Query 000539
Match_columns 1433
No_of_seqs 343 out of 2218
Neff 6.5
Searched_HMMs 46136
Date Mon Apr 1 18:33:41 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000539.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000539hhsearch_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 5E-103 1E-107 887.7 33.7 576 656-1432 175-790 (791)
2 KOG4439 RNA polymerase II tran 100.0 1.6E-86 3.4E-91 780.9 39.9 548 654-1433 313-901 (901)
3 KOG0385 Chromatin remodeling c 100.0 7.3E-84 1.6E-88 764.6 37.0 459 658-1413 159-623 (971)
4 KOG0387 Transcription-coupled 100.0 5.8E-82 1.3E-86 753.2 37.9 473 658-1433 198-699 (923)
5 KOG0392 SNF2 family DNA-depend 100.0 1.3E-81 2.9E-86 770.2 36.2 528 637-1432 949-1495(1549)
6 KOG0384 Chromodomain-helicase 100.0 8.3E-82 1.8E-86 777.4 32.9 601 509-1431 241-856 (1373)
7 KOG1001 Helicase-like transcri 100.0 4.1E-81 8.9E-86 775.8 30.6 556 649-1412 117-673 (674)
8 PLN03142 Probable chromatin-re 100.0 1.9E-78 4.1E-83 777.7 47.4 474 658-1432 162-641 (1033)
9 KOG0389 SNF2 family DNA-depend 100.0 2.6E-79 5.6E-84 729.2 33.9 495 665-1414 398-913 (941)
10 KOG0391 SNF2 family DNA-depend 100.0 8.5E-77 1.8E-81 716.9 34.2 582 657-1433 606-1429(1958)
11 KOG0388 SNF2 family DNA-depend 100.0 2.7E-74 5.8E-79 672.2 32.6 544 660-1414 561-1179(1185)
12 KOG0390 DNA repair protein, SN 100.0 5.9E-66 1.3E-70 635.2 39.4 494 659-1432 231-748 (776)
13 KOG0386 Chromatin remodeling c 100.0 2.3E-67 5E-72 639.3 19.0 461 656-1411 384-860 (1157)
14 KOG1015 Transcription regulato 100.0 5.5E-61 1.2E-65 572.9 32.6 580 663-1432 665-1317(1567)
15 COG0553 HepA Superfamily II DN 100.0 1.9E-60 4.1E-65 626.4 35.7 495 661-1432 333-864 (866)
16 KOG1016 Predicted DNA helicase 100.0 1.2E-53 2.6E-58 501.7 25.4 580 664-1432 252-889 (1387)
17 KOG1000 Chromatin remodeling p 100.0 1.5E-52 3.3E-57 478.4 31.3 417 664-1409 196-623 (689)
18 PRK04914 ATP-dependent helicas 100.0 7E-52 1.5E-56 531.7 35.2 421 663-1412 149-628 (956)
19 KOG0298 DEAD box-containing he 100.0 2.5E-50 5.4E-55 501.0 16.9 258 776-1078 419-691 (1394)
20 PF00176 SNF2_N: SNF2 family N 100.0 1.3E-42 2.7E-47 401.3 17.6 291 670-1078 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 1.7E-34 3.7E-39 360.6 36.6 115 1277-1397 495-615 (732)
22 KOG0383 Predicted helicase [Ge 100.0 5.8E-37 1.3E-41 376.3 8.5 378 665-1343 294-696 (696)
23 PRK13766 Hef nuclease; Provisi 100.0 1.9E-29 4.1E-34 329.0 41.1 125 1277-1406 364-496 (773)
