+++|.++.+.|+++..-+|| +||+ +| +-+.--||-|||+|+| +-+
T Consensus 620 ~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtg---pGH 696 (1172)
T KOG0926|consen 620 MRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTG---PGH 696 (1172)
T ss_pred hhhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCC---CCc
Confidence 3447766666666899999999999999998887 3444 34 2334468888888877 678
Q ss_pred EEEEecC
Q 000883 729 IFRLITR 735 (1238)
Q Consensus 729 VyrLvt~ 735 (1238)
.|||++.
T Consensus 697 cYRLYSS 703 (1172)
T KOG0926|consen 697 CYRLYSS 703 (1172)
T ss_pred eeehhhh
Confidence 8999864
No 206
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.27 E-value=0.019 Score=67.95 Aligned_cols=133 Identities=16% Similarity=0.229 Sum_probs=98.2
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh----hCCC----cEEEEeCCCCHHHHHHHHHHHhcCCCCc
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT----FKKW----QYERIDGKVGGAERQIRIDRFNAKNSSR 677 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~----~~g~----~~~ridG~~~~~~R~~~I~~Fn~~~s~~ 677 (1238)
.+.|+....+++..+...|-|+|-||...+..+++-...+ .-|- .+..+.|+...++|.++-.+.-. +.
T Consensus 507 ~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~---G~ 583 (1034)
T KOG4150|consen 507 KSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFG---GK 583 (1034)
T ss_pred hhhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhC---Ce
Confidence 5678888888999999999999999998876554433222 1111 23446688888888887666432 34
Q ss_pred eEEEeeccccccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCCCCceEEEEEecCCCHHHHHH
Q 000883 678 FCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMM 743 (1238)
Q Consensus 678 ~v~LlStragg~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~ 743 (1238)
.+-+++|.|+.+||++-..|.|+.+..+.+-.++-|..|||+|-... ...|| ++..+.||...+
T Consensus 584 L~giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~-SLavy-va~~~PVDQ~Y~ 647 (1034)
T KOG4150|consen 584 LCGIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKP-SLAVY-VAFLGPVDQYYM 647 (1034)
T ss_pred eeEEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCC-ceEEE-EEeccchhhHhh
Confidence 55789999999999999999999999999999999999999996533 23333 344566766543
No 207
>KOG1911 consensus Heterochromatin-associated protein HP1 and related CHROMO domain proteins [Chromatin structure and dynamics]
Probab=96.20 E-value=0.0047 Score=70.10 Aligned_cols=58 Identities=31% Similarity=0.388 Sum_probs=49.6
Q ss_pred CCccchhhhhhhccCCCceeEEEeeeccccccccccccCCcCccHHHHHHHHhhhhcc
Q 000883 189 PEWTTVDRILACRGEDDEKEYLVKYKELSYDECYWEYESDISAFQPEIERFIKIQSRS 246 (1238)
Q Consensus 189 ~~~~~veRIi~~r~~~~~~eyLVKWkgL~Y~~~tWE~~~~~~~~~~~i~~~~~~~~~~ 246 (1238)
++...|++|+++|...+..+|||||+|-|=.+.|||.+.....+...|+.|..-....
T Consensus 46 ~~~~vvEki~~~r~~~g~~eYlvkW~Gy~~~~ntWEPee~~~~C~~li~~~~~~~~~~ 103 (270)
T KOG1911|consen 46 EEEYVVEKILKRRKKNGKIEYLVKWKGYPDPDNTWEPEEHNLDCPELIDEFEKSQKKL 103 (270)
T ss_pred cchhhhhhhhhccccCCCceeeeecCCCCCccccCCchhhccccHHHHHHHHHHhccc
Confidence 3445899999999888889999999999999999999886677899999999865443
No 208
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=96.17 E-value=0.0052 Score=61.23 Aligned_cols=35 Identities=26% Similarity=0.528 Sum_probs=26.9
Q ss_pred eEEEecccccccCcccHHHHHHHhc--ccccEEEEecCC
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQY--STRHRVLLTGTP 466 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~~l--~~~~rllLTGTP 466 (1238)
.+|||||+|++. +......++.+ .....++|+|||
T Consensus 89 ~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 689999999984 25555666655 466789999999
No 209
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=96.01 E-value=0.012 Score=69.07 Aligned_cols=66 Identities=18% Similarity=0.190 Sum_probs=50.0
Q ss_pred CCCCCCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCC-C-CeEEEeCC
Q 000883 277 SPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERI-S-PHLVVAPL 342 (1238)
Q Consensus 277 ~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~-~-p~LIVvP~ 342 (1238)
-|.+++-...+|-|.+-..-+......+++|+|-++.|+|||+.-++++.......+ . .-||-|..
T Consensus 8 l~v~FPY~~iYPEQ~~YM~elKrsLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~~~KliYCSR 75 (755)
T KOG1131|consen 8 LLVYFPYDYIYPEQYEYMRELKRSLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDEHRKLIYCSR 75 (755)
T ss_pred eeEecCCcccCHHHHHHHHHHHHhhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcccceEEEecC
Confidence 344555567899999888778888999999999999999999999888765543322 2 45666653
No 210
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.92 E-value=0.013 Score=70.63 Aligned_cols=78 Identities=19% Similarity=0.276 Sum_probs=62.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc-HHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST-LRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl-l~qW~~E~~~~~p~l~vv 362 (1238)
.+|---|..||... -++.=.||--+.|+|||+++.+++++|.....+|+||++|..+ +.|-..-|++- .++|+
T Consensus 409 pkLN~SQ~~AV~~V----L~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~t--gLKVv 482 (935)
T KOG1802|consen 409 PKLNASQSNAVKHV----LQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKT--GLKVV 482 (935)
T ss_pred hhhchHHHHHHHHH----HcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhc--CceEe
Confidence 46888999999775 4566689999999999999999999998888889999999755 56666666653 47777
Q ss_pred EEEcC
Q 000883 363 MYVGT 367 (1238)
Q Consensus 363 ~~~g~ 367 (1238)
-+...
T Consensus 483 Rl~ak 487 (935)
T KOG1802|consen 483 RLCAK 487 (935)
T ss_pred eeehh
Confidence 66543
No 211
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.91 E-value=0.0024 Score=75.22 Aligned_cols=53 Identities=26% Similarity=0.658 Sum_probs=41.9
Q ss_pred cccccccCCC-----CeeecCCCCCccccCcCCCCCCC----CCCCCCCCCccCCCCccccc
Q 000883 52 DSCQACGESE-----NLMSCDTCTYAYHAKCLVPPLKA----PPSGSWRCPECVSPLNDIDK 104 (1238)
Q Consensus 52 ~~C~~C~~~~-----~ll~C~~C~~~~H~~Cl~p~l~~----~p~~~W~C~~C~~~~~~iek 104 (1238)
..|.+|+.++ .||.|+.|...||..|+.|+... -+...|+|..|......+..
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~r 230 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVPR 230 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccchhhccc
Confidence 3499998664 39999999999999999998754 35677999999976544433
No 212
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.85 E-value=0.018 Score=60.53 Aligned_cols=80 Identities=18% Similarity=0.188 Sum_probs=54.6
Q ss_pred HcCCeEEEEecchhHHHHHHHHHhhCCC--cEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc--ccccccCcCC--
Q 000883 622 EQGHRVLIYSQFQHMLDLLEDYLTFKKW--QYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR--AGGLGINLAT-- 695 (1238)
Q Consensus 622 ~~g~KVLIFsq~~~~ldiL~~~L~~~g~--~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr--agg~GINL~~-- 695 (1238)
..+.++|||...-..++.+.+++...+. .+..+.- +...+..++++|...... +|+++. ...+|||++.
T Consensus 7 ~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q--~~~~~~~~l~~~~~~~~~---il~~v~~g~~~EGiD~~~~~ 81 (167)
T PF13307_consen 7 AVPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ--GSKSRDELLEEFKRGEGA---ILLAVAGGSFSEGIDFPGDL 81 (167)
T ss_dssp CCSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES--TCCHHHHHHHHHCCSSSE---EEEEETTSCCGSSS--ECES
T ss_pred cCCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec--CcchHHHHHHHHHhccCe---EEEEEecccEEEeecCCCch
Confidence 4567999999999999999999976532 1122221 246788999999885443 677777 8899999984
Q ss_pred CCEEEEEcCCC
Q 000883 696 ADTVIIYDSDW 706 (1238)
Q Consensus 696 Ad~VIi~D~dW 706 (1238)
+..||+.-.|+
T Consensus 82 ~r~vii~glPf 92 (167)
T PF13307_consen 82 LRAVIIVGLPF 92 (167)
T ss_dssp EEEEEEES---
T ss_pred hheeeecCCCC
Confidence 78999998886
No 213
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.82 E-value=0.047 Score=69.28 Aligned_cols=125 Identities=11% Similarity=0.035 Sum_probs=84.1
Q ss_pred CCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCchhhhcc
Q 000883 313 MGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKK 391 (1238)
Q Consensus 313 mGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~ 391 (1238)
.|+|||-..+.++...+..+. .+||++|. +++.|+...|...+++..+.++|+.-...+....+.-.
T Consensus 169 ~GSGKTevyl~~i~~~l~~Gk-~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~----------- 236 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAGR-GALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAV----------- 236 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcCC-eEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHH-----------
Confidence 399999999999988877653 69999995 88899999999999767899999876555433332110
Q ss_pred ccCccccccccccccccEEEecHHHHHhhhcccCCC-ceeEEEecccccc--cCcccHH-----HHHHHh-cccccEEEE
Q 000883 392 KSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPI-KWQCMIVDEGHRL--KNKDSKL-----FSSLKQ-YSTRHRVLL 462 (1238)
Q Consensus 392 ~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i-~w~~vIvDEaHrl--KN~~S~~-----~~~l~~-l~~~~rllL 462 (1238)
......|||-|...+ |-.+ +..+|||||=|.- |...+-. ...++. ...-..+|-
T Consensus 237 -----------~~G~~~IViGtRSAv------FaP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLg 299 (665)
T PRK14873 237 -----------LRGQARVVVGTRSAV------FAPVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIG 299 (665)
T ss_pred -----------hCCCCcEEEEcceeE------EeccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEE
Confidence 124567899887654 2233 4579999999864 3322211 111111 223456777
Q ss_pred ecCC
Q 000883 463 TGTP 466 (1238)
Q Consensus 463 TGTP 466 (1238)
|+||
T Consensus 300 SaTP 303 (665)
T PRK14873 300 GHAR 303 (665)
T ss_pred CCCC
Confidence 9999
No 214
>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=95.73 E-value=0.036 Score=65.61 Aligned_cols=45 Identities=27% Similarity=0.335 Sum_probs=33.3
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhh-CCCCCeEEEeCCccHHHHHHH
Q 000883 307 VILADEMGLGKTIQSIAFLASLFG-ERISPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~-~~~~p~LIVvP~sll~qW~~E 351 (1238)
.|+.-..|+|||+.++.++..+.. ......+++|++..+.+..++
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~ 49 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLRE 49 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHH
Confidence 567778999999999999998822 223477888888777665443
No 215
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=95.68 E-value=0.1 Score=56.32 Aligned_cols=58 Identities=22% Similarity=0.192 Sum_probs=39.5
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
+|-+-|.+++..+.. ...+-.+|.-..|+|||.....+...+...+ .++++++|.+-.
T Consensus 1 ~L~~~Q~~a~~~~l~--~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g-~~v~~~apT~~A 58 (196)
T PF13604_consen 1 TLNEEQREAVRAILT--SGDRVSVLQGPAGTGKTTLLKALAEALEAAG-KRVIGLAPTNKA 58 (196)
T ss_dssp -S-HHHHHHHHHHHH--CTCSEEEEEESTTSTHHHHHHHHHHHHHHTT---EEEEESSHHH
T ss_pred CCCHHHHHHHHHHHh--cCCeEEEEEECCCCCHHHHHHHHHHHHHhCC-CeEEEECCcHHH
Confidence 477899999987732 2334577889999999987666555555543 689999998654
No 216
>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]
Probab=95.47 E-value=0.012 Score=66.09 Aligned_cols=50 Identities=32% Similarity=0.357 Sum_probs=43.0
Q ss_pred cchhhhhhhccCCCceeEEEeeeccccccccccccCCcCccHHHHHHHHhh
Q 000883 192 TTVDRILACRGEDDEKEYLVKYKELSYDECYWEYESDISAFQPEIERFIKI 242 (1238)
Q Consensus 192 ~~veRIi~~r~~~~~~eyLVKWkgL~Y~~~tWE~~~~~~~~~~~i~~~~~~ 242 (1238)
..+|-||..|..-|..||||||+|-.--..|||.+..|.. .-+|..|...
T Consensus 11 fAaEsIlkkRirKGrvEYlVKWkGWs~kyNTWEPEENILD-pRLi~AFe~r 60 (369)
T KOG2748|consen 11 FAAESILKKRIRKGRVEYLVKWKGWSQKYNTWEPEENILD-PRLIAAFEQR 60 (369)
T ss_pred HHHHHHHHHHhhccceEEEEEecccccccCccCccccccC-HHHHHHHHhh
Confidence 3688999999888999999999999999999999988854 5678888764
No 217
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=95.44 E-value=0.007 Score=80.31 Aligned_cols=179 Identities=26% Similarity=0.395 Sum_probs=98.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCCh--HHHHHHHHHHHHhhC-CCCCeEEEeCCccHHHHHHHHHHHcCCCcE
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLG--KTIQSIAFLASLFGE-RISPHLVVAPLSTLRNWEREFATWAPQMNV 361 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlG--KTiqaia~l~~l~~~-~~~p~LIVvP~sll~qW~~E~~~~~p~l~v 361 (1238)
.+.++|.....-.. ........++++.|+| ||+.+..+....... ...+.++++|..+..+|..+...++ ....
T Consensus 84 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~-~~~~ 160 (866)
T COG0553 84 ILIPHQLDIALEVL--NELALRVLIADEVGLGDLKTIEAGAILKELLLRGEIKRVLILVPKTLRAQWVVELLEKF-NIRL 160 (866)
T ss_pred ccCcchhhhhhhhh--hhhhhchhhcccccccccccccccccchHhhhhhhhccceeccchHHHHHHHHHhhhhc-cccc
Confidence 45556665542211 1122238899999999 899887776665443 3358899999888899999987653 1111
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhh----hcccCCCce---eEEEe
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLD----SASLKPIKW---QCMIV 434 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d----~~~l~~i~w---~~vIv 434 (1238)
.+..-... +........+. .......++.+.+..... ...+....| +++++
T Consensus 161 ~~~~~~~~-~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 218 (866)
T COG0553 161 AVLDKEGL-RYLLKQYDAYN---------------------PFSTEDLVLISLDLAKRSDSKRREALLEAEWGERDLLVI 218 (866)
T ss_pred hhhhhhhh-hhhhhhhcccc---------------------cccchhhhhhhhhhhhhhhhhhhhhhhcccccchhhhhc
Confidence 11110000 00000000000 000000033444444332 222334456 89999
Q ss_pred cccccccCcc---------cHHHHHHHhccc--c------cEEEEecCCCCCCHHHHHHHHhhhcCCCCCC
Q 000883 435 DEGHRLKNKD---------SKLFSSLKQYST--R------HRVLLTGTPLQNNLDELFMLMHFLDAGKFGS 488 (1238)
Q Consensus 435 DEaHrlKN~~---------S~~~~~l~~l~~--~------~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~ 488 (1238)
||+|.+.+.. ...+..+..... . ...++++||.+....+++....++.+..+.+
T Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 289 (866)
T COG0553 219 DEAHNLGSSEGTRKLAPLETLEYELLKQLAEKIPSKLLDLKVLLLSATPEQLKEEDLFARLRLLDPLRLAD 289 (866)
T ss_pred chHhhcccccccccccchhhhHHHHHHHHhhcccccccccchhhhccchhhccccccchhhhhccccchhh
Confidence 9999987742 233333333321 1 2347899999999888888777777766655
No 218
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=95.28 E-value=0.077 Score=67.47 Aligned_cols=77 Identities=22% Similarity=0.273 Sum_probs=56.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc-HHHHHHHHHHHcCCCcEE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST-LRNWEREFATWAPQMNVV 362 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl-l~qW~~E~~~~~p~l~vv 362 (1238)
..|-+.|..+|... .......++--..|+|||.++++++..+...+. ++||++|... +.+....+... +++++
T Consensus 156 ~~ln~~Q~~Av~~~---l~~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g~-~VLv~a~sn~Avd~l~e~l~~~--~~~vv 229 (637)
T TIGR00376 156 PNLNESQKEAVSFA---LSSKDLFLIHGPPGTGKTRTLVELIRQLVKRGL-RVLVTAPSNIAVDNLLERLALC--DQKIV 229 (637)
T ss_pred CCCCHHHHHHHHHH---hcCCCeEEEEcCCCCCHHHHHHHHHHHHHHcCC-CEEEEcCcHHHHHHHHHHHHhC--CCcEE
Confidence 56889999999765 234467889999999999999998888776543 8999999754 55666666543 45555
Q ss_pred EEEc
Q 000883 363 MYVG 366 (1238)
Q Consensus 363 ~~~g 366 (1238)
-+.+
T Consensus 230 Rlg~ 233 (637)
T TIGR00376 230 RLGH 233 (637)
T ss_pred EeCC
Confidence 4433
No 219
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=95.19 E-value=0.0082 Score=72.13 Aligned_cols=84 Identities=30% Similarity=0.702 Sum_probs=57.6
Q ss_pred ccccccCC----C-CeeecC--CCCCccccCcCCCCCCCCCCCCCCCCccCCCCcccccccccccccCccCCCCcccccc
Q 000883 53 SCQACGES----E-NLMSCD--TCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEMRPTVAGDSDVSKLGS 125 (1238)
Q Consensus 53 ~C~~C~~~----~-~ll~C~--~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~iekIl~~R~rP~~~~~~~~~~~~~ 125 (1238)
-|-||-+. + .|+.|| .|.-+.|..|. .+..+|.|.|||..|.....-. -+.|.++|-..+--+-.+
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCY--GIvqVPtGpWfCrKCesqeraa--rvrCeLCP~kdGALKkTD--- 79 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQACY--GIVQVPTGPWFCRKCESQERAA--RVRCELCPHKDGALKKTD--- 79 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehhcc--eeEecCCCchhhhhhhhhhhhc--cceeecccCcccceeccc---
Confidence 47788764 2 399999 69999999999 8999999999999998643221 255666776554311111
Q ss_pred hhhhhHHHHhhccCCCcccc-cccchhhHH
Q 000883 126 KQIFVKQYLVKWKGLSYLHC-TWVPEKEFL 154 (1238)
Q Consensus 126 ~~~~~~eYlVKWkg~Sy~h~-tW~pe~~l~ 154 (1238)
=-||.|.-| -++||..+-
T Consensus 80 -----------n~GWAHVVCALYIPEVrFg 98 (900)
T KOG0956|consen 80 -----------NGGWAHVVCALYIPEVRFG 98 (900)
T ss_pred -----------CCCceEEEEEeeccceeec
Confidence 125677766 567776543
No 220
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=94.85 E-value=0.027 Score=57.25 Aligned_cols=34 Identities=35% Similarity=0.870 Sum_probs=26.9
Q ss_pred eeecCCCCCccccCcCCCCCCCC------------------CCCCCCCCccC
Q 000883 63 LMSCDTCTYAYHAKCLVPPLKAP------------------PSGSWRCPECV 96 (1238)
Q Consensus 63 ll~C~~C~~~~H~~Cl~p~l~~~------------------p~~~W~C~~C~ 96 (1238)
|++|..|.++||+.+|+|+-... .+.+|.|.+|.
T Consensus 124 LFRC~~C~RawH~~HLP~~~~~~~~~~~~~~~~~~~~R~~EYs~~W~C~dC~ 175 (175)
T PF15446_consen 124 LFRCTSCHRAWHFEHLPPPSGTTSDDDDDDDTDLRSQRLKEYSIDWQCKDCA 175 (175)
T ss_pred EEecCCccceeehhhCCCCcCCCCCcccccchhHHHHHHHHhCCccccCCCC
Confidence 99999999999999997764221 13579999984
No 221
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=94.82 E-value=0.046 Score=66.15 Aligned_cols=64 Identities=22% Similarity=0.325 Sum_probs=49.0
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCc-cHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLS-TLRNWERE 351 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~s-ll~qW~~E 351 (1238)
..|-+-|..++.+.. .+..-.++--+.|+|||.+.+-++..+...+ ..+||.+|.. .+.|-..-
T Consensus 184 ~~ln~SQk~Av~~~~---~~k~l~~I~GPPGTGKT~TlvEiI~qlvk~~-k~VLVcaPSn~AVdNiver 248 (649)
T KOG1803|consen 184 KNLNSSQKAAVSFAI---NNKDLLIIHGPPGTGKTRTLVEIISQLVKQK-KRVLVCAPSNVAVDNIVER 248 (649)
T ss_pred ccccHHHHHHHHHHh---ccCCceEeeCCCCCCceeeHHHHHHHHHHcC-CeEEEEcCchHHHHHHHHH
Confidence 457789999998762 2335578888999999999998888887765 5899999964 45665553
No 222
>PLN03025 replication factor C subunit; Provisional
Probab=94.75 E-value=0.34 Score=56.50 Aligned_cols=40 Identities=25% Similarity=0.372 Sum_probs=28.0
Q ss_pred HHHHHHHHhhcC--CCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 292 EGLNFLRFSWSK--QTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 292 egv~wL~~~~~~--~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
+.+..|...... ..+.+|.-+.|+|||..+.+++..+...
T Consensus 20 ~~~~~L~~~~~~~~~~~lll~Gp~G~GKTtla~~la~~l~~~ 61 (319)
T PLN03025 20 DAVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELLGP 61 (319)
T ss_pred HHHHHHHHHHhcCCCceEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 344444333333 2458999999999999999998887543
No 223
>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=94.53 E-value=0.31 Score=48.48 Aligned_cols=41 Identities=27% Similarity=0.329 Sum_probs=27.6
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
+...+|.-+.|.|||..+-.++..+... ..+++.+......
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~~~~~ 59 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRP-GAPFLYLNASDLL 59 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcC-CCCeEEEehhhhh
Confidence 6678899999999998777776666422 2355555444333
No 224
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=94.42 E-value=0.27 Score=63.51 Aligned_cols=65 Identities=23% Similarity=0.160 Sum_probs=48.9
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-CCCeEEEeCCccHHHHHHH
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWERE 351 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E 351 (1238)
+..|.+-|.+++..+ ..++-.+|.-..|+|||.++-+++..+...+ ..++++++|+..-.....+
T Consensus 321 ~~~l~~~Q~~Ai~~~----~~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~~~~v~l~ApTg~AA~~L~e 386 (720)
T TIGR01448 321 RKGLSEEQKQALDTA----IQHKVVILTGGPGTGKTTITRAIIELAEELGGLLPVGLAAPTGRAAKRLGE 386 (720)
T ss_pred CCCCCHHHHHHHHHH----HhCCeEEEECCCCCCHHHHHHHHHHHHHHcCCCceEEEEeCchHHHHHHHH
Confidence 457999999999866 3456789999999999988877777665543 2478889998766654443
No 225
>PRK04296 thymidine kinase; Provisional
Probab=93.95 E-value=0.16 Score=54.53 Aligned_cols=34 Identities=18% Similarity=0.149 Sum_probs=26.3
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
.++.-+||.|||..++.++..+...+ .+++|+.|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~g-~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEERG-MKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHcC-CeEEEEec
Confidence 56788999999999999888776543 36677755
No 226
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=93.80 E-value=0.012 Score=44.86 Aligned_cols=33 Identities=36% Similarity=0.968 Sum_probs=18.9
Q ss_pred CeeecCCCCCccccCcCCCCCCCCCCC-CCCCCccC
Q 000883 62 NLMSCDTCTYAYHAKCLVPPLKAPPSG-SWRCPECV 96 (1238)
Q Consensus 62 ~ll~C~~C~~~~H~~Cl~p~l~~~p~~-~W~C~~C~ 96 (1238)
.|+.|+.|.-..|..|. .+...|.+ +|+|..|.
T Consensus 3 ~ll~C~~C~v~VH~~CY--Gv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCY--GVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHH--T-SS--SS-----HHH-
T ss_pred ceEEeCCCCCcCChhhC--CcccCCCCCcEECCcCC
Confidence 48999999999999999 66666666 79998884
No 227
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=93.73 E-value=0.84 Score=57.97 Aligned_cols=55 Identities=16% Similarity=0.265 Sum_probs=34.1
Q ss_pred ceeEEEecccccccCcc-cHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhc
Q 000883 428 KWQCMIVDEGHRLKNKD-SKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLD 482 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~-S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~ 482 (1238)
+|.++||||+|.|.+.. ..+.+.|.......+++|+.|-.+.-+.-|.+-+..+.
T Consensus 119 r~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~ 174 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFN 174 (830)
T ss_pred CceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEe
Confidence 57899999999996533 23444455545566778877755444444444444333
No 228
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=93.59 E-value=0.063 Score=43.86 Aligned_cols=30 Identities=40% Similarity=0.623 Sum_probs=25.2
Q ss_pred CCcCHHHHHHHHHHHHhhchhhHHHhhcCc
Q 000883 1082 KFWKEEHDSLLLRAVLKHGYGRWQAIVDDK 1111 (1238)
Q Consensus 1082 ~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~ 1111 (1238)
..||++||..|+.+|.+||-++|..|-.-.
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~ 31 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRM 31 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHHHc
Confidence 369999999999999999999999886543
No 229
>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=93.55 E-value=0.15 Score=55.87 Aligned_cols=74 Identities=19% Similarity=0.183 Sum_probs=61.5
Q ss_pred CCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHc
Q 000883 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWA 356 (1238)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~ 356 (1238)
.+..+||-|.+.+..|+.. ..+.|.++-.-||-|||-..+-++..++..+..=+-+|||++++.+-..-+..-.
T Consensus 20 ~~iliR~~Q~~ia~~mi~~-~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg~~LvrviVpk~Ll~q~~~~L~~~l 93 (229)
T PF12340_consen 20 SNILIRPVQVEIAREMISP-PSGKNSVMQLNMGEGKTSVIVPMLALALADGSRLVRVIVPKALLEQMRQMLRSRL 93 (229)
T ss_pred cCceeeHHHHHHHHHHhCC-CCCCCeEeeecccCCccchHHHHHHHHHcCCCcEEEEEcCHHHHHHHHHHHHHHH
Confidence 3567999999999888654 5678999999999999999888888888877667889999999988776665433
No 230
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=93.53 E-value=0.42 Score=56.40 Aligned_cols=42 Identities=14% Similarity=0.324 Sum_probs=33.6
Q ss_pred HHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|.+++..|...+..++ ..++.-+.|+|||..+..++..+...
T Consensus 28 h~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 28 HEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred cHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 4556677777776665 47889999999999999999998764
No 231
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=93.50 E-value=0.19 Score=65.26 Aligned_cols=110 Identities=25% Similarity=0.375 Sum_probs=76.9
Q ss_pred hhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH-----HHHHHHHHHHcCCCcEEEEEcChhHHHHH
Q 000883 300 SWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL-----RNWEREFATWAPQMNVVMYVGTSQARNII 374 (1238)
Q Consensus 300 ~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll-----~qW~~E~~~~~p~l~vv~~~g~~~~r~~i 374 (1238)
.+..+.+++++...|+|||+.|= ++.+.....+.+.-++|...+ ..|.+-|... .++.++...|...-...+
T Consensus 1155 ~y~~nd~v~vga~~gsgkt~~ae--~a~l~~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~~~l~ge~s~~lkl 1231 (1674)
T KOG0951|consen 1155 LYNTNDNVLVGAPNGSGKTACAE--LALLRPDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRIVKLTGETSLDLKL 1231 (1674)
T ss_pred eecccceEEEecCCCCchhHHHH--HHhcCCccceEEEEecchHHHHHHHHHHHHHhhccc-cCceEEecCCccccchHH
Confidence 34567889999999999998763 222334555688999998766 4588888877 477777777765332111
Q ss_pred HHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccCcc
Q 000883 375 REYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKD 444 (1238)
Q Consensus 375 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN~~ 444 (1238)
..+-+|+|.|++....-. ..+ ..++.|+||.|-+....
T Consensus 1232 -----------------------------~~~~~vii~tpe~~d~lq-~iQ--~v~l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1232 -----------------------------LQKGQVIISTPEQWDLLQ-SIQ--QVDLFIVDELHLIGGVY 1269 (1674)
T ss_pred -----------------------------hhhcceEEechhHHHHHh-hhh--hcceEeeehhhhhcccC
Confidence 235679999999875442 222 45789999999987543
No 232
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.36 E-value=0.52 Score=59.61 Aligned_cols=81 Identities=19% Similarity=0.203 Sum_probs=57.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHH----HHHHHHHhhC---------C------------------
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQS----IAFLASLFGE---------R------------------ 332 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqa----ia~l~~l~~~---------~------------------ 332 (1238)
.++||-|+.-+..++.......+++|-+++|+|||+.- +|+..++... .
