Query 000542
Match_columns 1433
No_of_seqs 338 out of 2208
Neff 6.5
Searched_HMMs 46136
Date Mon Apr 1 18:41:01 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000542.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000542hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1002 Nucleotide excision re 100.0 4E-102 8E-107 880.4 34.7 572 656-1432 175-790 (791)
2 KOG4439 RNA polymerase II tran 100.0 8.4E-87 1.8E-91 783.2 39.7 550 654-1433 313-901 (901)
3 KOG0385 Chromatin remodeling c 100.0 9.4E-84 2E-88 763.7 37.4 459 658-1413 159-623 (971)
4 KOG0387 Transcription-coupled 100.0 1.1E-81 2.4E-86 750.7 38.3 474 657-1433 197-699 (923)
5 KOG0384 Chromodomain-helicase 100.0 1.4E-81 2.9E-86 775.5 33.0 601 509-1431 241-856 (1373)
6 KOG0392 SNF2 family DNA-depend 100.0 3.4E-80 7.4E-85 757.7 36.2 505 663-1432 972-1495(1549)
7 KOG1001 Helicase-like transcri 100.0 9.1E-81 2E-85 772.7 30.4 556 649-1412 117-673 (674)
8 PLN03142 Probable chromatin-re 100.0 2E-78 4.3E-83 777.5 47.4 473 659-1432 163-641 (1033)
9 KOG0389 SNF2 family DNA-depend 100.0 3.2E-79 7E-84 728.3 34.7 495 665-1414 398-913 (941)
10 KOG0391 SNF2 family DNA-depend 100.0 1.4E-76 3.1E-81 714.9 34.6 581 658-1433 607-1429(1958)
11 KOG0388 SNF2 family DNA-depend 100.0 5.7E-74 1.2E-78 669.5 32.8 544 660-1414 561-1179(1185)
12 KOG0390 DNA repair protein, SN 100.0 9.9E-66 2.2E-70 633.2 39.1 494 659-1432 231-748 (776)
13 KOG0386 Chromatin remodeling c 100.0 1.9E-67 4.1E-72 640.0 19.3 460 656-1410 384-859 (1157)
14 KOG1015 Transcription regulato 100.0 5.1E-61 1.1E-65 573.1 32.4 580 663-1432 665-1317(1567)
15 COG0553 HepA Superfamily II DN 100.0 2.3E-60 5E-65 625.6 35.4 495 661-1432 333-864 (866)
16 KOG1016 Predicted DNA helicase 100.0 1.2E-53 2.6E-58 501.6 25.3 579 663-1432 251-889 (1387)
17 KOG1000 Chromatin remodeling p 100.0 1.6E-52 3.5E-57 478.2 32.0 418 663-1409 195-623 (689)
18 PRK04914 ATP-dependent helicas 100.0 4.6E-52 9.9E-57 533.4 34.8 420 664-1412 150-628 (956)
19 KOG0298 DEAD box-containing he 100.0 4.1E-50 8.8E-55 499.1 17.9 258 776-1078 419-691 (1394)
20 PF00176 SNF2_N: SNF2 family N 100.0 1.2E-42 2.6E-47 401.4 17.6 291 670-1078 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 2.1E-34 4.4E-39 359.9 36.2 115 1277-1397 495-615 (732)
22 KOG0383 Predicted helicase [Ge 100.0 6.8E-37 1.5E-41 375.7 8.7 398 665-1343 294-696 (696)
23 PRK13766 Hef nuclease; Provisi 100.0 2.7E-29 5.8E-34 327.6 40.1 125 1277-1406 364-496 (773)
24 COG1111 MPH1 ERCC4-like helica 99.9 1.2E-23 2.7E-28 245.9 35.0 456 665-1406 14-498 (542)
25 COG1061 SSL2 DNA or RNA helica 99.9 1.1E-22 2.4E-27 248.2 33.1 121 1277-1400 282-405 (442)
26 PHA02558 uvsW UvsW helicase; P 99.9 1.8E-22 3.8E-27 250.7 33.7 114 1277-1391 343-457 (501)
27 KOG1123 RNA polymerase II tran 99.9 1.6E-20 3.4E-25 216.5 20.6 112 1277-1394 542-658 (776)
28 PTZ00110 helicase; Provisional 99.8 5.1E-18 1.1E-22 212.7 31.3 109 1277-1389 376-484 (545)
29 PRK11776 ATP-dependent RNA hel 99.8 9.7E-18 2.1E-22 206.9 30.0 109 1277-1389 241-349 (460)
30 PRK11192 ATP-dependent RNA hel 99.8 1.5E-17 3.2E-22 203.8 29.0 104 1277-1382 244-347 (434)
31 KOG0354 DEAD-box like helicase 99.8 7.2E-17 1.6E-21 199.5 33.9 126 1277-1409 412-548 (746)
32 TIGR00614 recQ_fam ATP-depende 99.8 1.8E-17 3.9E-22 204.8 27.8 105 1277-1383 225-329 (470)
33 PLN00206 DEAD-box ATP-dependen 99.8 3.5E-17 7.7E-22 204.3 29.8 107 1279-1389 368-475 (518)
34 PRK04837 ATP-dependent RNA hel 99.8 3.7E-17 8E-22 199.7 28.5 107 1278-1388 255-361 (423)
35 PRK10590 ATP-dependent RNA hel 99.8 4.5E-17 9.8E-22 200.7 28.1 108 1278-1389 245-352 (456)
36 PRK04537 ATP-dependent RNA hel 99.8 9.8E-17 2.1E-21 202.0 29.4 108 1277-1388 256-363 (572)
37 PRK01297 ATP-dependent RNA hel 99.8 1.4E-16 2.9E-21 197.5 28.7 109 1277-1389 334-442 (475)
38 PTZ00424 helicase 45; Provisio 99.8 1.6E-16 3.6E-21 192.4 28.6 108 1278-1389 267-374 (401)
39 PRK11634 ATP-dependent RNA hel 99.8 4.6E-16 9.9E-21 197.2 32.8 101 1278-1380 245-345 (629)
40 PRK11057 ATP-dependent DNA hel 99.7 1.8E-16 3.8E-21 201.4 28.6 101 1277-1379 235-335 (607)
41 TIGR01389 recQ ATP-dependent D 99.7 1.7E-16 3.7E-21 201.6 28.2 102 1278-1381 224-325 (591)
42 TIGR00643 recG ATP-dependent D 99.7 1.6E-15 3.4E-20 193.6 31.3 79 1301-1381 481-560 (630)
43 PRK11448 hsdR type I restricti 99.7 6.8E-16 1.5E-20 204.5 28.4 106 1278-1386 698-815 (1123)
44 TIGR00580 mfd transcription-re 99.7 2.7E-15 5.8E-20 195.7 29.5 108 1277-1388 659-769 (926)
45 PRK10689 transcription-repair 99.7 3.6E-15 7.8E-20 198.3 29.4 102 1278-1381 809-913 (1147)
46 PRK10917 ATP-dependent DNA hel 99.7 5.5E-15 1.2E-19 189.9 29.7 77 1302-1380 505-582 (681)
47 PLN03137 ATP-dependent DNA hel 99.7 4.2E-15 9.2E-20 191.3 26.8 104 1278-1383 680-783 (1195)
48 KOG0331 ATP-dependent RNA heli 99.6 2E-14 4.4E-19 173.5 24.5 101 1277-1379 340-440 (519)
49 TIGR03817 DECH_helic helicase/ 99.6 1.2E-13 2.5E-18 178.7 29.1 116 1278-1397 271-394 (742)
50 PRK13767 ATP-dependent helicas 99.6 3.9E-13 8.5E-18 177.0 29.8 105 1278-1384 284-395 (876)
51 PRK02362 ski2-like helicase; P 99.6 3.8E-13 8.3E-18 175.0 27.5 81 1304-1386 305-394 (737)
52 TIGR00348 hsdR type I site-spe 99.5 8.5E-13 1.8E-17 169.2 27.5 108 1278-1387 514-649 (667)
53 COG0513 SrmB Superfamily II DN 99.5 2.9E-12 6.3E-17 159.8 28.7 119 1279-1402 274-392 (513)
54 PRK01172 ski2-like helicase; P 99.5 2.5E-12 5.3E-17 166.2 28.9 72 1305-1379 288-368 (674)
55 cd00079 HELICc Helicase superf 99.5 6.9E-14 1.5E-18 141.4 11.5 105 1277-1383 27-131 (131)
56 TIGR01587 cas3_core CRISPR-ass 99.5 2E-12 4.3E-17 154.6 23.8 108 1277-1389 221-338 (358)
57 PRK00254 ski2-like helicase; P 99.5 5.4E-12 1.2E-16 164.0 28.8 84 1304-1389 297-388 (720)
58 TIGR03714 secA2 accessory Sec 99.4 3.2E-12 6.8E-17 161.8 20.6 99 1277-1380 423-530 (762)
59 KOG0330 ATP-dependent RNA heli 99.4 7E-12 1.5E-16 143.2 20.9 123 1277-1403 299-423 (476)
60 KOG0328 Predicted ATP-dependen 99.4 5.8E-12 1.2E-16 138.3 19.1 109 1279-1391 267-375 (400)
61 COG1200 RecG RecG-like helicas 99.4 1.6E-11 3.4E-16 150.8 23.7 74 1302-1377 507-581 (677)
62 PRK09200 preprotein translocas 99.4 5.7E-11 1.2E-15 151.8 29.6 113 1277-1398 427-547 (790)
63 PF04851 ResIII: Type III rest 99.4 1E-12 2.2E-17 140.7 10.2 167 665-945 2-183 (184)
64 TIGR02621 cas3_GSU0051 CRISPR- 99.4 1.4E-10 3.1E-15 148.3 31.1 103 1277-1385 271-390 (844)
65 PF00271 Helicase_C: Helicase 99.4 4.4E-13 9.6E-18 124.6 6.3 78 1296-1375 1-78 (78)
66 PRK12898 secA preprotein trans 99.4 3.3E-11 7.1E-16 151.1 24.1 114 1277-1399 472-593 (656)
67 PRK05580 primosome assembly pr 99.3 9.4E-11 2E-15 150.7 26.4 96 1290-1387 438-549 (679)
68 smart00487 DEXDc DEAD-like hel 99.3 8.1E-12 1.7E-16 133.9 13.1 164 665-950 7-176 (201)
69 TIGR00963 secA preprotein tran 99.3 9.5E-12 2.1E-16 156.6 14.7 101 1277-1381 404-511 (745)
70 COG4096 HsdR Type I site-speci 99.3 1.3E-10 2.7E-15 144.4 22.8 107 1278-1386 426-545 (875)
71 PHA02653 RNA helicase NPH-II; 99.3 1.3E-09 2.8E-14 138.8 31.4 110 1278-1393 395-518 (675)
72 KOG0350 DEAD-box ATP-dependent 99.3 2.2E-10 4.7E-15 134.6 22.3 108 1277-1388 428-539 (620)
73 KOG0333 U5 snRNP-like RNA heli 99.3 2.3E-10 5E-15 134.9 21.3 100 1278-1379 517-616 (673)
74 PRK09401 reverse gyrase; Revie 99.3 6.2E-10 1.3E-14 149.3 27.8 90 1279-1374 329-431 (1176)
75 TIGR03158 cas3_cyano CRISPR-as 99.3 5.8E-10 1.3E-14 133.6 24.2 85 1277-1372 271-357 (357)
76 cd00046 DEXDc DEAD-like helica 99.2 4.6E-11 1E-15 120.5 12.0 137 690-944 2-144 (144)
77 smart00490 HELICc helicase sup 99.2 1.4E-11 3E-16 114.0 7.4 81 1293-1375 2-82 (82)
78 KOG0335 ATP-dependent RNA heli 99.2 5.5E-10 1.2E-14 133.5 22.6 122 1277-1400 336-457 (482)
79 KOG4284 DEAD box protein [Tran 99.2 4.8E-10 1E-14 134.2 21.0 109 1278-1389 272-380 (980)
80 COG1201 Lhr Lhr-like helicases 99.2 2E-09 4.3E-14 137.3 26.8 120 1279-1404 254-375 (814)
81 TIGR00595 priA primosomal prot 99.2 1.1E-09 2.3E-14 136.5 23.1 95 1292-1388 272-382 (505)
82 PRK09751 putative ATP-dependen 99.2 1.7E-09 3.7E-14 145.8 25.9 95 1278-1374 244-371 (1490)
83 KOG0336 ATP-dependent RNA heli 99.2 1.6E-09 3.5E-14 124.1 20.3 110 1277-1389 464-573 (629)
84 PRK13104 secA preprotein trans 99.1 3.4E-09 7.3E-14 135.6 22.8 113 1277-1398 443-593 (896)
85 TIGR01054 rgy reverse gyrase. 99.1 3.4E-09 7.4E-14 142.5 24.1 75 1279-1358 327-408 (1171)
86 COG0514 RecQ Superfamily II DN 99.1 4.6E-09 9.9E-14 129.9 22.9 103 1278-1382 230-332 (590)
87 COG1205 Distinct helicase fami 99.1 3.2E-09 7E-14 138.6 22.7 119 1277-1399 305-432 (851)
88 TIGR01970 DEAH_box_HrpB ATP-de 99.1 8.5E-09 1.9E-13 134.2 25.9 107 1279-1390 210-337 (819)
89 KOG0343 RNA Helicase [RNA proc 99.1 8.8E-09 1.9E-13 122.2 22.1 122 1277-1403 312-435 (758)
90 PRK12906 secA preprotein trans 99.1 4.9E-09 1.1E-13 133.6 20.7 101 1277-1381 439-547 (796)
91 KOG0342 ATP-dependent RNA heli 99.1 1.5E-08 3.2E-13 119.7 22.9 99 1279-1379 331-429 (543)
92 KOG0348 ATP-dependent RNA heli 99.0 3.1E-08 6.7E-13 117.4 24.6 122 1277-1404 424-567 (708)
93 COG1204 Superfamily II helicas 99.0 8.6E-09 1.9E-13 133.0 22.0 81 1292-1377 307-396 (766)
94 COG1202 Superfamily II helicas 99.0 8.3E-09 1.8E-13 122.9 19.6 119 1278-1399 440-572 (830)
95 PRK14701 reverse gyrase; Provi 99.0 3E-08 6.5E-13 136.2 27.5 94 1278-1377 330-446 (1638)
96 PRK09694 helicase Cas3; Provis 99.0 1.2E-07 2.7E-12 123.7 30.7 98 1277-1377 559-665 (878)
97 PRK11664 ATP-dependent RNA hel 99.0 3.8E-08 8.2E-13 128.5 25.6 109 1278-1391 212-341 (812)
98 PRK12904 preprotein translocas 99.0 2.7E-08 5.8E-13 127.4 22.2 112 1277-1397 429-578 (830)
99 KOG0339 ATP-dependent RNA heli 99.0 4.4E-08 9.6E-13 115.3 21.7 111 1278-1392 468-578 (731)
100 PRK13107 preprotein translocas 98.9 5.4E-08 1.2E-12 124.5 23.6 113 1277-1398 448-597 (908)
101 KOG0338 ATP-dependent RNA heli 98.9 1.7E-08 3.6E-13 119.0 17.5 97 1279-1377 427-523 (691)
102 COG1197 Mfd Transcription-repa 98.9 1.6E-07 3.5E-12 121.9 27.8 106 1279-1388 804-912 (1139)
103 COG4889 Predicted helicase [Ge 98.9 3.7E-08 8E-13 121.3 19.0 76 1302-1378 499-576 (1518)
104 KOG0345 ATP-dependent RNA heli 98.9 2.5E-07 5.4E-12 108.9 23.7 104 1277-1382 254-359 (567)
105 cd00268 DEADc DEAD-box helicas 98.8 2.6E-08 5.6E-13 109.4 12.9 109 666-838 21-132 (203)
106 PRK12900 secA preprotein trans 98.8 1.5E-06 3.2E-11 112.1 28.7 114 1277-1399 597-718 (1025)
107 KOG0952 DNA/RNA helicase MER3/ 98.7 8.7E-07 1.9E-11 112.4 22.1 83 1308-1392 402-494 (1230)
108 KOG0332 ATP-dependent RNA heli 98.6 2.3E-07 5E-12 106.4 12.5 110 1279-1392 331-447 (477)
109 PF00270 DEAD: DEAD/DEAH box h 98.6 2.4E-07 5.1E-12 98.3 10.5 158 669-951 2-168 (169)
110 KOG0341 DEAD-box protein abstr 98.6 1.8E-07 3.8E-12 107.1 9.8 125 1277-1405 420-548 (610)
111 TIGR01967 DEAH_box_HrpA ATP-de 98.6 6E-06 1.3E-10 110.9 24.9 108 1278-1392 279-407 (1283)
112 KOG0334 RNA helicase [RNA proc 98.5 2E-06 4.4E-11 110.1 19.2 108 1277-1388 612-719 (997)
113 PRK11131 ATP-dependent RNA hel 98.5 4.5E-06 9.8E-11 111.7 23.1 109 1277-1392 285-414 (1294)
114 PF13872 AAA_34: P-loop contai 98.5 2.4E-06 5.2E-11 98.1 17.1 245 667-1036 38-302 (303)
115 PRK12326 preprotein translocas 98.5 1.4E-05 3E-10 100.8 23.9 115 1277-1400 426-555 (764)
116 TIGR00631 uvrb excinuclease AB 98.5 1.1E-06 2.5E-11 112.5 13.9 116 1277-1397 441-563 (655)
117 COG1203 CRISPR-associated heli 98.4 2.3E-05 5E-10 102.5 25.9 126 1277-1406 439-569 (733)
118 KOG1513 Nuclear helicase MOP-3 98.4 5.3E-05 1.1E-09 93.6 26.7 86 1322-1409 851-944 (1300)
119 PF11496 HDA2-3: Class II hist 98.4 7.6E-06 1.7E-10 95.3 18.3 123 1277-1400 116-256 (297)
120 PRK05298 excinuclease ABC subu 98.4 4.3E-06 9.3E-11 107.8 15.9 107 1277-1388 445-556 (652)
121 KOG0326 ATP-dependent RNA heli 98.3 4.6E-07 1E-11 101.9 4.5 98 1279-1378 323-420 (459)
122 PRK12899 secA preprotein trans 98.3 0.00022 4.7E-09 92.5 28.8 112 1277-1398 567-687 (970)
123 COG4098 comFA Superfamily II D 98.3 0.00069 1.5E-08 78.0 29.2 95 1277-1375 304-402 (441)
124 COG0556 UvrB Helicase subunit 98.2 0.0018 4E-08 78.4 32.8 123 1277-1402 445-572 (663)
125 PF13871 Helicase_C_4: Helicas 98.2 1.7E-06 3.8E-11 98.9 7.2 95 1319-1415 52-154 (278)
126 KOG0340 ATP-dependent RNA heli 98.2 6.3E-06 1.4E-10 94.5 9.8 101 1277-1379 253-353 (442)
127 TIGR00596 rad1 DNA repair prot 98.2 0.00017 3.8E-09 94.1 24.0 111 907-1052 32-148 (814)
128 PRK13103 secA preprotein trans 98.2 7.8E-05 1.7E-09 96.3 20.3 112 1277-1398 448-597 (913)
129 PRK12903 secA preprotein trans 98.1 0.00026 5.5E-09 90.9 23.3 113 1277-1398 425-545 (925)
130 COG1198 PriA Primosomal protei 98.0 0.00028 6E-09 90.6 22.2 96 1292-1389 494-605 (730)
131 KOG0344 ATP-dependent RNA heli 98.0 2.4E-05 5.2E-10 95.2 11.6 103 1279-1383 388-492 (593)
132 KOG0327 Translation initiation 98.0 9.5E-06 2E-10 94.4 7.6 107 1279-1389 264-370 (397)
133 KOG0947 Cytoplasmic exosomal R 97.9 0.00029 6.2E-09 89.4 16.9 81 1307-1390 635-723 (1248)
134 COG1110 Reverse gyrase [DNA re 97.8 0.00038 8.3E-09 89.4 17.9 75 1278-1358 335-416 (1187)
135 KOG0347 RNA helicase [RNA proc 97.5 0.00012 2.5E-09 88.3 6.0 130 1277-1409 462-611 (731)
136 KOG0949 Predicted helicase, DE 97.5 0.015 3.3E-07 74.6 23.9 69 1308-1378 968-1037(1330)
137 KOG0951 RNA helicase BRR2, DEA 97.4 0.009 1.9E-07 78.3 20.8 70 1303-1375 608-688 (1674)
138 KOG0823 Predicted E3 ubiquitin 97.4 6.2E-05 1.3E-09 82.5 1.5 57 1111-1167 45-101 (230)
139 KOG0349 Putative DEAD-box RNA 97.4 0.0004 8.7E-09 81.2 7.9 96 1277-1374 504-602 (725)
140 KOG0948 Nuclear exosomal RNA h 97.4 0.0038 8.3E-08 77.9 16.5 114 1277-1393 382-542 (1041)
141 KOG0353 ATP-dependent DNA heli 97.3 0.0052 1.1E-07 71.0 16.2 88 1277-1366 316-403 (695)
142 KOG0346 RNA helicase [RNA proc 97.3 0.00056 1.2E-08 80.8 7.9 109 1278-1389 268-410 (569)
143 PRK12901 secA preprotein trans 97.3 0.048 1E-06 71.8 25.8 112 1277-1397 627-746 (1112)
144 KOG0351 ATP-dependent DNA heli 97.3 0.00052 1.1E-08 90.4 8.3 105 1277-1383 484-588 (941)
145 PRK15483 type III restriction- 97.2 0.0027 5.9E-08 83.4 14.0 37 909-946 204-240 (986)
146 CHL00122 secA preprotein trans 97.2 0.01 2.2E-07 77.0 18.0 66 1277-1345 423-489 (870)
147 KOG0953 Mitochondrial RNA heli 97.1 0.0014 3E-08 79.5 9.3 106 1277-1386 357-474 (700)
148 PF07652 Flavi_DEAD: Flaviviru 97.1 0.0033 7.2E-08 65.4 10.7 43 903-946 92-138 (148)
149 PLN03208 E3 ubiquitin-protein 97.1 0.00025 5.4E-09 76.6 2.6 52 1113-1166 18-84 (193)
150 PF13923 zf-C3HC4_2: Zinc fing 97.0 0.00029 6.3E-09 57.0 1.7 37 1116-1153 1-38 (39)
151 smart00504 Ubox Modified RING 96.9 0.0004 8.6E-09 62.0 1.9 47 1115-1164 3-49 (63)
152 COG0610 Type I site-specific r 96.9 0.0041 8.9E-08 83.6 11.9 69 1316-1386 579-650 (962)
153 KOG0978 E3 ubiquitin ligase in 96.9 0.00033 7.1E-09 88.2 1.5 48 1115-1164 645-692 (698)
154 KOG0317 Predicted E3 ubiquitin 96.9 0.00041 8.9E-09 78.2 1.8 50 1114-1166 240-289 (293)
155 KOG0320 Predicted E3 ubiquitin 96.9 0.00042 9.1E-09 73.0 1.7 52 1112-1166 130-183 (187)
156 PRK12902 secA preprotein trans 96.8 0.079 1.7E-06 69.2 21.5 64 1277-1343 438-502 (939)
157 PF15227 zf-C3HC4_4: zinc fing 96.8 0.0007 1.5E-08 55.9 2.1 33 1116-1148 1-33 (42)
158 KOG0337 ATP-dependent RNA heli 96.4 0.004 8.7E-08 73.5 5.4 99 1278-1378 261-359 (529)
159 PF00097 zf-C3HC4: Zinc finger 96.4 0.0019 4.2E-08 52.6 2.0 37 1116-1152 1-39 (41)
160 KOG0352 ATP-dependent DNA heli 96.1 0.011 2.4E-07 69.8 7.3 103 1279-1383 256-358 (641)
161 COG4581 Superfamily II RNA hel 96.1 0.028 6E-07 74.6 11.5 169 658-959 111-283 (1041)
162 PF13445 zf-RING_UBOX: RING-ty 96.1 0.0021 4.6E-08 53.3 0.9 36 1116-1152 1-43 (43)
163 PF13920 zf-C3HC4_3: Zinc fing 96.0 0.0042 9.1E-08 53.1 2.5 44 1114-1160 3-47 (50)
164 PF13086 AAA_11: AAA domain; P 96.0 0.12 2.7E-06 57.2 14.8 38 667-711 2-40 (236)
165 KOG2164 Predicted E3 ubiquitin 95.9 0.0041 8.8E-08 75.3 2.4 53 1113-1165 186-240 (513)
166 TIGR00599 rad18 DNA repair pro 95.8 0.0045 9.7E-08 74.6 2.4 48 1113-1163 26-73 (397)
167 smart00184 RING Ring finger. E 95.7 0.0064 1.4E-07 47.8 2.1 37 1116-1152 1-37 (39)
168 PHA02929 N1R/p28-like protein; 95.7 0.01 2.2E-07 66.9 4.3 46 1113-1161 174-227 (238)
169 TIGR01407 dinG_rel DnaQ family 95.2 0.11 2.4E-06 69.8 12.4 101 1277-1382 673-809 (850)
170 COG5574 PEX10 RING-finger-cont 95.0 0.01 2.2E-07 66.5 1.7 49 1114-1164 216-265 (271)
171 PF04564 U-box: U-box domain; 94.9 0.012 2.7E-07 54.5 1.7 40 1114-1153 5-44 (73)
172 cd00162 RING RING-finger (Real 94.7 0.02 4.3E-07 46.6 2.1 39 1115-1153 1-40 (45)
173 KOG1802 RNA helicase nonsense 94.5 0.098 2.1E-06 65.2 8.2 81 666-818 410-491 (935)
174 PF13639 zf-RING_2: Ring finge 94.4 0.023 4.9E-07 47.2 1.9 38 1115-1153 2-42 (44)
175 PF14634 zf-RING_5: zinc-RING 94.4 0.025 5.3E-07 47.2 2.0 37 1116-1153 2-41 (44)
176 TIGR03117 cas_csf4 CRISPR-asso 94.4 0.22 4.8E-06 64.1 11.4 81 1277-1362 470-564 (636)
177 TIGR00570 cdk7 CDK-activating 94.3 0.028 6.1E-07 65.3 3.0 49 1114-1164 4-57 (309)
178 PHA02926 zinc finger-like prot 94.3 0.024 5.2E-07 62.2 2.3 47 1113-1161 170-230 (242)
179 COG0653 SecA Preprotein transl 94.3 1 2.3E-05 58.9 17.1 96 1277-1376 428-534 (822)
180 COG3587 Restriction endonuclea 93.7 0.14 3.1E-06 65.7 7.7 35 909-944 208-242 (985)
181 PF11789 zf-Nse: Zinc-finger o 93.7 0.031 6.8E-07 49.3 1.4 45 1113-1157 11-57 (57)
182 KOG0287 Postreplication repair 93.2 0.024 5.2E-07 64.9 -0.1 45 1114-1161 24-68 (442)
183 PRK10536 hypothetical protein; 93.2 0.44 9.6E-06 54.7 9.9 39 908-948 178-216 (262)
184 PF02562 PhoH: PhoH-like prote 93.2 0.24 5.1E-06 55.2 7.5 43 906-950 119-161 (205)
185 PF14835 zf-RING_6: zf-RING of 92.6 0.088 1.9E-06 47.1 2.5 43 1114-1161 8-51 (65)
186 COG5432 RAD18 RING-finger-cont 92.4 0.058 1.2E-06 60.7 1.5 38 1114-1152 26-63 (391)
187 PF13307 Helicase_C_2: Helicas 92.4 0.53 1.2E-05 50.7 8.8 99 1277-1381 8-144 (167)
188 TIGR01407 dinG_rel DnaQ family 91.3 0.57 1.2E-05 63.1 9.3 42 665-709 244-285 (850)
189 COG1199 DinG Rad3-related DNA 91.1 0.96 2.1E-05 59.2 10.8 102 1277-1382 478-612 (654)
190 KOG0824 Predicted E3 ubiquitin 90.7 0.17 3.6E-06 58.0 2.8 56 1113-1170 7-62 (324)
191 KOG1132 Helicase of the DEAD s 90.5 1.1 2.4E-05 58.2 10.1 43 666-711 21-63 (945)
192 smart00492 HELICc3 helicase su 90.4 1.2 2.6E-05 46.7 8.8 71 1290-1362 3-83 (141)
193 TIGR00376 DNA helicase, putati 90.0 3.7 8.1E-05 53.6 14.5 41 665-711 156-196 (637)
194 KOG1785 Tyrosine kinase negati 89.7 0.19 4.2E-06 58.8 2.3 48 1109-1156 365-413 (563)
195 PRK08074 bifunctional ATP-depe 89.7 1.7 3.6E-05 59.2 11.5 104 1277-1382 751-888 (928)
196 KOG0311 Predicted E3 ubiquitin 89.6 0.046 1E-06 63.6 -2.8 47 1114-1162 44-91 (381)
197 KOG4172 Predicted E3 ubiquitin 89.4 0.13 2.7E-06 44.3 0.4 46 1113-1160 7-53 (62)
198 COG5220 TFB3 Cdk activating ki 89.3 0.11 2.5E-06 57.0 0.1 51 1114-1164 11-67 (314)
199 PRK07246 bifunctional ATP-depe 89.2 2.3 5E-05 57.1 12.0 100 1277-1381 646-777 (820)
200 KOG2879 Predicted E3 ubiquitin 88.6 0.26 5.6E-06 55.8 2.2 47 1111-1159 237-285 (298)
201 COG5222 Uncharacterized conser 88.5 0.21 4.5E-06 56.5 1.4 43 1114-1158 275-318 (427)
202 PF13604 AAA_30: AAA domain; P 88.4 4 8.7E-05 45.2 11.5 39 907-947 94-133 (196)
203 KOG0347 RNA helicase [RNA proc 88.0 1 2.3E-05 55.6 6.9 57 780-837 266-325 (731)
204 PRK14873 primosome assembly pr 87.7 2.4 5.1E-05 55.5 10.4 57 778-837 189-252 (665)
205 COG5152 Uncharacterized conser 87.3 0.25 5.4E-06 53.0 1.0 35 1113-1147 196-230 (259)
206 TIGR00604 rad3 DNA repair heli 87.0 2.2 4.7E-05 56.5 9.7 102 1277-1380 521-667 (705)
207 PRK11747 dinG ATP-dependent DN 86.3 4.3 9.2E-05 53.7 11.8 75 1280-1359 536-616 (697)
208 PF07517 SecA_DEAD: SecA DEAD- 85.9 2 4.3E-05 49.9 7.5 101 664-838 75-179 (266)
209 KOG2177 Predicted E3 ubiquitin 85.2 0.34 7.4E-06 55.8 0.9 42 1113-1157 13-54 (386)
210 KOG4150 Predicted ATP-dependen 84.9 2 4.3E-05 53.1 7.0 98 1277-1376 524-629 (1034)
211 PRK10875 recD exonuclease V su 84.8 5.3 0.00012 51.8 11.4 42 905-948 264-305 (615)
212 COG5540 RING-finger-containing 84.6 0.43 9.4E-06 54.5 1.3 45 1114-1160 324-371 (374)
213 TIGR01447 recD exodeoxyribonuc 83.5 6.9 0.00015 50.6 11.6 42 905-948 258-299 (586)
214 PRK08074 bifunctional ATP-depe 81.9 6.7 0.00015 53.6 11.2 39 665-706 256-294 (928)
215 KOG1803 DNA helicase [Replicat 81.8 4.3 9.4E-05 51.2 8.4 44 662-711 181-224 (649)
216 KOG0340 ATP-dependent RNA heli 81.4 10 0.00022 45.1 10.7 57 780-837 78-137 (442)
217 PF06862 DUF1253: Protein of u 80.9 13 0.00028 46.3 12.0 125 1277-1402 299-430 (442)
218 smart00491 HELICc2 helicase su 80.7 4.8 0.0001 42.4 7.2 70 1290-1361 3-83 (142)
219 PF02399 Herpes_ori_bp: Origin 79.5 6.8 0.00015 51.5 9.3 98 1277-1383 281-384 (824)
220 TIGR01448 recD_rel helicase, p 79.3 11 0.00024 50.0 11.6 40 906-947 416-455 (720)
221 PF09848 DUF2075: Uncharacteri 78.8 7.3 0.00016 47.1 9.0 16 905-920 82-97 (352)
222 KOG1814 Predicted E3 ubiquitin 78.7 1.3 2.9E-05 52.8 2.6 58 1105-1162 176-243 (445)
223 KOG1813 Predicted E3 ubiquitin 78.5 1.1 2.3E-05 51.6 1.6 44 1113-1159 241-284 (313)
224 PF12678 zf-rbx1: RING-H2 zinc 78.3 1.4 3E-05 41.0 2.0 39 1114-1153 20-71 (73)
225 KOG0802 E3 ubiquitin ligase [P 77.5 0.87 1.9E-05 58.2 0.7 51 1112-1165 290-345 (543)
226 PF02399 Herpes_ori_bp: Origin 77.5 14 0.00029 48.8 11.1 38 907-944 143-190 (824)
227 KOG4159 Predicted E3 ubiquitin 77.4 1.1 2.4E-05 54.5 1.5 47 1112-1161 83-129 (398)
228 PRK07246 bifunctional ATP-depe 77.4 11 0.00025 50.6 10.9 41 665-708 244-284 (820)
229 KOG3800 Predicted E3 ubiquitin 75.4 1.6 3.5E-05 50.1 1.9 48 1115-1164 2-54 (300)
230 PRK07003 DNA polymerase III su 74.8 48 0.001 44.0 14.9 44 1371-1414 751-794 (830)
231 KOG2660 Locus-specific chromos 74.6 1 2.3E-05 52.5 0.2 45 1114-1161 16-61 (331)
232 PF05876 Terminase_GpA: Phage 74.4 14 0.0003 47.6 10.2 49 658-711 8-56 (557)
233 KOG0329 ATP-dependent RNA heli 73.1 1.9 4.2E-05 48.6 1.8 45 1334-1378 302-346 (387)
234 KOG4628 Predicted E3 ubiquitin 73.0 1.8 4E-05 51.5 1.7 48 1114-1163 230-280 (348)
235 KOG0922 DEAH-box RNA helicase 72.9 14 0.0003 47.4 9.2 113 1277-1392 257-393 (674)
236 PF06733 DEAD_2: DEAD_2; Inte 72.6 2.1 4.6E-05 46.3 2.0 17 822-838 116-132 (174)
237 KOG4692 Predicted E3 ubiquitin 72.6 1.8 3.9E-05 50.4 1.5 34 1114-1147 423-456 (489)
238 KOG0922 DEAH-box RNA helicase 71.8 22 0.00048 45.7 10.6 46 906-955 163-216 (674)
239 KOG0344 ATP-dependent RNA heli 70.8 3.6 7.8E-05 51.6 3.6 36 667-709 159-194 (593)
240 PRK05707 DNA polymerase III su 70.2 46 0.00099 40.1 12.7 44 666-712 3-46 (328)
241 KOG0297 TNF receptor-associate 70.1 2.3 5E-05 52.2 1.7 46 1114-1162 22-68 (391)
242 PF14447 Prok-RING_4: Prokaryo 70.0 2.5 5.3E-05 37.1 1.4 44 1114-1162 8-51 (55)
243 COG1643 HrpA HrpA-like helicas 69.1 36 0.00078 45.8 12.3 20 691-710 68-87 (845)
244 KOG1805 DNA replication helica 68.9 32 0.00069 46.0 11.3 41 902-947 792-832 (1100)
245 PHA02533 17 large terminase pr 68.4 48 0.001 42.6 12.9 42 663-711 56-97 (534)
246 TIGR02881 spore_V_K stage V sp 65.7 1.1E+02 0.0023 35.5 14.1 19 691-709 45-63 (261)
247 PRK08769 DNA polymerase III su 64.5 1E+02 0.0022 37.0 13.9 47 665-711 3-49 (319)
248 PF13401 AAA_22: AAA domain; P 63.5 5.5 0.00012 40.2 2.7 35 908-944 89-125 (131)
249 KOG4739 Uncharacterized protei 63.4 3.3 7.1E-05 46.8 1.1 46 1114-1164 4-51 (233)
250 TIGR00631 uvrb excinuclease AB 61.1 35 0.00076 44.9 10.0 67 670-802 13-80 (655)
251 PF12340 DUF3638: Protein of u 60.0 24 0.00052 40.2 7.1 43 665-711 22-64 (229)
252 smart00488 DEXDc2 DEAD-like he 59.7 5.5 0.00012 46.9 2.2 41 667-710 9-49 (289)
253 smart00489 DEXDc3 DEAD-like he 59.7 5.5 0.00012 46.9 2.2 41 667-710 9-49 (289)
254 TIGR02562 cas3_yersinia CRISPR 57.8 1.7E+02 0.0036 40.4 15.2 44 666-709 408-452 (1110)
255 PRK14958 DNA polymerase III su 57.1 1.5E+02 0.0032 38.1 14.3 57 906-964 119-178 (509)
256 PRK14960 DNA polymerase III su 56.5 1.4E+02 0.0029 39.5 13.7 39 670-711 22-60 (702)
257 KOG0337 ATP-dependent RNA heli 56.3 16 0.00035 44.4 5.2 108 779-944 92-205 (529)
258 PRK14956 DNA polymerase III su 55.9 1.4E+02 0.0029 38.0 13.3 49 906-956 121-172 (484)
259 KOG3039 Uncharacterized conser 55.4 5.9 0.00013 44.5 1.4 33 1113-1145 43-75 (303)
260 KOG1039 Predicted E3 ubiquitin 55.0 5.9 0.00013 47.5 1.4 45 1113-1159 161-219 (344)
261 KOG0329 ATP-dependent RNA heli 54.1 30 0.00066 39.4 6.5 59 779-837 112-173 (387)
262 KOG0924 mRNA splicing factor A 52.3 25 0.00055 45.1 6.1 106 1289-1397 578-705 (1042)
263 KOG4265 Predicted E3 ubiquitin 52.0 6.3 0.00014 46.8 0.9 46 1113-1161 290-336 (349)
264 PRK14949 DNA polymerase III su 51.7 1.8E+02 0.0039 39.6 14.0 40 906-947 119-161 (944)
265 KOG1133 Helicase of the DEAD s 51.1 5.4 0.00012 50.9 0.3 82 1278-1360 629-721 (821)
266 PRK11747 dinG ATP-dependent DN 50.1 11 0.00023 50.0 2.8 42 665-706 24-67 (697)
267 KOG1734 Predicted RING-contain 48.5 6.6 0.00014 44.7 0.4 52 1114-1167 225-287 (328)
268 TIGR03117 cas_csf4 CRISPR-asso 48.5 1.1E+02 0.0024 40.1 11.4 40 778-817 47-89 (636)
269 KOG0826 Predicted E3 ubiquitin 48.5 7.4 0.00016 45.6 0.8 48 1112-1160 299-347 (357)
270 KOG2817 Predicted E3 ubiquitin 47.2 10 0.00022 45.7 1.7 46 1112-1159 333-383 (394)
271 PF13177 DNA_pol3_delta2: DNA 47.2 3.9E+02 0.0084 28.6 14.1 43 671-713 2-44 (162)
272 KOG0920 ATP-dependent RNA heli 46.8 36 0.00079 45.8 6.7 108 1277-1390 412-545 (924)
273 KOG1645 RING-finger-containing 46.8 7.6 0.00016 46.7 0.6 56 1114-1171 5-66 (463)
274 KOG1571 Predicted E3 ubiquitin 46.6 8.2 0.00018 45.9 0.8 43 1112-1160 304-346 (355)
275 KOG3039 Uncharacterized conser 46.1 9.6 0.00021 42.9 1.2 38 1114-1152 222-263 (303)
276 PRK07994 DNA polymerase III su 45.2 2.5E+02 0.0053 37.1 13.7 51 1374-1432 584-636 (647)
277 PRK14962 DNA polymerase III su 44.9 1.9E+02 0.0041 36.7 12.4 41 668-711 19-59 (472)
278 COG5243 HRD1 HRD ubiquitin lig 44.6 17 0.00037 43.1 2.9 47 1110-1159 284-343 (491)
279 KOG0950 DNA polymerase theta/e 44.1 28 0.00061 46.4 5.0 106 1305-1415 525-636 (1008)
280 KOG0346 RNA helicase [RNA proc 44.1 33 0.00071 42.1 5.2 60 780-839 96-159 (569)
281 PRK14961 DNA polymerase III su 43.5 3.3E+02 0.0071 33.2 13.9 21 691-711 41-61 (363)
282 TIGR00604 rad3 DNA repair heli 43.5 50 0.0011 43.9 7.4 43 666-711 10-52 (705)
283 KOG0951 RNA helicase BRR2, DEA 43.1 1.1E+02 0.0023 42.6 9.8 59 778-837 1187-1246(1674)
284 TIGR03420 DnaA_homol_Hda DnaA 42.9 2E+02 0.0044 31.9 11.2 38 909-946 93-134 (226)
285 KOG2932 E3 ubiquitin ligase in 42.6 12 0.00026 43.4 1.3 44 1112-1160 89-133 (389)
286 KOG0828 Predicted E3 ubiquitin 42.4 11 0.00024 46.2 1.0 44 1114-1159 572-632 (636)
287 COG1643 HrpA HrpA-like helicas 42.4 57 0.0012 44.0 7.5 112 1278-1392 259-390 (845)
288 KOG0950 DNA polymerase theta/e 41.6 63 0.0014 43.4 7.5 56 779-837 271-327 (1008)
289 KOG1812 Predicted E3 ubiquitin 41.4 14 0.00031 45.3 1.8 52 1114-1165 147-207 (384)
290 PRK08691 DNA polymerase III su 40.6 3.5E+02 0.0076 36.0 13.9 52 906-959 119-173 (709)
291 PF04641 Rtf2: Rtf2 RING-finge 40.0 19 0.00041 41.9 2.4 50 1113-1166 113-166 (260)
292 TIGR02880 cbbX_cfxQ probable R 38.5 59 0.0013 38.2 6.3 21 690-710 60-80 (284)
293 PRK05298 excinuclease ABC subu 38.4 1.4E+02 0.003 39.5 10.2 71 665-801 11-82 (652)
294 PHA02544 44 clamp loader, smal 38.4 4.1E+02 0.0089 31.3 13.4 39 908-946 102-142 (316)
295 PF13607 Succ_CoA_lig: Succiny 38.0 98 0.0021 32.5 7.1 86 1280-1386 3-90 (138)
296 cd03418 GRX_GRXb_1_3_like Glut 37.9 1.3E+02 0.0027 27.2 7.1 59 1280-1338 1-60 (75)
297 cd03028 GRX_PICOT_like Glutare 37.3 1E+02 0.0023 29.5 6.7 59 1277-1336 6-70 (90)
298 KOG0926 DEAH-box RNA helicase 36.9 15 0.00034 47.7 1.1 56 891-947 357-427 (1172)
299 COG0464 SpoVK ATPases of the A 36.8 61 0.0013 41.1 6.5 44 667-710 250-298 (494)
300 TIGR00365 monothiol glutaredox 35.5 1.1E+02 0.0024 29.9 6.7 58 1277-1334 10-73 (97)
301 KOG0920 ATP-dependent RNA heli 35.4 2.6E+02 0.0057 38.2 11.9 42 664-712 171-212 (924)
302 TIGR02768 TraA_Ti Ti-type conj 35.4 2.2E+02 0.0048 38.3 11.5 39 665-709 351-389 (744)
303 KOG4275 Predicted E3 ubiquitin 34.9 12 0.00027 43.0 -0.1 29 1114-1142 301-330 (350)
304 PF13173 AAA_14: AAA domain 34.4 42 0.00092 34.2 3.7 39 908-947 63-101 (128)
305 PRK05580 primosome assembly pr 34.1 2.1E+02 0.0046 38.0 11.0 77 1277-1356 189-266 (679)
306 PRK10917 ATP-dependent DNA hel 33.0 1.3E+02 0.0027 40.1 8.6 77 1277-1354 309-389 (681)
307 TIGR00595 priA primosomal prot 32.5 2.2E+02 0.0047 36.5 10.3 77 1277-1356 24-101 (505)
308 smart00489 DEXDc3 DEAD-like he 32.5 67 0.0015 37.9 5.5 16 823-838 209-224 (289)
309 smart00488 DEXDc2 DEAD-like he 32.5 67 0.0015 37.9 5.5 16 823-838 209-224 (289)
310 PRK14964 DNA polymerase III su 32.3 4.6E+02 0.01 33.5 13.0 38 670-710 20-57 (491)
311 KOG1815 Predicted E3 ubiquitin 32.1 31 0.00066 43.3 2.7 51 1113-1163 70-128 (444)
312 PRK14969 DNA polymerase III su 30.7 5E+02 0.011 33.5 13.2 40 669-711 22-61 (527)
313 PF13245 AAA_19: Part of AAA d 30.5 66 0.0014 30.1 4.0 20 692-711 14-33 (76)
314 PRK14959 DNA polymerase III su 29.8 6.5E+02 0.014 33.2 13.8 40 669-711 22-61 (624)
315 PHA00673 acetyltransferase dom 28.6 88 0.0019 33.6 5.0 44 907-950 88-134 (154)
316 PF12861 zf-Apc11: Anaphase-pr 28.0 51 0.0011 31.8 2.7 43 1116-1160 35-81 (85)
317 COG4646 DNA methylase [Transcr 28.0 28 0.00061 42.7 1.2 32 933-964 472-503 (637)
318 CHL00181 cbbX CbbX; Provisiona 27.9 1.2E+02 0.0026 35.8 6.4 20 691-710 62-81 (287)
319 PRK14087 dnaA chromosomal repl 27.8 2.1E+02 0.0045 36.1 8.9 37 907-943 207-247 (450)
320 COG4581 Superfamily II RNA hel 27.6 2.1E+02 0.0046 39.4 9.3 78 1307-1386 449-534 (1041)
321 KOG0925 mRNA splicing factor A 27.6 46 0.00099 41.4 2.9 53 904-960 157-217 (699)
322 TIGR00643 recG ATP-dependent D 27.3 2.4E+02 0.0053 37.1 9.8 76 1277-1353 283-362 (630)
323 PLN03025 replication factor C 27.2 1.2E+02 0.0027 36.0 6.6 60 906-965 99-159 (319)
324 TIGR02562 cas3_yersinia CRISPR 26.7 2.3E+02 0.005 39.2 9.2 48 1329-1379 837-884 (1110)
325 PRK14953 DNA polymerase III su 26.6 8.4E+02 0.018 31.1 14.0 19 692-710 42-60 (486)
326 COG0553 HepA Superfamily II DN 26.0 9.3 0.0002 51.4 -3.6 80 1281-1377 445-524 (866)
327 cd05563 PTS_IIB_ascorbate PTS_ 25.7 1.7E+02 0.0037 27.6 5.9 51 780-834 2-54 (86)
328 PF14570 zf-RING_4: RING/Ubox 25.7 53 0.0012 28.3 2.1 42 1116-1159 1-46 (48)
329 KOG4367 Predicted Zn-finger pr 25.5 31 0.00067 41.6 1.0 32 1115-1146 6-37 (699)
330 PF02302 PTS_IIB: PTS system, 25.4 81 0.0018 29.8 3.8 55 780-836 2-58 (90)
331 KOG4185 Predicted E3 ubiquitin 24.4 43 0.00093 39.5 1.9 45 1113-1159 3-53 (296)
332 cd05566 PTS_IIB_galactitol PTS 24.3 1.2E+02 0.0026 28.8 4.7 55 779-835 2-58 (89)
333 PRK11054 helD DNA helicase IV; 24.3 1.3E+02 0.0029 39.9 6.5 38 665-711 195-232 (684)
334 PHA03096 p28-like protein; Pro 24.1 38 0.00081 39.9 1.4 34 1114-1147 179-220 (284)
335 COG1875 NYN ribonuclease and A 24.0 60 0.0013 39.4 2.9 38 908-947 353-390 (436)
336 COG2247 LytB Putative cell wal 23.6 1.4E+02 0.0031 35.5 5.8 60 1277-1336 75-139 (337)
337 PRK05563 DNA polymerase III su 23.6 1.1E+03 0.024 30.7 14.4 21 691-711 41-61 (559)
338 COG1199 DinG Rad3-related DNA 23.4 1.8E+02 0.0039 38.3 7.5 45 664-711 13-57 (654)
339 KOG0327 Translation initiation 23.3 1.4E+02 0.0031 36.3 5.9 43 902-944 165-210 (397)
340 KOG1133 Helicase of the DEAD s 22.9 4.1E+02 0.0089 35.0 9.9 14 907-920 349-362 (821)
341 KOG3629 Guanine-nucleotide rel 22.4 4.2E+02 0.0092 33.6 9.5 76 31-113 463-551 (728)
342 cd00133 PTS_IIB PTS_IIB: subun 22.3 1.7E+02 0.0038 26.5 5.3 53 780-835 2-56 (84)
343 COG0626 MetC Cystathionine bet 21.9 1.4E+02 0.0031 36.8 5.8 77 1277-1378 101-178 (396)
344 TIGR00362 DnaA chromosomal rep 21.7 2.3E+02 0.0049 35.0 7.6 21 690-710 138-158 (405)
345 PRK00149 dnaA chromosomal repl 21.4 2.4E+02 0.0053 35.4 7.8 21 690-710 150-170 (450)
346 TIGR00614 recQ_fam ATP-depende 20.6 6.9E+02 0.015 31.5 11.7 63 1278-1341 51-113 (470)
347 KOG0827 Predicted E3 ubiquitin 20.4 55 0.0012 39.5 1.7 47 1113-1161 4-56 (465)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=3.7e-102 Score=880.38 Aligned_cols=572 Identities=42% Similarity=0.715 Sum_probs=477.4
Q ss_pred CCCCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000542 656 ASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 656 ~~~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~ 735 (1433)
+.+|.+ |.++|+|||+++|+|+..+|.++. .|||||||||+|||+|+|||++..-.
T Consensus 175 aeqP~d-lii~LL~fQkE~l~Wl~~QE~Ss~--~GGiLADEMGMGKTIQtIaLllae~~--------------------- 230 (791)
T KOG1002|consen 175 AEQPDD-LIIPLLPFQKEGLAWLTSQEESSV--AGGILADEMGMGKTIQTIALLLAEVD--------------------- 230 (791)
T ss_pred ccCccc-ceecchhhhHHHHHHHHHhhhhhh--ccceehhhhccchHHHHHHHHHhccc---------------------
Confidence 456666 578999999999999999999875 89999999999999999999986211
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000542 736 DNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSS 815 (1433)
Q Consensus 736 ~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~ 815 (1433)
.+|||||||.-.+.||.+||.+|.. +.++|++|||..
T Consensus 231 -----------------------------------------ra~tLVvaP~VAlmQW~nEI~~~T~--gslkv~~YhG~~ 267 (791)
T KOG1002|consen 231 -----------------------------------------RAPTLVVAPTVALMQWKNEIERHTS--GSLKVYIYHGAK 267 (791)
T ss_pred -----------------------------------------cCCeeEEccHHHHHHHHHHHHHhcc--CceEEEEEeccc
Confidence 2469999999999999999998875 789999999999
Q ss_pred CCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccc
Q 000542 816 RTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLL 895 (1433)
Q Consensus 816 r~k~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~ 895 (1433)
|.+...++..||+|+|||.++.+++.++. +++ +|| . + .
T Consensus 268 R~~nikel~~YDvVLTty~vvEs~yRk~~---------------~Gf---------rrK--------n-----g-----v 305 (791)
T KOG1002|consen 268 RDKNIKELMNYDVVLTTYAVVESVYRKQD---------------YGF---------RRK--------N-----G-----V 305 (791)
T ss_pred ccCCHHHhhcCcEEEEecHHHHHHHHhcc---------------ccc---------ccc--------C-----C-----c
Confidence 99999999999999999999988765421 111 111 0 0 1
Q ss_pred ccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchH-------
Q 000542 896 DIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK------- 968 (1433)
Q Consensus 896 d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~------- 968 (1433)
+.-+++|+.+.|.||||||||.||++.+.+++|++.|++.+||||||||+||++.|||++++||+..||..+-
T Consensus 306 ~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~ 385 (791)
T KOG1002|consen 306 DKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCA 385 (791)
T ss_pred ccccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhcccc
Confidence 2235789999999999999999999999999999999999999999999999999999999999999985321
Q ss_pred ------------------------HHHhhhccCCCCCc-----hhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEE
Q 000542 969 ------------------------SFCSMIKVPISKNP-----VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVI 1019 (1433)
Q Consensus 969 ------------------------~F~~~i~~pi~~~~-----~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~ 1019 (1433)
.|...+..||.+.. ..++...+.+|+.+|+||||-.-.+. +.|||+.+
T Consensus 386 ~~~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAdD---LgLPPRiv 462 (791)
T KOG1002|consen 386 SLDWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERADD---LGLPPRIV 462 (791)
T ss_pred ccceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhcccccc---cCCCccce
Confidence 22233345555443 23456789999999999998654432 57999999
Q ss_pred EEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchH
Q 000542 1020 MLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQ 1099 (1433)
Q Consensus 1020 ~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~ 1099 (1433)
.+.+--|+.+|.++|+.|...++..|+.+..+|.+..||++|+.++.||||+++||.|+..... ..++.
T Consensus 463 ~vRrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~-----------~n~~~ 531 (791)
T KOG1002|consen 463 TVRRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSAN-----------ANLPD 531 (791)
T ss_pred eeehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhh-----------cCCCc
Confidence 9999999999999999999999999999999999999999999999999999999998853211 11221
Q ss_pred HHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhcc----CCCCCCCccccccccccchhhhhhhcccc
Q 000542 1100 ERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTA----DDNQCPTRNCKIRLSLSSVFSKATLNNSL 1175 (1433)
Q Consensus 1100 e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~----~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~ 1175 (1433)
+ .....+|.+|.++.++++.+.|.|.||+-|+.+++.. ..-.|| .|...|+.+---. .+
T Consensus 532 e---------nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP--~C~i~LsiDlse~--al---- 594 (791)
T KOG1002|consen 532 E---------NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCP--VCHIGLSIDLSEP--AL---- 594 (791)
T ss_pred c---------ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCc--cccccccccccch--hh----
Confidence 1 2245789999999999999999999999999888644 234677 4887776541110 00
Q ss_pred ccCCCCCCCCCCCCCccccc----CCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCC
Q 000542 1176 SQRQPGQEIPTDYSDSKLVE----APSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHG 1251 (1433)
Q Consensus 1176 ~~~~~~~~i~~~~s~~~~~~----~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1251 (1433)
. +.. -..+.. .......+..|.||++|.+.|.-+.+.+
T Consensus 595 e------k~~----l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd---------------------------- 636 (791)
T KOG1002|consen 595 E------KTD----LKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERD---------------------------- 636 (791)
T ss_pred h------hcc----hhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHcc----------------------------
Confidence 0 000 000000 0112345667899999999888754311
Q ss_pred CCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCcc
Q 000542 1252 GDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVS 1331 (1433)
Q Consensus 1252 ~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~ 1331 (1433)
...|.|||||||+|||+|+..|.+.|+.++.+.|+|++++|.+.|+.|.++++++
T Consensus 637 -------------------------~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~ 691 (791)
T KOG1002|consen 637 -------------------------RTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCR 691 (791)
T ss_pred -------------------------cchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeE
Confidence 4579999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhC
Q 000542 1332 VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFG 1411 (1433)
Q Consensus 1332 VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg 1411 (1433)
|||||++|||+.|||+.|++|++|||||||++|.||.+|+|||||.|||.|+||++++|||++|+++|++|..|+++.+|
T Consensus 692 vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~ 771 (791)
T KOG1002|consen 692 VFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIG 771 (791)
T ss_pred EEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcCcccccCCHHHHHHhhc
Q 000542 1412 EDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1412 ~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
.++. .+.+|+.+|+++||.
T Consensus 772 qde~--Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 772 QDEE--AISKLTEEDMQFLFN 790 (791)
T ss_pred CcHH--HHHhcCHHHHHHHhc
Confidence 8875 467999999999995
No 2
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=8.4e-87 Score=783.22 Aligned_cols=550 Identities=37% Similarity=0.613 Sum_probs=431.0
Q ss_pred CCCCCCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccc
Q 000542 654 AEASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLD 733 (1433)
Q Consensus 654 ~e~~~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~ 733 (1433)
.+...++..++++|+|||+.|+.||+.+|.... .|||||||||||||+++|+||+..+.... .
T Consensus 313 t~lte~P~g~~v~LmpHQkaal~Wl~wRE~q~~--~GGILaddmGLGKTlsmislil~qK~~~~------------~--- 375 (901)
T KOG4439|consen 313 TDLTETPDGLKVELMPHQKAALRWLLWRESQPP--SGGILADDMGLGKTLSMISLILHQKAARK------------A--- 375 (901)
T ss_pred ccccCCCCcceeecchhhhhhhhhhcccccCCC--CCcccccccccccchHHHHHHHHHHHHHH------------h---
Confidence 333444444699999999999999999998754 99999999999999999999987542100 0
Q ss_pred ccccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeC
Q 000542 734 EEDNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHG 813 (1433)
Q Consensus 734 ~~~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG 813 (1433)
...+...+.+||||||++|++||..|+.+.+. ...|+|++|||
T Consensus 376 ------------------------------------~~~~~~~a~~TLII~PaSli~qW~~Ev~~rl~-~n~LsV~~~HG 418 (901)
T KOG4439|consen 376 ------------------------------------REKKGESASKTLIICPASLIHQWEAEVARRLE-QNALSVYLYHG 418 (901)
T ss_pred ------------------------------------hcccccccCCeEEeCcHHHHHHHHHHHHHHHh-hcceEEEEecC
Confidence 00001112259999999999999999999987 55799999999
Q ss_pred CC-CCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000542 814 SS-RTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 814 ~~-r~k~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~ 892 (1433)
.+ |...+..+++||||||||..+.+. ..++ .+
T Consensus 419 ~n~r~i~~~~L~~YDvViTTY~lva~~--------~~~e-~~-------------------------------------- 451 (901)
T KOG4439|consen 419 PNKREISAKELRKYDVVITTYNLVANK--------PDDE-LE-------------------------------------- 451 (901)
T ss_pred CccccCCHHHHhhcceEEEeeeccccC--------Cchh-hh--------------------------------------
Confidence 99 777889999999999999998751 0011 00
Q ss_pred cccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHh
Q 000542 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~ 972 (1433)
.....+||.++.|.||||||||.|||++|+.+.|++.|++.+|||||||||||++.|+|++++||+..||++...|.+
T Consensus 452 --~~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke 529 (901)
T KOG4439|consen 452 --EGKNSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKE 529 (901)
T ss_pred --cccCccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHH
Confidence 001147899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHc-
Q 000542 973 MIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAA- 1051 (1433)
Q Consensus 973 ~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~- 1051 (1433)
++..+ ...+..+|.-+.+++||||||+.+..++++..||++..+++.++|+..|...|+.+...++..++.++..
T Consensus 530 ~i~~~----s~~g~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~ 605 (901)
T KOG4439|consen 530 NIDNM----SKGGANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQR 605 (901)
T ss_pred hccCc----cccchhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 87543 2344578888999999999999998889999999999999999999999999999988877666554421
Q ss_pred -----------------------------------ccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhh
Q 000542 1052 -----------------------------------GTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKK 1096 (1433)
Q Consensus 1052 -----------------------------------g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~ 1096 (1433)
|.......+||.+|+||||+|+||.+.+...+..-.. +..-
T Consensus 606 e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~----~~g~ 681 (901)
T KOG4439|consen 606 EDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQ----MNGG 681 (901)
T ss_pred hhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhh----hcCc
Confidence 2222345679999999999999997665432211000 0000
Q ss_pred c-hHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhcccc
Q 000542 1097 L-PQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSL 1175 (1433)
Q Consensus 1097 l-~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~ 1175 (1433)
. ..+.+..+....+.. ....|.|... +|.
T Consensus 682 ~~sde~~~e~~~l~el~------------k~~~T~~~~D--------------------~~e------------------ 711 (901)
T KOG4439|consen 682 DDSDEEQLEEDNLAELE------------KNDETDCSDD--------------------NCE------------------ 711 (901)
T ss_pred chhhhhhhhhhHHHhhh------------hccccccccc--------------------ccc------------------
Confidence 0 000011111100000 0001111100 010
Q ss_pred ccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcc
Q 000542 1176 SQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTL 1255 (1433)
Q Consensus 1176 ~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 1255 (1433)
+.|....... -...+.+.|+...++.++.+.
T Consensus 712 -------d~p~~~~~q~-------Fe~~r~S~Ki~~~l~~le~i~----------------------------------- 742 (901)
T KOG4439|consen 712 -------DLPTAFPDQA-------FEPDRPSCKIAMVLEILETIL----------------------------------- 742 (901)
T ss_pred -------cccccchhhh-------cccccchhHHHHHHHHHHHHh-----------------------------------
Confidence 0000000000 112245889998888888741
Q ss_pred cccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEE
Q 000542 1256 DNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMI 1334 (1433)
Q Consensus 1256 ~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~-~v~VLL 1334 (1433)
....+|+||.|||+.+|++++..|...|..|..++|....++|+.+|+.||... +.+|||
T Consensus 743 -------------------~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmL 803 (901)
T KOG4439|consen 743 -------------------TSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVML 803 (901)
T ss_pred -------------------hcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEE
Confidence 125799999999999999999999999999999999999999999999999864 499999
Q ss_pred eeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 000542 1335 MSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1335 ~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~ 1414 (1433)
+|+.|||+||||+.|||+|++|++|||+.|.||.+||+|+||+++|+||||++++|||+||..+|++|..++..++.+..
T Consensus 804 lSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~ 883 (901)
T KOG4439|consen 804 LSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSA 883 (901)
T ss_pred EEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999997655
Q ss_pred cCcccccCCHHHHHHhhcC
Q 000542 1415 TGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1415 ~~~~~~~lt~~DL~~LF~~ 1433 (1433)
+ +...+||..|||-||++
T Consensus 884 t-r~~~kLT~adlk~LFgl 901 (901)
T KOG4439|consen 884 T-RKMNKLTLADLKKLFGL 901 (901)
T ss_pred c-cccccccHHHHHHHhCC
Confidence 4 47889999999999986
No 3
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=9.4e-84 Score=763.71 Aligned_cols=459 Identities=33% Similarity=0.531 Sum_probs=395.2
Q ss_pred CCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000542 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
.|.++....|++||.+||+||.++.... -+||||||||||||+|+||++.+.+..
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~eng---ingILaDEMGLGKTlQtIs~l~yl~~~---------------------- 213 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLYENG---INGILADEMGLGKTLQTISLLGYLKGR---------------------- 213 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHHhcC---cccEeehhcccchHHHHHHHHHHHHHh----------------------
Confidence 4666655889999999999999987754 469999999999999999999875421
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000542 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~ 817 (1433)
..-.+|.||+||.|++.+|.+||.+|+| .+++++|+|.+..
T Consensus 214 ------------------------------------~~~~GPfLVi~P~StL~NW~~Ef~rf~P---~l~~~~~~Gdk~e 254 (971)
T KOG0385|consen 214 ------------------------------------KGIPGPFLVIAPKSTLDNWMNEFKRFTP---SLNVVVYHGDKEE 254 (971)
T ss_pred ------------------------------------cCCCCCeEEEeeHhhHHHHHHHHHHhCC---CcceEEEeCCHHH
Confidence 1123789999999999999999999987 8999999999744
Q ss_pred C-----CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000542 818 K-----DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 818 k-----~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~ 892 (1433)
+ +...-..+||+||||++..++
T Consensus 255 R~~~~r~~~~~~~fdV~iTsYEi~i~d----------------------------------------------------- 281 (971)
T KOG0385|consen 255 RAALRRDIMLPGRFDVCITSYEIAIKD----------------------------------------------------- 281 (971)
T ss_pred HHHHHHHhhccCCCceEeehHHHHHhh-----------------------------------------------------
Confidence 3 222234899999999998642
Q ss_pred cccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHh
Q 000542 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~ 972 (1433)
.+.|.++.|..+||||||+|||.++..++.++.+.+.+|++|||||+||++.|||++|+||.|+.|.+...|..