24 COG1111 MPH1 ERCC4-like helica 99.9 1.2E-23 2.6E-28 246.1 35.3 456 665-1406 14-498 (542)
25 COG1061 SSL2 DNA or RNA helica 99.9 1.1E-22 2.4E-27 248.2 33.7 122 1277-1401 282-406 (442)
26 PHA02558 uvsW UvsW helicase; P 99.9 1.3E-22 2.9E-27 251.8 33.9 113 1277-1390 343-456 (501)
27 KOG1123 RNA polymerase II tran 99.9 2.2E-20 4.8E-25 215.3 20.8 112 1277-1394 542-658 (776)
28 PTZ00110 helicase; Provisional 99.8 6E-18 1.3E-22 212.1 31.5 109 1277-1389 376-484 (545)
29 PRK11776 ATP-dependent RNA hel 99.8 9.4E-18 2E-22 207.0 32.1 109 1277-1389 241-349 (460)
30 PRK11192 ATP-dependent RNA hel 99.8 1.4E-17 3E-22 204.1 29.2 104 1277-1382 244-347 (434)
31 KOG0354 DEAD-box like helicase 99.8 7.9E-17 1.7E-21 199.1 33.6 105 1277-1387 412-527 (746)
32 TIGR00614 recQ_fam ATP-depende 99.8 1.8E-17 3.9E-22 204.9 28.0 105 1277-1383 225-329 (470)
33 PLN00206 DEAD-box ATP-dependen 99.8 3.9E-17 8.4E-22 204.0 30.1 107 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 4.4E-17 9.6E-22 200.7 28.3 108 1278-1389 245-352 (456)
36 PRK04537 ATP-dependent RNA hel 99.8 1E-16 2.2E-21 201.8 29.6 108 1277-1388 256-363 (572)
37 PTZ00424 helicase 45; Provisio 99.8 9.2E-17 2E-21 194.5 27.4 108 1278-1389 267-374 (401)
38 PRK01297 ATP-dependent RNA hel 99.8 1.3E-16 2.8E-21 197.6 28.9 108 1278-1389 335-442 (475)
39 PRK11634 ATP-dependent RNA hel 99.8 3.7E-16 8.1E-21 198.0 33.0 100 1278-1379 245-344 (629)
40 PRK11057 ATP-dependent DNA hel 99.7 1.7E-16 3.8E-21 201.5 28.8 101 1277-1379 235-335 (607)
41 TIGR01389 recQ ATP-dependent D 99.7 1.7E-16 3.7E-21 201.5 28.4 102 1278-1381 224-325 (591)
42 TIGR00643 recG ATP-dependent D 99.7 1.4E-15 3E-20 194.0 31.0 79 1301-1381 481-560 (630)
43 PRK11448 hsdR type I restricti 99.7 8.3E-16 1.8E-20 203.7 28.9 106 1278-1386 698-815 (1123)
44 TIGR00580 mfd transcription-re 99.7 2.5E-15 5.4E-20 196.0 29.7 108 1277-1388 659-769 (926)
45 PRK10689 transcription-repair 99.7 3E-15 6.6E-20 199.0 29.5 102 1278-1381 809-913 (1147)
46 PRK10917 ATP-dependent DNA hel 99.7 5.9E-15 1.3E-19 189.6 30.0 76 1302-1379 505-581 (681)
47 PLN03137 ATP-dependent DNA hel 99.7 4.5E-15 9.8E-20 191.1 27.0 104 1278-1383 680-783 (1195)
48 KOG0331 ATP-dependent RNA heli 99.6 2E-14 4.2E-19 173.6 24.3 101 1277-1379 340-440 (519)
49 TIGR03817 DECH_helic helicase/ 99.6 1.6E-13 3.5E-18 177.3 29.8 115 1278-1396 271-393 (742)
50 PRK13767 ATP-dependent helicas 99.6 4.7E-13 1E-17 176.3 30.2 104 1278-1383 284-394 (876)