T Consensus 20 ~qpY~~Q~a~M~rvl~~L~~~q~~llESPTGTGKSLsLLCS~LAW~q~~k~~~~~~~~s~~~~~~~p~~~s~~~g~~s~e 99 (945)
T KOG1132|consen 20 FQPYPTQLAFMTRVLSCLDRKQNGLLESPTGTGKSLSLLCSTLAWQQHLKSRKPKGKISERKAGFIPTQPSDSGGEKSEE 99 (945)
T ss_pred CCcchHHHHHHHHHHHHHHHhhhhhccCCCCCCccHHHHHHHHHHHHHhhccccccchhhhhccccCCCCccCCCCchhh
Confidence 56799999999999999999999999999999999864 4444444310 0
Q ss_pred ---C------CCeEEEeCC--ccHHHHHHHHHHHcCCCcEEEE
Q 000883 333 ---I------SPHLVVAPL--STLRNWEREFATWAPQMNVVMY 364 (1238)
Q Consensus 333 ---~------~p~LIVvP~--sll~qW~~E~~~~~p~l~vv~~ 364 (1238)
. .|.++.+-. +-|.|-.+|+.+..-.++.+++
T Consensus 100 ~~e~~~~~~~ipkIyyaSRTHsQltQvvrElrrT~Y~vkmtVL 142 (945)
T KOG1132|consen 100 AGEPIACYTGIPKIYYASRTHSQLTQVVRELRRTGYRVKMTVL 142 (945)
T ss_pred hcCccccccCCceEEEecchHHHHHHHHHHHhhcCCCCceEEe
Confidence 0 145666653 3477888999876534554444
No 233
>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=93.09 E-value=0.59 Score=58.87 Aligned_cols=54 Identities=19% Similarity=0.214 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCC----CCeEEEeCCccH
Q 000883 288 PYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERI----SPHLVVAPLSTL 345 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~----~p~LIVvP~sll 345 (1238)
+.|..++... ..+.-.+|.-..|+|||.++..++..+..... ..+++++|+.--
T Consensus 148 ~~Qk~A~~~a----l~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkA 205 (586)
T TIGR01447 148 NWQKVAVALA----LKSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKA 205 (586)
T ss_pred HHHHHHHHHH----hhCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHH
Confidence 7999998655 34577899999999999998888877754321 368999997544
No 234
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.05 E-value=0.49 Score=57.52 Aligned_cols=42 Identities=21% Similarity=0.144 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|......++ ..|+.-+.|.|||..|..++..+...
T Consensus 23 Qe~iv~~L~~~i~~~ri~ha~Lf~GP~GtGKTTlAriLAk~Lnce 67 (484)
T PRK14956 23 QDLAIGALQNALKSGKIGHAYIFFGPRGVGKTTIARILAKRLNCE 67 (484)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhcCcc
Confidence 4444444444444433 35899999999999999998887653
No 235
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.02 E-value=0.33 Score=58.68 Aligned_cols=37 Identities=16% Similarity=0.217 Sum_probs=31.7
Q ss_pred EcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHH
Q 000883 310 ADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLR 346 (1238)
Q Consensus 310 aDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~ 346 (1238)
-+.+|+|||+++.++|.+++..+...+|+.|-. +++.
T Consensus 3 ~matgsgkt~~ma~lil~~y~kgyr~flffvnq~nile 40 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKKGYRNFLFFVNQANILE 40 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHhchhhEEEEecchhHHH
Confidence 467999999999999999999988899999884 5554
No 236
>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=92.91 E-value=0.23 Score=56.16 Aligned_cols=28 Identities=21% Similarity=0.161 Sum_probs=22.5
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..+.+|.-+.|+|||..|-++...+...
T Consensus 42 ~~~vll~GppGtGKTtlA~~ia~~l~~~ 69 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARILGKLFKEM 69 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence 3467899999999999998887776543
No 237
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.72 E-value=0.74 Score=57.64 Aligned_cols=26 Identities=27% Similarity=0.264 Sum_probs=22.5
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
+..||.-..|+|||..+..++..|..
T Consensus 39 HA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 39 HAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34588999999999999999998875
No 238
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.66 E-value=1.1 Score=53.40 Aligned_cols=56 Identities=11% Similarity=0.169 Sum_probs=36.5
Q ss_pred ceeEEEecccccccCccc---HHHHHHHhccc--ccEEEEecCCCCCCHHHHHHHHhhhcC
Q 000883 428 KWQCMIVDEGHRLKNKDS---KLFSSLKQYST--RHRVLLTGTPLQNNLDELFMLMHFLDA 483 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S---~~~~~l~~l~~--~~rllLTGTPlqNn~~EL~~ll~fL~p 483 (1238)
..++||||++.+.....- .+...+..... ...|.|+||--++.+.+++.-...+.+
T Consensus 254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~ 314 (388)
T PRK12723 254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSY 314 (388)
T ss_pred CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCC
Confidence 468999999998864332 23333333332 356889999888888877766655443
No 239
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=92.58 E-value=0.62 Score=54.51 Aligned_cols=40 Identities=23% Similarity=0.321 Sum_probs=29.3
Q ss_pred HHHHHHHhhcCCC--ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 293 GLNFLRFSWSKQT--HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 293 gv~wL~~~~~~~~--~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
.+.+|......+. +.+|.-+.|+|||..+.+++..+....
T Consensus 23 ~~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~~l~~~~ 64 (337)
T PRK12402 23 VVERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALARELYGDP 64 (337)
T ss_pred HHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHhcCcc
Confidence 3444444445554 689999999999999999988876543
No 240
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=92.42 E-value=0.052 Score=67.90 Aligned_cols=71 Identities=20% Similarity=0.242 Sum_probs=61.3
Q ss_pred cccccccccCCCCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCcccccccccccccCccCCCCcccccchhhh
Q 000883 50 KDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDIDKILDCEMRPTVAGDSDVSKLGSKQIF 129 (1238)
Q Consensus 50 ~~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~iekIl~~R~rP~~~~~~~~~~~~~~~~~ 129 (1238)
+..-|.+|..++.+.+|+.|++.||..|+-|....++..-|.|..|...
T Consensus 176 ~~~~~~~~~~~~k~~~~a~~~~r~~~~~iKpe~~~i~rii~~~~s~~~~------------------------------- 224 (696)
T KOG0383|consen 176 PEAEIGVTRDKGKLVPYADLEERFLLYGIKPEWMPIARIINRRSSQKGA------------------------------- 224 (696)
T ss_pred ccccccccccCccccccccchhhhhheeccccccccchhhhhhcccccc-------------------------------
Confidence 4566888999999999999999999999999888888888888777531
Q ss_pred hHHHHhhccCCCcccccccchhh
Q 000883 130 VKQYLVKWKGLSYLHCTWVPEKE 152 (1238)
Q Consensus 130 ~~eYlVKWkg~Sy~h~tW~pe~~ 152 (1238)
..|+|||+..+|..++|..+..
T Consensus 225 -~~~~Vk~k~l~~d~~~~e~~~~ 246 (696)
T KOG0383|consen 225 -TDYLVKWKELSYDEQEWEVEDP 246 (696)
T ss_pred -eeeEeeeccCCccccCCCcCCC
Confidence 2799999999999999999873
No 241
>PRK06526 transposase; Provisional
Probab=92.42 E-value=0.32 Score=54.78 Aligned_cols=54 Identities=24% Similarity=0.332 Sum_probs=37.6
Q ss_pred HHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHH
Q 000883 291 LEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFA 353 (1238)
Q Consensus 291 legv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~ 353 (1238)
+.+.+|+ ..+.+.+|.-..|+|||..+.++...+...+. +++++ +...|..++.
T Consensus 89 l~~~~fi----~~~~nlll~Gp~GtGKThLa~al~~~a~~~g~-~v~f~----t~~~l~~~l~ 142 (254)
T PRK06526 89 LGTLDFV----TGKENVVFLGPPGTGKTHLAIGLGIRACQAGH-RVLFA----TAAQWVARLA 142 (254)
T ss_pred HhcCchh----hcCceEEEEeCCCCchHHHHHHHHHHHHHCCC-chhhh----hHHHHHHHHH
Confidence 3344666 56788999999999999999999887766542 44443 3345666654
No 242
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=92.28 E-value=7.8 Score=50.87 Aligned_cols=26 Identities=23% Similarity=0.194 Sum_probs=22.4
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..||.-..|+|||..+..|...|...
T Consensus 39 a~Lf~Gp~G~GKTt~A~~lAr~L~C~ 64 (824)
T PRK07764 39 AYLFSGPRGCGKTSSARILARSLNCV 64 (824)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCcc
Confidence 35899999999999999999988753
No 243
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=92.18 E-value=0.14 Score=41.06 Aligned_cols=30 Identities=37% Similarity=0.667 Sum_probs=27.0
Q ss_pred CCcCHHHHHHHHHHHHhhchhhHHHhhcCc
Q 000883 1082 KFWKEEHDSLLLRAVLKHGYGRWQAIVDDK 1111 (1238)
Q Consensus 1082 ~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~ 1111 (1238)
..||.+||..|+.++.+||.++|..|....
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~ 31 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKEL 31 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHc
Confidence 579999999999999999999999886654
No 244
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=92.15 E-value=0.39 Score=60.67 Aligned_cols=57 Identities=18% Similarity=0.130 Sum_probs=43.0
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC---CCCeEEEeCCccHH
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER---ISPHLVVAPLSTLR 346 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~---~~p~LIVvP~sll~ 346 (1238)
..+.|++++.-. ..+.-++|.-..|+|||.++..++..+.... ..++++++|+.--.
T Consensus 153 ~~d~Qk~Av~~a----~~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA 212 (615)
T PRK10875 153 EVDWQKVAAAVA----LTRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAA 212 (615)
T ss_pred CCHHHHHHHHHH----hcCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHH
Confidence 458999998654 3466789999999999999888888775532 23678889975543
No 245
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=91.76 E-value=0.16 Score=40.06 Aligned_cols=29 Identities=45% Similarity=0.759 Sum_probs=26.4
Q ss_pred CcCHHHHHHHHHHHHhhchhhHHHhhcCc
Q 000883 1083 FWKEEHDSLLLRAVLKHGYGRWQAIVDDK 1111 (1238)
Q Consensus 1083 ~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~ 1111 (1238)
.||.+||..|+.++.+||.++|..|....
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~ 29 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKEL 29 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHc
Confidence 49999999999999999999999887664
No 246
>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=91.73 E-value=0.59 Score=45.94 Aligned_cols=43 Identities=16% Similarity=0.132 Sum_probs=31.0
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN 347 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q 347 (1238)
+...+|.-++|+|||..+..++..+.... ..++++.+......
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~-~~~~~~~~~~~~~~ 44 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG-GGVIYIDGEDILEE 44 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC-CCEEEECCEEcccc
Confidence 45688999999999999988887765543 35666666554433
No 247
>PRK08181 transposase; Validated
Probab=90.83 E-value=1.7 Score=49.32 Aligned_cols=53 Identities=17% Similarity=0.065 Sum_probs=37.5
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEE
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVV 339 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIV 339 (1238)
+..-|..++..+......+.+.+|.-+.|+|||..+.++...+...+ .+++++
T Consensus 88 ~~~~~~~~L~~~~~~~~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~g-~~v~f~ 140 (269)
T PRK08181 88 VSKAQVMAIAAGDSWLAKGANLLLFGPPGGGKSHLAAAIGLALIENG-WRVLFT 140 (269)
T ss_pred CCHHHHHHHHHHHHHHhcCceEEEEecCCCcHHHHHHHHHHHHHHcC-Cceeee
Confidence 45577777654422236788899999999999999999888776653 244444
No 248
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=90.72 E-value=2.7 Score=50.99 Aligned_cols=56 Identities=13% Similarity=0.205 Sum_probs=34.9
Q ss_pred ceeEEEecccccccCcccH---HHHHHHhc--ccccEEEEecCCCCCCHHHHHHHHhhhcC
Q 000883 428 KWQCMIVDEGHRLKNKDSK---LFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDA 483 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S~---~~~~l~~l--~~~~rllLTGTPlqNn~~EL~~ll~fL~p 483 (1238)
.+++||||-+-+....... +...+... .....|+|++|+-++.+.+++..+..+.+
T Consensus 299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 4689999998765433222 22222211 22457889999877777777777665554
No 249
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=90.67 E-value=1 Score=52.04 Aligned_cols=71 Identities=20% Similarity=0.166 Sum_probs=41.0
Q ss_pred cccCCCCCCCCCCCcH-HHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHH-hhCC-CCCeEEEeCCccH
Q 000883 273 QYEHSPEFLSGGSLHP-YQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASL-FGER-ISPHLVVAPLSTL 345 (1238)
Q Consensus 273 ~~~~~P~~~~~~~Lrp-yQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l-~~~~-~~p~LIVvP~sll 345 (1238)
.+...+....|...+. +|.-++..|. -..-.=+.|.-.-|+|||+-|+|...+- ...+ ...++|-=|.--+
T Consensus 215 ~l~~~~~~vwGi~prn~eQ~~ALdlLl--d~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpv 288 (436)
T COG1875 215 LLKHEDQEVWGIRPRNAEQRVALDLLL--DDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPV 288 (436)
T ss_pred ecccCchhhhccCcccHHHHHHHHHhc--CCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCc
Confidence 3334555555655444 8888888762 1223346788899999999887765433 2222 2344444444333
No 250
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=90.67 E-value=1.3 Score=55.98 Aligned_cols=42 Identities=24% Similarity=0.202 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|-..+..|...+..++ + .|+.-+.|+|||..+..|+..+...
T Consensus 21 Qe~vv~~L~~~l~~~rl~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 21 QEHVLTALANALDLGRLHHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 3344445555555443 2 4899999999999999999888654
No 251
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=90.56 E-value=2.2 Score=48.11 Aligned_cols=42 Identities=21% Similarity=0.380 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhhcCCC-ceEEEcCCCChHHHHHHHHHHHHh
Q 000883 288 PYQLEGLNFLRFSWSKQT-HVILADEMGLGKTIQSIAFLASLF 329 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~-~~ILaDemGlGKTiqaia~l~~l~ 329 (1238)
+.+..+++.+......+. .++|.-+.|+|||..+-.++..+.
T Consensus 26 ~~~~~~~~~l~~~~~~~~~~~~l~G~~G~GKTtl~~~l~~~l~ 68 (269)
T TIGR03015 26 KGHKRAMAYLEYGLSQREGFILITGEVGAGKTTLIRNLLKRLD 68 (269)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHhcC
Confidence 455667777766555544 477899999999988877666553
No 252
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=90.44 E-value=3 Score=48.32 Aligned_cols=26 Identities=38% Similarity=0.705 Sum_probs=21.9
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
+.+|.-+.|+|||..+-+++..+...
T Consensus 40 ~~ll~G~~G~GKt~~~~~l~~~l~~~ 65 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALALARELYGE 65 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 58999999999999998888877543
No 253
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=90.28 E-value=1.2 Score=52.02 Aligned_cols=47 Identities=21% Similarity=0.215 Sum_probs=35.6
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.++|+|.....-+...-.-...-++..+.|+|||..|..++..+...
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 36788888887665542223345689999999999999999998764
No 254
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=90.24 E-value=0.46 Score=54.43 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=27.0
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCC---CCeEEEe
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERI---SPHLVVA 340 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~---~p~LIVv 340 (1238)
+.+.+|.-+.|+|||..|.++...+...+. ++++.+.
T Consensus 58 ~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~ 97 (284)
T TIGR02880 58 TLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT 97 (284)
T ss_pred CceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec
Confidence 346889999999999999888877765432 3555444
No 255
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=90.18 E-value=1.5 Score=47.99 Aligned_cols=42 Identities=24% Similarity=0.184 Sum_probs=28.6
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHH
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLR 346 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~ 346 (1238)
.+.+.+|.-+.|+|||..+.++.......+ .+ ++.++.+.+.
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~~~~~~-~~-~~~i~~~~~~ 78 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAAAEERG-KS-AIYLPLAELA 78 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHhcC-Cc-EEEEeHHHHH
Confidence 456788999999999999988887765432 23 3444444333
No 256
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=90.14 E-value=0.095 Score=63.64 Aligned_cols=59 Identities=36% Similarity=0.791 Sum_probs=42.4
Q ss_pred cccccccccCCCC-----eeecCCCCCccccCcCCCCCCCC-CCCCCCCCccCC-----CCccccccccc
Q 000883 50 KDDSCQACGESEN-----LMSCDTCTYAYHAKCLVPPLKAP-PSGSWRCPECVS-----PLNDIDKILDC 108 (1238)
Q Consensus 50 ~~~~C~~C~~~~~-----ll~C~~C~~~~H~~Cl~p~l~~~-p~~~W~C~~C~~-----~~~~iekIl~~ 108 (1238)
...+|.+|+..|. |+.|..|...||..|+.-.+... -.+.|.||.|.. ..+++.+.+.|
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~gD~~kf~~C 86 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTGDPKKFLLC 86 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccCCccccccc
Confidence 3578999986653 99999999999999996544332 245599999973 23456666655
No 257
>CHL00181 cbbX CbbX; Provisional
Probab=90.09 E-value=0.53 Score=54.04 Aligned_cols=28 Identities=21% Similarity=0.317 Sum_probs=22.9
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
+.+.+|.-+.|+|||..|-++...+...
T Consensus 59 ~~~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 59 GLHMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3457899999999999998888877654
No 258
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=89.97 E-value=12 Score=46.88 Aligned_cols=81 Identities=16% Similarity=0.170 Sum_probs=46.8
Q ss_pred eEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCC-----HHHHHHHHHHHhcCC-CCceEEEeec--cccccccCcCC--
Q 000883 626 RVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVG-----GAERQIRIDRFNAKN-SSRFCFLLST--RAGGLGINLAT-- 695 (1238)
Q Consensus 626 KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~-----~~~R~~~I~~Fn~~~-s~~~v~LlSt--ragg~GINL~~-- 695 (1238)
-|++|...-..|..+...+...|+ ..+|.|.-+ ..--..+++.|...- .+.=++|++. .-.++|||+.+
T Consensus 631 GvV~FfPSy~yL~~v~k~w~~~gi-l~ri~~kK~vF~E~k~~~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~L 709 (821)
T KOG1133|consen 631 GVVCFFPSYAYLGQVRKRWEQNGI-LARIVGKKKVFYEPKDTVEDVLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDL 709 (821)
T ss_pred cEEEEeccHHHHHHHHHHHHhcch-HHHhhccchhhccCcccHHHHHHHHHHHhhcCCCeEEEEEecccccccccccccc
Confidence 477777777778888777775554 122222210 000245666664321 1111344444 44589999985
Q ss_pred CCEEEEEcCCCC
Q 000883 696 ADTVIIYDSDWN 707 (1238)
Q Consensus 696 Ad~VIi~D~dWN 707 (1238)
+..||..-.|+-
T Consensus 710 gRaVvvVGlPyP 721 (821)
T KOG1133|consen 710 GRAVVVVGLPYP 721 (821)
T ss_pred ccEEEEeecCCC
Confidence 788988888873
No 259
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.85 E-value=1.9 Score=54.38 Aligned_cols=25 Identities=20% Similarity=0.232 Sum_probs=21.6
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..|+....|+|||..|.+++..+..
T Consensus 39 AyLF~GPpGvGKTTlAriLAK~LnC 63 (702)
T PRK14960 39 AYLFTGTRGVGKTTIARILAKCLNC 63 (702)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4589999999999999998888754
No 260
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=89.82 E-value=0.52 Score=59.10 Aligned_cols=167 Identities=16% Similarity=0.230 Sum_probs=96.9
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHHHHHH-HHHHcCCCcE
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWERE-FATWAPQMNV 361 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E-~~~~~p~l~v 361 (1238)
....|||.+-++-|-.. .-..+.+.-..-+|||...+.++.+.....++|+|+|.|. .....|..+ |.-..-
T Consensus 15 ~~~~Py~~eimd~~~~~--~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P~~~l~v~Pt~~~a~~~~~~rl~Pmi~---- 88 (557)
T PF05876_consen 15 TDRTPYLREIMDALSDP--SVREVVVMKSAQVGKTELLLNWIGYSIDQDPGPMLYVQPTDDAAKDFSKERLDPMIR---- 88 (557)
T ss_pred CCCChhHHHHHHhcCCc--CccEEEEEEcchhhHhHHHHhhceEEEEeCCCCEEEEEEcHHHHHHHHHHHHHHHHH----
Confidence 46889999998866221 2356778888899999999999999888888999999997 445556533 332220
Q ss_pred EEEEcChhHHHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEeccccccc
Q 000883 362 VMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLK 441 (1238)
Q Consensus 362 v~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlK 441 (1238)
.+..-+..+... . .+.....+.. + ....-.+.++... ....|.+....+|++||..+.-
T Consensus 89 ----~sp~l~~~~~~~------~-----~~~~~~t~~~-k-~f~gg~l~~~ga~----S~~~l~s~~~r~~~~DEvD~~p 147 (557)
T PF05876_consen 89 ----ASPVLRRKLSPS------K-----SRDSGNTILY-K-RFPGGFLYLVGAN----SPSNLRSRPARYLLLDEVDRYP 147 (557)
T ss_pred ----hCHHHHHHhCch------h-----hcccCCchhh-e-ecCCCEEEEEeCC----CCcccccCCcCEEEEechhhcc
Confidence 111111111100 0 0000000000 0 0001123333322 2456788889999999999883
Q ss_pred ----CcccHHH---HHHHhcccccEEEEecCCCCCCHHHHHHH
Q 000883 442 ----NKDSKLF---SSLKQYSTRHRVLLTGTPLQNNLDELFML 477 (1238)
Q Consensus 442 ----N~~S~~~---~~l~~l~~~~rllLTGTPlqNn~~EL~~l 477 (1238)
+..+... .....+....++++..||.......+..+
T Consensus 148 ~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~ 190 (557)
T PF05876_consen 148 DDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERL 190 (557)
T ss_pred ccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHH
Confidence 3333333 33445556788999999976644444433
No 261
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.75 E-value=2.6 Score=52.31 Aligned_cols=41 Identities=22% Similarity=0.183 Sum_probs=27.9
Q ss_pred HHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 291 LEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 291 legv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
...+..|......+ +..++.-..|+|||..|..++..+...
T Consensus 22 ~~v~~~L~~~~~~~~l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 65 (509)
T PRK14958 22 APVVRALSNALDQQYLHHAYLFTGTRGVGKTTISRILAKCLNCE 65 (509)
T ss_pred HHHHHHHHHHHHhCCCCeeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 33444444433332 234899999999999999999888653
No 262
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=89.70 E-value=1.5 Score=52.47 Aligned_cols=26 Identities=23% Similarity=0.349 Sum_probs=22.4
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..++..+.|+|||..|.+++..+...
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l~c~ 63 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAALQCT 63 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhCCC
Confidence 46789999999999999999887654
No 263
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=89.55 E-value=1.6 Score=54.02 Aligned_cols=42 Identities=17% Similarity=0.158 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+..+ +..||.-+.|+|||..|-.++..+...
T Consensus 26 q~~vv~~L~~ai~~~ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~ 70 (507)
T PRK06645 26 QEVLVKVLSYTILNDRLAGGYLLTGIRGVGKTTSARIIAKAVNCS 70 (507)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCc
Confidence 444555554444444 468899999999999999998888653
No 264
>PRK08084 DNA replication initiation factor; Provisional
Probab=89.44 E-value=2.5 Score=47.02 Aligned_cols=28 Identities=21% Similarity=0.103 Sum_probs=22.3
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
....+|.-+.|+|||..+.++...+...
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~~~ 72 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELSQR 72 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHhC
Confidence 4568899999999999887777766543
No 265
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.19 E-value=1.5 Score=56.97 Aligned_cols=25 Identities=28% Similarity=0.344 Sum_probs=21.8
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.||.-+.|+|||..+..|+..+...
T Consensus 41 yLFtGPpGtGKTTLARiLAk~Lnce 65 (944)
T PRK14949 41 YLFTGTRGVGKTSLARLFAKGLNCE 65 (944)
T ss_pred EEEECCCCCCHHHHHHHHHHhccCc
Confidence 3799999999999999999888653
No 266
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=88.87 E-value=0.28 Score=57.19 Aligned_cols=31 Identities=35% Similarity=0.724 Sum_probs=28.6
Q ss_pred CCCcCHHHHHHHHHHHHhhchhhHHHhhcCc
Q 000883 1081 GKFWKEEHDSLLLRAVLKHGYGRWQAIVDDK 1111 (1238)
Q Consensus 1081 ~~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~ 1111 (1238)
...||.+|+..||.++..||||||+.|-.-.
T Consensus 72 ~~~WtadEEilLLea~~t~G~GNW~dIA~hI 102 (438)
T KOG0457|consen 72 DPSWTADEEILLLEAAETYGFGNWQDIADHI 102 (438)
T ss_pred CCCCChHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence 4689999999999999999999999988766
No 267
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.78 E-value=2.4 Score=50.45 Aligned_cols=41 Identities=24% Similarity=0.176 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhh
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
|...+..+...+..++ + .+|.-+.|+|||..|-+++..+..
T Consensus 21 q~~~~~~l~~~~~~~~~~h~~L~~Gp~G~GKTtla~~la~~l~c 64 (363)
T PRK14961 21 QKHIVTAISNGLSLGRIHHAWLLSGTRGVGKTTIARLLAKSLNC 64 (363)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEecCCCCCHHHHHHHHHHHhcC
Confidence 4455555555555432 3 489999999999999999888763
No 268
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=88.76 E-value=0.88 Score=37.08 Aligned_cols=42 Identities=12% Similarity=0.416 Sum_probs=35.2
Q ss_pred CChHHHHHHHHHHHhcCCCCcchhhhchhhc-CCCHHHHHHHHHH
Q 000883 969 FSQNQRAAFVQILMRFGVGDFDWKEFTPRLK-QKSYEEIREYGIL 1012 (1238)
Q Consensus 969 F~~~~rr~Fi~a~~kfG~~~~~~~~i~~el~-~Ks~~Evk~Y~~~ 1012 (1238)
||..+-..|++++.+||.+ +|..|+..+. ++|..+++.+...
T Consensus 4 Wt~eE~~~l~~~v~~~g~~--~W~~Ia~~~~~~Rt~~qc~~~~~~ 46 (48)
T PF00249_consen 4 WTEEEDEKLLEAVKKYGKD--NWKKIAKRMPGGRTAKQCRSRYQN 46 (48)
T ss_dssp S-HHHHHHHHHHHHHSTTT--HHHHHHHHHSSSSTHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhCCc--HHHHHHHHcCCCCCHHHHHHHHHh
Confidence 6677778999999999976 4789999999 9999999977543
No 269
>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=88.45 E-value=4.9 Score=48.51 Aligned_cols=126 Identities=14% Similarity=0.175 Sum_probs=92.3
Q ss_pred hHHHHHH-HHHHHHH--HcCCeEEEEecchhHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 608 GKLQLLD-KMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 608 ~Kl~~L~-klL~~l~--~~g~KVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
.++.... .+|+.+. ....++|||...---.-.|..+|...+++|+.++--++..+-..+-..|..+... ++|.|-
T Consensus 281 ~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~--iLL~TE 358 (442)
T PF06862_consen 281 ARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKP--ILLYTE 358 (442)
T ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCce--EEEEEh
Confidence 3444443 4777776 3457899998766555668899999999999999999999999999999876544 466666
Q ss_pred ccc-ccccCcCCCCEEEEEcCCCChhhhhHHHHHHhhhCC----CCceEEEEEecC
Q 000883 685 RAG-GLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQ----TNKVMIFRLITR 735 (1238)
Q Consensus 685 rag-g~GINL~~Ad~VIi~D~dWNp~~~~Qa~gR~hRiGQ----~k~V~VyrLvt~ 735 (1238)
|+- =.=..+.++.+||+|.+|-+|+-+...+.-...-.+ .....|.-|.++
T Consensus 359 R~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk 414 (442)
T PF06862_consen 359 RFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSK 414 (442)
T ss_pred HHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecH
Confidence 653 345567789999999999999999888865544333 234555556555
No 270
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=88.29 E-value=2.9 Score=47.39 Aligned_cols=43 Identities=26% Similarity=0.268 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhhcC--CCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 289 YQLEGLNFLRFSWSK--QTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 289 yQlegv~wL~~~~~~--~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
+|-..|+-|...... ..+-++.-+.|+|||-++++|...|...
T Consensus 40 gQe~vV~~L~~a~~~~~lp~~LFyGPpGTGKTStalafar~L~~~ 84 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLRRILPHYLFYGPPGTGKTSTALAFARALNCE 84 (346)
T ss_pred chHHHHHHHHHHHhhcCCceEEeeCCCCCcHhHHHHHHHHHhcCc
Confidence 777777776555444 3456788999999999999999998763
No 271
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.25 E-value=4.6 Score=48.69 Aligned_cols=42 Identities=19% Similarity=0.131 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+.++ ...|+.-+.|+|||..|.+++..+...
T Consensus 21 q~~~~~~L~~~~~~~~~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~ 65 (397)
T PRK14955 21 QEHITRTIQNSLRMGRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (397)
T ss_pred hHHHHHHHHHHHHhCCcceeEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 444444555555554 336789999999999999999888653
No 272
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=88.14 E-value=3.6 Score=47.78 Aligned_cols=40 Identities=28% Similarity=0.332 Sum_probs=25.4
Q ss_pred eeEEEecccccccCcc--cHHHHHHHhcccccEEEEecCCCC
Q 000883 429 WQCMIVDEGHRLKNKD--SKLFSSLKQYSTRHRVLLTGTPLQ 468 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~--S~~~~~l~~l~~~~rllLTGTPlq 468 (1238)
..+|||||+|++.... ..+...+.......++++|++...