T Consensus 282 ------k~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~s 355 (971)
T KOG0385|consen 282 ------KSFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDS 355 (971)
T ss_pred ------HHHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHH
Confidence 23488899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcc
Q 000542 973 MIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 973 ~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g 1052 (1433)
||......+....+.+|+.+|++|+|||.|.+|.. .|||+.+..+++.|++.|+++|..+...-...+ ...+
T Consensus 356 wF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~-----sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~---n~~~ 427 (971)
T KOG0385|consen 356 WFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEK-----SLPPKKELIIYVGMSSMQKKWYKAILMKDLDAL---NGEG 427 (971)
T ss_pred HHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhh-----cCCCcceeeEeccchHHHHHHHHHHHHhcchhh---cccc
Confidence 99887766777789999999999999999999987 799999999999999999999998865433222 2222
Q ss_pred cccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccC
Q 000542 1053 TVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICG 1132 (1433)
Q Consensus 1053 ~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~Cg 1132 (1433)
. .....++..++.||++|+||+|+.+.+...
T Consensus 428 ~--~~k~kL~NI~mQLRKccnHPYLF~g~ePg~----------------------------------------------- 458 (971)
T KOG0385|consen 428 K--GEKTKLQNIMMQLRKCCNHPYLFDGAEPGP----------------------------------------------- 458 (971)
T ss_pred c--chhhHHHHHHHHHHHhcCCccccCCCCCCC-----------------------------------------------
Confidence 2 134567888999999999999986532100
Q ss_pred cccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHH
Q 000542 1133 HVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAA 1212 (1433)
Q Consensus 1133 H~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~al 1212 (1433)
+....+.....+.|+..|
T Consensus 459 --------------------------------------------------------------pyttdehLv~nSGKm~vL 476 (971)
T KOG0385|consen 459 --------------------------------------------------------------PYTTDEHLVTNSGKMLVL 476 (971)
T ss_pred --------------------------------------------------------------CCCcchHHHhcCcceehH
Confidence 000111223357787777
Q ss_pred HHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHH
Q 000542 1213 LEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLD 1292 (1433)
Q Consensus 1213 lelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~Ld 1292 (1433)
-++|..+ +..|.||||||||+.|||
T Consensus 477 DkLL~~L-------------------------------------------------------k~~GhRVLIFSQmt~mLD 501 (971)
T KOG0385|consen 477 DKLLPKL-------------------------------------------------------KEQGHRVLIFSQMTRMLD 501 (971)
T ss_pred HHHHHHH-------------------------------------------------------HhCCCeEEEeHHHHHHHH
Confidence 7776664 237999999999999999
Q ss_pred HHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhh
Q 000542 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRA 1371 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~-~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRa 1371 (1433)
+|+.++.-+++.|+||||+++.++|.++|+.|+.++ ...|||+||+|||+||||++|++||+||..|||....||++|+
T Consensus 502 ILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRa 581 (971)
T KOG0385|consen 502 ILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRA 581 (971)
T ss_pred HHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHH
Confidence 999999999999999999999999999999999965 6999999999999999999999999999999999999999999
Q ss_pred hccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCC
Q 000542 1372 HRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGED 1413 (1433)
Q Consensus 1372 hRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d 1413 (1433)
|||||+++|+||||++++||||+|+++...|.++-..+++.+
T Consensus 582 HRIGQ~K~V~V~RLitentVEe~IveRA~~KL~Ld~~VIq~g 623 (971)
T KOG0385|consen 582 HRIGQKKPVVVYRLITENTVEEKIVERAAAKLRLDKLVIQQG 623 (971)
T ss_pred HhhCCcCceEEEEEeccchHHHHHHHHHHHHhchhhhhhccC
Confidence 999999999999999999999999999999999999888776
No 4
>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=1.1e-81 Score=750.74 Aligned_cols=474 Identities=30% Similarity=0.499 Sum_probs=399.0
Q ss_pred CCCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccc
Q 000542 657 SAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEED 736 (1433)
Q Consensus 657 ~~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~ 736 (1433)
..|. .+...|++||+.||.||++.... ..|||||||||||||+|+|++++.....
T Consensus 197 ~vPg-~I~~~Lf~yQreGV~WL~~L~~q---~~GGILgDeMGLGKTIQiisFLaaL~~S--------------------- 251 (923)
T KOG0387|consen 197 KVPG-FIWSKLFPYQREGVQWLWELYCQ---RAGGILGDEMGLGKTIQIISFLAALHHS--------------------- 251 (923)
T ss_pred cccH-HHHHHhhHHHHHHHHHHHHHHhc---cCCCeecccccCccchhHHHHHHHHhhc---------------------
Confidence 3454 45667999999999999998764 4899999999999999999999875432
Q ss_pred cccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 000542 737 NGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSR 816 (1433)
Q Consensus 737 ~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r 816 (1433)
+...+|+|||||++++.||.+|+++|++ .++|.+|||...
T Consensus 252 -------------------------------------~k~~~paLIVCP~Tii~qW~~E~~~w~p---~~rv~ilh~t~s 291 (923)
T KOG0387|consen 252 -------------------------------------GKLTKPALIVCPATIIHQWMKEFQTWWP---PFRVFILHGTGS 291 (923)
T ss_pred -------------------------------------ccccCceEEEccHHHHHHHHHHHHHhCc---ceEEEEEecCCc
Confidence 0123689999999999999999999987 799999999876
Q ss_pred CC---------------CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCcc
Q 000542 817 TK---------------DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDR 881 (1433)
Q Consensus 817 ~k---------------~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~r 881 (1433)
.. .........|+||||+.++..
T Consensus 292 ~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~------------------------------------------ 329 (923)
T KOG0387|consen 292 GARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQ------------------------------------------ 329 (923)
T ss_pred ccccccchhhhhhhhhheeeecccCcEEEEehhhhccc------------------------------------------
Confidence 31 112223556999999988631
Q ss_pred ccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhcccc
Q 000542 882 KGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRY 961 (1433)
Q Consensus 882 k~~~~kk~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p 961 (1433)
..++..+.|+.||+||+|+|||++|+.+.+|..|++.+|++||||||||++.|||+++.|+.|
T Consensus 330 -----------------~d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~P 392 (923)
T KOG0387|consen 330 -----------------GDDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFP 392 (923)
T ss_pred -----------------CcccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccC
Confidence 124778899999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchHHHHhhhccCCCCCchhh------------HHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHH
Q 000542 962 DPFAVYKSFCSMIKVPISKNPVKG------------YKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDE 1029 (1433)
Q Consensus 962 ~~f~~~~~F~~~i~~pi~~~~~~~------------~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~e 1029 (1433)
+.+++...|...|..||..+.... ...|+.++.+++|||+|.+|.. ..||.+.+.|+.|.||+.
T Consensus 393 G~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~----~~Lp~K~E~VlfC~LT~~ 468 (923)
T KOG0387|consen 393 GKLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKG----LKLPKKEEIVLFCRLTKL 468 (923)
T ss_pred CcccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh----ccCCCccceEEEEeccHH
Confidence 999999999999999998764321 3468999999999999999975 589999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHh
Q 000542 1030 ERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCL 1109 (1433)
Q Consensus 1030 Ere~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~l 1109 (1433)
||.+|+.+..-.. +..+.. | ..++|..+.-||.+|+||.|+.+.....
T Consensus 469 QR~~Y~~fl~s~~--v~~i~n-g-----~~~~l~Gi~iLrkICnHPdll~~~~~~~------------------------ 516 (923)
T KOG0387|consen 469 QRRLYQRFLNSSE--VNKILN-G-----KRNCLSGIDILRKICNHPDLLDRRDEDE------------------------ 516 (923)
T ss_pred HHHHHHHHhhhHH--HHHHHc-C-----CccceechHHHHhhcCCcccccCccccc------------------------
Confidence 9999998865422 222221 2 1345677778999999998875321000
Q ss_pred hhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCC
Q 000542 1110 EASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYS 1189 (1433)
Q Consensus 1110 e~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s 1189 (1433)
T Consensus 517 -------------------------------------------------------------------------------- 516 (923)
T KOG0387|consen 517 -------------------------------------------------------------------------------- 516 (923)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CcccccCCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhh
Q 000542 1190 DSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKC 1269 (1433)
Q Consensus 1190 ~~~~~~~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~ 1269 (1433)
...+..++.+..+.|++.+..+|..+.+
T Consensus 517 ----~~~~D~~g~~k~sGKm~vl~~ll~~W~k------------------------------------------------ 544 (923)
T KOG0387|consen 517 ----KQGPDYEGDPKRSGKMKVLAKLLKDWKK------------------------------------------------ 544 (923)
T ss_pred ----ccCCCcCCChhhcchHHHHHHHHHHHhh------------------------------------------------
Confidence 0000011233458899999998887532
Q ss_pred cccccccCCCeEEEEcccHHHHHHHHHHHH-hCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000542 1270 SIDSIKLGGEKAIVFSQWTKMLDLLEASLK-DSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1270 ~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~-~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~ 1348 (1433)
.+.|+|+|||...|||+|+..|. ..|+.|+++||.++.+.|+.+|++||++..+.|||++|++||+|||||.
T Consensus 545 -------qg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTg 617 (923)
T KOG0387|consen 545 -------QGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTG 617 (923)
T ss_pred -------CCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEeccccccccccc
Confidence 67899999999999999999999 6899999999999999999999999999999999999999999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCccccc-CCHHHH
Q 000542 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTR-LTVDDL 1427 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~-lt~~DL 1427 (1433)
||+||+|||.|||.+..||..|+|||||||+|.||||++.+||||+||.+|--|+.+.+.++..- ++.| +...||
T Consensus 618 AnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~Kq~Ltn~il~~p----~q~RfF~~~dl 693 (923)
T KOG0387|consen 618 ANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIFKQFLTNRILKNP----EQRRFFKGNDL 693 (923)
T ss_pred CceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCH----HHhhhcccccH
Confidence 99999999999999999999999999999999999999999999999999999999999998543 3344 677788
Q ss_pred HHhhcC
Q 000542 1428 NYLFMV 1433 (1433)
Q Consensus 1428 ~~LF~~ 1433 (1433)
..||.+
T Consensus 694 ~dLFsl 699 (923)
T KOG0387|consen 694 HDLFSL 699 (923)
T ss_pred HHHhCC
Confidence 888863
No 5
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=1.4e-81 Score=775.47 Aligned_cols=601 Identities=26% Similarity=0.407 Sum_probs=479.7
Q ss_pred ccCCCcccccccccchhhhhhhhcccccccccccCCCccccccCCCCCccCCCCCCCeEEEeccCCccccchhhhhhccc
Q 000542 509 PYAQPSTLNKKELDGVKEDMEAEIKTRSMASHLLKLSPESIQSNSSDCKSHVDDEPDICILEDISQPARSNQSLVLGKTL 588 (1433)
Q Consensus 509 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 588 (1433)
+-...+++..+++.|+|+.+||.+|-.+++.|+. ++...|..+||.++++|=.-.-.....++.||-
T Consensus 241 tWet~~~L~~~~~rG~kKv~nf~kK~~e~~~~~r-------------~E~~~~~~~dy~~VdRIia~~~~~d~eYLvKW~ 307 (1373)
T KOG0384|consen 241 TWETESELLEMNVRGLKKVDNFKKKVIEEDRWRR-------------QEREEDLNKDYVIVDRIIAEQTSKDPEYLVKWR 307 (1373)
T ss_pred cccchHHHHhhhHHHHHHHHHHHHHHHHHHHHHH-------------hhhhhhhhhhhhhhhhhhhcccCCCceeEEEec
Confidence 3456678888999999999999888889999987 578889999999999996555555699999999
Q ss_pred ccccccccccccccCCCccccccccCCCCCCCCCCCCCCCCCCCCCchHHHHHHHHHhhccCCCCCCCCCCCCccccCCc
Q 000542 589 SMNRSACSNHSVALGKPVVTSQHSSYSDYPGYPGVPLTGLGGMKSKASDERLILQVAMQGISQPNAEASAPDGVLAVPLL 668 (1433)
Q Consensus 589 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~de~~~~~~~l~~l~~p~~e~~~P~~~l~v~L~ 668 (1433)
+|+|..|.|.......|....+...|..+......|..+..-...+. .++ .+. ..|...-...|+
T Consensus 308 ~LpY~e~TWE~~~~I~~~~~~~~~~~~~Re~sk~~p~~~~~~~~~rp-----~~~----Kle------~qp~~~~g~~LR 372 (1373)
T KOG0384|consen 308 GLPYEECTWEDAEDIAKKAQEEIEEFQSRENSKTLPNKGCKYRPQRP-----RFR----KLE------KQPEYKGGNELR 372 (1373)
T ss_pred CCCcccccccchhhhhhhHHHHHHHHhhhhccccCCCCccccCccch-----hHH----Hhh------cCccccccchhh
Confidence 99999999999999999777776666655433323322222111111 122 221 234444456899
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccc
Q 000542 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVK 748 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k 748 (1433)
.||++||+||+..... ...||||||||||||||+|+++.+....
T Consensus 373 dyQLeGlNWl~~~W~~---~~n~ILADEmgLgktvqti~fl~~l~~~--------------------------------- 416 (1373)
T KOG0384|consen 373 DYQLEGLNWLLYSWYK---RNNCILADEMGLGKTVQTITFLSYLFHS--------------------------------- 416 (1373)
T ss_pred hhhcccchhHHHHHHh---cccceehhhcCCCcchHHHHHHHHHHHh---------------------------------
Confidence 9999999999976543 2459999999999999999999764321
Q ss_pred cccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC---------
Q 000542 749 QESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD--------- 819 (1433)
Q Consensus 749 ~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~--------- 819 (1433)
..-.+|.|||||.|++.+|++|+..|. .+++++|||....+.
T Consensus 417 -------------------------~~~~gpflvvvplst~~~W~~ef~~w~----~mn~i~y~g~~~sr~~i~~ye~~~ 467 (1373)
T KOG0384|consen 417 -------------------------LQIHGPFLVVVPLSTITAWEREFETWT----DMNVIVYHGNLESRQLIRQYEFYH 467 (1373)
T ss_pred -------------------------hhccCCeEEEeehhhhHHHHHHHHHHh----hhceeeeecchhHHHHHHHHHhee
Confidence 112468999999999999999999996 499999999864331
Q ss_pred -c-ccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccccc
Q 000542 820 -P-CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDI 897 (1433)
Q Consensus 820 -~-~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~ 897 (1433)
. ...-+++++||||+++.++
T Consensus 468 ~~~~~~lkf~~lltTye~~LkD---------------------------------------------------------- 489 (1373)
T KOG0384|consen 468 SSNTKKLKFNALLTTYEIVLKD---------------------------------------------------------- 489 (1373)
T ss_pred cCCccccccceeehhhHHHhcc----------------------------------------------------------
Confidence 1 2223799999999999642
Q ss_pred ccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccC
Q 000542 898 VAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVP 977 (1433)
Q Consensus 898 ~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~p 977 (1433)
...|..+.|..+++||||++||..++.+..+..++.++|+++||||+||++.|||+|++||.|+.|..+..|...+
T Consensus 490 -k~~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~--- 565 (1373)
T KOG0384|consen 490 -KAELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEF--- 565 (1373)
T ss_pred -HhhhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhh---
Confidence 1247889999999999999999999999999999999999999999999999999999999999999999998876
Q ss_pred CCCCchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccch
Q 000542 978 ISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQN 1057 (1433)
Q Consensus 978 i~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~ 1057 (1433)
.......+..|+.+|+|+||||.|++|-+ .||++.+.++.|+||..|+++|..++...... +..|....+
T Consensus 566 -~~~~e~~~~~L~~~L~P~~lRr~kkdvek-----slp~k~E~IlrVels~lQk~yYk~ILtkN~~~----LtKG~~g~~ 635 (1373)
T KOG0384|consen 566 -DEETEEQVRKLQQILKPFLLRRLKKDVEK-----SLPPKEETILRVELSDLQKQYYKAILTKNFSA----LTKGAKGST 635 (1373)
T ss_pred -cchhHHHHHHHHHHhhHHHHHHHHhhhcc-----CCCCCcceEEEeehhHHHHHHHHHHHHhhHHH----HhccCCCCC
Confidence 34556789999999999999999999987 89999999999999999999999987654433 234443333
Q ss_pred HHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccch
Q 000542 1058 YVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCN 1137 (1433)
Q Consensus 1058 ~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH~fC~ 1137 (1433)
.++|..++.||+||+||+|+++.+..-. ...+.
T Consensus 636 -~~lLNimmELkKccNHpyLi~gaee~~~------------~~~~~---------------------------------- 668 (1373)
T KOG0384|consen 636 -PSLLNIMMELKKCCNHPYLIKGAEEKIL------------GDFRD---------------------------------- 668 (1373)
T ss_pred -chHHHHHHHHHHhcCCccccCcHHHHHH------------Hhhhh----------------------------------
Confidence 7889999999999999999976432100 00000
Q ss_pred hhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHHHHHH
Q 000542 1138 QCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQ 1217 (1433)
Q Consensus 1138 ~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~ 1217 (1433)
|+ .. ..| ......|.|+..|-++|.
T Consensus 669 -------------~~---------~d-----~~L----------------------------~~lI~sSGKlVLLDKLL~ 693 (1373)
T KOG0384|consen 669 -------------KM---------RD-----EAL----------------------------QALIQSSGKLVLLDKLLP 693 (1373)
T ss_pred -------------cc---------hH-----HHH----------------------------HHHHHhcCcEEeHHHHHH
Confidence 00 00 000 000012444444444444
Q ss_pred hhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHH
Q 000542 1218 SLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEAS 1297 (1433)
Q Consensus 1218 ~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~ 1297 (1433)
++ +..|+|||||||.++|||+|+++
T Consensus 694 rL-------------------------------------------------------k~~GHrVLIFSQMVRmLDIL~eY 718 (1373)
T KOG0384|consen 694 RL-------------------------------------------------------KEGGHRVLIFSQMVRMLDILAEY 718 (1373)
T ss_pred HH-------------------------------------------------------hcCCceEEEhHHHHHHHHHHHHH
Confidence 42 33789999999999999999999
Q ss_pred HHhCCCcEEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCC
Q 000542 1298 LKDSSIQYRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQ 1376 (1433)
Q Consensus 1298 L~~~gI~~~ridGsms~~eR~~~I~~Fn~d-~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQ 1376 (1433)
|..++++|-||||++..+-|+++|+.|+.. .+-+|||+||+|||+||||+.|++|||+|..|||....||+.|+|||||
T Consensus 719 L~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQ 798 (1373)
T KOG0384|consen 719 LSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQ 798 (1373)
T ss_pred HHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcc
Confidence 999999999999999999999999999985 4688999999999999999999999999999999999999999999999
Q ss_pred CCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC---cCcccccCCHHHHHHhh
Q 000542 1377 TRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE---TGGQQTRLTVDDLNYLF 1431 (1433)
Q Consensus 1377 kr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~---~~~~~~~lt~~DL~~LF 1431 (1433)
++.|.|||||+++|||+.|++++.+|.-+-.+++.... .......++-+||-.|+
T Consensus 799 kk~VnVYRLVTk~TvEeEilERAk~KmvLD~aVIQ~m~t~~~~s~~~~f~K~ELsaIL 856 (1373)
T KOG0384|consen 799 KKHVNVYRLVTKNTVEEEILERAKLKMVLDHAVIQRMDTKGKTSKSNPFSKEELSAIL 856 (1373)
T ss_pred cceEEEEEEecCCchHHHHHHHHHHHhhhHHHHHHhhccccccCCCCCCCHHHHHHHH
Confidence 99999999999999999999999999988777764322 22445678888887654
No 6
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=3.4e-80 Score=757.74 Aligned_cols=505 Identities=31% Similarity=0.500 Sum_probs=410.3
Q ss_pred cccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccc
Q 000542 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVN 742 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~ 742 (1433)
++..||+||.+||+|+.-..+=. --||||||||||||+|+|+.++.....+
T Consensus 972 I~a~LRkYQqEGVnWLaFLnky~---LHGILcDDMGLGKTLQticilAsd~y~r-------------------------- 1022 (1549)
T KOG0392|consen 972 ISAKLRKYQQEGVNWLAFLNKYK---LHGILCDDMGLGKTLQTICILASDHYKR-------------------------- 1022 (1549)
T ss_pred hhHHHHHHHHhccHHHHHHHHhc---ccceeeccccccHHHHHHHHHHHHHHhh--------------------------
Confidence 46789999999999998776633 4599999999999999999997643210
Q ss_pred cccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCC--CCCc
Q 000542 743 GLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSR--TKDP 820 (1433)
Q Consensus 743 ~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r--~k~~ 820 (1433)
+.....| ..-|.|||||.+|..+|+.|+.+++| .|+|+.|-|... ....
T Consensus 1023 -----~s~~~e~---------------------~~~PSLIVCPsTLtGHW~~E~~kf~p---fL~v~~yvg~p~~r~~lR 1073 (1549)
T KOG0392|consen 1023 -----RSESSEF---------------------NRLPSLIVCPSTLTGHWKSEVKKFFP---FLKVLQYVGPPAERRELR 1073 (1549)
T ss_pred -----cccchhh---------------------ccCCeEEECCchhhhHHHHHHHHhcc---hhhhhhhcCChHHHHHHH
Confidence 0011111 12368999999999999999999998 499999998754 4456
Q ss_pred ccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccC
Q 000542 821 CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAG 900 (1433)
Q Consensus 821 ~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~ 900 (1433)
....+++|+||+|+++++++.
T Consensus 1074 ~q~~~~~iiVtSYDv~RnD~d----------------------------------------------------------- 1094 (1549)
T KOG0392|consen 1074 DQYKNANIIVTSYDVVRNDVD----------------------------------------------------------- 1094 (1549)
T ss_pred hhccccceEEeeHHHHHHHHH-----------------------------------------------------------
Confidence 667789999999999986531
Q ss_pred CccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCCC
Q 000542 901 PLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISK 980 (1433)
Q Consensus 901 pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~~ 980 (1433)
.|.++.|..+|+||+|-|||.+++.++++++|++.+|++||||||||++.|||+++.||+|+.++..+.|.++|.+||-.
T Consensus 1095 ~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~a 1174 (1549)
T KOG0392|consen 1095 YLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILA 1174 (1549)
T ss_pred HHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhh
Confidence 26778899999999999999999999999999999999999999999999999999999999999999999999999943
Q ss_pred C------------chhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHH
Q 000542 981 N------------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEY 1048 (1433)
Q Consensus 981 ~------------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~ 1048 (1433)
. ...++..||+.+-|||+||+|++|+. +||||.++.++|+|++.|+++|+.+....+......
T Consensus 1175 sRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~-----DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~ 1249 (1549)
T KOG0392|consen 1175 SRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLK-----DLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQ 1249 (1549)
T ss_pred hcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh-----hCChhhhhheeeccCHHHHHHHHHHHHHhccccccc
Confidence 2 12346789999999999999999997 899999999999999999999999877644333333
Q ss_pred HHcccccch--HHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcc
Q 000542 1049 AAAGTVKQN--YVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDA 1126 (1433)
Q Consensus 1049 ~~~g~~~~~--~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~ 1126 (1433)
.+.+....+ ..+++++|..||+.|+||.|+.+.....+. .+
T Consensus 1250 ~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~hp~la----~i--------------------------------- 1292 (1549)
T KOG0392|consen 1250 IDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVHPDLA----AI--------------------------------- 1292 (1549)
T ss_pred cccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCcchHH----HH---------------------------------
Confidence 333322222 789999999999999999998654221110 00
Q ss_pred hhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCccccc
Q 000542 1127 VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNS 1206 (1433)
Q Consensus 1127 vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~s 1206 (1433)
+..|+| .+..+. ....+
T Consensus 1293 -~~~l~~-------------------------------------~~~~LH-------------------------di~hs 1309 (1549)
T KOG0392|consen 1293 -VSHLAH-------------------------------------FNSSLH-------------------------DIQHS 1309 (1549)
T ss_pred -HHHHHH-------------------------------------hhhhHH-------------------------Hhhhc
Confidence 011111 000000 01237
Q ss_pred HHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcc
Q 000542 1207 SKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQ 1286 (1433)
Q Consensus 1207 sKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq 1286 (1433)
+|+.|+-++|.+-. .++....... ..+ ...++|++||||
T Consensus 1310 pKl~AL~qLL~eCG----------------------ig~~~~~~~g-~~s------------------~vsqHRiLIFcQ 1348 (1549)
T KOG0392|consen 1310 PKLSALKQLLSECG----------------------IGNNSDSEVG-TPS------------------DVSQHRILIFCQ 1348 (1549)
T ss_pred hhHHHHHHHHHHhC----------------------CCCCCccccc-Ccc------------------hhccceeEEeee
Confidence 89999999998732 2211111100 000 026799999999
Q ss_pred cHHHHHHHHHHHHhC---CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcCh
Q 000542 1287 WTKMLDLLEASLKDS---SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTT 1363 (1433)
Q Consensus 1287 ~t~~LdlLe~~L~~~---gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~ 1363 (1433)
|.+|+|+++.-|-+. .+.|.|+||++++.+|.+++++||+||.+.|||++|.+||+|||||.|++|||+|-.|||+.
T Consensus 1349 lK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMr 1428 (1549)
T KOG0392|consen 1349 LKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMR 1428 (1549)
T ss_pred HHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEEEecCCCchh
Confidence 999999999999765 67799999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1364 EDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1364 e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
..||+||||||||||.|.|||||++||+||+|+.+|.-|...++.+++.+- ..+..+..++|..||.
T Consensus 1429 DLQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN--asl~tM~TdqLLdlF~ 1495 (1549)
T KOG0392|consen 1429 DLQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN--ASLETMDTDQLLDLFT 1495 (1549)
T ss_pred hHHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc--ccccccCHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999998654 3567788999999996
No 7
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=9.1e-81 Score=772.73 Aligned_cols=556 Identities=46% Similarity=0.715 Sum_probs=481.7
Q ss_pred cCCCCCCCCCCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhh
Q 000542 649 ISQPNAEASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLE 728 (1433)
Q Consensus 649 l~~p~~e~~~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~ 728 (1433)
+.++..+...|.+.++++ |+....||+..+.....++||||||+||+|||+++|++++..+....
T Consensus 117 ~~~~~~~~~~~~~~~~~p----~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~----------- 181 (674)
T KOG1001|consen 117 IILYKANKISPKNTLRFP----LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSK----------- 181 (674)
T ss_pred hhhhhhhccCCcccccCC----HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCc-----------
Confidence 444555556666666666 66666777766666667799999999999999999999998654300
Q ss_pred hccccccccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEE
Q 000542 729 TLNLDEEDNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSV 808 (1433)
Q Consensus 729 ~~~~~~~~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~V 808 (1433)
+ .......+.||||||.+++.||..|+ ...+..+.+.+
T Consensus 182 -----~------------------------------------~~~~~~~kttLivcp~s~~~qW~~el-ek~~~~~~l~v 219 (674)
T KOG1001|consen 182 -----E------------------------------------EDRQKEFKTTLIVCPTSLLTQWKTEL-EKVTEEDKLSI 219 (674)
T ss_pred -----c------------------------------------hhhccccCceeEecchHHHHHHHHHH-hccCCccceEE
Confidence 0 00123457899999999999999999 66676889999
Q ss_pred EEEeCCCCCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000542 809 LVYHGSSRTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 809 lvyhG~~r~k~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk 888 (1433)
++||| |.++..++..||||||||.++..
T Consensus 220 ~v~~g--r~kd~~el~~~dVVltTy~il~~-------------------------------------------------- 247 (674)
T KOG1001|consen 220 YVYHG--RTKDKSELNSYDVVLTTYDILKN-------------------------------------------------- 247 (674)
T ss_pred EEecc--cccccchhcCCceEEeeHHHhhc--------------------------------------------------
Confidence 99999 88999999999999999999852
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchH
Q 000542 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~ 968 (1433)
++|..+.|.|||+||||+|+|.+++.+++++.|.+.+||||||||+||+++|+|++++|+..+||..+.
T Consensus 248 -----------~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~ 316 (674)
T KOG1001|consen 248 -----------SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQN 316 (674)
T ss_pred -----------ccccceeEEEEEeccccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhH
Confidence 347789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCCCCc-hhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHH
Q 000542 969 SFCSMIKVPISKNP-VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKE 1047 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~-~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~ 1047 (1433)
.|...+..|+.++. ..++++++.+|+.+|+||||....+|+|++.|||+...++.++++.+|+.+|..+....+.++..
T Consensus 317 ~~~~~i~~p~~~~~~~~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~ 396 (674)
T KOG1001|consen 317 YFKLLIQDPDERNKYKEGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSN 396 (674)
T ss_pred HHHHHhcChhhhhhHHHHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHH
Confidence 99999999999998 88999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcch
Q 000542 1048 YAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAV 1127 (1433)
Q Consensus 1048 ~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~v 1127 (1433)
++..|.+..+|..++..++||||+|+||.|+................ ...+...+..+ ..|.+|.+ ++.++
T Consensus 397 ~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~-------~~~~i~~l~~~-~~c~ic~~-~~~~~ 467 (674)
T KOG1001|consen 397 YANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSAAAL-------IIRLIVDLSVS-HWCHICCD-LDSFF 467 (674)
T ss_pred HhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccccccchH-------HHHHHHHHhhc-cccccccc-cccce
Confidence 99999999999999999999999999999876443222111111111 11144455555 89999999 88899
Q ss_pred hcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccH
Q 000542 1128 VSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSS 1207 (1433)
Q Consensus 1128 vt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ss 1207 (1433)
++.|+|.||.+|+.+.+....+. |++.|+..+....+++...+...+.+. . ..+.
T Consensus 468 it~c~h~~c~~c~~~~i~~~~~~-~~~~cr~~l~~~~l~s~~~~~~~~~~~---------------------~---~~s~ 522 (674)
T KOG1001|consen 468 ITRCGHDFCVECLKKSIQQSENA-PCPLCRNVLKEKKLLSANPLPSIINDL---------------------L---PESS 522 (674)
T ss_pred eecccchHHHHHHHhccccccCC-CCcHHHHHHHHHHHhhcccccchhhhc---------------------c---chhh
Confidence 99999999999999999887766 666899999888888765554433320 0 0488
Q ss_pred HHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEccc
Q 000542 1208 KIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQW 1287 (1433)
Q Consensus 1208 Ki~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~ 1287 (1433)
|+.++++.|+.... ... .|+||||||
T Consensus 523 ki~~~~~~l~~~~~-----------------------------------------------------s~~-~kiiifsq~ 548 (674)
T KOG1001|consen 523 KIYAFLKILQAKEM-----------------------------------------------------SEQ-PKIVIFSQL 548 (674)
T ss_pred hhHHHHHHHhhccC-----------------------------------------------------CCC-CceeeehhH
Confidence 99999998883100 003 499999999
Q ss_pred HHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHH
Q 000542 1288 TKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQA 1367 (1433)
Q Consensus 1288 t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QA 1367 (1433)
+.++++++..|...++.+.+++|.|+..+|.+.+..|..++.++||++|++|||.||||++|+|||++||||||+.|+||
T Consensus 549 ~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQa 628 (674)
T KOG1001|consen 549 IWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQA 628 (674)
T ss_pred HHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCC
Q 000542 1368 IDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGE 1412 (1433)
Q Consensus 1368 IGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~ 1412 (1433)
|+|+||+||+++|.|+||++++|+||||+++|++|+.++..++|+
T Consensus 629 idR~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 629 IDRAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred HHHHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHHHhhhccC
Confidence 999999999999999999999999999999999999999999875
No 8
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=2e-78 Score=777.51 Aligned_cols=473 Identities=29% Similarity=0.481 Sum_probs=395.5
Q ss_pred CCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccc
Q 000542 659 PDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNG 738 (1433)
Q Consensus 659 P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~ 738 (1433)
|. .+...|++||+.||+||+..... +.|||||||||||||+|+|+++...+..
T Consensus 163 P~-~i~~~Lr~YQleGlnWLi~l~~~---g~gGILADEMGLGKTlQaIalL~~L~~~----------------------- 215 (1033)
T PLN03142 163 PS-CIKGKMRDYQLAGLNWLIRLYEN---GINGILADEMGLGKTLQTISLLGYLHEY----------------------- 215 (1033)
T ss_pred Ch-HhccchHHHHHHHHHHHHHHHhc---CCCEEEEeCCCccHHHHHHHHHHHHHHh-----------------------
Confidence 44 45678999999999999987543 3789999999999999999999763211
Q ss_pred cccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 000542 739 IQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTK 818 (1433)
Q Consensus 739 ~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k 818 (1433)
....+|+|||||++++.||.+||.+|++ .+++++|+|....+
T Consensus 216 -----------------------------------~~~~gp~LIVvP~SlL~nW~~Ei~kw~p---~l~v~~~~G~~~eR 257 (1033)
T PLN03142 216 -----------------------------------RGITGPHMVVAPKSTLGNWMNEIRRFCP---VLRAVKFHGNPEER 257 (1033)
T ss_pred -----------------------------------cCCCCCEEEEeChHHHHHHHHHHHHHCC---CCceEEEeCCHHHH
Confidence 1123679999999999999999999987 68999999986432
Q ss_pred Cc-----ccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCc
Q 000542 819 DP-----CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGL 893 (1433)
Q Consensus 819 ~~-----~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~ 893 (1433)
.. .....+|||||||+++.++.
T Consensus 258 ~~~~~~~~~~~~~dVvITSYe~l~~e~----------------------------------------------------- 284 (1033)
T PLN03142 258 AHQREELLVAGKFDVCVTSFEMAIKEK----------------------------------------------------- 284 (1033)
T ss_pred HHHHHHHhcccCCCcceecHHHHHHHH-----------------------------------------------------
Confidence 11 12357999999999986421
Q ss_pred ccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhh
Q 000542 894 LLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSM 973 (1433)
Q Consensus 894 ~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~ 973 (1433)
..|..+.|++|||||||+|||..++++++++.|++.+||+|||||++|++.|||++++||.|+.|.+...|..+
T Consensus 285 ------~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~ 358 (1033)
T PLN03142 285 ------TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEW 358 (1033)
T ss_pred ------HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHH
Confidence 13667889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCCchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHccc
Q 000542 974 IKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGT 1053 (1433)
Q Consensus 974 i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~ 1053 (1433)
|..+........+.+|+.+|++||+||+|.+|.. .|||+.+.+++|.||+.|+++|..+.......+ ..+.
T Consensus 359 f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~-----~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l----~~g~ 429 (1033)
T PLN03142 359 FQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEK-----GLPPKKETILKVGMSQMQKQYYKALLQKDLDVV----NAGG 429 (1033)
T ss_pred HccccccchHHHHHHHHHHhhHHHhhhhHHHHhh-----hCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH----hccc
Confidence 9876555566678899999999999999999975 799999999999999999999998876543332 2221
Q ss_pred ccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCc
Q 000542 1054 VKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGH 1133 (1433)
Q Consensus 1054 ~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH 1133 (1433)
....++..+++||++|+||.|+....... +.
T Consensus 430 ---~~~~LlnilmqLRk~cnHP~L~~~~ep~~----------------------------------------~~------ 460 (1033)
T PLN03142 430 ---ERKRLLNIAMQLRKCCNHPYLFQGAEPGP----------------------------------------PY------ 460 (1033)
T ss_pred ---cHHHHHHHHHHHHHHhCCHHhhhcccccC----------------------------------------cc------
Confidence 23457888999999999998764211000 00
Q ss_pred ccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHH
Q 000542 1134 VFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAAL 1213 (1433)
Q Consensus 1134 ~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~all 1213 (1433)
..+ ......++|+..+.
T Consensus 461 ------------------------------------------------------~~~---------e~lie~SgKl~lLd 477 (1033)
T PLN03142 461 ------------------------------------------------------TTG---------EHLVENSGKMVLLD 477 (1033)
T ss_pred ------------------------------------------------------cch---------hHHhhhhhHHHHHH
Confidence 000 00112367888888
Q ss_pred HHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHH
Q 000542 1214 EVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDL 1293 (1433)
Q Consensus 1214 elL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~Ldl 1293 (1433)
++|..+. ..+.||||||||+.++++
T Consensus 478 kLL~~Lk-------------------------------------------------------~~g~KVLIFSQft~~Ldi 502 (1033)
T PLN03142 478 KLLPKLK-------------------------------------------------------ERDSRVLIFSQMTRLLDI 502 (1033)
T ss_pred HHHHHHH-------------------------------------------------------hcCCeEEeehhHHHHHHH
Confidence 7777632 267899999999999999
Q ss_pred HHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhh
Q 000542 1294 LEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAH 1372 (1433)
Q Consensus 1294 Le~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~-~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRah 1372 (1433)
|+.+|...|++|++|+|+++..+|+++|++|++++ ...|||+|++|||+|||||.|++||+||+||||+.+.||+||||
T Consensus 503 Led~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaH 582 (1033)
T PLN03142 503 LEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAH 582 (1033)
T ss_pred HHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhh
Confidence 99999999999999999999999999999999754 56799999999999999999999999999999999999999999
Q ss_pred ccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1373 RIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1373 RIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
||||+++|+||||++++||||+|++++.+|..+...+++.+... ....++.+||..||.
T Consensus 583 RIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~~Vi~~g~~~-~~~~~~~~eL~~ll~ 641 (1033)
T PLN03142 583 RIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGRLA-EQKTVNKDELLQMVR 641 (1033)
T ss_pred hcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHHHHHhcCccc-ccccCCHHHHHHHHH
Confidence 99999999999999999999999999999999999998765432 235688899988874
No 9
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=3.2e-79 Score=728.30 Aligned_cols=495 Identities=30% Similarity=0.501 Sum_probs=390.3
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
+.|.+||+.||+|+.-..+..+ .||||||||||||+|+||++++.+..
T Consensus 398 i~LkdYQlvGvNWL~Llyk~~l---~gILADEMGLGKTiQvIaFlayLkq~----------------------------- 445 (941)
T KOG0389|consen 398 IQLKDYQLVGVNWLLLLYKKKL---NGILADEMGLGKTIQVIAFLAYLKQI----------------------------- 445 (941)
T ss_pred CcccchhhhhHHHHHHHHHccc---cceehhhccCcchhHHHHHHHHHHHc-----------------------------
Confidence 5699999999999987776554 47999999999999999999875432
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD----- 819 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~----- 819 (1433)
...+|.|||||+|++.+|.+|+++|+| .|+|..|||+...+.
T Consensus 446 ------------------------------g~~gpHLVVvPsSTleNWlrEf~kwCP---sl~Ve~YyGSq~ER~~lR~~ 492 (941)
T KOG0389|consen 446 ------------------------------GNPGPHLVVVPSSTLENWLREFAKWCP---SLKVEPYYGSQDERRELRER 492 (941)
T ss_pred ------------------------------CCCCCcEEEecchhHHHHHHHHHHhCC---ceEEEeccCcHHHHHHHHHH
Confidence 124678999999999999999999998 799999999974331
Q ss_pred -cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccc
Q 000542 820 -PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIV 898 (1433)
Q Consensus 820 -~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~ 898 (1433)
...-..|||++|||..+... ++|
T Consensus 493 i~~~~~~ydVllTTY~la~~~--------kdD------------------------------------------------ 516 (941)
T KOG0389|consen 493 IKKNKDDYDVLLTTYNLAASS--------KDD------------------------------------------------ 516 (941)
T ss_pred HhccCCCccEEEEEeecccCC--------hHH------------------------------------------------
Confidence 11123899999999988631 111
Q ss_pred cCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccch-HHHHhhhccC
Q 000542 899 AGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVY-KSFCSMIKVP 977 (1433)
Q Consensus 899 ~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~-~~F~~~i~~p 977 (1433)
.+.|.+.+|+.||.||+|++||..|.+++.++.++|++|++|||||+||++.||+++|.|+.|..|... ..+...|...
T Consensus 517 Rsflk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k 596 (941)
T KOG0389|consen 517 RSFLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAK 596 (941)
T ss_pred HHHHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhcc
Confidence 234788899999999999999999999999999999999999999999999999999999999999754 4444444332
Q ss_pred CC-CCc-------hhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Q 000542 978 IS-KNP-------VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYA 1049 (1433)
Q Consensus 978 i~-~~~-------~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~ 1049 (1433)
-. ..+ ..++.+...+++||+|||.|.+|++ .|||+..++.+|.|+..|+.+|+.+............
T Consensus 597 ~~~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~-----~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~ 671 (941)
T KOG0389|consen 597 KTSDGDIENALLSQERISRAKTIMKPFILRRLKSQVLK-----QLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVS 671 (941)
T ss_pred CCccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-----hcCCccceeEeeecchHHHHHHHHHHHHHhhhccccc
Confidence 21 111 3457788999999999999999998 8999999999999999999999988665422211111
Q ss_pred HcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHH------HHHHHHhhhhcccccCCCCCC
Q 000542 1050 AAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQ------MYLLNCLEASLAICGICNDPP 1123 (1433)
Q Consensus 1050 ~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~------~~ll~~le~~~~~C~iC~~~~ 1123 (1433)
.. ....+ -..||+||++++||.|.+.+..+..+ ..|++.+..+.. .++...++...
T Consensus 672 ~n-s~~~~----~~vlmqlRK~AnHPLL~R~~Y~de~L---~~mak~il~e~ay~~~n~qyIfEDm~~ms---------- 733 (941)
T KOG0389|consen 672 KN-SELKS----GNVLMQLRKAANHPLLFRSIYTDEKL---RKMAKRILNEPAYKKANEQYIFEDMEVMS---------- 733 (941)
T ss_pred cc-ccccc----chHHHHHHHHhcChhHHHHhccHHHH---HHHHHHHhCchhhhhcCHHHHHHHHHhhh----------
Confidence 11 00111 34688999999999999877665433 334444433321 11111111100
Q ss_pred CcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcc
Q 000542 1124 EDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVW 1203 (1433)
Q Consensus 1124 e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~ 1203 (1433)
+ -=-|.+|.+.- .+ .........|
T Consensus 734 -D----felHqLc~~f~--~~-------------------------------------------------~~f~L~d~~~ 757 (941)
T KOG0389|consen 734 -D----FELHQLCCQFR--HL-------------------------------------------------SKFQLKDDLW 757 (941)
T ss_pred -H----HHHHHHHHhcC--CC-------------------------------------------------cccccCCchh
Confidence 0 01144443310 00 0001112345
Q ss_pred cccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEE
Q 000542 1204 YNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIV 1283 (1433)
Q Consensus 1204 ~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvII 1283 (1433)
..|+|++.|.++|.++. ..|+||||
T Consensus 758 mdSgK~r~L~~LLp~~k-------------------------------------------------------~~G~RVLi 782 (941)
T KOG0389|consen 758 MDSGKCRKLKELLPKIK-------------------------------------------------------KKGDRVLI 782 (941)
T ss_pred hhhhhHhHHHHHHHHHh-------------------------------------------------------hcCCEEEE
Confidence 56899999999988742 26899999
Q ss_pred EcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcCh
Q 000542 1284 FSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTT 1363 (1433)
Q Consensus 1284 FSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~ 1363 (1433)
|||||.|||+|+..|...++.|+|+||++....|+.+|+.|+++.++.|+|+||+|||.||||++||+||++|..+||..
T Consensus 783 FSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~d 862 (941)
T KOG0389|consen 783 FSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYD 862 (941)
T ss_pred eeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEeecCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 000542 1364 EDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1364 e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~ 1414 (1433)
..||.+|+||+||+|+|+|||||+++||||.|+++.++|..+-..+.+.++
T Consensus 863 D~QAEDRcHRvGQtkpVtV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 863 DKQAEDRCHRVGQTKPVTVYRLITKSTIEEGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred cchhHHHHHhhCCcceeEEEEEEecCcHHHHHHHHHHHhhhhhhhhccCcc
Confidence 999999999999999999999999999999999999999999877765443
No 10
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=1.4e-76 Score=714.91 Aligned_cols=581 Identities=30% Similarity=0.458 Sum_probs=423.7
Q ss_pred CCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000542 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
+-+.+|...|+.||+.||.||+...... ..||||||||||||||+|+|+++.-
T Consensus 607 pvPsLLrGqLReYQkiGLdWLatLYekn---lNGILADEmGLGKTIQtISllAhLA------------------------ 659 (1958)
T KOG0391|consen 607 PVPSLLRGQLREYQKIGLDWLATLYEKN---LNGILADEMGLGKTIQTISLLAHLA------------------------ 659 (1958)
T ss_pred CchHHHHHHHHHHHHhhHHHHHHHHHhc---ccceehhhhcccchhHHHHHHHHHH------------------------
Confidence 4456778889999999999999987765 4599999999999999999997632
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000542 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~ 817 (1433)
| .....+|.|||||.+++.+|+-|+++|++ .++++.|+|+.+.
T Consensus 660 ----------------C------------------eegnWGPHLIVVpTsviLnWEMElKRwcP---glKILTYyGs~kE 702 (1958)
T KOG0391|consen 660 ----------------C------------------EEGNWGPHLIVVPTSVILNWEMELKRWCP---GLKILTYYGSHKE 702 (1958)
T ss_pred ----------------h------------------cccCCCCceEEeechhhhhhhHHHhhhCC---cceEeeecCCHHH
Confidence 1 02446789999999999999999999998 7999999999765
Q ss_pred CC--cccc---cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000542 818 KD--PCEL---AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 818 k~--~~~l---~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~ 892 (1433)
+. ...| ..|.|.||+|..+..+.
T Consensus 703 rkeKRqgW~kPnaFHVCItSYklv~qd~---------------------------------------------------- 730 (1958)
T KOG0391|consen 703 RKEKRQGWAKPNAFHVCITSYKLVFQDL---------------------------------------------------- 730 (1958)
T ss_pred HHHHhhcccCCCeeEEeehhhHHHHhHH----------------------------------------------------
Confidence 42 2233 46889999999997432
Q ss_pred cccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHh
Q 000542 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~ 972 (1433)
..|.+.+|..+||||||+|||.++++++++..+++.+|++|||||+||++.|||++++||+|..|.+...|..
T Consensus 731 -------~AFkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~ 803 (1958)
T KOG0391|consen 731 -------TAFKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKP 803 (1958)
T ss_pred -------HHHHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHH
Confidence 1256678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCC-------chhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHH
Q 000542 973 MIKVPISKN-------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQF 1045 (1433)
Q Consensus 973 ~i~~pi~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~ 1045 (1433)
||.+|+... ..+.+.+|+++|++|+|||+|.+|.+ .||.|.+++++|.|+..||.+|+.+..+ ..-
T Consensus 804 wfsnPltgmiEgsqeyn~klV~RLHkVlrPfiLRRlK~dVEK-----QlpkKyEHvv~CrLSkRQR~LYDDfmsq--~~T 876 (1958)
T KOG0391|consen 804 WFSNPLTGMIEGSQEYNHKLVIRLHKVLRPFILRRLKRDVEK-----QLPKKYEHVVKCRLSKRQRALYDDFMSQ--PGT 876 (1958)
T ss_pred HhcCcchhhcccchhhchHHHHHHHHHhHHHHHHHHHHHHHH-----hcchhhhhheeeehhhhHHHHHHHHhhc--cch
Confidence 999998643 23447899999999999999999987 8999999999999999999999988543 233
Q ss_pred HHHHHcccccchHHHHHHHHHHHHHHccCcccccccC-------------ch-hhhhhHH--------------------
Q 000542 1046 KEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFD-------------SN-SLLRSSV-------------------- 1091 (1433)
Q Consensus 1046 ~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~-------------~~-s~~~~s~-------------------- 1091 (1433)
++.+.. .+++++|..||+||++|+||-|+...- .. ...+...
T Consensus 877 KetLkS----GhfmsVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~ 952 (1958)
T KOG0391|consen 877 KETLKS----GHFMSVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSA 952 (1958)
T ss_pred hhHhhc----CchhHHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCccc
Confidence 344444 478999999999999999998763210 00 0000000
Q ss_pred ----------------------------------------------------H---------------------------
Q 000542 1092 ----------------------------------------------------E--------------------------- 1092 (1433)
Q Consensus 1092 ----------------------------------------------------e--------------------------- 1092 (1433)
+
T Consensus 953 vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~ 1032 (1958)
T KOG0391|consen 953 VPAVRPASAKLSASPLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQ 1032 (1958)
T ss_pred ccccchhhhhhcccccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcH
Confidence 0
Q ss_pred -HHhh---------------------------------------------------------------------------
Q 000542 1093 -MAKK--------------------------------------------------------------------------- 1096 (1433)
Q Consensus 1093 -~a~~--------------------------------------------------------------------------- 1096 (1433)
+.++
T Consensus 1033 ~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gta 1112 (1958)
T KOG0391|consen 1033 SRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTA 1112 (1958)
T ss_pred hHhhcCCCceeeeeecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchh
Confidence 0000
Q ss_pred --------------chHHHHHHHHHHhhh------------hcccccCCCC--------CCCcchhcccCc-ccchhhhh
Q 000542 1097 --------------LPQERQMYLLNCLEA------------SLAICGICND--------PPEDAVVSICGH-VFCNQCIC 1141 (1433)
Q Consensus 1097 --------------l~~e~~~~ll~~le~------------~~~~C~iC~~--------~~e~~vvt~CgH-~fC~~Ci~ 1141 (1433)
+..+++..+..+|.. .+.+|.+=++ .+...+++.|.- -.|..-|.
T Consensus 1113 t~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iId 1192 (1958)
T KOG0391|consen 1113 TLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIID 1192 (1958)
T ss_pred hhccCCCccccccchhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHH
Confidence 000001011111110 0011222211 112233344321 12222232
Q ss_pred hhhc------cCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHHHH
Q 000542 1142 ERLT------ADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEV 1215 (1433)
Q Consensus 1142 e~l~------~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~allel 1215 (1433)
.+.. .....|....-.-.+....-.....+...+........ ....-....+...=..|...|+.+|.-+
T Consensus 1193 rfafv~ppvva~ppslra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q----~~~~r~lqFPelrLiqyDcGKLQtLAiL 1268 (1958)
T KOG0391|consen 1193 RFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQ----TTAPRLLQFPELRLIQYDCGKLQTLAIL 1268 (1958)
T ss_pred HheeecccccCCChhhcCCCCCcccchHHHHHHHHHHHHhccccchhh----ccchhhhcCcchheeecccchHHHHHHH
Confidence 2211 11122221111111111100000111111111000000 0011111222233334677888888888
Q ss_pred HHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHH
Q 000542 1216 LQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLE 1295 (1433)
Q Consensus 1216 L~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe 1295 (1433)
|+.+ +..++++|||+|.+.|||+|+
T Consensus 1269 LqQL-------------------------------------------------------k~eghRvLIfTQMtkmLDVLe 1293 (1958)
T KOG0391|consen 1269 LQQL-------------------------------------------------------KSEGHRVLIFTQMTKMLDVLE 1293 (1958)
T ss_pred HHHH-------------------------------------------------------HhcCceEEehhHHHHHHHHHH
Confidence 8774 237899999999999999999
Q ss_pred HHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccC
Q 000542 1296 ASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1296 ~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIG 1375 (1433)
.+|..+|+.|+||||.++.++|++++++||.|..+.++|+|+++||+|+||+.|++|||||..|||+...||.+|+||||
T Consensus 1294 qFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIG 1373 (1958)
T KOG0391|consen 1294 QFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIG 1373 (1958)
T ss_pred HHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhcC
Q 000542 1376 QTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1376 Qkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~~ 1433 (1433)
|+|+|||||||.+.|||+.|++....|+.+-+-++.+++. ...-++..+++.||++
T Consensus 1374 qtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdf--Tt~ff~q~ti~dLFd~ 1429 (1958)
T KOG0391|consen 1374 QTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDF--TTAFFKQRTIRDLFDV 1429 (1958)
T ss_pred CccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCc--cHHHHhhhhHHHHhcC
Confidence 9999999999999999999999999999998888765543 2344667788888864
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=5.7e-74 Score=669.51 Aligned_cols=544 Identities=31% Similarity=0.476 Sum_probs=392.0
Q ss_pred CCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccc
Q 000542 660 DGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGI 739 (1433)
Q Consensus 660 ~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~ 739 (1433)
|.++++.|..||..|++|++...... -.||||||||||||+|+|+++++.. ++.
T Consensus 561 Pkil~ctLKEYQlkGLnWLvnlYdqG---iNGILADeMGLGKTVQsisvlAhLa--------------E~~--------- 614 (1185)
T KOG0388|consen 561 PKILKCTLKEYQLKGLNWLVNLYDQG---INGILADEMGLGKTVQSISVLAHLA--------------ETH--------- 614 (1185)
T ss_pred chhhhhhhHHHhhccHHHHHHHHHcc---ccceehhhhccchhHHHHHHHHHHH--------------Hhc---------
Confidence 45788899999999999999887654 3499999999999999999997642 111
Q ss_pred ccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 000542 740 QVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD 819 (1433)
Q Consensus 740 ~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~ 819 (1433)
.-.+|.|||+|+++|.+|+.||.+|+| .++++.|.|+...+.
T Consensus 615 -----------------------------------nIwGPFLVVtpaStL~NWaqEisrFlP---~~k~lpywGs~~eRk 656 (1185)
T KOG0388|consen 615 -----------------------------------NIWGPFLVVTPASTLHNWAQEISRFLP---SFKVLPYWGSPSERK 656 (1185)
T ss_pred -----------------------------------cCCCceEEeehHHHHhHHHHHHHHhCc---cceeecCcCChhhhH
Confidence 123689999999999999999999998 799999999865432
Q ss_pred c-----------ccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000542 820 P-----------CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 820 ~-----------~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk 888 (1433)
. ...+.++||||||+++..+ +
T Consensus 657 iLrKfw~rKnmY~rna~fhVviTSYQlvVtD-----------e------------------------------------- 688 (1185)
T KOG0388|consen 657 ILRKFWNRKNMYRRNAPFHVVITSYQLVVTD-----------E------------------------------------- 688 (1185)
T ss_pred HHHHhcchhhhhccCCCceEEEEeeeeeech-----------H-------------------------------------
Confidence 1 2446789999999998531 1
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchH
Q 000542 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~ 968 (1433)
..|.+++|..+||||||.||...+.+++.+..++++.|++||||||||+..|||.+|+|++|..|++..
T Consensus 689 -----------ky~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshn 757 (1185)
T KOG0388|consen 689 -----------KYLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHN 757 (1185)
T ss_pred -----------HHHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchH
Confidence 137889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCCCC-------chhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHH
Q 000542 969 SFCSMIKVPISKN-------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINS 1041 (1433)
Q Consensus 969 ~F~~~i~~pi~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~ 1041 (1433)
+|.+||..-|+.. ..+.+++|+.+|++|||||.|++|.. +|..+++..++|+|+..|+.+|+.+....
T Consensus 758 eFseWFSKdIEshAe~~~tlneqqL~RLH~ILKPFMLRRvKkdV~s-----ELg~Kteidv~CdLs~RQ~~lYq~ik~~i 832 (1185)
T KOG0388|consen 758 EFSEWFSKDIESHAEMNTTLNEQQLQRLHAILKPFMLRRVKKDVIS-----ELGQKTEIDVYCDLSYRQKVLYQEIKRSI 832 (1185)
T ss_pred HHHHHHhhhhHhHHHhcCCcCHHHHHHHHHHHhHHHHHHHHHHHHH-----HhccceEEEEEechhHHHHHHHHHHHHHh
Confidence 9999998877643 35668999999999999999999986 89999999999999999999999885432
Q ss_pred HHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhh--------hhHHH-----HHhhchHH---HHHHH
Q 000542 1042 RDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLL--------RSSVE-----MAKKLPQE---RQMYL 1105 (1433)
Q Consensus 1042 ~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~--------~~s~e-----~a~~l~~e---~~~~l 1105 (1433)
. .+....+++.||++|+||.|++.....+-+ ...+. +..+++.- ....+
T Consensus 833 S---------------~~E~~~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~ 897 (1185)
T KOG0388|consen 833 S---------------SMEMENLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEM 897 (1185)
T ss_pred h---------------HHHHHHHHHHHHHhcCChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHH
Confidence 2 122234789999999999998654332110 00000 00011110 00000
Q ss_pred --HHHhhhhcccccCC---C-CCCC---cchh--cccCc-ccch-----hhhhhhhcc---------------------C
Q 000542 1106 --LNCLEASLAICGIC---N-DPPE---DAVV--SICGH-VFCN-----QCICERLTA---------------------D 1147 (1433)
Q Consensus 1106 --l~~le~~~~~C~iC---~-~~~e---~~vv--t~CgH-~fC~-----~Ci~e~l~~---------------------~ 1147 (1433)
.+..+.-..+|..- + +++- .+.+ ...|. +|-. ..+...+.. .
T Consensus 898 ~~fniye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~ 977 (1185)
T KOG0388|consen 898 FRFNIYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQR 977 (1185)
T ss_pred HHHhHHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhh
Confidence 00011111122211 1 1110 0000 01111 0100 000000000 0
Q ss_pred CCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCccccc---CCccCCcccccHHHHHHHHHHHhhcCCCC
Q 000542 1148 DNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVE---APSCEGVWYNSSKIKAALEVLQSLAKPRG 1224 (1433)
Q Consensus 1148 ~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~---~~~~~~~~~~ssKi~allelL~~l~k~~~ 1224 (1433)
...|..|+.... ..|-...++.+ +++.......+.. .++.......|.|+..|-++|.++
T Consensus 978 ~~y~y~P~v~ap---------PvLI~~ead~P---eId~E~~~~pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kL----- 1040 (1185)
T KOG0388|consen 978 HVYCYSPVVAAP---------PVLISNEADLP---EIDLENRHIPLNTTIYVPPMNTFITDSGKLVVLDELLPKL----- 1040 (1185)
T ss_pred heeeeccccCCC---------CeeeecccCCC---CCCccccCcccccceecCcHHhhhccccceeeHHHHHHHh-----
Confidence 001211111110 00111111111 0000000000000 011111122455555555555442
Q ss_pred CcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhCCCc
Q 000542 1225 NTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQ 1304 (1433)
Q Consensus 1225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~gI~ 1304 (1433)
+..++++|+|.|.|.|+++|+.+|..+|++
T Consensus 1041 --------------------------------------------------kaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ 1070 (1185)
T KOG0388|consen 1041 --------------------------------------------------KAEGHRVLMYFQMTKMIDLIEDYLVYRGYT 1070 (1185)
T ss_pred --------------------------------------------------hcCCceEEehhHHHHHHHHHHHHHHhhccc
Confidence 348999999999999999999999999999
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEE
Q 000542 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLR 1384 (1433)
Q Consensus 1305 ~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~Vyr 1384 (1433)
|+|+||+....+|..+|.+|+. +++.|||+||+|||+|||||+|++|||||..|||+...||++|+||+||||+|+|||
T Consensus 1071 ylRLDGSsk~~dRrd~vrDwQ~-sdiFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyr 1149 (1185)
T KOG0388|consen 1071 YLRLDGSSKASDRRDVVRDWQA-SDIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYR 1149 (1185)
T ss_pred eEEecCcchhhHHHHHHhhccC-CceEEEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeee
Confidence 9999999999999999999999 999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 000542 1385 LTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1385 Li~kdTIEErIl~lq~kK~~l~~~~lg~d~ 1414 (1433)
|++++||||+|+++..+|.+...-++.+..
T Consensus 1150 l~~rgTvEEk~l~rA~qK~~vQq~Vm~G~~ 1179 (1185)
T KOG0388|consen 1150 LITRGTVEEKVLERANQKDEVQQMVMHGNI 1179 (1185)
T ss_pred ecccccHHHHHHHHhhhHHHHHHHHHcCCc
Confidence 999999999999999999998887775543
No 12
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=9.9e-66 Score=633.23 Aligned_cols=494 Identities=27% Similarity=0.379 Sum_probs=385.8
Q ss_pred CCCccccCCchHHHHHHHHHHHhhccCC---CCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000542 659 PDGVLAVPLLRHQRIALSWMVQKETSSL---HCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 659 P~~~l~v~L~phQk~av~wMl~rE~~~~---~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~ 735 (1433)
++..++-.|+|||++|+.||.+--.+.. ...|+|+||+||+|||+++|++|......
T Consensus 231 ~dP~l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq-------------------- 290 (776)
T KOG0390|consen 231 IDPLLKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQ-------------------- 290 (776)
T ss_pred ecccHhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHh--------------------
Confidence 3445677799999999999998766542 45889999999999999999999764321
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000542 736 DNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSS 815 (1433)
Q Consensus 736 ~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~ 815 (1433)
.|.. .+....+|||||++|+.+|++|+.||... ..+..+.+.|..
T Consensus 291 --------------~P~~--------------------~~~~~k~lVV~P~sLv~nWkkEF~KWl~~-~~i~~l~~~~~~ 335 (776)
T KOG0390|consen 291 --------------FPQA--------------------KPLINKPLVVAPSSLVNNWKKEFGKWLGN-HRINPLDFYSTK 335 (776)
T ss_pred --------------CcCc--------------------cccccccEEEccHHHHHHHHHHHHHhccc-cccceeeeeccc
Confidence 1100 01235689999999999999999999763 478888888877
Q ss_pred CCC---------CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccC
Q 000542 816 RTK---------DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQ 886 (1433)
Q Consensus 816 r~k---------~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~ 886 (1433)
+.. .....-.+-|.|.+|++++..+
T Consensus 336 ~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~---------------------------------------------- 369 (776)
T KOG0390|consen 336 KSSWIKLKSILFLGYKQFTTPVLIISYETASDYC---------------------------------------------- 369 (776)
T ss_pred chhhhhhHHHHHhhhhheeEEEEeccHHHHHHHH----------------------------------------------
Confidence 641 0111223458899999886321
Q ss_pred CCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccc
Q 000542 887 KKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAV 966 (1433)
Q Consensus 887 kk~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~ 966 (1433)
..+....+++||+||+|+.||..+.+++++..|+..+|++|||||+||++.|+|+++.|.+|+.+..
T Consensus 370 -------------~~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs 436 (776)
T KOG0390|consen 370 -------------RKILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGS 436 (776)
T ss_pred -------------HHHhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccc
Confidence 1145566889999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhhhccCCCCCch-----------hhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHH
Q 000542 967 YKSFCSMIKVPISKNPV-----------KGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYS 1035 (1433)
Q Consensus 967 ~~~F~~~i~~pi~~~~~-----------~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~ 1035 (1433)
...|...+..|+.+... ..++.|..+++.|++||+-+.+.+ .||++.+.++.+.+++.|+.+|.
T Consensus 437 ~~sf~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k-----~LP~k~e~vv~~n~t~~Q~~~~~ 511 (776)
T KOG0390|consen 437 ISSFKKKFEIPILRGRDADASEEDREREERLQELRELTNKFILRRTGDILLK-----YLPGKYEYVVFCNPTPIQKELYK 511 (776)
T ss_pred hHHHHHHhhcccccccCCCcchhhhhhHHHHHHHHHHHHhheeecccchhhh-----hCCCceeEEEEeCCcHHHHHHHH
Confidence 99999999998866322 236789999999999999966655 89999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhccc
Q 000542 1036 QLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAI 1115 (1433)
Q Consensus 1036 ~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~ 1115 (1433)
.+.... .. ..+ . .+ .|..++.|+++|+||.|+...+.
T Consensus 512 ~l~~~~-~~-~~~--~-----~~--~l~~~~~L~k~cnhP~L~~~~~~-------------------------------- 548 (776)
T KOG0390|consen 512 KLLDSM-KM-RTL--K-----GY--ALELITKLKKLCNHPSLLLLCEK-------------------------------- 548 (776)
T ss_pred HHHHHH-Hh-hhh--h-----cc--hhhHHHHHHHHhcCHHhhccccc--------------------------------
Confidence 986542 11 111 0 11 57778899999999988741100
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCccccc
Q 000542 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVE 1195 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~ 1195 (1433)
|.. ++.. +....+. .....