51 PRK02362 ski2-like helicase; P 99.6 3.5E-13 7.7E-18 175.3 27.5 81 1304-1386 305-394 (737)
52 TIGR00348 hsdR type I site-spe 99.6 5.2E-13 1.1E-17 171.1 27.5 108 1278-1387 514-649 (667)
53 COG0513 SrmB Superfamily II DN 99.5 3E-12 6.5E-17 159.7 29.4 119 1279-1402 274-392 (513)
54 PRK01172 ski2-like helicase; P 99.5 2.6E-12 5.5E-17 166.0 29.2 72 1305-1379 288-368 (674)
55 cd00079 HELICc Helicase superf 99.5 7.1E-14 1.5E-18 141.3 11.5 105 1277-1383 27-131 (131)
56 TIGR01587 cas3_core CRISPR-ass 99.5 1.7E-12 3.8E-17 155.1 24.1 108 1277-1389 221-338 (358)
57 PRK00254 ski2-like helicase; P 99.5 5.6E-12 1.2E-16 163.8 29.0 84 1304-1389 297-388 (720)
58 KOG0330 ATP-dependent RNA heli 99.4 7.3E-12 1.6E-16 143.1 21.6 123 1277-1403 299-423 (476)
59 PRK09200 preprotein translocas 99.4 3.3E-11 7.2E-16 153.9 30.2 113 1277-1398 427-547 (790)
60 TIGR03714 secA2 accessory Sec 99.4 2.2E-12 4.7E-17 163.2 19.3 98 1277-1379 423-529 (762)
61 COG1200 RecG RecG-like helicas 99.4 1.4E-11 2.9E-16 151.4 23.8 74 1302-1377 507-581 (677)
62 KOG0328 Predicted ATP-dependen 99.4 8.6E-12 1.9E-16 137.0 19.4 109 1279-1391 267-375 (400)
63 PRK12898 secA preprotein trans 99.4 5.7E-11 1.2E-15 149.0 28.2 114 1277-1399 472-593 (656)
64 PF04851 ResIII: Type III rest 99.4 8.8E-13 1.9E-17 141.1 10.1 167 665-945 2-183 (184)
65 TIGR02621 cas3_GSU0051 CRISPR- 99.4 1.7E-10 3.6E-15 147.7 32.0 104 1277-1385 271-390 (844)
66 PF00271 Helicase_C: Helicase 99.4 4.7E-13 1E-17 124.4 6.6 78 1296-1375 1-78 (78)
67 PRK05580 primosome assembly pr 99.4 9.2E-11 2E-15 150.8 26.8 95 1290-1386 438-548 (679)
68 TIGR00963 secA preprotein tran 99.3 6.7E-12 1.4E-16 157.9 14.9 101 1277-1381 404-511 (745)
69 smart00487 DEXDc DEAD-like hel 99.3 7.5E-12 1.6E-16 134.1 13.2 164 665-950 7-176 (201)
70 COG4096 HsdR Type I site-speci 99.3 9.4E-11 2E-15 145.6 23.0 107 1278-1386 426-545 (875)
71 KOG0350 DEAD-box ATP-dependent 99.3 1.4E-10 3E-15 136.2 21.8 107 1277-1387 428-538 (620)
72 PHA02653 RNA helicase NPH-II; 99.3 1.4E-09 3E-14 138.5 31.8 110 1278-1393 395-518 (675)
73 KOG0333 U5 snRNP-like RNA heli 99.3 1.9E-10 4.1E-15 135.6 21.6 110 1278-1390 517-626 (673)
74 PRK09401 reverse gyrase; Revie 99.3 5E-10 1.1E-14 150.2 27.8 90 1279-1374 329-431 (1176)
75 TIGR03158 cas3_cyano CRISPR-as 99.3 5.4E-10 1.2E-14 133.9 24.5 85 1277-1372 271-357 (357)
76 cd00046 DEXDc DEAD-like helica 99.2 4.7E-11 1E-15 120.4 12.1 137 690-944 2-144 (144)