T Consensus 101 ~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~ 142 (316)
T PHA02544 101 GKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKN 142 (316)
T ss_pred CeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChh
Confidence 4689999999983322 223333444556678888876543
No 273
>PHA02533 17 large terminase protein; Provisional
Probab=88.09 E-value=2.2 Score=53.14 Aligned_cols=55 Identities=20% Similarity=0.152 Sum_probs=37.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh-CCCCCeEEEeCC
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG-ERISPHLVVAPL 342 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~-~~~~p~LIVvP~ 342 (1238)
..|.|+|..-+..|. .++-.++.-.=..|||..+.+++.++.- .....+++++|.
T Consensus 58 f~L~p~Q~~i~~~~~----~~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~ 113 (534)
T PHA02533 58 VQMRDYQKDMLKIMH----KNRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHK 113 (534)
T ss_pred cCCcHHHHHHHHHHh----cCeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCC
Confidence 569999999887762 2344567777889999988765544332 323367778884
No 274
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.08 E-value=2.8 Score=52.20 Aligned_cols=39 Identities=23% Similarity=0.239 Sum_probs=27.5
Q ss_pred HHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 292 EGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 292 egv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..+..|...+..++ ..|+.-+.|+|||..|..++..+..
T Consensus 23 ~~v~~L~~~i~~~rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 23 HALNSLVHALETQKVHHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 33344444444432 3578999999999999999988864
No 275
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=88.07 E-value=1.7 Score=44.33 Aligned_cols=54 Identities=24% Similarity=0.353 Sum_probs=34.8
Q ss_pred EEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccc--cccccCcCC--CCEEEEEcCCC
Q 000883 652 ERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRA--GGLGINLAT--ADTVIIYDSDW 706 (1238)
Q Consensus 652 ~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStra--gg~GINL~~--Ad~VIi~D~dW 706 (1238)
..+.+... .+...+++.|.......-.+|+++.. .++|||++. +..||+.-.|+
T Consensus 23 i~~e~~~~-~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 23 VFIEGKDS-GETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred EEEECCCC-chHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence 34445432 34578899998643310124555544 799999985 78899988775
No 276
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=88.00 E-value=4.4 Score=48.18 Aligned_cols=36 Identities=17% Similarity=0.241 Sum_probs=25.6
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
....|.-..|.|||.++..++..+...+. .++++.-
T Consensus 242 ~vI~LVGptGvGKTTTiaKLA~~L~~~Gk-kVglI~a 277 (436)
T PRK11889 242 QTIALIGPTGVGKTTTLAKMAWQFHGKKK-TVGFITT 277 (436)
T ss_pred cEEEEECCCCCcHHHHHHHHHHHHHHcCC-cEEEEec
Confidence 34568889999999998888877765432 4554443
No 277
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=87.99 E-value=3.7 Score=51.94 Aligned_cols=42 Identities=21% Similarity=0.190 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|-..+..|...+..+ ...||.-..|+|||..|..++..+...
T Consensus 29 q~~~v~~L~~~~~~gri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 29 QEAMVRTLTNAFETGRIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred cHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 334444444444444 357889999999999999999988654
No 278
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.92 E-value=0.29 Score=59.62 Aligned_cols=47 Identities=32% Similarity=0.805 Sum_probs=38.8
Q ss_pred ccccccccCCCCeeecCCCCCccccCcCCCCCC-CCCCCCCCCCccCC
Q 000883 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLK-APPSGSWRCPECVS 97 (1238)
Q Consensus 51 ~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~-~~p~~~W~C~~C~~ 97 (1238)
-..|.+|..+|++++|+.|+.+||..|-.+++. +.+...|.|..|..
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~ 94 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPK 94 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcccccccccccCCCc
Confidence 468999999999999999999999999988886 22345677777753
No 279
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=87.84 E-value=2.8 Score=51.57 Aligned_cols=25 Identities=32% Similarity=0.259 Sum_probs=21.5
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..||.-+.|+|||..|-+++..+..
T Consensus 38 ~~Lf~GPpGtGKTTlA~~lA~~l~~ 62 (472)
T PRK14962 38 AYIFAGPRGTGKTTVARILAKSLNC 62 (472)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcc
Confidence 3589999999999999988887754
No 280
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=87.69 E-value=4.3 Score=47.23 Aligned_cols=48 Identities=15% Similarity=0.295 Sum_probs=39.6
Q ss_pred CCcHHHHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
.++|+|......|...+..++ ..++..+.|+||+..|.+|+..+....
T Consensus 4 ~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~ 54 (319)
T PRK08769 4 AFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHVLASG 54 (319)
T ss_pred cccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHhCCC
Confidence 588999999888877766544 467899999999999999999987654
No 281
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=87.68 E-value=1.2 Score=35.01 Aligned_cols=42 Identities=12% Similarity=0.388 Sum_probs=35.9
Q ss_pred CChHHHHHHHHHHHhcCCCCcchhhhchhhcCCCHHHHHHHHHH
Q 000883 969 FSQNQRAAFVQILMRFGVGDFDWKEFTPRLKQKSYEEIREYGIL 1012 (1238)
Q Consensus 969 F~~~~rr~Fi~a~~kfG~~~~~~~~i~~el~~Ks~~Evk~Y~~~ 1012 (1238)
||..+...|++++.+||.. +|..|+..+.++|..+|+.|...
T Consensus 2 Wt~eE~~~l~~~~~~~g~~--~w~~Ia~~~~~rs~~~~~~~~~~ 43 (45)
T cd00167 2 WTEEEDELLLEAVKKYGKN--NWEKIAKELPGRTPKQCRERWRN 43 (45)
T ss_pred CCHHHHHHHHHHHHHHCcC--CHHHHHhHcCCCCHHHHHHHHHH
Confidence 6777888999999999963 47899999999999999988654
No 282
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=87.68 E-value=2.8 Score=51.98 Aligned_cols=40 Identities=20% Similarity=0.219 Sum_probs=27.6
Q ss_pred HHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 292 EGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 292 egv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..+..|......+. ..++.-+.|.|||..+.+++..+...
T Consensus 21 ~v~~~L~~~I~~grl~hayLf~Gp~G~GKTt~Ar~LAk~L~c~ 63 (535)
T PRK08451 21 SVSKTLSLALDNNRLAHAYLFSGLRGSGKTSSARIFARALVCE 63 (535)
T ss_pred HHHHHHHHHHHcCCCCeeEEEECCCCCcHHHHHHHHHHHhcCC
Confidence 33444444444433 23789999999999999999888653
No 283
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=87.65 E-value=6.1 Score=50.30 Aligned_cols=26 Identities=31% Similarity=0.322 Sum_probs=22.1
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..||.-..|+|||..+..++..+...
T Consensus 40 a~Lf~GP~GvGKTTlAriLAk~LnC~ 65 (709)
T PRK08691 40 AYLLTGTRGVGKTTIARILAKSLNCE 65 (709)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhccc
Confidence 46899999999999999988887643
No 284
>PRK08116 hypothetical protein; Validated
Probab=87.47 E-value=4.1 Score=46.31 Aligned_cols=42 Identities=21% Similarity=0.272 Sum_probs=31.1
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLR 346 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~ 346 (1238)
+.+.+|.-++|+|||..+.+++..+...+ .+++++.-..++.
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~-~~v~~~~~~~ll~ 155 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKG-VPVIFVNFPQLLN 155 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEEEHHHHHH
Confidence 44688999999999999999999987763 3665554334443
No 285
>PRK14974 cell division protein FtsY; Provisional
Probab=87.11 E-value=3.8 Score=48.02 Aligned_cols=35 Identities=17% Similarity=0.171 Sum_probs=24.9
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
-.++.-..|.|||.++..++..+...+. +++++..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~~ 176 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAAG 176 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEecC
Confidence 3568889999999988887777765433 4555543
No 286
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.95 E-value=5.2 Score=49.26 Aligned_cols=39 Identities=21% Similarity=0.259 Sum_probs=27.1
Q ss_pred HHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 293 GLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 293 gv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.+..|...+..+ +..|+.-..|+|||..|..++..+...
T Consensus 21 vv~~L~~a~~~~ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC~ 62 (491)
T PRK14964 21 LVRILRNAFTLNKIPQSILLVGASGVGKTTCARIISLCLNCS 62 (491)
T ss_pred HHHHHHHHHHcCCCCceEEEECCCCccHHHHHHHHHHHHcCc
Confidence 333444434433 457899999999999998888777543
No 287
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=86.58 E-value=4.1 Score=48.40 Aligned_cols=43 Identities=12% Similarity=0.138 Sum_probs=33.2
Q ss_pred HHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 290 QLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
|.++...|...+..++ .-++.-+.|+|||..|.+|+..++...
T Consensus 24 q~~~~~~L~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 24 HAAAEAALLDAYRSGRLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred hHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 5566666666666543 467899999999999999999998643
No 288
>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=86.56 E-value=4.2 Score=42.48 Aligned_cols=44 Identities=20% Similarity=0.253 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhCCC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGERI 333 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~~~ 333 (1238)
|.+.+..|...+.++ ...|+..+.|.||+..|.+++..++....
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~ 48 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALLCSNP 48 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC-TT-
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHcCCCC
Confidence 555666666555554 33588999999999999999999987643
No 289
>PF13173 AAA_14: AAA domain
Probab=86.37 E-value=4.5 Score=40.24 Aligned_cols=26 Identities=27% Similarity=0.386 Sum_probs=21.4
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHh
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLF 329 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~ 329 (1238)
+.-.+|.-..|.|||..+..++..+.
T Consensus 2 ~~~~~l~G~R~vGKTtll~~~~~~~~ 27 (128)
T PF13173_consen 2 RKIIILTGPRGVGKTTLLKQLAKDLL 27 (128)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhc
Confidence 45578899999999998888887765
No 290
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=86.13 E-value=12 Score=40.88 Aligned_cols=29 Identities=24% Similarity=0.488 Sum_probs=24.2
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
+-.+.|++...|.|||..+.+++..|+..
T Consensus 47 nmP~liisGpPG~GKTTsi~~LAr~LLG~ 75 (333)
T KOG0991|consen 47 NMPNLIISGPPGTGKTTSILCLARELLGD 75 (333)
T ss_pred CCCceEeeCCCCCchhhHHHHHHHHHhCh
Confidence 34578999999999999999888887653
No 291
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=86.01 E-value=5.2 Score=50.36 Aligned_cols=42 Identities=21% Similarity=0.141 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhhcCC--Cc-eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ--TH-VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~--~~-~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+..+ .+ .|+.-..|+|||..|..++..+...
T Consensus 18 q~~i~~~L~~~i~~~r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~ 62 (584)
T PRK14952 18 QEHVTEPLSSALDAGRINHAYLFSGPRGCGKTSSARILARSLNCA 62 (584)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhccc
Confidence 445555555444443 23 4799999999999999999888753
No 292
>PRK08727 hypothetical protein; Validated
Probab=85.93 E-value=3.3 Score=45.96 Aligned_cols=27 Identities=26% Similarity=0.265 Sum_probs=22.1
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
..+|.-+.|+|||..+.++...+...+
T Consensus 43 ~l~l~G~~G~GKThL~~a~~~~~~~~~ 69 (233)
T PRK08727 43 WLYLSGPAGTGKTHLALALCAAAEQAG 69 (233)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence 478999999999998888877766543
No 293
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=85.80 E-value=4.4 Score=51.26 Aligned_cols=42 Identities=26% Similarity=0.265 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+..++ + .|+.-..|+|||..+..++..+...
T Consensus 21 Qe~vv~~L~~~l~~~rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~ 65 (618)
T PRK14951 21 QEHVVQALTNALTQQRLHHAYLFTGTRGVGKTTVSRILAKSLNCQ 65 (618)
T ss_pred cHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 4445555544444432 2 4889999999999999999888753
No 294
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=85.65 E-value=4.5 Score=47.22 Aligned_cols=47 Identities=15% Similarity=0.226 Sum_probs=36.6
Q ss_pred CcHHHHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 286 LHPYQLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
++|+|...-.-|...+..++ .-++.-+.|+||+..|.+|+..+....
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~ 52 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMCQT 52 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcCCC
Confidence 57888777777766666543 456789999999999999999987643
No 295
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=85.54 E-value=1.5 Score=34.98 Aligned_cols=45 Identities=16% Similarity=0.458 Sum_probs=37.8
Q ss_pred CCChHHHHHHHHHHHhcCCCCcchhhhchhhcCCCHHHHHHHHHHHH
Q 000883 968 GFSQNQRAAFVQILMRFGVGDFDWKEFTPRLKQKSYEEIREYGILFL 1014 (1238)
Q Consensus 968 GF~~~~rr~Fi~a~~kfG~~~~~~~~i~~el~~Ks~~Evk~Y~~~F~ 1014 (1238)
.|+..+...|++++.+||..+ |..|+..+.++|..+++.+...++
T Consensus 3 ~Wt~~E~~~l~~~~~~~g~~~--w~~Ia~~~~~rt~~~~~~~~~~~~ 47 (49)
T smart00717 3 EWTEEEDELLIELVKKYGKNN--WEKIAKELPGRTAEQCRERWNNLL 47 (49)
T ss_pred CCCHHHHHHHHHHHHHHCcCC--HHHHHHHcCCCCHHHHHHHHHHHc
Confidence 477778889999999999644 688999999999999998866543
No 296
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=85.14 E-value=3.4 Score=53.20 Aligned_cols=162 Identities=15% Similarity=0.169 Sum_probs=87.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC-CccHHHHHHHHHHHcCCCcEEE
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP-LSTLRNWEREFATWAPQMNVVM 363 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP-~sll~qW~~E~~~~~p~l~vv~ 363 (1238)
.|-.-|++|+-.. .....-.++---.|+|||.+...++..|...+ +.+|+.+= .+.+.|-.--+..+. +. ++
T Consensus 669 ~LN~dQr~A~~k~---L~aedy~LI~GMPGTGKTTtI~~LIkiL~~~g-kkVLLtsyThsAVDNILiKL~~~~--i~-~l 741 (1100)
T KOG1805|consen 669 RLNNDQRQALLKA---LAAEDYALILGMPGTGKTTTISLLIKILVALG-KKVLLTSYTHSAVDNILIKLKGFG--IY-IL 741 (1100)
T ss_pred hcCHHHHHHHHHH---HhccchheeecCCCCCchhhHHHHHHHHHHcC-CeEEEEehhhHHHHHHHHHHhccC--cc-ee
Confidence 5788999997543 23333345555689999988888777776665 35666655 467777766665543 22 22
Q ss_pred EEcChhH-HHHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccC
Q 000883 364 YVGTSQA-RNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKN 442 (1238)
Q Consensus 364 ~~g~~~~-r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN 442 (1238)
-.|.... -..++++... ...... ....-........||.+|---+. ...|..-.||++|||||-.+.-
T Consensus 742 RLG~~~kih~~v~e~~~~-~~~s~k--------s~~~l~~~~~~~~IVa~TClgi~--~plf~~R~FD~cIiDEASQI~l 810 (1100)
T KOG1805|consen 742 RLGSEEKIHPDVEEFTLT-NETSEK--------SYADLKKFLDQTSIVACTCLGIN--HPLFVNRQFDYCIIDEASQILL 810 (1100)
T ss_pred ecCCccccchHHHHHhcc-cccchh--------hHHHHHHHhCCCcEEEEEccCCC--chhhhccccCEEEEcccccccc
Confidence 2343322 2223332210 000000 00000001123345655543332 3344556799999999975532
Q ss_pred cccHHHHHHHhcccccEEEEecCCCCC
Q 000883 443 KDSKLFSSLKQYSTRHRVLLTGTPLQN 469 (1238)
Q Consensus 443 ~~S~~~~~l~~l~~~~rllLTGTPlqN 469 (1238)
+ -.|-.+....+..|-|-+.|-
T Consensus 811 P-----~~LgPL~~s~kFVLVGDh~QL 832 (1100)
T KOG1805|consen 811 P-----LCLGPLSFSNKFVLVGDHYQL 832 (1100)
T ss_pred c-----hhhhhhhhcceEEEecccccC
Confidence 2 344555667788888877553
No 297
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=84.95 E-value=12 Score=47.17 Aligned_cols=95 Identities=17% Similarity=0.213 Sum_probs=73.8
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecch----hHHHHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQ----HMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~----~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.|||..+..--+-...+.|..+.+....- ...+-+.++|...|+.+..++|++.+..|.+++.+-.++..+ ++
T Consensus 293 GSGKTvVA~laml~ai~~G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~---iv 369 (677)
T COG1200 293 GSGKTVVALLAMLAAIEAGYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEID---IV 369 (677)
T ss_pred CCCHHHHHHHHHHHHHHcCCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCC---EE
Confidence 57886654444444566788888887752 345677888888899999999999999999999999877666 78
Q ss_pred eecccc-ccccCcCCCCEEEEEc
Q 000883 682 LSTRAG-GLGINLATADTVIIYD 703 (1238)
Q Consensus 682 lStrag-g~GINL~~Ad~VIi~D 703 (1238)
+.|.|+ -..++....-.||+=+
T Consensus 370 VGTHALiQd~V~F~~LgLVIiDE 392 (677)
T COG1200 370 VGTHALIQDKVEFHNLGLVIIDE 392 (677)
T ss_pred EEcchhhhcceeecceeEEEEec
Confidence 999996 7788888877777633
No 298
>PF13245 AAA_19: Part of AAA domain
Probab=84.68 E-value=2.5 Score=38.27 Aligned_cols=44 Identities=25% Similarity=0.275 Sum_probs=33.2
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC---CCCCeEEEeCCccHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE---RISPHLVVAPLSTLRN 347 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~---~~~p~LIVvP~sll~q 347 (1238)
+.-.++.-..|+|||.+++..+.++... ...++||++|+....+
T Consensus 10 ~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~ 56 (76)
T PF13245_consen 10 SPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAAD 56 (76)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHH
Confidence 3445669999999999999888888742 2348999999755433
No 299
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=84.63 E-value=7.4 Score=49.42 Aligned_cols=41 Identities=20% Similarity=0.217 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhh
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
|...+..|...+..+. + .||.-+.|+|||..+..++..+..
T Consensus 21 q~~~~~~L~~~i~~~~i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c 64 (585)
T PRK14950 21 QEHVVQTLRNAIAEGRVAHAYLFTGPRGVGKTSTARILAKAVNC 64 (585)
T ss_pred CHHHHHHHHHHHHhCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4555556655555443 2 389999999999999999988754
No 300
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=84.47 E-value=0.87 Score=38.93 Aligned_cols=41 Identities=29% Similarity=0.493 Sum_probs=28.7
Q ss_pred cCHHHHHHHHHHHHhhchhhHHHhhcCcccChhHHHHHhhCCCCcc
Q 000883 1084 WKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVICQELNLPFIN 1129 (1238)
Q Consensus 1084 w~~eeD~~LL~gi~~~Gyg~we~Ik~D~~l~l~~~~~~e~~~~~~~ 1129 (1238)
||.+||..|+.++.+||. +|..|-.-. ..|....+..++..
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l----~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHL----GNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHS----TTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHH----CcCCHHHHHHHHHH
Confidence 999999999999999995 799985542 24555555555555
No 301
>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA. This protein contains domains distinctive of a single strand exonuclease (N-terminus, MobA/MobL, pfam03389) as well as a helicase domain (central region, homologous to the corresponding region of the F-type relaxase TraI, TIGR02760). This protein likely fills the same role as TraI(F), nicking (at the oriT site) and unwinding the coiled plasmid prior to conjugative transfer.
Probab=84.33 E-value=6.6 Score=51.22 Aligned_cols=60 Identities=13% Similarity=0.004 Sum_probs=43.7
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHH
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLR 346 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~ 346 (1238)
+..|.+-|.+++..+. ..+.-++|....|+|||.+.-+++..+... ..++++++|.....
T Consensus 350 ~~~Ls~~Q~~Av~~i~---~s~~~~il~G~aGTGKTtll~~i~~~~~~~-g~~V~~~ApTg~Aa 409 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVT---GSGDIAVVVGRAGTGKSTMLKAAREAWEAA-GYRVIGAALSGKAA 409 (744)
T ss_pred cCCCCHHHHHHHHHHh---cCCCEEEEEecCCCCHHHHHHHHHHHHHhC-CCeEEEEeCcHHHH
Confidence 3578999999998763 224567899999999998876665554433 34788889976543
No 302
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=84.15 E-value=6.9 Score=48.01 Aligned_cols=35 Identities=20% Similarity=0.198 Sum_probs=26.0
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEE
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERIS-PHLVV 339 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIV 339 (1238)
...+|..+.|+|||..+-++...+.....+ .++.+
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi 184 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYV 184 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEE
Confidence 347899999999999998888887765433 34444
No 303
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=83.84 E-value=4.7 Score=47.25 Aligned_cols=75 Identities=24% Similarity=0.254 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHhhcCC--Cc-eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEEE
Q 000883 289 YQLEGLNFLRFSWSKQ--TH-VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYV 365 (1238)
Q Consensus 289 yQlegv~wL~~~~~~~--~~-~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~ 365 (1238)
.|...+..|...+..+ .+ -++.-+.|.|||..|..++..+........ .|-........-.....|+++.+...
T Consensus 10 ~q~~~~~~L~~~~~~~~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~---~~cg~C~~c~~~~~~~hpD~~~i~~~ 86 (329)
T PRK08058 10 LQPVVVKMLQNSIAKNRLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGV---EPCGTCTNCKRIDSGNHPDVHLVAPD 86 (329)
T ss_pred hHHHHHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCC---CCCCcCHHHHHHhcCCCCCEEEeccc
Confidence 4555556665555544 23 489999999999999999998875431110 12223333333333445676666554
Q ss_pred c
Q 000883 366 G 366 (1238)
Q Consensus 366 g 366 (1238)
|
T Consensus 87 ~ 87 (329)
T PRK08058 87 G 87 (329)
T ss_pred c
Confidence 4
No 304
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.67 E-value=6 Score=49.11 Aligned_cols=42 Identities=17% Similarity=0.155 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|......+. + .++.-+.|+|||..+.+++..+...
T Consensus 19 q~~v~~~L~~~i~~~~l~ha~Lf~GppGtGKTTlA~~lA~~l~c~ 63 (504)
T PRK14963 19 QEHVKEVLLAALRQGRLGHAYLFSGPRGVGKTTTARLIAMAVNCS 63 (504)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence 4444555544444443 2 3899999999999999999888643
No 305
>KOG1911 consensus Heterochromatin-associated protein HP1 and related CHROMO domain proteins [Chromatin structure and dynamics]
Probab=83.66 E-value=0.42 Score=54.35 Aligned_cols=25 Identities=44% Similarity=0.789 Sum_probs=21.9
Q ss_pred HHHHhhccCCCcccccccchh-hHHH
Q 000883 131 KQYLVKWKGLSYLHCTWVPEK-EFLK 155 (1238)
Q Consensus 131 ~eYlVKWkg~Sy~h~tW~pe~-~l~~ 155 (1238)
.+|||||+|++.-.+||+|+. .+.|
T Consensus 64 ~eYlvkW~Gy~~~~ntWEPee~~~~C 89 (270)
T KOG1911|consen 64 IEYLVKWKGYPDPDNTWEPEEHNLDC 89 (270)
T ss_pred ceeeeecCCCCCccccCCchhhcccc
Confidence 489999999999999999997 5544
No 306
>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=83.66 E-value=3.3 Score=44.77 Aligned_cols=34 Identities=21% Similarity=0.209 Sum_probs=24.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
.+|.-.+|.|||.++.-+++++... ..++.+|+-
T Consensus 4 i~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~ 37 (196)
T PF00448_consen 4 IALVGPTGVGKTTTIAKLAARLKLK-GKKVALISA 37 (196)
T ss_dssp EEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEE
T ss_pred EEEECCCCCchHhHHHHHHHHHhhc-cccceeecC
Confidence 4678899999999998888888766 345555554
No 307
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.46 E-value=11 Score=47.18 Aligned_cols=25 Identities=24% Similarity=0.264 Sum_probs=21.5
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..|+.-+.|+|||..|-.++..+..
T Consensus 40 a~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (527)
T PRK14969 40 AYLFTGTRGVGKTTLARILAKSLNC 64 (527)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3589999999999999998888754
No 308
>PRK04132 replication factor C small subunit; Provisional
Probab=83.36 E-value=4.4 Score=52.94 Aligned_cols=52 Identities=13% Similarity=0.263 Sum_probs=33.4
Q ss_pred ceeEEEecccccccCc-ccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHh
Q 000883 428 KWQCMIVDEGHRLKNK-DSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMH 479 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~-~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~ 479 (1238)
++.+|||||||++-.. ...+.+.+.......+++|+.++...-+.-|.+-+.
T Consensus 630 ~~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~ 682 (846)
T PRK04132 630 SFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCA 682 (846)
T ss_pred CCEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhce
Confidence 4679999999999532 233445555555677888888876544444444433
No 309
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.31 E-value=6.7 Score=49.93 Aligned_cols=42 Identities=19% Similarity=0.079 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+..+ ...|+..+.|+|||..|.+++..+...
T Consensus 21 q~~i~~~L~~~l~~~rl~~a~Lf~Gp~G~GKttlA~~lAk~L~c~ 65 (620)
T PRK14948 21 QEAIATTLKNALISNRIAPAYLFTGPRGTGKTSSARILAKSLNCL 65 (620)
T ss_pred hHHHHHHHHHHHHcCCCCceEEEECCCCCChHHHHHHHHHHhcCC
Confidence 445555555554544 345899999999999999999988653
No 310
>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=83.27 E-value=7.7 Score=48.29 Aligned_cols=95 Identities=13% Similarity=0.169 Sum_probs=72.1
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC-CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEee
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLS 683 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlS 683 (1238)
..|||..+...++....+.|.++||.+........+.+.|... |..+..++|.++..+|..+..+-..+... +++.
T Consensus 6 TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~---IVVG 82 (505)
T TIGR00595 6 TGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEIL---VVIG 82 (505)
T ss_pred CCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCC---EEEC
Confidence 4699999988888888888999999999988777777777543 67899999999999998877766554433 5777
Q ss_pred ccccccccCcCCCCEEEEEc
Q 000883 684 TRAGGLGINLATADTVIIYD 703 (1238)
Q Consensus 684 tragg~GINL~~Ad~VIi~D 703 (1238)
|+..- =+-+.....||+-+
T Consensus 83 Trsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 83 TRSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred ChHHH-cCcccCCCEEEEEC
Confidence 77632 23456677777665
No 311
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=82.96 E-value=5.7 Score=47.05 Aligned_cols=45 Identities=20% Similarity=0.167 Sum_probs=32.4
Q ss_pred CcHHHHHHHHHHHHh-hc--CCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 286 LHPYQLEGLNFLRFS-WS--KQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 286 LrpyQlegv~wL~~~-~~--~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
=|..|++.+.-.+.. .. ...+.+|.-+.|+|||..+-.++..+..
T Consensus 19 gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 19 HRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 477888877443332 22 2356889999999999999888887753
No 312
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=82.83 E-value=6.6 Score=46.19 Aligned_cols=47 Identities=23% Similarity=0.324 Sum_probs=34.6
Q ss_pred CcHHHHHHHHHHHHhhcCC-CceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 286 LHPYQLEGLNFLRFSWSKQ-THVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~-~~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
++|+|...-+-|.....+- ...++..+.|+|||..|..|+..+....
T Consensus 2 ~yPW~~~~~~~l~~~~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~ 49 (342)
T PRK06964 2 LYPWQTDDWNRLQALRARLPHALLLHGQAGIGKLDFAQHLAQGLLCET 49 (342)
T ss_pred CCcccHHHHHHHHHhcCCcceEEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 4677777766665542222 3456789999999999999999987653
No 313
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.78 E-value=7 Score=48.30 Aligned_cols=41 Identities=27% Similarity=0.182 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhhcCCC--c-eEEEcCCCChHHHHHHHHHHHHhh
Q 000883 290 QLEGLNFLRFSWSKQT--H-VILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~--~-~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
|...+..|......+. + .++.-+.|.|||..|..++..+..
T Consensus 21 q~~i~~~L~~~i~~~~i~hayLf~Gp~G~GKTtlAr~lAk~L~c 64 (486)
T PRK14953 21 QEIVVRILKNAVKLQRVSHAYIFAGPRGTGKTTIARILAKVLNC 64 (486)
T ss_pred hHHHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 4445555555555432 3 368999999999999888887753
No 314
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=82.44 E-value=11 Score=47.43 Aligned_cols=128 Identities=14% Similarity=0.192 Sum_probs=68.4
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeCC-ccHHHHHHH----HHHHcCCCcEEEEEcChhHHHHHHHh
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAPL-STLRNWERE----FATWAPQMNVVMYVGTSQARNIIREY 377 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP~-sll~qW~~E----~~~~~p~l~vv~~~g~~~~r~~i~~~ 377 (1238)
.+-.++.-.==-|||..+...+..+.....+ .+++++|. ++...--.| +++|+|.-.+....|. .| .+
T Consensus 254 qk~tVflVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~vkGe-----~I-~i 327 (738)
T PHA03368 254 QRATVFLVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHVKGE-----TI-SF 327 (738)
T ss_pred ccceEEEecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeeecCc-----EE-EE
Confidence 4445666677789999877777766544333 88999994 554444444 4567765433222221 11 11
Q ss_pred hhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccCcccHHHHHHHh--cc
Q 000883 378 EFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQ--YS 455 (1238)
Q Consensus 378 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~--l~ 455 (1238)
.+++. .+-.+...|- .....++...++++||||||-++... +...+=. -.