T Consensus 549 ---~~~----------------------------------e~~~------~~~~~~~-----------------~~~~~- 567 (776)
T KOG0390|consen 549 ---TEK----------------------------------EKAF------KNPALLL-----------------DPGKL- 567 (776)
T ss_pred ---ccc----------------------------------cccc------cChHhhh-----------------ccccc-
Confidence 000 0000 0000000 00000
Q ss_pred CCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccc
Q 000542 1196 APSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIK 1275 (1433)
Q Consensus 1196 ~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~ 1275 (1433)
.........+.|+..|+.++....+
T Consensus 568 -~~~~~~~~ks~kl~~L~~ll~~~~e------------------------------------------------------ 592 (776)
T KOG0390|consen 568 -KLDAGDGSKSGKLLVLVFLLEVIRE------------------------------------------------------ 592 (776)
T ss_pred -ccccccchhhhHHHHHHHHHHHHhh------------------------------------------------------
Confidence 0000111236777777776644211
Q ss_pred cCCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCc-cEEEeeccccccccCccccCEEEE
Q 000542 1276 LGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEV-SVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1276 ~~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v-~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
....|+++-++++.++++++..++-+|..++++||+|+..+|+.+|+.||+.++. +|||+|++|||+||||+.|+|||+
T Consensus 593 k~~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil 672 (776)
T KOG0390|consen 593 KLLVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLIL 672 (776)
T ss_pred hcceEEEEeccHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEE
Confidence 1457999999999999999999999999999999999999999999999997666 999999999999999999999999
Q ss_pred EcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
|||.|||+.+.|||+||||.||+|+|+||||++.||+||+|+++|-.|..+-..+|+..+... .....++++.||.
T Consensus 673 ~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatGtiEEk~~qrq~~K~~lS~~v~~~~~~~~--~~~~~~~~~~lf~ 748 (776)
T KOG0390|consen 673 FDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATGTIEEKIYQRQTHKEGLSSMVFDEEEDVE--KHFFTEDLKTLFD 748 (776)
T ss_pred eCCCCCchhHHHHHHHhccCCCcceEEEEEeecCCCchHHHHHHHHHhhhhhheEEecccccc--cccchHHHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999997765432 2234478888875
No 13
>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=1.9e-67 Score=640.02 Aligned_cols=460 Identities=31% Similarity=0.493 Sum_probs=382.0
Q ss_pred CCCCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000542 656 ASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 656 ~~~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~ 735 (1433)
+..|.-+....|++||+.||.||+...... .-||||||||||||+++|+||.+....
T Consensus 384 ~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNn---LNGILADEMGLGKTIQtIsLitYLmE~-------------------- 440 (1157)
T KOG0386|consen 384 AKQPSSLQGGELKEYQLHGLQWMVSLYNNN---LNGILADEMGLGKTIQTISLITYLMEH-------------------- 440 (1157)
T ss_pred ccCcchhcCCCCchhhhhhhHHHhhccCCC---cccccchhcccchHHHHHHHHHHHHHH--------------------
Confidence 345766777889999999999999887765 459999999999999999999874210
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000542 736 DNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSS 815 (1433)
Q Consensus 736 ~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~ 815 (1433)
....+|.|||||.++|.+|..|+.+|.| .+..++|.|..
T Consensus 441 --------------------------------------K~~~GP~LvivPlstL~NW~~Ef~kWaP---Sv~~i~YkGtp 479 (1157)
T KOG0386|consen 441 --------------------------------------KQMQGPFLIIVPLSTLVNWSSEFPKWAP---SVQKIQYKGTP 479 (1157)
T ss_pred --------------------------------------cccCCCeEEeccccccCCchhhcccccc---ceeeeeeeCCH
Confidence 1223689999999999999999999977 79999999986
Q ss_pred CCCC----cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCC
Q 000542 816 RTKD----PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPD 891 (1433)
Q Consensus 816 r~k~----~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~ 891 (1433)
..+. .....+|+|++|||+.+.++
T Consensus 480 ~~R~~l~~qir~gKFnVLlTtyEyiikd---------------------------------------------------- 507 (1157)
T KOG0386|consen 480 QQRSGLTKQQRHGKFNVLLTTYEYIIKD---------------------------------------------------- 507 (1157)
T ss_pred HHHhhHHHHHhcccceeeeeeHHHhcCC----------------------------------------------------
Confidence 4432 12236999999999988631
Q ss_pred CcccccccCCccccCccEEEEcCccccCChhhHHHHHHH-hcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHH
Q 000542 892 GLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACW-GLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSF 970 (1433)
Q Consensus 892 ~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~-~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F 970 (1433)
+..|.++.|..+||||+|+|||..++.+..+. ...+.+|++|||||+||++.|||++|+||-|..|.+...|
T Consensus 508 -------k~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~F 580 (1157)
T KOG0386|consen 508 -------KALLSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAF 580 (1157)
T ss_pred -------HHHHhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHH
Confidence 13488999999999999999999999998887 5589999999999999999999999999999999999999
Q ss_pred HhhhccCCCCCchh----------hHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHH
Q 000542 971 CSMIKVPISKNPVK----------GYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEIN 1040 (1433)
Q Consensus 971 ~~~i~~pi~~~~~~----------~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~ 1040 (1433)
..||..|+.....+ .+.+|+.+|+||++||.|++|.. .||.+++.+++|++|.-|+.+|..+...
T Consensus 581 eqWFN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~-----~LPdKve~viKC~mSalQq~lY~~m~~~ 655 (1157)
T KOG0386|consen 581 EQWFNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQ-----ELPDKVEDVIKCDMSALQQSLYKQMQNK 655 (1157)
T ss_pred HHHhhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHhh-----hCchhhhHhhheehhhhhHhhhHHHHhC
Confidence 99999999766521 26899999999999999999986 8999999999999999999999887533
Q ss_pred HHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCC
Q 000542 1041 SRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICN 1120 (1433)
Q Consensus 1041 ~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~ 1120 (1433)
-+... +....+..+..+...++.||++|+||++....+.. |..+.
T Consensus 656 g~l~~----d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~-------------------------------~~~~~ 700 (1157)
T KOG0386|consen 656 GQLLK----DTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENS-------------------------------YTLHY 700 (1157)
T ss_pred CCCCc----CchhccccchhhhhHhHHHHHhcCCchhhhhhccc-------------------------------ccccc
Confidence 21111 11122345566788899999999999886321100 00000
Q ss_pred CCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccC
Q 000542 1121 DPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCE 1200 (1433)
Q Consensus 1121 ~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~ 1200 (1433)
++ .
T Consensus 701 ~~-----------------------------------------------------------------------------~ 703 (1157)
T KOG0386|consen 701 DI-----------------------------------------------------------------------------K 703 (1157)
T ss_pred Ch-----------------------------------------------------------------------------h
Confidence 00 0
Q ss_pred CcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCe
Q 000542 1201 GVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEK 1280 (1433)
Q Consensus 1201 ~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eK 1280 (1433)
..+..+.|++.+-.+|-++ ++.+++
T Consensus 704 dL~R~sGKfELLDRiLPKL-------------------------------------------------------katgHR 728 (1157)
T KOG0386|consen 704 DLVRVSGKFELLDRILPKL-------------------------------------------------------KATGHR 728 (1157)
T ss_pred HHHHhccHHHHHHhhhHHH-------------------------------------------------------HhcCcc
Confidence 1122356666555555443 347899
Q ss_pred EEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEEEcCCC
Q 000542 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWW 1359 (1433)
Q Consensus 1281 vIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d-~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~W 1359 (1433)
|+.|+|.|+++++++.+|.-.++.|+|+||++..++|...++.||.. ..+++||+|++|||+|||||.|++||++|..|
T Consensus 729 VLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdw 808 (1157)
T KOG0386|consen 729 VLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDW 808 (1157)
T ss_pred hhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCC
Confidence 99999999999999999999999999999999999999999999984 46999999999999999999999999999999
Q ss_pred CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHh
Q 000542 1360 NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAF 1410 (1433)
Q Consensus 1360 NPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~l 1410 (1433)
||..+.||.+|+|||||+++|.|.||++-++|||+|++.+..|..+...+.
T Consensus 809 np~~d~qaqdrahrigq~~evRv~rl~tv~sveE~il~~a~~Kl~~d~kvi 859 (1157)
T KOG0386|consen 809 NPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKLDVDGKVI 859 (1157)
T ss_pred CchhHHHHHHHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhcCchHhhh
Confidence 999999999999999999999999999999999999999999988766554
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=5.1e-61 Score=573.12 Aligned_cols=580 Identities=25% Similarity=0.328 Sum_probs=381.5
Q ss_pred cccCCchHHHHHHHHHHHhhc------cCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccc
Q 000542 663 LAVPLLRHQRIALSWMVQKET------SSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEED 736 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~------~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~ 736 (1433)
|...|.|||..||.||+.--- ....+.||||||=||||||+|.|+++.....
T Consensus 665 lv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~---------------------- 722 (1567)
T KOG1015|consen 665 LVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLL---------------------- 722 (1567)
T ss_pred HHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHH----------------------
Confidence 345699999999999997322 2235689999999999999999999865321
Q ss_pred cccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcC---CCCcEEEEEeC
Q 000542 737 NGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTS---KGSLSVLVYHG 813 (1433)
Q Consensus 737 ~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~---~~~L~VlvyhG 813 (1433)
|. ..-.++.|||||.+++.+|.+|+++|.+. ...|.|.-+..
T Consensus 723 -----------------c~------------------klg~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~ 767 (1567)
T KOG1015|consen 723 -----------------CD------------------KLGFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELAT 767 (1567)
T ss_pred -----------------hh------------------ccCCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhh
Confidence 00 01235689999999999999999999873 12455555544
Q ss_pred CCCCCCc----ccc-cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000542 814 SSRTKDP----CEL-AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 814 ~~r~k~~----~~l-~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk 888 (1433)
..+..+. ..| ....|.|+.|+++++.-.. +..| .| +
T Consensus 768 vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~g----------------------------r~vk-----~r---k--- 808 (1567)
T KOG1015|consen 768 VKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQG----------------------------RNVK-----SR---K--- 808 (1567)
T ss_pred ccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcc----------------------------cchh-----hh---H---
Confidence 4442221 112 2457999999999753110 0000 00 0
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchH
Q 000542 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~ 968 (1433)
..+.....|..-+.++||+||||.|||..+.+++|+.++++++|++|||||+||++.|.|.+++|++++.++...
T Consensus 809 -----~ke~f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~ 883 (1567)
T KOG1015|consen 809 -----LKEIFNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIK 883 (1567)
T ss_pred -----HHHHHHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcH
Confidence 011223346777889999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccCCCCCch------------hhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHH
Q 000542 969 SFCSMIKVPISKNPV------------KGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQ 1036 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~~------------~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~ 1036 (1433)
+|.++|.+||.++.. .+-+-|..+|+.++-|+-...+.. .|||+++.++.|.||+.|+.+|+.
T Consensus 884 EfrNRFvNpI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk-----~LPPK~eyVi~vrltelQ~~LYq~ 958 (1567)
T KOG1015|consen 884 EFRNRFVNPIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTK-----FLPPKHEYVIAVRLTELQCKLYQY 958 (1567)
T ss_pred HHHHhhcCccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc-----cCCCceeEEEEEeccHHHHHHHHH
Confidence 999999999988742 123458889999998887776654 799999999999999999999998
Q ss_pred HHHHHHHHHHHHHHccccc---chHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhc
Q 000542 1037 LEINSRDQFKEYAAAGTVK---QNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASL 1113 (1433)
Q Consensus 1037 L~~~~~~~~~~~~~~g~~~---~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~ 1113 (1433)
++.... . ..+... ....++|+.+.-|+++..||..+.-.... . ..+.+..+ ..
T Consensus 959 yL~h~~-~-----~G~d~eg~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~------~-enkR~~se-----------dd 1014 (1567)
T KOG1015|consen 959 YLDHLT-G-----VGNDSEGGRGAGARLFQDFQMLSRIWTHPWCLQLDSIS------K-ENKRYFSE-----------DD 1014 (1567)
T ss_pred HHhhcc-c-----cCCccccccchhhhHHHHHHHHHHHhcCCCceeechhh------h-hhcccccc-----------cc
Confidence 754111 0 011111 24567888888999999999754311100 0 00010000 00
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhcc-CCCCCCCccccccccccchhhhhhhccccccC-CCCCCCC------
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTA-DDNQCPTRNCKIRLSLSSVFSKATLNNSLSQR-QPGQEIP------ 1185 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~-~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~-~~~~~i~------ 1185 (1433)
..-.||.+..++.....- ...|..--...+.. +.+.--. ..........+.....-...-.+. ..+....
T Consensus 1015 m~~fi~D~sde~e~s~~s-~d~~~~~ks~~~s~~Desss~~-~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll 1092 (1567)
T KOG1015|consen 1015 MDEFIADDSDETEMSLSS-DDYTKKKKSGKKSKKDESSSGS-GSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVSLKLL 1092 (1567)
T ss_pred hhccccCCCccccccccc-cchhhccccccccccccccccc-ccCCchhhhhhhhhhccccccCcccccCCCcchHHHHh
Confidence 011222221111100000 00000000000000 0000000 000000000000000000000000 0000000
Q ss_pred CCCCCcccccC-C-----------ccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCC
Q 000542 1186 TDYSDSKLVEA-P-----------SCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGD 1253 (1433)
Q Consensus 1186 ~~~s~~~~~~~-~-----------~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 (1433)
.+..+....+. + ........|+|+-.|+++|+.
T Consensus 1093 ~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~m----------------------------------- 1137 (1567)
T KOG1015|consen 1093 EDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRM----------------------------------- 1137 (1567)
T ss_pred hcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHH-----------------------------------
Confidence 00000000000 0 000011112233333333222
Q ss_pred cccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHh----------------------CCCcEEecCCC
Q 000542 1254 TLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKD----------------------SSIQYRRLDGT 1311 (1433)
Q Consensus 1254 ~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~----------------------~gI~~~ridGs 1311 (1433)
...-|.|+|||||....|++|+.+|.. .|..|.+|||+
T Consensus 1138 --------------------ceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGs 1197 (1567)
T KOG1015|consen 1138 --------------------CEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGS 1197 (1567)
T ss_pred --------------------HHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCc
Confidence 223689999999999999999999963 26789999999
Q ss_pred CCHHHHHHHHHHHhcCCC--ccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1312 MSVFARDKAVKDFNTLPE--VSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1312 ms~~eR~~~I~~Fn~d~~--v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+...+|++..++||+..+ .+.+|+||+||++|+||.+|||||++|-.|||....|+|-||||+||++||+||||++.|
T Consensus 1198 t~s~~R~k~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqG 1277 (1567)
T KOG1015|consen 1198 TTSQSRKKWAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQG 1277 (1567)
T ss_pred ccHHHHHHHHHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcc
Confidence 999999999999998544 677999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1390 TVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1390 TIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
|+|++||++|-.|+.+...++++... ....+..||..||.
T Consensus 1278 TmEeKIYkRQVTKqsls~RVVDeqQv---~Rhy~~neLteLy~ 1317 (1567)
T KOG1015|consen 1278 TMEEKIYKRQVTKQSLSFRVVDEQQV---ERHYTMNELTELYT 1317 (1567)
T ss_pred cHHHHHHHHHHhHhhhhhhhhhHHHH---HHHhhHhhhHHHhh
Confidence 99999999999999999999976443 24578889988874
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.3e-60 Score=625.64 Aligned_cols=495 Identities=38% Similarity=0.579 Sum_probs=397.0
Q ss_pred CccccCCchHHHHHHHHHHH-hhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccc
Q 000542 661 GVLAVPLLRHQRIALSWMVQ-KETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGI 739 (1433)
Q Consensus 661 ~~l~v~L~phQk~av~wMl~-rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~ 739 (1433)
..+...|++||.+++.||.. ... ...||||||+||||||+++|+++......
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~~---~~~~~ilaD~mglGKTiq~i~~l~~~~~~------------------------ 385 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLRS---NLLGGILADDMGLGKTVQTIALLLSLLES------------------------ 385 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHh---ccCCCcccccccchhHHHHHHHHHhhhhc------------------------
Confidence 34556799999999999994 333 23799999999999999999999752211
Q ss_pred ccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcE-EEEEeCCCCC-
Q 000542 740 QVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLS-VLVYHGSSRT- 817 (1433)
Q Consensus 740 ~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~-VlvyhG~~r~- 817 (1433)
.....++.|||||.+++.+|.+|+.+|.+ .++ +.+++|....
T Consensus 386 ---------------------------------~~~~~~~~liv~p~s~~~nw~~e~~k~~~---~~~~~~~~~g~~~~~ 429 (866)
T COG0553 386 ---------------------------------IKVYLGPALIVVPASLLSNWKREFEKFAP---DLRLVLVYHGEKSEL 429 (866)
T ss_pred ---------------------------------ccCCCCCeEEEecHHHHHHHHHHHhhhCc---cccceeeeeCCcccc
Confidence 00113579999999999999999998876 577 9999998862
Q ss_pred ----CCcccccC------CCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCC
Q 000542 818 ----KDPCELAK------FDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQK 887 (1433)
Q Consensus 818 ----k~~~~l~~------~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~k 887 (1433)
.....+.. ++++||||+.+....
T Consensus 430 ~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~----------------------------------------------- 462 (866)
T COG0553 430 DKKREALRDLLKLHLVIIFDVVITTYELLRRFL----------------------------------------------- 462 (866)
T ss_pred cHHHHHHHHHhhhcccceeeEEechHHHHHHhh-----------------------------------------------
Confidence 22222333 899999999997421
Q ss_pred CCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhh-ccccCCcc-
Q 000542 888 KGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFR-FLRYDPFA- 965 (1433)
Q Consensus 888 k~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~-FL~p~~f~- 965 (1433)
.....+..+.|+++|+||||+|||..+..+++++.+++.+||+|||||++|++.|||++++ |+.|..+.
T Consensus 463 ---------~~~~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~ 533 (866)
T COG0553 463 ---------VDHGGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGT 533 (866)
T ss_pred ---------hhHHHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccc
Confidence 0012377889999999999999999999999999999999999999999999999999999 99999999
Q ss_pred chHHHHhhhccCCCCCch--------hhHHHHHHHHhhhhhhccccc--ccCCCCccCCCCcEEEEEEecCCHHHHHHHH
Q 000542 966 VYKSFCSMIKVPISKNPV--------KGYKKLQAVLKTIMLRRTKGT--LLDGEPIINLPPKVIMLKQVDFTDEERDFYS 1035 (1433)
Q Consensus 966 ~~~~F~~~i~~pi~~~~~--------~~~~~L~~lL~~~mLRRtK~d--v~dg~pii~LPpk~~~vv~v~lS~eEre~Y~ 1035 (1433)
....|..+|..|+..... ....+|+.++.+|++||+|.+ ++. .||++.+.++.++++++|+.+|.
T Consensus 534 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~-----~Lp~k~e~~~~~~l~~~q~~~y~ 608 (866)
T COG0553 534 SFAIFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSPFILRRTKEDVEVLK-----ELPPKIEKVLECELSEEQRELYE 608 (866)
T ss_pred hHHHHHHHHhhhhhhcccccchhhHHHHHHHHHHHHHHHhhcccccchhHHH-----hCChhhhhhhhhcccHHHHHHHH
Confidence 569999999998876543 344558899999999999999 654 89999999999999999999999
Q ss_pred HHHH---HHHHHHHHHHHcccc--cc--hHHHHHHHHHHHHHHccCcccccccC-chhhhhhHHHHHhhchHHHHHHHHH
Q 000542 1036 QLEI---NSRDQFKEYAAAGTV--KQ--NYVNILLMLLRLRQACDHPLLVKGFD-SNSLLRSSVEMAKKLPQERQMYLLN 1107 (1433)
Q Consensus 1036 ~L~~---~~~~~~~~~~~~g~~--~~--~~~~IL~~LlrLRq~c~HP~Lv~~~~-~~s~~~~s~e~a~~l~~e~~~~ll~ 1107 (1433)
.+.. .....+......+.. .. ...+++..+++||++|+||.++.... ...
T Consensus 609 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~---------------------- 666 (866)
T COG0553 609 ALLEGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEATF---------------------- 666 (866)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHhccCcccccccccccc----------------------
Confidence 9887 444444443332211 11 36789999999999999998875321 000
Q ss_pred HhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCC
Q 000542 1108 CLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTD 1187 (1433)
Q Consensus 1108 ~le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~ 1187 (1433)
+..+.....+....
T Consensus 667 --------~~~~~~~~~~~~~~---------------------------------------------------------- 680 (866)
T COG0553 667 --------DRIVLLLREDKDFD---------------------------------------------------------- 680 (866)
T ss_pred --------chhhhhhhcccccc----------------------------------------------------------
Confidence 00000000000000
Q ss_pred CCCcccccCCccCCccccc-HHHHHHHHHH-HhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHH
Q 000542 1188 YSDSKLVEAPSCEGVWYNS-SKIKAALEVL-QSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKI 1265 (1433)
Q Consensus 1188 ~s~~~~~~~~~~~~~~~~s-sKi~allelL-~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~ 1265 (1433)
.........+ .|+..+.++| ..+.
T Consensus 681 ---------~~~~~~~~~s~~k~~~l~~ll~~~~~--------------------------------------------- 706 (866)
T COG0553 681 ---------YLKKPLIQLSKGKLQALDELLLDKLL--------------------------------------------- 706 (866)
T ss_pred ---------cccchhhhccchHHHHHHHHHHHHHH---------------------------------------------
Confidence 0000111234 6777777777 3321
Q ss_pred HhhhcccccccCCC--eEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccc
Q 000542 1266 AAKCSIDSIKLGGE--KAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1266 ~~~~~~~~i~~~~e--KvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~G 1343 (1433)
..+. |+|||+||+.++++|+..|+..++.|++++|+++.++|..++++|+++++..|+++|++|||.|
T Consensus 707 ----------~~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~g 776 (866)
T COG0553 707 ----------EEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLG 776 (866)
T ss_pred ----------hhcccccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccc
Confidence 1455 9999999999999999999999999999999999999999999999988899999999999999
Q ss_pred cCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCC
Q 000542 1344 LNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLT 1423 (1433)
Q Consensus 1344 LNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt 1423 (1433)
|||+.|++||++||||||+.+.||++|+|||||+++|.||+|++++|+||+|+++|..|+.+...+++. ........++
T Consensus 777 lnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~-~~~~~~~~~~ 855 (866)
T COG0553 777 LNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDA-EGEKELSKLS 855 (866)
T ss_pred eeecccceEEEeccccChHHHHHHHHHHHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhh-hcccchhhcc
Confidence 999999999999999999999999999999999999999999999999999999999999999999985 2235678899
Q ss_pred HHHHHHhhc
Q 000542 1424 VDDLNYLFM 1432 (1433)
Q Consensus 1424 ~~DL~~LF~ 1432 (1433)
.+++..||.
T Consensus 856 ~~~~~~l~~ 864 (866)
T COG0553 856 IEDLLDLFS 864 (866)
T ss_pred HHHHHHHhc
Confidence 999999986
No 16
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=1.2e-53 Score=501.58 Aligned_cols=579 Identities=26% Similarity=0.359 Sum_probs=383.5
Q ss_pred cccCCchHHHHHHHHHHHhhcc------CCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccc
Q 000542 663 LAVPLLRHQRIALSWMVQKETS------SLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEED 736 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~------~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~ 736 (1433)
|.--|.|||+-|+.||...--. ...+.|+|||+.||||||+|.|+++-...+
T Consensus 251 la~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflR---------------------- 308 (1387)
T KOG1016|consen 251 LAHVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLR---------------------- 308 (1387)
T ss_pred hHhhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhh----------------------
Confidence 3344899999999999764321 124689999999999999999998732111
Q ss_pred cccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcC--------CCCcEE
Q 000542 737 NGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTS--------KGSLSV 808 (1433)
Q Consensus 737 ~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~--------~~~L~V 808 (1433)
.-+++++|+|+|-..|.+|-.|+..|.+. +..+.|
T Consensus 309 -------------------------------------hT~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~v 351 (1387)
T KOG1016|consen 309 -------------------------------------HTKAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEV 351 (1387)
T ss_pred -------------------------------------cCccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEE
Confidence 12356799999999999999999999984 235666
Q ss_pred EEEeCCCCCCC-----cccc-cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccc
Q 000542 809 LVYHGSSRTKD-----PCEL-AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRK 882 (1433)
Q Consensus 809 lvyhG~~r~k~-----~~~l-~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk 882 (1433)
++.....++-+ ...| ....|+|+.|++++-...+ ..+ .++| +++..++
T Consensus 352 f~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRLL~lk------------~~~------------~~gr--pkkt~kr 405 (1387)
T KOG1016|consen 352 FLLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRLLILK------------TLP------------KKGR--PKKTLKR 405 (1387)
T ss_pred EEecCchhhHHHHHHHHHHHhccCCEEEehHHHHHHHHHh------------ccc------------ccCC--ccccccc
Confidence 66655443321 1222 2557999999999743211 000 0000 0000000
Q ss_pred cccCCCCCC-----CcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhh
Q 000542 883 GSKQKKGPD-----GLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFR 957 (1433)
Q Consensus 883 ~~~~kk~~~-----~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~ 957 (1433)
....--+.+ .-++..+.+.|.+-+.++||+||+|+|||....++.++..++.++|+.|||-|+||++-|.|.++.
T Consensus 406 ~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVD 485 (1387)
T KOG1016|consen 406 ISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVD 485 (1387)
T ss_pred cCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhhe
Confidence 000000000 012334556688889999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCccchHHHHhhhccCCCCCc-----h-------hhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEec
Q 000542 958 FLRYDPFAVYKSFCSMIKVPISKNP-----V-------KGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVD 1025 (1433)
Q Consensus 958 FL~p~~f~~~~~F~~~i~~pi~~~~-----~-------~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~ 1025 (1433)
|++|..++..++|+.+|++||..+. . .+...|+.+|..|+-||+...+. +.||.+.+.++.|.
T Consensus 486 FVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk-----~~LP~k~EyViLvr 560 (1387)
T KOG1016|consen 486 FVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLK-----KILPEKKEYVILVR 560 (1387)
T ss_pred eccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHh-----hhcccccceEEEEe
Confidence 9999999999999999999998763 1 12356899999999999976554 48999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhh--chHHHHH
Q 000542 1026 FTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKK--LPQERQM 1103 (1433)
Q Consensus 1026 lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~--l~~e~~~ 1103 (1433)
++..||++|..+.-... ++.+..+. ...+.|.+.----++.+||.++-.+ .++ ...+...
T Consensus 561 ~s~iQR~LY~~Fm~d~~---r~~~~~~~---~~~NPLkAF~vCcKIWNHPDVLY~~------------l~k~~~a~e~dl 622 (1387)
T KOG1016|consen 561 KSQIQRQLYRNFMLDAK---REIAANND---AVFNPLKAFSVCCKIWNHPDVLYRL------------LEKKKRAEEDDL 622 (1387)
T ss_pred HHHHHHHHHHHHHHHHH---Hhhccccc---cccChHHHHHHHHHhcCChHHHHHH------------HHHhhhhhhhhh
Confidence 99999999998753322 22222211 1124455555556677999654221 111 1111110
Q ss_pred HHHHHh-hhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCC
Q 000542 1104 YLLNCL-EASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQ 1182 (1433)
Q Consensus 1104 ~ll~~l-e~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~ 1182 (1433)
.+.... ......|+--+.++.++-.+ +. .-.++.+....-. ....
T Consensus 623 ~vee~~~ag~~~~~~P~~~~~~~~s~~------------------------------la--Ss~~k~~n~t~kp--~~s~ 668 (1387)
T KOG1016|consen 623 RVEEMKFAGLQQQQSPFNSIPSNPSTP------------------------------LA--SSTSKSANKTKKP--RGSK 668 (1387)
T ss_pred hHHHHhhhcccccCCCCCCCCCCCCCc------------------------------cc--chhhhhhcccCCc--ccCc
Confidence 000000 01112232222222111100 00 0000000000000 0000
Q ss_pred CCCC-CCCCcccccCCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchh
Q 000542 1183 EIPT-DYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDE 1261 (1433)
Q Consensus 1183 ~i~~-~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~ 1261 (1433)
..+. +..+.+++.. + .+..+++...... .+..+ +.. ...+..+ ++
T Consensus 669 ~~p~f~ee~~e~~~y---------~---~w~~el~~nYq~g--------vLen~----------pk~---V~~~~~~-de 714 (1387)
T KOG1016|consen 669 KAPKFDEEDEEVEKY---------S---DWTFELFENYQEG--------VLENG----------PKI---VISLEIL-DE 714 (1387)
T ss_pred CCCCcccccccccch---------h---hHHHHHHhhhhcc--------cccCC----------Cce---EEEEeee-cc
Confidence 0000 0011111111 0 2333444332100 00000 000 0011111 11
Q ss_pred hHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhCC------------------CcEEecCCCCCHHHHHHHHHH
Q 000542 1262 NEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSS------------------IQYRRLDGTMSVFARDKAVKD 1323 (1433)
Q Consensus 1262 ~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~g------------------I~~~ridGsms~~eR~~~I~~ 1323 (1433)
-..-++|+|||||....|++|++.|.... +.|.+++|.++.++|+++|++
T Consensus 715 ------------s~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinq 782 (1387)
T KOG1016|consen 715 ------------STQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQ 782 (1387)
T ss_pred ------------ccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHh
Confidence 12268999999999999999999998653 458999999999999999999
Q ss_pred HhcCCCcc-EEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000542 1324 FNTLPEVS-VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKK 1402 (1433)
Q Consensus 1324 Fn~d~~v~-VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK 1402 (1433)
||..+++. .+|+|+++|..|+||..|+++|++|..|||....||++||+|+||+|+++||||++.+|+|.+|+++|-+|
T Consensus 783 fN~e~~lsWlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsK 862 (1387)
T KOG1016|consen 783 FNSEPGLSWLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISK 862 (1387)
T ss_pred ccCCCCceeeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhh
Confidence 99988877 78889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1403 REMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1403 ~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
+-|.+.++++-. -...++..||..|.+
T Consensus 863 qGmsdRvVDd~n---p~an~s~Ke~enLl~ 889 (1387)
T KOG1016|consen 863 QGMSDRVVDDAN---PDANISQKELENLLM 889 (1387)
T ss_pred ccchhhhhcccC---ccccccHHHHHHHhh
Confidence 999999997643 346788889888865
No 17
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=1.6e-52 Score=478.19 Aligned_cols=418 Identities=29% Similarity=0.359 Sum_probs=320.9
Q ss_pred cccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccc
Q 000542 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVN 742 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~ 742 (1433)
|--.|+|+|++||.+.++|. +..|||||||||||+||||+..+.+..
T Consensus 195 Lvs~LlPFQreGv~faL~Rg------GR~llADeMGLGKTiQAlaIA~yyraE--------------------------- 241 (689)
T KOG1000|consen 195 LVSRLLPFQREGVIFALERG------GRILLADEMGLGKTIQALAIARYYRAE--------------------------- 241 (689)
T ss_pred HHHhhCchhhhhHHHHHhcC------CeEEEecccccchHHHHHHHHHHHhhc---------------------------
Confidence 34469999999999999652 236999999999999999998765432
Q ss_pred cccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeC-CCCCCCcc
Q 000542 743 GLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHG-SSRTKDPC 821 (1433)
Q Consensus 743 ~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG-~~r~k~~~ 821 (1433)
+|.|||||+++...|++++.+|++.-.. +.+..+ ..+..+
T Consensus 242 -----------------------------------wplliVcPAsvrftWa~al~r~lps~~p--i~vv~~~~D~~~~-- 282 (689)
T KOG1000|consen 242 -----------------------------------WPLLIVCPASVRFTWAKALNRFLPSIHP--IFVVDKSSDPLPD-- 282 (689)
T ss_pred -----------------------------------CcEEEEecHHHhHHHHHHHHHhcccccc--eEEEecccCCccc--
Confidence 4689999999999999999999985333 333333 222211
Q ss_pred cccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCC
Q 000542 822 ELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 822 ~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~p 901 (1433)
-.....|+|++|+.+.... ..
T Consensus 283 ~~t~~~v~ivSye~ls~l~-----------------------------------------------------------~~ 303 (689)
T KOG1000|consen 283 VCTSNTVAIVSYEQLSLLH-----------------------------------------------------------DI 303 (689)
T ss_pred cccCCeEEEEEHHHHHHHH-----------------------------------------------------------HH
Confidence 1123459999999986320 11
Q ss_pred ccccCccEEEEcCccccCChhhHHHHHHHhc--ccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCC
Q 000542 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGL--RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPIS 979 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~IKN~~T~~sral~~L--~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~ 979 (1433)
|..-+|..||+||+|++|+.++++.+++.-+ .+++.++|||||.-.++.|||.+++.+.+..|.++.+|..+|+.-..
T Consensus 304 l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~ 383 (689)
T KOG1000|consen 304 LKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQ 383 (689)
T ss_pred HhcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccc
Confidence 4445699999999999999999999998877 79999999999999999999999999999999999999988875332
Q ss_pred C------CchhhHHHHHHHHh-hhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcc
Q 000542 980 K------NPVKGYKKLQAVLK-TIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 980 ~------~~~~~~~~L~~lL~-~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g 1052 (1433)
- ..-.+..+|..+|. .+|+||+|.+|+. .|||+..+++.+ .+...-+..+.+.... ++ +
T Consensus 384 vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~-----qLPpKrr~Vv~~-~~gr~da~~~~lv~~a-------~~-~ 449 (689)
T KOG1000|consen 384 VRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLK-----QLPPKRREVVYV-SGGRIDARMDDLVKAA-------AD-Y 449 (689)
T ss_pred cceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHh-----hCCccceEEEEE-cCCccchHHHHHHHHh-------hh-c
Confidence 1 12234677877774 5799999999987 899995555544 3333222222221111 11 1
Q ss_pred cccchH-HHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhccc
Q 000542 1053 TVKQNY-VNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSIC 1131 (1433)
Q Consensus 1053 ~~~~~~-~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~C 1131 (1433)
+..... .+-+.+++..++
T Consensus 450 t~~~~~e~~~~~l~l~y~~------------------------------------------------------------- 468 (689)
T KOG1000|consen 450 TKVNSMERKHESLLLFYSL------------------------------------------------------------- 468 (689)
T ss_pred chhhhhhhhhHHHHHHHHH-------------------------------------------------------------
Confidence 100000 000000000000
Q ss_pred CcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHH
Q 000542 1132 GHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKA 1211 (1433)
Q Consensus 1132 gH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~a 1211 (1433)
..-.|+.+
T Consensus 469 ------------------------------------------------------------------------tgiaK~~a 476 (689)
T KOG1000|consen 469 ------------------------------------------------------------------------TGIAKAAA 476 (689)
T ss_pred ------------------------------------------------------------------------hcccccHH
Confidence 01245566
Q ss_pred HHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHH
Q 000542 1212 ALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKML 1291 (1433)
Q Consensus 1212 llelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~L 1291 (1433)
..+.|....- + ...++.|++||+.+..+|
T Consensus 477 v~eyi~~~~~---------------------------------l------------------~d~~~~KflVFaHH~~vL 505 (689)
T KOG1000|consen 477 VCEYILENYF---------------------------------L------------------PDAPPRKFLVFAHHQIVL 505 (689)
T ss_pred HHHHHHhCcc---------------------------------c------------------ccCCCceEEEEehhHHHH
Confidence 6666554100 0 012789999999999999
Q ss_pred HHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhh
Q 000542 1292 DLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRA 1371 (1433)
Q Consensus 1292 dlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRa 1371 (1433)
|-|+..+.++++.++||||+++..+|+.+++.|+.+.+++|-|+|..|+|+||.|++|+.|+|.+++|||....||.+|+
T Consensus 506 d~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRa 585 (689)
T KOG1000|consen 506 DTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRA 585 (689)
T ss_pred HHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHH
Q 000542 1372 HRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASA 1409 (1433)
Q Consensus 1372 hRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~ 1409 (1433)
||+|||.-|.|++|++++|+||.++.+.++|...+.++
T Consensus 586 HRiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~ 623 (689)
T KOG1000|consen 586 HRIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSV 623 (689)
T ss_pred hhccccceeeEEEEEecCchHHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999988776
No 18
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=4.6e-52 Score=533.40 Aligned_cols=420 Identities=20% Similarity=0.287 Sum_probs=314.9
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
.+.|+|||...+.+++++. ..+.|||||||||||++|++++.....
T Consensus 150 ~~~l~pHQl~~~~~vl~~~-----~~R~LLADEvGLGKTIeAglil~~l~~----------------------------- 195 (956)
T PRK04914 150 RASLIPHQLYIAHEVGRRH-----APRVLLADEVGLGKTIEAGMIIHQQLL----------------------------- 195 (956)
T ss_pred CCCCCHHHHHHHHHHhhcc-----CCCEEEEeCCcCcHHHHHHHHHHHHHH-----------------------------
Confidence 5679999999999887653 255799999999999999777643210
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC----CC
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT----KD 819 (1433)
Q Consensus 744 ~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~----k~ 819 (1433)
.+..+++|||||++|+.||..|+.++|. +.+.++.+..-. ..
T Consensus 196 ------------------------------~g~~~rvLIVvP~sL~~QW~~El~~kF~----l~~~i~~~~~~~~~~~~~ 241 (956)
T PRK04914 196 ------------------------------TGRAERVLILVPETLQHQWLVEMLRRFN----LRFSLFDEERYAEAQHDA 241 (956)
T ss_pred ------------------------------cCCCCcEEEEcCHHHHHHHHHHHHHHhC----CCeEEEcCcchhhhcccc
Confidence 1234679999999999999999998875 556666654311 11
Q ss_pred cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccccccc
Q 000542 820 PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVA 899 (1433)
Q Consensus 820 ~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~ 899 (1433)
.+.+..+++||+||+.+...- . . .
T Consensus 242 ~~pf~~~~~vI~S~~~l~~~~----------~----~------------------------------------------~ 265 (956)
T PRK04914 242 DNPFETEQLVICSLDFLRRNK----------Q----R------------------------------------------L 265 (956)
T ss_pred cCccccCcEEEEEHHHhhhCH----------H----H------------------------------------------H
Confidence 244557899999999996310 0 0 0
Q ss_pred CCccccCccEEEEcCccccCCh---hhHHHHHHHhc--ccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhh
Q 000542 900 GPLAKVGWFRVVLDEAQSIKNH---RTQVARACWGL--RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMI 974 (1433)
Q Consensus 900 ~pL~~i~W~rVILDEAH~IKN~---~T~~sral~~L--~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i 974 (1433)
..+....|++|||||||++|+. .++.++++..| +++++++|||||++|++.|+|++++||+|+.|.++..|....
T Consensus 266 ~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~ 345 (956)
T PRK04914 266 EQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQ 345 (956)
T ss_pred HHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHH
Confidence 1145568999999999999953 46678888888 678999999999999999999999999999999999997643
Q ss_pred cc--CC--------CCC--chhhHHHHH---------------------------HHH---------hhhhhhccccccc
Q 000542 975 KV--PI--------SKN--PVKGYKKLQ---------------------------AVL---------KTIMLRRTKGTLL 1006 (1433)
Q Consensus 975 ~~--pi--------~~~--~~~~~~~L~---------------------------~lL---------~~~mLRRtK~dv~ 1006 (1433)
.. |+ ... .......|. .++ ..+|+|+++.++.
T Consensus 346 ~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~ 425 (956)
T PRK04914 346 QQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK 425 (956)
T ss_pred HhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc
Confidence 31 11 000 111111111 112 2578899999875
Q ss_pred CCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHHHHHHHHHHHHccCcccccccCchhh
Q 000542 1007 DGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSL 1086 (1433)
Q Consensus 1007 dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~ 1086 (1433)
.+|++..+.+.++++++.+..+... . ...+++ +.+|..+.
T Consensus 426 ------~fp~R~~~~~~l~~~~~y~~~~~~~---~-----------------------~~~~~~-~l~pe~~~------- 465 (956)
T PRK04914 426 ------GFPKRELHPIPLPLPEQYQTAIKVS---L-----------------------EARARD-MLYPEQIY------- 465 (956)
T ss_pred ------CCCcCceeEeecCCCHHHHHHHHHh---H-----------------------HHHHHh-hcCHHHHH-------
Confidence 5899999999999987644433210 0 001111 11221000
Q ss_pred hhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000542 1087 LRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1087 ~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f 1166 (1433)
. . ++.
T Consensus 466 -~-------~------------~~~------------------------------------------------------- 470 (956)
T PRK04914 466 -Q-------E------------FED------------------------------------------------------- 470 (956)
T ss_pred -H-------H------------Hhh-------------------------------------------------------
Confidence 0 0 000
Q ss_pred hhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCC
Q 000542 1167 SKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDS 1246 (1433)
Q Consensus 1167 ~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~ 1246 (1433)
....+..++|++.++++|+.+
T Consensus 471 --------------------------------~~~~~~~d~Ki~~L~~~L~~~--------------------------- 491 (956)
T PRK04914 471 --------------------------------NATWWNFDPRVEWLIDFLKSH--------------------------- 491 (956)
T ss_pred --------------------------------hhhccccCHHHHHHHHHHHhc---------------------------
Confidence 000011258999999888762
Q ss_pred CCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHH-HhCCCcEEecCCCCCHHHHHHHHHHHh
Q 000542 1247 NDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFN 1325 (1433)
Q Consensus 1247 ~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L-~~~gI~~~ridGsms~~eR~~~I~~Fn 1325 (1433)
.++|+|||+++..+++.|++.| ...|++++.|+|+|+..+|+++++.|+
T Consensus 492 ------------------------------~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~ 541 (956)
T PRK04914 492 ------------------------------RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFA 541 (956)
T ss_pred ------------------------------CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHh
Confidence 3689999999999999999999 567999999999999999999999999
Q ss_pred cC-CCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000542 1326 TL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKRE 1404 (1433)
Q Consensus 1326 ~d-~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~ 1404 (1433)
+. ++++||| ++.+||+||||+.|++||+||+||||..++|||||+||+||+++|.||+++.++|+|++|+++..+|..
T Consensus 542 ~~~~~~~VLI-sTdvgseGlNlq~a~~VInfDlP~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ 620 (956)
T PRK04914 542 DEEDGAQVLL-CSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLN 620 (956)
T ss_pred cCCCCccEEE-echhhccCCCcccccEEEEecCCCCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcC
Confidence 85 3688887 559999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred HHHHHhCC
Q 000542 1405 MVASAFGE 1412 (1433)
Q Consensus 1405 l~~~~lg~ 1412 (1433)
+++...+.
T Consensus 621 ife~~~~~ 628 (956)
T PRK04914 621 AFEHTCPT 628 (956)
T ss_pred ceeccCCC
Confidence 77655543
No 19
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=4.1e-50 Score=499.08 Aligned_cols=258 Identities=32% Similarity=0.571 Sum_probs=201.3
Q ss_pred CCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC--CcccccCCCEEEEechhhhccCCCCCCCCchhHHH
Q 000542 776 PAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTK--DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEE 853 (1433)
Q Consensus 776 p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k--~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~e 853 (1433)
-.++||||||.+++.||-+||.+|++ ..++|+.|.|-.... .+.++.+||||+|||++++.|+....
T Consensus 419 ~tgaTLII~P~aIl~QW~~EI~kH~~--~~lKv~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte--------- 487 (1394)
T KOG0298|consen 419 ETGATLIICPNAILMQWFEEIHKHIS--SLLKVLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTE--------- 487 (1394)
T ss_pred ecCceEEECcHHHHHHHHHHHHHhcc--ccceEEEEechhhhcccCchhhhccCEEEeehHHHHhHhhccc---------
Confidence 45799999999999999999999987 347999999987543 45788999999999999998764320
Q ss_pred HhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcc
Q 000542 854 KMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLR 933 (1433)
Q Consensus 854 k~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~ 933 (1433)
+ ....|..+.+++.+ ...+||..+.||||||||||++....|+.++++..|.
T Consensus 488 ------~----------------~~~~R~lR~qsr~~------~~~SPL~~v~wWRIclDEaQMvesssS~~a~M~~rL~ 539 (1394)
T KOG0298|consen 488 ------D----------------FGSDRQLRHQSRYM------RPNSPLLMVNWWRICLDEAQMVESSSSAAAEMVRRLH 539 (1394)
T ss_pred ------c----------------cCChhhhhcccCCC------CCCCchHHHHHHHHhhhHHHhhcchHHHHHHHHHHhh
Confidence 0 00111111122211 2368999999999999999999999999999999999
Q ss_pred cCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCCCCchhhHHHHHHHHhhhhhhcccccccCCCCccC
Q 000542 934 AKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIIN 1013 (1433)
Q Consensus 934 a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~ 1013 (1433)
+.+|||+||||+++ ++||+++|.||+..||....+|...+..++... .....+..+++..+.|+.|-+|... +.
T Consensus 540 ~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~r--a~~~~~~dl~~q~l~R~~k~~v~~e---l~ 613 (1394)
T KOG0298|consen 540 AINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLR--AKCEPLLDLFKQLLWRTFKSKVEHE---LG 613 (1394)
T ss_pred hhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHH--hhhhhHHHHHHhhhhhhhhHHHHHH---hC
Confidence 99999999999999 999999999999999999999999887766554 3445788999999999999888653 67
Q ss_pred CCCcEEEEEEecCCHHHHHHHHHHH----HHHHHHHHHHHH---------cccccchHHHHHHHHHHHHHHccCcccc
Q 000542 1014 LPPKVIMLKQVDFTDEERDFYSQLE----INSRDQFKEYAA---------AGTVKQNYVNILLMLLRLRQACDHPLLV 1078 (1433)
Q Consensus 1014 LPpk~~~vv~v~lS~eEre~Y~~L~----~~~~~~~~~~~~---------~g~~~~~~~~IL~~LlrLRq~c~HP~Lv 1078 (1433)
+||..+.+....+++.+-.+|.... ..++..+..... ++......+.++..++||||+|+||..-
T Consensus 614 ~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~a~i~~~l~rLRq~Cchplv~ 691 (1394)
T KOG0298|consen 614 LPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLLAIILKWLLRLRQACCHPLVG 691 (1394)
T ss_pred CCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhHHHHHHHHHHHHHhhcccccc
Confidence 9999888888888887777765433 333333222221 1112234567889999999999999653
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=1.2e-42 Score=401.41 Aligned_cols=291 Identities=40% Similarity=0.653 Sum_probs=224.6
Q ss_pred HHHHHHHHHHHhh------ccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000542 670 HQRIALSWMVQKE------TSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 670 hQk~av~wMl~rE------~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
||++||.||+.++ ......+|||||||||||||+++|+++......
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~---------------------------- 52 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNE---------------------------- 52 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHC----------------------------
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhc----------------------------
Confidence 8999999999998 112244899999999999999999999742210
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC--CCCCcc
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSS--RTKDPC 821 (1433)
Q Consensus 744 ~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~--r~k~~~ 821 (1433)
......+++|||||++++.||..|+.+|+. +..+++++|+|.. +.....
T Consensus 53 ----------------------------~~~~~~~~~LIv~P~~l~~~W~~E~~~~~~-~~~~~v~~~~~~~~~~~~~~~ 103 (299)
T PF00176_consen 53 ----------------------------FPQRGEKKTLIVVPSSLLSQWKEEIEKWFD-PDSLRVIIYDGDSERRRLSKN 103 (299)
T ss_dssp ----------------------------CTTSS-S-EEEEE-TTTHHHHHHHHHHHSG-T-TS-EEEESSSCHHHHTTSS
T ss_pred ----------------------------cccccccceeEeeccchhhhhhhhhccccc-ccccccccccccccccccccc
Confidence 000112359999999999999999999986 3367999999987 334455
Q ss_pred cccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCC
Q 000542 822 ELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 822 ~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~p 901 (1433)
....++++|+||+++..... ......
T Consensus 104 ~~~~~~vvi~ty~~~~~~~~------------------------------------------------------~~~~~~ 129 (299)
T PF00176_consen 104 QLPKYDVVITTYETLRKARK------------------------------------------------------KKDKED 129 (299)
T ss_dssp SCCCSSEEEEEHHHHH--TS------------------------------------------------------THTTHH
T ss_pred ccccceeeeccccccccccc------------------------------------------------------cccccc
Confidence 67789999999999971000 000123
Q ss_pred ccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCCCC
Q 000542 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISKN 981 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~~~ 981 (1433)
+..++|++||+||||.+||..+..++++..|++.+||+|||||++|++.|||++++||.++.+.+...|.+.+..+....
T Consensus 130 l~~~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~ 209 (299)
T PF00176_consen 130 LKQIKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKEN 209 (299)
T ss_dssp HHTSEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTH
T ss_pred cccccceeEEEecccccccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhcccc
Confidence 56678999999999999999999999999999999999999999999999999999999999999999999886663444
Q ss_pred chhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccchHHHH
Q 000542 982 PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNI 1061 (1433)
Q Consensus 982 ~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~I 1061 (1433)
......+|+.+++.+++||++.++.. .||+..+.++.++|+++|+++|+.+....+..++... +........+
T Consensus 210 ~~~~~~~L~~~l~~~~~r~~~~d~~~-----~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~--~~~~~~~~~~ 282 (299)
T PF00176_consen 210 SYENIERLRELLSEFMIRRTKKDVEK-----ELPPKIEHVINVELSPEQRELYNELLKEARENLKQSS--RKKSKKLSSL 282 (299)
T ss_dssp HHHHHHHHHHHHCCCEECHCGGGGCT-----TSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T----TCHHHHHH
T ss_pred ccccccccccccchhhhhhhcccccc-----cCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhc--ccchhhHHHH
Confidence 55667899999999999999999843 7999999999999999999999988766554433322 2344677889
Q ss_pred HHHHHHHHHHccCcccc
Q 000542 1062 LLMLLRLRQACDHPLLV 1078 (1433)
Q Consensus 1062 L~~LlrLRq~c~HP~Lv 1078 (1433)
+..+++|||+|+||.|+
T Consensus 283 ~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 283 LQILKRLRQVCNHPYLV 299 (299)
T ss_dssp HHHHHHHHHHHH-THHC
T ss_pred HHHHHHHHHHhCCcccC
Confidence 99999999999999874
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=2.1e-34 Score=359.93 Aligned_cols=115 Identities=22% Similarity=0.255 Sum_probs=102.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.++|+|||++++..++.+...|. . ..++|.|+.++|.+++++|+..+.++|||+| ++|++|+||+.|++||+++
T Consensus 495 ~g~kiLVF~~~~~~l~~~a~~L~---~--~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~S-kVgdeGIDlP~a~vvI~~s 568 (732)
T TIGR00603 495 RGDKIIVFSDNVFALKEYAIKLG---K--PFIYGPTSQQERMQILQNFQHNPKVNTIFLS-KVGDTSIDLPEANVLIQIS 568 (732)
T ss_pred cCCeEEEEeCCHHHHHHHHHHcC---C--ceEECCCCHHHHHHHHHHHHhCCCccEEEEe-cccccccCCCCCCEEEEeC
Confidence 57899999999999888888773 3 4589999999999999999976788998877 9999999999999999999
Q ss_pred CCC-CcChHHHHHHhhhccCCCCc-----EEEEEEEeCCCHHHHHHH
Q 000542 1357 LWW-NPTTEDQAIDRAHRIGQTRP-----VSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1357 p~W-NPa~e~QAIGRahRIGQkr~-----V~VyrLi~kdTIEErIl~ 1397 (1433)
+++ ++..+.||+||+.|.+..+. .++|.|++++|.|+..-.
T Consensus 569 ~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~s~ 615 (732)
T TIGR00603 569 SHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYST 615 (732)
T ss_pred CCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHHHH
Confidence 886 99999999999999987643 799999999999987753
No 22
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=6.8e-37 Score=375.74 Aligned_cols=398 Identities=26% Similarity=0.397 Sum_probs=289.9
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
-.|.+||.+|++|+......+ --+|||||||||||+++|++.......
T Consensus 294 g~L~~~qleGln~L~~~ws~~---~~~ilADEmgLgktVqsi~fl~sl~~~----------------------------- 341 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISWSPG---VDAILADEMGLGKTVQSIVFLYSLPKE----------------------------- 341 (696)
T ss_pred ccccccchhhhhhhhcccccC---CCcccchhhcCCceeeEEEEEeecccc-----------------------------
Confidence 468999999999999776643 348999999999999998887442211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccccc
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELA 824 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~ 824 (1433)
....+|.||++|.+.+.+|..|+..|.+ .+.+..|+|....+......
T Consensus 342 -----------------------------~~~~~P~Lv~ap~sT~~nwe~e~~~wap---~~~vv~~~G~~k~r~iirep 389 (696)
T KOG0383|consen 342 -----------------------------IHSPGPPLVVAPLSTIVNWEREFELWAP---SFYVVPYPGTAKSRAIIREP 389 (696)
T ss_pred -----------------------------cCCCCCceeeccCccccCCCCchhccCC---CcccccCCCCccchhhhhcc
Confidence 1123578999999999999999999977 68888899986543211000
Q ss_pred ----CCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccC
Q 000542 825 ----KFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAG 900 (1433)
Q Consensus 825 ----~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~ 900 (1433)
.-+-+.+.-.+..+ +.....+.. ..-..+ ...+...+
T Consensus 390 e~s~ed~~~~~~~~i~~~-----------------------------------~~~s~~k~~--vl~~s~--~~~~~~~~ 430 (696)
T KOG0383|consen 390 EFSFEDSSIKSSPKISEM-----------------------------------KTESSAKFH--VLLPSY--ETIEIDQS 430 (696)
T ss_pred cccccccccccCCccccc-----------------------------------cchhhcccc--cCCCch--hhcccCHH
Confidence 00000000000000 000000000 000000 00112234
Q ss_pred CccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCCC
Q 000542 901 PLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISK 980 (1433)
Q Consensus 901 pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~~ 980 (1433)
.+..+.|..+|+||+|++||..+..++.+......++++|||||.+|++.+|+++|+||.++.|.+..+|.+.|.. .
T Consensus 431 il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d---~ 507 (696)
T KOG0383|consen 431 ILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHD---I 507 (696)
T ss_pred HHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcch---h
Confidence 5889999999999999999999999999988899999999999999999999999999999999999999887653 2
Q ss_pred CchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccchHHH
Q 000542 981 NPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVN 1060 (1433)
Q Consensus 981 ~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~ 1060 (1433)
.....+++|+.++.+.|+||.|.++++ ..|++++-++.+.|++-|+++|..++...-..+.. | .+...
T Consensus 508 ~~~~~~~~l~~l~~p~~lrr~k~d~l~-----~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~----~---~~~~s 575 (696)
T KOG0383|consen 508 SCEEQIKKLHLLLCPHMLRRLKLDVLK-----PMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLA----G---VHQYS 575 (696)
T ss_pred hHHHHHHhhccccCchhhhhhhhhhcc-----CCCccceeEEEEecCHHHHHHHHHHHcCChHHHhh----c---chhHH
Confidence 345667899999999999999999998 69999999999999999999999887654433322 2 23345
Q ss_pred HHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhh
Q 000542 1061 ILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCI 1140 (1433)
Q Consensus 1061 IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci 1140 (1433)
++..++.||+.|+||++....... ... ..++.+.+
T Consensus 576 ~~n~~mel~K~~~hpy~~~~~e~~------------~~~--~~~~~~~l------------------------------- 610 (696)
T KOG0383|consen 576 LLNIVMELRKQCNHPYLSPLEEPL------------EEN--GEYLGSAL------------------------------- 610 (696)
T ss_pred HHHHHHHHHHhhcCcccCcccccc------------ccc--hHHHHHHH-------------------------------
Confidence 678899999999999987531100 000 00000000
Q ss_pred hhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCcccccHHHHHHHHHHHhhc
Q 000542 1141 CERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLA 1220 (1433)
Q Consensus 1141 ~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~ 1220 (1433)
...+.|+..|...++++
T Consensus 611 --------------------------------------------------------------~k~~~k~~~l~~~~~~l- 627 (696)
T KOG0383|consen 611 --------------------------------------------------------------IKASGKLTLLLKMLKKL- 627 (696)
T ss_pred --------------------------------------------------------------HHHHHHHHHHHHHHHHH-
Confidence 00134444444444442
Q ss_pred CCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHh
Q 000542 1221 KPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKD 1300 (1433)
Q Consensus 1221 k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~ 1300 (1433)
+..++||+||+|++.+||+|+.++..
T Consensus 628 ------------------------------------------------------~~~ghrvl~~~q~~~~ldlled~~~~ 653 (696)
T KOG0383|consen 628 ------------------------------------------------------KSSGHRVLIFSQMIHMLDLLEDYLTY 653 (696)
T ss_pred ------------------------------------------------------HhcchhhHHHHHHHHHHHHhHHHHhc
Confidence 23789999999999999999999999
Q ss_pred CCCcEEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccc
Q 000542 1301 SSIQYRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1301 ~gI~~~ridGsms~~eR~~~I~~Fn~d-~~v~VLL~StkaGg~G 1343 (1433)
.+ .|.|+||..+..+|++++++||.. ..-.++|+||+|||+|
T Consensus 654 ~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 654 EG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred cC-cceeccCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 99 999999999999999999999963 5678999999999988
No 23
>PRK13766 Hef nuclease; Provisional
Probab=99.97 E-value=2.7e-29 Score=327.56 Aligned_cols=125 Identities=21% Similarity=0.247 Sum_probs=112.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCC--------CCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGT--------MSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGs--------ms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~ 1348 (1433)
++.|+|||+++..++++|.+.|...|+.+..++|. |+..+|.+++++|++ +.+.||| +|.++++|+|++.
T Consensus 364 ~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~-g~~~vLv-aT~~~~eGldi~~ 441 (773)
T PRK13766 364 PDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRA-GEFNVLV-STSVAEEGLDIPS 441 (773)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHc-CCCCEEE-ECChhhcCCCccc
Confidence 57899999999999999999999999999999987 899999999999998 6788877 6689999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000542 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~ 1406 (1433)
+++||+|||+|||....|++||++|.|+ +.||.|++++|+||.++....+|.+.+
T Consensus 442 ~~~VI~yd~~~s~~r~iQR~GR~gR~~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 442 VDLVIFYEPVPSEIRSIQRKGRTGRQEE---GRVVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred CCEEEEeCCCCCHHHHHHHhcccCcCCC---CEEEEEEeCCChHHHHHHHhhHHHHHH
Confidence 9999999999999999998888888765 678999999999999887766665554
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.93 E-value=1.2e-23 Score=245.90 Aligned_cols=456 Identities=18% Similarity=0.178 Sum_probs=287.4
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
+.-+.||..-++-.+.+ ..+++-.+|||||+.|+.+++.....
T Consensus 14 ie~R~YQ~~i~a~al~~--------NtLvvlPTGLGKT~IA~~V~~~~l~~----------------------------- 56 (542)
T COG1111 14 IEPRLYQLNIAAKALFK--------NTLVVLPTGLGKTFIAAMVIANRLRW----------------------------- 56 (542)
T ss_pred ccHHHHHHHHHHHHhhc--------CeEEEecCCccHHHHHHHHHHHHHHh-----------------------------
Confidence 45677999988888754 35899999999999997777642211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-Cccc
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTK-DPCE 822 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k-~~~~ 822 (1433)
-.+..|+++|+- |+.|-.+-+.+.+. -+.-.+..+.|.-+.. ....
T Consensus 57 -------------------------------~~~kvlfLAPTKPLV~Qh~~~~~~v~~-ip~~~i~~ltGev~p~~R~~~ 104 (542)
T COG1111 57 -------------------------------FGGKVLFLAPTKPLVLQHAEFCRKVTG-IPEDEIAALTGEVRPEEREEL 104 (542)
T ss_pred -------------------------------cCCeEEEecCCchHHHHHHHHHHHHhC-CChhheeeecCCCChHHHHHH
Confidence 012589999985 88999999988776 3457888999987765 3456
Q ss_pred ccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCc
Q 000542 823 LAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPL 902 (1433)
Q Consensus 823 l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL 902 (1433)
|.+..|++.|-+++.+++. .+.+
T Consensus 105 w~~~kVfvaTPQvveNDl~---------------------------------------------------------~Gri 127 (542)
T COG1111 105 WAKKKVFVATPQVVENDLK---------------------------------------------------------AGRI 127 (542)
T ss_pred HhhCCEEEeccHHHHhHHh---------------------------------------------------------cCcc
Confidence 7899999999999986541 1223
Q ss_pred cccCccEEEEcCccccCChhhHH--HHHHHhcccC-cEEEEEcccCCCChHHHHhhhhccccCCccchHHHHhhhccCCC
Q 000542 903 AKVGWFRVVLDEAQSIKNHRTQV--ARACWGLRAK-RRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPIS 979 (1433)
Q Consensus 903 ~~i~W~rVILDEAH~IKN~~T~~--sral~~L~a~-~RwlLTGTPiqN~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~ 979 (1433)
.--.+.+||+||||+.-+..+-+ ++...+-..+ +.++|||||=. +.+.+...+.=|+.+..
T Consensus 128 d~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPGs-~~ekI~eV~~nLgIe~v--------------- 191 (542)
T COG1111 128 DLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPGS-DLEKIQEVVENLGIEKV--------------- 191 (542)
T ss_pred ChHHceEEEechhhhccCcchHHHHHHHHHHhccCceEEEEecCCCC-CHHHHHHHHHhCCcceE---------------
Confidence 44457789999999986543333 3322222333 68999999954 34444444444433221
Q ss_pred CCchhhHHHHHHHHhhhhhhccc-ccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcccccch-
Q 000542 980 KNPVKGYKKLQAVLKTIMLRRTK-GTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQN- 1057 (1433)
Q Consensus 980 ~~~~~~~~~L~~lL~~~mLRRtK-~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~- 1057 (1433)
.+|.-. .||.. .+-++..+.++|+++++-.++-+.+.......++.+.+.|-....
T Consensus 192 -----------------evrTE~d~DV~~-----Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~ 249 (542)
T COG1111 192 -----------------EVRTEEDPDVRP-----YVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSS 249 (542)
T ss_pred -----------------EEecCCCccHHH-----hhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccC
Confidence 111111 11211 455677889999999988888777777777777777766644322
Q ss_pred ---HHHHHHHH-HHHHHHccCcccccccCchhhhhh--HHHHHhhchH-------HHHHHHHHHhhhhcccccCCCCCCC
Q 000542 1058 ---YVNILLML-LRLRQACDHPLLVKGFDSNSLLRS--SVEMAKKLPQ-------ERQMYLLNCLEASLAICGICNDPPE 1124 (1433)
Q Consensus 1058 ---~~~IL~~L-lrLRq~c~HP~Lv~~~~~~s~~~~--s~e~a~~l~~-------e~~~~ll~~le~~~~~C~iC~~~~e 1124 (1433)
...++.+. .++-.+.. . ....|+. ....+.++.. .....+...|+...
T Consensus 250 ~~~~kdl~~~~~~~~~~a~~-------~-~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~----------- 310 (542)
T COG1111 250 PVSKKDLLELRQIRLIMAKN-------E-DSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLE----------- 310 (542)
T ss_pred cccHhHHHHHHHHHHHhccC-------c-cHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHH-----------
Confidence 22333333 11111111 0 1111111 0111111110 00111111111100
Q ss_pred cchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhhccccccCCCCCCCCCCCCCcccccCCccCCccc
Q 000542 1125 DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWY 1204 (1433)
Q Consensus 1125 ~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~i~~~~s~~~~~~~~~~~~~~~ 1204 (1433)
.+.-. . .......+..+.-|.++.-.. -.......