77 smart00490 HELICc helicase sup 99.2 1.4E-11 3.1E-16 114.0 7.5 81 1293-1375 2-82 (82)
78 KOG0335 ATP-dependent RNA heli 99.2 8.9E-10 1.9E-14 131.8 24.4 105 1277-1383 336-440 (482)
79 KOG4284 DEAD box protein [Tran 99.2 7.6E-10 1.6E-14 132.6 21.8 109 1278-1389 272-380 (980)
80 TIGR00595 priA primosomal prot 99.2 1.2E-09 2.6E-14 136.0 23.4 95 1292-1388 272-382 (505)
81 COG1201 Lhr Lhr-like helicases 99.2 3.1E-09 6.6E-14 135.7 27.0 120 1279-1404 254-375 (814)
82 PRK09751 putative ATP-dependen 99.2 2E-09 4.3E-14 145.2 26.1 95 1278-1374 244-371 (1490)
83 KOG0336 ATP-dependent RNA heli 99.2 1.5E-09 3.3E-14 124.3 20.8 110 1277-1389 464-573 (629)
84 TIGR01054 rgy reverse gyrase. 99.1 2.8E-09 6E-14 143.3 24.2 76 1278-1358 326-408 (1171)
85 PRK13104 secA preprotein trans 99.1 3.3E-09 7.2E-14 135.7 22.9 113 1277-1398 443-593 (896)
86 TIGR01970 DEAH_box_HrpB ATP-de 99.1 7.3E-09 1.6E-13 134.9 26.0 107 1279-1390 210-337 (819)
87 COG0514 RecQ Superfamily II DN 99.1 1E-08 2.2E-13 126.8 24.9 103 1278-1382 230-332 (590)
88 COG1205 Distinct helicase fami 99.1 5.3E-09 1.2E-13 136.6 22.9 119 1277-1399 305-432 (851)
89 KOG0343 RNA Helicase [RNA proc 99.1 1.1E-08 2.3E-13 121.6 22.4 122 1277-1403 312-435 (758)
90 KOG0342 ATP-dependent RNA heli 99.1 1.4E-08 3.1E-13 119.8 23.1 99 1279-1379 331-429 (543)
91 PRK12906 secA preprotein trans 99.1 4.6E-09 9.9E-14 133.8 20.6 100 1277-1380 439-546 (796)
92 KOG0348 ATP-dependent RNA heli 99.1 2.6E-08 5.6E-13 118.1 24.7 122 1277-1404 424-567 (708)
93 PRK14701 reverse gyrase; Provi 99.0 3E-08 6.4E-13 136.3 27.8 94 1278-1377 330-446 (1638)
94 COG1202 Superfamily II helicas 99.0 1E-08 2.2E-13 122.1 20.1 118 1279-1399 441-572 (830)
95 COG1204 Superfamily II helicas 99.0 1.1E-08 2.4E-13 132.0 21.9 103 666-837 31-134 (766)
96 PRK11664 ATP-dependent RNA hel 99.0 3.4E-08 7.5E-13 128.9 25.9 109 1278-1391 212-341 (812)
97 PRK09694 helicase Cas3; Provis 99.0 1.4E-07 3E-12 123.2 30.9 98 1277-1377 559-665 (878)
98 PRK12904 preprotein translocas 99.0 2.4E-08 5.2E-13 127.9 22.2 112 1277-1397 429-578 (830)
99 KOG0338 ATP-dependent RNA heli 99.0 9.2E-09 2E-13 121.2 16.6 97 1279-1377 427-523 (691)
100 KOG0339 ATP-dependent RNA heli 99.0 7.2E-08 1.6E-12 113.6 23.7 111 1278-1392 468-578 (731)
101 COG1197 Mfd Transcription-repa 99.0 1.3E-07 2.9E-12 122.6 28.2 118 1279-1400 804-929 (1139)
102 PRK13107 preprotein translocas 98.9 9.8E-08 2.1E-12 122.2 23.3 113 1277-1398 448-597 (908)