T Consensus 328 --~f~nG--------------------~kstI~FaSa----rntNsiRGqtfDLLIVDEAqFIk~~a--l~~ilp~l~~~ 379 (738)
T PHA03368 328 --SFPDG--------------------SRSTIVFASS----HNTNGIRGQDFNLLFVDEANFIRPDA--VQTIMGFLNQT 379 (738)
T ss_pred --EecCC--------------------CccEEEEEec----cCCCCccCCcccEEEEechhhCCHHH--HHHHHHHHhcc
Confidence 11111 0111222211 23345667789999999999987622 2222211 12
Q ss_pred cccEEEEecC
Q 000883 456 TRHRVLLTGT 465 (1238)
Q Consensus 456 ~~~rllLTGT 465 (1238)
....|.+|.|
T Consensus 380 n~k~I~ISS~ 389 (738)
T PHA03368 380 NCKIIFVSST 389 (738)
T ss_pred CccEEEEecC
Confidence 4456777755
No 315
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=82.18 E-value=0.64 Score=47.65 Aligned_cols=47 Identities=28% Similarity=0.758 Sum_probs=32.8
Q ss_pred ccccccC------CCCeeecCCCCCccccCcCCCCCCC------CCCCC--CCCCccCCCC
Q 000883 53 SCQACGE------SENLMSCDTCTYAYHAKCLVPPLKA------PPSGS--WRCPECVSPL 99 (1238)
Q Consensus 53 ~C~~C~~------~~~ll~C~~C~~~~H~~Cl~p~l~~------~p~~~--W~C~~C~~~~ 99 (1238)
.|.+|+. .|.|+.|.+|..+||..||-|--.. +..++ -.|..|....
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~ 61 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIA 61 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChh
Confidence 4788853 2459999999999999999664321 22333 4788887644
No 316
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=82.17 E-value=3.2 Score=51.30 Aligned_cols=130 Identities=18% Similarity=0.176 Sum_probs=71.1
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeCC-ccHH----HHHHHHHHHcCCCcEEEEEcChhHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAPL-STLR----NWEREFATWAPQMNVVMYVGTSQARNIIR 375 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP~-sll~----qW~~E~~~~~p~l~vv~~~g~~~~r~~i~ 375 (1238)
.++-.+.| -+=-=|||...+.+|..++..-.+ .+..|+.. ++.. .-...+.+|+|.-+++.-.|..-
T Consensus 201 KQkaTVFL-VPRRHGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~~k~~tI------ 273 (668)
T PHA03372 201 KQKATVFL-VPRRHGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIENKDNVI------ 273 (668)
T ss_pred hccceEEE-ecccCCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceeeecCcEE------
Confidence 33334444 356679999999999888875444 77888874 3332 34455678998766533222110
Q ss_pred HhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccCcccHHHHHHHhcc
Q 000883 376 EYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYS 455 (1238)
Q Consensus 376 ~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~ 455 (1238)
-+..+ ..+.-++..| ......++.-.|++++|||||-++...=...--+..-+
T Consensus 274 --~~s~p---------------------g~Kst~~fas----c~n~NsiRGQ~fnll~VDEA~FI~~~a~~tilgfm~q~ 326 (668)
T PHA03372 274 --SIDHR---------------------GAKSTALFAS----CYNTNSIRGQNFHLLLVDEAHFIKKDAFNTILGFLAQN 326 (668)
T ss_pred --EEecC---------------------CCcceeeehh----hccCccccCCCCCEEEEehhhccCHHHHHHhhhhhccc
Confidence 00011 0111122222 12234667778999999999988754322222222223
Q ss_pred cccEEEEecC
Q 000883 456 TRHRVLLTGT 465 (1238)
Q Consensus 456 ~~~rllLTGT 465 (1238)
....+.+|.|
T Consensus 327 ~~KiIfISS~ 336 (668)
T PHA03372 327 TTKIIFISST 336 (668)
T ss_pred CceEEEEeCC
Confidence 4455666654
No 317
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=82.03 E-value=12 Score=47.28 Aligned_cols=26 Identities=19% Similarity=0.208 Sum_probs=21.5
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..|+.-+.|+|||..|-.++..+...
T Consensus 40 ayLf~Gp~GtGKTt~Ak~lAkal~c~ 65 (559)
T PRK05563 40 AYLFSGPRGTGKTSAAKIFAKAVNCL 65 (559)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 35679999999999999888877543
No 318
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=81.95 E-value=8.1 Score=51.49 Aligned_cols=59 Identities=14% Similarity=-0.009 Sum_probs=41.2
Q ss_pred CCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
|..|.+-|.+++..+. ..+.-++|.-..|+|||.+.-+ +..++......++.++|+...
T Consensus 344 g~~Ls~eQr~Av~~il---~s~~v~vv~G~AGTGKTT~l~~-~~~~~e~~G~~V~~~ApTGkA 402 (988)
T PRK13889 344 GLVLSGEQADALAHVT---DGRDLGVVVGYAGTGKSAMLGV-AREAWEAAGYEVRGAALSGIA 402 (988)
T ss_pred CCCCCHHHHHHHHHHh---cCCCeEEEEeCCCCCHHHHHHH-HHHHHHHcCCeEEEecCcHHH
Confidence 4579999999998763 2234578999999999987443 444444333478888887654
No 319
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=81.77 E-value=5.6 Score=48.71 Aligned_cols=41 Identities=15% Similarity=-0.010 Sum_probs=28.0
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeCCccH
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAPLSTL 345 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP~sll 345 (1238)
...+|.-+.|+|||..+-++...+.....+ .++.|.+...+
T Consensus 142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~~~f~ 183 (450)
T PRK14087 142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMSGDEFA 183 (450)
T ss_pred CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEHHHHH
Confidence 347799999999999888887777654333 45554444433
No 320
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=81.67 E-value=9.2 Score=48.33 Aligned_cols=37 Identities=19% Similarity=0.206 Sum_probs=26.6
Q ss_pred HHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 294 LNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 294 v~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
+..|...+.++ ...|+.-+.|+|||..|..++..+..
T Consensus 25 ~~~L~~ai~~~ri~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 25 KAILSRAAQENRVAPAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred HHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHhccc
Confidence 34444434443 34668999999999999999988864
No 321
>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=81.58 E-value=0.81 Score=48.31 Aligned_cols=38 Identities=29% Similarity=0.395 Sum_probs=26.1
Q ss_pred ccccEEEecHHHHHhhhc--ccC--CCceeEEEecccccccC
Q 000883 405 IKFDVLLTSYEMINLDSA--SLK--PIKWQCMIVDEGHRLKN 442 (1238)
Q Consensus 405 ~~fdVvItSye~l~~d~~--~l~--~i~w~~vIvDEaHrlKN 442 (1238)
...||||++|..+..... .+. ..+-.+|||||||+|-+
T Consensus 118 ~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 118 KNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp GG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred ccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 467999999999875422 221 23446899999999854
No 322
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=81.50 E-value=6.6 Score=50.40 Aligned_cols=167 Identities=19% Similarity=0.196 Sum_probs=109.1
Q ss_pred EeccCCHHHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHhCCcccccCCCCCccchHHHHHHHHhhhhHHHHHHH
Q 000883 536 LRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQLLESSGKLQLLDK 615 (1238)
Q Consensus 536 v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~i~~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~li~~S~Kl~~L~k 615 (1238)
....+++.|...+..|... + -+.+++|+.++. .|||.++...
T Consensus 195 ~~~~Ln~~Q~~a~~~i~~~---------------------~--~~~~~~Ll~GvT---------------GSGKTEvYl~ 236 (730)
T COG1198 195 EWLALNQEQQAAVEAILSS---------------------L--GGFAPFLLDGVT---------------GSGKTEVYLE 236 (730)
T ss_pred cccccCHHHHHHHHHHHHh---------------------c--ccccceeEeCCC---------------CCcHHHHHHH
Confidence 3567888898888877543 1 246788887754 6999999999
Q ss_pred HHHHHHHcCCeEEEEecchhHHHHHHHHHhhC-CCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcC
Q 000883 616 MMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLA 694 (1238)
Q Consensus 616 lL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~ 694 (1238)
++....++|+.+||...-+.....+.+.+..+ |.++..++++.+..+|...-.+...+... +++.||++= =.=+.
T Consensus 237 ~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~---vVIGtRSAl-F~Pf~ 312 (730)
T COG1198 237 AIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEAR---VVIGTRSAL-FLPFK 312 (730)
T ss_pred HHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCce---EEEEechhh-cCchh
Confidence 99999999999999999888777777777554 78999999999999999988888765443 667776631 11122
Q ss_pred CCCEEEEE---cCCCChhh--hhHHHHHHhhhCCCCceEEEEEecCCCHHHHHHH
Q 000883 695 TADTVIIY---DSDWNPHA--DLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQ 744 (1238)
Q Consensus 695 ~Ad~VIi~---D~dWNp~~--~~Qa~gR~hRiGQ~k~V~VyrLvt~~TvEE~I~~ 744 (1238)
..-.||+. |+.+-..+ .-+|.+=|...++...+.|.-=-+.-|+|..-..
T Consensus 313 ~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~~~pvvLgSATPSLES~~~~ 367 (730)
T COG1198 313 NLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKENAPVVLGSATPSLESYANA 367 (730)
T ss_pred hccEEEEeccccccccCCcCCCcCHHHHHHHHHHHhCCCEEEecCCCCHHHHHhh
Confidence 33334433 11111111 1223333333344445555444455577765444
No 323
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=81.38 E-value=1.6 Score=37.15 Aligned_cols=29 Identities=31% Similarity=0.550 Sum_probs=25.8
Q ss_pred CCCCcCHHHHHHHHHHHHhhchhhH---HHhh
Q 000883 1080 GGKFWKEEHDSLLLRAVLKHGYGRW---QAIV 1108 (1238)
Q Consensus 1080 ~~~~w~~eeD~~LL~gi~~~Gyg~w---e~Ik 1108 (1238)
....||+|+-...|.+|..+|.|.| ..|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~ 33 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRIL 33 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHH
Confidence 3468999999999999999999999 7774
No 324
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=81.35 E-value=11 Score=47.67 Aligned_cols=59 Identities=17% Similarity=0.061 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC-ccHHH
Q 000883 288 PYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRN 347 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~q 347 (1238)
|+=++-++-+...+.+.-.++++ +=|-|||..+..++..+.......++|.+|. ++...
T Consensus 172 ~~~~~~id~~~~~fkq~~tV~ta-PRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~e 231 (752)
T PHA03333 172 PRTLREIDRIFDEYGKCYTAATV-PRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLT 231 (752)
T ss_pred hhhHHHHHHHHHHHhhcceEEEe-ccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHH
Confidence 44445566666666666666655 6899999887766666554222478999994 44433
No 325
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=81.16 E-value=12 Score=46.99 Aligned_cols=39 Identities=18% Similarity=0.115 Sum_probs=27.7
Q ss_pred HHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 293 GLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 293 gv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.+..|...+..+ +..|+.-+.|+|||..|..++..+...
T Consensus 24 iv~~L~~aI~~~rl~hA~Lf~GP~GvGKTTlA~~lAk~L~C~ 65 (605)
T PRK05896 24 IKKILVNAILNNKLTHAYIFSGPRGIGKTSIAKIFAKAINCL 65 (605)
T ss_pred HHHHHHHHHHcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 334444444333 345789999999999999999988654
No 326
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=81.05 E-value=0.88 Score=37.93 Aligned_cols=30 Identities=27% Similarity=0.862 Sum_probs=25.8
Q ss_pred ccccccccC----CCCeeecCCCCCccccCcCCC
Q 000883 51 DDSCQACGE----SENLMSCDTCTYAYHAKCLVP 80 (1238)
Q Consensus 51 ~~~C~~C~~----~~~ll~C~~C~~~~H~~Cl~p 80 (1238)
...|.+|+. +++++.|..|...||..|+..
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 357999996 577999999999999999854
No 327
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=80.99 E-value=6.6 Score=46.13 Aligned_cols=47 Identities=15% Similarity=0.150 Sum_probs=37.9
Q ss_pred CCcHHHHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.++|+|...-..|...+..++ .-+++-+.|+||+..|.+|+.++.-.
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~ 51 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMCQ 51 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 467888888877777766543 35689999999999999999999764
No 328
>PRK05580 primosome assembly protein PriA; Validated
Probab=80.96 E-value=11 Score=48.90 Aligned_cols=95 Identities=11% Similarity=0.119 Sum_probs=72.1
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhh-CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeec
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTF-KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLST 684 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~-~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlSt 684 (1238)
.|||......++......|.++||.+........+.+.|.. -|..+..++|+++..+|.........+... ++++|
T Consensus 172 GSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~---IVVgT 248 (679)
T PRK05580 172 GSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAK---VVIGA 248 (679)
T ss_pred CChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCC---EEEec
Confidence 58899888777777777899999999998877776666654 378899999999999998887777655433 67788
Q ss_pred cccccccCcCCCCEEEEEcC
Q 000883 685 RAGGLGINLATADTVIIYDS 704 (1238)
Q Consensus 685 ragg~GINL~~Ad~VIi~D~ 704 (1238)
+..- =+.+.....||+-+-
T Consensus 249 rsal-~~p~~~l~liVvDEe 267 (679)
T PRK05580 249 RSAL-FLPFKNLGLIIVDEE 267 (679)
T ss_pred cHHh-cccccCCCEEEEECC
Confidence 7532 355667777777653
No 329
>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=80.56 E-value=6.4 Score=47.57 Aligned_cols=34 Identities=21% Similarity=0.217 Sum_probs=25.7
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEE
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGERIS-PHLVV 339 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIV 339 (1238)
..+|.-..|+|||..+.++...+.....+ .++.+
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi 172 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYV 172 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEE
Confidence 46799999999999998888887765433 44444
No 330
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=80.23 E-value=18 Score=43.10 Aligned_cols=40 Identities=18% Similarity=0.170 Sum_probs=28.6
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeC
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAP 341 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP 341 (1238)
..++..+|.-.+|.|||.++..++..+... +..++.+|+.
T Consensus 135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~ 175 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT 175 (374)
T ss_pred cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec
Confidence 446677899999999999998888776433 3335555554
No 331
>PRK06893 DNA replication initiation factor; Validated
Probab=80.08 E-value=11 Score=41.77 Aligned_cols=26 Identities=12% Similarity=-0.044 Sum_probs=21.4
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..+|.-+.|+|||..+.++...+...
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~~~ 66 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYLLN 66 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 35899999999999888888776554
No 332
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.78 E-value=20 Score=45.46 Aligned_cols=25 Identities=24% Similarity=0.331 Sum_probs=21.6
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.|+.-+-|+|||..+..++..+...
T Consensus 41 yLf~Gp~G~GKtt~A~~lak~l~c~ 65 (576)
T PRK14965 41 FLFTGARGVGKTSTARILAKALNCE 65 (576)
T ss_pred EEEECCCCCCHHHHHHHHHHhhcCC
Confidence 4789999999999999999888653
No 333
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=79.71 E-value=12 Score=43.60 Aligned_cols=48 Identities=15% Similarity=0.178 Sum_probs=38.4
Q ss_pred CCcHHHHHHHHHHHHhhcCCC---ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQT---HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~---~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
.++|+|...-..+...+..++ .-++..+.|+||+..|..|+..+....
T Consensus 3 ~~yPWl~~~~~~l~~~~~~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~ 53 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLDAGRIPGALLLQSDEGLGVESLVELFSRALLCQN 53 (319)
T ss_pred cCcccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 478888888877776665544 467899999999999999999987653
No 334
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=79.69 E-value=9.6 Score=45.42 Aligned_cols=50 Identities=14% Similarity=0.157 Sum_probs=35.4
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREF 352 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~ 352 (1238)
..+.-.+|.-++|.|||..++.++..+...+ +++|.|.-.....+.....
T Consensus 80 ~~GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs~EEs~~qi~~Ra 129 (372)
T cd01121 80 VPGSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVSGEESPEQIKLRA 129 (372)
T ss_pred cCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEECCcCHHHHHHHH
Confidence 3455578999999999999988887765542 4788887655555544333
No 335
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=79.59 E-value=10 Score=46.44 Aligned_cols=35 Identities=14% Similarity=0.158 Sum_probs=26.4
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEe
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVA 340 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVv 340 (1238)
..+|.-+.|+|||..+-++...+.....+ .++.+.
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~ 167 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT 167 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 57899999999999988888887665433 445443
No 336
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=79.15 E-value=16 Score=46.78 Aligned_cols=97 Identities=18% Similarity=0.224 Sum_probs=67.8
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHH----HHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDL----LEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldi----L~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.|||..+..-.+-.....|.+++|.+........ +..++...|+++..++|+++..+|..+++...++..+ ++
T Consensus 266 GSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~---Ii 342 (630)
T TIGR00643 266 GSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIH---LV 342 (630)
T ss_pred CCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCC---EE
Confidence 5788765443333344568899999987665544 4445555689999999999999999999888765544 56
Q ss_pred eecccc-ccccCcCCCCEEEEEcCC
Q 000883 682 LSTRAG-GLGINLATADTVIIYDSD 705 (1238)
Q Consensus 682 lStrag-g~GINL~~Ad~VIi~D~d 705 (1238)
++|.+. -..+.+.....||+=+-+
T Consensus 343 VgT~~ll~~~~~~~~l~lvVIDEaH 367 (630)
T TIGR00643 343 VGTHALIQEKVEFKRLALVIIDEQH 367 (630)
T ss_pred EecHHHHhccccccccceEEEechh
Confidence 666653 446777777777765543
No 337
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=79.02 E-value=14 Score=44.24 Aligned_cols=52 Identities=19% Similarity=0.342 Sum_probs=32.1
Q ss_pred ceeEEEecccccccCcccH---HHHHHHhcc-cccEEEEec--CCCCCC--HHHHHHHHh
Q 000883 428 KWQCMIVDEGHRLKNKDSK---LFSSLKQYS-TRHRVLLTG--TPLQNN--LDELFMLMH 479 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S~---~~~~l~~l~-~~~rllLTG--TPlqNn--~~EL~~ll~ 479 (1238)
.-++++||..|.+.+.... ++..+..+. ....|+||+ +|-+-+ ..+|.+-+.
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~ 234 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLE 234 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHh
Confidence 3468999999999887443 444444443 345899998 674333 234554443
No 338
>PRK04195 replication factor C large subunit; Provisional
Probab=78.92 E-value=14 Score=45.90 Aligned_cols=42 Identities=26% Similarity=0.346 Sum_probs=28.8
Q ss_pred CcHHHHHHH-HHHHHhhcC---CCceEEEcCCCChHHHHHHHHHHHH
Q 000883 286 LHPYQLEGL-NFLRFSWSK---QTHVILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 286 LrpyQlegv-~wL~~~~~~---~~~~ILaDemGlGKTiqaia~l~~l 328 (1238)
.++-+++.+ .|+ ..|.+ ...++|.-+.|+|||..+-+++..+
T Consensus 18 g~~~~~~~l~~~l-~~~~~g~~~~~lLL~GppG~GKTtla~ala~el 63 (482)
T PRK04195 18 GNEKAKEQLREWI-ESWLKGKPKKALLLYGPPGVGKTSLAHALANDY 63 (482)
T ss_pred CCHHHHHHHHHHH-HHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence 444555555 444 33433 4678999999999999888777765
No 339
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=78.72 E-value=8.9 Score=50.77 Aligned_cols=41 Identities=20% Similarity=0.195 Sum_probs=29.6
Q ss_pred HHHHHHHHHHhhc--CCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 290 QLEGLNFLRFSWS--KQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 290 Qlegv~wL~~~~~--~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
|.+-+..++..+. ...|.||.-+.|.|||..+=+++..+..
T Consensus 192 r~~ei~~~i~~l~r~~~~n~lLvG~pGvGKTal~~~La~~i~~ 234 (852)
T TIGR03345 192 RDDEIRQMIDILLRRRQNNPILTGEAGVGKTAVVEGLALRIAA 234 (852)
T ss_pred CHHHHHHHHHHHhcCCcCceeEECCCCCCHHHHHHHHHHHHhh
Confidence 4444666655333 3568999999999999998777777654
No 340
>PRK05642 DNA replication initiation factor; Validated
Probab=78.68 E-value=9 Score=42.59 Aligned_cols=36 Identities=19% Similarity=0.378 Sum_probs=24.4
Q ss_pred eEEEecccccccCccc---HHHHHHHhcc-cccEEEEecC
Q 000883 430 QCMIVDEGHRLKNKDS---KLFSSLKQYS-TRHRVLLTGT 465 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S---~~~~~l~~l~-~~~rllLTGT 465 (1238)
++||||+.|.+.+... .++..+..+. ...++++|+|
T Consensus 99 d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 99 ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 5799999998865432 3555554443 3567888887
No 341
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=78.61 E-value=18 Score=44.03 Aligned_cols=37 Identities=22% Similarity=0.243 Sum_probs=26.8
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
...+++-..|.|||.++..++.++...+..+.||-+.
T Consensus 96 ~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D 132 (437)
T PRK00771 96 QTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAAD 132 (437)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCC
Confidence 4467889999999999988888877654434444333
No 342
>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=78.55 E-value=17 Score=38.65 Aligned_cols=27 Identities=26% Similarity=0.461 Sum_probs=22.9
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
...+|..+.|.|||..+..++..+...
T Consensus 15 ~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 15 HAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 446789999999999999999888754
No 343
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=78.16 E-value=6.6 Score=44.24 Aligned_cols=66 Identities=23% Similarity=0.248 Sum_probs=46.5
Q ss_pred cHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHH
Q 000883 287 HPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFA 353 (1238)
Q Consensus 287 rpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~ 353 (1238)
.-.++..+.-+...+..+.|.+|.-.+|.|||..++|+...+. ....+++++.-..++.+++..+.
T Consensus 88 ~~~~l~~~~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 88 DKKALEDLASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLFITAPDLLSKLKAAFD 153 (254)
T ss_pred hHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEEHHHHHHHHHHHHh
Confidence 3345555544444456889999999999999999999999998 33336777665666666555543
No 344
>PRK09183 transposase/IS protein; Provisional
Probab=78.14 E-value=11 Score=42.47 Aligned_cols=46 Identities=22% Similarity=0.310 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEe
Q 000883 290 QLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVA 340 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVv 340 (1238)
++.++.|+ ..+.+.+|.-+.|.|||..+.++...+...+ ..++++.
T Consensus 92 ~L~~~~~i----~~~~~v~l~Gp~GtGKThLa~al~~~a~~~G-~~v~~~~ 137 (259)
T PRK09183 92 SLRSLSFI----ERNENIVLLGPSGVGKTHLAIALGYEAVRAG-IKVRFTT 137 (259)
T ss_pred HHhcCCch----hcCCeEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEe
Confidence 34444554 6788899999999999999988866654432 2455443
No 345
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=78.08 E-value=12 Score=47.10 Aligned_cols=40 Identities=20% Similarity=-0.030 Sum_probs=27.1
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhCCCC-CeEEEeCCccH
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGERIS-PHLVVAPLSTL 345 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~~~~-p~LIVvP~sll 345 (1238)
..+|.-..|+|||..+.++..++.....+ .++.+.-..++
T Consensus 316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaeef~ 356 (617)
T PRK14086 316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSSEEFT 356 (617)
T ss_pred cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHHHH
Confidence 37889999999999888888877654333 44444433333
No 346
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=77.74 E-value=18 Score=45.57 Aligned_cols=26 Identities=31% Similarity=0.330 Sum_probs=22.2
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..|+.-+.|.|||..|.+++..+...
T Consensus 40 ayLf~Gp~G~GKTt~Ar~lAk~L~c~ 65 (563)
T PRK06647 40 AYIFSGPRGVGKTSSARAFARCLNCV 65 (563)
T ss_pred EEEEECCCCCCHHHHHHHHHHhhccc
Confidence 35899999999999999999888643
No 347
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=77.66 E-value=6 Score=45.35 Aligned_cols=54 Identities=20% Similarity=0.173 Sum_probs=39.4
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-C--CCeEEEeCCccH
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-I--SPHLVVAPLSTL 345 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~--~p~LIVvP~sll 345 (1238)
|.+-|..++++ ..+..++-...|+|||.+.+.-+.++.... . ..+|+|+++...
T Consensus 1 l~~eQ~~~i~~------~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 1 LTDEQRRIIRS------TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp S-HHHHHHHHS-------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHH
T ss_pred CCHHHHHHHhC------CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHH
Confidence 45778888863 456677777799999999998888887654 3 479999997554
No 348
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=77.56 E-value=0.82 Score=41.89 Aligned_cols=43 Identities=28% Similarity=0.704 Sum_probs=29.6
Q ss_pred cccccCCCC---eeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCC
Q 000883 54 CQACGESEN---LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98 (1238)
Q Consensus 54 C~~C~~~~~---ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 98 (1238)
|..|.-+|+ ++.+ .|...||+.|+...+... ...=.||-|..+
T Consensus 35 Cp~Ck~Pgd~Cplv~g-~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~~ 80 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWG-KCSHNFHMHCILKWLSTQ-SSKGQCPMCRQP 80 (85)
T ss_pred CCCccCCCCCCceeec-cCccHHHHHHHHHHHccc-cCCCCCCCcCCe
Confidence 444444554 4544 499999999998888764 233489999863
No 349
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=77.51 E-value=3 Score=44.33 Aligned_cols=47 Identities=19% Similarity=0.236 Sum_probs=32.5
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFA 353 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~ 353 (1238)
.++.|.+|...+|.|||..|.+++..+...+ .+++++.- ..+..+++
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~~v~f~~~----~~L~~~l~ 91 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKG-YSVLFITA----SDLLDELK 91 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEH----HHHHHHHH
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCC-cceeEeec----Cceecccc
Confidence 5678899999999999999999998888743 35666543 34445554
No 350
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.46 E-value=13 Score=47.37 Aligned_cols=42 Identities=19% Similarity=0.153 Sum_probs=31.2
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|...+..|...+..+ ...|+..+.|.|||..|..++..+...
T Consensus 21 Qe~i~~~L~~~i~~~ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~ 65 (620)
T PRK14954 21 QEHITHTIQNSLRMDRVGHGYIFSGLRGVGKTTAARVFAKAVNCQ 65 (620)
T ss_pred cHHHHHHHHHHHHcCCCCeeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence 555566666655553 346789999999999999999888653
No 351
>PRK11054 helD DNA helicase IV; Provisional
Probab=77.27 E-value=10 Score=48.83 Aligned_cols=68 Identities=18% Similarity=0.114 Sum_probs=51.0
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC---CCCeEEEeCCccHHHHHHH-HHHHcC
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER---ISPHLVVAPLSTLRNWERE-FATWAP 357 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~---~~p~LIVvP~sll~qW~~E-~~~~~p 357 (1238)
..|.+-|.++|. ...++.++....|+|||.+.++-+.+|.... ...+|+++.+....+..++ +....+
T Consensus 195 ~~L~~~Q~~av~------~~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg 266 (684)
T PRK11054 195 SPLNPSQARAVV------NGEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG 266 (684)
T ss_pred CCCCHHHHHHHh------CCCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC
Confidence 358899999985 2334566666799999999999999988643 2379999998777776665 555453
No 352
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=76.53 E-value=16 Score=47.06 Aligned_cols=40 Identities=18% Similarity=0.143 Sum_probs=27.4
Q ss_pred HHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 292 EGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 292 egv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..+.-|......+ +..|+.-+.|.|||..|-.++..+...
T Consensus 25 ~~v~~L~~aI~~~rl~HAYLF~GP~GtGKTt~AriLAk~LnC~ 67 (725)
T PRK07133 25 HIVQTLKNIIKSNKISHAYLFSGPRGTGKTSVAKIFANALNCS 67 (725)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCcHHHHHHHHHHHhccc
Confidence 3344444434443 234789999999999999998887653
No 353
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=75.99 E-value=0.51 Score=60.55 Aligned_cols=51 Identities=22% Similarity=0.269 Sum_probs=41.7
Q ss_pred ccccccccccCCCCeeecCC-CCCcccc-CcCCC--CCCCCCCCCCCCCccCCCC
Q 000883 49 AKDDSCQACGESENLMSCDT-CTYAYHA-KCLVP--PLKAPPSGSWRCPECVSPL 99 (1238)
Q Consensus 49 ~~~~~C~~C~~~~~ll~C~~-C~~~~H~-~Cl~p--~l~~~p~~~W~C~~C~~~~ 99 (1238)
.....|.+|+..+.++||++ |+.+||+ .||+- .-...+.+-|.|++|.-..