T Consensus 311 ----------------e~~~~-~-----~sk~a~~l~~d~~~~~al~~~-----------------------~~~~~~~v 345 (542)
T COG1111 311 ----------------EEATK-G-----GSKAAKSLLADPYFKRALRLL-----------------------IRADESGV 345 (542)
T ss_pred ----------------HHhcc-c-----chHHHHHHhcChhhHHHHHHH-----------------------HHhccccC
Confidence 00000 0 000000000011111110000 00011223
Q ss_pred ccHHHHHHHHHHHhhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEE
Q 000542 1205 NSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVF 1284 (1433)
Q Consensus 1205 ~ssKi~allelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIF 1284 (1433)
..+|+..+.++|++..+ +..+.++|||
T Consensus 346 ~HPKl~~l~eilke~~~-----------------------------------------------------k~~~~RvIVF 372 (542)
T COG1111 346 EHPKLEKLREILKEQLE-----------------------------------------------------KNGDSRVIVF 372 (542)
T ss_pred CCccHHHHHHHHHHHHh-----------------------------------------------------cCCCceEEEE
Confidence 46788888888887432 1256899999
Q ss_pred cccHHHHHHHHHHHHhCCCcEE-ecCC--------CCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1285 SQWTKMLDLLEASLKDSSIQYR-RLDG--------TMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1285 Sq~t~~LdlLe~~L~~~gI~~~-ridG--------sms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
++|+++++.|..+|...++... ++-| +|++++..++|++|+. +++.||| +|..|-+||++...+-||+|
T Consensus 373 T~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~-Ge~nVLV-aTSVgEEGLDIp~vDlVifY 450 (542)
T COG1111 373 TEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRK-GEYNVLV-ATSVGEEGLDIPEVDLVIFY 450 (542)
T ss_pred ehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHHHHHHHHhc-CCceEEE-EcccccccCCCCcccEEEEe
Confidence 9999999999999999988774 5544 5999999999999998 8999999 77999999999999999999
Q ss_pred cCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000542 1356 DLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1356 Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~ 1406 (1433)
||.=.|-+..||.||.+| ++.=+||.|+++||-|+.-+....+|.+.+
T Consensus 451 EpvpSeIR~IQR~GRTGR---~r~Grv~vLvt~gtrdeayy~~s~rke~~m 498 (542)
T COG1111 451 EPVPSEIRSIQRKGRTGR---KRKGRVVVLVTEGTRDEAYYYSSRRKEQKM 498 (542)
T ss_pred cCCcHHHHHHHhhCcccc---CCCCeEEEEEecCchHHHHHHHHHHHHHHH
Confidence 999999999999999888 477788889999999987777766665544
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.92 E-value=1.1e-22 Score=248.22 Aligned_cols=121 Identities=16% Similarity=0.176 Sum_probs=107.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.+++||+........|...+...|+ ...++|.++..+|.++++.|+.. ++.||+ +.+.+.+|+++..|+.+|++.
T Consensus 282 ~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g-~~~~lv-~~~vl~EGvDiP~~~~~i~~~ 358 (442)
T COG1061 282 RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTG-GIKVLV-TVKVLDEGVDIPDADVLIILR 358 (442)
T ss_pred CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcC-CCCEEE-EeeeccceecCCCCcEEEEeC
Confidence 368999999999999999999999988 89999999999999999999994 477776 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhcc-CCCCc--EEEEEEEeCCCHHHHHHHHHH
Q 000542 1357 LWWNPTTEDQAIDRAHRI-GQTRP--VSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRI-GQkr~--V~VyrLi~kdTIEErIl~lq~ 1400 (1433)
|.=++..+.|++||+.|. ..+.. +.+|-++.+++.+..+.+...
T Consensus 359 ~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (442)
T COG1061 359 PTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRR 405 (442)
T ss_pred CCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhh
Confidence 999999999999999994 44444 777778888888887776555
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.91 E-value=1.8e-22 Score=250.74 Aligned_cols=114 Identities=18% Similarity=0.138 Sum_probs=103.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+..+..++.|.+.|+..|+++..++|.|+.++|.++++.|++ +...|||.|.+..++|+++...++||++.
T Consensus 343 ~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~-~~~~vLvaT~~~l~eG~Dip~ld~vIl~~ 421 (501)
T PHA02558 343 KGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEG-GKGIIIVASYGVFSTGISIKNLHHVIFAH 421 (501)
T ss_pred cCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhC-CCCeEEEEEcceeccccccccccEEEEec
Confidence 45788999999999999999999999999999999999999999999986 67788998889999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCC-cEEEEEEEeCCCH
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTR-PVSVLRLTVKNTV 1391 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr-~V~VyrLi~kdTI 1391 (1433)
|.-+.....|++||++|.|..+ .+.||.|+-.-.+
T Consensus 422 p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~~ 457 (501)
T PHA02558 422 PSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLSV 457 (501)
T ss_pred CCcchhhhhhhhhccccCCCCCceEEEEEeeccccc
Confidence 9999999999999999998766 4899999864443
No 27
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.85 E-value=1.6e-20 Score=216.52 Aligned_cols=112 Identities=24% Similarity=0.268 Sum_probs=93.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.++|+|||+...-.|...+..|.+ -.|+|.+++.+|-+++++|+.++.+.-+.+| ++|...++|..|+.+|-+.
T Consensus 542 RgDKiIVFsDnvfALk~YAikl~K-----pfIYG~Tsq~ERm~ILqnFq~n~~vNTIFlS-KVgDtSiDLPEAnvLIQIS 615 (776)
T KOG1123|consen 542 RGDKIIVFSDNVFALKEYAIKLGK-----PFIYGPTSQNERMKILQNFQTNPKVNTIFLS-KVGDTSIDLPEANVLIQIS 615 (776)
T ss_pred cCCeEEEEeccHHHHHHHHHHcCC-----ceEECCCchhHHHHHHHhcccCCccceEEEe-eccCccccCCcccEEEEEc
Confidence 789999999987666555544433 3578999999999999999999999888888 9999999999999999998
Q ss_pred CCC-CcChHHHHHHhhhccCCCC----cEEEEEEEeCCCHHHH
Q 000542 1357 LWW-NPTTEDQAIDRAHRIGQTR----PVSVLRLTVKNTVEDR 1394 (1433)
Q Consensus 1357 p~W-NPa~e~QAIGRahRIGQkr----~V~VyrLi~kdTIEEr 1394 (1433)
.+. .-..|+||.||+-|--... .++.|-|+.++|.|-.
T Consensus 616 SH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM~ 658 (776)
T KOG1123|consen 616 SHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEMY 658 (776)
T ss_pred ccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHHH
Confidence 886 5568999999999965322 3889999999998843
No 28
>PTZ00110 helicase; Provisional
Probab=99.81 E-value=5.1e-18 Score=212.66 Aligned_cols=109 Identities=21% Similarity=0.252 Sum_probs=99.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.|+|||++....++.|...|...|++...++|.++.++|.++++.|++ +.+.||| +|.+++.|||+..+++||+||
T Consensus 376 ~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~-G~~~ILV-aTdv~~rGIDi~~v~~VI~~d 453 (545)
T PTZ00110 376 DGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKT-GKSPIMI-ATDVASRGLDVKDVKYVINFD 453 (545)
T ss_pred cCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhc-CCCcEEE-EcchhhcCCCcccCCEEEEeC
Confidence 35799999999999999999999999999999999999999999999998 7788876 679999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+++++....||+||+.|.|.+-.+ +.|+.++
T Consensus 454 ~P~s~~~yvqRiGRtGR~G~~G~a--i~~~~~~ 484 (545)
T PTZ00110 454 FPNQIEDYVHRIGRTGRAGAKGAS--YTFLTPD 484 (545)
T ss_pred CCCCHHHHHHHhcccccCCCCceE--EEEECcc
Confidence 999999999999999999987543 4456555
No 29
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.80 E-value=9.7e-18 Score=206.93 Aligned_cols=109 Identities=23% Similarity=0.310 Sum_probs=98.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+......+.+...|...++....++|.|+..+|+.+++.|++ +.++||| +|.+++.|||+...++||++|
T Consensus 241 ~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~-g~~~vLV-aTdv~~rGiDi~~v~~VI~~d 318 (460)
T PRK11776 241 QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFAN-RSCSVLV-ATDVAARGLDIKALEAVINYE 318 (460)
T ss_pred CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHc-CCCcEEE-EecccccccchhcCCeEEEec
Confidence 34689999999999999999999999999999999999999999999997 8888888 569999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
++.++....||+||+.|.|++-. .+.|+..+
T Consensus 319 ~p~~~~~yiqR~GRtGR~g~~G~--ai~l~~~~ 349 (460)
T PRK11776 319 LARDPEVHVHRIGRTGRAGSKGL--ALSLVAPE 349 (460)
T ss_pred CCCCHhHhhhhcccccCCCCcce--EEEEEchh
Confidence 99999999999999999997754 44455554
No 30
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.79 E-value=1.5e-17 Score=203.81 Aligned_cols=104 Identities=23% Similarity=0.330 Sum_probs=96.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
...++|||+.....++.|...|...|+....++|.|+..+|..+++.|+. +.++||| +|.+++.|||+..+++||++|
T Consensus 244 ~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~-G~~~vLV-aTd~~~~GiDip~v~~VI~~d 321 (434)
T PRK11192 244 EVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTD-GRVNVLV-ATDVAARGIDIDDVSHVINFD 321 (434)
T ss_pred CCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhC-CCCcEEE-EccccccCccCCCCCEEEEEC
Confidence 34789999999999999999999999999999999999999999999997 8898888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEE
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~V 1382 (1433)
+++++....||+||+.|.|.+..+.+
T Consensus 322 ~p~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 322 MPRSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred CCCCHHHHhhcccccccCCCCceEEE
Confidence 99999999999999999998765444
No 31
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.79 E-value=7.2e-17 Score=199.47 Aligned_cols=126 Identities=19% Similarity=0.203 Sum_probs=95.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHh---CCCcEEecCC--------CCCHHHHHHHHHHHhcCCCccEEEeeccccccccC
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDG--------TMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLN 1345 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~---~gI~~~ridG--------sms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLN 1345 (1433)
+..++|||+.++..++.|..+|.. .|++...+-| +|+..+..++++.|++ |++.||| +|..|-+||+
T Consensus 412 ~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~-G~~NvLV-ATSV~EEGLD 489 (746)
T KOG0354|consen 412 PDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRD-GEINVLV-ATSVAEEGLD 489 (746)
T ss_pred CCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhC-CCccEEE-EecchhccCC
Confidence 568999999999999999999983 2455444433 6899999999999999 9999999 5699999999
Q ss_pred ccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHH
Q 000542 1346 MVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASA 1409 (1433)
Q Consensus 1346 Lq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~ 1409 (1433)
...++-||-||..-||.+..||+|| .| ++.=+++.|.. +.=+-.--..+..|+.+....
T Consensus 490 I~ec~lVIcYd~~snpIrmIQrrGR-gR---a~ns~~vll~t-~~~~~~~E~~~~~~e~lm~~~ 548 (746)
T KOG0354|consen 490 IGECNLVICYDYSSNPIRMVQRRGR-GR---ARNSKCVLLTT-GSEVIEFERNNLAKEKLMNQT 548 (746)
T ss_pred cccccEEEEecCCccHHHHHHHhcc-cc---ccCCeEEEEEc-chhHHHHHHHHHhHHHHHHHH
Confidence 9999999999999999999999999 55 55545555555 332222222334444444333
No 32
>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=99.78 E-value=1.8e-17 Score=204.84 Aligned_cols=105 Identities=22% Similarity=0.270 Sum_probs=96.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
++.+.|||+......+.+...|...|+....|+|+|+.++|.++++.|.. +.++||+ +|.+.|.|+|+...++||+++
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~-g~~~vLV-aT~~~~~GID~p~V~~VI~~~ 302 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQR-DEIQVVV-ATVAFGMGINKPDVRFVIHYS 302 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHc-CCCcEEE-EechhhccCCcccceEEEEeC
Confidence 45677999999999999999999999999999999999999999999996 8889888 558999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~Vy 1383 (1433)
++.++....|++||++|.|+.....++
T Consensus 303 ~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 303 LPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred CCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 999999999999999999988764443
No 33
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.78 E-value=3.5e-17 Score=204.34 Aligned_cols=107 Identities=21% Similarity=0.310 Sum_probs=96.1
Q ss_pred CeEEEEcccHHHHHHHHHHHHh-CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKD-SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~-~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
.++|||+......+.|...|.. .|+.+..++|+++.++|.++++.|+. +.++||| +|.+++.|||+..+++||+||+
T Consensus 368 ~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~-G~~~ILV-aTdvl~rGiDip~v~~VI~~d~ 445 (518)
T PLN00206 368 PPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLV-GEVPVIV-ATGVLGRGVDLLRVRQVIIFDM 445 (518)
T ss_pred CCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHC-CCCCEEE-EecHhhccCCcccCCEEEEeCC
Confidence 5799999999999999999975 69999999999999999999999998 8888887 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+.++....|++||+.|.|.+- +++.|+..+
T Consensus 446 P~s~~~yihRiGRaGR~g~~G--~ai~f~~~~ 475 (518)
T PLN00206 446 PNTIKEYIHQIGRASRMGEKG--TAIVFVNEE 475 (518)
T ss_pred CCCHHHHHHhccccccCCCCe--EEEEEEchh
Confidence 999999999999999999754 344456544
No 34
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.78 E-value=3.7e-17 Score=199.70 Aligned_cols=107 Identities=20% Similarity=0.289 Sum_probs=98.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..|+|||+.....++.|...|...|+.+..++|.|+.++|.+++++|++ ++++||| +|.+++.|||+...++||+||+
T Consensus 255 ~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~-g~~~vLV-aTdv~~rGiDip~v~~VI~~d~ 332 (423)
T PRK04837 255 PDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTR-GDLDILV-ATDVAARGLHIPAVTHVFNYDL 332 (423)
T ss_pred CCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHc-CCCcEEE-EechhhcCCCccccCEEEEeCC
Confidence 4789999999999999999999999999999999999999999999998 8888888 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
++++....|++||+.|.|++-. ++.|+.+
T Consensus 333 P~s~~~yiqR~GR~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 333 PDDCEDYVHRIGRTGRAGASGH--SISLACE 361 (423)
T ss_pred CCchhheEeccccccCCCCCee--EEEEeCH
Confidence 9999999999999999997754 3445554
No 35
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.77 E-value=4.5e-17 Score=200.65 Aligned_cols=108 Identities=23% Similarity=0.305 Sum_probs=97.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..++|||+......+.|...|...++....++|.|+.++|.++++.|++ +.++||| +|.+++.|||+...++||+||+
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~-g~~~iLV-aTdv~~rGiDip~v~~VI~~~~ 322 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKS-GDIRVLV-ATDIAARGLDIEELPHVVNYEL 322 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHc-CCCcEEE-EccHHhcCCCcccCCEEEEeCC
Confidence 4689999999999999999999999999999999999999999999998 7888888 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+.++....|++||+.|.|++..+. .|+..+
T Consensus 323 P~~~~~yvqR~GRaGR~g~~G~ai--~l~~~~ 352 (456)
T PRK10590 323 PNVPEDYVHRIGRTGRAAATGEAL--SLVCVD 352 (456)
T ss_pred CCCHHHhhhhccccccCCCCeeEE--EEecHH
Confidence 999999999999999999876433 344443
No 36
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.76 E-value=9.8e-17 Score=201.96 Aligned_cols=108 Identities=17% Similarity=0.324 Sum_probs=98.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+.....++.|.+.|...++....++|.|+..+|.++++.|++ +.++||| +|.+++.|||+...++||+||
T Consensus 256 ~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~-G~~~VLV-aTdv~arGIDip~V~~VInyd 333 (572)
T PRK04537 256 EGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQK-GQLEILV-ATDVAARGLHIDGVKYVYNYD 333 (572)
T ss_pred cCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHc-CCCeEEE-EehhhhcCCCccCCCEEEEcC
Confidence 45789999999999999999999999999999999999999999999997 7888888 569999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
++|++....|++||+.|.|.+-.+ +.|+..
T Consensus 334 ~P~s~~~yvqRiGRaGR~G~~G~a--i~~~~~ 363 (572)
T PRK04537 334 LPFDAEDYVHRIGRTARLGEEGDA--ISFACE 363 (572)
T ss_pred CCCCHHHHhhhhcccccCCCCceE--EEEecH
Confidence 999999999999999999987543 334544
No 37
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.76 E-value=1.4e-16 Score=197.50 Aligned_cols=109 Identities=20% Similarity=0.326 Sum_probs=98.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
...|+|||++....++.|...|...|+....++|.++.++|.++++.|++ ++++||| +|.+++.|||+...++||+++
T Consensus 334 ~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~-G~~~vLv-aT~~l~~GIDi~~v~~VI~~~ 411 (475)
T PRK01297 334 PWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFRE-GKIRVLV-ATDVAGRGIHIDGISHVINFT 411 (475)
T ss_pred CCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhC-CCCcEEE-EccccccCCcccCCCEEEEeC
Confidence 34699999999999999999999999999999999999999999999998 7888888 679999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+++++....|++||++|.|+.-. ++.|+.++
T Consensus 412 ~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 412 LPEDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred CCCCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 99999999999999999998654 33345443
No 38
>PTZ00424 helicase 45; Provisional
Probab=99.76 E-value=1.6e-16 Score=192.38 Aligned_cols=108 Identities=19% Similarity=0.325 Sum_probs=97.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..++|||+.....++.+...|...++....++|.++.++|..+++.|++ +.++||+ +|.+++.|+|+...++||++|+
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~-g~~~vLv-aT~~l~~GiDip~v~~VI~~~~ 344 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRS-GSTRVLI-TTDLLARGIDVQQVSLVINYDL 344 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHc-CCCCEEE-EcccccCCcCcccCCEEEEECC
Confidence 4689999999999999999999999999999999999999999999997 7888887 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+.++....|++||+.|.|..- .++.|+.++
T Consensus 345 p~s~~~y~qr~GRagR~g~~G--~~i~l~~~~ 374 (401)
T PTZ00424 345 PASPENYIHRIGRSGRFGRKG--VAINFVTPD 374 (401)
T ss_pred CCCHHHEeecccccccCCCCc--eEEEEEcHH
Confidence 999999999999999998654 445566554
No 39
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.75 E-value=4.6e-16 Score=197.23 Aligned_cols=101 Identities=18% Similarity=0.266 Sum_probs=94.6
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..++|||+......+.|...|...|+....++|.|+..+|++++++|+. +.++||| +|.+++.|||+...++||+||+
T Consensus 245 ~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~-G~~~ILV-ATdv~arGIDip~V~~VI~~d~ 322 (629)
T PRK11634 245 FDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKD-GRLDILI-ATDVAARGLDVERISLVVNYDI 322 (629)
T ss_pred CCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhC-CCCCEEE-EcchHhcCCCcccCCEEEEeCC
Confidence 4689999999999999999999999999999999999999999999998 7888887 6799999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V 1380 (1433)
+.++....|++||+.|.|.+-..
T Consensus 323 P~~~e~yvqRiGRtGRaGr~G~a 345 (629)
T PRK11634 323 PMDSESYVHRIGRTGRAGRAGRA 345 (629)
T ss_pred CCCHHHHHHHhccccCCCCcceE
Confidence 99999999999999999976543
No 40
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.75 E-value=1.8e-16 Score=201.44 Aligned_cols=101 Identities=18% Similarity=0.229 Sum_probs=94.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+......+.+...|...|+....++|+|+.++|.++++.|.. +.++||| +|.+.|.|||+...++||+||
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~-g~~~VLV-aT~a~~~GIDip~V~~VI~~d 312 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQR-DDLQIVV-ATVAFGMGINKPNVRFVVHFD 312 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHC-CCCCEEE-EechhhccCCCCCcCEEEEeC
Confidence 45789999999999999999999999999999999999999999999997 7788888 568999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCc
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
++.+.....|++||++|.|....
T Consensus 313 ~P~s~~~y~Qr~GRaGR~G~~~~ 335 (607)
T PRK11057 313 IPRNIESYYQETGRAGRDGLPAE 335 (607)
T ss_pred CCCCHHHHHHHhhhccCCCCCce
Confidence 99999999999999999997655
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=99.75 E-value=1.7e-16 Score=201.60 Aligned_cols=102 Identities=23% Similarity=0.263 Sum_probs=94.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
+.+.|||+......+.+...|...|+++..++|+|+.++|..+++.|.. +.++||+ +|.+.|.|+|+...++||++++
T Consensus 224 ~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~-g~~~vlV-aT~a~~~GID~p~v~~VI~~~~ 301 (591)
T TIGR01389 224 GQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLY-DDVKVMV-ATNAFGMGIDKPNVRFVIHYDM 301 (591)
T ss_pred CCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHc-CCCcEEE-EechhhccCcCCCCCEEEEcCC
Confidence 4688999999999999999999999999999999999999999999998 6788888 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~ 1381 (1433)
+++.....|++||++|.|+.....
T Consensus 302 p~s~~~y~Q~~GRaGR~G~~~~~i 325 (591)
T TIGR01389 302 PGNLESYYQEAGRAGRDGLPAEAI 325 (591)
T ss_pred CCCHHHHhhhhccccCCCCCceEE
Confidence 999999999999999999776543
No 42
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.72 E-value=1.6e-15 Score=193.62 Aligned_cols=79 Identities=15% Similarity=0.199 Sum_probs=69.5
Q ss_pred CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCC-CcChHHHHHHhhhccCCCCc
Q 000542 1301 SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1301 ~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~W-NPa~e~QAIGRahRIGQkr~ 1379 (1433)
.++.+..++|.|+.++|.+++++|++ ++++||| +|.+.++|+|+..++.||+++++. .-+...|++||+.|-|.+-.
T Consensus 481 ~~~~v~~lHG~m~~~eR~~i~~~F~~-g~~~ILV-aT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~ 558 (630)
T TIGR00643 481 PKYNVGLLHGRMKSDEKEAVMEEFRE-GEVDILV-ATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSY 558 (630)
T ss_pred CCCcEEEEeCCCCHHHHHHHHHHHHc-CCCCEEE-ECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcE
Confidence 36788999999999999999999998 7888888 668999999999999999999874 66788999999999987654
Q ss_pred EE
Q 000542 1380 VS 1381 (1433)
Q Consensus 1380 V~ 1381 (1433)
+.
T Consensus 559 ~i 560 (630)
T TIGR00643 559 CL 560 (630)
T ss_pred EE
Confidence 43
No 43
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.72 E-value=6.8e-16 Score=204.48 Aligned_cols=106 Identities=14% Similarity=0.355 Sum_probs=85.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC------CC---cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS------SI---QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~------gI---~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~ 1348 (1433)
+.|.|||+....+++.+.+.|... ++ .+..++|.++ ++.+++++|.+ +....++++.+..++|++...
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~-~~~p~IlVsvdmL~TG~DvP~ 774 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKN-ERLPNIVVTVDLLTTGIDVPS 774 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhC-CCCCeEEEEecccccCCCccc
Confidence 479999999999999888887653 22 3457899975 67889999987 444355558899999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCC---CCcEEEEEEE
Q 000542 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQ---TRPVSVLRLT 1386 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAIGRahRIGQ---kr~V~VyrLi 1386 (1433)
..+||++.|.-++....|++||+-|+-- |....|+.++
T Consensus 775 v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 775 ICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred ccEEEEecCCCCHHHHHHHHhhhccCCccCCCceEEEEehH
Confidence 9999999999999999999999999754 4445565553
No 44
>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=99.70 E-value=2.7e-15 Score=195.71 Aligned_cols=108 Identities=13% Similarity=0.162 Sum_probs=92.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
.+.+++||++....++.+...|+.. ++++..++|.|+.++|++++++|.+ ++++||| +|.+.+.|+|+..+++||+
T Consensus 659 ~g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~-Gk~~ILV-aT~iie~GIDIp~v~~VIi 736 (926)
T TIGR00580 659 RGGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYK-GEFQVLV-CTTIIETGIDIPNANTIII 736 (926)
T ss_pred cCCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHc-CCCCEEE-ECChhhcccccccCCEEEE
Confidence 3568999999999999999999874 7899999999999999999999998 7888888 6689999999999999999
Q ss_pred EcCC-CCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1355 LDLW-WNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1355 ~Dp~-WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
++++ +..+...|++||++|-|++. ++|.|+..
T Consensus 737 ~~a~~~gls~l~Qr~GRvGR~g~~g--~aill~~~ 769 (926)
T TIGR00580 737 ERADKFGLAQLYQLRGRVGRSKKKA--YAYLLYPH 769 (926)
T ss_pred ecCCCCCHHHHHHHhcCCCCCCCCe--EEEEEECC
Confidence 9885 45567889999999988654 44555543
No 45
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.69 E-value=3.6e-15 Score=198.33 Aligned_cols=102 Identities=12% Similarity=0.130 Sum_probs=90.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
+.+++||++....++.+.+.|... ++++..++|.|+.++|++++.+|.+ ++++||| +|.+.+.|||+..+++||+.
T Consensus 809 ~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~-Gk~~VLV-aTdIierGIDIP~v~~VIi~ 886 (1147)
T PRK10689 809 GGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHH-QRFNVLV-CTTIIETGIDIPTANTIIIE 886 (1147)
T ss_pred CCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHh-cCCCEEE-ECchhhcccccccCCEEEEe
Confidence 468999999999999999999876 7889999999999999999999998 8899988 66999999999999999987
Q ss_pred cCC-CCcChHHHHHHhhhccCCCCcEE
Q 000542 1356 DLW-WNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1356 Dp~-WNPa~e~QAIGRahRIGQkr~V~ 1381 (1433)
++. |......|++||++|.|++-.++
T Consensus 887 ~ad~fglaq~~Qr~GRvGR~g~~g~a~ 913 (1147)
T PRK10689 887 RADHFGLAQLHQLRGRVGRSHHQAYAW 913 (1147)
T ss_pred cCCCCCHHHHHHHhhccCCCCCceEEE
Confidence 764 67778999999999998875433
No 46
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.69 E-value=5.5e-15 Score=189.88 Aligned_cols=77 Identities=14% Similarity=0.210 Sum_probs=68.1
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCC-CcChHHHHHHhhhccCCCCcE
Q 000542 1302 SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1302 gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~W-NPa~e~QAIGRahRIGQkr~V 1380 (1433)
++++..++|.|+.++|++++++|.+ ++++||| +|.+.+.|+|+..++.||+++++. ..+...|++||+.|-|.+..+
T Consensus 505 ~~~v~~lHG~m~~~eR~~i~~~F~~-g~~~ILV-aT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~ 582 (681)
T PRK10917 505 ELRVGLLHGRMKPAEKDAVMAAFKA-GEIDILV-ATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYC 582 (681)
T ss_pred CCcEEEEeCCCCHHHHHHHHHHHHc-CCCCEEE-ECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEE
Confidence 4789999999999999999999998 7888887 668999999999999999999874 567888999999999876433
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.68 E-value=4.2e-15 Score=191.32 Aligned_cols=104 Identities=18% Similarity=0.173 Sum_probs=96.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
+.+.|||+......+.|...|...|+....|+|+|+.++|..++++|.. +.++||| +|.+.|.|||+...+.||+|++
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~-Gei~VLV-ATdAFGMGIDkPDVR~VIHydl 757 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSK-DEINIIC-ATVAFGMGINKPDVRFVIHHSL 757 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhc-CCCcEEE-EechhhcCCCccCCcEEEEcCC
Confidence 3567999999999999999999999999999999999999999999998 7888888 5699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~Vy 1383 (1433)
+-+.....|++||++|.|+.-.+..+
T Consensus 758 PkSiEsYyQriGRAGRDG~~g~cILl 783 (1195)
T PLN03137 758 PKSIEGYHQECGRAGRDGQRSSCVLY 783 (1195)
T ss_pred CCCHHHHHhhhcccCCCCCCceEEEE
Confidence 99999999999999999988664443
No 48
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.63 E-value=2e-14 Score=173.47 Aligned_cols=101 Identities=23% Similarity=0.268 Sum_probs=95.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.|+|||++...+.+.|++.|+..+++.+.|||..++.+|+.+++.|++ +...||| .|..++.||++...++||+||
T Consensus 340 ~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~Fre-G~~~vLV-ATdVAaRGLDi~dV~lVInyd 417 (519)
T KOG0331|consen 340 SEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFRE-GKSPVLV-ATDVAARGLDVPDVDLVINYD 417 (519)
T ss_pred CCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhccc-CCcceEE-EcccccccCCCccccEEEeCC
Confidence 56799999999999999999999999999999999999999999999998 7888888 569999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCc
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
+|=|.....+|+||..|-|++-.
T Consensus 418 fP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 418 FPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred CCCCHHHHHhhcCccccCCCCce
Confidence 99999999999999999888765
No 49
>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=99.61 E-value=1.2e-13 Score=178.65 Aligned_cols=116 Identities=15% Similarity=0.154 Sum_probs=98.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC--------CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS--------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA 1349 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~--------gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~A 1349 (1433)
+.|+|||++.....+.|...|... +.++..++|++++++|.++.++|++ +.++||+ +|.+++.|||+...
T Consensus 271 ~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~-G~i~vLV-aTd~lerGIDI~~v 348 (742)
T TIGR03817 271 GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRD-GELLGVA-TTNALELGVDISGL 348 (742)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHc-CCceEEE-ECchHhccCCcccc
Confidence 479999999999999999988653 5677899999999999999999998 8888887 77999999999999
Q ss_pred CEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000542 1350 CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1350 n~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~ 1397 (1433)
++||+++.|-+.....||+||+.|.|+.-. ++.++..+..|..++.
T Consensus 349 d~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~~~ 394 (742)
T TIGR03817 349 DAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYLVH 394 (742)
T ss_pred cEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHHHh
Confidence 999999999999999999999999997753 3334444556655433
No 50
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.57 E-value=3.9e-13 Score=176.98 Aligned_cols=105 Identities=16% Similarity=0.141 Sum_probs=91.6
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC------CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACH 1351 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~------gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~ 1351 (1433)
+.++|||++.....+.+...|... +..+..++|+++.++|..+.+.|++ +.++||+ +|.+.+.|||+...++
T Consensus 284 ~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~-G~i~vLV-aTs~Le~GIDip~Vd~ 361 (876)
T PRK13767 284 HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKR-GELKVVV-SSTSLELGIDIGYIDL 361 (876)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHc-CCCeEEE-ECChHHhcCCCCCCcE
Confidence 468999999999999999998762 4678899999999999999999998 7888888 6699999999999999
Q ss_pred EEEEcCCCCcChHHHHHHhhhcc-CCCCcEEEEE
Q 000542 1352 VLLLDLWWNPTTEDQAIDRAHRI-GQTRPVSVLR 1384 (1433)
Q Consensus 1352 VI~~Dp~WNPa~e~QAIGRahRI-GQkr~V~Vyr 1384 (1433)
||+++++.+.....||+||++|- |+...-.++-
T Consensus 362 VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii~ 395 (876)
T PRK13767 362 VVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRIIV 395 (876)
T ss_pred EEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEEE
Confidence 99999999999999999999985 4555544443
No 51
>PRK02362 ski2-like helicase; Provisional
Probab=99.56 E-value=3.8e-13 Score=175.04 Aligned_cols=81 Identities=20% Similarity=0.090 Sum_probs=66.9
Q ss_pred cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec-----CCCCcChHHHHHHhhhcc
Q 000542 1304 QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD-----LWWNPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1304 ~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~----~D-----p~WNPa~e~QAIGRahRI 1374 (1433)
.+..++|+++.++|..+.+.|+. +.++||+ +|.+.+.|+||.+...||. || .+.++....|++||++|.
T Consensus 305 gva~hHagl~~~eR~~ve~~Fr~-G~i~VLv-aT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAGR~ 382 (737)
T PRK02362 305 GAAFHHAGLSREHRELVEDAFRD-RLIKVIS-STPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGRP 382 (737)
T ss_pred CEEeecCCCCHHHHHHHHHHHHc-CCCeEEE-echhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHhhcCCCC
Confidence 46778999999999999999998 8899888 6699999999988877775 66 456777899999999999
Q ss_pred CCCCcEEEEEEE
Q 000542 1375 GQTRPVSVLRLT 1386 (1433)
Q Consensus 1375 GQkr~V~VyrLi 1386 (1433)
|....=.++-+.
T Consensus 383 g~d~~G~~ii~~ 394 (737)
T PRK02362 383 GLDPYGEAVLLA 394 (737)
T ss_pred CCCCCceEEEEe
Confidence 987554444444
No 52
>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=99.54 E-value=8.5e-13 Score=169.20 Aligned_cols=108 Identities=17% Similarity=0.052 Sum_probs=74.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC-----CCcEEecCCCCCHH---------------------HHHHHHHHHhcCCCcc
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS-----SIQYRRLDGTMSVF---------------------ARDKAVKDFNTLPEVS 1331 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~-----gI~~~ridGsms~~---------------------eR~~~I~~Fn~d~~v~ 1331 (1433)
+.|.+||+.....+..+...|.+. +...+.++|+.+.+ .+.+++++|.+++.++
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ 593 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPK 593 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCce
Confidence 356666666666666665555433 23334455543322 3357999998866788
Q ss_pred EEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc-CC-CCcEEEEEEEe
Q 000542 1332 VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRI-GQ-TRPVSVLRLTV 1387 (1433)
Q Consensus 1332 VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRI-GQ-kr~V~VyrLi~ 1387 (1433)
+||+. ....+|.+.+..+++++.-|-=.. ...|||||+.|+ +- |....|+.|+-
T Consensus 594 ilIVv-dmllTGFDaP~l~tLyldKplk~h-~LlQai~R~nR~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 594 LLIVV-DMLLTGFDAPILNTLYLDKPLKYH-GLLQAIARTNRIDGKDKTFGLIVDYRG 649 (667)
T ss_pred EEEEE-cccccccCCCccceEEEecccccc-HHHHHHHHhccccCCCCCCEEEEECcC
Confidence 88755 899999999999999998886655 468999999995 43 33467776653
No 53
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=2.9e-12 Score=159.80 Aligned_cols=119 Identities=24% Similarity=0.408 Sum_probs=102.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
.++|||+.-....+.|...|...|+....|+|.+++.+|.++++.|++ +.++|||+| ++++.||++...++||+||++
T Consensus 274 ~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~-g~~~vLVaT-DvaaRGiDi~~v~~VinyD~p 351 (513)
T COG0513 274 GRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKD-GELRVLVAT-DVAARGLDIPDVSHVINYDLP 351 (513)
T ss_pred CeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHc-CCCCEEEEe-chhhccCCccccceeEEccCC
Confidence 479999999999999999999999999999999999999999999996 889999955 999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000542 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKK 1402 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK 1402 (1433)
.++....+||||..|.|.+- ..+.|+.. .-|...+...++.
T Consensus 352 ~~~e~yvHRiGRTgRaG~~G--~ai~fv~~-~~e~~~l~~ie~~ 392 (513)
T COG0513 352 LDPEDYVHRIGRTGRAGRKG--VAISFVTE-EEEVKKLKRIEKR 392 (513)
T ss_pred CCHHHheeccCccccCCCCC--eEEEEeCc-HHHHHHHHHHHHH
Confidence 99999999999999999554 34445554 2244444444433
No 54
>PRK01172 ski2-like helicase; Provisional
Probab=99.51 E-value=2.5e-12 Score=166.21 Aligned_cols=72 Identities=21% Similarity=0.178 Sum_probs=60.2
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---------CCcChHHHHHHhhhccC
Q 000542 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---------WNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1305 ~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~---------WNPa~e~QAIGRahRIG 1375 (1433)
+..++|+++.++|..+.+.|++ +.++||+ +|.+.+.|+|+++ .+||+++.+ +.+....|++||++|.|
T Consensus 288 v~~~hagl~~~eR~~ve~~f~~-g~i~VLv-aT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g 364 (674)
T PRK01172 288 VAFHHAGLSNEQRRFIEEMFRN-RYIKVIV-ATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPG 364 (674)
T ss_pred EEEecCCCCHHHHHHHHHHHHc-CCCeEEE-ecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCCC
Confidence 4567999999999999999997 7888888 6699999999985 688887643 45556789999999999
Q ss_pred CCCc
Q 000542 1376 QTRP 1379 (1433)
Q Consensus 1376 Qkr~ 1379 (1433)
....
T Consensus 365 ~d~~ 368 (674)
T PRK01172 365 YDQY 368 (674)
T ss_pred CCCc
Confidence 7655
No 55
>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=99.51 E-value=6.9e-14 Score=141.41 Aligned_cols=105 Identities=31% Similarity=0.479 Sum_probs=96.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+.....++.+...|...++++..++|+++..+|.++++.|+. +...+++ ++.++++|+|++.+++||+++
T Consensus 27 ~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~-~~~~ili-~t~~~~~G~d~~~~~~vi~~~ 104 (131)
T cd00079 27 KGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFRE-GEIVVLV-ATDVIARGIDLPNVSVVINYD 104 (131)
T ss_pred CCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHc-CCCcEEE-EcChhhcCcChhhCCEEEEeC
Confidence 46799999999999999999999999999999999999999999999998 4555555 779999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~Vy 1383 (1433)
++|++....|++||++|.||++.|+++
T Consensus 105 ~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 105 LPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred CCCCHHHheecccccccCCCCceEEeC
Confidence 999999999999999999998877663
No 56
>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=99.49 E-value=2e-12 Score=154.60 Aligned_cols=108 Identities=16% Similarity=0.184 Sum_probs=88.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCC--cEEecCCCCCHHHHHHH----HHHHhcCCCccEEEeeccccccccCccccC
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI--QYRRLDGTMSVFARDKA----VKDFNTLPEVSVMIMSLKAASLGLNMVAAC 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI--~~~ridGsms~~eR~~~----I~~Fn~d~~v~VLL~StkaGg~GLNLq~An 1350 (1433)
.+.++|||++.....+.+...|++.+. .+..++|.++..+|.+. ++.|.+ +..+||| +|.+.+.|+|+ .++
T Consensus 221 ~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~-~~~~ilv-aT~~~~~GiDi-~~~ 297 (358)
T TIGR01587 221 KGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKK-NEKFVIV-ATQVIEASLDI-SAD 297 (358)
T ss_pred CCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcC-CCCeEEE-ECcchhceecc-CCC
Confidence 457999999999999999999988766 48999999999999764 889987 6677766 77999999999 488
Q ss_pred EEEEEcCCCCcChHHHHHHhhhccCCCC----cEEEEEEEeCC
Q 000542 1351 HVLLLDLWWNPTTEDQAIDRAHRIGQTR----PVSVLRLTVKN 1389 (1433)
Q Consensus 1351 ~VI~~Dp~WNPa~e~QAIGRahRIGQkr----~V~VyrLi~kd 1389 (1433)
.||.++.+ +....||+||+.|.|.+. .|+|+.....+
T Consensus 298 ~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~ 338 (358)
T TIGR01587 298 VMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEG 338 (358)
T ss_pred EEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCC
Confidence 88887654 778899999999999764 35555544444
No 57
>PRK00254 ski2-like helicase; Provisional
Probab=99.48 E-value=5.4e-12 Score=164.00 Aligned_cols=84 Identities=14% Similarity=0.064 Sum_probs=64.2
Q ss_pred cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-------EcCCCCc-ChHHHHHHhhhccC
Q 000542 1304 QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-------LDLWWNP-TTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1304 ~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~-------~Dp~WNP-a~e~QAIGRahRIG 1375 (1433)
.+..++|+++.++|..+.+.|++ +.++||+ +|.+.+.|+|+.+...||. +..++-| ....|++||++|.|
T Consensus 297 gv~~hHagl~~~eR~~ve~~F~~-G~i~VLv-aT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~~ 374 (720)
T PRK00254 297 GVAFHHAGLGRTERVLIEDAFRE-GLIKVIT-ATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRPK 374 (720)
T ss_pred CEEEeCCCCCHHHHHHHHHHHHC-CCCeEEE-eCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCCCC
Confidence 56788999999999999999997 7899888 6699999999987776663 2222223 35589999999998
Q ss_pred CCCcEEEEEEEeCC
Q 000542 1376 QTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1376 Qkr~V~VyrLi~kd 1389 (1433)
..+.-.++-++..+
T Consensus 375 ~d~~G~~ii~~~~~ 388 (720)
T PRK00254 375 YDEVGEAIIVATTE 388 (720)
T ss_pred cCCCceEEEEecCc
Confidence 76654555455443
No 58
>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=99.43 E-value=3.2e-12 Score=161.75 Aligned_cols=99 Identities=12% Similarity=0.085 Sum_probs=83.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--------- 1347 (1433)
.+.++|||+......+.|...|...|+++..++|.+...+|..+..+|+. ..|+| +|..+|.|+++.
T Consensus 423 ~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~---g~VlI-ATdmAgRGtDI~l~~~v~~~G 498 (762)
T TIGR03714 423 TGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQK---GAVTV-ATSMAGRGTDIKLGKGVAELG 498 (762)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCC---CeEEE-EccccccccCCCCCccccccC
Confidence 56899999999999999999999999999999999998777666665554 25665 779999999998
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcE
Q 000542 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V 1380 (1433)
..++|+.++++-+. .+.|++||+.|.|..-..
T Consensus 499 GL~vIit~~~ps~r-id~qr~GRtGRqG~~G~s 530 (762)
T TIGR03714 499 GLAVIGTERMENSR-VDLQLRGRSGRQGDPGSS 530 (762)
T ss_pred CeEEEEecCCCCcH-HHHHhhhcccCCCCceeE
Confidence 77888889998554 559999999999987653
No 59
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=7e-12 Score=143.22 Aligned_cols=123 Identities=26% Similarity=0.278 Sum_probs=107.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.-+||||.--.+.+.+.-.|+..|+....++|.|++..|..+++.|+. +...||+ .|+.|+.||+.+.+++||+||
T Consensus 299 ~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~-~~r~iLv-~TDVaSRGLDip~Vd~VVNyD 376 (476)
T KOG0330|consen 299 AGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKA-GARSILV-CTDVASRGLDIPHVDVVVNYD 376 (476)
T ss_pred cCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhc-cCCcEEE-ecchhcccCCCCCceEEEecC
Confidence 46789999999999999999999999999999999999999999999998 7777777 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH--HHHHHHHHHH
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED--RILALQQKKR 1403 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEE--rIl~lq~kK~ 1403 (1433)
.|-+-..++.|+||+.|.| +.-.+..|++.-.||- ||-....+|.
T Consensus 377 iP~~skDYIHRvGRtaRaG--rsG~~ItlVtqyDve~~qrIE~~~gkkl 423 (476)
T KOG0330|consen 377 IPTHSKDYIHRVGRTARAG--RSGKAITLVTQYDVELVQRIEHALGKKL 423 (476)
T ss_pred CCCcHHHHHHHcccccccC--CCcceEEEEehhhhHHHHHHHHHHhcCC
Confidence 9999999999999999999 6667777888755553 4444444444
No 60
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.42 E-value=5.8e-12 Score=138.34 Aligned_cols=109 Identities=20% Similarity=0.349 Sum_probs=99.8
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
...||||+-....|+|.+.|+...+.+..++|.|+.++|++++.+|+. +.-+||| +++.-+.|++.|..+.||+||+|
T Consensus 267 tQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRs-g~SrvLi-tTDVwaRGiDv~qVslviNYDLP 344 (400)
T KOG0328|consen 267 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRS-GKSRVLI-TTDVWARGIDVQQVSLVINYDLP 344 (400)
T ss_pred heEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhc-CCceEEE-EechhhccCCcceeEEEEecCCC
Confidence 578999999999999999999999999999999999999999999998 7778888 77999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEEEEEeCCCH
Q 000542 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTI 1391 (1433)
-|+.....||||.+|+|.+- .+.+|+..+.+
T Consensus 345 ~nre~YIHRIGRSGRFGRkG--vainFVk~~d~ 375 (400)
T KOG0328|consen 345 NNRELYIHRIGRSGRFGRKG--VAINFVKSDDL 375 (400)
T ss_pred ccHHHHhhhhccccccCCcc--eEEEEecHHHH
Confidence 99999999999999999876 44566766543
No 61
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.41 E-value=1.6e-11 Score=150.79 Aligned_cols=74 Identities=14% Similarity=0.243 Sum_probs=65.2
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC-CCcChHHHHHHhhhccCCC
Q 000542 1302 SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW-WNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1302 gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~-WNPa~e~QAIGRahRIGQk 1377 (1433)
++.+..++|.|+.+++++++.+|++ +++.||| +|.+.-+|+|+.+|+.+|++++. +--+...|--|||+|=+.+
T Consensus 507 ~~~vgL~HGrm~~~eKd~vM~~Fk~-~e~~ILV-aTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~q 581 (677)
T COG1200 507 ELKVGLVHGRMKPAEKDAVMEAFKE-GEIDILV-ATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQ 581 (677)
T ss_pred cceeEEEecCCChHHHHHHHHHHHc-CCCcEEE-EeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcc
Confidence 4567899999999999999999998 8888888 77999999999999999999875 5667888999999994433
No 62
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.41 E-value=5.7e-11 Score=151.80 Aligned_cols=113 Identities=13% Similarity=0.129 Sum_probs=93.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCc---cccC---
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNM---VAAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNL---q~An--- 1350 (1433)
.+.++|||+......+.|...|...|+++..++|.+...+|..+..+|+. + .|+| +|..+|.|+++ ....
T Consensus 427 ~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~-g--~VlI-ATdmAgRG~DI~l~~~V~~~G 502 (790)
T PRK09200 427 TGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQK-G--AVTV-ATNMAGRGTDIKLGEGVHELG 502 (790)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCC-C--eEEE-EccchhcCcCCCccccccccc
Confidence 56899999999999999999999999999999999988777777666654 2 5665 77999999999 4666
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
|||.+|++-|+..+.|++||+.|.|+.-.... |+ |.|+.++.+
T Consensus 503 GL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~s~~--~i---s~eD~l~~~ 547 (790)
T PRK09200 503 GLAVIGTERMESRRVDLQLRGRSGRQGDPGSSQF--FI---SLEDDLLKR 547 (790)
T ss_pred CcEEEeccCCCCHHHHHHhhccccCCCCCeeEEE--EE---cchHHHHHh
Confidence 99999999999999999999999998864322 22 446666543
No 63
>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=99.39 E-value=1e-12 Score=140.69 Aligned_cols=167 Identities=23% Similarity=0.291 Sum_probs=103.8
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
.+|++||.+++.-++.........+.++|...+|.|||+++++++....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~------------------------------- 50 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELA------------------------------- 50 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHH-------------------------------
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhccc-------------------------------
Confidence 4699999999998887544321126689999999999999998886521
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeC--CC------
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLSVLVYHG--SS------ 815 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~VlvyhG--~~------ 815 (1433)
.++|||||. +|+.||.+++..+... ...+....- ..
T Consensus 51 ---------------------------------~~~l~~~p~~~l~~Q~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 95 (184)
T PF04851_consen 51 ---------------------------------RKVLIVAPNISLLEQWYDEFDDFGSE--KYNFFEKSIKPAYDSKEFI 95 (184)
T ss_dssp ---------------------------------CEEEEEESSHHHHHHHHHHHHHHSTT--SEEEEE--GGGCCE-SEEE
T ss_pred ---------------------------------cceeEecCHHHHHHHHHHHHHHhhhh--hhhhccccccccccccccc
Confidence 158999998 5889999999766541 111111100 00
Q ss_pred -CCC-----CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCC
Q 000542 816 -RTK-----DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKG 889 (1433)
Q Consensus 816 -r~k-----~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~ 889 (1433)
... ........++++++++.+....... .... +. ..
T Consensus 96 ~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~-----------~~~~--~~-------------------------~~ 137 (184)
T PF04851_consen 96 SIQDDISDKSESDNNDKDIILTTYQSLQSDIKEE-----------KKID--ES-------------------------AR 137 (184)
T ss_dssp TTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH-----------------------------------------------
T ss_pred ccccccccccccccccccchhhHHHHHHhhcccc-----------cccc--cc-------------------------hh
Confidence 000 1122347789999999997432100 0000 00 00
Q ss_pred CCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccC
Q 000542 890 PDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPI 945 (1433)
Q Consensus 890 ~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPi 945 (1433)
....+....+++||+||||++.+... ++.+....+.+++.|||||.
T Consensus 138 --------~~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 138 --------RSYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp --------GCHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred --------hhhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 00113445678999999999965332 66666688999999999995
No 64
>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=99.39 E-value=1.4e-10 Score=148.28 Aligned_cols=103 Identities=23% Similarity=0.328 Sum_probs=85.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHH-----HHHHHHhc----CC------CccEEEeeccccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARD-----KAVKDFNT----LP------EVSVMIMSLKAAS 1341 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~-----~~I~~Fn~----d~------~v~VLL~StkaGg 1341 (1433)
.+.++|||++....++.|...|+..++ ..++|.|+..+|. +++++|.. .. +. .+|++|.+++
T Consensus 271 ~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~-~ILVATdVae 347 (844)
T TIGR02621 271 SGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGT-VYLVCTSAGE 347 (844)
T ss_pred CCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccc-eEEeccchhh
Confidence 457899999999999999999999887 8999999999999 78999986 11 23 4566889999
Q ss_pred cccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCc--EEEEEE
Q 000542 1342 LGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP--VSVLRL 1385 (1433)
Q Consensus 1342 ~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~--V~VyrL 1385 (1433)
.||++.. ++||+...++ ....||+||++|.|.... ++|+.+
T Consensus 348 rGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 348 VGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred hcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 9999975 8999866654 688999999999998644 455433
No 65
>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=99.39 E-value=4.4e-13 Score=124.57 Aligned_cols=78 Identities=33% Similarity=0.515 Sum_probs=72.7
Q ss_pred HHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccC
Q 000542 1296 ASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1296 ~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIG 1375 (1433)
+.|+..|+.+..++|.++.++|+++++.|+. +...||+ ++.++++|+||+.+++||+++++||+..+.|++||++|.|
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~-~~~~vli-~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNS-GEIRVLI-ATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHT-TSSSEEE-ESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhc-cCceEEE-eeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 3688999999999999999999999999998 5667777 5599999999999999999999999999999999999998
No 66
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.38 E-value=3.3e-11 Score=151.07 Aligned_cols=114 Identities=18% Similarity=0.239 Sum_probs=90.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---ccC---
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV---AAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq---~An--- 1350 (1433)
.+..+|||+......+.|...|...|+++..|+|.+. +|++.+..|.. ....|+| +|..+|.|+++. ...
T Consensus 472 ~~~pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag-~~g~VlV-ATdmAgRGtDI~l~~~V~~~G 547 (656)
T PRK12898 472 QGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAG-QRGRITV-ATNMAGRGTDIKLEPGVAARG 547 (656)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcC-CCCcEEE-EccchhcccCcCCccchhhcC
Confidence 3567999999999999999999999999999999864 66677777765 3345665 779999999988 333
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000542 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq 1399 (1433)
+||.+|.+=|...+.|++||+.|.|..-.+. .|+ |.|+.++.+-
T Consensus 548 GLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s~--~~i---s~eD~l~~~~ 593 (656)
T PRK12898 548 GLHVILTERHDSARIDRQLAGRCGRQGDPGSYE--AIL---SLEDDLLQSF 593 (656)
T ss_pred CCEEEEcCCCCCHHHHHHhcccccCCCCCeEEE--EEe---chhHHHHHhh
Confidence 9999999999999999999999999775432 223 4466665443
No 67
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.35 E-value=9.4e-11 Score=150.73 Aligned_cols=96 Identities=20% Similarity=0.210 Sum_probs=75.3
Q ss_pred HHHHHHHHHHhC--CCcEEecCCCCC--HHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---CCc-
Q 000542 1290 MLDLLEASLKDS--SIQYRRLDGTMS--VFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---WNP- 1361 (1433)
Q Consensus 1290 ~LdlLe~~L~~~--gI~~~ridGsms--~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~---WNP- 1361 (1433)
-.+.+++.|++. ++++.++|+.+. .++|++++++|.+ +++.||| .|...+.|+|+.....|+++|.+ ..|
T Consensus 438 G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~-g~~~ILV-gT~~iakG~d~p~v~lV~il~aD~~l~~pd 515 (679)
T PRK05580 438 GTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFAR-GEADILI-GTQMLAKGHDFPNVTLVGVLDADLGLFSPD 515 (679)
T ss_pred cHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhc-CCCCEEE-EChhhccCCCCCCcCEEEEEcCchhccCCc
Confidence 345566666664 788899999986 4679999999998 7888888 56889999999999999888754 333
Q ss_pred --------ChHHHHHHhhhccCCCCcEEEEEEEe
Q 000542 1362 --------TTEDQAIDRAHRIGQTRPVSVLRLTV 1387 (1433)
Q Consensus 1362 --------a~e~QAIGRahRIGQkr~V~VyrLi~ 1387 (1433)
....|+.||+.|.|....|.+..+-.
T Consensus 516 fra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p 549 (679)
T PRK05580 516 FRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHP 549 (679)
T ss_pred cchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCC
Confidence 46789999999988777777655433
No 68
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.33 E-value=8.1e-12 Score=133.91 Aligned_cols=164 Identities=27% Similarity=0.292 Sum_probs=110.0
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
.++++||.+++.+++... +..++...+|.|||.+++.++......
T Consensus 7 ~~~~~~Q~~~~~~~~~~~------~~~~i~~~~GsGKT~~~~~~~~~~~~~----------------------------- 51 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL------RDVILAAPTGSGKTLAALLPALEALKR----------------------------- 51 (201)
T ss_pred CCCCHHHHHHHHHHHcCC------CcEEEECCCCCchhHHHHHHHHHHhcc-----------------------------
Confidence 458999999999998421 568999999999999887777543211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCEL 823 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l 823 (1433)
.+.+++|||+|. .+..||..++.+.+..........+++.........+
T Consensus 52 ------------------------------~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (201)
T smart00487 52 ------------------------------GKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKL 101 (201)
T ss_pred ------------------------------cCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHH
Confidence 012459999995 5789999999988763322556666665432222222
Q ss_pred c--CCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCC
Q 000542 824 A--KFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 824 ~--~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~p 901 (1433)
. .++++++|++.+...+.. ..
T Consensus 102 ~~~~~~v~~~t~~~l~~~~~~---------------------------------------------------------~~ 124 (201)
T smart00487 102 ESGKTDILVTTPGRLLDLLEN---------------------------------------------------------DL 124 (201)
T ss_pred hcCCCCEEEeChHHHHHHHHc---------------------------------------------------------CC
Confidence 2 338999999988643210 00
Q ss_pred ccccCccEEEEcCccccCC-h-hhHHHHHHHhc-ccCcEEEEEcccCCCChH
Q 000542 902 LAKVGWFRVVLDEAQSIKN-H-RTQVARACWGL-RAKRRWCLSGTPIQNAID 950 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~IKN-~-~T~~sral~~L-~a~~RwlLTGTPiqN~l~ 950 (1433)
+....|.++|+||+|.+.+ . .......+..+ ...+++++||||..+...
T Consensus 125 ~~~~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~~~~ 176 (201)
T smart00487 125 LELSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIEN 176 (201)
T ss_pred cCHhHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchhHHH
Confidence 2334578899999999985 3 33333344444 578899999999754333
No 69
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=99.32 E-value=9.5e-12 Score=156.60 Aligned_cols=101 Identities=18% Similarity=0.173 Sum_probs=91.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc-------c
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA-------A 1349 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~-------A 1349 (1433)
.+..+||||......+.|...|...|+++..++|. ..+|++.+..|.. ....|+| +|..+|.|+++.. .
T Consensus 404 ~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag-~~g~VtI-ATnmAgRGtDI~l~~V~~~GG 479 (745)
T TIGR00963 404 KGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAG-RKGAVTI-ATNMAGRGTDIKLEEVKELGG 479 (745)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcC-CCceEEE-EeccccCCcCCCccchhhcCC
Confidence 67899999999999999999999999999999999 7799999999987 5566777 6699999999887 6
Q ss_pred CEEEEEcCCCCcChHHHHHHhhhccCCCCcEE
Q 000542 1350 CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1350 n~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~ 1381 (1433)
-|||.++++-++..+.|++||+.|.|..-...
T Consensus 480 l~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~ 511 (745)
T TIGR00963 480 LYVIGTERHESRRIDNQLRGRSGRQGDPGSSR 511 (745)
T ss_pred cEEEecCCCCcHHHHHHHhccccCCCCCcceE
Confidence 79999999999999999999999999986543
No 70
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.31 E-value=1.3e-10 Score=144.45 Aligned_cols=107 Identities=12% Similarity=0.211 Sum_probs=85.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC----CCc-EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS----SIQ-YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~----gI~-~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V 1352 (1433)
-.|.|||+....+++.|..+|... +.. ...|+|.. ++-++.|++|-.......+.+|.+-.-.|++...+..+
T Consensus 426 ~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~--~~~q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nl 503 (875)
T COG4096 426 IGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDA--EQAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNL 503 (875)
T ss_pred cCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccc--hhhHHHHHHHHhcCCCCceEEehhhhhcCCCchheeee
Confidence 479999999999999999999875 223 35677774 45667889998744444455588999999999999999
Q ss_pred EEEcCCCCcChHHHHHHhhhcc-------CCCCc-EEEEEEE
Q 000542 1353 LLLDLWWNPTTEDQAIDRAHRI-------GQTRP-VSVLRLT 1386 (1433)
Q Consensus 1353 I~~Dp~WNPa~e~QAIGRahRI-------GQkr~-V~VyrLi 1386 (1433)
+|+-+.-+-....|.+||.-|+ ||.|. .+|+.|+
T Consensus 504 VF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 504 VFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred eehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEhh
Confidence 9999999999999999999996 35554 5555554
No 71
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.29 E-value=1.3e-09 Score=138.76 Aligned_cols=110 Identities=15% Similarity=0.189 Sum_probs=88.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
+.++|||..-...++.+.+.|... ++.+..++|.++. +++++++|..++..+||| +|..++.||++....+||.+
T Consensus 395 ~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq--~eq~l~~ff~~gk~kILV-ATdIAERGIDIp~V~~VID~ 471 (675)
T PHA02653 395 GSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPN--IDEILEKVYSSKNPSIII-STPYLESSVTIRNATHVYDT 471 (675)
T ss_pred CCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCH--HHHHHHHHhccCceeEEe-ccChhhccccccCeeEEEEC
Confidence 468999999999999999999887 7999999999985 467788885446677776 88999999999999999999
Q ss_pred cCCC------------CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH
Q 000542 1356 DLWW------------NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED 1393 (1433)
Q Consensus 1356 Dp~W------------NPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEE 1393 (1433)
+... +.+...||.||++|. ++=.+++|+.+....-
T Consensus 472 G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~~p 518 (675)
T PHA02653 472 GRVYVPEPFGGKEMFISKSMRTQRKGRVGRV---SPGTYVYFYDLDLLKP 518 (675)
T ss_pred CCccCCCcccCcccccCHHHHHHhccCcCCC---CCCeEEEEECHHHhHH
Confidence 7322 444556777777775 5678889998876543
No 72
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.29 E-value=2.2e-10 Score=134.56 Aligned_cols=108 Identities=20% Similarity=0.235 Sum_probs=93.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHH----hCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLK----DSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~----~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V 1352 (1433)
...++|+|+...+....+...|+ ...+.+-.+.|..+.+.|.+.+++|+. ++++|||+| ++.+.|+++-..+.|
T Consensus 428 k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~-g~i~vLIcS-D~laRGiDv~~v~~V 505 (620)
T KOG0350|consen 428 KLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAK-GDINVLICS-DALARGIDVNDVDNV 505 (620)
T ss_pred hcceEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhc-CCceEEEeh-hhhhcCCcccccceE
Confidence 45799999999988877777776 346777779999999999999999999 899999977 999999999999999
Q ss_pred EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1353 LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1353 I~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
|.||||-.-.....|+||..|-||.- +++.++.+
T Consensus 506 INYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~ 539 (620)
T KOG0350|consen 506 INYDPPASDKTYVHRAGRTARAGQDG--YAITLLDK 539 (620)
T ss_pred eecCCCchhhHHHHhhcccccccCCc--eEEEeecc
Confidence 99999999999999999999999986 34444443
No 73
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.27 E-value=2.3e-10 Score=134.88 Aligned_cols=100 Identities=21% Similarity=0.282 Sum_probs=93.4
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
...+|||.+.....|.|+..|++.|++.++|+|+-+++||+.++..|++ +...||| .|.++|.||+.+..++||+||.
T Consensus 517 ~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~-~t~dIlV-aTDvAgRGIDIpnVSlVinydm 594 (673)
T KOG0333|consen 517 DPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFRE-GTGDILV-ATDVAGRGIDIPNVSLVINYDM 594 (673)
T ss_pred CCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHh-cCCCEEE-EecccccCCCCCccceeeecch
Confidence 4689999999999999999999999999999999999999999999998 6677888 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCc
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
.=+-.....||||..|-|+.-.
T Consensus 595 aksieDYtHRIGRTgRAGk~Gt 616 (673)
T KOG0333|consen 595 AKSIEDYTHRIGRTGRAGKSGT 616 (673)
T ss_pred hhhHHHHHHHhccccccccCce
Confidence 9888889999999999998864
No 74
>PRK09401 reverse gyrase; Reviewed
Probab=99.26 E-value=6.2e-10 Score=149.33 Aligned_cols=90 Identities=13% Similarity=0.147 Sum_probs=76.6
Q ss_pred CeEEEEcccHHH---HHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee---ccccccccCccc-cCE
Q 000542 1279 EKAIVFSQWTKM---LDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS---LKAASLGLNMVA-ACH 1351 (1433)
Q Consensus 1279 eKvIIFSq~t~~---LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~S---tkaGg~GLNLq~-An~ 1351 (1433)
.++|||++.... ++.|...|+..|+++..++|.| .+.+++|.+ ++++|||.+ +..++.||++.. ..+
T Consensus 329 ~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~-G~~~VLVatas~tdv~aRGIDiP~~Iry 402 (1176)
T PRK09401 329 DGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEE-GEVDVLVGVASYYGVLVRGIDLPERIRY 402 (1176)
T ss_pred CCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHC-CCCCEEEEecCCCCceeecCCCCcceeE
Confidence 478999998666 9999999999999999999999 334699998 899999986 789999999997 899
Q ss_pred EEEEcCCC------CcChHHHHHHhhhcc
Q 000542 1352 VLLLDLWW------NPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1352 VI~~Dp~W------NPa~e~QAIGRahRI 1374 (1433)
||||+.|= .......+++|.-++
T Consensus 403 VI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 403 AIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred EEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 99999986 445566777777643
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=99.25 E-value=5.8e-10 Score=133.59 Aligned_cols=85 Identities=13% Similarity=0.236 Sum_probs=68.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCC--CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSS--IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~g--I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
.+.|+|||+.....++.+...|+..+ +.+..++|.++..+|.++. ...||| +|.+++.||++... +||
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~-------~~~iLV-aTdv~~rGiDi~~~-~vi- 340 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM-------QFDILL-GTSTVDVGVDFKRD-WLI- 340 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc-------cCCEEE-EecHHhcccCCCCc-eEE-
Confidence 46799999999999999999999865 5788999999999987653 445555 77999999999754 666
Q ss_pred EcCCCCcChHHHHHHhhh
Q 000542 1355 LDLWWNPTTEDQAIDRAH 1372 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAIGRah 1372 (1433)
++ +-++....||+||+.
T Consensus 341 ~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 341 FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred EC-CCCHHHHhhhcccCC
Confidence 56 456778888888863
No 76
>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=99.24 E-value=4.6e-11 Score=120.49 Aligned_cols=137 Identities=26% Similarity=0.233 Sum_probs=95.5
Q ss_pred CcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccccccccccccCCCCCCccchhh
Q 000542 690 GGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFV 769 (1433)
Q Consensus 690 GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~ 769 (1433)
+.++...+|.|||.++++++......
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~------------------------------------------------------ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS------------------------------------------------------ 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc------------------------------------------------------
Confidence 57999999999999999998653210
Q ss_pred hhhcCCCCCcEEEEeChhhH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc--ccccCCCEEEEechhhhccCCCCCCC
Q 000542 770 EQAKGRPAAGTLVVCPTSVL-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDP--CELAKFDVVITTYSIVSMEVPKQPLG 846 (1433)
Q Consensus 770 ~~~~~~p~~~TLIVcP~SLL-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~--~~l~~~DIVITTY~~L~~e~~k~~~~ 846 (1433)
...+++||+||...+ .||.+++.++... .+.+.++++....... ......+++|+||+.+......