103 KOG0345 ATP-dependent RNA heli 98.9 3.1E-07 6.6E-12 108.1 25.3 104 1277-1382 254-359 (567)
104 COG4889 Predicted helicase [Ge 98.9 3.1E-08 6.8E-13 121.9 16.9 77 1302-1379 499-577 (1518)
105 cd00268 DEADc DEAD-box helicas 98.8 2.4E-08 5.1E-13 109.7 12.9 109 666-838 21-132 (203)
106 PRK12900 secA preprotein trans 98.8 1.3E-06 2.9E-11 112.4 28.4 114 1277-1399 597-718 (1025)
107 KOG0952 DNA/RNA helicase MER3/ 98.7 1.5E-06 3.3E-11 110.3 22.4 83 1308-1392 402-494 (1230)
108 KOG0332 ATP-dependent RNA heli 98.6 2.7E-07 5.9E-12 105.8 12.5 110 1279-1392 331-447 (477)
109 PF00270 DEAD: DEAD/DEAH box h 98.6 1.9E-07 4.1E-12 99.0 9.7 158 669-951 2-168 (169)
110 KOG0334 RNA helicase [RNA proc 98.6 1.9E-06 4.1E-11 110.4 19.5 108 1277-1388 612-719 (997)
111 TIGR01967 DEAH_box_HrpA ATP-de 98.6 5.7E-06 1.2E-10 111.2 24.8 108 1278-1392 279-407 (1283)
112 PRK11131 ATP-dependent RNA hel 98.5 3.8E-06 8.2E-11 112.4 22.8 108 1278-1392 286-414 (1294)
113 KOG0341 DEAD-box protein abstr 98.5 2.5E-07 5.5E-12 105.9 9.9 125 1277-1405 420-548 (610)
114 PRK12326 preprotein translocas 98.5 1.1E-05 2.3E-10 101.8 24.5 115 1277-1400 426-555 (764)
115 PF13872 AAA_34: P-loop contai 98.5 2.8E-06 6.1E-11 97.5 17.5 245 667-1036 38-302 (303)
116 COG1203 CRISPR-associated heli 98.5 1.6E-05 3.5E-10 103.9 26.0 127 1277-1407 439-570 (733)
117 TIGR00631 uvrb excinuclease AB 98.5 1.1E-06 2.4E-11 112.6 14.2 117 1277-1398 441-564 (655)
118 PF11496 HDA2-3: Class II hist 98.4 9.9E-06 2.1E-10 94.4 18.1 123 1277-1400 116-256 (297)
119 KOG1513 Nuclear helicase MOP-3 98.4 0.0001 2.2E-09 91.2 26.9 86 1322-1409 851-944 (1300)
120 PRK05298 excinuclease ABC subu 98.4 4.3E-06 9.2E-11 107.8 16.1 107 1277-1388 445-556 (652)
121 KOG0326 ATP-dependent RNA heli 98.3 4.7E-07 1E-11 101.8 4.6 98 1279-1378 323-420 (459)
122 PRK12899 secA preprotein trans 98.3 5.9E-05 1.3E-09 97.5 22.8 112 1277-1398 567-687 (970)
123 COG4098 comFA Superfamily II D 98.3 0.0011 2.3E-08 76.5 30.2 95 1277-1376 304-403 (441)
124 COG0556 UvrB Helicase subunit 98.3 0.0017 3.8E-08 78.6 33.0 123 1277-1402 445-572 (663)
125 PF13871 Helicase_C_4: Helicas 98.2 1.9E-06 4E-11 98.7 7.4 95 1319-1415 52-154 (278)
126 KOG0340 ATP-dependent RNA heli 98.2 6.2E-06 1.4E-10 94.5 10.0 101 1277-1379 253-353 (442)
127 TIGR00596 rad1 DNA repair prot 98.2 0.00019 4.1E-09 93.7 24.3 111 907-1052 32-148 (814)
128 PRK13103 secA preprotein trans 98.1 8.5E-05 1.9E-09 96.0 20.0 112 1277-1398 448-597 (913)