T Consensus 426 fi~rrl~Ie~~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rq 480 (1414)
T KOG1473|consen 426 FISRRLRIEGMDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQ 480 (1414)
T ss_pred ceeeeeEEecCCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHh
Confidence 34567999999999999987 9999999 99963 2345788999999997533
No 354
>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=75.79 E-value=18 Score=41.43 Aligned_cols=45 Identities=24% Similarity=0.329 Sum_probs=28.1
Q ss_pred cccCCCceeEEEecccccc-cCcccH---HHHHHHhccccc--EEEEecCC
Q 000883 422 ASLKPIKWQCMIVDEGHRL-KNKDSK---LFSSLKQYSTRH--RVLLTGTP 466 (1238)
Q Consensus 422 ~~l~~i~w~~vIvDEaHrl-KN~~S~---~~~~l~~l~~~~--rllLTGTP 466 (1238)
..|+.+.-.+|||||.|++ .+...+ ...+|+.+.... -+.+.||+
T Consensus 139 ~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 139 RLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 4566677889999999996 443333 334444444333 25677886
No 355
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=75.64 E-value=23 Score=40.24 Aligned_cols=47 Identities=15% Similarity=0.239 Sum_probs=29.7
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC-C---ccHHHHHH
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP-L---STLRNWER 350 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP-~---sll~qW~~ 350 (1238)
.+....+.-..|.|||..+..++..+...+ .++.+|.- . ..+.||..
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~-~~v~~i~~D~~ri~~~~ql~~ 124 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKK-KTVGFITTDHSRIGTVQQLQD 124 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHHHcC-CeEEEEecCCCCHHHHHHHHH
Confidence 345667888899999998777766665432 34554444 2 34556654
No 356
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=75.57 E-value=10 Score=46.35 Aligned_cols=35 Identities=26% Similarity=0.150 Sum_probs=26.0
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEe
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERISPHLVVA 340 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVv 340 (1238)
...+|.-+.|+|||..+-++...+...+ .+++.+.
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~~-~~v~yi~ 176 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRESG-GKILYVR 176 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHcC-CCEEEee
Confidence 3478999999999999988888876542 3454444
No 357
>PRK13342 recombination factor protein RarA; Reviewed
Probab=75.53 E-value=14 Score=44.75 Aligned_cols=24 Identities=25% Similarity=0.250 Sum_probs=19.4
Q ss_pred CceEEEcCCCChHHHHHHHHHHHH
Q 000883 305 THVILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l 328 (1238)
.+.||.-+.|+|||..+-++...+
T Consensus 37 ~~ilL~GppGtGKTtLA~~ia~~~ 60 (413)
T PRK13342 37 SSMILWGPPGTGKTTLARIIAGAT 60 (413)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 468899999999998887766543
No 358
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=75.34 E-value=1.9 Score=50.79 Aligned_cols=61 Identities=25% Similarity=0.555 Sum_probs=40.6
Q ss_pred ccccccccC-----CCCeeecCCCCCccccCcCCCCC-CCCCC-------CCCCCCccCCCCcccccccccccccCcc
Q 000883 51 DDSCQACGE-----SENLMSCDTCTYAYHAKCLVPPL-KAPPS-------GSWRCPECVSPLNDIDKILDCEMRPTVA 115 (1238)
Q Consensus 51 ~~~C~~C~~-----~~~ll~C~~C~~~~H~~Cl~p~l-~~~p~-------~~W~C~~C~~~~~~iekIl~~R~rP~~~ 115 (1238)
-.+|-||-. .|+++.||.|+-..|-.|.--.- ..+|+ ..|+|-.|...... =.|.+.|...
T Consensus 119 ~~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~----P~CElCPn~~ 192 (707)
T KOG0957|consen 119 AVICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSL----PHCELCPNRF 192 (707)
T ss_pred ceEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCC----CccccCCCcC
Confidence 358999964 35699999999999999983321 12232 46999999864421 2344555544
No 359
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=75.11 E-value=9.2 Score=44.30 Aligned_cols=30 Identities=27% Similarity=0.484 Sum_probs=25.0
Q ss_pred CCCc-eEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 303 KQTH-VILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 303 ~~~~-~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
+... .+|..+.|.|||..|.++...+....
T Consensus 22 ~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 22 RLPHALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred CCCceeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 3444 78899999999999999999998653
No 360
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=74.87 E-value=16 Score=43.88 Aligned_cols=46 Identities=22% Similarity=0.202 Sum_probs=31.9
Q ss_pred cHHHHHHHHHHH-Hhhc--CCCceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 287 HPYQLEGLNFLR-FSWS--KQTHVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 287 rpyQlegv~wL~-~~~~--~~~~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
|+-|++-+.-.. .... ...+++|.-..|+|||..+-.++..+....
T Consensus 35 Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~ 83 (394)
T PRK00411 35 REEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIA 83 (394)
T ss_pred HHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence 566666654333 2222 345689999999999999988888776543
No 361
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=73.89 E-value=2.3 Score=56.78 Aligned_cols=48 Identities=42% Similarity=1.176 Sum_probs=42.5
Q ss_pred ccccccccCCCC--eeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCC
Q 000883 51 DDSCQACGESEN--LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98 (1238)
Q Consensus 51 ~~~C~~C~~~~~--ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 98 (1238)
...|..|..+.. ++.|+.|...+|..|+.|++...+.+.|.|+.|...
T Consensus 155 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 (904)
T KOG1246|consen 155 YPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPT 204 (904)
T ss_pred chhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCccccc
Confidence 467999987764 349999999999999999999999999999999864
No 362
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=73.74 E-value=16 Score=40.74 Aligned_cols=44 Identities=32% Similarity=0.351 Sum_probs=29.4
Q ss_pred hcCCC-ceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHH
Q 000883 301 WSKQT-HVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLR 346 (1238)
Q Consensus 301 ~~~~~-~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~ 346 (1238)
...++ -+.+.-+.|+|||+..=+++..+-.. ...+|+.|+.++.
T Consensus 47 i~d~qg~~~vtGevGsGKTv~~Ral~~s~~~d--~~~~v~i~~~~~s 91 (269)
T COG3267 47 IADGQGILAVTGEVGSGKTVLRRALLASLNED--QVAVVVIDKPTLS 91 (269)
T ss_pred HhcCCceEEEEecCCCchhHHHHHHHHhcCCC--ceEEEEecCcchh
Confidence 34444 46688999999999887555554322 2455788876663
No 363
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.69 E-value=2.1 Score=49.63 Aligned_cols=44 Identities=27% Similarity=0.637 Sum_probs=36.1
Q ss_pred cccccccC---CCCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCC
Q 000883 52 DSCQACGE---SENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98 (1238)
Q Consensus 52 ~~C~~C~~---~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 98 (1238)
+.|.+|-+ .|+.++==-|...||-.|.+|.|... .=+||-|+..
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---r~~CPvCK~d 276 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---RTFCPVCKRD 276 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---CccCCCCCCc
Confidence 68999986 47777778899999999999998763 3379999973
No 364
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=73.63 E-value=17 Score=47.06 Aligned_cols=97 Identities=16% Similarity=0.209 Sum_probs=70.4
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHH----HHHHHHHhhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHML----DLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~l----diL~~~L~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.|||.....-.+-.....|.+++|.+...... +.+..++...|+++..++|+++..+|...+.....+..+ ++
T Consensus 292 GSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~---Iv 368 (681)
T PRK10917 292 GSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEAD---IV 368 (681)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCC---EE
Confidence 58887765444434446789999999876654 455556666689999999999999999999998765544 56
Q ss_pred eeccc-cccccCcCCCCEEEEEcCC
Q 000883 682 LSTRA-GGLGINLATADTVIIYDSD 705 (1238)
Q Consensus 682 lStra-gg~GINL~~Ad~VIi~D~d 705 (1238)
+.|.+ ....+.+.....||+=+-+
T Consensus 369 VgT~~ll~~~v~~~~l~lvVIDE~H 393 (681)
T PRK10917 369 IGTHALIQDDVEFHNLGLVIIDEQH 393 (681)
T ss_pred EchHHHhcccchhcccceEEEechh
Confidence 66654 4556778888887775443
No 365
>PRK10865 protein disaggregation chaperone; Provisional
Probab=73.39 E-value=13 Score=49.30 Aligned_cols=38 Identities=16% Similarity=0.172 Sum_probs=28.6
Q ss_pred HHHHHHHhh--cCCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 293 GLNFLRFSW--SKQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 293 gv~wL~~~~--~~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
-+..++..+ ....+.||.-+.|.|||..+-+++..+..
T Consensus 186 ei~~~i~iL~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~ 225 (857)
T PRK10865 186 EIRRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRIIN 225 (857)
T ss_pred HHHHHHHHHhcCCcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence 355665533 34568999999999999999888877654
No 366
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=73.28 E-value=18 Score=36.87 Aligned_cols=53 Identities=19% Similarity=0.293 Sum_probs=37.8
Q ss_pred EEEeCCCCHHHHHHHHHHHhcCCCCceEEEeeccccccccCcCC--CCEEEEEcCCCC
Q 000883 652 ERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLAT--ADTVIIYDSDWN 707 (1238)
Q Consensus 652 ~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStragg~GINL~~--Ad~VIi~D~dWN 707 (1238)
..+-|. ...+...+++.|...... .+|+++....+|||++. +..||+.-.|+-
T Consensus 26 i~~e~~-~~~~~~~~l~~f~~~~~~--~iL~~~~~~~EGiD~~g~~~r~vii~glPfp 80 (141)
T smart00492 26 LLVQGE-DGKETGKLLEKYVEACEN--AILLATARFSEGVDFPGDYLRAVIIDGLPFP 80 (141)
T ss_pred EEEeCC-ChhHHHHHHHHHHHcCCC--EEEEEccceecceecCCCCeeEEEEEecCCC
Confidence 334443 344578899999865432 36777777999999985 678999987763
No 367
>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=73.22 E-value=8.2 Score=37.90 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=25.1
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
.+|.-+.|.|||..+-.++..+. .+++.+....+.
T Consensus 1 ill~G~~G~GKT~l~~~la~~l~----~~~~~i~~~~~~ 35 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYLG----FPFIEIDGSELI 35 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHTT----SEEEEEETTHHH
T ss_pred CEEECcCCCCeeHHHHHHHhhcc----cccccccccccc
Confidence 36788999999999888777761 256666655554
No 368
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=72.58 E-value=3.5 Score=53.40 Aligned_cols=112 Identities=19% Similarity=0.242 Sum_probs=71.1
Q ss_pred hcCCCceEEEcCCCChHHHHHHHHHHHHhh-CCCCCeEEEeCCc-cH----HHHHHHHHHHcCCCcEEEEEcChhHHHHH
Q 000883 301 WSKQTHVILADEMGLGKTIQSIAFLASLFG-ERISPHLVVAPLS-TL----RNWEREFATWAPQMNVVMYVGTSQARNII 374 (1238)
Q Consensus 301 ~~~~~~~ILaDemGlGKTiqaia~l~~l~~-~~~~p~LIVvP~s-ll----~qW~~E~~~~~p~l~vv~~~g~~~~r~~i 374 (1238)
++...+.++.+.+|.|||+.+-..+..... ...+.+.+|+|.. ++ ..|..-+.. |+.+++-..|+....
T Consensus 940 y~td~~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~--~g~k~ie~tgd~~pd--- 1014 (1230)
T KOG0952|consen 940 YHTDLNFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDEL--PGIKVIELTGDVTPD--- 1014 (1230)
T ss_pred eecchhhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhccc--CCceeEeccCccCCC---
Confidence 345667889999999999998554444444 4446999999953 33 457655432 456666666553221
Q ss_pred HHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCC----ceeEEEecccccccCc
Q 000883 375 REYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPI----KWQCMIVDEGHRLKNK 443 (1238)
Q Consensus 375 ~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i----~w~~vIvDEaHrlKN~ 443 (1238)
.......+++|||++..-......... .+..+|+||.|-++..
T Consensus 1015 --------------------------~~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1015 --------------------------VKAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred --------------------------hhheecCceEEcccccccCccccccchhhhccccceeecccccccCC
Confidence 012346789999999875433322221 3457999999987654
No 369
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.97 E-value=2.7 Score=50.46 Aligned_cols=50 Identities=22% Similarity=0.375 Sum_probs=41.3
Q ss_pred ccccccccccCCCCeeecCCCCCccccCcCCCCCCCC-CCCCCCCCccCCC
Q 000883 49 AKDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAP-PSGSWRCPECVSP 98 (1238)
Q Consensus 49 ~~~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~~-p~~~W~C~~C~~~ 98 (1238)
..+.+|+.|.-.|..+.|+.|.|+||..|+.|..... .+..|.||.|...
T Consensus 58 N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~s~ 108 (588)
T KOG3612|consen 58 NIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPYSF 108 (588)
T ss_pred CCCcccccccCCcceeeeehhhccccccccCcchhhccccccccCCccccc
Confidence 3467899999999999999999999999998765432 2456999999864
No 370
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=71.86 E-value=1.3 Score=58.00 Aligned_cols=25 Identities=48% Similarity=1.136 Sum_probs=22.8
Q ss_pred HHHHhhccCCCcccccccchhhHHH
Q 000883 131 KQYLVKWKGLSYLHCTWVPEKEFLK 155 (1238)
Q Consensus 131 ~eYlVKWkg~Sy~h~tW~pe~~l~~ 155 (1238)
.+|||||+|.+|-.|||+.++.+..
T Consensus 300 ~eYLvKW~~LpY~e~TWE~~~~I~~ 324 (1373)
T KOG0384|consen 300 PEYLVKWRGLPYEECTWEDAEDIAK 324 (1373)
T ss_pred ceeEEEecCCCcccccccchhhhhh
Confidence 6999999999999999999987753
No 371
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=71.80 E-value=46 Score=41.38 Aligned_cols=38 Identities=16% Similarity=0.194 Sum_probs=25.7
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCC-CCeEEEe
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERI-SPHLVVA 340 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~-~p~LIVv 340 (1238)
.++..+|.-..|.|||.++..++..+..... ..+.+|.
T Consensus 349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLId 387 (559)
T PRK12727 349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVT 387 (559)
T ss_pred CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 4555667889999999998777776654432 3454443
No 372
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.41 E-value=1.2 Score=48.90 Aligned_cols=46 Identities=15% Similarity=0.420 Sum_probs=33.8
Q ss_pred ccccccccCC---------CCeeecCCCCCccccCcCCCCCCC---CCCCCCCCCccC
Q 000883 51 DDSCQACGES---------ENLMSCDTCTYAYHAKCLVPPLKA---PPSGSWRCPECV 96 (1238)
Q Consensus 51 ~~~C~~C~~~---------~~ll~C~~C~~~~H~~Cl~p~l~~---~p~~~W~C~~C~ 96 (1238)
...|..|-++ ..+++|..|.-++|++|+.-+..- +-.-.|.|..|.
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~ 315 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCE 315 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccH
Confidence 3568888654 239999999999999999544321 224679999986
No 373
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=71.31 E-value=16 Score=43.28 Aligned_cols=25 Identities=24% Similarity=0.220 Sum_probs=19.2
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHH
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLAS 327 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~ 327 (1238)
.-.+.||.-+.|.|||..|-.+..+
T Consensus 47 ~l~SmIl~GPPG~GKTTlA~liA~~ 71 (436)
T COG2256 47 HLHSMILWGPPGTGKTTLARLIAGT 71 (436)
T ss_pred CCceeEEECCCCCCHHHHHHHHHHh
Confidence 3457899999999999876555544
No 374
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=71.09 E-value=20 Score=43.90 Aligned_cols=42 Identities=19% Similarity=0.145 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
|-..+.+|......+ ...|+.-+.|+|||..|.+++..+...
T Consensus 22 q~~~v~~L~~~i~~~~i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~ 66 (451)
T PRK06305 22 QDAVVAVLKNALRFNRAAHAYLFSGIRGTGKTTLARIFAKALNCQ 66 (451)
T ss_pred cHHHHHHHHHHHHcCCCceEEEEEcCCCCCHHHHHHHHHHHhcCC
Confidence 445566665555544 335789999999999999999988654
No 375
>PTZ00293 thymidine kinase; Provisional
Probab=70.58 E-value=12 Score=40.82 Aligned_cols=36 Identities=14% Similarity=0.108 Sum_probs=25.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCc
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLS 343 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~s 343 (1238)
-++.-.||+|||..-|-.+...... ..+++++-|..
T Consensus 7 ~vi~GpMfSGKTteLLr~i~~y~~a-g~kv~~~kp~~ 42 (211)
T PTZ00293 7 SVIIGPMFSGKTTELMRLVKRFTYS-EKKCVVIKYSK 42 (211)
T ss_pred EEEECCCCChHHHHHHHHHHHHHHc-CCceEEEEecc
Confidence 4578899999998776665544333 35889998853
No 376
>PLN03212 Transcription repressor MYB5; Provisional
Probab=70.19 E-value=3.9 Score=44.95 Aligned_cols=28 Identities=32% Similarity=0.704 Sum_probs=25.5
Q ss_pred CCCcCHHHHHHHHHHHHhhchhhHHHhh
Q 000883 1081 GKFWKEEHDSLLLRAVLKHGYGRWQAIV 1108 (1238)
Q Consensus 1081 ~~~w~~eeD~~LL~gi~~~Gyg~we~Ik 1108 (1238)
...||.|||-.|+..|.+||-++|..|-
T Consensus 25 Rg~WT~EEDe~L~~lV~kyG~~nW~~IA 52 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKEGEGRWRSLP 52 (249)
T ss_pred CCCCCHHHHHHHHHHHHHhCcccHHHHH
Confidence 3479999999999999999999999984
No 377
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=69.53 E-value=23 Score=41.22 Aligned_cols=43 Identities=16% Similarity=0.404 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 290 QLEGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 290 Qlegv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
|-+++..|......+ ..-++..+.|.||+..|.+++..+....
T Consensus 9 q~~~~~~L~~~i~~~rl~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~ 54 (314)
T PRK07399 9 QPLAIELLTAAIKQNRIAPAYLFAGPEGVGRKLAALCFIEGLLSQG 54 (314)
T ss_pred HHHHHHHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 556666666666555 3567899999999999999999987653
No 378
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=69.18 E-value=14 Score=45.71 Aligned_cols=29 Identities=31% Similarity=0.282 Sum_probs=23.9
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
....+++|.-++|.|||..+-+++..+..
T Consensus 214 ~~p~GILLyGPPGTGKT~LAKAlA~eL~~ 242 (512)
T TIGR03689 214 KPPKGVLLYGPPGCGKTLIAKAVANSLAQ 242 (512)
T ss_pred CCCcceEEECCCCCcHHHHHHHHHHhhcc
Confidence 34678899999999999998888877643
No 379
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=68.70 E-value=38 Score=39.68 Aligned_cols=46 Identities=22% Similarity=0.390 Sum_probs=34.0
Q ss_pred CcHHHHHHHHHHHHhhcCCCc-eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 286 LHPYQLEGLNFLRFSWSKQTH-VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~-~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
++|+|...-.-+.....+-.+ .++..+.|+|||..|..++..+...
T Consensus 2 ~yPW~~~~w~~l~~~~~r~~hA~Lf~G~~G~GK~~la~~~a~~llC~ 48 (325)
T PRK08699 2 IYPWHQEQWRQIAEHWERRPNAWLFAGKKGIGKTAFARFAAQALLCE 48 (325)
T ss_pred CCCccHHHHHHHHHhcCCcceEEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 467777776556555444334 5689999999999999999988753
No 380
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=68.61 E-value=0.48 Score=42.12 Aligned_cols=46 Identities=24% Similarity=0.452 Sum_probs=19.3
Q ss_pred cccccccCC----CC--eeecC--CCCCccccCcCCCCCCCCC-------CCCCCCCccCC
Q 000883 52 DSCQACGES----EN--LMSCD--TCTYAYHAKCLVPPLKAPP-------SGSWRCPECVS 97 (1238)
Q Consensus 52 ~~C~~C~~~----~~--ll~C~--~C~~~~H~~Cl~p~l~~~p-------~~~W~C~~C~~ 97 (1238)
..|.+|... +. .+.|+ .|...||..||.-.+...+ .-.+.||.|..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~ 63 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSS 63 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-S
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCC
Confidence 458888753 22 58897 9999999999965543221 12356999975
No 381
>CHL00095 clpC Clp protease ATP binding subunit
Probab=68.30 E-value=2.2e+02 Score=37.85 Aligned_cols=25 Identities=28% Similarity=0.521 Sum_probs=21.5
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.+++-++|.|||..|-++...++..
T Consensus 542 ~lf~Gp~GvGKt~lA~~LA~~l~~~ 566 (821)
T CHL00095 542 FLFSGPTGVGKTELTKALASYFFGS 566 (821)
T ss_pred EEEECCCCCcHHHHHHHHHHHhcCC
Confidence 5799999999999999988887643
No 382
>PRK07952 DNA replication protein DnaC; Validated
Probab=67.92 E-value=16 Score=40.83 Aligned_cols=62 Identities=18% Similarity=0.202 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHh---hcC-CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 288 PYQLEGLNFLRFS---WSK-QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 288 pyQlegv~wL~~~---~~~-~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
+.|..++..+... +.. ..+.+|.-..|+|||..+.+++.++...+ .+++++ .+..|...+..
T Consensus 79 ~~q~~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g-~~v~~i----t~~~l~~~l~~ 144 (244)
T PRK07952 79 EGQMNALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRG-KSVLII----TVADIMSAMKD 144 (244)
T ss_pred chHHHHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEE----EHHHHHHHHHH
Confidence 3465566554322 222 24678999999999999999999887653 255555 35666666653
No 383
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=67.64 E-value=12 Score=31.86 Aligned_cols=48 Identities=10% Similarity=0.169 Sum_probs=35.2
Q ss_pred CCChHHHHHHHHHHHhcCCCCcc-hhhhchhhc-CC-CHHHHHHHHHHHHH
Q 000883 968 GFSQNQRAAFVQILMRFGVGDFD-WKEFTPRLK-QK-SYEEIREYGILFLT 1015 (1238)
Q Consensus 968 GF~~~~rr~Fi~a~~kfG~~~~~-~~~i~~el~-~K-s~~Evk~Y~~~F~~ 1015 (1238)
.+|+-+-..|+.|+..||.+++. -..|+..+. .. |..+|+..+..+..
T Consensus 5 ~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 5 VWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 36677788999999999987641 156766554 34 89999988776643
No 384
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=67.57 E-value=32 Score=41.57 Aligned_cols=22 Identities=27% Similarity=0.338 Sum_probs=18.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHH
Q 000883 307 VILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l 328 (1238)
.++.-..|.|||.++.-++..+
T Consensus 226 i~lvGptGvGKTTtaaKLA~~~ 247 (432)
T PRK12724 226 VFFVGPTGSGKTTSIAKLAAKY 247 (432)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5678899999999998888755
No 385
>PRK06835 DNA replication protein DnaC; Validated
Probab=67.54 E-value=12 Score=43.71 Aligned_cols=49 Identities=16% Similarity=0.058 Sum_probs=35.7
Q ss_pred CCCcHHHHHHHHHHHH----hhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 284 GSLHPYQLEGLNFLRF----SWSKQTHVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~----~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
+..+.++..++..+.. .-..+.+.+|.-++|+|||..+.+++..+...+
T Consensus 159 ~~~~~~~~~~~~~~~~f~~~f~~~~~~Lll~G~~GtGKThLa~aIa~~l~~~g 211 (329)
T PRK06835 159 LSPRKNMEKILEKCKNFIENFDKNNENLLFYGNTGTGKTFLSNCIAKELLDRG 211 (329)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence 4566676676664432 212457888999999999999999999887654
No 386
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=67.48 E-value=2.1 Score=48.26 Aligned_cols=67 Identities=19% Similarity=0.453 Sum_probs=41.3
Q ss_pred cccccccccccccCCC-----CeeecCCCCCcc--------ccCcCCCCCCCCC-CCCCCCCccC-----CCCccccccc
Q 000883 46 RIDAKDDSCQACGESE-----NLMSCDTCTYAY--------HAKCLVPPLKAPP-SGSWRCPECV-----SPLNDIDKIL 106 (1238)
Q Consensus 46 ~~~~~~~~C~~C~~~~-----~ll~C~~C~~~~--------H~~Cl~p~l~~~p-~~~W~C~~C~-----~~~~~iekIl 106 (1238)
.++..+..|.|||+.- .|+-|.+|...| |+.|....-..+. ...=.||.|. ..+...|.+-
T Consensus 10 ydedl~ElCPVCGDkVSGYHYGLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQKCLtvGMklEAVR 89 (475)
T KOG4218|consen 10 YDEDLGELCPVCGDKVSGYHYGLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQKCLTVGMKLEAVR 89 (475)
T ss_pred CccccccccccccCccccceeeeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHHHHhhhhhhHHHHH
Confidence 3445567999999753 299999999876 6667644333222 1234688886 2334555555
Q ss_pred cccccc
Q 000883 107 DCEMRP 112 (1238)
Q Consensus 107 ~~R~rP 112 (1238)
+-|||.
T Consensus 90 ADRMRG 95 (475)
T KOG4218|consen 90 ADRMRG 95 (475)
T ss_pred Hhhhcc
Confidence 555553
No 387
>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=67.34 E-value=59 Score=38.25 Aligned_cols=26 Identities=23% Similarity=0.268 Sum_probs=21.9
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
..+|.-+.|+|||..+..++..+...
T Consensus 38 ~~Ll~G~~G~GKt~~a~~la~~l~~~ 63 (355)
T TIGR02397 38 AYLFSGPRGTGKTSIARIFAKALNCQ 63 (355)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhcCC
Confidence 45889999999999998888887643
No 388
>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=67.05 E-value=36 Score=34.36 Aligned_cols=37 Identities=14% Similarity=0.143 Sum_probs=26.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST 344 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl 344 (1238)
.+|.-+.|+|||..+..++..+... .++++++.....
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~~-~~~v~~~~~e~~ 38 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIATK-GGKVVYVDIEEE 38 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHhc-CCEEEEEECCcc
Confidence 4677889999999998888877553 346666665433
No 389
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.73 E-value=73 Score=40.73 Aligned_cols=24 Identities=21% Similarity=0.311 Sum_probs=20.4
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhh
Q 000883 307 VILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
.|+..+.|.|||..+..++..+..
T Consensus 42 yLf~Gp~G~GKtt~A~~lAk~l~c 65 (614)
T PRK14971 42 YLFCGPRGVGKTTCARIFAKTINC 65 (614)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCC
Confidence 579999999999988888887754
No 390
>PRK11823 DNA repair protein RadA; Provisional
Probab=66.56 E-value=18 Score=44.38 Aligned_cols=61 Identities=15% Similarity=0.099 Sum_probs=40.9
Q ss_pred HHHHHHH-hhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 293 GLNFLRF-SWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 293 gv~wL~~-~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
+++.+.. .+..+.-.+|.-++|.|||..++.++..+... ..++|.|.-.....+......+
T Consensus 68 ~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~-g~~vlYvs~Ees~~qi~~ra~r 129 (446)
T PRK11823 68 ELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA-GGKVLYVSGEESASQIKLRAER 129 (446)
T ss_pred HHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEEccccHHHHHHHHHH
Confidence 4444432 23445567899999999999999888876533 2478888876666665544444
No 391
>PRK14873 primosome assembly protein PriA; Provisional
Probab=66.53 E-value=25 Score=45.20 Aligned_cols=94 Identities=18% Similarity=0.109 Sum_probs=72.3
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHhhC-C-CcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEee
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-K-WQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLS 683 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~~~-g-~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlS 683 (1238)
.|||.+....++......|+.+||...-+.....+...|..+ | ..+..+++..+..+|...-.....+... +++.
T Consensus 170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~---IViG 246 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQAR---VVVG 246 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCc---EEEE
Confidence 689999999999999999999999999988888888888654 3 6799999999999999888777654433 6888
Q ss_pred ccccccccCcCCCCEEEEEc
Q 000883 684 TRAGGLGINLATADTVIIYD 703 (1238)
Q Consensus 684 tragg~GINL~~Ad~VIi~D 703 (1238)
||++- =.=+..-..||+-|
T Consensus 247 tRSAv-FaP~~~LgLIIvdE 265 (665)
T PRK14873 247 TRSAV-FAPVEDLGLVAIWD 265 (665)
T ss_pred cceeE-EeccCCCCEEEEEc
Confidence 88742 22233334455543
No 392
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=66.13 E-value=37 Score=44.40 Aligned_cols=45 Identities=13% Similarity=0.154 Sum_probs=31.4
Q ss_pred CcHHHHHHHHH-HHHhhcC-C-Cce-EEEcCCCChHHHHHHHHHHHHhh
Q 000883 286 LHPYQLEGLNF-LRFSWSK-Q-THV-ILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 286 LrpyQlegv~w-L~~~~~~-~-~~~-ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
=|+-|++.|.. |...... + .++ +|.-.+|+|||.++-.++..|..