T Consensus 28 -----~~~~~~lv~~p~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~---- 96 (144)
T cd00046 28 -----LKGGQVLVLAPTRELANQVAERLKELFGE--GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELER---- 96 (144)
T ss_pred -----ccCCCEEEEcCcHHHHHHHHHHHHHHhhC--CcEEEEEecCcchhHHHHHhcCCCCEEEECcHHHHHHHHc----
Confidence 112469999999855 6667777776542 5777777776544432 2245789999999988643210
Q ss_pred CchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHH
Q 000542 847 DKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVA 926 (1433)
Q Consensus 847 ~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~T~~s 926 (1433)
..+....|++||+||+|.+.+......
T Consensus 97 -----------------------------------------------------~~~~~~~~~~iiiDE~h~~~~~~~~~~ 123 (144)
T cd00046 97 -----------------------------------------------------LKLSLKKLDLLILDEAHRLLNQGFGLL 123 (144)
T ss_pred -----------------------------------------------------CCcchhcCCEEEEeCHHHHhhcchHHH
Confidence 002234688999999999988664443
Q ss_pred ---HHHHhcccCcEEEEEccc
Q 000542 927 ---RACWGLRAKRRWCLSGTP 944 (1433)
Q Consensus 927 ---ral~~L~a~~RwlLTGTP 944 (1433)
.........+++++||||
T Consensus 124 ~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 124 GLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred HHHHHhhCCccceEEEEeccC
Confidence 333445778899999998
No 77
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.24 E-value=1.4e-11 Score=114.04 Aligned_cols=81 Identities=31% Similarity=0.488 Sum_probs=74.1
Q ss_pred HHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhh
Q 000542 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAH 1372 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRah 1372 (1433)
.|...|+..++.+..++|.++.++|.++++.|++ +.. .+|+++.++++|+|++.+++||+++++||+....|++||++
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~-~~~-~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~ 79 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNN-GKI-KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAG 79 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHc-CCC-eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccc
Confidence 4677888889999999999999999999999998 444 55558899999999999999999999999999999999999
Q ss_pred ccC
Q 000542 1373 RIG 1375 (1433)
Q Consensus 1373 RIG 1375 (1433)
|.|
T Consensus 80 R~g 82 (82)
T smart00490 80 RAG 82 (82)
T ss_pred cCC
Confidence 987
No 78
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.24 E-value=5.5e-10 Score=133.52 Aligned_cols=122 Identities=20% Similarity=0.294 Sum_probs=104.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
..+|++||.+-.+.++.++.+|...++++..|+|..+..+|.++++.|.. +...||| .|..++.|||.....|||+||
T Consensus 336 ~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~-g~~pvlV-aT~VaaRGlDi~~V~hVInyD 413 (482)
T KOG0335|consen 336 KWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRN-GKAPVLV-ATNVAARGLDIPNVKHVINYD 413 (482)
T ss_pred ccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhc-CCcceEE-EehhhhcCCCCCCCceeEEee
Confidence 34799999999999999999999999999999999999999999999998 8888888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~ 1400 (1433)
.+=+-.....||||..|-|+.-..+.+.--....+-+.+.++..
T Consensus 414 mP~d~d~YvHRIGRTGR~Gn~G~atsf~n~~~~~i~~~L~~~l~ 457 (482)
T KOG0335|consen 414 MPADIDDYVHRIGRTGRVGNGGRATSFFNEKNQNIAKALVEILT 457 (482)
T ss_pred cCcchhhHHHhccccccCCCCceeEEEeccccchhHHHHHHHHH
Confidence 99999999999999999999976555433122234444444433
No 79
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.23 E-value=4.8e-10 Score=134.24 Aligned_cols=109 Identities=23% Similarity=0.228 Sum_probs=96.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
-...||||....-++-|+.+|...|+++..|.|.|++.+|..+++..+. -.++||| |++..+.|++-..+|-||++|+
T Consensus 272 y~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~-f~~rILV-sTDLtaRGIDa~~vNLVVNiD~ 349 (980)
T KOG4284|consen 272 YVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRA-FRVRILV-STDLTARGIDADNVNLVVNIDA 349 (980)
T ss_pred hHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhh-ceEEEEE-ecchhhccCCccccceEEecCC
Confidence 3577999999999999999999999999999999999999999999987 5677777 8899999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+-+..+...||||++|+|-.- ..|..+..+.
T Consensus 350 p~d~eTY~HRIGRAgRFG~~G-~aVT~~~~~~ 380 (980)
T KOG4284|consen 350 PADEETYFHRIGRAGRFGAHG-AAVTLLEDER 380 (980)
T ss_pred CcchHHHHHHhhhcccccccc-eeEEEeccch
Confidence 999999999999999999654 5555444433
No 80
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.21 E-value=2e-09 Score=137.34 Aligned_cols=120 Identities=17% Similarity=0.145 Sum_probs=99.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCC-CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSS-IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~g-I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..+|||++-..+.+.+...|+..+ ..+..-||+++.++|..+-++|++ ++.++++ +|.....||+.-..+.||.|..
T Consensus 254 ~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~-G~lravV-~TSSLELGIDiG~vdlVIq~~S 331 (814)
T COG1201 254 RTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKE-GELKAVV-ATSSLELGIDIGDIDLVIQLGS 331 (814)
T ss_pred CcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhc-CCceEEE-EccchhhccccCCceEEEEeCC
Confidence 488999999999999999999886 888999999999999999999999 7799998 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhh-ccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000542 1358 WWNPTTEDQAIDRAH-RIGQTRPVSVLRLTVKNTVEDRILALQQKKRE 1404 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRah-RIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~ 1404 (1433)
|=.-+...||+||+. |+|..-. .++++.+ .++.+.-+..-+..
T Consensus 332 P~sV~r~lQRiGRsgHr~~~~Sk---g~ii~~~-r~dllE~~vi~~~a 375 (814)
T COG1201 332 PKSVNRFLQRIGRAGHRLGEVSK---GIIIAED-RDDLLECLVLADLA 375 (814)
T ss_pred cHHHHHHhHhccccccccCCccc---EEEEecC-HHHHHHHHHHHHHH
Confidence 999999999999985 4665433 3344554 55555544444433
No 81
>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=99.19 E-value=1.1e-09 Score=136.47 Aligned_cols=95 Identities=17% Similarity=0.211 Sum_probs=72.7
Q ss_pred HHHHHHHHhC--CCcEEecCCCCCHHHH--HHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC--CC-c---
Q 000542 1292 DLLEASLKDS--SIQYRRLDGTMSVFAR--DKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW--WN-P--- 1361 (1433)
Q Consensus 1292 dlLe~~L~~~--gI~~~ridGsms~~eR--~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~--WN-P--- 1361 (1433)
+.+++.|.+. +.++.++|+.++..++ +++++.|.+ +++.||| .|...+.|+++...+.|+++|.+ .| |
T Consensus 272 e~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~-g~~~ILV-gT~~i~kG~d~~~v~lV~vl~aD~~l~~pd~r 349 (505)
T TIGR00595 272 EQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFAN-GKADILI-GTQMIAKGHHFPNVTLVGVLDADSGLHSPDFR 349 (505)
T ss_pred HHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhc-CCCCEEE-eCcccccCCCCCcccEEEEEcCcccccCcccc
Confidence 4445555544 6788999999876655 899999998 7888888 56889999999999999876654 33 4
Q ss_pred ------ChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1362 ------TTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1362 ------a~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
....|+.||+.|-+....|.+..+-..
T Consensus 350 a~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 350 AAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred hHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 357899999999888777766554443
No 82
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.19 E-value=1.7e-09 Score=145.83 Aligned_cols=95 Identities=21% Similarity=0.228 Sum_probs=79.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCC---------------------------------CcEEecCCCCCHHHHHHHHHHH
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSS---------------------------------IQYRRLDGTMSVFARDKAVKDF 1324 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~g---------------------------------I~~~ridGsms~~eR~~~I~~F 1324 (1433)
..++|||++.....+.+...|.+.. +....++|+++.++|..+.+.|
T Consensus 244 ~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~f 323 (1490)
T PRK09751 244 HRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQAL 323 (1490)
T ss_pred CCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHH
Confidence 3567777777777777776665421 1245788999999999999999
Q ss_pred hcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc
Q 000542 1325 NTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1325 n~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRI 1374 (1433)
++ +.++||| +|.+...|||+...++||+++.+.+.+...|++||+.|.
T Consensus 324 K~-G~LrvLV-ATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 324 KS-GELRCVV-ATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred Hh-CCceEEE-eCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 98 8888887 669999999999999999999999999999999999995
No 83
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.16 E-value=1.6e-09 Score=124.10 Aligned_cols=110 Identities=27% Similarity=0.353 Sum_probs=98.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
...|+|||+...-++|-|.--|.-.||....++|.-.+.+|+.+++.|+. +.+++|| .|+.++.||++....||++||
T Consensus 464 ~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ks-G~vrILv-aTDlaSRGlDv~DiTHV~NyD 541 (629)
T KOG0336|consen 464 SNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKS-GEVRILV-ATDLASRGLDVPDITHVYNYD 541 (629)
T ss_pred CCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhc-CceEEEE-EechhhcCCCchhcceeeccC
Confidence 56899999999999999999999999999999999999999999999998 8999988 569999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
.+-|-.....|+||.+|-|.+-. -|..|.-++
T Consensus 542 FP~nIeeYVHRvGrtGRaGr~G~-sis~lt~~D 573 (629)
T KOG0336|consen 542 FPRNIEEYVHRVGRTGRAGRTGT-SISFLTRND 573 (629)
T ss_pred CCccHHHHHHHhcccccCCCCcc-eEEEEehhh
Confidence 99999999999999999998764 343344333
No 84
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=3.4e-09 Score=135.63 Aligned_cols=113 Identities=16% Similarity=0.178 Sum_probs=97.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--------- 1347 (1433)
.+..+|||+......+.|...|...||++..++|.+...+|+.+.++|+. + .|+| +|..+|.|+++.
T Consensus 443 ~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~-G--~VtI-ATNmAGRGtDI~Lggn~~~~~ 518 (896)
T PRK13104 443 RKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRP-G--AVTI-ATNMAGRGTDIVLGGSLAADL 518 (896)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCC-C--cEEE-eccCccCCcceecCCchhhhh
Confidence 68899999999999999999999999999999999999999999999998 4 3566 679999998875
Q ss_pred -----------------------------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1348 -----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 -----------------------------~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
..=|||.-+.+=|-..+.|..||++|.|..-....|- |+|+.++.+
T Consensus 519 ~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~l-----SleD~l~~~ 593 (896)
T PRK13104 519 ANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYL-----SLEDNLMRI 593 (896)
T ss_pred hccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEE-----EcCcHHHHH
Confidence 2358999999999999999999999999887644432 566666654
No 85
>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=99.12 E-value=3.4e-09 Score=142.49 Aligned_cols=75 Identities=15% Similarity=0.210 Sum_probs=68.8
Q ss_pred CeEEEEcccH---HHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee---ccccccccCccc-cCE
Q 000542 1279 EKAIVFSQWT---KMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS---LKAASLGLNMVA-ACH 1351 (1433)
Q Consensus 1279 eKvIIFSq~t---~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~S---tkaGg~GLNLq~-An~ 1351 (1433)
.++|||++-. ..++.|...|+..|++...++|.++ ++++++|.+ ++++|||.+ +..++.||++.. ..+
T Consensus 327 ~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~-G~~~vLVata~~tdv~aRGIDip~~V~~ 401 (1171)
T TIGR01054 327 TGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAE-GEIDVLIGVASYYGTLVRGLDLPERVRY 401 (1171)
T ss_pred CCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHc-CCCCEEEEeccccCcccccCCCCccccE
Confidence 5789999988 8999999999999999999999986 478999998 899999987 689999999998 799
Q ss_pred EEEEcCC
Q 000542 1352 VLLLDLW 1358 (1433)
Q Consensus 1352 VI~~Dp~ 1358 (1433)
||+||+|
T Consensus 402 vI~~~~P 408 (1171)
T TIGR01054 402 AVFLGVP 408 (1171)
T ss_pred EEEECCC
Confidence 9999987
No 86
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.11 E-value=4.6e-09 Score=129.87 Aligned_cols=103 Identities=20% Similarity=0.239 Sum_probs=95.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
+.-.|||+......+.|.++|...|+....|+|+|+.++|+..-++|.. +++.||+ .|.|.|-|+|=.....||+||+
T Consensus 230 ~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~-~~~~iiV-AT~AFGMGIdKpdVRfViH~~l 307 (590)
T COG0514 230 SKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLN-DEIKVMV-ATNAFGMGIDKPDVRFVIHYDL 307 (590)
T ss_pred CCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhc-CCCcEEE-EeccccCccCCCCceEEEEecC
Confidence 4557999999999999999999999999999999999999999999997 7788888 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~V 1382 (1433)
|=+.....|=+|||+|-|.......
T Consensus 308 P~s~EsYyQE~GRAGRDG~~a~ail 332 (590)
T COG0514 308 PGSIESYYQETGRAGRDGLPAEAIL 332 (590)
T ss_pred CCCHHHHHHHHhhccCCCCcceEEE
Confidence 9999999999999999998876544
No 87
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.11 E-value=3.2e-09 Score=138.56 Aligned_cols=119 Identities=20% Similarity=0.189 Sum_probs=95.7
Q ss_pred CCCeEEEEcccHHHHHHHH----HHHHhCC----CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLE----ASLKDSS----IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe----~~L~~~g----I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~ 1348 (1433)
.+.|.|+|+.+...+..+. ..+...+ .....+.|++...+|.++...|+. +++.+++ ++.+.-.|+++-.
T Consensus 305 ~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~-g~~~~~~-st~AlelgidiG~ 382 (851)
T COG1205 305 NGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKE-GELLGVI-ATNALELGIDIGS 382 (851)
T ss_pred cCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhc-CCccEEe-cchhhhhceeehh
Confidence 5789999999999999986 4444445 567899999999999999999998 7888887 8899999999999
Q ss_pred cCEEEEEcCCC-CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000542 1349 ACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1349 An~VI~~Dp~W-NPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq 1399 (1433)
...||+.-.|- .-....|+.||++|-||.-.+.+. .-.+-++..+...-
T Consensus 383 ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v--~~~~~~d~yy~~~p 432 (851)
T COG1205 383 LDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVV--LRSDPLDSYYLRHP 432 (851)
T ss_pred hhhHhhcCCCCchHHHHHHhhhhccCCCCCceEEEE--eCCCccchhhhhCc
Confidence 99999998776 557788999999999955443322 22666776665533
No 88
>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=99.10 E-value=8.5e-09 Score=134.21 Aligned_cols=107 Identities=23% Similarity=0.275 Sum_probs=90.4
Q ss_pred CeEEEEcccHHHHHHHHHHHHh---CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~---~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
.++|||..-...++.+...|.. .++.++.++|+++.++|.++++.|.. +..+|+| +|..+..||++...++||.+
T Consensus 210 g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~-G~rkVlV-ATnIAErgItIp~V~~VID~ 287 (819)
T TIGR01970 210 GSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQ-GRRKVVL-ATNIAETSLTIEGIRVVIDS 287 (819)
T ss_pred CcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhccc-CCeEEEE-ecchHhhcccccCceEEEEc
Confidence 5799999999999999999987 47899999999999999999999986 6667766 78999999999999999998
Q ss_pred cCC----CCcCh--------------HHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000542 1356 DLW----WNPTT--------------EDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1356 Dp~----WNPa~--------------e~QAIGRahRIGQkr~V~VyrLi~kdT 1390 (1433)
+.+ |||.. ..||.||++|. ++=..|+|+.+..
T Consensus 288 Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 288 GLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred CcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 864 66654 56888888876 5667888887653
No 89
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.08 E-value=8.8e-09 Score=122.21 Aligned_cols=122 Identities=25% Similarity=0.251 Sum_probs=103.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
...|+|||-..-.-..++.+.+.+. |++...++|.|++..|..+..+|.. .-.|+|+.|+.++.||++.+.+.||-
T Consensus 312 lk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~--~~~~vLF~TDv~aRGLDFpaVdwViQ 389 (758)
T KOG0343|consen 312 LKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVR--KRAVVLFCTDVAARGLDFPAVDWVIQ 389 (758)
T ss_pred cccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHH--hcceEEEeehhhhccCCCcccceEEE
Confidence 3479999999888889998888764 9999999999999999999999987 34567778899999999999999999
Q ss_pred EcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000542 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKR 1403 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~ 1403 (1433)
+|.|=+-...+.|+||.-|.+-.-+-.++ .--+=||.|+...++|.
T Consensus 390 ~DCPedv~tYIHRvGRtAR~~~~G~sll~---L~psEeE~~l~~Lq~k~ 435 (758)
T KOG0343|consen 390 VDCPEDVDTYIHRVGRTARYKERGESLLM---LTPSEEEAMLKKLQKKK 435 (758)
T ss_pred ecCchhHHHHHHHhhhhhcccCCCceEEE---EcchhHHHHHHHHHHcC
Confidence 99999999999999999999877765543 22344577777766664
No 90
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.06 E-value=4.9e-09 Score=133.58 Aligned_cols=101 Identities=15% Similarity=0.105 Sum_probs=85.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---ccC---
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV---AAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq---~An--- 1350 (1433)
.+..+||||......+.|...|.+.|+++..++|.+...+++-+..+|+. ..|+| +|..+|.|+++. ...
T Consensus 439 ~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~---g~VtI-ATnmAGRGtDI~l~~~V~~~G 514 (796)
T PRK12906 439 KGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQR---GAVTI-ATNMAGRGTDIKLGPGVKELG 514 (796)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCC---ceEEE-EeccccCCCCCCCCcchhhhC
Confidence 57899999999999999999999999999999999875555555555544 23555 679999999984 566
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEE
Q 000542 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~ 1381 (1433)
|||.++++-+...+.|++||+.|.|..-...
T Consensus 515 GLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~ 547 (796)
T PRK12906 515 GLAVIGTERHESRRIDNQLRGRSGRQGDPGSSR 547 (796)
T ss_pred CcEEEeeecCCcHHHHHHHhhhhccCCCCcceE
Confidence 9999999999999999999999999887643
No 91
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.06 E-value=1.5e-08 Score=119.66 Aligned_cols=99 Identities=18% Similarity=0.190 Sum_probs=90.5
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
.|||||+.--.+.++....|....+++..|+|.+++..|.....+|.+. +-- +|+.+++++.|++....+-||-||||
T Consensus 331 ~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~ka-esg-IL~cTDVaARGlD~P~V~~VvQ~~~P 408 (543)
T KOG0342|consen 331 YKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKA-ESG-ILVCTDVAARGLDIPDVDWVVQYDPP 408 (543)
T ss_pred ceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhc-ccc-eEEecchhhccCCCCCceEEEEeCCC
Confidence 7999999999999999999999999999999999999999999999983 333 45577999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCc
Q 000542 1359 WNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
-+|...+.|+||..|-|-+-.
T Consensus 409 ~d~~~YIHRvGRTaR~gk~G~ 429 (543)
T KOG0342|consen 409 SDPEQYIHRVGRTAREGKEGK 429 (543)
T ss_pred CCHHHHHHHhccccccCCCce
Confidence 999999999999999776644
No 92
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.04 E-value=3.1e-08 Score=117.45 Aligned_cols=122 Identities=17% Similarity=0.267 Sum_probs=93.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHH----Hh------------------CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASL----KD------------------SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMI 1334 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L----~~------------------~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL 1334 (1433)
...|+|||-.-.++.+.=...| .. .+.++.+++|+|++++|..++..|...... |||
T Consensus 424 ~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~-VLL 502 (708)
T KOG0348|consen 424 EKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRA-VLL 502 (708)
T ss_pred hhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccce-EEE
Confidence 3469999988887766544433 22 145699999999999999999999985443 555
Q ss_pred eeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000542 1335 MSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKRE 1404 (1433)
Q Consensus 1335 ~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~ 1404 (1433)
.|++++.||+|....-||-||||..++....||||.-|+|-+-.-.. |+.....| . +...+++..
T Consensus 503 -cTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alL--fL~P~Eae-y-~~~l~~~~~ 567 (708)
T KOG0348|consen 503 -CTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALL--FLLPSEAE-Y-VNYLKKHHI 567 (708)
T ss_pred -ehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEE--EecccHHH-H-HHHHHhhcc
Confidence 77999999999999999999999999999999999999999876433 34444444 3 334444433
No 93
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.04 E-value=8.6e-09 Score=132.98 Aligned_cols=81 Identities=17% Similarity=0.154 Sum_probs=60.9
Q ss_pred HHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec-----CCCCcC
Q 000542 1292 DLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD-----LWWNPT 1362 (1433)
Q Consensus 1292 dlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~----~D-----p~WNPa 1362 (1433)
..++..+. .|+ ..=+.+++.++|+-+-+.|+. +.++||+ +|...+.|+||++-..||= || -.-++.
T Consensus 307 ~~l~e~v~-~Gv--afHhAGL~~~~R~~vE~~Fr~-g~ikVlv-~TpTLA~GVNLPA~~VIIk~~~~y~~~~g~~~i~~~ 381 (766)
T COG1204 307 EELAELVL-RGV--AFHHAGLPREDRQLVEDAFRK-GKIKVLV-STPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVL 381 (766)
T ss_pred HHHHHHHH-hCc--cccccCCCHHHHHHHHHHHhc-CCceEEE-echHHhhhcCCcceEEEEeeeEEEcCCCCeEECchh
Confidence 45555554 344 446789999999999999998 8999988 6689999999996554432 44 223566
Q ss_pred hHHHHHHhhhccCCC
Q 000542 1363 TEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1363 ~e~QAIGRahRIGQk 1377 (1433)
...|-+||++|.|=.
T Consensus 382 dv~QM~GRAGRPg~d 396 (766)
T COG1204 382 DVLQMAGRAGRPGYD 396 (766)
T ss_pred hHhhccCcCCCCCcC
Confidence 778999999999843
No 94
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.03 E-value=8.3e-09 Score=122.87 Aligned_cols=119 Identities=18% Similarity=0.271 Sum_probs=97.9
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE---
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL--- 1354 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~--- 1354 (1433)
..+.|||+....-...|+.+|...|++..-|+++++-.+|..+-..|.. .++.+++ +|.|.|.|+++.+ +.|||
T Consensus 440 rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~-q~l~~VV-TTAAL~AGVDFPA-SQVIFEsL 516 (830)
T COG1202 440 RGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAA-QELAAVV-TTAALAAGVDFPA-SQVIFESL 516 (830)
T ss_pred CCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhc-CCcceEe-ehhhhhcCCCCch-HHHHHHHH
Confidence 3578999999999999999999999999999999999999999999998 7787777 7899999999985 44544
Q ss_pred -Ec-CCCCcChHHHHHHhhhccCCCCcEEEEEEE---------eCCCHHHHHHHHH
Q 000542 1355 -LD-LWWNPTTEDQAIDRAHRIGQTRPVSVLRLT---------VKNTVEDRILALQ 1399 (1433)
Q Consensus 1355 -~D-p~WNPa~e~QAIGRahRIGQkr~V~VyrLi---------~kdTIEErIl~lq 1399 (1433)
|. -|.+|....|..||++|.|--..=.||-++ +.+|=|+--+.+.
T Consensus 517 aMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~TEdevA~kLL 572 (830)
T COG1202 517 AMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLL 572 (830)
T ss_pred HcccccCCHHHHHHHhcccCCCCcccCceEEEEecCChhhcccccccHHHHHHHHh
Confidence 43 355999999999999999976555666666 3456565555544
No 95
>PRK14701 reverse gyrase; Provisional
Probab=99.03 E-value=3e-08 Score=136.19 Aligned_cols=94 Identities=15% Similarity=0.204 Sum_probs=78.2
Q ss_pred CCeEEEEcccHHH---HHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeec---cccccccCccc-cC
Q 000542 1278 GEKAIVFSQWTKM---LDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSL---KAASLGLNMVA-AC 1350 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~---LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~St---kaGg~GLNLq~-An 1350 (1433)
+...|||++.... ++.|...|...|+++..++|. |.+++++|.+ ++++|||.+. ..++.||++.. ..
T Consensus 330 g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~-G~~~VLVaT~s~~gvaaRGIDiP~~Vr 403 (1638)
T PRK14701 330 GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEE-GEIDYLIGVATYYGTLVRGLDLPERIR 403 (1638)
T ss_pred CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHc-CCCCEEEEecCCCCeeEecCccCCccC
Confidence 3578999987653 589999999999999999995 8999999998 8999999774 57889999997 99
Q ss_pred EEEEEcCCC---CcChHH-------------HHHHhhhccCCC
Q 000542 1351 HVLLLDLWW---NPTTED-------------QAIDRAHRIGQT 1377 (1433)
Q Consensus 1351 ~VI~~Dp~W---NPa~e~-------------QAIGRahRIGQk 1377 (1433)
+|||++.|= +-..+. |.++|+.|-|..
T Consensus 404 yvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 404 FAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred EEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 999999885 444444 445999988864
No 96
>PRK09694 helicase Cas3; Provisional
Probab=99.00 E-value=1.2e-07 Score=123.70 Aligned_cols=98 Identities=11% Similarity=0.150 Sum_probs=79.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCC---CcEEecCCCCCHHHH----HHHHHHHhcCCCc--cEEEeeccccccccCcc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFAR----DKAVKDFNTLPEV--SVMIMSLKAASLGLNMV 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~g---I~~~ridGsms~~eR----~~~I~~Fn~d~~v--~VLL~StkaGg~GLNLq 1347 (1433)
.+.++|||++.+..+..+.+.|+..+ +++..++|.++..+| +++++.|..++.. ..+|++|.+...||++
T Consensus 559 ~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI- 637 (878)
T PRK09694 559 AGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL- 637 (878)
T ss_pred cCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-
Confidence 46799999999999999999998764 678999999999999 5678899443332 2445688999999999
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCC
Q 000542 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAIGRahRIGQk 1377 (1433)
.++.||....+ .....||+||++|.|.+
T Consensus 638 d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 638 DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 56877775443 45789999999999875
No 97
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.00 E-value=3.8e-08 Score=128.51 Aligned_cols=109 Identities=20% Similarity=0.234 Sum_probs=89.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHh---CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~---~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
..++|||..-...++.+...|.. .++.+..++|.++.++|.++++.|.. +..+|+| +|..+..||++....+||.
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~-G~rkVlv-ATnIAErsLtIp~V~~VID 289 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPA-GRRKVVL-ATNIAETSLTIEGIRLVVD 289 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccC-CCeEEEE-ecchHHhcccccCceEEEE
Confidence 36799999999999999999987 57889999999999999999999986 6666666 7799999999999999999
Q ss_pred EcCC----CCcC--------------hHHHHHHhhhccCCCCcEEEEEEEeCCCH
Q 000542 1355 LDLW----WNPT--------------TEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391 (1433)
Q Consensus 1355 ~Dp~----WNPa--------------~e~QAIGRahRIGQkr~V~VyrLi~kdTI 1391 (1433)
++.. |+|. ...||.||++|. ++=+.|+|+.+...
T Consensus 290 ~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 290 SGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred CCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 7654 4444 356777777665 57789999876543
No 98
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.97 E-value=2.7e-08 Score=127.44 Aligned_cols=112 Identities=19% Similarity=0.208 Sum_probs=95.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc--------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA-------- 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~-------- 1348 (1433)
.+..+||||......+.|...|...||++..++|. ..+|++.|.+|.. ....|+| +|..+|.|+++.-
T Consensus 429 ~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag-~~g~VtI-ATNmAGRGtDI~LgGn~~~~~ 504 (830)
T PRK12904 429 KGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAG-RPGAVTI-ATNMAGRGTDIKLGGNPEMLA 504 (830)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcC-CCceEEE-ecccccCCcCccCCCchhhhh
Confidence 57899999999999999999999999999999996 6799999999997 5567777 6699999988652
Q ss_pred ------------------------------cCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000542 1349 ------------------------------ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1349 ------------------------------An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~ 1397 (1433)
.=|||.-+.+=|-..+.|..||+.|.|..-....|- |+|+.++.
T Consensus 505 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGdpGss~f~l-----SleD~l~~ 578 (830)
T PRK12904 505 AALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYL-----SLEDDLMR 578 (830)
T ss_pred hhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCCCCceeEEE-----EcCcHHHH
Confidence 568999999999999999999999999987655442 45555554
No 99
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.96 E-value=4.4e-08 Score=115.27 Aligned_cols=111 Identities=20% Similarity=0.269 Sum_probs=99.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..|+|||.--....+-|...|+..++.+..++|.|.+++|.+.+..|+. ....||++ |+.+..||++..-.+||+||.
T Consensus 468 ~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKk-k~~~Vlva-tDvaargldI~~ikTVvnyD~ 545 (731)
T KOG0339|consen 468 EGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKK-KRKPVLVA-TDVAARGLDIPSIKTVVNYDF 545 (731)
T ss_pred CCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhh-cCCceEEE-eeHhhcCCCccccceeecccc
Confidence 3699999999999999999999999999999999999999999999998 66778874 599999999999999999998
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIE 1392 (1433)
.-.-....|+|||..|-|-+ =..|.|+++...+
T Consensus 546 ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 546 ARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred cchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 87778888999999999988 3566778776554
No 100
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.95 E-value=5.4e-08 Score=124.48 Aligned_cols=113 Identities=19% Similarity=0.210 Sum_probs=96.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--------- 1347 (1433)
.+..+|||+......+.|...|...|+++..+++.+...+|+.+.++|+. +. |+| +|..+|.|+++.
T Consensus 448 ~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~-G~--VtI-ATnmAGRGTDIkLggn~~~~~ 523 (908)
T PRK13107 448 RGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRT-GA--VTI-ATNMAGRGTDIVLGGNWNMEI 523 (908)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCC-Cc--EEE-ecCCcCCCcceecCCchHHhh
Confidence 68999999999999999999999999999999999999999999999997 43 555 679999999875
Q ss_pred ----------------------------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1348 ----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 ----------------------------~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
..=|||.-+.+=|-..+.|..||+.|.|..-.-..|- |+|+.++.+
T Consensus 524 ~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGDPGss~f~l-----SlED~L~r~ 597 (908)
T PRK13107 524 EALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGDAGSSRFYL-----SMEDSLMRI 597 (908)
T ss_pred hhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCCCCceeEEE-----EeCcHHHHH
Confidence 3458999999999999999999999999886533331 556666543
No 101
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.95 E-value=1.7e-08 Score=119.01 Aligned_cols=97 Identities=22% Similarity=0.285 Sum_probs=91.1
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
.++|||.+-.....-+...|--.|++...++|+.++.||-..++.|++ .++.||| +|+.++.||++....+||+|+.|
T Consensus 427 ~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~-~eidvLi-aTDvAsRGLDI~gV~tVINy~mP 504 (691)
T KOG0338|consen 427 DRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKK-EEIDVLI-ATDVASRGLDIEGVQTVINYAMP 504 (691)
T ss_pred cceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHh-ccCCEEE-EechhhccCCccceeEEEeccCc
Confidence 689999999999999999999999999999999999999999999998 8899998 66999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCC
Q 000542 1359 WNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQk 1377 (1433)
-.-..+..|+||.-|-|.-
T Consensus 505 ~t~e~Y~HRVGRTARAGRa 523 (691)
T KOG0338|consen 505 KTIEHYLHRVGRTARAGRA 523 (691)
T ss_pred hhHHHHHHHhhhhhhcccC
Confidence 8888899999999988865
No 102
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.94 E-value=1.6e-07 Score=121.92 Aligned_cols=106 Identities=12% Similarity=0.130 Sum_probs=78.9
Q ss_pred CeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+|..-.+....+.-+...|+.. ..++...||.|+..+-++++.+|.+ ++..||| +|...-.||++..||++|+-+
T Consensus 804 GQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~-g~~dVLv-~TTIIEtGIDIPnANTiIIe~ 881 (1139)
T COG1197 804 GQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYN-GEYDVLV-CTTIIETGIDIPNANTIIIER 881 (1139)
T ss_pred CEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHc-CCCCEEE-EeeeeecCcCCCCCceEEEec
Confidence 33333344444555555555543 3456788999999999999999998 8899999 558889999999999999966
Q ss_pred CC-CCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1357 LW-WNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p~-WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
.. +--+..-|--|||+|-. +.-+-|-++..
T Consensus 882 AD~fGLsQLyQLRGRVGRS~--~~AYAYfl~p~ 912 (1139)
T COG1197 882 ADKFGLAQLYQLRGRVGRSN--KQAYAYFLYPP 912 (1139)
T ss_pred cccccHHHHHHhccccCCcc--ceEEEEEeecC
Confidence 44 45667889999999943 44577766654
No 103
>COG4889 Predicted helicase [General function prediction only]
Probab=98.91 E-value=3.7e-08 Score=121.28 Aligned_cols=76 Identities=25% Similarity=0.307 Sum_probs=60.2
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhc-CC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCC
Q 000542 1302 SIQYRRLDGTMSVFARDKAVKDFNT-LP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1302 gI~~~ridGsms~~eR~~~I~~Fn~-d~-~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr 1378 (1433)
.+.+.-+||.|+..+|.+.+..=+. .+ +++| |-..++.++|++..+-+-|||++|--.-....||+|||-|.--.|
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neckI-lSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK 576 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECKI-LSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGK 576 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchhee-eccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCC
Confidence 4556789999999999766654433 23 4555 458899999999999999999999877777889999999965443
No 104
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.88 E-value=2.5e-07 Score=108.86 Aligned_cols=104 Identities=21% Similarity=0.235 Sum_probs=90.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~--gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
..+|+|||-..-...+|....|... .+.++.++|.|+..+|.++++.|.+ ..-.||+ +|++++.||+....+.||.
T Consensus 254 ~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~-~~~~vl~-~TDVaARGlDip~iD~VvQ 331 (567)
T KOG0345|consen 254 KDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRK-LSNGVLF-CTDVAARGLDIPGIDLVVQ 331 (567)
T ss_pred ccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHh-ccCceEE-eehhhhccCCCCCceEEEe
Confidence 4589999998888888888877664 7889999999999999999999998 3334455 7899999999999999999
Q ss_pred EcCCCCcChHHHHHHhhhccCCCCcEEE
Q 000542 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAIGRahRIGQkr~V~V 1382 (1433)
+|||-+|.....|.||..|.|..-.-.|
T Consensus 332 ~DpP~~~~~FvHR~GRTaR~gr~G~Aiv 359 (567)
T KOG0345|consen 332 FDPPKDPSSFVHRCGRTARAGREGNAIV 359 (567)
T ss_pred cCCCCChhHHHhhcchhhhccCccceEE
Confidence 9999999999999999999998766444
No 105
>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=98.83 E-value=2.6e-08 Score=109.39 Aligned_cols=109 Identities=22% Similarity=0.198 Sum_probs=75.0
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccc
Q 000542 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLD 745 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~ 745 (1433)
.++++|++++.-+.+ ++..+++-..|.|||++.+..++.....
T Consensus 21 ~~~~~Q~~~~~~~~~-------~~~~li~~~TG~GKT~~~~~~~l~~~~~------------------------------ 63 (203)
T cd00268 21 KPTPIQARAIPPLLS-------GRDVIGQAQTGSGKTAAFLIPILEKLDP------------------------------ 63 (203)
T ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHh------------------------------
Confidence 479999999998884 2568999999999998854433321100
Q ss_pred ccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-cccc
Q 000542 746 LVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD-PCEL 823 (1433)
Q Consensus 746 ~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~-~~~l 823 (1433)
........+|||||.. ++.||...+.++.. ...+++..++|...... ...+
T Consensus 64 --------------------------~~~~~~~~viii~p~~~L~~q~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 116 (203)
T cd00268 64 --------------------------SPKKDGPQALILAPTRELALQIAEVARKLGK-HTNLKVVVIYGGTSIDKQIRKL 116 (203)
T ss_pred --------------------------hcccCCceEEEEcCCHHHHHHHHHHHHHHhc-cCCceEEEEECCCCHHHHHHHh
Confidence 0000123589999986 78999999988765 34688888888654322 2223
Q ss_pred -cCCCEEEEechhhhc
Q 000542 824 -AKFDVVITTYSIVSM 838 (1433)
Q Consensus 824 -~~~DIVITTY~~L~~ 838 (1433)
...+|+|+|.+.+..
T Consensus 117 ~~~~~iiv~T~~~l~~ 132 (203)
T cd00268 117 KRGPHIVVATPGRLLD 132 (203)
T ss_pred cCCCCEEEEChHHHHH
Confidence 378999999887753
No 106
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=98.79 E-value=1.5e-06 Score=112.09 Aligned_cols=114 Identities=18% Similarity=0.184 Sum_probs=94.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccC------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAAC------ 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An------ 1350 (1433)
.+..+|||+......+.|...|...||++..|++ ...+|++.|.+|.. ....|+| +|..+|.|+++.-..
T Consensus 597 ~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG-~~g~VtI-ATNMAGRGtDIkl~~~V~~vG 672 (1025)
T PRK12900 597 KGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAG-QKGAVTI-ATNMAGRGTDIKLGEGVRELG 672 (1025)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcC-CCCeEEE-eccCcCCCCCcCCccchhhhC
Confidence 5789999999999999999999999999999997 47899999999997 5566777 669999999988332
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000542 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq 1399 (1433)
+||..+.+-+...+.|++||+.|.|..-....+ + |.|+.++.+-
T Consensus 673 GL~VIgterhes~Rid~Ql~GRtGRqGdpGsS~ff--v---SleD~Lmr~f 718 (1025)
T PRK12900 673 GLFILGSERHESRRIDRQLRGRAGRQGDPGESVFY--V---SLEDELMRLF 718 (1025)
T ss_pred CceeeCCCCCchHHHHHHHhhhhhcCCCCcceEEE--e---chhHHHHHhh
Confidence 458889999999999999999999988764222 1 6667666543
No 107
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.70 E-value=8.7e-07 Score=112.42 Aligned_cols=83 Identities=16% Similarity=0.168 Sum_probs=63.8
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcCh----------HHHHHHhhhccCCC
Q 000542 1308 LDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTT----------EDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1308 idGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~----------e~QAIGRahRIGQk 1377 (1433)
-+.+|...+|+..-+.|.. +.++||. +|...+-|+||.+-..+|-=-+.|++.. ..|-+|||+|..=.
T Consensus 402 HhAGm~r~DR~l~E~~F~~-G~i~vL~-cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPqFd 479 (1230)
T KOG0952|consen 402 HHAGMLRSDRQLVEKEFKE-GHIKVLC-CTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQFD 479 (1230)
T ss_pred cccccchhhHHHHHHHHhc-CCceEEE-ecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHhccCCCCCC
Confidence 4678899999999999998 8888888 6689999999998777776666677764 67999999998654
Q ss_pred CcEEEEEEEeCCCHH
Q 000542 1378 RPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1378 r~V~VyrLi~kdTIE 1392 (1433)
..-..+-+.+.++++
T Consensus 480 ~~G~giIiTt~dkl~ 494 (1230)
T KOG0952|consen 480 SSGEGIIITTRDKLD 494 (1230)
T ss_pred CCceEEEEecccHHH
Confidence 444444445555443
No 108
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.62 E-value=2.3e-07 Score=106.39 Aligned_cols=110 Identities=20% Similarity=0.285 Sum_probs=95.1
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
...|||++-..++.+|...|...|+++..++|.+...+|.+++++|+. +..+||| +|.+.+.|++.+..+.||+||+|
T Consensus 331 gqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~-g~~kVLi-tTnV~ARGiDv~qVs~VvNydlP 408 (477)
T KOG0332|consen 331 GQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFRE-GKEKVLI-TTNVCARGIDVAQVSVVVNYDLP 408 (477)
T ss_pred hheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhc-CcceEEE-EechhhcccccceEEEEEecCCc
Confidence 578999999999999999999999999999999999999999999998 7778888 77999999999999999999988
Q ss_pred C------CcChHHHHHHhhhccCCCCcEEEEEEEe-CCCHH
Q 000542 1359 W------NPTTEDQAIDRAHRIGQTRPVSVLRLTV-KNTVE 1392 (1433)
Q Consensus 1359 W------NPa~e~QAIGRahRIGQkr~V~VyrLi~-kdTIE 1392 (1433)
- .+.+...||||.+|+|.+- +-+- |+- +++.+
T Consensus 409 ~~~~~~pD~etYlHRiGRtGRFGkkG-~a~n-~v~~~~s~~ 447 (477)
T KOG0332|consen 409 VKYTGEPDYETYLHRIGRTGRFGKKG-LAIN-LVDDKDSMN 447 (477)
T ss_pred cccCCCCCHHHHHHHhcccccccccc-eEEE-eecccCcHH
Confidence 4 3457789999999999765 3333 443 44443
No 109
>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=98.57 E-value=2.4e-07 Score=98.27 Aligned_cols=158 Identities=21% Similarity=0.262 Sum_probs=103.9
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccc
Q 000542 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVK 748 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k 748 (1433)
|+|.+++.-+.+. +-.++.-.+|.|||..++-.++.....
T Consensus 2 ~~Q~~~~~~i~~~-------~~~li~aptGsGKT~~~~~~~l~~~~~--------------------------------- 41 (169)
T PF00270_consen 2 PLQQEAIEAIISG-------KNVLISAPTGSGKTLAYILPALNRLQE--------------------------------- 41 (169)
T ss_dssp HHHHHHHHHHHTT-------SEEEEECSTTSSHHHHHHHHHHHHHHT---------------------------------
T ss_pred HHHHHHHHHHHcC-------CCEEEECCCCCccHHHHHHHHHhhhcc---------------------------------
Confidence 7899999988832 236999999999999887555431100
Q ss_pred cccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-Cc-ccc-c
Q 000542 749 QESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTK-DP-CEL-A 824 (1433)
Q Consensus 749 ~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k-~~-~~l-~ 824 (1433)
...+.+||+||.. ++.|-.+++.+++.. ..+++..++|..... .. ..+ .
T Consensus 42 --------------------------~~~~~~lii~P~~~l~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 94 (169)
T PF00270_consen 42 --------------------------GKDARVLIIVPTRALAEQQFERLRKFFSN-TNVRVVLLHGGQSISEDQREVLSN 94 (169)
T ss_dssp --------------------------TSSSEEEEEESSHHHHHHHHHHHHHHTTT-TTSSEEEESTTSCHHHHHHHHHHT
T ss_pred --------------------------CCCceEEEEeecccccccccccccccccc-cccccccccccccccccccccccc
Confidence 0112589999975 789999999988763 457888888766432 11 222 4
Q ss_pred CCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccc
Q 000542 825 KFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAK 904 (1433)
Q Consensus 825 ~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL~~ 904 (1433)
..+|+|+|++.+...+.. . ...+.
T Consensus 95 ~~~ilv~T~~~l~~~~~~-----------------~--------------------------------------~~~~~- 118 (169)
T PF00270_consen 95 QADILVTTPEQLLDLISN-----------------G--------------------------------------KINIS- 118 (169)
T ss_dssp TSSEEEEEHHHHHHHHHT-----------------T--------------------------------------SSTGT-
T ss_pred cccccccCcchhhccccc-----------------c--------------------------------------ccccc-
Confidence 699999999998643210 0 00122
Q ss_pred cCccEEEEcCccccCCh--hhHHHHHHHhc---ccCcEEEEEcccCCCChHH
Q 000542 905 VGWFRVVLDEAQSIKNH--RTQVARACWGL---RAKRRWCLSGTPIQNAIDD 951 (1433)
Q Consensus 905 i~W~rVILDEAH~IKN~--~T~~sral~~L---~a~~RwlLTGTPiqN~l~D 951 (1433)
...+||+||+|.+... .......+..+ +..+.+++||||- ..+++
T Consensus 119 -~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 119 -RLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp -TESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred -cceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 2578999999998652 22233333333 2466899999997 55554
No 110
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.57 E-value=1.8e-07 Score=107.10 Aligned_cols=125 Identities=22% Similarity=0.260 Sum_probs=105.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
..-+|+||+.-..-.|-|.++|--.|+..+.|+|+-.+++|..+|+.|+. +...||+ .|++++-||+++...|||+||
T Consensus 420 T~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~-gkKDVLV-ATDVASKGLDFp~iqHVINyD 497 (610)
T KOG0341|consen 420 TSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRA-GKKDVLV-ATDVASKGLDFPDIQHVINYD 497 (610)
T ss_pred CCCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhc-CCCceEE-EecchhccCCCccchhhccCC
Confidence 34689999999999999999999999999999999999999999999998 7778888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH----HHHHHHHH
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA----LQQKKREM 1405 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~----lq~kK~~l 1405 (1433)
.+-.-.....||||.+|-|.+-- -..||-+++-|.-+++ +++.|+++
T Consensus 498 MP~eIENYVHRIGRTGRsg~~Gi--ATTfINK~~~esvLlDLK~LL~EakQ~v 548 (610)
T KOG0341|consen 498 MPEEIENYVHRIGRTGRSGKTGI--ATTFINKNQEESVLLDLKHLLQEAKQEV 548 (610)
T ss_pred ChHHHHHHHHHhcccCCCCCcce--eeeeecccchHHHHHHHHHHHHHhhccC
Confidence 98777777889999988887753 3346777766655554 45566654
No 111
>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=98.55 E-value=6e-06 Score=110.88 Aligned_cols=108 Identities=12% Similarity=0.152 Sum_probs=85.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCC---CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~g---I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
..++|||..-...++.+...|...+ +.+..++|.++.++|.++++.+ +..+|+ ++|..+..||++....+||.
T Consensus 279 ~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~~rkIV-LATNIAEtSLTIpgV~yVID 354 (1283)
T TIGR01967 279 PGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---SGRRIV-LATNVAETSLTVPGIHYVID 354 (1283)
T ss_pred CCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---CCceEE-EeccHHHhccccCCeeEEEe
Confidence 3689999999999999999998764 4578899999999999885433 334555 58899999999999999998
Q ss_pred EcCC----CCc--------------ChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000542 1355 LDLW----WNP--------------TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1355 ~Dp~----WNP--------------a~e~QAIGRahRIGQkr~V~VyrLi~kdTIE 1392 (1433)
++.. ||| +...||.||++|.| +=.+|+|+++...+
T Consensus 355 sGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~ 407 (1283)
T TIGR01967 355 TGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFN 407 (1283)
T ss_pred CCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHH
Confidence 7732 222 35678888888887 66788999876544
No 112
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.54 E-value=2e-06 Score=110.06 Aligned_cols=108 Identities=18% Similarity=0.270 Sum_probs=92.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
...|+|||++--.-++.|.+.|.+.|+....++|..+..+|...++.|++ +.+.+|| .|...+.||+...-..||+||
T Consensus 612 e~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~-~~~~LLv-aTsvvarGLdv~~l~Lvvnyd 689 (997)
T KOG0334|consen 612 EDGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKN-GVVNLLV-ATSVVARGLDVKELILVVNYD 689 (997)
T ss_pred hcCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhc-cCceEEE-ehhhhhcccccccceEEEEcc
Confidence 35799999999999999999999999999999999999999999999998 4455555 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
.+=.......|.||..|-|.+- .-|.|+..
T Consensus 690 ~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 690 FPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred cchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 9866667778888888887776 44455555
No 113
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.54 E-value=4.5e-06 Score=111.71 Aligned_cols=109 Identities=14% Similarity=0.169 Sum_probs=84.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCc---EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ---YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~---~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI 1353 (1433)
...++|||..-...++.+...|...+++ +..++|.++.++|.++++. .+..+|+| +|..+..||++....+||
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~---~g~rkIIV-ATNIAEtSITIpgI~yVI 360 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS---HSGRRIVL-ATNVAETSLTVPGIKYVI 360 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc---cCCeeEEE-eccHHhhccccCcceEEE
Confidence 3468999999999999999999988775 5678999999999988664 34556655 889999999999999999
Q ss_pred EEc---------------CCCCc---ChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000542 1354 LLD---------------LWWNP---TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1354 ~~D---------------p~WNP---a~e~QAIGRahRIGQkr~V~VyrLi~kdTIE 1392 (1433)
.++ ++-.| +...||.||++|. ++=..|+|+++...+
T Consensus 361 D~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 361 DPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred ECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 974 33334 3456777766665 566788998765443
No 114
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.52 E-value=2.4e-06 Score=98.13 Aligned_cols=245 Identities=20% Similarity=0.214 Sum_probs=142.5
Q ss_pred CchHHHHHHHHHHHhhccCC---CCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000542 667 LLRHQRIALSWMVQKETSSL---HCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~---~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
|=.-|+++|.+.-++-...+ ...|-+|+|.+|.||-.++-++|......
T Consensus 38 LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~---------------------------- 89 (303)
T PF13872_consen 38 LSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLR---------------------------- 89 (303)
T ss_pred ccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHc----------------------------
Confidence 56689999999887654322 33677999999999999998888753211
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCEL 823 (1433)
Q Consensus 744 ~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l 823 (1433)
++.+++-|-+...|..--++.|... . ...+.+.....-.... . .-
T Consensus 90 -------------------------------Gr~r~vwvS~s~dL~~Da~RDl~DI-G-~~~i~v~~l~~~~~~~-~-~~ 134 (303)
T PF13872_consen 90 -------------------------------GRKRAVWVSVSNDLKYDAERDLRDI-G-ADNIPVHPLNKFKYGD-I-IR 134 (303)
T ss_pred -------------------------------CCCceEEEECChhhhhHHHHHHHHh-C-CCcccceechhhccCc-C-CC
Confidence 1123344445556766555666533 2 1133333332222111 1 11
Q ss_pred cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCcc
Q 000542 824 AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLA 903 (1433)
Q Consensus 824 ~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL~ 903 (1433)
.+.+||.+||.+|..+..+. . +.+.+++ .+.++ +.
T Consensus 135 ~~~GvlF~TYs~L~~~~~~~---------------------------~-------------~~~sRl~-ql~~W----~g 169 (303)
T PF13872_consen 135 LKEGVLFSTYSTLISESQSG---------------------------G-------------KYRSRLD-QLVDW----CG 169 (303)
T ss_pred CCCCccchhHHHHHhHHhcc---------------------------C-------------CccchHH-HHHHH----Hh
Confidence 25679999999997542110 0 0000000 00000 00
Q ss_pred ccCc-cEEEEcCccccCChhh------HHHHHHHhc----ccCcEEEEEcccCCCChHHHHhhhhccc----cCCccchH
Q 000542 904 KVGW-FRVVLDEAQSIKNHRT------QVARACWGL----RAKRRWCLSGTPIQNAIDDLYSYFRFLR----YDPFAVYK 968 (1433)
Q Consensus 904 ~i~W-~rVILDEAH~IKN~~T------~~sral~~L----~a~~RwlLTGTPiqN~l~DLyslL~FL~----p~~f~~~~ 968 (1433)
-.| .+||+||||..||..+ ++..++..| ..-+.+-.|||.... +..|.-+-+ |. ..+|.+..
T Consensus 170 -~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~NmaYm~R-LGLWG~gtpf~~~~ 246 (303)
T PF13872_consen 170 -EDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNMAYMSR-LGLWGPGTPFPDFD 246 (303)
T ss_pred -cCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Cceeeeeee-ccccCCCCCCCCHH
Confidence 111 3799999999999644 666676655 344678899999853 444432222 22 13567778
Q ss_pred HHHhhhccCCCCCchhhHHHHHHHH--hhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHH
Q 000542 969 SFCSMIKVPISKNPVKGYKKLQAVL--KTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQ 1036 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~~~~~~~L~~lL--~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~ 1036 (1433)
+|...++ ++....++-+..-| ...+++|.. .+-.....++.+++++++.++|+.
T Consensus 247 ~f~~a~~----~gGv~amE~vA~dlKa~G~yiaR~L----------Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 247 DFLEAME----KGGVGAMEMVAMDLKARGMYIARQL----------SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HHHHHHH----hcCchHHHHHHHHHHhcchheeeec----------ccCCceEEEEEecCCHHHHHHhcC
Confidence 8877654 33333344333333 335666664 355567889999999999999974
No 115
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.48 E-value=1.4e-05 Score=100.82 Aligned_cols=115 Identities=16% Similarity=0.186 Sum_probs=86.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--------- 1347 (1433)
.+.-|||.+.....-+.|...|.+.||++..++.... ++-.++|.+= +..--+.++|.-+|.|-++.
T Consensus 426 ~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~-~~EA~IIa~A---G~~gaVTIATNMAGRGTDIkLg~~~~~~~ 501 (764)
T PRK12326 426 TGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKND-AEEARIIAEA---GKYGAVTVSTQMAGRGTDIRLGGSDEADR 501 (764)
T ss_pred cCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCch-HhHHHHHHhc---CCCCcEEEEecCCCCccCeecCCCcccch
Confidence 6889999999999999999999999999999998743 3334444432 22223444678888997765
Q ss_pred ------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000542 1348 ------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1348 ------~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~ 1400 (1433)
..=|||.-+.+=+-..+.|..||+.|.|..-....|- |+|+.++.+-.
T Consensus 502 ~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~l-----SleDdl~~~f~ 555 (764)
T PRK12326 502 DRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFFV-----SLEDDVVAANL 555 (764)
T ss_pred HHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEEE-----EcchhHHHhcC
Confidence 3458999999999999999999999999887644432 55666665443
No 116
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.46 E-value=1.1e-06 Score=112.46 Aligned_cols=116 Identities=24% Similarity=0.302 Sum_probs=97.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+.....++.|...|...|+++..++|.++..+|.++++.|+. +.+.||| ++...+.|+++..++.||++|
T Consensus 441 ~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~-G~i~VLV-~t~~L~rGfDiP~v~lVvi~D 518 (655)
T TIGR00631 441 RNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRL-GEFDVLV-GINLLREGLDLPEVSLVAILD 518 (655)
T ss_pred CCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhc-CCceEEE-EcChhcCCeeeCCCcEEEEeC
Confidence 67899999999999999999999999999999999999999999999987 7788876 668999999999999999999
Q ss_pred -----CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCC--HHHHHHH
Q 000542 1357 -----LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT--VEDRILA 1397 (1433)
Q Consensus 1357 -----p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdT--IEErIl~ 1397 (1433)
.+=+.....|++||+.|.. .. .|+.|+...| +...|.+
T Consensus 519 adifG~p~~~~~~iqriGRagR~~-~G--~vi~~~~~~~~~~~~ai~~ 563 (655)
T TIGR00631 519 ADKEGFLRSERSLIQTIGRAARNV-NG--KVIMYADKITDSMQKAIEE 563 (655)
T ss_pred cccccCCCCHHHHHHHhcCCCCCC-CC--EEEEEEcCCCHHHHHHHHH
Confidence 3446778899999999963 32 3455555544 4444444
No 117
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.45 E-value=2.3e-05 Score=102.47 Aligned_cols=126 Identities=14% Similarity=0.131 Sum_probs=97.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhc---CCCccEEEeeccccccccCccccCEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNT---LPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~---d~~v~VLL~StkaGg~GLNLq~An~VI 1353 (1433)
.+.|++|-++-+..+.-+...|+..+.++..|++.+....|.+.++...+ ..+.. ++++|++.-+|+++. .+.+|
T Consensus 439 ~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~-IvVaTQVIEagvDid-fd~mI 516 (733)
T COG1203 439 EGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGF-IVVATQVIEAGVDID-FDVLI 516 (733)
T ss_pred cCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCe-EEEEeeEEEEEeccc-cCeee
Confidence 57899999999999999999999987789999999999999999987663 23444 455889999999998 44444
Q ss_pred EEcCCCCcChHHHHHHhhhccC--CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000542 1354 LLDLWWNPTTEDQAIDRAHRIG--QTRPVSVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1354 ~~Dp~WNPa~e~QAIGRahRIG--Qkr~V~VyrLi~kdTIEErIl~lq~kK~~l~ 1406 (1433)
-|+. -.....||.||++|-| ....++|+...-......+.++....+....
T Consensus 517 -Te~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 569 (733)
T COG1203 517 -TELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSL 569 (733)
T ss_pred -ecCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhhccc
Confidence 4432 2357889999999999 5556888877777777777766666555544
No 118
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.44 E-value=5.3e-05 Score=93.62 Aligned_cols=86 Identities=27% Similarity=0.340 Sum_probs=67.5
Q ss_pred HHHhcCCCccEEEeeccccccccCccccCEE--------EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH
Q 000542 1322 KDFNTLPEVSVMIMSLKAASLGLNMVAACHV--------LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED 1393 (1433)
Q Consensus 1322 ~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V--------I~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEE 1393 (1433)
++|-. ++..|-|+| .|++.|+.||.-.+| |-+++||...+-+|-+||.||-.|-.-...+.||.+=-=|.
T Consensus 851 qrFM~-GeK~vAIIS-EAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlIseLAGEr 928 (1300)
T KOG1513|consen 851 QRFMD-GEKLVAIIS-EAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLISELAGER 928 (1300)
T ss_pred hhhcc-ccceeeeee-hhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEehhhccch
Confidence 45665 788888888 999999999965444 55999999999999999999999998766666776666677
Q ss_pred HHHHHHHHHHHHHHHH
Q 000542 1394 RILALQQKKREMVASA 1409 (1433)
Q Consensus 1394 rIl~lq~kK~~l~~~~ 1409 (1433)
|...+..++.+-..++
T Consensus 929 RFAS~VAKRLESLGAL 944 (1300)
T KOG1513|consen 929 RFASIVAKRLESLGAL 944 (1300)
T ss_pred HHHHHHHHHHHhhccc
Confidence 7777776666655443
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=98.42 E-value=7.6e-06 Score=95.35 Aligned_cols=123 Identities=18% Similarity=0.171 Sum_probs=73.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHH------------HHHhc--CCCccEEEeecccccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAV------------KDFNT--LPEVSVMIMSLKAASL 1342 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I------------~~Fn~--d~~v~VLL~StkaGg~ 1342 (1433)
.+.++||.++...++|+||..|...++.|.|+.|.+-..+....- ..... ...+.|.|+++.-...
T Consensus 116 ~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~ 195 (297)
T PF11496_consen 116 YPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYN 195 (297)
T ss_dssp SSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S---S----------------------SEEEEEEESS---T
T ss_pred CCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccccCCcccccccccccccccccccccceEEEEecCccccc
Confidence 568999999999999999999999999999999987544443332 11111 1356677776554433
Q ss_pred ----ccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000542 1343 ----GLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1343 ----GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~ 1400 (1433)
.++-...+.||-+|+.+++....-..-|.+.-.+ +.+-|+||+..+|+|--++....
T Consensus 196 ~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~PiirLv~~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 196 NKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLCPIIRLVPSNSIEHIELCFPK 256 (297)
T ss_dssp TTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S--EEEEEETTSHHHHHHHHTT
T ss_pred cCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCCcEEEEeeCCCHHHHHHHccC
Confidence 2334467889999999999876644444443333 88999999999999988877665
No 120
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=98.36 E-value=4.3e-06 Score=107.76 Aligned_cols=107 Identities=24% Similarity=0.318 Sum_probs=92.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+.++|||+.....++.|...|...|+++..++|.++..+|..+++.|+. +.+.|+| ++...+.|+++..++.||++|
T Consensus 445 ~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~-g~i~vlV-~t~~L~rGfdlp~v~lVii~d 522 (652)
T PRK05298 445 KGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRL-GEFDVLV-GINLLREGLDIPEVSLVAILD 522 (652)
T ss_pred CCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHc-CCceEEE-EeCHHhCCccccCCcEEEEeC
Confidence 67899999999999999999999999999999999999999999999987 7777776 669999999999999999999
Q ss_pred C-----CCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000542 1357 L-----WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p-----~WNPa~e~QAIGRahRIGQkr~V~VyrLi~k 1388 (1433)
. +-++....|++||+.|- .. =.++.|+..
T Consensus 523 ~eifG~~~~~~~yiqr~GR~gR~-~~--G~~i~~~~~ 556 (652)
T PRK05298 523 ADKEGFLRSERSLIQTIGRAARN-VN--GKVILYADK 556 (652)
T ss_pred CcccccCCCHHHHHHHhccccCC-CC--CEEEEEecC
Confidence 6 34778899999999994 32 234555553
No 121
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.31 E-value=4.6e-07 Score=101.89 Aligned_cols=98 Identities=19% Similarity=0.304 Sum_probs=93.5
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
...||||+.+...++|+.-+.+.|+.+..++..|.++.|..+..+|++ +.++.|++| +-.-.|++.|+.|.||++|.+
T Consensus 323 NQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~-G~crnLVct-DL~TRGIDiqavNvVINFDfp 400 (459)
T KOG0326|consen 323 NQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRN-GKCRNLVCT-DLFTRGIDIQAVNVVINFDFP 400 (459)
T ss_pred cceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhc-cccceeeeh-hhhhcccccceeeEEEecCCC
Confidence 578999999999999999999999999999999999999999999998 899999966 899999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCC
Q 000542 1359 WNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr 1378 (1433)
-|+.....||||.+|+|---
T Consensus 401 k~aEtYLHRIGRsGRFGhlG 420 (459)
T KOG0326|consen 401 KNAETYLHRIGRSGRFGHLG 420 (459)
T ss_pred CCHHHHHHHccCCccCCCcc
Confidence 99999999999999999654
No 122
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.30 E-value=0.00022 Score=92.50 Aligned_cols=112 Identities=15% Similarity=0.238 Sum_probs=85.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHH-HHHHHHhcCCCccEEEeeccccccccCcc--------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARD-KAVKDFNTLPEVSVMIMSLKAASLGLNMV-------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~-~~I~~Fn~d~~v~VLL~StkaGg~GLNLq-------- 1347 (1433)
.+.-|||-+.....-+.|...|...||++..++.... +++ ++|..= +..--+.++|..+|.|.++.
T Consensus 567 ~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~--~~Ea~iia~A---G~~g~VTIATNmAGRGTDIkl~~~v~~~ 641 (970)
T PRK12899 567 KGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH--AQEAEIIAGA---GKLGAVTVATNMAGRGTDIKLDEEAVAV 641 (970)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchh--hhHHHHHHhc---CCCCcEEEeeccccCCcccccCchHHhc
Confidence 6788999999999999999999999999999988733 444 344322 33233444678888997754
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
..=|||.-+.+-|...+.|..||+.|.|..-....+- |+|+.++.+
T Consensus 642 GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~f~l-----SlEDdL~~~ 687 (970)
T PRK12899 642 GGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFFL-----SFEDRLMRL 687 (970)
T ss_pred CCcEEEeeccCchHHHHHHHhcccccCCCCCceeEEE-----EcchHHHHH
Confidence 3468999999999999999999999999987643331 566666654
No 123
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.29 E-value=0.00069 Score=78.03 Aligned_cols=95 Identities=15% Similarity=0.177 Sum_probs=75.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC-C-CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS-S-IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~-g-I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
.+.-++||..-..+++-+...|+.. + .+...++.. ...|.+.+++|++ +..++|| +|.....|+.+...+..++
T Consensus 304 ~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~-G~~~lLi-TTTILERGVTfp~vdV~Vl 379 (441)
T COG4098 304 TGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRD-GKITLLI-TTTILERGVTFPNVDVFVL 379 (441)
T ss_pred cCCcEEEEecchHHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHc-CceEEEE-EeehhhcccccccceEEEe
Confidence 5688999999999999999999543 2 222334433 3578999999998 7777776 7799999999999998887
Q ss_pred Ec--CCCCcChHHHHHHhhhccC
Q 000542 1355 LD--LWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1355 ~D--p~WNPa~e~QAIGRahRIG 1375 (1433)
=. +.+..+...|--||++|--
T Consensus 380 gaeh~vfTesaLVQIaGRvGRs~ 402 (441)
T COG4098 380 GAEHRVFTESALVQIAGRVGRSL 402 (441)
T ss_pred cCCcccccHHHHHHHhhhccCCC
Confidence 43 4488899999999999954
No 124
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.25 E-value=0.0018 Score=78.39 Aligned_cols=123 Identities=21% Similarity=0.281 Sum_probs=102.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+++++|-+=-..|.+-|.++|...||++..++.....-+|.++|.+.+. +.+.||+ ...-.-+||+|..++-|.++|
T Consensus 445 ~~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~-G~~DvLV-GINLLREGLDiPEVsLVAIlD 522 (663)
T COG0556 445 KNERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRL-GEFDVLV-GINLLREGLDLPEVSLVAILD 522 (663)
T ss_pred cCCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhc-CCccEEE-eehhhhccCCCcceeEEEEee
Confidence 67999999999999999999999999999999999999999999999998 8898888 678899999999999999999
Q ss_pred CC-----CCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000542 1357 LW-----WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKK 1402 (1433)
Q Consensus 1357 p~-----WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK 1402 (1433)
.. -+-...+|-|||+-|--.- .|..|-=.+.++++..|-+...++
T Consensus 523 ADKeGFLRse~SLIQtIGRAARN~~G-kvIlYAD~iT~sM~~Ai~ET~RRR 572 (663)
T COG0556 523 ADKEGFLRSERSLIQTIGRAARNVNG-KVILYADKITDSMQKAIDETERRR 572 (663)
T ss_pred cCccccccccchHHHHHHHHhhccCC-eEEEEchhhhHHHHHHHHHHHHHH
Confidence 65 4677899999999994322 255544445556666666654433
No 125
>PF13871 Helicase_C_4: Helicase_C-like
Probab=98.23 E-value=1.7e-06 Score=98.90 Aligned_cols=95 Identities=24% Similarity=0.282 Sum_probs=79.9
Q ss_pred HHHHHHhcCCCccEEEeeccccccccCcccc-------CEE-EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000542 1319 KAVKDFNTLPEVSVMIMSLKAASLGLNMVAA-------CHV-LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1319 ~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~A-------n~V-I~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdT 1390 (1433)
...+.|++ +...|+|+| .||+.|+.|++- -|| |.++++|+.....|-+||+||-||..+..+..+++.-.
T Consensus 52 ~e~~~F~~-g~k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~~ 129 (278)
T PF13871_consen 52 AEKQAFMD-GEKDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDLP 129 (278)
T ss_pred HHHHHHhC-CCceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCCH
Confidence 56778998 788999998 999999999952 344 67999999999999999999999998866666777778
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCc
Q 000542 1391 VEDRILALQQKKREMVASAFGEDET 1415 (1433)
Q Consensus 1391 IEErIl~lq~kK~~l~~~~lg~d~~ 1415 (1433)
.|.|......+|.+-..++...+..
T Consensus 130 gE~Rfas~va~rL~sLgAlt~gdr~ 154 (278)
T PF13871_consen 130 GERRFASTVARRLESLGALTRGDRR 154 (278)
T ss_pred HHHHHHHHHHHHHhhccccccCccc
Confidence 8999999999999988766554443
No 126
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.17 E-value=6.3e-06 Score=94.49 Aligned_cols=101 Identities=22% Similarity=0.291 Sum_probs=94.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
+..-++||.|-+.+..+|...|+..++..+.+++-|++++|-.++.+|+. ...++|| .|++++.||+.....-||++|
T Consensus 253 ~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs-~~~~ili-aTDVAsRGLDIP~V~LVvN~d 330 (442)
T KOG0340|consen 253 ENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRS-NAARILI-ATDVASRGLDIPTVELVVNHD 330 (442)
T ss_pred cCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhh-cCccEEE-EechhhcCCCCCceeEEEecC
Confidence 46789999999999999999999999999999999999999999999998 7788888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCc
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
.|-.|.....|+||.-|-|..-.
T Consensus 331 iPr~P~~yiHRvGRtARAGR~G~ 353 (442)
T KOG0340|consen 331 IPRDPKDYIHRVGRTARAGRKGM 353 (442)
T ss_pred CCCCHHHHHHhhcchhcccCCcc
Confidence 99999999999999999887654
No 127
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.16 E-value=0.00017 Score=94.06 Aligned_cols=111 Identities=12% Similarity=0.048 Sum_probs=64.0
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhc----ccCcEEEEEcccCCC--ChHHHHhhhhccccCCccchHHHHhhhccCCCC
Q 000542 907 WFRVVLDEAQSIKNHRTQVARACWGL----RAKRRWCLSGTPIQN--AIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISK 980 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~sral~~L----~a~~RwlLTGTPiqN--~l~DLyslL~FL~p~~f~~~~~F~~~i~~pi~~ 980 (1433)
...||+||||++....+-.+ .+... +..+..++|+.|-.. ...-+-..++-|......-|.+|...+
T Consensus 32 itgiiv~~Ahr~~~~~~eaF-I~rlyr~~n~~gfIkafSdsP~~~~~g~~~l~~vmk~L~i~~v~l~prf~~~V------ 104 (814)
T TIGR00596 32 ITGILVLRADRIIESSQEAF-ILRLYRQKNKTGFIKAFSDNPEAFTMGFSPLETKMRNLFLRHVYLWPRFHVEV------ 104 (814)
T ss_pred ccEEEEeecccccccccHHH-HHHHHHHhCCCcceEEecCCCcccccchHHHHHHHHHhCcCeEEEeCCCchHH------
Confidence 45799999999975433322 22222 345688999999763 334444555555444333333332221
Q ss_pred CchhhHHHHHHHHhhhhhhcccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcc
Q 000542 981 NPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 981 ~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~~~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g 1052 (1433)
++.+ .--+..+..+.|+|+++-+++...+..-....+.++...+
T Consensus 105 -------------~~~l---------------~~~~~~V~ei~V~l~~~m~~Iq~~l~~~l~~~l~eLkr~n 148 (814)
T TIGR00596 105 -------------ASSL---------------EKHKAEVIELHVSLTDSMSQIQSAILECLNKCIAELKRKN 148 (814)
T ss_pred -------------HHHh---------------ccCCCeEEEEEeCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 1111 1011346677889999888888777766666666665544
No 128
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.15 E-value=7.8e-05 Score=96.31 Aligned_cols=112 Identities=16% Similarity=0.236 Sum_probs=84.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCC-ccEEEeeccccccccCcc--------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPE-VSVMIMSLKAASLGLNMV-------- 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~-v~VLL~StkaGg~GLNLq-------- 1347 (1433)
.+.-|||-+.....-+.|.+.|...||++-.++.... ++++.|-+ +. +. -.|.| +|.-+|.|-++.
T Consensus 448 ~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~--~~EA~IIa-~A-G~~GaVTI-ATNMAGRGTDIkLg~n~~~~ 522 (913)
T PRK13103 448 LGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYH--EKEAEIIA-QA-GRPGALTI-ATNMAGRGTDILLGGNWEVE 522 (913)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccc--hhHHHHHH-cC-CCCCcEEE-eccCCCCCCCEecCCchHHH
Confidence 6889999999999999999999999999988888743 44443333 22 33 34455 668888997764
Q ss_pred -----------------------------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1348 -----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 -----------------------------~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
..=|||.-+.+=|-..+.|..||+.|.|..-....|- |+|+.++.+
T Consensus 523 ~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGDPGsS~f~l-----SlED~Lmr~ 597 (913)
T PRK13103 523 VAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGDPGSSRFYL-----SLEDSLMRI 597 (913)
T ss_pred HHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEE-----EcCcHHHHh
Confidence 3458999999999999999999999999887644432 445555543
No 129
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.11 E-value=0.00026 Score=90.91 Aligned_cols=113 Identities=15% Similarity=0.176 Sum_probs=86.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc-------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA------- 1349 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~A------- 1349 (1433)
.+.-|||.+.....-+.|...|...||++.+++... .+|++.|-. +. +..--+.++|..+|.|-++.-.
T Consensus 425 ~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~--~e~EA~IIa-~A-G~~GaVTIATNMAGRGTDI~Lg~~V~~~G 500 (925)
T PRK12903 425 KGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQ--NAREAEIIA-KA-GQKGAITIATNMAGRGTDIKLSKEVLELG 500 (925)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccc--hhhHHHHHH-hC-CCCCeEEEecccccCCcCccCchhHHHcC
Confidence 678999999999999999999999999999999873 345544433 22 4333344467888999887643
Q ss_pred -CEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000542 1350 -CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1350 -n~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~l 1398 (1433)
=|||..+.+=+-..+.|..||+.|.|..-....|- |+|+.++.+
T Consensus 501 GLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f~l-----SLeD~L~r~ 545 (925)
T PRK12903 501 GLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRFFI-----SLDDQLFRR 545 (925)
T ss_pred CcEEEecccCchHHHHHHHhcccccCCCCCcceEEE-----ecchHHHHH
Confidence 39999999999999999999999999887644432 556655543
No 130
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.05 E-value=0.00028 Score=90.59 Aligned_cols=96 Identities=20% Similarity=0.230 Sum_probs=71.4
Q ss_pred HHHHHHHHhC--CCcEEecCCCCCHHH--HHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---CCcC--
Q 000542 1292 DLLEASLKDS--SIQYRRLDGTMSVFA--RDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---WNPT-- 1362 (1433)
Q Consensus 1292 dlLe~~L~~~--gI~~~ridGsms~~e--R~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~---WNPa-- 1362 (1433)
+.|++.|+.. +.+++++|+.++... -+.+++.|.+ ++..||| .|....-|+|+....-|.++|.+ .+|.
T Consensus 494 erieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~-ge~dILi-GTQmiaKG~~fp~vtLVgvl~aD~~L~~~DfR 571 (730)
T COG1198 494 ERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFAN-GEADILI-GTQMIAKGHDFPNVTLVGVLDADTGLGSPDFR 571 (730)
T ss_pred HHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhC-CCCCeee-cchhhhcCCCcccceEEEEEechhhhcCCCcc
Confidence 3445555443 678888888876533 5688999998 8888888 56999999999999999887754 2343
Q ss_pred -------hHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1363 -------TEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1363 -------~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
...|.-||++|-+-.-.|.+-.+....
T Consensus 572 A~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~h 605 (730)
T COG1198 572 ASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDH 605 (730)
T ss_pred hHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCc
Confidence 456999999998777777776666554
No 131
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.03 E-value=2.4e-05 Score=95.16 Aligned_cols=103 Identities=18% Similarity=0.230 Sum_probs=92.7
Q ss_pred CeEEEEcccHHHHHHHHHHH-HhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1279 EKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L-~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
-.++||-|...-...|...| .-.+|.+-.++|..++.+|+..+++|+. +.+.||+ .|...+.|+++..++.||+||.
T Consensus 388 PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~-g~IwvLi-cTdll~RGiDf~gvn~VInyD~ 465 (593)
T KOG0344|consen 388 PPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRI-GKIWVLI-CTDLLARGIDFKGVNLVINYDF 465 (593)
T ss_pred CCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhc-cCeeEEE-ehhhhhccccccCcceEEecCC
Confidence 36799999999999999999 6779999999999999999999999999 8999999 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCc-EEEE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRP-VSVL 1383 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~-V~Vy 1383 (1433)
+=.-.....+|||.+|-|+.-. +++|
T Consensus 466 p~s~~syihrIGRtgRag~~g~Aitfy 492 (593)
T KOG0344|consen 466 PQSDLSYIHRIGRTGRAGRSGKAITFY 492 (593)
T ss_pred CchhHHHHHHhhccCCCCCCcceEEEe
Confidence 9888899999999999998754 4443
No 132
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=9.5e-06 Score=94.35 Aligned_cols=107 Identities=20% Similarity=0.320 Sum_probs=97.6
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
...+||++..+-++.|...|..+++....++|.|...+|+.+++.|+. +..+||| ++.-.+.|++++..+-||+||+|
T Consensus 264 ~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~-gssrvlI-ttdl~argidv~~~slvinydlP 341 (397)
T KOG0327|consen 264 TQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRS-GSSRVLI-TTDLLARGIDVQQVSLVVNYDLP 341 (397)
T ss_pred hcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhc-CCceEEe-eccccccccchhhcceeeeeccc
Confidence 688999999999999999999999999999999999999999999998 8888888 66899999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
=|......|+||..|.|.+- .+..++++.
T Consensus 342 ~~~~~yihR~gr~gr~grkg--~~in~v~~~ 370 (397)
T KOG0327|consen 342 ARKENYIHRIGRAGRFGRKG--VAINFVTEE 370 (397)
T ss_pred cchhhhhhhcccccccCCCc--eeeeeehHh
Confidence 99999999999999999764 344555554
No 133
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.86 E-value=0.00029 Score=89.44 Aligned_cols=81 Identities=23% Similarity=0.259 Sum_probs=56.4
Q ss_pred ecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-E---c----CCCCcChHHHHHHhhhccCCCC
Q 000542 1307 RLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-L---D----LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1307 ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~-~---D----p~WNPa~e~QAIGRahRIGQkr 1378 (1433)
+-+|+.=+--++-+---|+. +=++||+ +|...+-|+|+.+-+.||- + | -..+|....|.-|||+|-|=..
T Consensus 635 VHH~GlLPivKE~VE~LFqr-GlVKVLF-ATETFAMGVNMPARtvVF~Sl~KhDG~efR~L~PGEytQMAGRAGRRGlD~ 712 (1248)
T KOG0947|consen 635 VHHGGLLPIVKEVVELLFQR-GLVKVLF-ATETFAMGVNMPARTVVFSSLRKHDGNEFRELLPGEYTQMAGRAGRRGLDE 712 (1248)
T ss_pred hhcccchHHHHHHHHHHHhc-CceEEEe-ehhhhhhhcCCCceeEEeeehhhccCcceeecCChhHHhhhccccccccCc
Confidence 34566555555555556776 7788888 6699999999997766653 1 1 2368999999999999999766
Q ss_pred cEEEEEEEeCCC
Q 000542 1379 PVSVLRLTVKNT 1390 (1433)
Q Consensus 1379 ~V~VyrLi~kdT 1390 (1433)
.=+|. ++.++.
T Consensus 713 tGTVi-i~~~~~ 723 (1248)
T KOG0947|consen 713 TGTVI-IMCKDS 723 (1248)
T ss_pred CceEE-EEecCC
Confidence 54443 344444
No 134
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.85 E-value=0.00038 Score=89.38 Aligned_cols=75 Identities=17% Similarity=0.295 Sum_probs=62.7
Q ss_pred CCeEEEEccc---HHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecccc---ccccCcc-ccC
Q 000542 1278 GEKAIVFSQW---TKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAA---SLGLNMV-AAC 1350 (1433)
Q Consensus 1278 ~eKvIIFSq~---t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaG---g~GLNLq-~An 1350 (1433)
|.-.|||.+- ...++.|..+|+.+|+....++.. +.+.++.|.. +++.|||....-- =.||+|. ...
T Consensus 335 G~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~-----~~~~le~F~~-GeidvLVGvAsyYG~lVRGlDLP~rir 408 (1187)
T COG1110 335 GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-----KEEALEDFEE-GEVDVLVGVASYYGVLVRGLDLPHRIR 408 (1187)
T ss_pred CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----chhhhhhhcc-CceeEEEEecccccceeecCCchhhee
Confidence 4567999998 889999999999999998887663 3788999998 9999999654433 3599996 889
Q ss_pred EEEEEcCC
Q 000542 1351 HVLLLDLW 1358 (1433)
Q Consensus 1351 ~VI~~Dp~ 1358 (1433)
++||+..|
T Consensus 409 YaIF~GvP 416 (1187)
T COG1110 409 YAVFYGVP 416 (1187)
T ss_pred EEEEecCC
Confidence 99999987
No 135
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=97.51 E-value=0.00012 Score=88.27 Aligned_cols=130 Identities=20% Similarity=0.237 Sum_probs=104.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
-+.+.|||++..+-+..|.-+|...+|+...++..|.+++|-+.+++|.+.+. .||| .|++++.||+++...|||+|.
T Consensus 462 yPGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~-~VLi-aTDVAARGLDIp~V~HVIHYq 539 (731)
T KOG0347|consen 462 YPGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPS-GVLI-ATDVAARGLDIPGVQHVIHYQ 539 (731)
T ss_pred cCCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCC-eEEE-eehhhhccCCCCCcceEEEee
Confidence 45789999999999999999999999999999999999999999999998443 3444 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEe----------------CC----CHHHHHHHHHHHHHHHHHHH
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTV----------------KN----TVEDRILALQQKKREMVASA 1409 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~----------------kd----TIEErIl~lq~kK~~l~~~~ 1409 (1433)
.|-.......|-||.-|-+.. -|.|.-.-. .+ -|+++|+....++-.++..+
T Consensus 540 VPrtseiYVHRSGRTARA~~~-Gvsvml~~P~e~~~~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei 611 (731)
T KOG0347|consen 540 VPRTSEIYVHRSGRTARANSE-GVSVMLCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREI 611 (731)
T ss_pred cCCccceeEecccccccccCC-CeEEEEeChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHH
Confidence 999999999999999997633 244432110 11 24677777777776666544
No 136
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.47 E-value=0.015 Score=74.64 Aligned_cols=69 Identities=25% Similarity=0.242 Sum_probs=60.3
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc-CCCCcChHHHHHHhhhccCCCC
Q 000542 1308 LDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD-LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1308 idGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D-p~WNPa~e~QAIGRahRIGQkr 1378 (1433)
-+.+++...|..+---|+. +...||+ +|...+.|+|+.+-..|+.-| +..||....|+-|||+|-|=..
T Consensus 968 HHaglNr~yR~~VEvLFR~-g~L~Vlf-aT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~ 1037 (1330)
T KOG0949|consen 968 HHAGLNRKYRSLVEVLFRQ-GHLQVLF-ATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDT 1037 (1330)
T ss_pred cccccchHHHHHHHHHhhc-CceEEEE-EeeehhcccCCCceeEEEeccccccCchhHHhhhcccccccccc
Confidence 4678899999999899998 8888888 679999999999888888776 6789999999999999988543
No 137
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=97.38 E-value=0.009 Score=78.32 Aligned_cols=70 Identities=21% Similarity=0.307 Sum_probs=57.2
Q ss_pred CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-----EcCC---C---CcChHHHHHHhh
Q 000542 1303 IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-----LDLW---W---NPTTEDQAIDRA 1371 (1433)
Q Consensus 1303 I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~-----~Dp~---W---NPa~e~QAIGRa 1371 (1433)
+.|..-+.+|+..+|+..-+-|.+ +.++||+ ||...+-|+||.+ .+||+ |||. | .|-...|..||+
T Consensus 608 ygfaIHhAGl~R~dR~~~EdLf~~-g~iqvlv-statlawgvnlpa-htViikgtqvy~pekg~w~elsp~dv~qmlgra 684 (1674)
T KOG0951|consen 608 YGFAIHHAGLNRKDRELVEDLFAD-GHIQVLV-STATLAWGVNLPA-HTVIIKGTQVYDPEKGRWTELSPLDVMQMLGRA 684 (1674)
T ss_pred ccceeeccCCCcchHHHHHHHHhc-CceeEEE-eehhhhhhcCCCc-ceEEecCccccCcccCccccCCHHHHHHHHhhc
Confidence 456677889999999999999997 8999998 8899999999985 45554 5553 4 455778999999
Q ss_pred hccC
Q 000542 1372 HRIG 1375 (1433)
Q Consensus 1372 hRIG 1375 (1433)
+|.+
T Consensus 685 grp~ 688 (1674)
T KOG0951|consen 685 GRPQ 688 (1674)
T ss_pred CCCc
Confidence 9976
No 138
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=6.2e-05 Score=82.48 Aligned_cols=57 Identities=33% Similarity=0.722 Sum_probs=47.3
Q ss_pred hhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhh
Q 000542 1111 ASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFS 1167 (1433)
Q Consensus 1111 ~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~ 1167 (1433)
.....|.||.+..++||+|.|||+||=-||-.|+....+.--+++||..+...+++.
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 456789999999999999999999999999999977655322247999988877764
No 139
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.37 E-value=0.0004 Score=81.22 Aligned_cols=96 Identities=22% Similarity=0.245 Sum_probs=85.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCC---CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~g---I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI 1353 (1433)
.-.|.||||.-..-.|-|++++.+.| +.++.++|...+.+|.+-++.|.. .+++.|| .+++++.||+++....||
T Consensus 504 ~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk-~dvkfli-ctdvaargldi~g~p~~i 581 (725)
T KOG0349|consen 504 AMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKK-FDVKFLI-CTDVAARGLDITGLPFMI 581 (725)
T ss_pred ccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhh-cCeEEEE-EehhhhccccccCCceEE
Confidence 56899999999999999999998874 467889999999999999999998 7788777 559999999999999999
Q ss_pred EEcCCCCcChHHHHHHhhhcc
Q 000542 1354 LLDLWWNPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1354 ~~Dp~WNPa~e~QAIGRahRI 1374 (1433)
++-++-.......||||+.|-
T Consensus 582 nvtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 582 NVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred EEecCcccchhhhhhhccchh
Confidence 999998888888888877763
No 140
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.36 E-value=0.0038 Score=77.87 Aligned_cols=114 Identities=22% Similarity=0.205 Sum_probs=70.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCc---------------------------------------EEecCCCCCHHHH
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ---------------------------------------YRRLDGTMSVFAR 1317 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~---------------------------------------~~ridGsms~~eR 1317 (1433)
...-|||||-...-.+.++..+....+. +..-+++.-+--+
T Consensus 382 ~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlK 461 (1041)
T KOG0948|consen 382 NYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILK 461 (1041)
T ss_pred cCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHH
Confidence 6688999997776666555544332111 1122344433344
Q ss_pred HHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec----CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1318 DKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD----LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1318 ~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~----~D----p~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+-+---|++ +=++||. .|...+-|||+.+-..|+- +| -|-.....+|.-|||+|-|-...=.|. ++...
T Consensus 462 E~IEILFqE-GLvKvLF-ATETFsiGLNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrGivI-lmiDe 538 (1041)
T KOG0948|consen 462 EVIEILFQE-GLVKVLF-ATETFSIGLNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRGIVI-LMIDE 538 (1041)
T ss_pred HHHHHHHhc-cHHHHHH-hhhhhhhccCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCceEE-EEecC
Confidence 444445666 6678887 5599999999997666554 22 244667788999999999975443332 34444
Q ss_pred CHHH
Q 000542 1390 TVED 1393 (1433)
Q Consensus 1390 TIEE 1393 (1433)
.+|.
T Consensus 539 km~~ 542 (1041)
T KOG0948|consen 539 KMEP 542 (1041)
T ss_pred cCCH
Confidence 4443
No 141
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=97.34 E-value=0.0052 Score=71.04 Aligned_cols=88 Identities=16% Similarity=0.189 Sum_probs=76.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
.+..-||||-...-.+.+...|+.+||..-.|+..+-+.+|.-+-+.|-. ++++|++.+ -+.|.|++-.....||+-.
T Consensus 316 ~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a-~eiqvivat-vafgmgidkpdvrfvihhs 393 (695)
T KOG0353|consen 316 AGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIA-GEIQVIVAT-VAFGMGIDKPDVRFVIHHS 393 (695)
T ss_pred CCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccc-cceEEEEEE-eeecccCCCCCeeEEEecc
Confidence 45666888888888899999999999999999999999999998888887 889999854 8899999999999999999
Q ss_pred CCCCcChHHH
Q 000542 1357 LWWNPTTEDQ 1366 (1433)
Q Consensus 1357 p~WNPa~e~Q 1366 (1433)
++-.-...-|
T Consensus 394 l~ksienyyq 403 (695)
T KOG0353|consen 394 LPKSIENYYQ 403 (695)
T ss_pred cchhHHHHHH
Confidence 8877666777
No 142
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=97.28 E-value=0.00056 Score=80.76 Aligned_cols=109 Identities=18% Similarity=0.195 Sum_probs=94.3
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeec--------------------
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSL-------------------- 1337 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~St-------------------- 1337 (1433)
..|+|||.+-.+..--|.-.|+..||+.+.+.|.++..-|..+|++||. +-+.++|+|-
T Consensus 268 ~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNk-G~YdivIAtD~s~~~~~~eee~kgk~~e~~ 346 (569)
T KOG0346|consen 268 RGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNK-GLYDIVIATDDSADGDKLEEEVKGKSDEKN 346 (569)
T ss_pred cCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhC-cceeEEEEccCccchhhhhccccccccccC
Confidence 4799999999999999999999999999999999999999999999998 7788888764
Q ss_pred ----c-c---------cccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000542 1338 ----K-A---------ASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1338 ----k-a---------Gg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kd 1389 (1433)
+ + .+.||+++..+.||++|.|-++...+.|+||..|-|.+-. +.-|+...
T Consensus 347 ~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~Gt--alSfv~P~ 410 (569)
T KOG0346|consen 347 PKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGT--ALSFVSPK 410 (569)
T ss_pred CCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCc--eEEEecch
Confidence 0 1 2469999999999999999999999999999999877664 33445443
No 143
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.27 E-value=0.048 Score=71.83 Aligned_cols=112 Identities=17% Similarity=0.208 Sum_probs=84.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--------c
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------A 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--------~ 1348 (1433)
.+.-|||-+.....-++|.+.|...||++-+++...- ++++.|-+=.- ..-.|-| +|.-+|.|-++. .
T Consensus 627 ~GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h--~~EAeIVA~AG-~~GaVTI-ATNMAGRGTDIkLg~~V~e~G 702 (1112)
T PRK12901 627 AGRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLH--QKEAEIVAEAG-QPGTVTI-ATNMAGRGTDIKLSPEVKAAG 702 (1112)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccch--hhHHHHHHhcC-CCCcEEE-eccCcCCCcCcccchhhHHcC
Confidence 6899999999999999999999999999999888743 44443332221 1234555 667788887765 5
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000542 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~ 1397 (1433)
.=|||.-+.+=+...+.|..||+.|.|..-....|- |+|+.+++
T Consensus 703 GL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~l-----SLEDdLmr 746 (1112)
T PRK12901 703 GLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFYV-----SLEDNLMR 746 (1112)
T ss_pred CCEEEEccCCCcHHHHHHHhcccccCCCCCcceEEE-----EcccHHHH
Confidence 679999999999999999999999999876544332 45555554
No 144
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=97.26 E-value=0.00052 Score=90.43 Aligned_cols=105 Identities=16% Similarity=0.160 Sum_probs=97.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
+.+-.||||....+.+.+...|+..|+....|+++|+..+|+.+-++|.. ++++|++++ =|.|-|+|-....-||+|.
T Consensus 484 ~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~-~~~~VivAT-VAFGMGIdK~DVR~ViH~~ 561 (941)
T KOG0351|consen 484 PDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMS-DKIRVIVAT-VAFGMGIDKPDVRFVIHYS 561 (941)
T ss_pred CCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhc-CCCeEEEEE-eeccCCCCCCceeEEEECC
Confidence 77899999999999999999999999999999999999999999999998 668888855 8999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAIGRahRIGQkr~V~Vy 1383 (1433)
+|=+-....|-+|||+|-|+....+.|
T Consensus 562 lPks~E~YYQE~GRAGRDG~~s~C~l~ 588 (941)
T KOG0351|consen 562 LPKSFEGYYQEAGRAGRDGLPSSCVLL 588 (941)
T ss_pred CchhHHHHHHhccccCcCCCcceeEEe
Confidence 999999999999999999998875554
No 145
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.22 E-value=0.0027 Score=83.41 Aligned_cols=37 Identities=16% Similarity=0.157 Sum_probs=30.5
Q ss_pred EEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCC
Q 000542 909 RVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQ 946 (1433)
Q Consensus 909 rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiq 946 (1433)
.||+||+|++... .+.+.++..|+..+.+.-|||--.
T Consensus 204 ivIiDEPh~~~~~-~k~~~~i~~lnpl~~lrysAT~~~ 240 (986)
T PRK15483 204 VVIIDEPHRFPRD-NKFYQAIEALKPQMIIRFGATFPD 240 (986)
T ss_pred EEEEECCCCCCcc-hHHHHHHHhcCcccEEEEeeecCC
Confidence 6999999999662 346788899999999999999643
No 146
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.15 E-value=0.01 Score=77.04 Aligned_cols=66 Identities=18% Similarity=0.194 Sum_probs=47.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCC-HHHHHHHHHHHhcCCCccEEEeeccccccccC
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMS-VFARDKAVKDFNTLPEVSVMIMSLKAASLGLN 1345 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms-~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLN 1345 (1433)
.+.-|||-+.....-+.|...|...||++..++.... .++-.++|.+ .- ..-.|-| +|..+|.|.+
T Consensus 423 ~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~-AG-~~G~VTI-ATNMAGRGTD 489 (870)
T CHL00122 423 TGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQ-AG-RKGSITI-ATNMAGRGTD 489 (870)
T ss_pred cCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHh-cC-CCCcEEE-eccccCCCcC
Confidence 6889999999999999999999999999999998742 2333445544 21 1223444 5677777744
No 147
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.13 E-value=0.0014 Score=79.49 Aligned_cols=106 Identities=22% Similarity=0.306 Sum_probs=82.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCc-EEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ-YRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~-~~ridGsms~~eR~~~I~~Fn~d-~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
+|+-++-||.- -+-.+...++++|.. .++|+|+.+++-|.+-...||+. +++.|||+| +|.|-||||. ..||||
T Consensus 357 ~GDCvV~FSkk--~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAs-DAIGMGLNL~-IrRiiF 432 (700)
T KOG0953|consen 357 PGDCVVAFSKK--DIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVAS-DAIGMGLNLN-IRRIIF 432 (700)
T ss_pred CCCeEEEeehh--hHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEee-cccccccccc-eeEEEE
Confidence 78899999864 344556667777666 99999999999999999999984 579999976 9999999995 578999
Q ss_pred EcCC-CC--------cChHHHHHHhhhccCCCCc-EEEEEEE
Q 000542 1355 LDLW-WN--------PTTEDQAIDRAHRIGQTRP-VSVLRLT 1386 (1433)
Q Consensus 1355 ~Dp~-WN--------Pa~e~QAIGRahRIGQkr~-V~VyrLi 1386 (1433)
+++. +| -....|--|||+|.|.+-+ =.|..|-
T Consensus 433 ~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl~ 474 (700)
T KOG0953|consen 433 YSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTLH 474 (700)
T ss_pred eecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEee
Confidence 8875 22 2245599999999987754 4444443
No 148
>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=97.11 E-value=0.0033 Score=65.39 Aligned_cols=43 Identities=16% Similarity=0.227 Sum_probs=24.7
Q ss_pred cccCccEEEEcCccccCChhhHHHHHH-Hhc-cc--CcEEEEEcccCC
Q 000542 903 AKVGWFRVVLDEAQSIKNHRTQVARAC-WGL-RA--KRRWCLSGTPIQ 946 (1433)
Q Consensus 903 ~~i~W~rVILDEAH~IKN~~T~~sral-~~L-~a--~~RwlLTGTPiq 946 (1433)
...+|++||+||+|.. ++.+...+.. ..+ .. ...+++||||--
T Consensus 92 ~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTATPPG 138 (148)
T PF07652_consen 92 RLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTATPPG 138 (148)
T ss_dssp CTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS-TT
T ss_pred cccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeCCCCC
Confidence 3457999999999974 4444444432 222 22 367999999953
No 149
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.11 E-value=0.00025 Score=76.62 Aligned_cols=52 Identities=38% Similarity=0.800 Sum_probs=42.2
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhcc---------------CCCCCCCccccccccccchh
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTA---------------DDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~---------------~~~~Cp~~~C~~~l~~~~~f 1166 (1433)
...|+||.+...++++++|||+||..||..|+.. ....|| .|+..+....++
T Consensus 18 ~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CP--vCR~~Is~~~Lv 84 (193)
T PLN03208 18 DFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCP--VCKSDVSEATLV 84 (193)
T ss_pred ccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCC--CCCCcCChhcEE
Confidence 4679999999999999999999999999998742 123566 599888766554
No 150
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.03 E-value=0.00029 Score=57.05 Aligned_cols=37 Identities=46% Similarity=1.051 Sum_probs=31.3
Q ss_pred ccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCC
Q 000542 1116 CGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1116 C~iC~~~~e~~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
|++|.+...++ ++++|||+||.+|+..++.. ...||.
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~ 38 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPV 38 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcC
Confidence 78999999999 68999999999999999988 677873
No 151
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=96.94 E-value=0.0004 Score=62.00 Aligned_cols=47 Identities=19% Similarity=0.300 Sum_probs=39.1
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
.|++|.+...+|++++|||+||..||.+++.. ...||. |+..+....
T Consensus 3 ~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~--~~~~~~~~~ 49 (63)
T smart00504 3 LCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPV--TGQPLTHED 49 (63)
T ss_pred CCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCC--CcCCCChhh
Confidence 69999999999999999999999999999977 567885 555554433
No 152
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.92 E-value=0.0041 Score=83.57 Aligned_cols=69 Identities=14% Similarity=0.160 Sum_probs=43.1
Q ss_pred HHHHHHHHH-hcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc-CC-CCcEEEEEEE
Q 000542 1316 ARDKAVKDF-NTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRI-GQ-TRPVSVLRLT 1386 (1433)
Q Consensus 1316 eR~~~I~~F-n~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRI-GQ-kr~V~VyrLi 1386 (1433)
.+.....+| ..+..+++||+. .-.=+|.+-+..+++++ |-+--.....||+.|+.|+ +. +..-.|+.|+
T Consensus 579 ~~~~~~~r~~~~~d~~kilIV~-dmlLTGFDaP~L~TmYv-DK~Lk~H~L~QAisRtNR~~~~~K~~G~IVDf~ 650 (962)
T COG0610 579 EKKDLIKRFKLKDDPLDLLIVV-DMLLTGFDAPCLNTLYV-DKPLKYHNLIQAISRTNRVFPGKKKFGLIVDFR 650 (962)
T ss_pred HHhhhhhhhcCcCCCCCEEEEE-ccccccCCccccceEEe-ccccccchHHHHHHHhccCCCCCCCCcEEEECc
Confidence 334444554 555667777776 44457777777777664 4446667778888888885 34 2334555444
No 153
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.91 E-value=0.00033 Score=88.23 Aligned_cols=48 Identities=35% Similarity=0.954 Sum_probs=42.5
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
.|+.|+..+.+.+++.|||+||.+|+...+....-+||. |...+....
T Consensus 645 kCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~--Cn~aFganD 692 (698)
T KOG0978|consen 645 KCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPK--CNAAFGAND 692 (698)
T ss_pred eCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCC--CCCCCCccc
Confidence 399999999999999999999999999999999999996 766665543
No 154
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.89 E-value=0.00041 Score=78.22 Aligned_cols=50 Identities=30% Similarity=0.789 Sum_probs=42.5
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f 1166 (1433)
..|.+|.+...+|-.|+|||+||-.||.+|...... || .|+..+..+.++
T Consensus 240 ~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~e-CP--lCR~~~~pskvi 289 (293)
T KOG0317|consen 240 RKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAE-CP--LCREKFQPSKVI 289 (293)
T ss_pred CceEEEecCCCCCCcCcCcchHHHHHHHHHHccccC-CC--cccccCCCccee
Confidence 569999999999999999999999999999876555 77 598887766543
No 155
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00042 Score=72.98 Aligned_cols=52 Identities=38% Similarity=0.885 Sum_probs=38.4
Q ss_pred hcccccCCCCCCCc--chhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000542 1112 SLAICGICNDPPED--AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~--~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f 1166 (1433)
....|++|.+..+. ++-+.|||+||.+||...+.. ..+||. |+..+....+|
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~-~~~CP~--C~kkIt~k~~~ 183 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN-TNKCPT--CRKKITHKQFH 183 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHh-CCCCCC--cccccchhhhe
Confidence 34679999998665 456999999999999988754 357886 66555544433
No 156
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.81 E-value=0.079 Score=69.16 Aligned_cols=64 Identities=22% Similarity=0.220 Sum_probs=45.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCC-CCHHHHHHHHHHHhcCCCccEEEeeccccccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGT-MSVFARDKAVKDFNTLPEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGs-ms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~G 1343 (1433)
.+.-|||-+.....-+.|...|...||++..++.. ...++-.++|.+=-. .-.|-| +|..+|.|
T Consensus 438 ~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~AG~--~GaVTI-ATNMAGRG 502 (939)
T PRK12902 438 QGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQAGR--KGAVTI-ATNMAGRG 502 (939)
T ss_pred CCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHhcCC--CCcEEE-eccCCCCC
Confidence 68899999999999999999999999999999987 333444445554211 123334 44555555
No 157
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=96.81 E-value=0.0007 Score=55.89 Aligned_cols=33 Identities=36% Similarity=0.765 Sum_probs=28.4
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCC
Q 000542 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADD 1148 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~ 1148 (1433)
|++|.+...+|+...|||.||..||..++....
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~ 33 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPS 33 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccC
Confidence 899999999999999999999999999986643
No 158
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.38 E-value=0.004 Score=73.51 Aligned_cols=99 Identities=19% Similarity=0.236 Sum_probs=90.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
.+..|||..-....+++...|+..|+....++|++.+..|..-+.+|+. ....+|+ .++.++.|++..--..||+||.
T Consensus 261 ~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~-~k~~~lv-vTdvaaRG~diplldnvinyd~ 338 (529)
T KOG0337|consen 261 DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRG-RKTSILV-VTDVAARGLDIPLLDNVINYDF 338 (529)
T ss_pred ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccC-CccceEE-EehhhhccCCCccccccccccC
Confidence 3578999999999999999999999999999999999999999999997 4455555 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCC
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr 1378 (1433)
+=.+.....|+||+.|-|.+-
T Consensus 339 p~~~klFvhRVgr~aragrtg 359 (529)
T KOG0337|consen 339 PPDDKLFVHRVGRVARAGRTG 359 (529)
T ss_pred CCCCceEEEEecchhhccccc
Confidence 999999999999999999764
No 159
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 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. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=96.37 E-value=0.0019 Score=52.64 Aligned_cols=37 Identities=43% Similarity=1.048 Sum_probs=32.6
Q ss_pred ccCCCCCCCcch-hcccCcccchhhhhhhhc-cCCCCCC
Q 000542 1116 CGICNDPPEDAV-VSICGHVFCNQCICERLT-ADDNQCP 1152 (1433)
Q Consensus 1116 C~iC~~~~e~~v-vt~CgH~fC~~Ci~e~l~-~~~~~Cp 1152 (1433)
|++|.+....++ +++|||.||..|+.+++. .....||
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP 39 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCP 39 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCC
Confidence 789999999988 899999999999999998 4555677
No 160
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.14 E-value=0.011 Score=69.78 Aligned_cols=103 Identities=15% Similarity=0.114 Sum_probs=92.7
Q ss_pred CeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000542 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~ 1358 (1433)
.--||||.-....+.+...|...||+...|+.+....+|..+.++|-+ +++.|+. .|-+.|-|++=.....||+.+++
T Consensus 256 GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~-~~~PvI~-AT~SFGMGVDKp~VRFViHW~~~ 333 (641)
T KOG0352|consen 256 GCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMN-NEIPVIA-ATVSFGMGVDKPDVRFVIHWSPS 333 (641)
T ss_pred cceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhc-CCCCEEE-EEeccccccCCcceeEEEecCch
Confidence 456899999999999999999999999999999999999999999998 6777777 45888999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEE
Q 000542 1359 WNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1359 WNPa~e~QAIGRahRIGQkr~V~Vy 1383 (1433)
=|-+..-|--||++|-|-..=.+.|
T Consensus 334 qn~AgYYQESGRAGRDGk~SyCRLY 358 (641)
T KOG0352|consen 334 QNLAGYYQESGRAGRDGKRSYCRLY 358 (641)
T ss_pred hhhHHHHHhccccccCCCccceeee
Confidence 9999999999999999976555554
No 161
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.11 E-value=0.028 Score=74.56 Aligned_cols=169 Identities=17% Similarity=0.154 Sum_probs=105.7
Q ss_pred CCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000542 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
+|..-..++|-++|++|++-+.+- .+.++|--.|-|||+.+-..|.....
T Consensus 111 ~~~~~~~F~LD~fQ~~a~~~Ler~-------esVlV~ApTssGKTvVaeyAi~~al~----------------------- 160 (1041)
T COG4581 111 PPAREYPFELDPFQQEAIAILERG-------ESVLVCAPTSSGKTVVAEYAIALALR----------------------- 160 (1041)
T ss_pred cHHHhCCCCcCHHHHHHHHHHhCC-------CcEEEEccCCCCcchHHHHHHHHHHH-----------------------
Confidence 344446678999999999988733 55799999999999998655543110
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 000542 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLSVLVYHGSSR 816 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r 816 (1433)
...++.-..|- +|..|=-+++...|..- .-.|-++.|+..
T Consensus 161 --------------------------------------~~qrviYTsPIKALsNQKyrdl~~~fgdv-~~~vGL~TGDv~ 201 (1041)
T COG4581 161 --------------------------------------DGQRVIYTSPIKALSNQKYRDLLAKFGDV-ADMVGLMTGDVS 201 (1041)
T ss_pred --------------------------------------cCCceEeccchhhhhhhHHHHHHHHhhhh-hhhccceeccee
Confidence 01126777785 46688888887776521 123456666554
Q ss_pred CCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccc
Q 000542 817 TKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLD 896 (1433)
Q Consensus 817 ~k~~~~l~~~DIVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d 896 (1433)
.. ..+.+++.|-++|++-+.. ..
T Consensus 202 IN-----~~A~clvMTTEILRnMlyr----------------g~------------------------------------ 224 (1041)
T COG4581 202 IN-----PDAPCLVMTTEILRNMLYR----------------GS------------------------------------ 224 (1041)
T ss_pred eC-----CCCceEEeeHHHHHHHhcc----------------Cc------------------------------------
Confidence 33 3566888888999764321 00
Q ss_pred cccCCccccCccEEEEcCccccCChh-hHHHHHH-Hhc-ccCcEEEEEcccCCCChHHHHhhhhcc
Q 000542 897 IVAGPLAKVGWFRVVLDEAQSIKNHR-TQVARAC-WGL-RAKRRWCLSGTPIQNAIDDLYSYFRFL 959 (1433)
Q Consensus 897 ~~~~pL~~i~W~rVILDEAH~IKN~~-T~~sral-~~L-~a~~RwlLTGTPiqN~l~DLyslL~FL 959 (1433)
..+..+. .||+||.|+|.... .-.+..+ ..| +.-+-++||||= . +..|+..++.-+
T Consensus 225 ---~~~~~i~--~ViFDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv-~-N~~EF~~Wi~~~ 283 (1041)
T COG4581 225 ---ESLRDIE--WVVFDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATV-P-NAEEFAEWIQRV 283 (1041)
T ss_pred ---ccccccc--eEEEEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC-C-CHHHHHHHHHhc
Confidence 1133333 49999999997643 3334333 333 344789999993 2 345555555443
No 162
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.10 E-value=0.0021 Score=53.26 Aligned_cols=36 Identities=36% Similarity=0.923 Sum_probs=21.0
Q ss_pred ccCCCCCCCc----chhcccCcccchhhhhhhhccC---CCCCC
Q 000542 1116 CGICNDPPED----AVVSICGHVFCNQCICERLTAD---DNQCP 1152 (1433)
Q Consensus 1116 C~iC~~~~e~----~vvt~CgH~fC~~Ci~e~l~~~---~~~Cp 1152 (1433)
|++|.+ ..+ |++.+|||+||.+|+..+.... ..+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 788887 544 7888899999999999988643 33554
No 163
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.04 E-value=0.0042 Score=53.14 Aligned_cols=44 Identities=36% Similarity=0.961 Sum_probs=36.6
Q ss_pred ccccCCCCCCCcchhcccCcc-cchhhhhhhhccCCCCCCCccccccc
Q 000542 1114 AICGICNDPPEDAVVSICGHV-FCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~-fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
..|.+|.+.+.+.++.+|||. ||..|+..++. ....||. |+..+
T Consensus 3 ~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~--Cr~~i 47 (50)
T PF13920_consen 3 EECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPI--CRQPI 47 (50)
T ss_dssp SB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTT--TTBB-
T ss_pred CCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCc--CChhh
Confidence 469999999999999999999 99999999987 6667884 77654
No 164
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.00 E-value=0.12 Score=57.21 Aligned_cols=38 Identities=26% Similarity=0.396 Sum_probs=27.1
Q ss_pred CchHHHHHHHHHHHhhccCCCCCC-cEEEccCCCChHHHHHHHHHH
Q 000542 667 LLRHQRIALSWMVQKETSSLHCSG-GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~G-GILADEMGLGKTl~aIALI~~ 711 (1433)
|-+.|+.|+.-++.. .+ .++.-..|.|||-+..+++..
T Consensus 2 ln~~Q~~Ai~~~~~~-------~~~~~i~GpPGTGKT~~l~~~i~~ 40 (236)
T PF13086_consen 2 LNESQREAIQSALSS-------NGITLIQGPPGTGKTTTLASIIAQ 40 (236)
T ss_dssp --HHHHHHHHHHCTS-------SE-EEEE-STTSSHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHcC-------CCCEEEECCCCCChHHHHHHHHHH
Confidence 678999999877743 33 677788899999777676655
No 165
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.90 E-value=0.0041 Score=75.31 Aligned_cols=53 Identities=30% Similarity=0.758 Sum_probs=41.4
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccC--CCCCCCccccccccccch
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTAD--DNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~--~~~Cp~~~C~~~l~~~~~ 1165 (1433)
...|+||..++.-|+.|.|||+||..||..++... ..-|.++-|...+....+
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl 240 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDL 240 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccce
Confidence 57899999999999999999999999999987554 233444568776665433
No 166
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.83 E-value=0.0045 Score=74.60 Aligned_cols=48 Identities=33% Similarity=0.710 Sum_probs=39.9
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccccc
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~ 1163 (1433)
...|++|.+....|++++|||.||..||..++... ..|| .|+..+...
T Consensus 26 ~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~-~~CP--~Cr~~~~~~ 73 (397)
T TIGR00599 26 SLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ-PKCP--LCRAEDQES 73 (397)
T ss_pred ccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC-CCCC--CCCCccccc
Confidence 35799999999999999999999999999998663 4687 487766543
No 167
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=95.70 E-value=0.0064 Score=47.77 Aligned_cols=37 Identities=46% Similarity=1.053 Sum_probs=31.8
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCC
Q 000542 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCP 1152 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp 1152 (1433)
|++|.+....+++++|+|.||..|+..++......||
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP 37 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCP 37 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCC
Confidence 7889988888889999999999999999875556676
No 168
>PHA02929 N1R/p28-like protein; Provisional
Probab=95.66 E-value=0.01 Score=66.94 Aligned_cols=46 Identities=35% Similarity=0.770 Sum_probs=35.7
Q ss_pred cccccCCCCCCCc--------chhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1113 LAICGICNDPPED--------AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~--------~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
...|++|.+...+ +++++|+|.||..||.+|+.. ...||. |+..+.
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPl--CR~~~~ 227 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPV--CRTPFI 227 (238)
T ss_pred CCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCC--CCCEee
Confidence 3679999987443 357899999999999999864 567885 886653
No 169
>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=95.19 E-value=0.11 Score=69.79 Aligned_cols=101 Identities=21% Similarity=0.247 Sum_probs=72.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHh----CCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc--C
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKD----SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA--C 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~----~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~A--n 1350 (1433)
.+.++|||.....+++.+...|.. .++.... .... ..|.+++++|+. ++..||| .+....+|+++..- .
T Consensus 673 ~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~l~--q~~~-~~r~~ll~~F~~-~~~~iLl-gt~sf~EGVD~~g~~l~ 747 (850)
T TIGR01407 673 TSPKILVLFTSYEMLHMVYDMLNELPEFEGYEVLA--QGIN-GSRAKIKKRFNN-GEKAILL-GTSSFWEGVDFPGNGLV 747 (850)
T ss_pred cCCCEEEEeCCHHHHHHHHHHHhhhccccCceEEe--cCCC-ccHHHHHHHHHh-CCCeEEE-EcceeecccccCCCceE
Confidence 456899999999999999999875 3444332 3332 578999999997 5556676 56999999999854 4
Q ss_pred EEEEEcCCC-CcC-----------------------------hHHHHHHhhhccCCCCcEEE
Q 000542 1351 HVLLLDLWW-NPT-----------------------------TEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1351 ~VI~~Dp~W-NPa-----------------------------~e~QAIGRahRIGQkr~V~V 1382 (1433)
.||+.-+|+ +|. ...|++||+.|-.+.+-|.+
T Consensus 748 ~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ 809 (850)
T TIGR01407 748 CLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIV 809 (850)
T ss_pred EEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEE
Confidence 566666554 332 23499999999887776533
No 170
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.04 E-value=0.01 Score=66.52 Aligned_cols=49 Identities=29% Similarity=0.698 Sum_probs=38.8
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccC-CCCCCCccccccccccc
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTAD-DNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~-~~~Cp~~~C~~~l~~~~ 1164 (1433)
..|.+|.+.++.+..++|||+||.-||...++.. -..||. |+....+..
T Consensus 216 ~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~Cpl--CRak~~pk~ 265 (271)
T COG5574 216 YKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPL--CRAKVYPKK 265 (271)
T ss_pred cceeeeecccCCcccccccchhhHHHHHHHHHhhccccCch--hhhhccchh
Confidence 4699999999999999999999999999955444 445884 776554443
No 171
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=94.95 E-value=0.012 Score=54.46 Aligned_cols=40 Identities=23% Similarity=0.365 Sum_probs=34.5
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCC
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
..|++|.+.+.+||+++|||+|++.||..++......||.
T Consensus 5 f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~ 44 (73)
T PF04564_consen 5 FLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPF 44 (73)
T ss_dssp GB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TT
T ss_pred cCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCC
Confidence 5799999999999999999999999999999987888885
No 172
>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=94.68 E-value=0.02 Score=46.63 Aligned_cols=39 Identities=41% Similarity=0.921 Sum_probs=31.0
Q ss_pred cccCCCCCCCcch-hcccCcccchhhhhhhhccCCCCCCC
Q 000542 1115 ICGICNDPPEDAV-VSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1115 ~C~iC~~~~e~~v-vt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
.|.+|.+....++ +.+|+|.||..|+..++......||.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~ 40 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPL 40 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCC
Confidence 3889998875554 45599999999999998876667874
No 173
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=94.50 E-value=0.098 Score=65.20 Aligned_cols=81 Identities=23% Similarity=0.388 Sum_probs=59.2
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccc
Q 000542 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLD 745 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~ 745 (1433)
+|-.-|..||.-.+++.- .||--..|.|||++.-+++.. ...
T Consensus 410 kLN~SQ~~AV~~VL~rpl-------sLIQGPPGTGKTvtsa~IVyh-l~~------------------------------ 451 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQRPL-------SLIQGPPGTGKTVTSATIVYH-LAR------------------------------ 451 (935)
T ss_pred hhchHHHHHHHHHHcCCc-------eeeecCCCCCceehhHHHHHH-HHH------------------------------
Confidence 477799999999998744 477778999999988554432 110
Q ss_pred ccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhh-HHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 000542 746 LVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSV-LRQWAEELRNKVTSKGSLSVLVYHGSSRTK 818 (1433)
Q Consensus 746 ~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SL-L~QW~~EI~k~~~~~~~L~VlvyhG~~r~k 818 (1433)
+-.+++||++|..+ +.|-++-|++- .|+|+..-...|..
T Consensus 452 -----------------------------~~~~~VLvcApSNiAVDqLaeKIh~t-----gLKVvRl~aksRE~ 491 (935)
T KOG1802|consen 452 -----------------------------QHAGPVLVCAPSNIAVDQLAEKIHKT-----GLKVVRLCAKSRED 491 (935)
T ss_pred -----------------------------hcCCceEEEcccchhHHHHHHHHHhc-----CceEeeeehhhhhh
Confidence 12357999999985 79999999753 48888877665543
No 174
>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=94.41 E-value=0.023 Score=47.23 Aligned_cols=38 Identities=45% Similarity=0.846 Sum_probs=29.9
Q ss_pred cccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCC
Q 000542 1115 ICGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1115 ~C~iC~~~~---e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
.|+||.+.. +..+.++|+|+||..|+.+|+... ..||.
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~ 42 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPV 42 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TT
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCc
Confidence 589998865 345677899999999999999774 57874
No 175
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=94.39 E-value=0.025 Score=47.17 Aligned_cols=37 Identities=30% Similarity=0.891 Sum_probs=29.7
Q ss_pred ccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCC
Q 000542 1116 CGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1116 C~iC~~~~---e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
|++|.... ..++++.|||+||..|+.... .....||.
T Consensus 2 C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~ 41 (44)
T PF14634_consen 2 CNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPI 41 (44)
T ss_pred CcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcC
Confidence 77887765 347899999999999999988 55567774
No 176
>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=94.38 E-value=0.22 Score=64.12 Aligned_cols=81 Identities=11% Similarity=0.142 Sum_probs=54.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcE-EecCCCCCHHHHHHHHHHHhcC---CCccEEEeeccccccccCc------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQY-RRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSLKAASLGLNM------ 1346 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~-~ridGsms~~eR~~~I~~Fn~d---~~v~VLL~StkaGg~GLNL------ 1346 (1433)
.|.-.|.|+.+..| ..+...|+.. +++ +.+.|..+ .|.+++++|+.. +.-.||+ .+.+..+|+++
T Consensus 470 ~G~~lvLfTS~~~~-~~~~~~l~~~-l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~-gt~sfweGvDv~~~~~~ 544 (636)
T TIGR03117 470 QGGTLVLTTAFSHI-SAIGQLVELG-IPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLI-AAGGAWTGIDLTHKPVS 544 (636)
T ss_pred CCCEEEEechHHHH-HHHHHHHHhh-cCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEE-eCCccccccccCCccCC
Confidence 55666677776554 5555566542 323 44556432 568899999985 3345555 67999999999
Q ss_pred ----cccCEEEEEcCCCCcC
Q 000542 1347 ----VAACHVLLLDLWWNPT 1362 (1433)
Q Consensus 1347 ----q~An~VI~~Dp~WNPa 1362 (1433)
...+.||+.-+|+-|.
T Consensus 545 p~~G~~Ls~ViI~kLPF~~~ 564 (636)
T TIGR03117 545 PDKDNLLTDLIITCAPFGLN 564 (636)
T ss_pred CCCCCcccEEEEEeCCCCcC
Confidence 3578889988887764
No 177
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.34 E-value=0.028 Score=65.33 Aligned_cols=49 Identities=27% Similarity=0.738 Sum_probs=37.5
Q ss_pred ccccCCCCC----CCc-chhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1114 AICGICNDP----PED-AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~----~e~-~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
..|++|... +.. .++..|||.||..|+...+......|| .|+..+....
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP--~C~~~lrk~~ 57 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCP--ECDTPLRKNN 57 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCC--CCCCccchhh
Confidence 469999863 221 244589999999999999877777888 7988877655
No 178
>PHA02926 zinc finger-like protein; Provisional
Probab=94.32 E-value=0.024 Score=62.21 Aligned_cols=47 Identities=30% Similarity=0.786 Sum_probs=35.1
Q ss_pred cccccCCCCCC------C---cchhcccCcccchhhhhhhhccC-----CCCCCCcccccccc
Q 000542 1113 LAICGICNDPP------E---DAVVSICGHVFCNQCICERLTAD-----DNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~------e---~~vvt~CgH~fC~~Ci~e~l~~~-----~~~Cp~~~C~~~l~ 1161 (1433)
...|++|.+.. . ..++.+|+|.||..||..|.... ...||. |+..+.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPi--CR~~f~ 230 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPI--CRTRFR 230 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCC--Ccceee
Confidence 46799999753 1 24788999999999999998653 235884 876653
No 179
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=94.28 E-value=1 Score=58.92 Aligned_cols=96 Identities=21% Similarity=0.206 Sum_probs=71.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccC------
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAAC------ 1350 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An------ 1350 (1433)
.+..|||-+-....-+++...|.+.||+..+++..-. .|++-+-.+.-. ...|-| +|.-+|.|-++.-..
T Consensus 428 ~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~AG~-~gaVTi-ATNMAGRGTDIkLg~~~~~V~ 503 (822)
T COG0653 428 KGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQAGQ-PGAVTI-ATNMAGRGTDIKLGGNPEFVM 503 (822)
T ss_pred cCCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhhcCC-CCcccc-ccccccCCcccccCCCHHHHH
Confidence 6899999999999999999999999999988888754 566555555532 233455 667888888877332
Q ss_pred -----EEEEEcCCCCcChHHHHHHhhhccCC
Q 000542 1351 -----HVLLLDLWWNPTTEDQAIDRAHRIGQ 1376 (1433)
Q Consensus 1351 -----~VI~~Dp~WNPa~e~QAIGRahRIGQ 1376 (1433)
+||=-+-.=+-....|--||++|.|-
T Consensus 504 ~lGGL~VIgTERhESRRIDnQLRGRsGRQGD 534 (822)
T COG0653 504 ELGGLHVIGTERHESRRIDNQLRGRAGRQGD 534 (822)
T ss_pred HhCCcEEEecccchhhHHHHHhhcccccCCC
Confidence 45555655555555688889999993
No 180
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.72 E-value=0.14 Score=65.72 Aligned_cols=35 Identities=17% Similarity=0.068 Sum_probs=30.1
Q ss_pred EEEEcCccccCChhhHHHHHHHhcccCcEEEEEccc
Q 000542 909 RVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTP 944 (1433)
Q Consensus 909 rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTP 944 (1433)
.||+||-|++... .+.+.++..|++...+=..||-
T Consensus 208 IvIvDEPh~f~~~-~k~~~~i~~l~pl~ilRfgATf 242 (985)
T COG3587 208 IVIVDEPHRFLGD-DKTYGAIKQLNPLLILRFGATF 242 (985)
T ss_pred EEEecChhhcccc-hHHHHHHHhhCceEEEEecccc
Confidence 5999999999875 7889999999888877778873
No 181
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=93.68 E-value=0.031 Score=49.33 Aligned_cols=45 Identities=33% Similarity=0.667 Sum_probs=32.0
Q ss_pred cccccCCCCCCCcchhc-ccCcccchhhhhhhh-ccCCCCCCCcccc
Q 000542 1113 LAICGICNDPPEDAVVS-ICGHVFCNQCICERL-TADDNQCPTRNCK 1157 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt-~CgH~fC~~Ci~e~l-~~~~~~Cp~~~C~ 1157 (1433)
...|++...+..+||.+ .|+|+|..+.|.+++ .....+||.++|.
T Consensus 11 ~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~GC~ 57 (57)
T PF11789_consen 11 SLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVAGCN 57 (57)
T ss_dssp -SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCCC-S
T ss_pred ccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCCCCC
Confidence 36799999999999986 899999999999999 3355689998884
No 182
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=93.19 E-value=0.024 Score=64.95 Aligned_cols=45 Identities=36% Similarity=0.835 Sum_probs=36.7
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
-.|.||.+-..-|++++|+|.||.-||..++... ..||. |...+.
T Consensus 24 LRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~-p~CP~--C~~~~~ 68 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYK-PQCPT--CCVTVT 68 (442)
T ss_pred HHHhHHHHHhcCceeccccchHHHHHHHHHhccC-CCCCc--eecccc
Confidence 3599999998899999999999999999998654 46875 655443
No 183
>PRK10536 hypothetical protein; Provisional
Probab=93.19 E-value=0.44 Score=54.73 Aligned_cols=39 Identities=26% Similarity=0.194 Sum_probs=32.0
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCC
Q 000542 908 FRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNA 948 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~ 948 (1433)
..|||||||++.- .+....+.++....+++++|-|-|..
T Consensus 178 ~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 178 AVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCD 216 (262)
T ss_pred CEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhcc
Confidence 5799999999954 45556677888999999999998765
No 184
>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=93.15 E-value=0.24 Score=55.21 Aligned_cols=43 Identities=16% Similarity=0.223 Sum_probs=22.4
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChH
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAID 950 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~l~ 950 (1433)
.+..||+||||++.. ......+.++....++.++|=|.|....
T Consensus 119 ~~~~iIvDEaQN~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~~ 161 (205)
T PF02562_consen 119 DNAFIIVDEAQNLTP--EELKMILTRIGEGSKIIITGDPSQIDLP 161 (205)
T ss_dssp -SEEEEE-SGGG--H--HHHHHHHTTB-TT-EEEEEE--------
T ss_pred cceEEEEecccCCCH--HHHHHHHcccCCCcEEEEecCceeecCC
Confidence 347899999999853 3444456677888999999999886543
No 185
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=92.58 E-value=0.088 Score=47.14 Aligned_cols=43 Identities=33% Similarity=0.833 Sum_probs=22.8
Q ss_pred ccccCCCCCCCcch-hcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1114 AICGICNDPPEDAV-VSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~v-vt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
-.|+.|.+....|| +..|.|+||..||...+... || +|.++..
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~---CP--vC~~Paw 51 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSE---CP--VCHTPAW 51 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB----S--SS--B-S
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCC---CC--CcCChHH
Confidence 46999999999997 68999999999998877643 66 3665543
No 186
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=92.44 E-value=0.058 Score=60.75 Aligned_cols=38 Identities=34% Similarity=0.785 Sum_probs=33.1
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCC
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCP 1152 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp 1152 (1433)
..|.||.+-..-|++|+|||.||.-||..++....+ ||
T Consensus 26 lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~-CP 63 (391)
T COG5432 26 LRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPF-CP 63 (391)
T ss_pred HHhhhhhheeecceecccccchhHHHHHHHhcCCCC-Cc
Confidence 469999999999999999999999999999976543 44
No 187
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=92.38 E-value=0.53 Score=50.68 Aligned_cols=99 Identities=21% Similarity=0.244 Sum_probs=63.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCC----CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecc--ccccccCcc--c
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSS----IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLK--AASLGLNMV--A 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~g----I~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~Stk--aGg~GLNLq--~ 1348 (1433)
.+.++|||...-..++.+...|+... +....- + ..++.+++++|..+. -.||+ ++. ...+|+|+. .
T Consensus 8 ~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q-~---~~~~~~~l~~~~~~~-~~il~-~v~~g~~~EGiD~~~~~ 81 (167)
T PF13307_consen 8 VPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ-G---SKSRDELLEEFKRGE-GAILL-AVAGGSFSEGIDFPGDL 81 (167)
T ss_dssp CSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES-T---CCHHHHHHHHHCCSS-SEEEE-EETTSCCGSSS--ECES
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec-C---cchHHHHHHHHHhcc-CeEEE-EEecccEEEeecCCCch
Confidence 56899999999999999999998763 443333 2 357899999999843 33444 555 789999998 4
Q ss_pred cCEEEEEcCCC-CcC-----------------------------hHHHHHHhhhccCCCCcEE
Q 000542 1349 ACHVLLLDLWW-NPT-----------------------------TEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1349 An~VI~~Dp~W-NPa-----------------------------~e~QAIGRahRIGQkr~V~ 1381 (1433)
+..||+.-+|+ +|. ...||+||+.|-.+.+-+.
T Consensus 82 ~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i 144 (167)
T PF13307_consen 82 LRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVI 144 (167)
T ss_dssp EEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEE
T ss_pred hheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEE
Confidence 66788887776 442 1239999999966654433
No 188
>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=91.34 E-value=0.57 Score=63.14 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=28.0
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI 709 (1433)
...+++|.+.+..+.+..... +-+++--.+|.|||+..|.-+
T Consensus 244 ~~~r~~Q~~~~~~i~~~~~~~---~~~~~eA~TG~GKT~ayLlp~ 285 (850)
T TIGR01407 244 LEYRPEQLKLAELVLDQLTHS---EKSLIEAPTGTGKTLGYLLPA 285 (850)
T ss_pred CccCHHHHHHHHHHHHHhccC---CcEEEECCCCCchhHHHHHHH
Confidence 457899998777665543321 234555699999998775443
No 189
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.07 E-value=0.96 Score=59.21 Aligned_cols=102 Identities=21% Similarity=0.212 Sum_probs=75.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCc-EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ-YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~-~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--~An~VI 1353 (1433)
.+.++|||...-.++..+...|...... .+...|.. .+.+.++.|...++. -+++.+....+|+|+. ....||
T Consensus 478 ~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~---~~~~~l~~f~~~~~~-~~lv~~gsf~EGVD~~g~~l~~vv 553 (654)
T COG1199 478 SPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGED---EREELLEKFKASGEG-LILVGGGSFWEGVDFPGDALRLVV 553 (654)
T ss_pred cCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCC---cHHHHHHHHHHhcCC-eEEEeeccccCcccCCCCCeeEEE
Confidence 4558999999999999999999887663 44555554 456999999986554 4555679999999998 457788
Q ss_pred EEcCCCC-cC-----------------------------hHHHHHHhhhccCCCCcEEE
Q 000542 1354 LLDLWWN-PT-----------------------------TEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1354 ~~Dp~WN-Pa-----------------------------~e~QAIGRahRIGQkr~V~V 1382 (1433)
+.-.||= |. ...||+||+.|--+.+-|.|
T Consensus 554 I~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv 612 (654)
T COG1199 554 IVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV 612 (654)
T ss_pred EEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE
Confidence 8877773 43 23499999999555555554
No 190
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.73 E-value=0.17 Score=58.00 Aligned_cols=56 Identities=25% Similarity=0.505 Sum_probs=47.7
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhh
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKAT 1170 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~ 1170 (1433)
..+|.||...+..|+...|+|.||..||......+...|+ .|+..+..+-++.+..