T Consensus 759 hREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqe 807 (1164)
T PTZ00112 759 CREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQH 807 (1164)
T ss_pred ChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHH
Confidence 57788887744 4333332 2 234 48999999999999888877743
No 393
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=65.99 E-value=38 Score=35.35 Aligned_cols=35 Identities=26% Similarity=0.262 Sum_probs=25.0
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
.++....|.|||..+..++..+...+....+|-++
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D 37 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAAD 37 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcC
Confidence 46788999999999998888876654323334444
No 394
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=65.94 E-value=44 Score=35.91 Aligned_cols=63 Identities=16% Similarity=0.150 Sum_probs=39.5
Q ss_pred hcccCCCceeEEEecccccccCc----ccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhhhcC
Q 000883 421 SASLKPIKWQCMIVDEGHRLKNK----DSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDA 483 (1238)
Q Consensus 421 ~~~l~~i~w~~vIvDEaHrlKN~----~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p 483 (1238)
...+.+-.|++||+||.-..-+. ...+...|..-....-|.|||.-.+..+.|+..++.-+.+
T Consensus 108 ~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~ADlVTEm~~ 174 (191)
T PRK05986 108 KRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEAADLVTEMRP 174 (191)
T ss_pred HHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCchheeccc
Confidence 44556678999999998655432 2344455554445567999998655555555555544433
No 395
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=65.60 E-value=47 Score=44.95 Aligned_cols=58 Identities=14% Similarity=-0.007 Sum_probs=41.6
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
..|.+-|.+++..+. ..+.-++|.-.-|+|||.+.-++...+ .....+++.++|..--
T Consensus 380 ~~Ls~eQ~~Av~~i~---~~~r~~~v~G~AGTGKTt~l~~~~~~~-e~~G~~V~g~ApTgkA 437 (1102)
T PRK13826 380 ARLSDEQKTAIEHVA---GPARIAAVVGRAGAGKTTMMKAAREAW-EAAGYRVVGGALAGKA 437 (1102)
T ss_pred CCCCHHHHHHHHHHh---ccCCeEEEEeCCCCCHHHHHHHHHHHH-HHcCCeEEEEcCcHHH
Confidence 579999999998662 345557889999999998766655444 3333477888887544
No 396
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=65.30 E-value=21 Score=47.49 Aligned_cols=39 Identities=21% Similarity=0.211 Sum_probs=29.0
Q ss_pred HHHHHHHHhhc--CCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 292 EGLNFLRFSWS--KQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 292 egv~wL~~~~~--~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
.-+..++..+. ...+.||.-+.|.|||..+-+++..+..
T Consensus 180 ~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~la~~i~~ 220 (852)
T TIGR03346 180 EEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEGLAQRIVN 220 (852)
T ss_pred HHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence 34666655443 3568899999999999999888777654
No 397
>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=65.17 E-value=26 Score=35.55 Aligned_cols=79 Identities=18% Similarity=0.182 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh-h---CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEEeecc
Q 000883 610 LQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT-F---KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTR 685 (1238)
Q Consensus 610 l~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~-~---~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~LlStr 685 (1238)
..++.+|+.+...+|+||+|++.....++.|.+.|= . .-++..+ .|.-.. .... ++|++.
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~~~~~sFlPH~~-~~~~~~------------~~~P---V~i~~~ 78 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWTFSPDSFLPHGL-AGEPPA------------ARQP---VLITWD 78 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTTSSTT----EEE-TT-SST------------T--S---EEEE-T
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHCCCCCCCCCCcc-cCCCCC------------CCCe---EEEecC
Confidence 588899999999999999999999999999999992 2 2334444 222110 0112 455554
Q ss_pred ccccccCcCCCCEEEEEcCCC
Q 000883 686 AGGLGINLATADTVIIYDSDW 706 (1238)
Q Consensus 686 agg~GINL~~Ad~VIi~D~dW 706 (1238)
... -....++++|++++.+
T Consensus 79 ~~~--~~~~~~~vLinL~~~~ 97 (137)
T PF04364_consen 79 QEA--NPNNHADVLINLSGEV 97 (137)
T ss_dssp TS------S--SEEEE--SS-
T ss_pred ccc--CCCCCCCEEEECCCCC
Confidence 322 2334589999999987
No 398
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=64.84 E-value=21 Score=46.29 Aligned_cols=25 Identities=24% Similarity=0.220 Sum_probs=19.9
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l 328 (1238)
..+.||.-+.|+|||..+-++...+
T Consensus 52 ~~slLL~GPpGtGKTTLA~aIA~~~ 76 (725)
T PRK13341 52 VGSLILYGPPGVGKTTLARIIANHT 76 (725)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 3478999999999998887766543
No 399
>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=64.75 E-value=42 Score=36.92 Aligned_cols=37 Identities=22% Similarity=0.372 Sum_probs=25.1
Q ss_pred ceeEEEecccccccCccc---HHHHHHHhcc-cccEEEEec
Q 000883 428 KWQCMIVDEGHRLKNKDS---KLFSSLKQYS-TRHRVLLTG 464 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S---~~~~~l~~l~-~~~rllLTG 464 (1238)
..++||||..|.+.+... .++..+..+. ...++++|+
T Consensus 97 ~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 97 SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEe
Confidence 357999999999988653 3444444442 456777776
No 400
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=64.15 E-value=5.1 Score=43.53 Aligned_cols=39 Identities=26% Similarity=0.844 Sum_probs=30.0
Q ss_pred cccccccccCCC--------CeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCC
Q 000883 50 KDDSCQACGESE--------NLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVS 97 (1238)
Q Consensus 50 ~~~~C~~C~~~~--------~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 97 (1238)
..-+|.+|+.++ ....|..|...||..|... . .||.|..
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~---~------~CpkC~R 197 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK---K------SCPKCAR 197 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC---C------CCCCcHh
Confidence 456788888653 3789999999999999842 1 2999964
No 401
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=64.11 E-value=5 Score=44.74 Aligned_cols=39 Identities=21% Similarity=0.283 Sum_probs=31.7
Q ss_pred CCcCHHHHHHHHHHHHhhchhhHHHhhcCcccChhHHHH
Q 000883 1082 KFWKEEHDSLLLRAVLKHGYGRWQAIVDDKDLKVQEVIC 1120 (1238)
Q Consensus 1082 ~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~~l~l~~~~~ 1120 (1238)
-.|+.|||..|...|-+||-|+|..|-.+..|+=.-|-|
T Consensus 10 GpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSC 48 (238)
T KOG0048|consen 10 GPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSC 48 (238)
T ss_pred CCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHH
Confidence 379999999999999999999999998887543333333
No 402
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=63.86 E-value=17 Score=38.40 Aligned_cols=48 Identities=21% Similarity=0.249 Sum_probs=38.1
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHH
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
.+|+-+.|+|||..++.++......+ .+++++.......+..+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g-~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARG-EPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCC-CcEEEEECCCCHHHHHHHHHHc
Confidence 57889999999999999988776443 4889998887777777666654
No 403
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=63.78 E-value=13 Score=45.78 Aligned_cols=60 Identities=22% Similarity=0.284 Sum_probs=42.4
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-----CCCeEEEeCCccHHHHHH
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-----ISPHLVVAPLSTLRNWER 350 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-----~~p~LIVvP~sll~qW~~ 350 (1238)
+.+-|-+.+. ...++-.|+--..|+|||..|+-=+++|+... .+|+||+.|+-++.....
T Consensus 213 IQkEQneIIR-----~ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis 277 (747)
T COG3973 213 IQKEQNEIIR-----FEKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYIS 277 (747)
T ss_pred hhHhHHHHHh-----ccCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHH
Confidence 3445555443 24556677888999999999988888876543 248999999988765433
No 404
>PRK10867 signal recognition particle protein; Provisional
Probab=63.60 E-value=40 Score=41.05 Aligned_cols=35 Identities=23% Similarity=0.226 Sum_probs=25.9
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAP 341 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP 341 (1238)
.+++-..|.|||.++.-++.++... +..+.||-+-
T Consensus 103 I~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D 138 (433)
T PRK10867 103 IMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAAD 138 (433)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEcc
Confidence 5678899999999999998888766 4334444444
No 405
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=63.36 E-value=99 Score=37.07 Aligned_cols=56 Identities=18% Similarity=0.281 Sum_probs=34.9
Q ss_pred eeEEEecccccccCcccHHHHHHHhc-----ccccEEEEecCCCCCCHHHHHHHHhhhcCCC
Q 000883 429 WQCMIVDEGHRLKNKDSKLFSSLKQY-----STRHRVLLTGTPLQNNLDELFMLMHFLDAGK 485 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~S~~~~~l~~l-----~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~ 485 (1238)
.++|.||=+-|---.. .....+..+ ....-|.||+|-=...+.+++..+..+...-
T Consensus 282 ~d~ILVDTaGrs~~D~-~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~~ 342 (407)
T COG1419 282 CDVILVDTAGRSQYDK-EKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPIDG 342 (407)
T ss_pred CCEEEEeCCCCCccCH-HHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcce
Confidence 3788999765421111 122222222 2345689999998888889888888776543
No 406
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=63.33 E-value=36 Score=44.57 Aligned_cols=29 Identities=24% Similarity=0.323 Sum_probs=24.1
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
...|.||.-+.|.|||..+-+++..+...
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~~~~ 230 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRIAEG 230 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHHhC
Confidence 45689999999999999988888777553
No 407
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=63.18 E-value=12 Score=43.54 Aligned_cols=47 Identities=15% Similarity=0.240 Sum_probs=34.5
Q ss_pred CCCCCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 281 LSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 281 ~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
+..+.+.+.|.+-+. .....+.+.|++-.||+|||...-+++..+..
T Consensus 124 v~~g~~~~~~~~~L~---~~v~~~~nilI~G~tGSGKTTll~aL~~~i~~ 170 (323)
T PRK13833 124 VTSKIMTEAQASVIR---SAIDSRLNIVISGGTGSGKTTLANAVIAEIVA 170 (323)
T ss_pred HHcCCCCHHHHHHHH---HHHHcCCeEEEECCCCCCHHHHHHHHHHHHhc
Confidence 334567777765544 44567788999999999999988777776643
No 408
>CHL00095 clpC Clp protease ATP binding subunit
Probab=62.87 E-value=25 Score=46.63 Aligned_cols=28 Identities=25% Similarity=0.366 Sum_probs=23.5
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
...+.||.-+.|.|||..+-+++..+..
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i~~ 226 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRIVN 226 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHHHh
Confidence 4568899999999999999888777654
No 409
>PLN03091 hypothetical protein; Provisional
Probab=62.39 E-value=8 Score=45.91 Aligned_cols=29 Identities=34% Similarity=0.704 Sum_probs=26.1
Q ss_pred CCCcCHHHHHHHHHHHHhhchhhHHHhhc
Q 000883 1081 GKFWKEEHDSLLLRAVLKHGYGRWQAIVD 1109 (1238)
Q Consensus 1081 ~~~w~~eeD~~LL~gi~~~Gyg~we~Ik~ 1109 (1238)
...|+.|||..|+..|.+||-++|..|-.
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~~nWs~IAk 42 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPK 42 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCcCCHHHHhh
Confidence 34799999999999999999999999853
No 410
>PF01393 Chromo_shadow: Chromo shadow domain Web page maintained by Rein Aasland; InterPro: IPR008251 Chromo shadow domain is distantly related to chromo domain. It is always found in association with a chromo domain. The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation. These are proteins that alter the structure of chromatin to the condensed morphology of heterochromatin, a cytologically visible condition where gene expression is repressed. In one of these proteins, Polycomb, the chromo domain has been shown to be important for chromatin targeting. Proteins that contain a chromo domain appear to fall into 3 classes. The first class includes proteins having an N-terminal chromo domain followed by a region termed the chromo shadow domain [], eg. Drosophila and human heterochromatin protein Su(var)205 (HP1); and mammalian modifier 1 and modifier 2. The second class includes proteins with a single chromo domain, eg. Drosophila protein Polycomb (Pc); mammalian modifier 3; human Mi-2 autoantigenand and several yeast and Caenorhabditis elegans hypothetical proteins. In the third class paired tandem chromo domains are found, eg. in mammalian DNA-binding/helicase proteins CHD-1 to CHD-4 and yeast protein CHD1.; GO: 0005634 nucleus; PDB: 3Q6S_C 2FMM_B 3P7J_B 1E0B_B 3I3C_A 1DZ1_B 1S4Z_A 3KUP_D.
Probab=62.20 E-value=3.4 Score=35.32 Aligned_cols=27 Identities=19% Similarity=0.359 Sum_probs=22.1
Q ss_pred cchhhhhhhccCCCceeEEEeeecccc
Q 000883 192 TTVDRILACRGEDDEKEYLVKYKELSY 218 (1238)
Q Consensus 192 ~~veRIi~~r~~~~~~eyLVKWkgL~Y 218 (1238)
+.+|+||+.-+..|+..|||||++.+-
T Consensus 3 l~~E~Ivg~~d~~G~l~~likwk~~~~ 29 (58)
T PF01393_consen 3 LEWEKIVGATDTNGELMFLIKWKNSGE 29 (58)
T ss_dssp -TEEEEEEEEECTSSEEEEEEETTSSS
T ss_pred CChHHHheeecCCCcEEEEEEECCCCc
Confidence 467889888777799999999999763
No 411
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=61.49 E-value=19 Score=40.72 Aligned_cols=50 Identities=14% Similarity=-0.002 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 288 PYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 288 pyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
|+...-+..+......+...+|..+.|+|||..|-++...+ ..|++.++=
T Consensus 5 ~~~~~l~~~~l~~l~~g~~vLL~G~~GtGKT~lA~~la~~l----g~~~~~i~~ 54 (262)
T TIGR02640 5 DAVKRVTSRALRYLKSGYPVHLRGPAGTGKTTLAMHVARKR----DRPVMLING 54 (262)
T ss_pred HHHHHHHHHHHHHHhcCCeEEEEcCCCCCHHHHHHHHHHHh----CCCEEEEeC
Confidence 44555555566666788899999999999999998877643 237776643
No 412
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=61.36 E-value=5.3 Score=48.85 Aligned_cols=46 Identities=26% Similarity=0.497 Sum_probs=38.8
Q ss_pred cccccccccCCCCeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCC
Q 000883 50 KDDSCQACGESENLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSP 98 (1238)
Q Consensus 50 ~~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~ 98 (1238)
+.+.|.+|.++|+++.|+.|..++|-.|. ....|.+.|.|..|...
T Consensus 88 ~~~~c~vc~~ggs~v~~~s~~~~~~r~c~---~~~~~~c~~~~~d~~~~ 133 (463)
T KOG1081|consen 88 EPSECFVCFKGGSLVTCKSRIQAPHRKCK---PAQLEKCSKRCTDCRAF 133 (463)
T ss_pred CcchhccccCCCccceeccccccccccCc---CccCcccccCCcceeee
Confidence 46889999999999999999999999995 34567888888888753
No 413
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=61.36 E-value=39 Score=41.13 Aligned_cols=36 Identities=19% Similarity=0.123 Sum_probs=25.6
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh-CCCCCeEEEeC
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG-ERISPHLVVAP 341 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~-~~~~p~LIVvP 341 (1238)
-.+++-..|.|||.++.-++.++.. .+....||=|-
T Consensus 101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D 137 (428)
T TIGR00959 101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACD 137 (428)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEecc
Confidence 3678999999999999998888763 33334444443
No 414
>PRK10865 protein disaggregation chaperone; Provisional
Probab=61.21 E-value=3.2e+02 Score=36.65 Aligned_cols=25 Identities=24% Similarity=0.360 Sum_probs=21.1
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..+|.-++|+|||..|-++...+..
T Consensus 600 ~~Lf~Gp~G~GKT~lA~aLa~~l~~ 624 (857)
T PRK10865 600 SFLFLGPTGVGKTELCKALANFMFD 624 (857)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhhc
Confidence 4678999999999999888877754
No 415
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=61.15 E-value=90 Score=37.95 Aligned_cols=34 Identities=15% Similarity=0.163 Sum_probs=24.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAP 341 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP 341 (1238)
..++--.|.|||.++.-++.++...+. ++++|+-
T Consensus 103 i~lvG~~GvGKTTtaaKLA~~l~~~G~-kV~lV~~ 136 (429)
T TIGR01425 103 IMFVGLQGSGKTTTCTKLAYYYQRKGF-KPCLVCA 136 (429)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEcC
Confidence 457889999999999888887765543 4444443
No 416
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=60.99 E-value=16 Score=39.21 Aligned_cols=36 Identities=19% Similarity=0.012 Sum_probs=24.0
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCc
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLS 343 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~s 343 (1238)
-++...|.+|||..-|-.+..... ...+++|..|..
T Consensus 7 ~~i~gpM~SGKT~eLl~r~~~~~~-~g~~v~vfkp~i 42 (201)
T COG1435 7 EFIYGPMFSGKTEELLRRARRYKE-AGMKVLVFKPAI 42 (201)
T ss_pred EEEEccCcCcchHHHHHHHHHHHH-cCCeEEEEeccc
Confidence 467789999999855444443322 334888888854
No 417
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=60.90 E-value=13 Score=43.54 Aligned_cols=50 Identities=18% Similarity=0.178 Sum_probs=34.0
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
....|.+|..+.|+|||..|-++.... ..+|+=|-=.++...|--|-.+.
T Consensus 125 ~p~kGiLL~GPpG~GKTmlAKA~Akea----ga~fInv~~s~lt~KWfgE~eKl 174 (386)
T KOG0737|consen 125 RPPKGILLYGPPGTGKTMLAKAIAKEA----GANFINVSVSNLTSKWFGEAQKL 174 (386)
T ss_pred cCCccceecCCCCchHHHHHHHHHHHc----CCCcceeeccccchhhHHHHHHH
Confidence 467889999999999999887765542 22444444455666776665543
No 418
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=60.19 E-value=13 Score=39.27 Aligned_cols=60 Identities=18% Similarity=0.181 Sum_probs=37.1
Q ss_pred hcccCCCceeEEEecccccccCc----ccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHHhh
Q 000883 421 SASLKPIKWQCMIVDEGHRLKNK----DSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHF 480 (1238)
Q Consensus 421 ~~~l~~i~w~~vIvDEaHrlKN~----~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~f 480 (1238)
...+..-.|++||+||.-..-+. ...+...|..-....-+.|||.-.+..+.|+..++.-
T Consensus 90 ~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~VTE 153 (173)
T TIGR00708 90 KEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLVTE 153 (173)
T ss_pred HHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCceeee
Confidence 44555668999999998654332 2244455555445567999999655555554444433
No 419
>PRK05973 replicative DNA helicase; Provisional
Probab=60.11 E-value=23 Score=39.43 Aligned_cols=57 Identities=14% Similarity=0.104 Sum_probs=40.5
Q ss_pred HHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 297 LRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 297 L~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
+.-.+..+.-.+|+-.+|+|||+.++.|+...... ..+++++.-...-.+-.+.+..
T Consensus 57 l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~-Ge~vlyfSlEes~~~i~~R~~s 113 (237)
T PRK05973 57 LFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMKS-GRTGVFFTLEYTEQDVRDRLRA 113 (237)
T ss_pred hcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc-CCeEEEEEEeCCHHHHHHHHHH
Confidence 33445677778999999999999999998876544 3478888765555444444443
No 420
>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=60.06 E-value=67 Score=33.52 Aligned_cols=58 Identities=19% Similarity=0.194 Sum_probs=36.5
Q ss_pred hcccCCCceeEEEecccccccC----cccHHHHHHHhcccccEEEEecCCCCCCHHHHHHHH
Q 000883 421 SASLKPIKWQCMIVDEGHRLKN----KDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLM 478 (1238)
Q Consensus 421 ~~~l~~i~w~~vIvDEaHrlKN----~~S~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll 478 (1238)
...+..-.+++||+||.=..-+ ....+...+..-....-+.|||--.+..+.|+..++
T Consensus 88 ~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD~V 149 (159)
T cd00561 88 KEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAADLV 149 (159)
T ss_pred HHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCcee
Confidence 3445566899999999865533 223455555554555679999986555555544443
No 421
>CHL00206 ycf2 Ycf2; Provisional
Probab=59.84 E-value=23 Score=49.78 Aligned_cols=43 Identities=16% Similarity=0.195 Sum_probs=32.0
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNW 348 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW 348 (1238)
...+|++|.-++|+|||+.|=|++... .-|++-|....++..|
T Consensus 1628 ~pPKGILLiGPPGTGKTlLAKALA~es----~VPFIsISgs~fl~~~ 1670 (2281)
T CHL00206 1628 SPSRGILVIGSIGTGRSYLVKYLATNS----YVPFITVFLNKFLDNK 1670 (2281)
T ss_pred CCCCceEEECCCCCCHHHHHHHHHHhc----CCceEEEEHHHHhhcc
Confidence 456688999999999999887766642 2377777777776655
No 422
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=59.80 E-value=36 Score=39.53 Aligned_cols=56 Identities=16% Similarity=0.201 Sum_probs=31.8
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEE
Q 000883 308 ILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVVMY 364 (1238)
Q Consensus 308 ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~ 364 (1238)
++.---|.|||.+..=++.++...+ .++|+.+--.--.--..+++-|.-.+.+-+.
T Consensus 143 l~vGVNG~GKTTTIaKLA~~l~~~g-~~VllaA~DTFRAaAiEQL~~w~er~gv~vI 198 (340)
T COG0552 143 LFVGVNGVGKTTTIAKLAKYLKQQG-KSVLLAAGDTFRAAAIEQLEVWGERLGVPVI 198 (340)
T ss_pred EEEecCCCchHhHHHHHHHHHHHCC-CeEEEEecchHHHHHHHHHHHHHHHhCCeEE
Confidence 4567789999976555555555443 3555554433333345667777644444443
No 423
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=59.59 E-value=3 Score=45.78 Aligned_cols=59 Identities=31% Similarity=0.613 Sum_probs=39.5
Q ss_pred cccccccccCC----------CCeeecCCCCCccccCcCCCCC---CCCCCCCCCCCccCCCC-----ccccccccc
Q 000883 50 KDDSCQACGES----------ENLMSCDTCTYAYHAKCLVPPL---KAPPSGSWRCPECVSPL-----NDIDKILDC 108 (1238)
Q Consensus 50 ~~~~C~~C~~~----------~~ll~C~~C~~~~H~~Cl~p~l---~~~p~~~W~C~~C~~~~-----~~iekIl~~ 108 (1238)
...+|--|-.+ .+|+.|..|+++=|++||.-.. ..+-.-.|.|-+|..-. ..-+.+|.|
T Consensus 223 Pn~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsenddqllfc 299 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSENDDQLLFC 299 (336)
T ss_pred CCcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCCceeEee
Confidence 34677777532 3499999999999999993221 12335689999998422 223556655
No 424
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=58.97 E-value=16 Score=47.34 Aligned_cols=53 Identities=21% Similarity=0.177 Sum_probs=41.3
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CC--CCeEEEeCCc
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RI--SPHLVVAPLS 343 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~--~p~LIVvP~s 343 (1238)
.|.|-|.++|.+ ..+.+++....|+|||.+.+.-+.+|... +. ..+|+|+.+.
T Consensus 2 ~Ln~~Q~~av~~------~~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~ 57 (672)
T PRK10919 2 RLNPGQQQAVEF------VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTN 57 (672)
T ss_pred CCCHHHHHHHhC------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechH
Confidence 477899999863 35667777789999999999999999864 43 3688888853
No 425
>PLN03212 Transcription repressor MYB5; Provisional
Probab=57.17 E-value=23 Score=39.16 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=24.1
Q ss_pred CCcCHHHHHHHHHHHHhhchhhHHHhhc
Q 000883 1082 KFWKEEHDSLLLRAVLKHGYGRWQAIVD 1109 (1238)
Q Consensus 1082 ~~w~~eeD~~LL~gi~~~Gyg~we~Ik~ 1109 (1238)
..||.|||..||..+.+|| .+|..|-.
T Consensus 79 gpWT~EED~lLlel~~~~G-nKWs~IAk 105 (249)
T PLN03212 79 GGITSDEEDLILRLHRLLG-NRWSLIAG 105 (249)
T ss_pred CCCChHHHHHHHHHHHhcc-ccHHHHHh
Confidence 5899999999999999999 68999854
No 426
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=56.76 E-value=21 Score=46.66 Aligned_cols=29 Identities=21% Similarity=0.327 Sum_probs=23.4
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
...+.||.-+.|+|||..+-++...+...
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i~~~ 234 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRIVQG 234 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHHHhc
Confidence 46788999999999999987777665443
No 427
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=56.56 E-value=91 Score=35.56 Aligned_cols=33 Identities=21% Similarity=0.292 Sum_probs=24.2
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEe
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVA 340 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVv 340 (1238)
.++.-..|.|||.++..++..+...+ .++++|.
T Consensus 75 i~l~G~~G~GKTTt~akLA~~l~~~g-~~V~li~ 107 (272)
T TIGR00064 75 ILFVGVNGVGKTTTIAKLANKLKKQG-KSVLLAA 107 (272)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhcC-CEEEEEe
Confidence 45678999999999988888776554 3555554
No 428
>smart00300 ChSh Chromo Shadow Domain.
Probab=56.49 E-value=8.5 Score=33.27 Aligned_cols=24 Identities=25% Similarity=0.551 Sum_probs=21.3
Q ss_pred cchhhhhhhccCCCceeEEEeeec
Q 000883 192 TTVDRILACRGEDDEKEYLVKYKE 215 (1238)
Q Consensus 192 ~~veRIi~~r~~~~~~eyLVKWkg 215 (1238)
..+|+|+...+.++...||+||++
T Consensus 7 ~~~e~Ivg~~d~~G~l~flikwk~ 30 (61)
T smart00300 7 KSWEDIVGITKDDGELTFLIKWKD 30 (61)
T ss_pred CCHHHHhceecCCCeEEEEEEEeC
Confidence 467899988888899999999999
No 429
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=56.35 E-value=64 Score=39.82 Aligned_cols=24 Identities=25% Similarity=0.281 Sum_probs=19.0
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhh
Q 000883 307 VILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..|.-..|.|||.++.-++..+..
T Consensus 259 i~LvGpnGvGKTTTiaKLA~~~~~ 282 (484)
T PRK06995 259 FALMGPTGVGKTTTTAKLAARCVM 282 (484)
T ss_pred EEEECCCCccHHHHHHHHHHHHHH
Confidence 457889999999988777776643
No 430
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=56.30 E-value=5.3 Score=37.11 Aligned_cols=31 Identities=19% Similarity=0.685 Sum_probs=26.6
Q ss_pred cccccccccCC-CCeeecC--CCCCccccCcCCC
Q 000883 50 KDDSCQACGES-ENLMSCD--TCTYAYHAKCLVP 80 (1238)
Q Consensus 50 ~~~~C~~C~~~-~~ll~C~--~C~~~~H~~Cl~p 80 (1238)
....|..|+.. |-.+.|. .|.+.||+.|..-
T Consensus 35 ~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 35 RKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred hCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 45689999999 9999997 6999999999743
No 431
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=56.28 E-value=19 Score=45.13 Aligned_cols=45 Identities=16% Similarity=0.038 Sum_probs=38.7
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l 328 (1238)
.++++-|++-.+-|......|+=||+-.++|+|||+..|.....+
T Consensus 14 y~PYdIQ~~lM~elyrvLe~GkIgIfESPTGTGKSLSLiCaaltW 58 (821)
T KOG1133|consen 14 YTPYDIQEDLMRELYRVLEEGKIGIFESPTGTGKSLSLICAALTW 58 (821)
T ss_pred CCchhHHHHHHHHHHHHHhcCCeeeeeCCCCCCchHHHHHHHHHH
Confidence 678889999999899999999999999999999999876655443
No 432
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=55.85 E-value=1.2e+02 Score=35.58 Aligned_cols=33 Identities=18% Similarity=0.214 Sum_probs=24.1
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEe
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVA 340 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVv 340 (1238)
..|.-..|.|||.++..++..+...+ +.++++.
T Consensus 117 i~lvGpnGsGKTTt~~kLA~~l~~~g-~~V~Li~ 149 (318)
T PRK10416 117 ILVVGVNGVGKTTTIGKLAHKYKAQG-KKVLLAA 149 (318)
T ss_pred EEEECCCCCcHHHHHHHHHHHHHhcC-CeEEEEe
Confidence 45677999999999888888776543 3555554
No 433
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=55.83 E-value=46 Score=40.00 Aligned_cols=113 Identities=21% Similarity=0.242 Sum_probs=0.0
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEEEcChhHHHHHHHhhhcCCCCch
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPK 386 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~g~~~~r~~i~~~e~~~~~~~~ 386 (1238)
.+++-=.|.|||.++.=++.+|.. ....+|+|+--.--+--..+++..+-.+.|-+|.........
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv------------- 168 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPV------------- 168 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHH-------------
Q ss_pred hhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccCcccHHHHHHHhcc---cccEEEE
Q 000883 387 KVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYS---TRHRVLL 462 (1238)
Q Consensus 387 ~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~---~~~rllL 462 (1238)
+++..-...++.-.+++||||=|-|+.- +..+...+..++ .++-++|
T Consensus 169 ----------------------------~Iak~al~~ak~~~~DvvIvDTAGRl~i-de~Lm~El~~Ik~~~~P~E~ll 218 (451)
T COG0541 169 ----------------------------EIAKAALEKAKEEGYDVVIVDTAGRLHI-DEELMDELKEIKEVINPDETLL 218 (451)
T ss_pred ----------------------------HHHHHHHHHHHHcCCCEEEEeCCCcccc-cHHHHHHHHHHHhhcCCCeEEE
No 434
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=55.48 E-value=1.4 Score=35.07 Aligned_cols=40 Identities=30% Similarity=0.685 Sum_probs=27.1
Q ss_pred cccccccCC---C-CeeecCCCCCccccCcCCCCCCCCCCCCCCCCccC
Q 000883 52 DSCQACGES---E-NLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECV 96 (1238)
Q Consensus 52 ~~C~~C~~~---~-~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~ 96 (1238)
+.|.+|.+. + .++... |+..||..|+...+... -.||.|.