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~Ca--vCR~pids~i~~~psl 62 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCA--VCRFPIDSTIDFEPSL 62 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCc--eecCCCCcchhcchhh
Confidence 4789999999999999999999999999999988888888 5998887766665443
No 191
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=90.54 E-value=1.1 Score=58.19 Aligned_cols=43 Identities=19% Similarity=0.241 Sum_probs=32.2
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
.+|+-|+.-...++....... .|+|-...|.|||+..|+-.++
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~q---~~llESPTGTGKSLsLLCS~LA 63 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRKQ---NGLLESPTGTGKSLSLLCSTLA 63 (945)
T ss_pred CcchHHHHHHHHHHHHHHHhh---hhhccCCCCCCccHHHHHHHHH
Confidence 468889887777776655443 3899999999999987755543
No 192
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=90.40 E-value=1.2 Score=46.75 Aligned_cols=71 Identities=14% Similarity=0.170 Sum_probs=44.4
Q ss_pred HHHHHHHHHHhCCC-------cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEEEcCCC-
Q 000542 1290 MLDLLEASLKDSSI-------QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLLLDLWW- 1359 (1433)
Q Consensus 1290 ~LdlLe~~L~~~gI-------~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--~An~VI~~Dp~W- 1359 (1433)
.++.+...++..++ ..+.+-| ....+..++++.|....+-.||+ ++...++|+|+. .+..||+.-+|+
T Consensus 3 ~m~~v~~~~~~~~~~~~l~~~~~i~~e~-~~~~~~~~~l~~f~~~~~~~iL~-~~~~~~EGiD~~g~~~r~vii~glPfp 80 (141)
T smart00492 3 YMESFVQYWKENGILENINKNLLLLVQG-EDGKETGKLLEKYVEACENAILL-ATARFSEGVDFPGDYLRAVIIDGLPFP 80 (141)
T ss_pred HHHHHHHHHHHcCchhhHhcCCeEEEeC-CChhHHHHHHHHHHHcCCCEEEE-EccceecceecCCCCeeEEEEEecCCC
Confidence 34555555555543 3344444 44456899999999754334555 556699999998 356677777554
Q ss_pred CcC
Q 000542 1360 NPT 1362 (1433)
Q Consensus 1360 NPa 1362 (1433)
||.
T Consensus 81 ~~~ 83 (141)
T smart00492 81 YPD 83 (141)
T ss_pred CCC
Confidence 444
No 193
>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=89.98 E-value=3.7 Score=53.59 Aligned_cols=41 Identities=24% Similarity=0.282 Sum_probs=30.9
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
..|-+.|+.||.+.+... .-.|+--..|.|||.++.+++..
T Consensus 156 ~~ln~~Q~~Av~~~l~~~------~~~lI~GpPGTGKT~t~~~ii~~ 196 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSK------DLFLIHGPPGTGKTRTLVELIRQ 196 (637)
T ss_pred CCCCHHHHHHHHHHhcCC------CeEEEEcCCCCCHHHHHHHHHHH
Confidence 457889999999887431 12466677899999988888754
No 194
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=89.72 E-value=0.19 Score=58.82 Aligned_cols=48 Identities=27% Similarity=0.874 Sum_probs=40.8
Q ss_pred hhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccC-CCCCCCccc
Q 000542 1109 LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTAD-DNQCPTRNC 1156 (1433)
Q Consensus 1109 le~~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~-~~~Cp~~~C 1156 (1433)
+.++...|.||.+...+.-+.+|||++|..|+..|-..+ ...||.-.|
T Consensus 365 MgsTFeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRc 413 (563)
T KOG1785|consen 365 MGSTFELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRC 413 (563)
T ss_pred ccchHHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceee
Confidence 455667899999999999999999999999999998766 678996444
No 195
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=89.69 E-value=1.7 Score=59.24 Aligned_cols=104 Identities=17% Similarity=0.206 Sum_probs=70.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCC--cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc--cCEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI--QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA--ACHV 1352 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI--~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~--An~V 1352 (1433)
.+.+++||.....++..+...|..... .+..+.-+++...|.+++++|+. .+-.||+ .+.+..+|+++.. ...|
T Consensus 751 ~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~-~~~~iLl-G~~sFwEGVD~pg~~l~~v 828 (928)
T PRK08074 751 TKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQ-FDKAILL-GTSSFWEGIDIPGDELSCL 828 (928)
T ss_pred CCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHh-cCCeEEE-ecCcccCccccCCCceEEE
Confidence 345777777777888888888875422 12223223333468999999997 3344666 5688899999984 4788
Q ss_pred EEEcCCC-CcCh-----------------------------HHHHHHhhhccCCCCcEEE
Q 000542 1353 LLLDLWW-NPTT-----------------------------EDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1353 I~~Dp~W-NPa~-----------------------------e~QAIGRahRIGQkr~V~V 1382 (1433)
|+.-+|+ +|.. ..|++||+.|-.+.+-|.|
T Consensus 829 iI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ 888 (928)
T PRK08074 829 VIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVF 888 (928)
T ss_pred EEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEE
Confidence 8888777 5541 1489999999887776533
No 196
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.60 E-value=0.046 Score=63.56 Aligned_cols=47 Identities=36% Similarity=0.834 Sum_probs=39.1
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000542 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~ 1162 (1433)
..|++|.+.......+ -|+|-||.+||...+....+.||. |++.+..
T Consensus 44 v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecpt--cRk~l~S 91 (381)
T KOG0311|consen 44 VICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPT--CRKKLVS 91 (381)
T ss_pred hccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCch--HHhhccc
Confidence 5799999877766554 599999999999999999999996 8776543
No 197
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.43 E-value=0.13 Score=44.25 Aligned_cols=46 Identities=33% Similarity=0.747 Sum_probs=40.1
Q ss_pred cccccCCCCCCCcchhcccCc-ccchhhhhhhhccCCCCCCCccccccc
Q 000542 1113 LAICGICNDPPEDAVVSICGH-VFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH-~fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
.+.|.||.+.|.+.|+-.||| -.|.+|-.+.++.....||. |+..+
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPi--CRapi 53 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPI--CRAPI 53 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcc--hhhHH
Confidence 478999999999999999999 68999999999888889994 66544
No 198
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=89.31 E-value=0.11 Score=57.03 Aligned_cols=51 Identities=22% Similarity=0.573 Sum_probs=40.8
Q ss_pred ccccCCCCC-----CCcchhcc-cCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1114 AICGICNDP-----PEDAVVSI-CGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~-----~e~~vvt~-CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
..|++|... ....++.| |.|-.|..|+....+....+||.++|...|....
T Consensus 11 ~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~k 67 (314)
T COG5220 11 RRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIK 67 (314)
T ss_pred ccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhc
Confidence 369999642 22234566 9999999999999999999999999988876543
No 199
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=89.18 E-value=2.3 Score=57.07 Aligned_cols=100 Identities=18% Similarity=0.144 Sum_probs=68.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--~An~VI~ 1354 (1433)
.+.+++|+.....+++.+...|....++. ...|... .|.+++++|+. ++-.||+ .+....+|+++. .+..||+
T Consensus 646 ~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~-~~~~vLl-G~~sFwEGVD~p~~~~~~viI 720 (820)
T PRK07246 646 LQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDR-GEQQILL-GLGSFWEGVDFVQADRMIEVI 720 (820)
T ss_pred cCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHc-CCCeEEE-ecchhhCCCCCCCCCeEEEEE
Confidence 44677777777788888888887655444 5555322 35779999997 4445666 558899999996 4556677
Q ss_pred EcCC-CCcCh-----------------------------HHHHHHhhhccCCCCcEE
Q 000542 1355 LDLW-WNPTT-----------------------------EDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1355 ~Dp~-WNPa~-----------------------------e~QAIGRahRIGQkr~V~ 1381 (1433)
.-+| .+|.. ..|++||+.|--..+-|.
T Consensus 721 ~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv 777 (820)
T PRK07246 721 TRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAV 777 (820)
T ss_pred ecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEE
Confidence 6644 34521 239999999966666553
No 200
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.61 E-value=0.26 Score=55.82 Aligned_cols=47 Identities=30% Similarity=0.762 Sum_probs=36.6
Q ss_pred hhcccccCCCCCCCcch-hcccCcccchhhhhhhhcc-CCCCCCCcccccc
Q 000542 1111 ASLAICGICNDPPEDAV-VSICGHVFCNQCICERLTA-DDNQCPTRNCKIR 1159 (1433)
Q Consensus 1111 ~~~~~C~iC~~~~e~~v-vt~CgH~fC~~Ci~e~l~~-~~~~Cp~~~C~~~ 1159 (1433)
++...|++|.++|..|. +.+|+|++|.-||...... ....||. |...
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~--Cg~~ 285 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPL--CGEN 285 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCc--cCCC
Confidence 34578999999999885 5679999999999987654 4668884 5533
No 201
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=88.46 E-value=0.21 Score=56.53 Aligned_cols=43 Identities=35% Similarity=0.890 Sum_probs=37.3
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCccccc
Q 000542 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCKI 1158 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~ 1158 (1433)
-.|+.|......++-+ .|+|.||.+||...|...+..|| +|..
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~Cp--nC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCP--NCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCC--Cccc
Confidence 3599999988888887 69999999999999999999999 4653
No 202
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=88.39 E-value=4 Score=45.15 Aligned_cols=39 Identities=26% Similarity=0.259 Sum_probs=24.6
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhcc-cCcEEEEEcccCCC
Q 000542 907 WFRVVLDEAQSIKNHRTQVARACWGLR-AKRRWCLSGTPIQN 947 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~sral~~L~-a~~RwlLTGTPiqN 947 (1433)
.++||||||..+-.. .....+..+. ...+++|.|-|-|-
T Consensus 94 ~~vliVDEasmv~~~--~~~~ll~~~~~~~~klilvGD~~QL 133 (196)
T PF13604_consen 94 KDVLIVDEASMVDSR--QLARLLRLAKKSGAKLILVGDPNQL 133 (196)
T ss_dssp TSEEEESSGGG-BHH--HHHHHHHHS-T-T-EEEEEE-TTSH
T ss_pred ccEEEEecccccCHH--HHHHHHHHHHhcCCEEEEECCcchh
Confidence 458999999999543 3444444443 47899999999873
No 203
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=87.97 E-value=1 Score=55.57 Aligned_cols=57 Identities=25% Similarity=0.299 Sum_probs=42.7
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc--cCCCEEEEechhhh
Q 000542 780 TLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCEL--AKFDVVITTYSIVS 837 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l--~~~DIVITTY~~L~ 837 (1433)
.|||+|+. |..|-.+-|..... ...+++....|.-....+..+ ...||||.|-..|-
T Consensus 266 ~LV~tPTRELa~QV~~Hl~ai~~-~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlw 325 (731)
T KOG0347|consen 266 ALVVTPTRELAHQVKQHLKAIAE-KTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLW 325 (731)
T ss_pred eEEecChHHHHHHHHHHHHHhcc-ccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHH
Confidence 69999997 77888888876655 457899988887654433332 26799999998884
No 204
>PRK14873 primosome assembly protein PriA; Provisional
Probab=87.68 E-value=2.4 Score=55.46 Aligned_cols=57 Identities=26% Similarity=0.244 Sum_probs=40.8
Q ss_pred CcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc------ccccCCCEEEEechhhh
Q 000542 778 AGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDP------CELAKFDVVITTYSIVS 837 (1433)
Q Consensus 778 ~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~------~~l~~~DIVITTY~~L~ 837 (1433)
+.+||++|.. +..|+.+-+++.|+ .-.|.+||..-..... ...+...|||-|.+.+-
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f~---~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvF 252 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALLG---AGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVF 252 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHcC---CCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEE
Confidence 3489999985 78999999999885 3468889986543321 12245679999887663
No 205
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=87.27 E-value=0.25 Score=53.05 Aligned_cols=35 Identities=37% Similarity=0.881 Sum_probs=30.9
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccC
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTAD 1147 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~ 1147 (1433)
...|.||-..-+.||++.|||.||..|....+...
T Consensus 196 PF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg 230 (259)
T COG5152 196 PFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG 230 (259)
T ss_pred ceeehhchhhccchhhhhcchhHHHHHHHHHhccC
Confidence 46799999999999999999999999998876554
No 206
>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=86.95 E-value=2.2 Score=56.49 Aligned_cols=102 Identities=16% Similarity=0.194 Sum_probs=69.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCC-------cEEecCCCCCHHHHHHHHHHHhcC---CCccEEEeec--ccccccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI-------QYRRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSL--KAASLGL 1344 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI-------~~~ridGsms~~eR~~~I~~Fn~d---~~v~VLL~St--kaGg~GL 1344 (1433)
.+..+|||...-..|+.+...+...|+ ..+.+-+.- ..++++++++|... +...||+ +. ...+||+
T Consensus 521 ~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~-~~~~~~~l~~f~~~~~~~~gavL~-av~gGk~sEGI 598 (705)
T TIGR00604 521 IPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD-AQETSDALERYKQAVSEGRGAVLL-SVAGGKVSEGI 598 (705)
T ss_pred CCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC-cchHHHHHHHHHHHHhcCCceEEE-EecCCcccCcc
Confidence 457888888888888888777765432 223333332 25889999999752 2334555 44 5688999
Q ss_pred Ccc--ccCEEEEEcCCC-CcC------------------------------hHHHHHHhhhccCCCCcE
Q 000542 1345 NMV--AACHVLLLDLWW-NPT------------------------------TEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1345 NLq--~An~VI~~Dp~W-NPa------------------------------~e~QAIGRahRIGQkr~V 1380 (1433)
|+. .+..||++-+|+ ||. ...||+||+.|--+.+-+
T Consensus 599 Df~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~ 667 (705)
T TIGR00604 599 DFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGS 667 (705)
T ss_pred ccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEE
Confidence 998 478888888887 553 234999999996655544
No 207
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=86.25 E-value=4.3 Score=53.67 Aligned_cols=75 Identities=15% Similarity=0.238 Sum_probs=52.3
Q ss_pred eEEEEcccHHHHHHHHHHHHhC-CCcEEecCCCCCHHHHHHHHHHHhcC---CCccEEEeeccccccccCcc--ccCEEE
Q 000542 1280 KAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSLKAASLGLNMV--AACHVL 1353 (1433)
Q Consensus 1280 KvIIFSq~t~~LdlLe~~L~~~-gI~~~ridGsms~~eR~~~I~~Fn~d---~~v~VLL~StkaGg~GLNLq--~An~VI 1353 (1433)
+++||.....+++.+...|... +.+ +...|. ..|.++++.|.+. ++..||+ .+....+|+++. ....||
T Consensus 536 g~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~VL~-g~~sf~EGVD~pGd~l~~vI 610 (697)
T PRK11747 536 GSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGSVLF-GLQSFAEGLDLPGDYLTQVI 610 (697)
T ss_pred CEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCeEEE-EeccccccccCCCCceEEEE
Confidence 4677777777778888888643 333 444564 3578899888752 3445666 458889999997 468888
Q ss_pred EEcCCC
Q 000542 1354 LLDLWW 1359 (1433)
Q Consensus 1354 ~~Dp~W 1359 (1433)
+.-+|+
T Consensus 611 I~kLPF 616 (697)
T PRK11747 611 ITKIPF 616 (697)
T ss_pred EEcCCC
Confidence 887776
No 208
>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=85.88 E-value=2 Score=49.91 Aligned_cols=101 Identities=19% Similarity=0.133 Sum_probs=60.4
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
...+++-|..|+--|. .|-|.=-.+|=|||+++. +.+....
T Consensus 75 g~~p~~vQll~~l~L~---------~G~laEm~TGEGKTli~~-l~a~~~A----------------------------- 115 (266)
T PF07517_consen 75 GLRPYDVQLLGALALH---------KGRLAEMKTGEGKTLIAA-LPAALNA----------------------------- 115 (266)
T ss_dssp S----HHHHHHHHHHH---------TTSEEEESTTSHHHHHHH-HHHHHHH-----------------------------
T ss_pred CCcccHHHHhhhhhcc---------cceeEEecCCCCcHHHHH-HHHHHHH-----------------------------
Confidence 4456667888886663 567888899999999883 3333110
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhH----HHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVL----RQWAEELRNKVTSKGSLSVLVYHGSSRTKD 819 (1433)
Q Consensus 744 ~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL----~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~ 819 (1433)
...+++=||+.+.-| .+|...+-+++. ++|-..........
T Consensus 116 -------------------------------L~G~~V~vvT~NdyLA~RD~~~~~~~y~~LG----lsv~~~~~~~~~~~ 160 (266)
T PF07517_consen 116 -------------------------------LQGKGVHVVTSNDYLAKRDAEEMRPFYEFLG----LSVGIITSDMSSEE 160 (266)
T ss_dssp -------------------------------TTSS-EEEEESSHHHHHHHHHHHHHHHHHTT------EEEEETTTEHHH
T ss_pred -------------------------------HhcCCcEEEeccHHHhhccHHHHHHHHHHhh----hccccCccccCHHH
Confidence 001346778877655 368888887774 78877666543322
Q ss_pred cccccCCCEEEEechhhhc
Q 000542 820 PCELAKFDVVITTYSIVSM 838 (1433)
Q Consensus 820 ~~~l~~~DIVITTY~~L~~ 838 (1433)
....-..||+-+|-..+.-
T Consensus 161 r~~~Y~~dI~Y~t~~~~~f 179 (266)
T PF07517_consen 161 RREAYAADIVYGTNSEFGF 179 (266)
T ss_dssp HHHHHHSSEEEEEHHHHHH
T ss_pred HHHHHhCcccccccchhhH
Confidence 2233467888888777753
No 209
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.23 E-value=0.34 Score=55.84 Aligned_cols=42 Identities=31% Similarity=0.785 Sum_probs=35.6
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccc
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCK 1157 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~ 1157 (1433)
...|+||.+....+.+.+|+|.||..|+...+. ....|| .|+
T Consensus 13 ~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp--~cr 54 (386)
T KOG2177|consen 13 ELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCP--VCR 54 (386)
T ss_pred cccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCc--ccC
Confidence 467999999988888899999999999999888 555677 466
No 210
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=84.93 E-value=2 Score=53.09 Aligned_cols=98 Identities=20% Similarity=0.169 Sum_probs=77.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC----CC----cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS----SI----QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~----gI----~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~ 1348 (1433)
.+-+.|-||..+.+.+++-...+.- +- .+..|.|+-..++|.++-.+.-. +...-+| +|.|..+|+++-.
T Consensus 524 ~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~-G~L~giI-aTNALELGIDIG~ 601 (1034)
T KOG4150|consen 524 HGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFG-GKLCGII-ATNALELGIDIGH 601 (1034)
T ss_pred cCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhC-CeeeEEE-ecchhhhcccccc
Confidence 5679999999998877765443321 11 13467899999999998877665 4544444 7899999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCC
Q 000542 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQ 1376 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAIGRahRIGQ 1376 (1433)
-+.|+++..+..-+...|-.||++|-..
T Consensus 602 LDAVl~~GFP~S~aNl~QQ~GRAGRRNk 629 (1034)
T KOG4150|consen 602 LDAVLHLGFPGSIANLWQQAGRAGRRNK 629 (1034)
T ss_pred ceeEEEccCchhHHHHHHHhccccccCC
Confidence 9999999999999999999999999643
No 211
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=84.79 E-value=5.3 Score=51.81 Aligned_cols=42 Identities=26% Similarity=0.162 Sum_probs=34.1
Q ss_pred cCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCC
Q 000542 905 VGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNA 948 (1433)
Q Consensus 905 i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~ 948 (1433)
..+++||||||-++- ....++.+..++...|++|-|=|-|--
T Consensus 264 l~~dvlIvDEaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL~ 305 (615)
T PRK10875 264 LHLDVLVVDEASMVD--LPMMARLIDALPPHARVIFLGDRDQLA 305 (615)
T ss_pred CCCCeEEEChHhccc--HHHHHHHHHhcccCCEEEEecchhhcC
Confidence 357899999999994 346667788889999999999987743
No 212
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.58 E-value=0.43 Score=54.53 Aligned_cols=45 Identities=29% Similarity=0.642 Sum_probs=37.5
Q ss_pred ccccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000542 1114 AICGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~---e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
..|.||.... ..-+++||.|.|=..|++.|+....++||. |++.+
T Consensus 324 veCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPv--Crt~i 371 (374)
T COG5540 324 VECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPV--CRTAI 371 (374)
T ss_pred ceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCc--cCCCC
Confidence 6799998753 235689999999999999999999999995 87654
No 213
>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=83.53 E-value=6.9 Score=50.61 Aligned_cols=42 Identities=21% Similarity=0.158 Sum_probs=33.4
Q ss_pred cCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCC
Q 000542 905 VGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNA 948 (1433)
Q Consensus 905 i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN~ 948 (1433)
..+++||||||-++-. ....+.+..++...|++|.|=|-|=.
T Consensus 258 l~~dvlIiDEaSMvd~--~l~~~ll~al~~~~rlIlvGD~~QLp 299 (586)
T TIGR01447 258 LPLDVLVVDEASMVDL--PLMAKLLKALPPNTKLILLGDKNQLP 299 (586)
T ss_pred CcccEEEEcccccCCH--HHHHHHHHhcCCCCEEEEECChhhCC
Confidence 3578999999999954 35666777788889999999887643
No 214
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=81.91 E-value=6.7 Score=53.57 Aligned_cols=39 Identities=13% Similarity=0.159 Sum_probs=25.1
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTI 706 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aI 706 (1433)
...||-|.+-+..+.+..... .-.++=-.+|.|||+--|
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~---~~~~iEA~TGtGKTlaYL 294 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDS---EHALIEAGTGTGKSLAYL 294 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcC---CCEEEECCCCCchhHHHH
Confidence 357889998666666544321 113344489999998764
No 215
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=81.85 E-value=4.3 Score=51.19 Aligned_cols=44 Identities=25% Similarity=0.372 Sum_probs=31.7
Q ss_pred ccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 662 VLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 662 ~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
.+...|-+-|+.|+.+....-. + -++=-.+|.|||.+..-+|..
T Consensus 181 ~~~~~ln~SQk~Av~~~~~~k~--l----~~I~GPPGTGKT~TlvEiI~q 224 (649)
T KOG1803|consen 181 FFNKNLNSSQKAAVSFAINNKD--L----LIIHGPPGTGKTRTLVEIISQ 224 (649)
T ss_pred cCCccccHHHHHHHHHHhccCC--c----eEeeCCCCCCceeeHHHHHHH
Confidence 3455688899999999886531 1 245557899999988777743
No 216
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=81.38 E-value=10 Score=45.10 Aligned_cols=57 Identities=26% Similarity=0.265 Sum_probs=39.5
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-Ccccc-cCCCEEEEechhhh
Q 000542 780 TLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTK-DPCEL-AKFDVVITTYSIVS 837 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k-~~~~l-~~~DIVITTY~~L~ 837 (1433)
.||+.|.. +-.|-.+.+. .....-.+++.++.|....- ....| .+.++||+|-+.+.
T Consensus 78 alvlTPTrELA~QiaEQF~-alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRla 137 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFI-ALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLA 137 (442)
T ss_pred EEEecchHHHHHHHHHHHH-HhcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccc
Confidence 59999998 6678888775 55555578888877764322 22223 46789999988775
No 217
>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=80.91 E-value=13 Score=46.29 Aligned_cols=125 Identities=14% Similarity=0.109 Sum_probs=93.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccc-cccCccccCEEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAAS-LGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg-~GLNLq~An~VI~~ 1355 (1433)
...++|||...---.-.|..+|+..++.|+.+.--++..+-.++-..|.. +...+||.|-++-= .=..+..+.+||||
T Consensus 299 ~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~-G~~~iLL~TER~HFfrRy~irGi~~viFY 377 (442)
T PF06862_consen 299 KMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFH-GRKPILLYTERFHFFRRYRIRGIRHVIFY 377 (442)
T ss_pred CCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHc-CCceEEEEEhHHhhhhhceecCCcEEEEE
Confidence 56788999877666667889999999999999999999999999999998 88999999966531 23456689999999
Q ss_pred cCCCCcChHHHHHHhhhccCC----CCcEEEEEEEeCC-CH-HHHHHHHHHHH
Q 000542 1356 DLWWNPTTEDQAIDRAHRIGQ----TRPVSVLRLTVKN-TV-EDRILALQQKK 1402 (1433)
Q Consensus 1356 Dp~WNPa~e~QAIGRahRIGQ----kr~V~VyrLi~kd-TI-EErIl~lq~kK 1402 (1433)
.||-+|.-....+.-+..-.+ ..+..|.-|.++= .+ =|||+..+..+
T Consensus 378 ~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~LErIVGt~ra~ 430 (442)
T PF06862_consen 378 GPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALRLERIVGTERAS 430 (442)
T ss_pred CCCCChhHHHHHHhhhcccccccccccCceEEEEecHhHHHHHHHHhCHHHHH
Confidence 999999988877765554333 3446666666553 21 24555544433
No 218
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=80.74 E-value=4.8 Score=42.37 Aligned_cols=70 Identities=14% Similarity=0.285 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhCCC----cEEecCCCCCHHHHHHHHHHHhcCCC--ccEEEeeccc--cccccCcc--ccCEEEEEcCCC
Q 000542 1290 MLDLLEASLKDSSI----QYRRLDGTMSVFARDKAVKDFNTLPE--VSVMIMSLKA--ASLGLNMV--AACHVLLLDLWW 1359 (1433)
Q Consensus 1290 ~LdlLe~~L~~~gI----~~~ridGsms~~eR~~~I~~Fn~d~~--v~VLL~Stka--Gg~GLNLq--~An~VI~~Dp~W 1359 (1433)
.++.+...++..++ ..+.+.+.. ..+..++++.|+.... ..||+ ++.. .++|+||. .+..||+.-+|+
T Consensus 3 ~m~~v~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~l~~f~~~~~~~g~iL~-~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 3 YLEQVVEYWKENGILEINKPVFIEGKD-SGETEELLEKYSAACEARGALLL-AVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred HHHHHHHHHHhcCccccCceEEEECCC-CchHHHHHHHHHHhcCCCCEEEE-EEeCCeeecceecCCCccEEEEEEecCC
Confidence 45555556655543 234444443 2355799999997432 23555 4344 79999998 356777777664
Q ss_pred -Cc
Q 000542 1360 -NP 1361 (1433)
Q Consensus 1360 -NP 1361 (1433)
+|
T Consensus 81 p~~ 83 (142)
T smart00491 81 PNP 83 (142)
T ss_pred CCC
Confidence 44
No 219
>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=79.49 E-value=6.8 Score=51.49 Aligned_cols=98 Identities=15% Similarity=0.219 Sum_probs=73.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq--~An~VI~ 1354 (1433)
.|++|.|||.-..+.+++++.....+..++.+++..+..+ ++.| .+++|++-| .+..+|+++- --+.|+.
T Consensus 281 ~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d----v~~W---~~~~VviYT-~~itvG~Sf~~~HF~~~f~ 352 (824)
T PF02399_consen 281 AGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED----VESW---KKYDVVIYT-PVITVGLSFEEKHFDSMFA 352 (824)
T ss_pred CCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc----cccc---cceeEEEEe-ceEEEEeccchhhceEEEE
Confidence 7899999999999999999999999999999988876552 2333 458888866 6777899885 3455655
Q ss_pred E--cCCCCcCh--HHHHHHhhhccCCCCcEEEE
Q 000542 1355 L--DLWWNPTT--EDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1355 ~--Dp~WNPa~--e~QAIGRahRIGQkr~V~Vy 1383 (1433)
| .-..-|.. ..|.+|||..+..++ +.||
T Consensus 353 yvk~~~~gpd~~s~~Q~lgRvR~l~~~e-i~v~ 384 (824)
T PF02399_consen 353 YVKPMSYGPDMVSVYQMLGRVRSLLDNE-IYVY 384 (824)
T ss_pred EecCCCCCCcHHHHHHHHHHHHhhccCe-EEEE
Confidence 5 22233553 589999999998554 4444
No 220
>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=79.32 E-value=11 Score=49.99 Aligned_cols=40 Identities=18% Similarity=0.081 Sum_probs=31.2
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN 947 (1433)
..++||||||+++-. ....+.+..++...|++|-|=|-|-
T Consensus 416 ~~~llIvDEaSMvd~--~~~~~Ll~~~~~~~rlilvGD~~QL 455 (720)
T TIGR01448 416 DCDLLIVDESSMMDT--WLALSLLAALPDHARLLLVGDTDQL 455 (720)
T ss_pred cCCEEEEeccccCCH--HHHHHHHHhCCCCCEEEEECccccc
Confidence 357899999999954 3446666777888899999988774
No 221
>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=78.83 E-value=7.3 Score=47.13 Aligned_cols=16 Identities=25% Similarity=0.449 Sum_probs=13.9
Q ss_pred cCccEEEEcCccccCC
Q 000542 905 VGWFRVVLDEAQSIKN 920 (1433)
Q Consensus 905 i~W~rVILDEAH~IKN 920 (1433)
-.++.|||||||++..
T Consensus 82 ~~~DviivDEAqrl~~ 97 (352)
T PF09848_consen 82 NKYDVIIVDEAQRLRT 97 (352)
T ss_pred CcCCEEEEehhHhhhh
Confidence 4578999999999987
No 222
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.70 E-value=1.3 Score=52.84 Aligned_cols=58 Identities=28% Similarity=0.511 Sum_probs=42.8
Q ss_pred HHHHhhhhcccccCCCCCC---CcchhcccCcccchhhhhhhhcc--C-----CCCCCCccccccccc
Q 000542 1105 LLNCLEASLAICGICNDPP---EDAVVSICGHVFCNQCICERLTA--D-----DNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1105 ll~~le~~~~~C~iC~~~~---e~~vvt~CgH~fC~~Ci~e~l~~--~-----~~~Cp~~~C~~~l~~ 1162 (1433)
-+..+..++..|.+|.+.. ...+.++|+|+||..|...+.+. . .-+||.+.|+.....
T Consensus 176 ~~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~ 243 (445)
T KOG1814|consen 176 TLEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPP 243 (445)
T ss_pred HHHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCc
Confidence 3445566788999998753 34678999999999999998654 1 237999888765443
No 223
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.49 E-value=1.1 Score=51.59 Aligned_cols=44 Identities=30% Similarity=0.638 Sum_probs=35.0
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
...|.||-..-..||++.|+|.||..|....+.... .|+ .|..+
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~~-~c~--vC~~~ 284 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKGE-KCY--VCSQQ 284 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccCC-cce--ecccc
Confidence 456999999999999999999999999988775533 344 35544
No 224
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=78.27 E-value=1.4 Score=41.02 Aligned_cols=39 Identities=41% Similarity=0.963 Sum_probs=28.3
Q ss_pred ccccCCCCCCCc------------c-hhcccCcccchhhhhhhhccCCCCCCC
Q 000542 1114 AICGICNDPPED------------A-VVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1114 ~~C~iC~~~~e~------------~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~ 1153 (1433)
..|.||.++..+ + +...|+|.|-..||..|+.... .||.
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~ 71 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPL 71 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TT
T ss_pred CcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCC
Confidence 459999876521 1 3467999999999999996554 7884
No 225
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.55 E-value=0.87 Score=58.24 Aligned_cols=51 Identities=27% Similarity=0.604 Sum_probs=40.1
Q ss_pred hcccccCCCCCCCc-----chhcccCcccchhhhhhhhccCCCCCCCccccccccccch
Q 000542 1112 SLAICGICNDPPED-----AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~-----~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~ 1165 (1433)
....|.||.+.... +-..+|+|+||..|+.+|+.. ...||. |+..+.....
T Consensus 290 ~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~--CR~~~~~~~~ 345 (543)
T KOG0802|consen 290 SDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPT--CRTVLYDYVL 345 (543)
T ss_pred cCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCc--chhhhhcccc
Confidence 35679999998776 678899999999999999987 667886 7664443333
No 226
>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=77.51 E-value=14 Score=48.84 Aligned_cols=38 Identities=24% Similarity=0.219 Sum_probs=23.8
Q ss_pred ccEEEEcCccccCCh-h-------hHHHHHHHhc--ccCcEEEEEccc
Q 000542 907 WFRVVLDEAQSIKNH-R-------TQVARACWGL--RAKRRWCLSGTP 944 (1433)
Q Consensus 907 W~rVILDEAH~IKN~-~-------T~~sral~~L--~a~~RwlLTGTP 944 (1433)
|+.|||||+-.+-+. - ......+..+ ++++.+++-||-
T Consensus 143 yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~l 190 (824)
T PF02399_consen 143 YDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADL 190 (824)
T ss_pred cCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCC
Confidence 889999998654321 1 1122223333 689999999983
No 227
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=77.44 E-value=1.1 Score=54.49 Aligned_cols=47 Identities=34% Similarity=0.799 Sum_probs=38.3
Q ss_pred hcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1112 SLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
+...|.+|......|+.++|||.||..||...+. ....||. |+..+.
T Consensus 83 sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~--Cr~~l~ 129 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECPL--CRDELV 129 (398)
T ss_pred chhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCcc--cccccc
Confidence 3467999999999999999999999999988555 5566885 776654
No 228
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=77.36 E-value=11 Score=50.65 Aligned_cols=41 Identities=12% Similarity=0.123 Sum_probs=25.6
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIAL 708 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIAL 708 (1433)
...|+-|.+-...+.+-.... .-.++--..|.|||+.-+.-
T Consensus 244 ~e~R~~Q~~ma~~V~~~l~~~---~~~~~eA~tGtGKT~ayllp 284 (820)
T PRK07246 244 LEERPKQESFAKLVGEDFHDG---PASFIEAQTGIGKTYGYLLP 284 (820)
T ss_pred CccCHHHHHHHHHHHHHHhCC---CcEEEECCCCCcHHHHHHHH
Confidence 357888998666665543321 11345568999999876433
No 229
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=75.43 E-value=1.6 Score=50.14 Aligned_cols=48 Identities=27% Similarity=0.764 Sum_probs=37.1
Q ss_pred cccCCCC-----CCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1115 ICGICND-----PPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~-----~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
.|+.|.- |.--..+.+|+|.+|..|+.......+..|| .|...+....
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~Cp--eC~~iLRk~n 54 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCP--ECMVILRKNN 54 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCC--cccchhhhcc
Confidence 4777753 2222345699999999999999999999999 8988876654
No 230
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=74.81 E-value=48 Score=44.02 Aligned_cols=44 Identities=18% Similarity=0.142 Sum_probs=30.8
Q ss_pred hhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 000542 1371 AHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1371 ahRIGQkr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~ 1414 (1433)
+.++||.-+|.|..=-.+.|--..--....++++.++..++.|-
T Consensus 751 ~~~~g~~v~~~~evg~~~~t~a~~~a~~ra~rq~~ae~~i~~dp 794 (830)
T PRK07003 751 ADALGKPVEVAVEVGPARRTAAALDAAERAKRQREAEQEIHADP 794 (830)
T ss_pred HHHhCCceEEEEEecccccCHHHHHHHHHHHHHHHHHHHHhcCh
Confidence 46889999888886556778666555556666666776666554
No 231
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=74.62 E-value=1 Score=52.53 Aligned_cols=45 Identities=36% Similarity=0.844 Sum_probs=37.3
Q ss_pred ccccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1114 AICGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
..|.+|..-..++ .++-|.|.||..||-+++.. .+.||. |...+.
T Consensus 16 itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~--C~i~ih 61 (331)
T KOG2660|consen 16 ITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPT--CDIVIH 61 (331)
T ss_pred eehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCc--cceecc
Confidence 5699999887776 57889999999999999988 778996 665543
No 232
>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=74.37 E-value=14 Score=47.60 Aligned_cols=49 Identities=14% Similarity=0.043 Sum_probs=36.3
Q ss_pred CCCCccccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 658 ~P~~~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
+-+|.......|||++-+.-|-... ++--.+.=-.-+|||..++.+|.+
T Consensus 8 ~~pG~w~~~~~Py~~eimd~~~~~~-----v~~Vv~~k~aQ~GkT~~~~n~~g~ 56 (557)
T PF05876_consen 8 AEPGPWRTDRTPYLREIMDALSDPS-----VREVVVMKSAQVGKTELLLNWIGY 56 (557)
T ss_pred CCCCCCCCCCChhHHHHHHhcCCcC-----ccEEEEEEcchhhHhHHHHhhceE
Confidence 3445577889999999888876432 345677777799999988777754
No 233
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.10 E-value=1.9 Score=48.56 Aligned_cols=45 Identities=18% Similarity=0.199 Sum_probs=41.8
Q ss_pred EeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCC
Q 000542 1334 IMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1334 L~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr 1378 (1433)
++++...|.|++..+.|.||+||.+-.+.....+++|+.|.|-+-
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 457899999999999999999999999999999999999999665
No 234
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.97 E-value=1.8 Score=51.51 Aligned_cols=48 Identities=29% Similarity=0.614 Sum_probs=38.6
Q ss_pred ccccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCCcccccccccc
Q 000542 1114 AICGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1114 ~~C~iC~~~~---e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~ 1163 (1433)
..|.||.+.- +.-.+.+|.|.|=..||..|+......||. ||..+...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv--CK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV--CKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC--CCCcCCCC
Confidence 4899998853 334679999999999999999999888995 87655443
No 235
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=72.85 E-value=14 Score=47.42 Aligned_cols=113 Identities=20% Similarity=0.249 Sum_probs=84.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC------CC--cEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCcc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS------SI--QYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMV 1347 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~------gI--~~~ridGsms~~eR~~~I~~Fn~d~-~v~VLL~StkaGg~GLNLq 1347 (1433)
+..-+|||=.-..-++...+.|.+. ++ -++-++|+++.++..++ |...| +.+=+|+||..+...|...
T Consensus 257 ~~GDILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~ 333 (674)
T KOG0922|consen 257 PPGDILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTID 333 (674)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEec
Confidence 5568999998887777777777553 22 24678999998777655 77654 6676777999999888887
Q ss_pred ccCEEEE----EcCCCCcC-----------hHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000542 1348 AACHVLL----LDLWWNPT-----------TEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1348 ~An~VI~----~Dp~WNPa-----------~e~QAIGRahRIGQkr~V~VyrLi~kdTIE 1392 (1433)
.-.+||= ---.|||. .-.||.-|++|-|.+.+..+|||.++.-.+
T Consensus 334 GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~~ 393 (674)
T KOG0922|consen 334 GIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAYD 393 (674)
T ss_pred ceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHHh
Confidence 7666641 12346663 567899999999999999999999987663
No 236
>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=72.60 E-value=2.1 Score=46.26 Aligned_cols=17 Identities=24% Similarity=0.262 Sum_probs=12.8
Q ss_pred cccCCCEEEEechhhhc
Q 000542 822 ELAKFDVVITTYSIVSM 838 (1433)
Q Consensus 822 ~l~~~DIVITTY~~L~~ 838 (1433)
....+||||++|..|-.
T Consensus 116 ~~~~adivi~~y~yl~~ 132 (174)
T PF06733_consen 116 LAKNADIVICNYNYLFD 132 (174)
T ss_dssp CGGG-SEEEEETHHHHS
T ss_pred hcccCCEEEeCHHHHhh
Confidence 34578999999999863
No 237
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.58 E-value=1.8 Score=50.43 Aligned_cols=34 Identities=35% Similarity=0.740 Sum_probs=31.4
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccC
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTAD 1147 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~ 1147 (1433)
..|+||.-.+..++++||+|--|..||..++.+.
T Consensus 423 ~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~ 456 (489)
T KOG4692|consen 423 NLCPICYAGPINAVFAPCSHRSCYGCITQHLMNC 456 (489)
T ss_pred ccCcceecccchhhccCCCCchHHHHHHHHHhcC
Confidence 5699999999999999999999999999998754
No 238
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=71.81 E-value=22 Score=45.68 Aligned_cols=46 Identities=22% Similarity=0.330 Sum_probs=30.5
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc-------ccC-cEEEEEcccCCCChHHHHhh
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGL-------RAK-RRWCLSGTPIQNAIDDLYSY 955 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L-------~a~-~RwlLTGTPiqN~l~DLysl 955 (1433)
+|..||||||| .+|..+..+..| +.. +.+++|||-=-..+.+++.-
T Consensus 163 kYsvIIlDEAH----ERsl~TDiLlGlLKki~~~R~~LklIimSATlda~kfS~yF~~ 216 (674)
T KOG0922|consen 163 KYSVIILDEAH----ERSLHTDILLGLLKKILKKRPDLKLIIMSATLDAEKFSEYFNN 216 (674)
T ss_pred cccEEEEechh----hhhhHHHHHHHHHHHHHhcCCCceEEEEeeeecHHHHHHHhcC
Confidence 47789999999 455555554443 333 67889999765555555544
No 239
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=70.81 E-value=3.6 Score=51.61 Aligned_cols=36 Identities=22% Similarity=0.206 Sum_probs=27.1
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHH
Q 000542 667 LLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI 709 (1433)
..|-|++++-.|+.+ +-++-|--.|-|||+.-+.=|
T Consensus 159 Pt~iq~~aipvfl~~-------r~~lAcapTGsgKtlaf~~Pi 194 (593)
T KOG0344|consen 159 PTPIQKQAIPVFLEK-------RDVLACAPTGSGKTLAFNLPI 194 (593)
T ss_pred CCcccchhhhhhhcc-------cceEEeccCCCcchhhhhhHH
Confidence 356799999999865 447888999999987654433
No 240
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=70.22 E-value=46 Score=40.07 Aligned_cols=44 Identities=14% Similarity=0.098 Sum_probs=33.9
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHc
Q 000542 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKE 712 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~ 712 (1433)
++||||.....-|+++.+- +.+-++.-..|+|||..|.+++...
T Consensus 3 ~~yPWl~~~~~~~~~~~r~---~ha~Lf~G~~G~GK~~~A~~~A~~l 46 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRH---PHAYLLHGPAGIGKRALAERLAAAL 46 (328)
T ss_pred cCCCCcHHHHHHHHHCCCc---ceeeeeECCCCCCHHHHHHHHHHHH
Confidence 4699999999988877332 2345678899999999998887553
No 241
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=70.06 E-value=2.3 Score=52.21 Aligned_cols=46 Identities=37% Similarity=0.930 Sum_probs=38.3
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000542 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~ 1162 (1433)
-.|++|..+..+|+.+ .|||.||..|+.+++.. ...||. |...+..
T Consensus 22 l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~--~~~~~~~ 68 (391)
T KOG0297|consen 22 LLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPV--CRQELTQ 68 (391)
T ss_pred ccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcc--cccccch
Confidence 4699999999999995 99999999999999988 677884 5444443
No 242
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=69.96 E-value=2.5 Score=37.05 Aligned_cols=44 Identities=27% Similarity=0.674 Sum_probs=31.9
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000542 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~ 1162 (1433)
..|-.|.......++.+|||++|..|+...-. +.||. |..++..
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY---ngCPf--C~~~~~~ 51 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPGERY---NGCPF--CGTPFEF 51 (55)
T ss_pred eeEEEccccccccccccccceeeccccChhhc---cCCCC--CCCcccC
Confidence 44667777777778899999999999976543 45763 6666543
No 243
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=69.05 E-value=36 Score=45.78 Aligned_cols=20 Identities=30% Similarity=0.459 Sum_probs=16.2
Q ss_pred cEEEccCCCChHHHHHHHHH
Q 000542 691 GILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 691 GILADEMGLGKTl~aIALI~ 710 (1433)
.||+-+.|-|||-+.=-+++
T Consensus 68 vii~getGsGKTTqlP~~ll 87 (845)
T COG1643 68 VIIVGETGSGKTTQLPQFLL 87 (845)
T ss_pred EEEeCCCCCChHHHHHHHHH
Confidence 79999999999988744443
No 244
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=68.91 E-value=32 Score=46.04 Aligned_cols=41 Identities=20% Similarity=0.156 Sum_probs=29.9
Q ss_pred ccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000542 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN 947 (1433)
+....||.+|||||-.|--+- .+--|.-..|..|-|-+.|=
T Consensus 792 f~~R~FD~cIiDEASQI~lP~-----~LgPL~~s~kFVLVGDh~QL 832 (1100)
T KOG1805|consen 792 FVNRQFDYCIIDEASQILLPL-----CLGPLSFSNKFVLVGDHYQL 832 (1100)
T ss_pred hhccccCEEEEccccccccch-----hhhhhhhcceEEEecccccC
Confidence 566779999999998775432 33345667788899987763
No 245
>PHA02533 17 large terminase protein; Provisional
Probab=68.40 E-value=48 Score=42.60 Aligned_cols=42 Identities=21% Similarity=0.188 Sum_probs=28.6
Q ss_pred cccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
..++|.|+|+..+.+|... +=.++.=-=..|||..+.++++.
T Consensus 56 ~Pf~L~p~Q~~i~~~~~~~-------R~~ii~~aRq~GKStl~a~~al~ 97 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMHKN-------RFNACNLSRQLGKTTVVAIFLLH 97 (534)
T ss_pred eecCCcHHHHHHHHHHhcC-------eEEEEEEcCcCChHHHHHHHHHH
Confidence 4578999999999887421 11244444589999888665543
No 246
>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=65.67 E-value=1.1e+02 Score=35.47 Aligned_cols=19 Identities=32% Similarity=0.302 Sum_probs=15.5
Q ss_pred cEEEccCCCChHHHHHHHH
Q 000542 691 GILADDQGLGKTISTIALI 709 (1433)
Q Consensus 691 GILADEMGLGKTl~aIALI 709 (1433)
-||.=..|.|||..|-++.
T Consensus 45 vll~GppGtGKTtlA~~ia 63 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILG 63 (261)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 4789999999998885554
No 247
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=64.45 E-value=1e+02 Score=37.03 Aligned_cols=47 Identities=21% Similarity=0.205 Sum_probs=34.0
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
..+||||......+.+.-.....+.+-++.-..|+||+..|.+++..
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~ 49 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEH 49 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHH
Confidence 45899999888776655333222344577889999999999888755
No 248
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=63.48 E-value=5.5 Score=40.20 Aligned_cols=35 Identities=26% Similarity=0.347 Sum_probs=26.7
Q ss_pred cEEEEcCccccCChhhHHHHHHHhc--ccCcEEEEEccc
Q 000542 908 FRVVLDEAQSIKNHRTQVARACWGL--RAKRRWCLSGTP 944 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T~~sral~~L--~a~~RwlLTGTP 944 (1433)
.+|||||+|++. +......++.+ .....++|.|||
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 24455555555 677789999999
No 249
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=63.40 E-value=3.3 Score=46.77 Aligned_cols=46 Identities=30% Similarity=0.770 Sum_probs=30.9
Q ss_pred ccccCCCCCCC-cc-hhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000542 1114 AICGICNDPPE-DA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~~e-~~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~ 1164 (1433)
..|..|..-+. ++ .+|.|+|+||..|..-.... .|| .|+..+....
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~--lCkk~ir~i~ 51 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCP--LCKKSIRIIQ 51 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCcc---ccc--cccceeeeee
Confidence 35888876443 33 57999999999998654433 666 4776654433
No 250
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=61.06 E-value=35 Score=44.92 Aligned_cols=67 Identities=22% Similarity=0.220 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccccccc
Q 000542 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQ 749 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k~ 749 (1433)
.|-.++.-+.+.-.... +.-+|---.|.|||+++..++...
T Consensus 13 ~Q~~ai~~l~~~~~~~~--~~~~l~Gvtgs~kt~~~a~~~~~~------------------------------------- 53 (655)
T TIGR00631 13 DQPKAIAKLVEGLTDGE--KHQTLLGVTGSGKTFTMANVIAQV------------------------------------- 53 (655)
T ss_pred HHHHHHHHHHHhhhcCC--CcEEEECCCCcHHHHHHHHHHHHh-------------------------------------
Confidence 78888888776543221 123566778999999997776431
Q ss_pred ccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcC
Q 000542 750 ESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTS 802 (1433)
Q Consensus 750 ~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~~ 802 (1433)
.+|+|||+|.. +..||.+|++.+++.
T Consensus 54 ---------------------------~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 54 ---------------------------NRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred ---------------------------CCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 13699999987 558999999999873
No 251
>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=59.99 E-value=24 Score=40.17 Aligned_cols=43 Identities=14% Similarity=0.130 Sum_probs=31.9
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
+-||+-|.+-+..|.+-. ...+.++=--||-|||-..+=+++.
T Consensus 22 iliR~~Q~~ia~~mi~~~----~~~n~v~QlnMGeGKTsVI~Pmla~ 64 (229)
T PF12340_consen 22 ILIRPVQVEIAREMISPP----SGKNSVMQLNMGEGKTSVIVPMLAL 64 (229)
T ss_pred ceeeHHHHHHHHHHhCCC----CCCCeEeeecccCCccchHHHHHHH
Confidence 458999999999998532 2356788999999999666544433
No 252
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=59.69 E-value=5.5 Score=46.90 Aligned_cols=41 Identities=27% Similarity=0.242 Sum_probs=29.1
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHH
Q 000542 667 LLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~ 710 (1433)
.+|.|+.-..-+.+.-... .-+|+--..|.|||+..|..++
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00488 9 PYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred CCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHH
Confidence 4899999666655543321 3367778899999999876654
No 253
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=59.69 E-value=5.5 Score=46.90 Aligned_cols=41 Identities=27% Similarity=0.242 Sum_probs=29.1
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHH
Q 000542 667 LLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~ 710 (1433)
.+|.|+.-..-+.+.-... .-+|+--..|.|||+..|..++
T Consensus 9 ~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00489 9 PYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred CCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHH
Confidence 4899999666655543321 3367778899999999876654
No 254
>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=57.84 E-value=1.7e+02 Score=40.44 Aligned_cols=44 Identities=23% Similarity=0.330 Sum_probs=29.2
Q ss_pred CCchHHHHHHHHHHH-hhccCCCCCCcEEEccCCCChHHHHHHHH
Q 000542 666 PLLRHQRIALSWMVQ-KETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 666 ~L~phQk~av~wMl~-rE~~~~~~~GGILADEMGLGKTl~aIALI 709 (1433)
+=+.||-.|+.-... +++...++.=||-.-.+|.|||+.=.-++
T Consensus 408 ~rF~WQdkA~d~a~~~r~~~~~~GfF~vNMASTGcGKT~aNARIm 452 (1110)
T TIGR02562 408 PRFRWQNKAFNLAQKLRQKSPEQGAFGVNMASTGCGKTLANARAM 452 (1110)
T ss_pred CCcchHHHHHHHHHHHHhhcccCCeEEEEecCCCcchHHHHHHHH
Confidence 346799999876665 33333333336778899999999763333
No 255
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.09 E-value=1.5e+02 Score=38.09 Aligned_cols=57 Identities=12% Similarity=0.107 Sum_probs=31.9
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChHHHHhhhhccccCCc
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPF 964 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L---~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f 964 (1433)
+|.++||||+|++-.. .....++.| ....+++|..|-.+.-+.-|.+-...+...++
T Consensus 119 ~~kV~iIDE~~~ls~~--a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l 178 (509)
T PRK14958 119 RFKVYLIDEVHMLSGH--SFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQL 178 (509)
T ss_pred CcEEEEEEChHhcCHH--HHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCC
Confidence 4678999999999532 223333444 34566777666544444445444333333333
No 256
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.50 E-value=1.4e+02 Score=39.47 Aligned_cols=39 Identities=23% Similarity=0.222 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
|=...+..++...+ ....-||.-..|.|||..|.+++..
T Consensus 22 ~vv~~L~~aI~~gr---l~HAyLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 22 HVSRALSSALERGR---LHHAYLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred HHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 44455555554322 1234489999999999887666543
No 257
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=56.29 E-value=16 Score=44.38 Aligned_cols=108 Identities=20% Similarity=0.153 Sum_probs=66.4
Q ss_pred cEEEEeChh-hHHHHHHHHHHHhcCCCCcE-EEEEeCCCCCCCccccc-CCCEEEEechhhhccCCCCCCCCchhHHHHh
Q 000542 779 GTLVVCPTS-VLRQWAEELRNKVTSKGSLS-VLVYHGSSRTKDPCELA-KFDVVITTYSIVSMEVPKQPLGDKEDEEEKM 855 (1433)
Q Consensus 779 ~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~-VlvyhG~~r~k~~~~l~-~~DIVITTY~~L~~e~~k~~~~~~~de~ek~ 855 (1433)
..||+.|.. |..|-.+=++..-... .++ ++.|+|.........+. +.||||.|-..+.--.. +
T Consensus 92 RalilsptreLa~qtlkvvkdlgrgt-~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~v------------e- 157 (529)
T KOG0337|consen 92 RALILSPTRELALQTLKVVKDLGRGT-KLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGV------------E- 157 (529)
T ss_pred ceeeccCcHHHHHHHHHHHHHhcccc-chhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeeh------------h-
Confidence 479999997 5555544444332211 344 45777776665555554 78999998877642100 0
Q ss_pred hhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCC--hhhHHHHHHHhcc
Q 000542 856 KIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKN--HRTQVARACWGLR 933 (1433)
Q Consensus 856 ~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~d~~~~pL~~i~W~rVILDEAH~IKN--~~T~~sral~~L~ 933 (1433)
-.|.--....||+|||..|-. ..-+..+.+.+|.
T Consensus 158 --------------------------------------------m~l~l~sveyVVfdEadrlfemgfqeql~e~l~rl~ 193 (529)
T KOG0337|consen 158 --------------------------------------------MTLTLSSVEYVVFDEADRLFEMGFQEQLHEILSRLP 193 (529)
T ss_pred --------------------------------------------eeccccceeeeeehhhhHHHhhhhHHHHHHHHHhCC
Confidence 001112234699999999843 4566777777784
Q ss_pred -cCcEEEEEccc
Q 000542 934 -AKRRWCLSGTP 944 (1433)
Q Consensus 934 -a~~RwlLTGTP 944 (1433)
....+++|||-
T Consensus 194 ~~~QTllfSatl 205 (529)
T KOG0337|consen 194 ESRQTLLFSATL 205 (529)
T ss_pred CcceEEEEeccC
Confidence 45789999994
No 258
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.87 E-value=1.4e+02 Score=37.99 Aligned_cols=49 Identities=14% Similarity=0.157 Sum_probs=27.9
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChHHHHhhh
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQNAIDDLYSYF 956 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L---~a~~RwlLTGTPiqN~l~DLyslL 956 (1433)
+|..+||||+|++.. ......++.| ....+++|+.|-...=+.-|.+-.
T Consensus 121 ~~KV~IIDEah~Ls~--~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRC 172 (484)
T PRK14956 121 KYKVYIIDEVHMLTD--QSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRC 172 (484)
T ss_pred CCEEEEEechhhcCH--HHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhh
Confidence 467899999999943 2233334444 245556666664443334455543
No 259
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.35 E-value=5.9 Score=44.45 Aligned_cols=33 Identities=24% Similarity=0.436 Sum_probs=30.1
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhc
Q 000542 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLT 1145 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~ 1145 (1433)
...|..|..|.-+||+++=||+||++||.+++-
T Consensus 43 FdcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred cceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 366999999999999999999999999999863
No 260
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.99 E-value=5.9 Score=47.53 Aligned_cols=45 Identities=31% Similarity=0.835 Sum_probs=31.9
Q ss_pred cccccCCCCCCCcc--------hhcccCcccchhhhhhhhccCC------CCCCCcccccc
Q 000542 1113 LAICGICNDPPEDA--------VVSICGHVFCNQCICERLTADD------NQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~--------vvt~CgH~fC~~Ci~e~l~~~~------~~Cp~~~C~~~ 1159 (1433)
...|.||.+..... ++.+|.|.||..||..|..... ..||- |+..
T Consensus 161 ~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~--CRv~ 219 (344)
T KOG1039|consen 161 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPF--CRVP 219 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCc--ccCc
Confidence 46799999864332 3478999999999999984432 46773 5543
No 261
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=54.06 E-value=30 Score=39.45 Aligned_cols=59 Identities=24% Similarity=0.197 Sum_probs=43.3
Q ss_pred cEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-ccccc-CCCEEEEechhhh
Q 000542 779 GTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD-PCELA-KFDVVITTYSIVS 837 (1433)
Q Consensus 779 ~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~-~~~l~-~~DIVITTY~~L~ 837 (1433)
..||+|-+. |..|-.+|..++-.--+..+|-++.|.-..+. ...+. -..||+.|-..+.
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGril 173 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRIL 173 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHH
Confidence 479999886 67899999887765556899999998866553 33333 4568888887765
No 262
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=52.26 E-value=25 Score=45.07 Aligned_cols=106 Identities=20% Similarity=0.260 Sum_probs=76.8
Q ss_pred HHHHHHHHHHHhC------CCcEEecCCCCCHHHHHHHHHHHhc-CCCccEEEeeccccccccCccccCEEEEEc----C
Q 000542 1289 KMLDLLEASLKDS------SIQYRRLDGTMSVFARDKAVKDFNT-LPEVSVMIMSLKAASLGLNMVAACHVLLLD----L 1357 (1433)
Q Consensus 1289 ~~LdlLe~~L~~~------gI~~~ridGsms~~eR~~~I~~Fn~-d~~v~VLL~StkaGg~GLNLq~An~VI~~D----p 1357 (1433)
.+.+.|...|.+. ++.++-|+..++.+-..++ |+. .++++-.|++|..+...|....-..||=.. -
T Consensus 578 ~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~ki---Fq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~k 654 (1042)
T KOG0924|consen 578 CTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKI---FQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLK 654 (1042)
T ss_pred HHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhh---cccCCCCceeEEEeccchhhceeecceEEEEecCceeee
Confidence 3566676666543 6778888888887655554 773 467777777889999988888777776322 2
Q ss_pred CCCcC-----------hHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000542 1358 WWNPT-----------TEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1358 ~WNPa-----------~e~QAIGRahRIGQkr~V~VyrLi~kdTIEErIl~ 1397 (1433)
.+||. ..+||--|++|-|.+.+-+-|||+++++..+.|+.
T Consensus 655 vyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~ 705 (1042)
T KOG0924|consen 655 VYNPRIGMDALQIVPISQANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLP 705 (1042)
T ss_pred ecccccccceeEEEechhccchhhccccCCCCCcceeeehhhhHHHhhccc
Confidence 24543 45677778888888999999999999988877664
No 263
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.01 E-value=6.3 Score=46.84 Aligned_cols=46 Identities=30% Similarity=0.660 Sum_probs=37.4
Q ss_pred cccccCCCCCCCcchhcccCc-ccchhhhhhhhccCCCCCCCcccccccc
Q 000542 1113 LAICGICNDPPEDAVVSICGH-VFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH-~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
-..|.||...+.+.++.||.| -+|..|..... -..+.||. |+..+.
T Consensus 290 gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CPI--CRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCPI--CRQPIE 336 (349)
T ss_pred CCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCCc--cccchH
Confidence 467999999999999999999 58999998766 45567884 876653
No 264
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.69 E-value=1.8e+02 Score=39.62 Aligned_cols=40 Identities=15% Similarity=0.160 Sum_probs=24.9
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCC
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQN 947 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L---~a~~RwlLTGTPiqN 947 (1433)
+|.++||||||++.. ......++.| ....+++|..|-...
T Consensus 119 k~KViIIDEAh~LT~--eAqNALLKtLEEPP~~vrFILaTTe~~k 161 (944)
T PRK14949 119 RFKVYLIDEVHMLSR--SSFNALLKTLEEPPEHVKFLLATTDPQK 161 (944)
T ss_pred CcEEEEEechHhcCH--HHHHHHHHHHhccCCCeEEEEECCCchh
Confidence 477899999999942 2223334444 356678887554443
No 265
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=51.08 E-value=5.4 Score=50.94 Aligned_cols=82 Identities=12% Similarity=0.183 Sum_probs=51.3
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCC-----HHHHHHHHHHHhcC--CCccEEEeec--cccccccCcc-
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMS-----VFARDKAVKDFNTL--PEVSVMIMSL--KAASLGLNMV- 1347 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms-----~~eR~~~I~~Fn~d--~~v~VLL~St--kaGg~GLNLq- 1347 (1433)
+.-||+|-..-..|..+....+..||- .+|.|.-+ ..--+++++.|... .+.-.||++. .-.++|||+.
T Consensus 629 PgGvV~FfPSy~yL~~v~k~w~~~gil-~ri~~kK~vF~E~k~~~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D 707 (821)
T KOG1133|consen 629 PGGVVCFFPSYAYLGQVRKRWEQNGIL-ARIVGKKKVFYEPKDTVEDVLEGYAEAAERGRGAILLAVVGGKLSEGINFSD 707 (821)
T ss_pred CCcEEEEeccHHHHHHHHHHHHhcchH-HHhhccchhhccCcccHHHHHHHHHHHhhcCCCeEEEEEecccccccccccc
Confidence 367889999999999999999887763 22222211 01135667777642 1112344342 3356999998
Q ss_pred -ccCEEEEEcCCCC
Q 000542 1348 -AACHVLLLDLWWN 1360 (1433)
Q Consensus 1348 -~An~VI~~Dp~WN 1360 (1433)
-+..|+++.+|+-
T Consensus 708 ~LgRaVvvVGlPyP 721 (821)
T KOG1133|consen 708 DLGRAVVVVGLPYP 721 (821)
T ss_pred ccccEEEEeecCCC
Confidence 4677788887774
No 266
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=50.13 E-value=11 Score=50.01 Aligned_cols=42 Identities=19% Similarity=0.230 Sum_probs=24.1
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCc-EEE-ccCCCChHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGG-ILA-DDQGLGKTISTI 706 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GG-ILA-DEMGLGKTl~aI 706 (1433)
..-|+-|.+-+..+.+-........++ +++ -.+|.|||+--|
T Consensus 24 ~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYL 67 (697)
T PRK11747 24 FIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYL 67 (697)
T ss_pred CCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHH
Confidence 356889998666665443321000122 333 379999998754
No 267
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.52 E-value=6.6 Score=44.68 Aligned_cols=52 Identities=33% Similarity=0.767 Sum_probs=38.9
Q ss_pred ccccCCCCCC-----Ccch-----hcccCcccchhhhhhhh-ccCCCCCCCccccccccccchhh
Q 000542 1114 AICGICNDPP-----EDAV-----VSICGHVFCNQCICERL-TADDNQCPTRNCKIRLSLSSVFS 1167 (1433)
Q Consensus 1114 ~~C~iC~~~~-----e~~v-----vt~CgH~fC~~Ci~e~l-~~~~~~Cp~~~C~~~l~~~~~f~ 1167 (1433)
..|.+|.... ++.+ -..|+|+|=.-||..|- -+....||. |+.++....+|+
T Consensus 225 ~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPY--CKekVdl~rmfs 287 (328)
T KOG1734|consen 225 SVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPY--CKEKVDLKRMFS 287 (328)
T ss_pred chhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCch--HHHHhhHhhhcc
Confidence 5688887542 2222 36799999999999984 556778996 999888877774
No 268
>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=48.52 E-value=1.1e+02 Score=40.09 Aligned_cols=40 Identities=20% Similarity=0.251 Sum_probs=26.2
Q ss_pred CcEEEEeChh-hHHHHHHHHHHHh-c-CCCCcEEEEEeCCCCC
Q 000542 778 AGTLVVCPTS-VLRQWAEELRNKV-T-SKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 778 ~~TLIVcP~S-LL~QW~~EI~k~~-~-~~~~L~VlvyhG~~r~ 817 (1433)
+++||.+|+. |..|+.+++.... . ....+++.+..|...-
T Consensus 47 ~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~nY 89 (636)
T TIGR03117 47 QKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQEF 89 (636)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCccc
Confidence 3589999986 6688888877543 1 1235677777776543
No 269
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=48.47 E-value=7.4 Score=45.58 Aligned_cols=48 Identities=23% Similarity=0.655 Sum_probs=38.0
Q ss_pred hcccccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000542 1112 SLAICGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
....|++|...-.++ +++.-|-+||..||..++. ..+.||..+|...+
T Consensus 299 ~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 299 DREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPASV 347 (357)
T ss_pred ccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcchH
Confidence 346799998765554 6777899999999999998 66789988877543
No 270
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.19 E-value=10 Score=45.68 Aligned_cols=46 Identities=24% Similarity=0.608 Sum_probs=35.0
Q ss_pred hcccccCCCCCCC---cchhcccCcccchhhhhhhhccCC--CCCCCcccccc
Q 000542 1112 SLAICGICNDPPE---DAVVSICGHVFCNQCICERLTADD--NQCPTRNCKIR 1159 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e---~~vvt~CgH~fC~~Ci~e~l~~~~--~~Cp~~~C~~~ 1159 (1433)
+..+|++--+-.. .|+...|||++|.+.+.....+.. .+||. |...