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~----~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRN----NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhC----CcCCccC
Confidence 358888763 3 345444 99999999997776542 2798883
No 435
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=55.31 E-value=9.9 Score=42.66 Aligned_cols=37 Identities=30% Similarity=0.604 Sum_probs=30.5
Q ss_pred cccCCCCCCCCcCHHHHHHHHHHHHhhchhhHHHhhcCc
Q 000883 1073 LRYPGLRGGKFWKEEHDSLLLRAVLKHGYGRWQAIVDDK 1111 (1238)
Q Consensus 1073 ~~~~~~~~~~~w~~eeD~~LL~gi~~~Gyg~we~Ik~D~ 1111 (1238)
..||- ....|+.+|+..|+.++-..|+|+|+.|-+=+
T Consensus 57 nsypI--~~e~WgadEEllli~~~~TlGlGNW~dIadyi 93 (432)
T COG5114 57 NSYPI--GEEGWGADEELLLIECLDTLGLGNWEDIADYI 93 (432)
T ss_pred cCccc--cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHH
Confidence 34553 35789999999999999999999999886544
No 436
>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.
Probab=55.23 E-value=54 Score=36.88 Aligned_cols=26 Identities=15% Similarity=0.104 Sum_probs=19.2
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLAS 327 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~ 327 (1238)
..|..++|.-+.|.|||..+-.++..
T Consensus 14 ~~Gqr~~I~G~~G~GKTTLlr~I~n~ 39 (249)
T cd01128 14 GKGQRGLIVAPPKAGKTTLLQSIANA 39 (249)
T ss_pred CCCCEEEEECCCCCCHHHHHHHHHhc
Confidence 57788888999999999654444433
No 437
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=54.94 E-value=5.7 Score=38.48 Aligned_cols=29 Identities=31% Similarity=0.850 Sum_probs=25.2
Q ss_pred ccccccccCC-CCeeecCC--CCCccccCcCC
Q 000883 51 DDSCQACGES-ENLMSCDT--CTYAYHAKCLV 79 (1238)
Q Consensus 51 ~~~C~~C~~~-~~ll~C~~--C~~~~H~~Cl~ 79 (1238)
...|.+|+.. |..+.|.. |...||+.|..
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred CCcCcCCCCCCceeEEcCCCCCCcCCCHHHHH
Confidence 5689999984 77999987 99999999973
No 438
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=54.65 E-value=71 Score=39.56 Aligned_cols=59 Identities=22% Similarity=0.167 Sum_probs=40.4
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCc------eEEEcCCCChHHHHHHHHHHHH--hhCCC-CCeEEEeCC
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTH------VILADEMGLGKTIQSIAFLASL--FGERI-SPHLVVAPL 342 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~------~ILaDemGlGKTiqaia~l~~l--~~~~~-~p~LIVvP~ 342 (1238)
..|.|||...+.-|.-.+.++.+ ++|...=|=|||..+.+++.+. ..... ..++|++|.
T Consensus 60 ~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s 127 (546)
T COG4626 60 ESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPS 127 (546)
T ss_pred cccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEecc
Confidence 57999999998766433333333 5788899999998766555443 33333 378888885
No 439
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=54.45 E-value=19 Score=40.83 Aligned_cols=37 Identities=27% Similarity=0.368 Sum_probs=28.9
Q ss_pred HHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 295 NFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 295 ~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
.+|......+++.+++-++|+|||.+.-+++..+-..
T Consensus 118 ~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~ 154 (270)
T PF00437_consen 118 EFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPE 154 (270)
T ss_dssp HHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTT
T ss_pred HHHhhccccceEEEEECCCccccchHHHHHhhhcccc
Confidence 4455555678899999999999999988887766544
No 440
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=54.10 E-value=67 Score=37.30 Aligned_cols=25 Identities=24% Similarity=0.505 Sum_probs=21.7
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
-++..+-|.|||..|..++..+...
T Consensus 29 ~Lf~G~~G~Gk~~la~~~a~~l~c~ 53 (313)
T PRK05564 29 HIIVGEDGIGKSLLAKEIALKILGK 53 (313)
T ss_pred EEeECCCCCCHHHHHHHHHHHHcCC
Confidence 4789999999999999999888654
No 441
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.83 E-value=1.2e+02 Score=36.13 Aligned_cols=39 Identities=15% Similarity=0.128 Sum_probs=26.3
Q ss_pred HHHHHHHHhhcCC---CceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 292 EGLNFLRFSWSKQ---THVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 292 egv~wL~~~~~~~---~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
..+..+......+ ...++.-+.|.|||..+-+++..+..
T Consensus 24 ~~~~~l~~~i~~~~~~~~~L~~G~~G~GKt~~a~~la~~l~~ 65 (367)
T PRK14970 24 HITNTLLNAIENNHLAQALLFCGPRGVGKTTCARILARKINQ 65 (367)
T ss_pred HHHHHHHHHHHcCCCCeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3344344443433 35779999999999988888776654
No 442
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=53.71 E-value=43 Score=35.52 Aligned_cols=34 Identities=21% Similarity=0.148 Sum_probs=24.9
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCC
Q 000883 308 ILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL 342 (1238)
Q Consensus 308 ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~ 342 (1238)
++.-.|++|||...|..+..+...+ .+++++-|.
T Consensus 5 ~i~GpM~sGKS~eLi~~~~~~~~~~-~~v~~~kp~ 38 (176)
T PF00265_consen 5 FITGPMFSGKSTELIRRIHRYEIAG-KKVLVFKPA 38 (176)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHTT--EEEEEEES
T ss_pred EEECCcCChhHHHHHHHHHHHHhCC-CeEEEEEec
Confidence 5668999999998888776664433 477888774
No 443
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=53.54 E-value=54 Score=37.58 Aligned_cols=38 Identities=18% Similarity=0.182 Sum_probs=27.1
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC-CCCCeEEEeC
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE-RISPHLVVAP 341 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~p~LIVvP 341 (1238)
+...+|.-.+|.|||.++..++.++... +..++.+|.-
T Consensus 194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~ 232 (282)
T TIGR03499 194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITT 232 (282)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEEC
Confidence 4456688899999999998888887654 3235555543
No 444
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=53.09 E-value=1.3e+02 Score=37.27 Aligned_cols=45 Identities=24% Similarity=0.334 Sum_probs=29.0
Q ss_pred hhcccCCCceeEEEecccccccCcccHHHHHHHhcc---cccEEEEecCC
Q 000883 420 DSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYS---TRHRVLLTGTP 466 (1238)
Q Consensus 420 d~~~l~~i~w~~vIvDEaHrlKN~~S~~~~~l~~l~---~~~rllLTGTP 466 (1238)
+...+......++|+||+|..++. .++.++..-. .+..++...|+
T Consensus 115 ~~~~~dG~~~~~~i~DE~h~~~~~--~~~~~l~~g~~~r~~pl~~~ISTa 162 (477)
T PF03354_consen 115 DADSLDGLNPSLAIFDELHAHKDD--ELYDALESGMGARPNPLIIIISTA 162 (477)
T ss_pred CCCCccCCCCceEEEeCCCCCCCH--HHHHHHHhhhccCCCceEEEEeCC
Confidence 455666777899999999999864 3555555432 23445555554
No 445
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=52.99 E-value=77 Score=41.28 Aligned_cols=35 Identities=20% Similarity=0.266 Sum_probs=22.7
Q ss_pred ceEEEcCCCChHHHHHHHHHHHHhh-CCCCCeEEEe
Q 000883 306 HVILADEMGLGKTIQSIAFLASLFG-ERISPHLVVA 340 (1238)
Q Consensus 306 ~~ILaDemGlGKTiqaia~l~~l~~-~~~~p~LIVv 340 (1238)
-..|....|.|||.++.-++..+.. .+...+.+|+
T Consensus 187 Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit 222 (767)
T PRK14723 187 VLALVGPTGVGKTTTTAKLAARCVAREGADQLALLT 222 (767)
T ss_pred EEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEec
Confidence 3568999999999887766665533 3323444443
No 446
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=52.91 E-value=32 Score=43.64 Aligned_cols=90 Identities=16% Similarity=0.120 Sum_probs=65.0
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCC-----CCCeEEEeC-CccHHHHHHHHHHHcCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-----ISPHLVVAP-LSTLRNWEREFATWAPQ 358 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-----~~p~LIVvP-~sll~qW~~E~~~~~p~ 358 (1238)
.|..-|+.+...+ ....-.|+.-..|+|||++++-++..|+... .-|+||||= ++.+.|..--+-.. +
T Consensus 378 ildsSq~~A~qs~----ltyelsliqgppGTgkt~vtlkav~tLL~n~s~~~~~epIlvvC~Tnhavdq~ligiy~~--q 451 (1025)
T KOG1807|consen 378 ILDSSQQFAKQSK----LTYELSLIQGPPGTGKTLVTLKAVDTLLLNSSGYTEPEPILVVCLTNHAVDQYLIGIYYH--Q 451 (1025)
T ss_pred eecHHHHHHHHHH----hhhhhheeecCCCCCceeehHHHHHHHHhcccccccccceeeeehhhHHHHHHHHHHHhc--C
Confidence 4677898888655 3345578899999999999999998887654 239999998 57778776555432 4
Q ss_pred CcEEEEEcChhHHHHHHHhhhc
Q 000883 359 MNVVMYVGTSQARNIIREYEFY 380 (1238)
Q Consensus 359 l~vv~~~g~~~~r~~i~~~e~~ 380 (1238)
-..++..|+......++.+.+.
T Consensus 452 rpsImr~gsr~~spyLk~~n~~ 473 (1025)
T KOG1807|consen 452 RPSIMRQGSRFFSPYLKVHNYL 473 (1025)
T ss_pred CceEEEeccccCCHHHHHHHHH
Confidence 4567778877666666665554
No 447
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=52.90 E-value=46 Score=43.00 Aligned_cols=65 Identities=20% Similarity=0.132 Sum_probs=48.1
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CCC--CeEEEeC-CccHHHHHHHHHHHc
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RIS--PHLVVAP-LSTLRNWEREFATWA 356 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~--p~LIVvP-~sll~qW~~E~~~~~ 356 (1238)
|.|-|.++|+ ...+.+++....|+|||.+.+.-+.++... +.. .+|+|+. ......-++.+.+..
T Consensus 2 Ln~~Q~~av~------~~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l 70 (664)
T TIGR01074 2 LNPQQQEAVE------YVTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTL 70 (664)
T ss_pred CCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHh
Confidence 6789999986 345677888899999999999999998864 333 5777766 455556666666554
No 448
>PRK12377 putative replication protein; Provisional
Probab=52.89 E-value=60 Score=36.50 Aligned_cols=43 Identities=19% Similarity=0.229 Sum_probs=31.2
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN 347 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q 347 (1238)
..+.+|.-.+|+|||..+.+++..+...+. +++++.-..++..
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~-~v~~i~~~~l~~~ 143 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGR-SVIVVTVPDVMSR 143 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CeEEEEHHHHHHH
Confidence 356789999999999999999999876542 4444443455543
No 449
>PRK06921 hypothetical protein; Provisional
Probab=52.35 E-value=39 Score=38.42 Aligned_cols=38 Identities=24% Similarity=0.265 Sum_probs=28.6
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEe
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVA 340 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVv 340 (1238)
.+.+.+|.-++|+|||..+.+++..+.......++.+.
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~ 153 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP 153 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence 46678999999999999999999888765222444444
No 450
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=52.26 E-value=30 Score=40.05 Aligned_cols=44 Identities=25% Similarity=0.317 Sum_probs=31.3
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
+.+-+-|. .+|......+.+.+++-.+|+|||..+-+++..+..
T Consensus 115 g~~~~~~~---~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~ 158 (299)
T TIGR02782 115 GIMTAAQR---DVLREAVLARKNILVVGGTGSGKTTLANALLAEIAK 158 (299)
T ss_pred CCCCHHHH---HHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhc
Confidence 33444444 344455567889999999999999988777766644
No 451
>cd00034 ChSh Chromo Shadow Domain, found in association with N-terminal chromo (CHRromatin Organization MOdifier) domain; Chromo domains mediate the interaction of the heterochromatin with other heterochromatin proteins, thereby affecting chromatin structure (e.g. Drosophila and human heterochromatin protein (HP1) and mammalian modifier 1 and modifier 2)
Probab=52.23 E-value=6.9 Score=32.96 Aligned_cols=22 Identities=32% Similarity=0.507 Sum_probs=17.8
Q ss_pred hhhhhhhccCC-CceeEEEeeec
Q 000883 194 VDRILACRGED-DEKEYLVKYKE 215 (1238)
Q Consensus 194 veRIi~~r~~~-~~~eyLVKWkg 215 (1238)
+++|++....+ ++..||+||++
T Consensus 2 ~~~I~gat~~~~g~l~fl~kwk~ 24 (54)
T cd00034 2 VKPISGASKSDDGELTFLAKWKD 24 (54)
T ss_pred ceEEEEEEEcCCCeEEEEEEEeC
Confidence 56777776655 88999999999
No 452
>PRK08939 primosomal protein DnaI; Reviewed
Probab=51.95 E-value=23 Score=41.06 Aligned_cols=46 Identities=22% Similarity=0.291 Sum_probs=32.0
Q ss_pred HHHHHHHhhc--CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEE
Q 000883 293 GLNFLRFSWS--KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVV 339 (1238)
Q Consensus 293 gv~wL~~~~~--~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIV 339 (1238)
+..|+...-. .+.|.+|.-.+|+|||..+.|++..+...+. +++++
T Consensus 143 ~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~ 190 (306)
T PRK08939 143 ALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLL 190 (306)
T ss_pred HHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEE
Confidence 4556532221 3567889999999999999999999876543 44444
No 453
>PF06068 TIP49: TIP49 C-terminus; InterPro: IPR010339 This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the AAA ATPase, central region IPR003959 from INTERPRO domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway []. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities. TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases [].; GO: 0003678 DNA helicase activity, 0005524 ATP binding; PDB: 2XSZ_E 2CQA_A 2C9O_C.
Probab=51.80 E-value=22 Score=41.87 Aligned_cols=40 Identities=20% Similarity=0.292 Sum_probs=28.8
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST 344 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl 344 (1238)
.|+..+|+.+.|+|||..|+++...|-.. -||..++-..+
T Consensus 49 aGr~iLiaGppGtGKTAlA~~ia~eLG~~--~PF~~isgSEi 88 (398)
T PF06068_consen 49 AGRAILIAGPPGTGKTALAMAIAKELGED--VPFVSISGSEI 88 (398)
T ss_dssp TT-EEEEEE-TTSSHHHHHHHHHHHCTTT--S-EEEEEGGGG
T ss_pred cCcEEEEeCCCCCCchHHHHHHHHHhCCC--CCeeEccccee
Confidence 46678899999999999999998887432 38888876543
No 454
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=51.78 E-value=24 Score=46.04 Aligned_cols=52 Identities=23% Similarity=0.188 Sum_probs=41.2
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CCC--CeEEEeCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RIS--PHLVVAPL 342 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~--p~LIVvP~ 342 (1238)
.|-|-|.++|. ...+..++....|+|||.+.+.-+.+|... +.. .+|+|+-+
T Consensus 9 ~Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT 63 (721)
T PRK11773 9 SLNDKQREAVA------APLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFT 63 (721)
T ss_pred hcCHHHHHHHh------CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeecc
Confidence 48899999986 335667777789999999999999999863 433 58888875
No 455
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=51.72 E-value=17 Score=43.61 Aligned_cols=47 Identities=17% Similarity=0.143 Sum_probs=36.2
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
.++.+|+-+.|.|||..+.+++... ...+-=|.|.++...|.-|-++
T Consensus 186 ~rglLLfGPpgtGKtmL~~aiAsE~----~atff~iSassLtsK~~Ge~eK 232 (428)
T KOG0740|consen 186 VRGLLLFGPPGTGKTMLAKAIATES----GATFFNISASSLTSKYVGESEK 232 (428)
T ss_pred cchhheecCCCCchHHHHHHHHhhh----cceEeeccHHHhhhhccChHHH
Confidence 3466899999999999888877653 2356778889999888777654
No 456
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=51.65 E-value=24 Score=38.74 Aligned_cols=55 Identities=18% Similarity=0.181 Sum_probs=40.3
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHc
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWA 356 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~ 356 (1238)
-.+.-.+|+-+.|+|||+.++.|+..-......+++.|+-.....+..+.+..+.
T Consensus 17 p~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g 71 (226)
T PF06745_consen 17 PKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFG 71 (226)
T ss_dssp ETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTT
T ss_pred CCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcC
Confidence 3456678999999999999999887655441237888888877788888887654
No 457
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=51.64 E-value=23 Score=46.25 Aligned_cols=65 Identities=15% Similarity=0.141 Sum_probs=46.9
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhC-CC--CCeEEEeCCc-cHHHHHHHHHHH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGE-RI--SPHLVVAPLS-TLRNWEREFATW 355 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~-~~--~p~LIVvP~s-ll~qW~~E~~~~ 355 (1238)
.|-|-|.++|. ...+.+++....|+|||.+.+.-+.+|... +. ..+|+|+.+. ....-+.-+.+.
T Consensus 4 ~Ln~~Q~~av~------~~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~ 72 (715)
T TIGR01075 4 GLNDKQREAVA------APPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGAL 72 (715)
T ss_pred ccCHHHHHHHc------CCCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHH
Confidence 48899999986 345678888899999999999999999864 33 3678888753 333334444443
No 458
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=50.89 E-value=1.2e+02 Score=36.87 Aligned_cols=55 Identities=18% Similarity=0.193 Sum_probs=31.6
Q ss_pred ceeEEEecccccccCcccHHHHHHHhcc-----cccEEEEecCCCCCCHHHHHHHHhhhcC
Q 000883 428 KWQCMIVDEGHRLKNKDSKLFSSLKQYS-----TRHRVLLTGTPLQNNLDELFMLMHFLDA 483 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S~~~~~l~~l~-----~~~rllLTGTPlqNn~~EL~~ll~fL~p 483 (1238)
..+.++||.+=+..+. ..+...+..+. ....|.|++|--.+.+.++...+..+..
T Consensus 269 ~~d~VLIDTaGrsqrd-~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~~ 328 (420)
T PRK14721 269 GKHMVLIDTVGMSQRD-QMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHGI 328 (420)
T ss_pred CCCEEEecCCCCCcch-HHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCCC
Confidence 3568899987444332 23344444442 2345779999766666666655554433
No 459
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=50.77 E-value=50 Score=39.02 Aligned_cols=46 Identities=20% Similarity=0.270 Sum_probs=31.9
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
+++++.-+.|+|||+.|=|++... ...|.=|.-..+...|.-|=++
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATEc----~tTFFNVSsstltSKwRGeSEK 291 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATEC----GTTFFNVSSSTLTSKWRGESEK 291 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHhh----cCeEEEechhhhhhhhccchHH
Confidence 678899999999999887665532 1244444445666788777555
No 460
>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=50.75 E-value=73 Score=42.74 Aligned_cols=96 Identities=11% Similarity=0.083 Sum_probs=66.9
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHH----hhCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYL----TFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L----~~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.|||..+....+-.....|.+++|.+..+.........+ ...++++..+.|.++..++..++..+..+..+ ++
T Consensus 482 GsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~d---IV 558 (926)
T TIGR00580 482 GFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKID---IL 558 (926)
T ss_pred CccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCce---EE
Confidence 578876654443334456899999999987766555444 34477888999999999999999988765443 55
Q ss_pred eeccc-cccccCcCCCCEEEEEcC
Q 000883 682 LSTRA-GGLGINLATADTVIIYDS 704 (1238)
Q Consensus 682 lStra-gg~GINL~~Ad~VIi~D~ 704 (1238)
++|.+ ....+.+.....||+=+-
T Consensus 559 IGTp~ll~~~v~f~~L~llVIDEa 582 (926)
T TIGR00580 559 IGTHKLLQKDVKFKDLGLLIIDEE 582 (926)
T ss_pred EchHHHhhCCCCcccCCEEEeecc
Confidence 66654 445677777777776443
No 461
>PRK09376 rho transcription termination factor Rho; Provisional
Probab=50.23 E-value=24 Score=42.09 Aligned_cols=30 Identities=17% Similarity=0.132 Sum_probs=22.0
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
-.|++++|..+.|.|||..+-.+...+...
T Consensus 167 GkGQR~lIvgppGvGKTTLaK~Ian~I~~n 196 (416)
T PRK09376 167 GKGQRGLIVAPPKAGKTVLLQNIANSITTN 196 (416)
T ss_pred ccCceEEEeCCCCCChhHHHHHHHHHHHhh
Confidence 467777788889999998776666555443
No 462
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=49.69 E-value=41 Score=41.28 Aligned_cols=52 Identities=13% Similarity=0.194 Sum_probs=38.5
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
..+.-.+|+-++|.|||..++.++..+...+ +++|.|.......|......+
T Consensus 92 ~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g-~kvlYvs~EEs~~qi~~ra~r 143 (454)
T TIGR00416 92 VPGSLILIGGDPGIGKSTLLLQVACQLAKNQ-MKVLYVSGEESLQQIKMRAIR 143 (454)
T ss_pred cCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC-CcEEEEECcCCHHHHHHHHHH
Confidence 4455678999999999999998888775543 478888887666665544443
No 463
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=49.10 E-value=23 Score=38.90 Aligned_cols=41 Identities=32% Similarity=0.446 Sum_probs=26.0
Q ss_pred ceeEEEecccccccCcccHHHHHHHhcccccEEEEecCCCCCCH
Q 000883 428 KWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNL 471 (1238)
Q Consensus 428 ~w~~vIvDEaHrlKN~~S~~~~~l~~l~~~~rllLTGTPlqNn~ 471 (1238)
..+.+||||++.+-... +.- +........+.|-|=|.|-..
T Consensus 62 ~~~~liiDE~~~~~~g~--l~~-l~~~~~~~~~~l~GDp~Q~~~ 102 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPGY--LLL-LLSLSPAKNVILFGDPLQIPY 102 (234)
T ss_pred cCCEEEEeccccCChHH--HHH-HHhhccCcceEEEECchhccC
Confidence 46899999999764322 111 333334446778899988653
No 464
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=49.02 E-value=75 Score=38.20 Aligned_cols=31 Identities=13% Similarity=0.098 Sum_probs=22.9
Q ss_pred hcCCCceEEEcCCCChHHHHHHHHHHHHhhC
Q 000883 301 WSKQTHVILADEMGLGKTIQSIAFLASLFGE 331 (1238)
Q Consensus 301 ~~~~~~~ILaDemGlGKTiqaia~l~~l~~~ 331 (1238)
...|..+.|..+.|.|||..+-.+...+...
T Consensus 165 ig~Gq~~~IvG~~g~GKTtL~~~i~~~I~~n 195 (415)
T TIGR00767 165 IGKGQRGLIVAPPKAGKTVLLQKIAQAITRN 195 (415)
T ss_pred eCCCCEEEEECCCCCChhHHHHHHHHhhccc
Confidence 3567788899999999998766655554433
No 465
>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]
Probab=48.93 E-value=5.4e+02 Score=30.80 Aligned_cols=141 Identities=16% Similarity=0.111 Sum_probs=77.4
Q ss_pred CCCcHHHHHHHHHHHHhhcC--CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH---HHHHHHHHHHcCC
Q 000883 284 GSLHPYQLEGLNFLRFSWSK--QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL---RNWEREFATWAPQ 358 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~--~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll---~qW~~E~~~~~p~ 358 (1238)
.-.|.+|+.-+.-|...-.. ...++|....|+|||..+-.++..+ .-|+..+++.... .-|..-+.+-.
T Consensus 8 v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~----n~~~vw~n~~ecft~~~lle~IL~~~~-- 81 (438)
T KOG2543|consen 8 VPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKL----NLENVWLNCVECFTYAILLEKILNKSQ-- 81 (438)
T ss_pred ccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhc----CCcceeeehHHhccHHHHHHHHHHHhc--
Confidence 34788999988766433222 2234889999999999988777765 2366777764322 33444444321
Q ss_pred CcEEEEEcChhHH--HHHHHhhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecc
Q 000883 359 MNVVMYVGTSQAR--NIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDE 436 (1238)
Q Consensus 359 l~vv~~~g~~~~r--~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDE 436 (1238)
..-+.|....- ..+ ..|.-.+..++...+. -.--++|+|-
T Consensus 82 --~~d~dg~~~~~~~en~------------------------------~d~i~~l~q~~~~t~~------d~~~~liLDn 123 (438)
T KOG2543|consen 82 --LADKDGDKVEGDAENF------------------------------SDFIYLLVQWPAATNR------DQKVFLILDN 123 (438)
T ss_pred --cCCCchhhhhhHHHHH------------------------------HHHHHHHHhhHHhhcc------CceEEEEEcC
Confidence 01111111100 000 0111111111111111 1123799999
Q ss_pred cccccCcccHHHHHHHhcc-----cccEEEEecCCCC
Q 000883 437 GHRLKNKDSKLFSSLKQYS-----TRHRVLLTGTPLQ 468 (1238)
Q Consensus 437 aHrlKN~~S~~~~~l~~l~-----~~~rllLTGTPlq 468 (1238)
|..+....+.+.+.+..+. ..-++.++.++..
T Consensus 124 ad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e 160 (438)
T KOG2543|consen 124 ADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCE 160 (438)
T ss_pred HHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccH
Confidence 9999998888888777763 3456778887743
No 466
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=48.74 E-value=7.1 Score=41.62 Aligned_cols=50 Identities=20% Similarity=0.339 Sum_probs=34.0
Q ss_pred ccccccccCCCCeeecCCCCCccccCcCCCCCCC------------CCCCCCCCCccCCCCc
Q 000883 51 DDSCQACGESENLMSCDTCTYAYHAKCLVPPLKA------------PPSGSWRCPECVSPLN 100 (1238)
Q Consensus 51 ~~~C~~C~~~~~ll~C~~C~~~~H~~Cl~p~l~~------------~p~~~W~C~~C~~~~~ 100 (1238)
+..|.+|.+.-.--....|...|++.|+...+.. .......||.|..+..
T Consensus 18 ~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is 79 (193)
T PLN03208 18 DFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVS 79 (193)
T ss_pred ccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCC
Confidence 4679999976543333679999999999654321 0124568999997653
No 467
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=48.55 E-value=28 Score=36.09 Aligned_cols=40 Identities=13% Similarity=0.074 Sum_probs=37.5
Q ss_pred hhhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHH
Q 000883 605 ESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYL 644 (1238)
Q Consensus 605 ~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L 644 (1238)
..++++.++.+|+.+...+|+||+|.+....+++.|.+.|
T Consensus 10 ~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~L 49 (154)
T PRK06646 10 SDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNL 49 (154)
T ss_pred CCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHh
Confidence 4678999999999999999999999999999999999999
No 468
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=48.41 E-value=33 Score=38.92 Aligned_cols=43 Identities=26% Similarity=0.251 Sum_probs=32.1
Q ss_pred CcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh
Q 000883 286 LHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG 330 (1238)
Q Consensus 286 LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~ 330 (1238)
+.+.|.+.+.++.. ..++.++++-++|+|||...-+++..+..
T Consensus 64 ~~~~~~~~l~~~~~--~~~GlilisG~tGSGKTT~l~all~~i~~ 106 (264)
T cd01129 64 LKPENLEIFRKLLE--KPHGIILVTGPTGSGKTTTLYSALSELNT 106 (264)
T ss_pred CCHHHHHHHHHHHh--cCCCEEEEECCCCCcHHHHHHHHHhhhCC
Confidence 67788888766532 33455789999999999988888877643
No 469
>PHA02929 N1R/p28-like protein; Provisional
Probab=48.22 E-value=6.7 Score=43.49 Aligned_cols=49 Identities=24% Similarity=0.542 Sum_probs=34.2
Q ss_pred cccccccccCCCC--------eeecCCCCCccccCcCCCCCCCCCCCCCCCCccCCCCccc
Q 000883 50 KDDSCQACGESEN--------LMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVSPLNDI 102 (1238)
Q Consensus 50 ~~~~C~~C~~~~~--------ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~~~~~i 102 (1238)
.+..|.+|...-. +..-..|...||..|+.+.+...+ .||.|..+...+
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~----tCPlCR~~~~~v 229 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN----TCPVCRTPFISV 229 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC----CCCCCCCEeeEE
Confidence 3578999987511 122347999999999988765432 699999765443
No 470
>CHL00176 ftsH cell division protein; Validated
Probab=48.01 E-value=83 Score=40.42 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=20.5
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASL 328 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l 328 (1238)
..+++|.-+.|+|||..|=+++...
T Consensus 216 p~gVLL~GPpGTGKT~LAralA~e~ 240 (638)
T CHL00176 216 PKGVLLVGPPGTGKTLLAKAIAGEA 240 (638)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHh
Confidence 4578999999999999887776543
No 471
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=47.98 E-value=50 Score=36.68 Aligned_cols=62 Identities=24% Similarity=0.244 Sum_probs=41.4
Q ss_pred HHHHHHHH-hhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 292 EGLNFLRF-SWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 292 egv~wL~~-~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
.++.-+.. .+..+...+++-+.|.|||+.++-|+...... ..+.|+|+-.....+-.+.+..
T Consensus 8 ~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~-ge~~lyvs~ee~~~~i~~~~~~ 70 (237)
T TIGR03877 8 PGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM-GEPGIYVALEEHPVQVRRNMAQ 70 (237)
T ss_pred HhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHc-CCcEEEEEeeCCHHHHHHHHHH
Confidence 34444322 33456667889999999999999888775533 2488888876666555555544
No 472
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.55 E-value=2.3e+02 Score=33.75 Aligned_cols=73 Identities=21% Similarity=0.188 Sum_probs=50.6
Q ss_pred HhhhhHHHHHHHHHHHHHHcCCeEEEEecch---hHHHHHHHHHhhCCCcEEE-EeCCCCHHHHHHHHHHHhcCCCC
Q 000883 604 LESSGKLQLLDKMMVKLKEQGHRVLIYSQFQ---HMLDLLEDYLTFKKWQYER-IDGKVGGAERQIRIDRFNAKNSS 676 (1238)
Q Consensus 604 i~~S~Kl~~L~klL~~l~~~g~KVLIFsq~~---~~ldiL~~~L~~~g~~~~r-idG~~~~~~R~~~I~~Fn~~~s~ 676 (1238)
++.+||...+.++...++.+|.|+.+.|-.+ ...|.|...-...+++|.- ++..-+..--.+-+++|...+-+
T Consensus 109 LqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~fKke~fd 185 (483)
T KOG0780|consen 109 LQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDRFKKENFD 185 (483)
T ss_pred ccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHHHHhcCCc
Confidence 4568888888888888888888888887654 3567777666666777543 34444555666778888765443
No 473
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=47.34 E-value=26 Score=38.72 Aligned_cols=48 Identities=17% Similarity=0.176 Sum_probs=35.4
Q ss_pred HHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCcc
Q 000883 297 LRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLST 344 (1238)
Q Consensus 297 L~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sl 344 (1238)
+...+..|.-.+|+-..|.|||..++.++.........++|++.....
T Consensus 6 ~~~Gl~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~ 53 (242)
T cd00984 6 LTGGLQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMS 53 (242)
T ss_pred hhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCC
Confidence 333455666789999999999999998888776553347888876443
No 474
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=47.15 E-value=33 Score=35.02 Aligned_cols=82 Identities=21% Similarity=0.109 Sum_probs=55.5
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh-h---CCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT-F---KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~-~---~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.+.++.++.+|+.+...+|+||+|++.....++.|.+.|= . .-++..+..+.. ....- ++
T Consensus 11 ~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~~---------------~~~~P-V~ 74 (142)
T PRK05728 11 LSALEALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWTFRDESFLPHGLAGEGP---------------AAGQP-VL 74 (142)
T ss_pred chhHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcCCCCCcCCCCCcCCCCC---------------CCCCC-EE
Confidence 5668899999999999999999999999999999999992 2 223333322211 11112 44
Q ss_pred eeccccccccCcCCCCEEEEEcCCC
Q 000883 682 LSTRAGGLGINLATADTVIIYDSDW 706 (1238)
Q Consensus 682 lStragg~GINL~~Ad~VIi~D~dW 706 (1238)
|+. +..-+...++.+|+++..+
T Consensus 75 l~~---~~~~~~~~~~~LinL~~~~ 96 (142)
T PRK05728 75 LTW---PGKRNANHRDLLINLDGAV 96 (142)
T ss_pred EEc---CCCCCCCCCcEEEECCCCC
Confidence 441 2224566788888888764
No 475
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=46.72 E-value=35 Score=38.15 Aligned_cols=33 Identities=24% Similarity=0.244 Sum_probs=23.1
Q ss_pred CCCChHHHHHHHHHHHHhhCCCCCeEEE--eCCccH
Q 000883 312 EMGLGKTIQSIAFLASLFGERISPHLVV--APLSTL 345 (1238)
Q Consensus 312 emGlGKTiqaia~l~~l~~~~~~p~LIV--vP~sll 345 (1238)
-=|.|||..+.++...|...+. ++|+| .|.+.+
T Consensus 10 kGGvG~TTltAnLA~aL~~~G~-~VlaID~dpqN~L 44 (243)
T PF06564_consen 10 KGGVGKTTLTANLAWALARLGE-SVLAIDLDPQNLL 44 (243)
T ss_pred CCCCCHHHHHHHHHHHHHHCCC-cEEEEeCCcHHHH
Confidence 3489999999998888876543 55555 454444
No 476
>PHA00012 I assembly protein
Probab=46.40 E-value=48 Score=38.53 Aligned_cols=25 Identities=16% Similarity=0.409 Sum_probs=19.5
Q ss_pred EEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 308 ILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 308 ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
++.--.|.|||+.|++-+...+..+
T Consensus 5 lITGkPGSGKSl~aV~~I~~~L~~G 29 (361)
T PHA00012 5 VVTGKLGAGKTLVAVSRIQDKLVKG 29 (361)
T ss_pred EEecCCCCCchHHHHHHHHHHHHcC
Confidence 4566789999999998777666655
No 477
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=45.88 E-value=40 Score=39.39 Aligned_cols=43 Identities=19% Similarity=0.262 Sum_probs=31.2
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHh
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLF 329 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~ 329 (1238)
+.+.+.|.+.+ ......+.+.+++-.+|+|||...-+++..+.
T Consensus 131 g~~~~~~~~~L---~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~ 173 (319)
T PRK13894 131 GIMTAAQREAI---IAAVRAHRNILVIGGTGSGKTTLVNAIINEMV 173 (319)
T ss_pred CCCCHHHHHHH---HHHHHcCCeEEEECCCCCCHHHHHHHHHHhhh
Confidence 45666666554 44456788999999999999977777766553
No 478
>PRK08760 replicative DNA helicase; Provisional
Probab=45.65 E-value=58 Score=40.30 Aligned_cols=63 Identities=11% Similarity=0.040 Sum_probs=46.7
Q ss_pred HHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHH
Q 000883 293 GLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 293 gv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
.++-+...+..+.=.|||..+|.|||.-++.++.........|++++..--...++...+...
T Consensus 218 ~LD~~t~G~~~G~LivIaarPg~GKTafal~iA~~~a~~~g~~V~~fSlEMs~~ql~~Rl~a~ 280 (476)
T PRK08760 218 DFDAMTAGLQPTDLIILAARPAMGKTTFALNIAEYAAIKSKKGVAVFSMEMSASQLAMRLISS 280 (476)
T ss_pred HHHHHhcCCCCCceEEEEeCCCCChhHHHHHHHHHHHHhcCCceEEEeccCCHHHHHHHHHHh
Confidence 344444556677778999999999999999998776533334889998877777877766543
No 479
>PF14061 Mtf2_C: Polycomb-like MTF2 factor 2
Probab=45.60 E-value=11 Score=30.66 Aligned_cols=22 Identities=36% Similarity=0.641 Sum_probs=17.7
Q ss_pred hhhhhc-cCCCceeEEEeeeccc
Q 000883 196 RILACR-GEDDEKEYLVKYKELS 217 (1238)
Q Consensus 196 RIi~~r-~~~~~~eyLVKWkgL~ 217 (1238)
+|++.| ..++..+|||-|.|.+
T Consensus 27 ~VlArRV~~dG~vQYLvEWeg~~ 49 (50)
T PF14061_consen 27 RVLARRVTPDGKVQYLVEWEGAT 49 (50)
T ss_pred EEEEEEEcCCCcEEEEEEecCcC
Confidence 678877 4568899999998864
No 480
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=45.02 E-value=1.1e+02 Score=35.99 Aligned_cols=123 Identities=20% Similarity=0.210 Sum_probs=67.7
Q ss_pred CChHHHHHHHHHHHHhhCCC---------C-----CeEEEeCCccHHHHHHH---HHHHcCCCcEEEEEcChhHHHHHHH
Q 000883 314 GLGKTIQSIAFLASLFGERI---------S-----PHLVVAPLSTLRNWERE---FATWAPQMNVVMYVGTSQARNIIRE 376 (1238)
Q Consensus 314 GlGKTiqaia~l~~l~~~~~---------~-----p~LIVvP~sll~qW~~E---~~~~~p~l~vv~~~g~~~~r~~i~~ 376 (1238)
|+|||=.++.++..|...+. + ..++|.|.+.-..--+| +.+.+| +.++.|.+..+....-
T Consensus 47 GTGKTP~v~~L~~~L~~~G~~~~IlSRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~~~---~~V~V~~dR~~~~~~~ 123 (326)
T PF02606_consen 47 GTGKTPLVIWLARLLQARGYRPAILSRGYGRKSKGEPILVSDGSDAEEVGDEPLLLARKLP---VPVIVGPDRVAAARAA 123 (326)
T ss_pred CCCchHHHHHHHHHHHhcCCceEEEcCCCCCCCCCCeEEEeCCCChhhhcCHHHHHHHhcC---CcEEEeCcHHHHHHHH
Confidence 89999999999999876531 1 27888888755554455 455555 4444555443322111
Q ss_pred hhhcCCCCchhhhccccCccccccccccccccEEEecHHHHHhhhcccCCCceeEEEecccccccC----cccHHHHHHH
Q 000883 377 YEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKN----KDSKLFSSLK 452 (1238)
Q Consensus 377 ~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdVvItSye~l~~d~~~l~~i~w~~vIvDEaHrlKN----~~S~~~~~l~ 452 (1238)
. ....++|+|.--. +.. ..| .-..++|++|-.+-+.| +...+..-+.
T Consensus 124 ~-------------------------~~~~~dviilDDG-fQh--~~L-~rDl~Ivl~D~~~~~gng~lLPaG~LREp~~ 174 (326)
T PF02606_consen 124 L-------------------------KEFPADVIILDDG-FQH--RRL-KRDLDIVLVDADRPFGNGFLLPAGPLREPLS 174 (326)
T ss_pred H-------------------------HHCCCCEEEEcCC-ccc--ccc-cCCcEEEEEeCCCCCcCCccCCCCcccCChh
Confidence 0 0112566655211 100 001 12567888887666655 2334444455
Q ss_pred hcccccEEEEecCCCC
Q 000883 453 QYSTRHRVLLTGTPLQ 468 (1238)
Q Consensus 453 ~l~~~~rllLTGTPlq 468 (1238)
.+.....+++|+.+..
T Consensus 175 ~l~rAD~vi~~~~~~~ 190 (326)
T PF02606_consen 175 ALKRADAVIVTGCDAS 190 (326)
T ss_pred HhCcccEEEEcCCCcc
Confidence 5555566777777643
No 481
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=44.96 E-value=1.2e+02 Score=42.96 Aligned_cols=59 Identities=15% Similarity=0.151 Sum_probs=40.3
Q ss_pred CCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHh---hCCCCCeEEEeCCccH
Q 000883 285 SLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLF---GERISPHLVVAPLSTL 345 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~---~~~~~p~LIVvP~sll 345 (1238)
.|.+-|.+++..+.. ...+-++|.--.|+|||.+.-+++..+. ......++.++|.+--
T Consensus 835 ~Lt~~Qr~Av~~iLt--s~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkA 896 (1623)
T PRK14712 835 KLTSGQRAATRMILE--TSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRA 896 (1623)
T ss_pred ccCHHHHHHHHHHHh--CCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHH
Confidence 689999999976522 2345688999999999988655544432 2222357778886544
No 482
>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family. This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.
Probab=44.73 E-value=60 Score=35.54 Aligned_cols=52 Identities=15% Similarity=0.093 Sum_probs=39.0
Q ss_pred CCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHH
Q 000883 303 KQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATW 355 (1238)
Q Consensus 303 ~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~ 355 (1238)
.+.-.+|+.+.|.|||..++.++...... ..++++|.......+-.+.+..+
T Consensus 15 ~g~~~li~G~~G~GKt~~~~~~~~~~~~~-g~~~~y~s~e~~~~~l~~~~~~~ 66 (224)
T TIGR03880 15 EGHVIVVIGEYGTGKTTFSLQFLYQGLKN-GEKAMYISLEEREERILGYAKSK 66 (224)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEECCCCHHHHHHHHHHc
Confidence 45556789999999999999888765544 35888998877776666666554
No 483
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.58 E-value=52 Score=38.80 Aligned_cols=58 Identities=17% Similarity=0.085 Sum_probs=37.0
Q ss_pred eEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHcCCCcEEEEE
Q 000883 307 VILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYV 365 (1238)
Q Consensus 307 ~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~ 365 (1238)
+++.-=.|.|||.++.-+++++...+.++.||.+.+- -.--.+.++.|+....+-+|.
T Consensus 104 imfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTF-RagAfDQLkqnA~k~~iP~yg 161 (483)
T KOG0780|consen 104 IMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTF-RAGAFDQLKQNATKARVPFYG 161 (483)
T ss_pred EEEEeccCCCcceeHHHHHHHHHhcCCceeEEeeccc-ccchHHHHHHHhHhhCCeeEe
Confidence 3467778999999888888888777766666665532 222234455555444544444
No 484
>PF12846 AAA_10: AAA-like domain
Probab=44.49 E-value=41 Score=38.12 Aligned_cols=43 Identities=19% Similarity=0.301 Sum_probs=30.3
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRN 347 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~q 347 (1238)
+.++++.-.+|.|||..+..++..+...+ .+++|+=|..-...
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~~~~~~~g-~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLLEQLIRRG-PRVVIFDPKGDYSP 43 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHcC-CCEEEEcCCchHHH
Confidence 46788999999999998887777766654 35666655543333
No 485
>PRK09087 hypothetical protein; Validated
Probab=44.39 E-value=1e+02 Score=34.06 Aligned_cols=36 Identities=11% Similarity=0.194 Sum_probs=26.0
Q ss_pred eEEEecccccccCcccHHHHHHHhcc-cccEEEEecC
Q 000883 430 QCMIVDEGHRLKNKDSKLFSSLKQYS-TRHRVLLTGT 465 (1238)
Q Consensus 430 ~~vIvDEaHrlKN~~S~~~~~l~~l~-~~~rllLTGT 465 (1238)
++|+||+.|.+......++..+..+. ....+++|++
T Consensus 89 ~~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~ 125 (226)
T PRK09087 89 GPVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSR 125 (226)
T ss_pred CeEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECC
Confidence 37999999988655556666666554 3567888887
No 486
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=44.39 E-value=1.2e+02 Score=34.85 Aligned_cols=47 Identities=17% Similarity=0.171 Sum_probs=33.1
Q ss_pred CCcHHHHHHHHHHHHhhcCCC--ceEEEcCCCChHHHHHHHHHHHHhhCC
Q 000883 285 SLHPYQLEGLNFLRFSWSKQT--HVILADEMGLGKTIQSIAFLASLFGER 332 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~~~~~--~~ILaDemGlGKTiqaia~l~~l~~~~ 332 (1238)
.|...|-..+..|...+.+++ +++|... |.||+..|..|+..+....
T Consensus 2 ~l~~~q~~~~~~L~~~~~~~rl~hAyLf~G-~~G~~~~A~~~A~~llC~~ 50 (290)
T PRK07276 2 DLKQKQPKVFQRFQTILEQDRLNHAYLFSG-DFASFEMALFLAQSLFCEQ 50 (290)
T ss_pred cHHHHHHHHHHHHHHHHHcCCcceeeeeeC-CccHHHHHHHHHHHHcCCC
Confidence 355677777777777766653 4555444 6899999999999887643
No 487
>PHA00673 acetyltransferase domain containing protein
Probab=44.24 E-value=32 Score=35.60 Aligned_cols=44 Identities=11% Similarity=0.182 Sum_probs=36.9
Q ss_pred eeEEEecccccccCcccHHHHHHHhcc---cccEEEEecCCCCCCHH
Q 000883 429 WQCMIVDEGHRLKNKDSKLFSSLKQYS---TRHRVLLTGTPLQNNLD 472 (1238)
Q Consensus 429 w~~vIvDEaHrlKN~~S~~~~~l~~l~---~~~rllLTGTPlqNn~~ 472 (1238)
.+.|.|++.||=++-.+.+........ ..++|.+||||-.|.+.
T Consensus 88 Ie~l~V~~~~RGqGIG~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~ 134 (154)
T PHA00673 88 TESIFVAAAHRPGGAGMALLRATEALARDLGATGLYVSGPTEGRLVQ 134 (154)
T ss_pred EEEEEEChhccCCCHHHHHHHHHHHHHHHCCCCEEEEecCCCccchH
Confidence 468999999999999999888877653 56899999999888753
No 488
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=44.14 E-value=58 Score=36.68 Aligned_cols=52 Identities=23% Similarity=0.252 Sum_probs=39.8
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
-.+...++.-++|+|||+-++-|+...... ..|+|.|+-...-..-.+.+..
T Consensus 21 p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~-ge~vlyvs~~e~~~~l~~~~~~ 72 (260)
T COG0467 21 PRGSVVLITGPPGTGKTIFALQFLYEGARE-GEPVLYVSTEESPEELLENARS 72 (260)
T ss_pred cCCcEEEEEcCCCCcHHHHHHHHHHHHHhc-CCcEEEEEecCCHHHHHHHHHH
Confidence 566778899999999999999999988776 2488999876555554444444
No 489
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=44.03 E-value=6.3 Score=30.61 Aligned_cols=41 Identities=27% Similarity=0.547 Sum_probs=29.6
Q ss_pred cccccCCC-CeeecCCCCCccccCcCCCCCCCCCCCCCCCCccCC
Q 000883 54 CQACGESE-NLMSCDTCTYAYHAKCLVPPLKAPPSGSWRCPECVS 97 (1238)
Q Consensus 54 C~~C~~~~-~ll~C~~C~~~~H~~Cl~p~l~~~p~~~W~C~~C~~ 97 (1238)
|.+|...- ..+....|+..||..|+...+.. +...||.|..
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~---~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKS---GKNTCPLCRT 43 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHHHh---CcCCCCCCCC
Confidence 77887664 45555669999999999655443 4567999975
No 490
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=43.91 E-value=64 Score=35.74 Aligned_cols=52 Identities=12% Similarity=0.171 Sum_probs=36.9
Q ss_pred cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHH
Q 000883 302 SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFAT 354 (1238)
Q Consensus 302 ~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~ 354 (1238)
..+.-.+|.-+.|.|||..++.++..+...+ .+.+.|+......+-.+.+..
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~~e~~~~~~~~~~~~ 73 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVSTQLTTTEFIKQMMS 73 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEeCCCCHHHHHHHHHH
Confidence 4566788999999999999988888775543 467777766555544444443
No 491
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=43.76 E-value=45 Score=39.72 Aligned_cols=60 Identities=18% Similarity=0.139 Sum_probs=45.1
Q ss_pred CCcHHHHHHHHHHHHhh--cCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccH
Q 000883 285 SLHPYQLEGLNFLRFSW--SKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTL 345 (1238)
Q Consensus 285 ~LrpyQlegv~wL~~~~--~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll 345 (1238)
+|-+-|..+++.++..+ ..+.+.+|.-.-|+|||...=++...+... ..++++++|+.+-
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~~~~~~~fv~G~~GtGKs~l~~~i~~~~~~~-~~~~~~~a~tg~A 62 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIENEEGLNFFVTGPAGTGKSFLIKAIIDYLRSR-GKKVLVTAPTGIA 62 (364)
T ss_pred CCCHHHHHHHHHHHHHHHccCCcEEEEEcCCCCChhHHHHHHHHHhccc-cceEEEecchHHH
Confidence 36678999988875555 456677899999999999877777766443 3488999997654
No 492
>PRK10263 DNA translocase FtsK; Provisional
Probab=43.67 E-value=76 Score=43.32 Aligned_cols=40 Identities=20% Similarity=0.390 Sum_probs=28.7
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhC-CCC--CeEEEeCCc
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGE-RIS--PHLVVAPLS 343 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~-~~~--p~LIVvP~s 343 (1238)
..+.+++-.+|+|||...-++|..+... ... .+++|=|+.
T Consensus 1010 ~PHLLIAGaTGSGKSv~LntLIlSLl~~~sPeeVrl~LIDPK~ 1052 (1355)
T PRK10263 1010 MPHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKM 1052 (1355)
T ss_pred CCcEEEecCCCCCHHHHHHHHHHHHHHhCCccceEEEEECCCc
Confidence 4678999999999999988888776543 222 455666663
No 493
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=43.47 E-value=32 Score=36.46 Aligned_cols=62 Identities=18% Similarity=0.177 Sum_probs=42.2
Q ss_pred HHHHHhhc-CCCceEEEcCCCChHHHHHHHHHHHHhhC---------CCCCeEEEeCCccHHHHHHHHHHHc
Q 000883 295 NFLRFSWS-KQTHVILADEMGLGKTIQSIAFLASLFGE---------RISPHLVVAPLSTLRNWEREFATWA 356 (1238)
Q Consensus 295 ~wL~~~~~-~~~~~ILaDemGlGKTiqaia~l~~l~~~---------~~~p~LIVvP~sll~qW~~E~~~~~ 356 (1238)
+|++..+- .+.-++++-..|.|||..++.++..+... ...++|+|.......+..+-+....
T Consensus 22 ~~li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 22 DWLIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp -EEETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred ceeECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 34433333 45668999999999999999998887652 2348888888777777777777655
No 494
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=43.29 E-value=73 Score=34.96 Aligned_cols=52 Identities=23% Similarity=0.231 Sum_probs=35.9
Q ss_pred hcCCCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHH
Q 000883 301 WSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFA 353 (1238)
Q Consensus 301 ~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~ 353 (1238)
+..+...+|+-+.|+|||..+..++...... ..+.++|.-.....+..+...
T Consensus 17 i~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~-g~~~~~is~e~~~~~i~~~~~ 68 (229)
T TIGR03881 17 IPRGFFVAVTGEPGTGKTIFCLHFAYKGLRD-GDPVIYVTTEESRESIIRQAA 68 (229)
T ss_pred CcCCeEEEEECCCCCChHHHHHHHHHHHHhc-CCeEEEEEccCCHHHHHHHHH
Confidence 4556678899999999999998887765443 237777776555554444433
No 495
>PRK13766 Hef nuclease; Provisional
Probab=43.26 E-value=4.6e+02 Score=34.60 Aligned_cols=93 Identities=14% Similarity=0.250 Sum_probs=55.8
Q ss_pred hhhHHHHHHHHHHH-HHHcCCeEEEEecchhHHHHHHHHHh----hCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEE
Q 000883 606 SSGKLQLLDKMMVK-LKEQGHRVLIYSQFQHMLDLLEDYLT----FKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCF 680 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~-l~~~g~KVLIFsq~~~~ldiL~~~L~----~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~ 680 (1238)
.+||.....-++.. +...+.++||.+............+. ..+..+..++|.++..+|..+... .. ++
T Consensus 39 G~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~~-----~~--ii 111 (773)
T PRK13766 39 GLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWEK-----AK--VI 111 (773)
T ss_pred CccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHhC-----CC--EE
Confidence 47888744333332 34567899999998766644444443 333478889999998887655432 12 34
Q ss_pred Eeecccc-----ccccCcCCCCEEEEEcCC
Q 000883 681 LLSTRAG-----GLGINLATADTVIIYDSD 705 (1238)
Q Consensus 681 LlStrag-----g~GINL~~Ad~VIi~D~d 705 (1238)
+.+.+.. ..-+++...+.||+-+-.
T Consensus 112 v~T~~~l~~~l~~~~~~~~~~~liVvDEaH 141 (773)
T PRK13766 112 VATPQVIENDLIAGRISLEDVSLLIFDEAH 141 (773)
T ss_pred EECHHHHHHHHHcCCCChhhCcEEEEECCc
Confidence 4444332 223556667777766544
No 496
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=43.09 E-value=1.1e+02 Score=43.71 Aligned_cols=61 Identities=18% Similarity=0.153 Sum_probs=41.8
Q ss_pred CCCcHHHHHHHHHHHHhhcCCCceEEEcCCCChHHHHHHHHHHHHhh--C-CCCCeEEEeCCccHH
Q 000883 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFG--E-RISPHLVVAPLSTLR 346 (1238)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~--~-~~~p~LIVvP~sll~ 346 (1238)
..|-+-|.+++..+.. ...+-.+|.--.|+|||.+.-+++..+.. . ....++.++|..--.
T Consensus 966 ~~Lt~~Q~~Av~~il~--s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAA 1029 (1747)
T PRK13709 966 EGLTSGQRAATRMILE--STDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAV 1029 (1747)
T ss_pred CCCCHHHHHHHHHHHh--CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHH
Confidence 4689999999987632 23456789999999999886665555432 2 223577789976443
No 497
>PRK10689 transcription-repair coupling factor; Provisional
Probab=42.75 E-value=1.2e+02 Score=41.73 Aligned_cols=96 Identities=10% Similarity=0.038 Sum_probs=65.2
Q ss_pred hhhHHHHHHHHHHHHHHcCCeEEEEecchhHHHHHHHHHh----hCCCcEEEEeCCCCHHHHHHHHHHHhcCCCCceEEE
Q 000883 606 SSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLT----FKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFL 681 (1238)
Q Consensus 606 ~S~Kl~~L~klL~~l~~~g~KVLIFsq~~~~ldiL~~~L~----~~g~~~~ridG~~~~~~R~~~I~~Fn~~~s~~~v~L 681 (1238)
.+||.......+-.....|.+|+|.+..+.....+.+.+. ..++.+..+.|..+..++..++.....+..+ ++
T Consensus 631 GsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~d---IV 707 (1147)
T PRK10689 631 GFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKID---IL 707 (1147)
T ss_pred CcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCC---EE
Confidence 5778765444333344578999999998877665555443 3356778899999999999998888755444 45
Q ss_pred eecc-ccccccCcCCCCEEEEEcC
Q 000883 682 LSTR-AGGLGINLATADTVIIYDS 704 (1238)
Q Consensus 682 lStr-agg~GINL~~Ad~VIi~D~ 704 (1238)
++|. .....+++.....||+=+-
T Consensus 708 VgTp~lL~~~v~~~~L~lLVIDEa 731 (1147)
T PRK10689 708 IGTHKLLQSDVKWKDLGLLIVDEE 731 (1147)
T ss_pred EECHHHHhCCCCHhhCCEEEEech
Confidence 5564 3444567777777776443
No 498
>TIGR00682 lpxK tetraacyldisaccharide 4'-kinase. Also called lipid-A 4'-kinase. This essential gene encodes an enzyme in the pathway of lipid A biosynthesis in Gram-negative organisms. A single copy of this protein is found in Gram-negative bacteria. PSI-BLAST converges on this set of apparent orthologs without identifying any other homologs.
Probab=42.67 E-value=1.2e+02 Score=35.36 Aligned_cols=59 Identities=17% Similarity=0.070 Sum_probs=33.1
Q ss_pred CCChHHHHHHHHHHHHhhCCC--------------CCeEEEeCCccHHHHHHHHHHHcCCCcEEEEEcChhHH
Q 000883 313 MGLGKTIQSIAFLASLFGERI--------------SPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQAR 371 (1238)
Q Consensus 313 mGlGKTiqaia~l~~l~~~~~--------------~p~LIVvP~sll~qW~~E~~~~~p~l~vv~~~g~~~~r 371 (1238)
=|+|||=.++.++..+...+. ++..+|.+.+.-..--+|-...+-...+.++.|....+
T Consensus 39 GGTGKTP~v~~La~~l~~~G~~~~IlSRGYg~~~~~~~~~v~~~~~~~~~GDEp~lla~~~~~~V~V~~dR~~ 111 (311)
T TIGR00682 39 GGTGKTPVVVWLAELLKDRGLRVGVLSRGYGSKTKKYTLVGSKKHTASEVGDEPVLLAKYLHATVVASKDRKD 111 (311)
T ss_pred CCcChHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCeeeeCCCCChHHcCcHHHHhhhhcCCcEEEeChHHH
Confidence 489999999999998875431 13466666665433334432222122344555555443
No 499
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=42.61 E-value=96 Score=37.16 Aligned_cols=50 Identities=16% Similarity=0.216 Sum_probs=40.1
Q ss_pred CceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeCCccHHHHHHHHHHHc
Q 000883 305 THVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPLSTLRNWEREFATWA 356 (1238)
Q Consensus 305 ~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~sll~qW~~E~~~~~ 356 (1238)
.-.++.-+.|.||+..-+-++..+.... ++|.|+-..-+.||+--..+..
T Consensus 94 s~iLIgGdPGIGKSTLLLQva~~lA~~~--~vLYVsGEES~~QiklRA~RL~ 143 (456)
T COG1066 94 SVILIGGDPGIGKSTLLLQVAARLAKRG--KVLYVSGEESLQQIKLRADRLG 143 (456)
T ss_pred cEEEEccCCCCCHHHHHHHHHHHHHhcC--cEEEEeCCcCHHHHHHHHHHhC
Confidence 3357899999999987777777766554 9999999988999988877764
No 500
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=42.55 E-value=2.8e+02 Score=33.31 Aligned_cols=46 Identities=13% Similarity=0.208 Sum_probs=29.9
Q ss_pred CCceEEEcCCCChHHHHHHHHHHHHhhCCCCCeEEEeC-C---ccHHHHHH
Q 000883 304 QTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAP-L---STLRNWER 350 (1238)
Q Consensus 304 ~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP-~---sll~qW~~ 350 (1238)
+...+|+-..|.|||.++..++..+...+. ++.+|+- + ..+.||..
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~-~V~lItaDtyR~gAveQLk~ 255 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNR-TVGFITTDTFRSGAVEQFQG 255 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcCC-eEEEEeCCccCccHHHHHHH
Confidence 444568889999999998888877655543 4444443 2 23556654
Done!