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPY--CP~e 383 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPY--CPVE 383 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCC--CCcc
Confidence 4578998765322 267889999999999999988776 78886 6543
No 271
>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=47.16 E-value=3.9e+02 Score=28.60 Aligned_cols=43 Identities=14% Similarity=0.041 Sum_probs=25.2
Q ss_pred HHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcC
Q 000542 671 QRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKER 713 (1433)
Q Consensus 671 Qk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r 713 (1433)
|...+..+.+.-.....+..=|+.-.-|.||+-.+.+++....
T Consensus 2 q~~~~~~L~~~~~~~~l~ha~L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 2 QEEIIELLKNLIKSGRLPHALLFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp -HHHHHHHHHHHHCTC--SEEEEECSTTSSHHHHHHHHHHHHC
T ss_pred cHHHHHHHHHHHHcCCcceeEEEECCCCCCHHHHHHHHHHHHc
Confidence 4444444443333222223347788889999999999986543
No 272
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=46.85 E-value=36 Score=45.85 Aligned_cols=108 Identities=18% Similarity=0.202 Sum_probs=75.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC-------CCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccc
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS-------SIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~-------gI~~~ridGsms~~eR~~~I~~Fn~d~-~v~VLL~StkaGg~GLNLq~ 1348 (1433)
...-||||-.-..-+..+...|..+ .+-...+++.|+..+.+++ |+..+ +++=+|++|..+...|....
T Consensus 412 ~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~g~RKIIlaTNIAETSITIdD 488 (924)
T KOG0920|consen 412 FEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPKGTRKIILATNIAETSITIDD 488 (924)
T ss_pred CCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCCCcchhhhhhhhHhhcccccC
Confidence 4578999999998888888888642 2556789999998777665 77654 44556668899999988877
Q ss_pred cCEEE--------EEcCC---------C-CcChHHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000542 1349 ACHVL--------LLDLW---------W-NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1349 An~VI--------~~Dp~---------W-NPa~e~QAIGRahRIGQkr~V~VyrLi~kdT 1390 (1433)
.-+|| .|||. | .-+.-.||.||++| .++=..|+|+++.-
T Consensus 489 VvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~ 545 (924)
T KOG0920|consen 489 VVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSR 545 (924)
T ss_pred eEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhh
Confidence 66665 34433 2 23344577777766 55667788876543
No 273
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.83 E-value=7.6 Score=46.66 Aligned_cols=56 Identities=32% Similarity=0.596 Sum_probs=40.7
Q ss_pred ccccCCCCCCCc-----chhcccCcccchhhhhhhhcc-CCCCCCCccccccccccchhhhhhh
Q 000542 1114 AICGICNDPPED-----AVVSICGHVFCNQCICERLTA-DDNQCPTRNCKIRLSLSSVFSKATL 1171 (1433)
Q Consensus 1114 ~~C~iC~~~~e~-----~vvt~CgH~fC~~Ci~e~l~~-~~~~Cp~~~C~~~l~~~~~f~~~~l 1171 (1433)
..|++|.+.-+. .+...|||.|-.+||+.|+.. ..-+|| .|+..-.+..++....+
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp--~c~~katkr~i~~e~al 66 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCP--LCSGKATKRQIRPEYAL 66 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCc--ccCChhHHHHHHHHHHH
Confidence 579999986443 355789999999999999952 223577 48888777777655444
No 274
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.55 E-value=8.2 Score=45.92 Aligned_cols=43 Identities=40% Similarity=0.895 Sum_probs=32.3
Q ss_pred hcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000542 1112 SLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
....|.+|.+.+.+.+..+|||+-| |........ +|| .|+..+
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~l~--~CP--vCR~rI 346 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKHLP--QCP--VCRQRI 346 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHHhhCC--CCc--hhHHHH
Confidence 3467999999999999999999977 665544332 377 477655
No 275
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=46.11 E-value=9.6 Score=42.88 Aligned_cols=38 Identities=29% Similarity=0.524 Sum_probs=30.6
Q ss_pred ccccCCCCCCCc----chhcccCcccchhhhhhhhccCCCCCC
Q 000542 1114 AICGICNDPPED----AVVSICGHVFCNQCICERLTADDNQCP 1152 (1433)
Q Consensus 1114 ~~C~iC~~~~e~----~vvt~CgH~fC~~Ci~e~l~~~~~~Cp 1152 (1433)
.+|++|-+...+ +++.+|||++|.+|++.++..|- .||
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~p 263 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDP 263 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-ccc
Confidence 579999887655 57899999999999999887653 455
No 276
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=45.17 E-value=2.5e+02 Score=37.13 Aligned_cols=51 Identities=14% Similarity=0.165 Sum_probs=32.1
Q ss_pred cCCCCcEEEEE--EEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000542 1374 IGQTRPVSVLR--LTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1374 IGQkr~V~Vyr--Li~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
+|+.-.+.|.. =....|--++-.+..+.|++.+...+-.|. .+..|...|+
T Consensus 584 ~g~~~~l~i~~~~~~~~~tp~~~~~~~~~~~~~~a~~~~~~Dp--------~v~~l~~~f~ 636 (647)
T PRK07994 584 LGRTVELTIEEDDNPAVETPLEWRQRIYEEKLAQAEESIIADP--------NIQTLRQFFD 636 (647)
T ss_pred hCCCeEEEEEeCCCccccCHHHHHHHHHHHHHHHHHHHHHhCH--------HHHHHHHHcC
Confidence 57666666653 122347666666677777777777776554 3666666665
No 277
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.86 E-value=1.9e+02 Score=36.70 Aligned_cols=41 Identities=22% Similarity=0.211 Sum_probs=25.7
Q ss_pred chHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 668 LRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 668 ~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
.+|-...+..++.... .+.+-||.-..|.|||..|-+++..
T Consensus 19 q~~i~~~L~~~i~~~~---l~~~~Lf~GPpGtGKTTlA~~lA~~ 59 (472)
T PRK14962 19 QDHVKKLIINALKKNS---ISHAYIFAGPRGTGKTTVARILAKS 59 (472)
T ss_pred cHHHHHHHHHHHHcCC---CCeEEEEECCCCCCHHHHHHHHHHH
Confidence 3454555555554322 1133488999999999888766543
No 278
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=44.61 E-value=17 Score=43.11 Aligned_cols=47 Identities=28% Similarity=0.581 Sum_probs=34.0
Q ss_pred hhhcccccCCCCCCCc-------------chhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000542 1110 EASLAICGICNDPPED-------------AVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1110 e~~~~~C~iC~~~~e~-------------~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
-.+...|.||.|..-+ |--.+|||++=..|+..|+...+ .||. |+-.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPI--Cr~p 343 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPI--CRRP 343 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCc--ccCc
Confidence 4456789999986321 24578999999999999986543 5774 6654
No 279
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=44.13 E-value=28 Score=46.44 Aligned_cols=106 Identities=18% Similarity=0.241 Sum_probs=65.7
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC-----CCcChHHHHHHhhhccCC-CC
Q 000542 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW-----WNPTTEDQAIDRAHRIGQ-TR 1378 (1433)
Q Consensus 1305 ~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~-----WNPa~e~QAIGRahRIGQ-kr 1378 (1433)
+...+.+.+.++|+-+=..|++ +.++|++.+ ...+.|+||.+ .+||+=-|. -.-....|.+||+.|.|= |.
T Consensus 525 vAyHhaGLT~eER~~iE~afr~-g~i~vl~aT-STlaaGVNLPA-rRVIiraP~~g~~~l~~~~YkQM~GRAGR~gidT~ 601 (1008)
T KOG0950|consen 525 VAYHHAGLTSEEREIIEAAFRE-GNIFVLVAT-STLAAGVNLPA-RRVIIRAPYVGREFLTRLEYKQMVGRAGRTGIDTL 601 (1008)
T ss_pred ceecccccccchHHHHHHHHHh-cCeEEEEec-chhhccCcCCc-ceeEEeCCccccchhhhhhHHhhhhhhhhcccccC
Confidence 4556777788999888888888 888888855 55899999985 555553333 233467799999999883 22
Q ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCc
Q 000542 1379 PVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDET 1415 (1433)
Q Consensus 1379 ~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~ 1415 (1433)
.--+ |+++..=..++.++...-......-++++..
T Consensus 602 Gdsi--LI~k~~e~~~~~~lv~~~~~~~~S~l~~e~~ 636 (1008)
T KOG0950|consen 602 GDSI--LIIKSSEKKRVRELVNSPLKPLNSCLSNEVN 636 (1008)
T ss_pred cceE--EEeeccchhHHHHHHhccccccccccccccc
Confidence 2122 3444433334445444444444444444433
No 280
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=44.11 E-value=33 Score=42.14 Aligned_cols=60 Identities=15% Similarity=0.154 Sum_probs=35.0
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcC-CCCcEEEEEeCCCCC-C-CcccccCCCEEEEechhhhcc
Q 000542 780 TLVVCPTS-VLRQWAEELRNKVTS-KGSLSVLVYHGSSRT-K-DPCELAKFDVVITTYSIVSME 839 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~-~~~L~VlvyhG~~r~-k-~~~~l~~~DIVITTY~~L~~e 839 (1433)
.+|+||+. |..|-...|.+.... ...++++-...+... . ...-....||||+|-..+-..
T Consensus 96 a~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~ 159 (569)
T KOG0346|consen 96 AVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRH 159 (569)
T ss_pred eEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHH
Confidence 69999987 778888888765431 113343333211111 1 122334789999999887643
No 281
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=43.53 E-value=3.3e+02 Score=33.22 Aligned_cols=21 Identities=29% Similarity=0.351 Sum_probs=17.0
Q ss_pred cEEEccCCCChHHHHHHHHHH
Q 000542 691 GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 691 GILADEMGLGKTl~aIALI~~ 711 (1433)
-||.=+.|.|||..+.+++..
T Consensus 41 ~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 41 WLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred EEEecCCCCCHHHHHHHHHHH
Confidence 478999999999888777643
No 282
>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=43.45 E-value=50 Score=43.93 Aligned_cols=43 Identities=30% Similarity=0.353 Sum_probs=33.8
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
++||.|++....+.+--... ..++|--.+|.|||+.+|+-.++
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~~---~~~llEsPTGtGKTlslL~~aL~ 52 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDRG---DEAILEMPSGTGKTISLLSLILA 52 (705)
T ss_pred CCCHHHHHHHHHHHHHhccC---CceEEeCCCCCCccHHHHHHHHH
Confidence 46999999888877655432 44788889999999999887765
No 283
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=43.06 E-value=1.1e+02 Score=42.59 Aligned_cols=59 Identities=17% Similarity=0.173 Sum_probs=35.5
Q ss_pred CcEEEEeChhhHH-HHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhhh
Q 000542 778 AGTLVVCPTSVLR-QWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIVS 837 (1433)
Q Consensus 778 ~~TLIVcP~SLL~-QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~~L~ 837 (1433)
+...-|.|...+. --...|.+.+.....+.+....| .+.-+...+.+.+|+|.|.+.+.
T Consensus 1187 ~~~vyi~p~~~i~~~~~~~w~~~f~~~~G~~~~~l~g-e~s~~lkl~~~~~vii~tpe~~d 1246 (1674)
T KOG0951|consen 1187 GRAVYIAPLEEIADEQYRDWEKKFSKLLGLRIVKLTG-ETSLDLKLLQKGQVIISTPEQWD 1246 (1674)
T ss_pred eEEEEecchHHHHHHHHHHHHHhhccccCceEEecCC-ccccchHHhhhcceEEechhHHH
Confidence 3467888987542 22233333333223455555544 45556677788999999987764
No 284
>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=42.91 E-value=2e+02 Score=31.90 Aligned_cols=38 Identities=18% Similarity=0.247 Sum_probs=23.6
Q ss_pred EEEEcCccccCChh---hHHHHHHHhc-ccCcEEEEEcccCC
Q 000542 909 RVVLDEAQSIKNHR---TQVARACWGL-RAKRRWCLSGTPIQ 946 (1433)
Q Consensus 909 rVILDEAH~IKN~~---T~~sral~~L-~a~~RwlLTGTPiq 946 (1433)
.|||||+|.+.... ......+..+ ....++++|+|+..
T Consensus 93 lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~ 134 (226)
T TIGR03420 93 LVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAP 134 (226)
T ss_pred EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCCh
Confidence 59999999986532 2333333333 23457888888543
No 285
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=42.60 E-value=12 Score=43.40 Aligned_cols=44 Identities=32% Similarity=0.718 Sum_probs=30.4
Q ss_pred hcccccCCCCCCCc-chhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000542 1112 SLAICGICNDPPED-AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 ~~~~C~iC~~~~e~-~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
.+.-|.-|..+..- -.+.+|.|+||.+|-...- +..|| .|..++
T Consensus 89 ~VHfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~---dK~Cp--~C~d~V 133 (389)
T KOG2932|consen 89 RVHFCDRCDFPIAIYGRMIPCKHVFCLECARSDS---DKICP--LCDDRV 133 (389)
T ss_pred ceEeecccCCcceeeecccccchhhhhhhhhcCc---cccCc--CcccHH
Confidence 35679999876543 3567999999999985533 44576 365544
No 286
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.36 E-value=11 Score=46.22 Aligned_cols=44 Identities=27% Similarity=0.725 Sum_probs=33.9
Q ss_pred ccccCCCCCCC-----------------cchhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000542 1114 AICGICNDPPE-----------------DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1114 ~~C~iC~~~~e-----------------~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
..|.||..+.+ .-.++||.|+|-.+|+..|+....-.||. |+..
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPv--CR~p 632 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPV--CRCP 632 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCc--cCCC
Confidence 57999986532 12468999999999999999877778885 5543
No 287
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=42.36 E-value=57 Score=43.99 Aligned_cols=112 Identities=19% Similarity=0.241 Sum_probs=81.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHh----CCCcEEecCCCCCHHHHHHHHHHHhcCCCc-cEEEeeccccccccCccccCEE
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKD----SSIQYRRLDGTMSVFARDKAVKDFNTLPEV-SVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~----~gI~~~ridGsms~~eR~~~I~~Fn~d~~v-~VLL~StkaGg~GLNLq~An~V 1352 (1433)
..-+|||-.-..-++-....|.. ..+.++-++|.++.++..+ -|+..+.- +=+|++|..+-.+|.......|
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~~RKVVlATNIAETSLTI~gIr~V 335 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVR---VFEPAPGGKRKVVLATNIAETSLTIPGIRYV 335 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHh---hcCCCCCCcceEEEEccccccceeeCCeEEE
Confidence 46789999888888888888877 3577899999999888877 57765544 4355588999999998887777
Q ss_pred EEE----cCCCCcC-----------hHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000542 1353 LLL----DLWWNPT-----------TEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1353 I~~----Dp~WNPa-----------~e~QAIGRahRIGQkr~V~VyrLi~kdTIE 1392 (1433)
|=- .+-|||. .-+.|.-|++|-|.+.+=..|||+.++..+
T Consensus 336 IDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~ 390 (845)
T COG1643 336 IDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFL 390 (845)
T ss_pred ecCCcccccccccccCceeeeEEEechhhhhhhccccccCCCceEEEecCHHHHH
Confidence 521 1234444 233456666666778888999999986655
No 288
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=41.64 E-value=63 Score=43.38 Aligned_cols=56 Identities=18% Similarity=0.103 Sum_probs=31.8
Q ss_pred cEEEEeChhhHHHHH-HHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhhh
Q 000542 779 GTLVVCPTSVLRQWA-EELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIVS 837 (1433)
Q Consensus 779 ~TLIVcP~SLL~QW~-~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~~L~ 837 (1433)
..|.|.|--.+.|=+ .++..+. .+-.+.|--|.|.. .......+-++.|.|-+.-.
T Consensus 271 ~~llilp~vsiv~Ek~~~l~~~~-~~~G~~ve~y~g~~--~p~~~~k~~sv~i~tiEkan 327 (1008)
T KOG0950|consen 271 NVLLILPYVSIVQEKISALSPFS-IDLGFPVEEYAGRF--PPEKRRKRESVAIATIEKAN 327 (1008)
T ss_pred ceeEecceeehhHHHHhhhhhhc-cccCCcchhhcccC--CCCCcccceeeeeeehHhhH
Confidence 367788876555544 3344333 34567777777543 22233345568888876553
No 289
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.40 E-value=14 Score=45.30 Aligned_cols=52 Identities=38% Similarity=0.887 Sum_probs=37.9
Q ss_pred ccccCCC-CCCCc---chhcccCcccchhhhhhhhc-----cCCCCCCCccccccccccch
Q 000542 1114 AICGICN-DPPED---AVVSICGHVFCNQCICERLT-----ADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1114 ~~C~iC~-~~~e~---~vvt~CgH~fC~~Ci~e~l~-----~~~~~Cp~~~C~~~l~~~~~ 1165 (1433)
..|.+|. +.+.. ..+..|+|.||.+|+..++. +....||...|...+.....
T Consensus 147 ~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c 207 (384)
T KOG1812|consen 147 EECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESC 207 (384)
T ss_pred ccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHH
Confidence 5699998 33322 23577999999999999876 34558999999887765443
No 290
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=40.65 E-value=3.5e+02 Score=36.02 Aligned_cols=52 Identities=12% Similarity=0.088 Sum_probs=31.0
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChHHHHhhhhcc
Q 000542 906 GWFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQNAIDDLYSYFRFL 959 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~sral~~L---~a~~RwlLTGTPiqN~l~DLyslL~FL 959 (1433)
++.+|||||+|.+.. ......++.| ....+++|+.|=...-+.-+.+-+..+
T Consensus 119 k~KVIIIDEad~Ls~--~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f 173 (709)
T PRK08691 119 KYKVYIIDEVHMLSK--SAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQF 173 (709)
T ss_pred CcEEEEEECccccCH--HHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhh
Confidence 467899999999853 2233344444 345677887775555555555544333
No 291
>PF04641 Rtf2: Rtf2 RING-finger
Probab=39.96 E-value=19 Score=41.85 Aligned_cols=50 Identities=20% Similarity=0.453 Sum_probs=36.0
Q ss_pred cccccCCCCCCCc---c-hhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000542 1113 LAICGICNDPPED---A-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~---~-vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f 1166 (1433)
..+|+++...... . .+-+|||+|+..|+.+.- ....|| .|...+....++
T Consensus 113 ~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp--~c~~~f~~~DiI 166 (260)
T PF04641_consen 113 RFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCP--VCGKPFTEEDII 166 (260)
T ss_pred eeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--cccccc--ccCCccccCCEE
Confidence 4679999877632 2 357899999999999984 455687 477776544433
No 292
>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=38.48 E-value=59 Score=38.24 Aligned_cols=21 Identities=19% Similarity=0.275 Sum_probs=16.7
Q ss_pred CcEEEccCCCChHHHHHHHHH
Q 000542 690 GGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 690 GGILADEMGLGKTl~aIALI~ 710 (1433)
+-+|--+.|.|||..|-++..
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~ 80 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQ 80 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHH
Confidence 457788999999998866653
No 293
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=38.40 E-value=1.4e+02 Score=39.51 Aligned_cols=71 Identities=20% Similarity=0.155 Sum_probs=50.6
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 744 (1433)
..|.++|..++.-+.+.-.... +..+|---.|-|||+.+.+++...
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~~~~--~~~ll~Gl~gs~ka~lia~l~~~~-------------------------------- 56 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIEAGE--KHQTLLGVTGSGKTFTMANVIARL-------------------------------- 56 (652)
T ss_pred CCCChHHHHHHHHHHHhhhcCC--CcEEEEcCCCcHHHHHHHHHHHHh--------------------------------
Confidence 4578899999988776543211 123566677999999876654220
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhc
Q 000542 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVT 801 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~ 801 (1433)
.+++|||+|.. ...||.+++..+++
T Consensus 57 --------------------------------~r~vLIVt~~~~~A~~l~~dL~~~~~ 82 (652)
T PRK05298 57 --------------------------------QRPTLVLAHNKTLAAQLYSEFKEFFP 82 (652)
T ss_pred --------------------------------CCCEEEEECCHHHHHHHHHHHHHhcC
Confidence 13589999996 66899999998887
No 294
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=38.36 E-value=4.1e+02 Score=31.31 Aligned_cols=39 Identities=5% Similarity=0.063 Sum_probs=23.2
Q ss_pred cEEEEcCccccCChhh--HHHHHHHhcccCcEEEEEcccCC
Q 000542 908 FRVVLDEAQSIKNHRT--QVARACWGLRAKRRWCLSGTPIQ 946 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T--~~sral~~L~a~~RwlLTGTPiq 946 (1433)
..|||||+|.+..... .....+.......++++|++...
T Consensus 102 ~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~ 142 (316)
T PHA02544 102 KVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKN 142 (316)
T ss_pred eEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChh
Confidence 4699999999843221 12222333356668888886543
No 295
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=37.99 E-value=98 Score=32.55 Aligned_cols=86 Identities=19% Similarity=0.144 Sum_probs=57.1
Q ss_pred eEEEEcccHHHHHHHHHHHHhCCCcE--EecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000542 1280 KAIVFSQWTKMLDLLEASLKDSSIQY--RRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1280 KvIIFSq~t~~LdlLe~~L~~~gI~~--~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
.|=++||.-.+...|-..+...|+.+ ..=.|....-.-.+.++.|.+|++.+|+++- +|.
T Consensus 3 ~valisQSG~~~~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~t~~I~ly------------------~E~ 64 (138)
T PF13607_consen 3 GVALISQSGALGTAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAEDPDTRVIVLY------------------LEG 64 (138)
T ss_dssp SEEEEES-HHHHHHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-SS--EEEEE------------------ES-
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcCCCCCEEEEE------------------ccC
Confidence 46689999999999999998886664 5556665555678899999999999999866 666
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEE
Q 000542 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLT 1386 (1433)
Q Consensus 1358 ~WNPa~e~QAIGRahRIGQkr~V~VyrLi 1386 (1433)
-=||....++.-|+.|. |||.+++-=
T Consensus 65 ~~d~~~f~~~~~~a~~~---KPVv~lk~G 90 (138)
T PF13607_consen 65 IGDGRRFLEAARRAARR---KPVVVLKAG 90 (138)
T ss_dssp -S-HHHHHHHHHHHCCC---S-EEEEE--
T ss_pred CCCHHHHHHHHHHHhcC---CCEEEEeCC
Confidence 66787788888877764 888887643
No 296
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=37.92 E-value=1.3e+02 Score=27.23 Aligned_cols=59 Identities=12% Similarity=0.119 Sum_probs=40.8
Q ss_pred eEEEEc-ccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecc
Q 000542 1280 KAIVFS-QWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLK 1338 (1433)
Q Consensus 1280 KvIIFS-q~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~Stk 1338 (1433)
|++||+ .+=.....+...|+..+++|..++-....+.++++.+.......+.++++.-+
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~vP~v~i~g~ 60 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRTVPQIFIGDV 60 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCccCEEEECCE
Confidence 466776 33456777888899999999988888777777777666655325555555533
No 297
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=37.29 E-value=1e+02 Score=29.53 Aligned_cols=59 Identities=8% Similarity=0.158 Sum_probs=39.1
Q ss_pred CCCeEEEEcc------cHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee
Q 000542 1277 GGEKAIVFSQ------WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS 1336 (1433)
Q Consensus 1277 ~~eKvIIFSq------~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~S 1336 (1433)
...+|+||+. |=..-..+.+.|+..|++|..++=....+.|+.+.+ ......+.++++.
T Consensus 6 ~~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~-~~g~~tvP~vfi~ 70 (90)
T cd03028 6 KENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKE-YSNWPTFPQLYVN 70 (90)
T ss_pred ccCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHH-HhCCCCCCEEEEC
Confidence 4689999987 556778888999999999988875555444444444 3332343344434
No 298
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=36.89 E-value=15 Score=47.69 Aligned_cols=56 Identities=18% Similarity=0.224 Sum_probs=35.8
Q ss_pred CCcccccccCCccccCccEEEEcCccccCChh---------------hHHHHHHHhcccCcEEEEEcccCCC
Q 000542 891 DGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHR---------------TQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 891 ~~~~~d~~~~pL~~i~W~rVILDEAH~IKN~~---------------T~~sral~~L~a~~RwlLTGTPiqN 947 (1433)
|++++..+...+.-.+|..|||||||.= +.+ .++++.-++++.-+.++||||---.
T Consensus 357 DGVLLrEi~~DflL~kYSvIIlDEAHER-SvnTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLRVs 427 (1172)
T KOG0926|consen 357 DGVLLREIENDFLLTKYSVIILDEAHER-SVNTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLRVS 427 (1172)
T ss_pred chHHHHHHHHhHhhhhceeEEechhhhc-cchHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEEec
Confidence 4556666666677788999999999942 211 2223323334456779999996433
No 299
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=36.76 E-value=61 Score=41.10 Aligned_cols=44 Identities=20% Similarity=0.185 Sum_probs=34.2
Q ss_pred CchHHHHHHHHHHHhhc-----cCCCCCCcEEEccCCCChHHHHHHHHH
Q 000542 667 LLRHQRIALSWMVQKET-----SSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~-----~~~~~~GGILADEMGLGKTl~aIALI~ 710 (1433)
.....++++.|.+.+.. ....++|.||.--.|.|||+.+-|+..
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~ 298 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL 298 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh
Confidence 45678888888887655 233557899999999999999877764
No 300
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=35.48 E-value=1.1e+02 Score=29.90 Aligned_cols=58 Identities=7% Similarity=-0.016 Sum_probs=40.5
Q ss_pred CCCeEEEEcc------cHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEE
Q 000542 1277 GGEKAIVFSQ------WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMI 1334 (1433)
Q Consensus 1277 ~~eKvIIFSq------~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL 1334 (1433)
...+|+||+. |=..-..+.+.|...|++|..++=....+.|+.+.+......-+.|++
T Consensus 10 ~~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~~tvP~vfi 73 (97)
T TIGR00365 10 KENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNWPTIPQLYV 73 (97)
T ss_pred ccCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCCCCCCEEEE
Confidence 5689999975 445677888889999999988876556666666665554433344554
No 301
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=35.44 E-value=2.6e+02 Score=38.17 Aligned_cols=42 Identities=21% Similarity=0.406 Sum_probs=31.8
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHHc
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKE 712 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~~ 712 (1433)
+.|-+.++..-+....+... -++.-|.|-|||.|.--+|+..
T Consensus 171 ~LPa~~~r~~Il~~i~~~qV-------vvIsGeTGcGKTTQvpQfiLd~ 212 (924)
T KOG0920|consen 171 SLPAYKMRDTILDAIEENQV-------VVISGETGCGKTTQVPQFILDE 212 (924)
T ss_pred hCccHHHHHHHHHHHHhCce-------EEEeCCCCCCchhhhhHHHHHH
Confidence 44557777777777764422 5888999999999999999763
No 302
>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=35.37 E-value=2.2e+02 Score=38.30 Aligned_cols=39 Identities=18% Similarity=0.114 Sum_probs=29.3
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI 709 (1433)
..|-+-|+.|+.-++... +=.+|---.|.|||.++-+++
T Consensus 351 ~~Ls~~Q~~Av~~i~~s~------~~~il~G~aGTGKTtll~~i~ 389 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTGSG------DIAVVVGRAGTGKSTMLKAAR 389 (744)
T ss_pred CCCCHHHHHHHHHHhcCC------CEEEEEecCCCCHHHHHHHHH
Confidence 468899999999887421 125788889999998776655
No 303
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.91 E-value=12 Score=43.04 Aligned_cols=29 Identities=45% Similarity=1.008 Sum_probs=24.9
Q ss_pred ccccCCCCCCCcchhcccCc-ccchhhhhh
Q 000542 1114 AICGICNDPPEDAVVSICGH-VFCNQCICE 1142 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH-~fC~~Ci~e 1142 (1433)
..|.||++.|.+=++..||| +-|.+|=..
T Consensus 301 ~LC~ICmDaP~DCvfLeCGHmVtCt~CGkr 330 (350)
T KOG4275|consen 301 RLCAICMDAPRDCVFLECGHMVTCTKCGKR 330 (350)
T ss_pred HHHHHHhcCCcceEEeecCcEEeehhhccc
Confidence 46999999999999999999 678887533
No 304
>PF13173 AAA_14: AAA domain
Probab=34.41 E-value=42 Score=34.18 Aligned_cols=39 Identities=13% Similarity=0.077 Sum_probs=25.3
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000542 908 FRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN 947 (1433)
.+|||||+|++.+.......... -..+.++++||.-...
T Consensus 63 ~~i~iDEiq~~~~~~~~lk~l~d-~~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 63 KYIFIDEIQYLPDWEDALKFLVD-NGPNIKIILTGSSSSL 101 (128)
T ss_pred cEEEEehhhhhccHHHHHHHHHH-hccCceEEEEccchHH
Confidence 46999999999764433222222 2245799999985543
No 305
>PRK05580 primosome assembly protein PriA; Validated
Probab=34.12 E-value=2.1e+02 Score=38.00 Aligned_cols=77 Identities=16% Similarity=0.094 Sum_probs=57.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC-CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~-gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
.+.++||.+.-......+.+.|+.. |+....++|+++..+|.+...+... ++++|+|.+..+. =+.+..-..||+=
T Consensus 189 ~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~-g~~~IVVgTrsal--~~p~~~l~liVvD 265 (679)
T PRK05580 189 QGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKR-GEAKVVIGARSAL--FLPFKNLGLIIVD 265 (679)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHc-CCCCEEEeccHHh--cccccCCCEEEEE
Confidence 4678999999999888888888764 8889999999999999888887776 5678888654332 2445555555554
Q ss_pred c
Q 000542 1356 D 1356 (1433)
Q Consensus 1356 D 1356 (1433)
|
T Consensus 266 E 266 (679)
T PRK05580 266 E 266 (679)
T ss_pred C
Confidence 4
No 306
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=33.00 E-value=1.3e+02 Score=40.11 Aligned_cols=77 Identities=13% Similarity=0.140 Sum_probs=57.0
Q ss_pred CCCeEEEEcccHHHHHHHHH----HHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEA----SLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~----~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V 1352 (1433)
.+.+++|.+.-...+.-+.. .+...|+++..++|+++.++|.+.++...+ +++.|+|.+.......+.+.....|
T Consensus 309 ~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~-g~~~IvVgT~~ll~~~v~~~~l~lv 387 (681)
T PRK10917 309 AGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIAS-GEADIVIGTHALIQDDVEFHNLGLV 387 (681)
T ss_pred cCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhC-CCCCEEEchHHHhcccchhcccceE
Confidence 56789999988776665444 445558999999999999999999999887 6788888765555555555555444
Q ss_pred EE
Q 000542 1353 LL 1354 (1433)
Q Consensus 1353 I~ 1354 (1433)
|+
T Consensus 388 VI 389 (681)
T PRK10917 388 II 389 (681)
T ss_pred EE
Confidence 44
No 307
>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=32.50 E-value=2.2e+02 Score=36.54 Aligned_cols=77 Identities=16% Similarity=0.087 Sum_probs=55.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhC-CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~-gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
.+.++||.+........+.+.|+.. +.....++|.++..+|.+...+-.. ++..|+|.+..+. =+-+.....||+=
T Consensus 24 ~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~-g~~~IVVGTrsal--f~p~~~l~lIIVD 100 (505)
T TIGR00595 24 LGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKN-GEILVVIGTRSAL--FLPFKNLGLIIVD 100 (505)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHc-CCCCEEECChHHH--cCcccCCCEEEEE
Confidence 4678999999998888888888754 7888999999999999888777665 6677777553332 2334455555544
Q ss_pred c
Q 000542 1356 D 1356 (1433)
Q Consensus 1356 D 1356 (1433)
|
T Consensus 101 E 101 (505)
T TIGR00595 101 E 101 (505)
T ss_pred C
Confidence 3
No 308
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=32.48 E-value=67 Score=37.89 Aligned_cols=16 Identities=19% Similarity=0.254 Sum_probs=13.1
Q ss_pred ccCCCEEEEechhhhc
Q 000542 823 LAKFDVVITTYSIVSM 838 (1433)
Q Consensus 823 l~~~DIVITTY~~L~~ 838 (1433)
+..+||||++|..|..
T Consensus 209 ~~~Adivi~ny~yll~ 224 (289)
T smart00489 209 IEFANVVVLPYQYLLD 224 (289)
T ss_pred hhcCCEEEECHHHHhc
Confidence 4578999999998853
No 309
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=32.48 E-value=67 Score=37.89 Aligned_cols=16 Identities=19% Similarity=0.254 Sum_probs=13.1
Q ss_pred ccCCCEEEEechhhhc
Q 000542 823 LAKFDVVITTYSIVSM 838 (1433)
Q Consensus 823 l~~~DIVITTY~~L~~ 838 (1433)
+..+||||++|..|..
T Consensus 209 ~~~Adivi~ny~yll~ 224 (289)
T smart00488 209 IEFANVVVLPYQYLLD 224 (289)
T ss_pred hhcCCEEEECHHHHhc
Confidence 4578999999998853
No 310
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.34 E-value=4.6e+02 Score=33.51 Aligned_cols=38 Identities=18% Similarity=0.090 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHH
Q 000542 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~ 710 (1433)
|-.+.+..++...+ ....-||.-..|.|||-.|..+..
T Consensus 20 ~vv~~L~~a~~~~r---i~ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 20 VLVRILRNAFTLNK---IPQSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred HHHHHHHHHHHcCC---CCceEEEECCCCccHHHHHHHHHH
Confidence 44444444443322 224568889999999987766553
No 311
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.10 E-value=31 Score=43.31 Aligned_cols=51 Identities=27% Similarity=0.660 Sum_probs=39.6
Q ss_pred cccccCCCCCCCc-chhcccCcccchhhhhhhhccC----C---CCCCCcccccccccc
Q 000542 1113 LAICGICNDPPED-AVVSICGHVFCNQCICERLTAD----D---NQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~-~vvt~CgH~fC~~Ci~e~l~~~----~---~~Cp~~~C~~~l~~~ 1163 (1433)
...|.+|.+.... .+...|+|.||..|+..+++.. . .+||...|.......
T Consensus 70 ~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~ 128 (444)
T KOG1815|consen 70 DVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGED 128 (444)
T ss_pred cccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCc
Confidence 3679999888775 6677899999999999987652 1 368999998776543
No 312
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.69 E-value=5e+02 Score=33.48 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=24.2
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
+|-...+..++...+- ...-|+.-..|.|||..+..+...
T Consensus 22 ~~v~~~L~~~i~~~~~---~ha~Lf~Gp~G~GKTt~A~~lAk~ 61 (527)
T PRK14969 22 EHVVRALTNALEQQRL---HHAYLFTGTRGVGKTTLARILAKS 61 (527)
T ss_pred HHHHHHHHHHHHcCCC---CEEEEEECCCCCCHHHHHHHHHHH
Confidence 3444455555543221 123478899999999877666543
No 313
>PF13245 AAA_19: Part of AAA domain
Probab=30.54 E-value=66 Score=30.15 Aligned_cols=20 Identities=30% Similarity=0.410 Sum_probs=16.0
Q ss_pred EEEccCCCChHHHHHHHHHH
Q 000542 692 ILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 692 ILADEMGLGKTl~aIALI~~ 711 (1433)
++---.|.|||-+++.++..
T Consensus 14 vv~g~pGtGKT~~~~~~i~~ 33 (76)
T PF13245_consen 14 VVQGPPGTGKTTTLAARIAE 33 (76)
T ss_pred EEECCCCCCHHHHHHHHHHH
Confidence 44667899999888888865
No 314
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.78 E-value=6.5e+02 Score=33.20 Aligned_cols=40 Identities=18% Similarity=0.215 Sum_probs=24.9
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
+|=+.-+..++...+ ....-|+.-..|.|||..|..++..
T Consensus 22 e~v~~~L~~ai~~~r---i~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 22 ETVKAILSRAAQENR---VAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred HHHHHHHHHHHHcCC---CCceEEEECCCCCCHHHHHHHHHHh
Confidence 344444555554322 1233467899999999988777644
No 315
>PHA00673 acetyltransferase domain containing protein
Probab=28.58 E-value=88 Score=33.59 Aligned_cols=44 Identities=14% Similarity=0.061 Sum_probs=36.3
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChH
Q 000542 907 WFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQNAID 950 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~sral~~L---~a~~RwlLTGTPiqN~l~ 950 (1433)
.+-|.+++.|+=++..++..+.+... +.-++|-+||||..|.++
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 45699999999999888887766555 567899999999999865
No 316
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=27.96 E-value=51 Score=31.81 Aligned_cols=43 Identities=35% Similarity=0.779 Sum_probs=30.3
Q ss_pred ccCCCCCCCc-c-hhcccCcccchhhhhhhhccC--CCCCCCccccccc
Q 000542 1116 CGICNDPPED-A-VVSICGHVFCNQCICERLTAD--DNQCPTRNCKIRL 1160 (1433)
Q Consensus 1116 C~iC~~~~e~-~-vvt~CgH~fC~~Ci~e~l~~~--~~~Cp~~~C~~~l 1160 (1433)
|+.|..|..+ | +.-.|+|.|-..||.+++... ...||. |+...
T Consensus 35 Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CPm--CR~~w 81 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCPM--CRQPW 81 (85)
T ss_pred CCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCCC--cCCee
Confidence 4455544443 3 456799999999999999864 467885 76554
No 317
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=27.96 E-value=28 Score=42.74 Aligned_cols=32 Identities=28% Similarity=0.485 Sum_probs=28.0
Q ss_pred ccCcEEEEEcccCCCChHHHHhhhhccccCCc
Q 000542 933 RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPF 964 (1433)
Q Consensus 933 ~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f 964 (1433)
..++..++||||+.|.+.++|++.++|.++-+
T Consensus 472 ~G~~L~l~sgTpi~ntlgem~~vqRyl~~~al 503 (637)
T COG4646 472 PGRALVLASGTPITNTLGEMFSVQRYLGAGAL 503 (637)
T ss_pred CCCeEEecCCCchhhhHHhhhhhhhhcCccHH
Confidence 34677899999999999999999999987754
No 318
>CHL00181 cbbX CbbX; Provisional
Probab=27.86 E-value=1.2e+02 Score=35.84 Aligned_cols=20 Identities=20% Similarity=0.247 Sum_probs=16.4
Q ss_pred cEEEccCCCChHHHHHHHHH
Q 000542 691 GILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 691 GILADEMGLGKTl~aIALI~ 710 (1433)
-+|-=..|.|||..|-++..
T Consensus 62 ill~G~pGtGKT~lAr~la~ 81 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMAD 81 (287)
T ss_pred EEEECCCCCCHHHHHHHHHH
Confidence 47889999999998877753
No 319
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=27.84 E-value=2.1e+02 Score=36.14 Aligned_cols=37 Identities=8% Similarity=0.078 Sum_probs=22.3
Q ss_pred ccEEEEcCccccCChhh---HHHHHHHhc-ccCcEEEEEcc
Q 000542 907 WFRVVLDEAQSIKNHRT---QVARACWGL-RAKRRWCLSGT 943 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T---~~sral~~L-~a~~RwlLTGT 943 (1433)
.++|||||+|.+.+... ..+..+..+ .....+++|+.
T Consensus 207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd 247 (450)
T PRK14087 207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSD 247 (450)
T ss_pred CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECC
Confidence 46799999999976432 223333333 34446888854
No 320
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=27.61 E-value=2.1e+02 Score=39.43 Aligned_cols=78 Identities=22% Similarity=0.267 Sum_probs=62.0
Q ss_pred ecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec----CCCCcChHHHHHHhhhccCCCC
Q 000542 1307 RLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD----LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1307 ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~----~D----p~WNPa~e~QAIGRahRIGQkr 1378 (1433)
.-++++=+.-|.-+-.-|+. +-++|++ .|...+.|+|+.+=+.|+- +| -|-+|....|--|||.|-|+..
T Consensus 449 vHH~GlLP~~K~~vE~Lfq~-GLvkvvF-aTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD~ 526 (1041)
T COG4581 449 VHHAGLLPAIKELVEELFQE-GLVKVVF-ATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLDV 526 (1041)
T ss_pred hhccccchHHHHHHHHHHhc-cceeEEe-ehhhhhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhccccccc
Confidence 45788888999999999998 8889888 5599999999986655543 22 3457889999999999999998
Q ss_pred cEEEEEEE
Q 000542 1379 PVSVLRLT 1386 (1433)
Q Consensus 1379 ~V~VyrLi 1386 (1433)
.-+|....
T Consensus 527 ~G~vI~~~ 534 (1041)
T COG4581 527 LGTVIVIE 534 (1041)
T ss_pred cceEEEec
Confidence 76665443
No 321
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=27.58 E-value=46 Score=41.39 Aligned_cols=53 Identities=23% Similarity=0.236 Sum_probs=37.4
Q ss_pred ccCccEEEEcCccccCChhhHHHHHHHhc-------cc-CcEEEEEcccCCCChHHHHhhhhccc
Q 000542 904 KVGWFRVVLDEAQSIKNHRTQVARACWGL-------RA-KRRWCLSGTPIQNAIDDLYSYFRFLR 960 (1433)
Q Consensus 904 ~i~W~rVILDEAH~IKN~~T~~sral~~L-------~a-~~RwlLTGTPiqN~l~DLyslL~FL~ 960 (1433)
--.|..+|+|||| .+|..+..+..| +. -+.+.+|+|-.-.++...|+-.-++.
T Consensus 157 l~~y~viiLDeah----ERtlATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~ 217 (699)
T KOG0925|consen 157 LGRYGVIILDEAH----ERTLATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLLA 217 (699)
T ss_pred cccccEEEechhh----hhhHHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCeee
Confidence 3479999999999 566666666555 22 35688999987777777776555553
No 322
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=27.28 E-value=2.4e+02 Score=37.07 Aligned_cols=76 Identities=11% Similarity=0.134 Sum_probs=53.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHH----HhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASL----KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L----~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V 1352 (1433)
.+.+++|-+.....+..+.+.+ ...|+++..++|+++.++|...++...+ +++.|+|.+....-..+.+.....|
T Consensus 283 ~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~-g~~~IiVgT~~ll~~~~~~~~l~lv 361 (630)
T TIGR00643 283 AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIAS-GQIHLVVGTHALIQEKVEFKRLALV 361 (630)
T ss_pred cCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhC-CCCCEEEecHHHHhccccccccceE
Confidence 4568888888776666555444 4458999999999999999999888876 6778888665444444555444444
Q ss_pred E
Q 000542 1353 L 1353 (1433)
Q Consensus 1353 I 1353 (1433)
|
T Consensus 362 V 362 (630)
T TIGR00643 362 I 362 (630)
T ss_pred E
Confidence 3
No 323
>PLN03025 replication factor C subunit; Provisional
Probab=27.19 E-value=1.2e+02 Score=36.03 Aligned_cols=60 Identities=22% Similarity=0.267 Sum_probs=36.5
Q ss_pred CccEEEEcCccccCChhhHH-HHHHHhcccCcEEEEEcccCCCChHHHHhhhhccccCCcc
Q 000542 906 GWFRVVLDEAQSIKNHRTQV-ARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFA 965 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~-sral~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~~f~ 965 (1433)
.|..|||||+|.+-...... .+.+.......+++|+.++...-+..|-+-...+...++.
T Consensus 99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~ 159 (319)
T PLN03025 99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLS 159 (319)
T ss_pred CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCC
Confidence 47899999999985322111 1122222455778898887766566676665555554443
No 324
>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=26.68 E-value=2.3e+02 Score=39.19 Aligned_cols=48 Identities=10% Similarity=0.033 Sum_probs=33.9
Q ss_pred CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCc
Q 000542 1329 EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1329 ~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAIGRahRIGQkr~ 1379 (1433)
...++|++|.....|+++-. +.+| .||. --....|+.||+.|-|+...
T Consensus 837 ~~~~i~v~Tqv~E~g~D~df-d~~~-~~~~-~~~sliQ~aGR~~R~~~~~~ 884 (1110)
T TIGR02562 837 NHLFIVLATPVEEVGRDHDY-DWAI-ADPS-SMRSIIQLAGRVNRHRLEKV 884 (1110)
T ss_pred CCCeEEEEeeeEEEEecccC-Ceee-eccC-cHHHHHHHhhcccccccCCC
Confidence 35567779999999999863 3333 3332 23467899999999998653
No 325
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=26.58 E-value=8.4e+02 Score=31.14 Aligned_cols=19 Identities=37% Similarity=0.405 Sum_probs=15.0
Q ss_pred EEEccCCCChHHHHHHHHH
Q 000542 692 ILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 692 ILADEMGLGKTl~aIALI~ 710 (1433)
|+.=+.|.|||..+..+..
T Consensus 42 Lf~Gp~G~GKTtlAr~lAk 60 (486)
T PRK14953 42 IFAGPRGTGKTTIARILAK 60 (486)
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 6799999999877765553
No 326
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=26.01 E-value=9.3 Score=51.42 Aligned_cols=80 Identities=20% Similarity=0.167 Sum_probs=57.6
Q ss_pred EEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCC
Q 000542 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWN 1360 (1433)
Q Consensus 1281 vIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WN 1360 (1433)
+++|+-...++.+|...+. ..+.+...+...++.+|... +....+.+|.+|..+...+.++++|+
T Consensus 445 ~~~~~v~itty~~l~~~~~--------~~~~l~~~~~~~~v~DEa~~-------ikn~~s~~~~~l~~~~~~~~~~LtgT 509 (866)
T COG0553 445 VIIFDVVITTYELLRRFLV--------DHGGLKKIEWDRVVLDEAHR-------IKNDQSSEGKALQFLKALNRLDLTGT 509 (866)
T ss_pred cceeeEEechHHHHHHhhh--------hHHHHhhceeeeeehhhHHH-------HhhhhhHHHHHHHHHhhcceeeCCCC
Confidence 7899999999999888641 11222222223333333321 35577889999999999999999999
Q ss_pred cChHHHHHHhhhccCCC
Q 000542 1361 PTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1361 Pa~e~QAIGRahRIGQk 1377 (1433)
| .+|+++|.|+++|.
T Consensus 510 P--len~l~eL~sl~~~ 524 (866)
T COG0553 510 P--LENRLGELWSLLQE 524 (866)
T ss_pred h--HhhhHHHHHHHHHH
Confidence 9 79999999999995
No 327
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=25.69 E-value=1.7e+02 Score=27.58 Aligned_cols=51 Identities=16% Similarity=0.273 Sum_probs=29.8
Q ss_pred EEEEeChhh-H-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEech
Q 000542 780 TLVVCPTSV-L-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYS 834 (1433)
Q Consensus 780 TLIVcP~SL-L-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~ 834 (1433)
+|||||... . ..-+..++++++..+ +...+-+..-.. ....++|+||||-.
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~~-i~~~~~~~~~~~---~~~~~~DlIisT~~ 54 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKELG-IEAEVEHTDLGS---AKASSADIIVTSKD 54 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHCC-CcEEEEEecccc---cCCCCCCEEEEchh
Confidence 799999975 3 334557888776333 322222211111 12568999999975
No 328
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=25.65 E-value=53 Score=28.33 Aligned_cols=42 Identities=24% Similarity=0.772 Sum_probs=20.8
Q ss_pred ccCCCCCCCc--chhc--ccCcccchhhhhhhhccCCCCCCCcccccc
Q 000542 1116 CGICNDPPED--AVVS--ICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1116 C~iC~~~~e~--~vvt--~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
|++|.+.... ..+. .|+.-+|..|....+....+.||. |+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPg--Cr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPG--CREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TT--T--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCC--CCCC
Confidence 5677665421 2233 599999999999999888889994 7654
No 329
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=25.48 E-value=31 Score=41.61 Aligned_cols=32 Identities=22% Similarity=0.644 Sum_probs=28.9
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhcc
Q 000542 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTA 1146 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgH~fC~~Ci~e~l~~ 1146 (1433)
.|++|..--++|++.+|+|-+|..|-...+..
T Consensus 6 kc~vc~~f~~epiil~c~h~lc~~ca~~~~~~ 37 (699)
T KOG4367|consen 6 KCPVCGSFYREPIILPCSHNLCQACARNILVQ 37 (699)
T ss_pred cCceehhhccCceEeecccHHHHHHHHhhccc
Confidence 49999999999999999999999999887654
No 330
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=25.44 E-value=81 Score=29.85 Aligned_cols=55 Identities=20% Similarity=0.240 Sum_probs=33.8
Q ss_pred EEEEeChhhH-HHHH-HHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhh
Q 000542 780 TLVVCPTSVL-RQWA-EELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIV 836 (1433)
Q Consensus 780 TLIVcP~SLL-~QW~-~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~~L 836 (1433)
.|+||+..+- ..-. .-+++.+... .+.+.+.++. ..........+|+||++-+.-
T Consensus 2 IlvvC~~Gi~TS~~~~~~i~~~~~~~-gi~~~~~~~~-~~~~~~~~~~~D~il~~~~i~ 58 (90)
T PF02302_consen 2 ILVVCGSGIGTSLMVANKIKKALKEL-GIEVEVSAGS-ILEVEEIADDADLILLTPQIA 58 (90)
T ss_dssp EEEEESSSSHHHHHHHHHHHHHHHHT-TECEEEEEEE-TTTHHHHHTT-SEEEEEESSG
T ss_pred EEEECCChHHHHHHHHHHHHHHHHhc-cCceEEEEec-ccccccccCCCcEEEEcCccc
Confidence 6999998754 3333 4555555533 3777777776 323333455799999997654
No 331
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.38 E-value=43 Score=39.47 Aligned_cols=45 Identities=31% Similarity=0.710 Sum_probs=35.3
Q ss_pred cccccCCCCCCC------cchhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000542 1113 LAICGICNDPPE------DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e------~~vvt~CgH~fC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
...|.+|++.-. .|.+..|||.+|..|+...+......|| .|+..
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cp--fcR~~ 53 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCP--FCRET 53 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeecc--CCCCc
Confidence 357999987532 3667779999999999999998888885 46654
No 332
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=24.28 E-value=1.2e+02 Score=28.78 Aligned_cols=55 Identities=20% Similarity=0.266 Sum_probs=32.7
Q ss_pred cEEEEeChhh-H-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechh
Q 000542 779 GTLVVCPTSV-L-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSI 835 (1433)
Q Consensus 779 ~TLIVcP~SL-L-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~~ 835 (1433)
.+|||||..+ . ..-+..++++++. ..+.+.+-+.....-.. ...++|+||+|-..
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~-~~i~~~v~~~~~~~~~~-~~~~~Dliist~~~ 58 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKE-NGIDVKVEQCKIAEVPS-LLDDADLIVSTTKV 58 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHH-CCCceEEEEecHHHhhc-ccCCCcEEEEcCCc
Confidence 4799999975 3 3567778888763 23333332222111111 34589999999764
No 333
>PRK11054 helD DNA helicase IV; Provisional
Probab=24.27 E-value=1.3e+02 Score=39.90 Aligned_cols=38 Identities=32% Similarity=0.099 Sum_probs=27.2
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
.+|-+-|++||..-. . .-.|+| -.|.|||.++++-+.+
T Consensus 195 ~~L~~~Q~~av~~~~----~----~~lV~a-gaGSGKT~vl~~r~ay 232 (684)
T PRK11054 195 SPLNPSQARAVVNGE----D----SLLVLA-GAGSGKTSVLVARAGW 232 (684)
T ss_pred CCCCHHHHHHHhCCC----C----CeEEEE-eCCCCHHHHHHHHHHH
Confidence 468999999996432 1 113444 4799999999888765
No 334
>PHA03096 p28-like protein; Provisional
Probab=24.12 E-value=38 Score=39.91 Aligned_cols=34 Identities=32% Similarity=0.517 Sum_probs=27.1
Q ss_pred ccccCCCCCCC--------cchhcccCcccchhhhhhhhccC
Q 000542 1114 AICGICNDPPE--------DAVVSICGHVFCNQCICERLTAD 1147 (1433)
Q Consensus 1114 ~~C~iC~~~~e--------~~vvt~CgH~fC~~Ci~e~l~~~ 1147 (1433)
.+|.+|++... ..+++.|.|.||..|+..|....
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~ 220 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTES 220 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhh
Confidence 78999998532 13568899999999999987654
No 335
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=24.02 E-value=60 Score=39.37 Aligned_cols=38 Identities=24% Similarity=0.331 Sum_probs=27.7
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000542 908 FRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T~~sral~~L~a~~RwlLTGTPiqN 947 (1433)
..|||||||++--. ..--.+.+.-...++.|||-|.|-
T Consensus 353 ~FiIIDEaQNLTph--eikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 353 SFIIIDEAQNLTPH--ELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred ceEEEehhhccCHH--HHHHHHHhccCCCEEEEcCCHHHc
Confidence 46999999999533 333344556778899999999773
No 336
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=23.58 E-value=1.4e+02 Score=35.48 Aligned_cols=60 Identities=18% Similarity=0.216 Sum_probs=52.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcC-----CCccEEEee
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTL-----PEVSVMIMS 1336 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d-----~~v~VLL~S 1336 (1433)
.+++|||--.-..+-.-.+..|+..||++.|+-|....+--+++...|+++ ++++|.|++
T Consensus 75 npd~VLIIGGp~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~ 139 (337)
T COG2247 75 NPDLVLIIGGPIAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVY 139 (337)
T ss_pred CCceEEEECCCCcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEe
Confidence 789999999999999999999999999999999998888888888888742 457787776
No 337
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=23.58 E-value=1.1e+03 Score=30.70 Aligned_cols=21 Identities=19% Similarity=0.257 Sum_probs=16.4
Q ss_pred cEEEccCCCChHHHHHHHHHH
Q 000542 691 GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 691 GILADEMGLGKTl~aIALI~~ 711 (1433)
-|+.=..|.|||..+-.+...
T Consensus 41 yLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 41 YLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 466899999999988666533
No 338
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=23.36 E-value=1.8e+02 Score=38.34 Aligned_cols=45 Identities=18% Similarity=0.164 Sum_probs=33.8
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEccCCCChHHHHHHHHHH
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTl~aIALI~~ 711 (1433)
..+.|++|+..+.-+..-... ..++++=-.+|.|||+..|+.++.
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~~~---~~~~~iEapTGtGKTl~yL~~al~ 57 (654)
T COG1199 13 GFEPRPEQREMAEAVAEALKG---GEGLLIEAPTGTGKTLAYLLPALA 57 (654)
T ss_pred CCCCCHHHHHHHHHHHHHHcC---CCcEEEECCCCccHHHHHHHHHHH
Confidence 346899999998888743332 134777788999999999877765
No 339
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=23.30 E-value=1.4e+02 Score=36.30 Aligned_cols=43 Identities=28% Similarity=0.243 Sum_probs=30.3
Q ss_pred ccccCccEEEEcCcccc--CChhhHHHHHHHhcc-cCcEEEEEccc
Q 000542 902 LAKVGWFRVVLDEAQSI--KNHRTQVARACWGLR-AKRRWCLSGTP 944 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~I--KN~~T~~sral~~L~-a~~RwlLTGTP 944 (1433)
|..-.....|+|||... ++...+.+.....+. .-..+++|||-
T Consensus 165 l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~l~SAT~ 210 (397)
T KOG0327|consen 165 LSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVVLLSATM 210 (397)
T ss_pred ccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhheeecccC
Confidence 33444567999999876 456677777777774 44678889984
No 340
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=22.92 E-value=4.1e+02 Score=35.02 Aligned_cols=14 Identities=29% Similarity=0.349 Sum_probs=11.6
Q ss_pred ccEEEEcCccccCC
Q 000542 907 WFRVVLDEAQSIKN 920 (1433)
Q Consensus 907 W~rVILDEAH~IKN 920 (1433)
=..|||||||++-+
T Consensus 349 dsIvIiDEAHNlid 362 (821)
T KOG1133|consen 349 DSIVIIDEAHNLID 362 (821)
T ss_pred ccEEEEechhHHHH
Confidence 35799999999865
No 341
>KOG3629 consensus Guanine-nucleotide releasing factor [Signal transduction mechanisms]
Probab=22.43 E-value=4.2e+02 Score=33.63 Aligned_cols=76 Identities=22% Similarity=0.131 Sum_probs=41.3
Q ss_pred HHHhhhccccCCCCCCCCCCCcccc-----------CCCccccccccCCCCcccccCCCcccccccccccCCCccccCC-
Q 000542 31 TLLGILEEEKQPDRVKSSPGDLSLR-----------NLSQDELVQDVGSHSNLQLQSGFKGDMRDIATYPLYGLEISGA- 98 (1433)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 98 (1433)
+|.--+++|++++.+.-+| -+.| |..-.-++||+|--.- |..++-.+..--++..|-++++
T Consensus 463 s~~~s~eiE~p~~~stp~p--~~~r~ss~~sq~~~i~~~~~~ptp~~~~~~p-----~~sG~s~~~~~~~~~t~~~~~a~ 535 (728)
T KOG3629|consen 463 SIIQSCEIEKPPMHSTPDP--SSSRISSTNSQIPSINTLNIGPTPDGGPPGP-----PLSGTSTLPRGSNTNTPSSANAS 535 (728)
T ss_pred HHHHhhcccCCCCCCCCCC--ccccchhhhhhhHHHhhccccCCCCCCCCCC-----CCCCCcCCCCCCCcCCcchhccc
Confidence 4444567766555444333 3333 3333456676665443 2233334555555566666666
Q ss_pred -CCCCCCCCCCCCCCC
Q 000542 99 -ESGGLGDSSSQLEPT 113 (1433)
Q Consensus 99 -~~~~~~~~~~~~~~~ 113 (1433)
+++..||.++---|+
T Consensus 536 w~s~s~~d~~~e~~~s 551 (728)
T KOG3629|consen 536 WTSGSEFDPSSEFPYS 551 (728)
T ss_pred CCCCCCcCccccCCcc
Confidence 788899998554333
No 342
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=22.29 E-value=1.7e+02 Score=26.45 Aligned_cols=53 Identities=28% Similarity=0.381 Sum_probs=31.9
Q ss_pred EEEEeChhhH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechh
Q 000542 780 TLVVCPTSVL--RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSI 835 (1433)
Q Consensus 780 TLIVcP~SLL--~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~l~~~DIVITTY~~ 835 (1433)
+|+|||...- ..-+..|++.++..+....+-+.+-... ....++|+||+|-..
T Consensus 2 il~vc~~G~~~s~~l~~~l~~~~~~~~~~~~~~~~~~~~~---~~~~~~dliitt~~~ 56 (84)
T cd00133 2 ILVVCGSGIGSSSMLAEKLEKAAKELGIEVKVEAQGLSEV---IDLADADLIISTVPL 56 (84)
T ss_pred EEEECCCcHhHHHHHHHHHHHHHHHCCCeEEEEEcccchh---hhcCCccEEEECCcc
Confidence 6899999853 3455777777764333223222222211 456789999999753
No 343
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=21.91 E-value=1.4e+02 Score=36.83 Aligned_cols=77 Identities=16% Similarity=0.221 Sum_probs=53.0
Q ss_pred CCCeEEEEcc-cHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000542 1277 GGEKAIVFSQ-WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIIFSq-~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~ 1355 (1433)
+|.++|+... |-.+..+++..|++.||.+..++.....+..+++ .. ++. .+|++
T Consensus 101 ~GD~vl~~~~~YG~t~~~~~~~l~~~gi~~~~~d~~~~~~~~~~~----~~-~~t--------------------k~v~l 155 (396)
T COG0626 101 AGDHVLLPDDLYGGTYRLFEKILQKFGVEVTFVDPGDDEALEAAI----KE-PNT--------------------KLVFL 155 (396)
T ss_pred CCCEEEecCCccchHHHHHHHHHHhcCeEEEEECCCChHHHHHHh----cc-cCc--------------------eEEEE
Confidence 5777777766 7788889999999999998888777543333332 21 233 45568
Q ss_pred cCCCCcChHHHHHHhhhccCCCC
Q 000542 1356 DLWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1356 Dp~WNPa~e~QAIGRahRIGQkr 1378 (1433)
|.+-||..+.+=|.++-|+-...
T Consensus 156 EtPsNP~l~v~DI~~i~~~A~~~ 178 (396)
T COG0626 156 ETPSNPLLEVPDIPAIARLAKAY 178 (396)
T ss_pred eCCCCcccccccHHHHHHHHHhc
Confidence 88888888777777666665444
No 344
>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=21.74 E-value=2.3e+02 Score=35.02 Aligned_cols=21 Identities=29% Similarity=0.115 Sum_probs=16.6
Q ss_pred CcEEEccCCCChHHHHHHHHH
Q 000542 690 GGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 690 GGILADEMGLGKTl~aIALI~ 710 (1433)
.-+|-=..|+|||..+-|+..
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~ 158 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGN 158 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHH
Confidence 347888999999988876653
No 345
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=21.39 E-value=2.4e+02 Score=35.37 Aligned_cols=21 Identities=29% Similarity=0.115 Sum_probs=16.7
Q ss_pred CcEEEccCCCChHHHHHHHHH
Q 000542 690 GGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 690 GGILADEMGLGKTl~aIALI~ 710 (1433)
.-+|--..|+|||..+-|+..
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~ 170 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGN 170 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 457889999999988766653
No 346
>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=20.62 E-value=6.9e+02 Score=31.54 Aligned_cols=63 Identities=16% Similarity=0.214 Sum_probs=52.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhCCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccc
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAAS 1341 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~ridGsms~~eR~~~I~~Fn~d~~v~VLL~StkaGg 1341 (1433)
+..+||.+.....+.-....|...|++...+.|..+..++..++..... +.+++++++.....
T Consensus 51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~-~~~~il~~TPe~l~ 113 (470)
T TIGR00614 51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKD-GKIKLLYVTPEKCS 113 (470)
T ss_pred CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhc-CCCCEEEECHHHHc
Confidence 4578999998888777777888899999999999999988888888855 77889998876643
No 347
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.36 E-value=55 Score=39.47 Aligned_cols=47 Identities=34% Similarity=0.882 Sum_probs=32.6
Q ss_pred cccccCCCCCCC--cc--hhcccCcccchhhhhhhhccCCC--CCCCcccccccc
Q 000542 1113 LAICGICNDPPE--DA--VVSICGHVFCNQCICERLTADDN--QCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e--~~--vvt~CgH~fC~~Ci~e~l~~~~~--~Cp~~~C~~~l~ 1161 (1433)
.++|.||.+.-. .. -+..|||+|=..|+-.|...+.. .||. |+-++.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpi--c~ik~~ 56 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPI--CQIKLQ 56 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCc--eeeccc
Confidence 368999966422 22 34569999999999999877654 5774 664433
Done!