129 PRK12903 secA preprotein trans 98.1 0.00037 8.1E-09 89.5 23.3 113 1277-1398 425-545 (925)
130 KOG0327 Translation initiation 98.0 9.6E-06 2.1E-10 94.3 7.6 107 1279-1389 264-370 (397)
131 KOG0344 ATP-dependent RNA heli 98.0 2.4E-05 5.2E-10 95.2 9.9 103 1279-1383 388-492 (593)
132 COG1198 PriA Primosomal protei 97.9 0.00054 1.2E-08 88.0 22.1 96 1292-1389 494-605 (730)
133 COG1110 Reverse gyrase [DNA re 97.7 0.00058 1.3E-08 87.8 17.2 75 1278-1358 335-416 (1187)
134 KOG0947 Cytoplasmic exosomal R 97.7 0.0009 2E-08 85.1 17.1 81 1307-1390 635-723 (1248)
135 KOG0347 RNA helicase [RNA proc 97.5 9.4E-05 2E-09 89.0 5.9 130 1277-1409 462-611 (731)
136 KOG0953 Mitochondrial RNA heli 97.5 0.00056 1.2E-08 82.8 10.9 106 1277-1386 357-474 (700)
137 KOG0948 Nuclear exosomal RNA h 97.4 0.0029 6.3E-08 78.9 17.0 83 1309-1394 453-543 (1041)
138 KOG0823 Predicted E3 ubiquitin 97.4 5.1E-05 1.1E-09 83.1 1.5 57 1111-1167 45-101 (230)
139 KOG0349 Putative DEAD-box RNA 97.4 0.00033 7.1E-09 82.0 8.0 95 1277-1373 504-601 (725)
140 KOG0949 Predicted helicase, DE 97.4 0.019 4E-07 73.9 23.3 69 1308-1378 968-1037(1330)
141 KOG0951 RNA helicase BRR2, DEA 97.4 0.016 3.4E-07 76.1 22.4 70 1303-1375 608-688 (1674)
142 PRK12901 secA preprotein trans 97.3 0.036 7.9E-07 72.9 25.6 112 1277-1397 627-746 (1112)
143 KOG0353 ATP-dependent DNA heli 97.3 0.0073 1.6E-07 69.8 17.1 88 1277-1366 316-403 (695)
144 CHL00122 secA preprotein trans 97.2 0.015 3.1E-07 75.7 20.4 66 1277-1345 423-489 (870)
145 KOG0346 RNA helicase [RNA proc 97.2 0.00052 1.1E-08 81.0 6.6 109 1278-1389 268-410 (569)
146 KOG0351 ATP-dependent DNA heli 97.2 0.00069 1.5E-08 89.3 8.4 105 1277-1383 484-588 (941)
147 PRK15483 type III restriction- 97.2 0.0033 7E-08 82.7 14.0 37 909-946 204-240 (986)
148 PF07652 Flavi_DEAD: Flaviviru 97.2 0.003 6.5E-08 65.8 10.9 43 903-946 92-138 (148)
149 PLN03208 E3 ubiquitin-protein 97.1 0.00024 5.3E-09 76.7 2.6 52 1113-1166 18-84 (193)
150 PF13923 zf-C3HC4_2: Zinc fing 97.0 0.00031 6.7E-09 56.9 1.7 37 1116-1153 1-38 (39)
151 COG0610 Type I site-specific r 96.9 0.0041 8.9E-08 83.5 12.1 69 1316-1386 579-650 (962)
152 smart00504 Ubox Modified RING 96.9 0.00045 9.8E-09 61.7 1.9 47 1115-1164 3-49 (63)
153 PRK12902 secA preprotein trans 96.9 0.06 1.3E-06 70.2 21.2 64 1277-1343 438-502 (939)
154 KOG0317 Predicted E3 ubiquitin 96.8 0.0005 1.1E-08 77.6 1.8 50 1114-1166 240-289 (293)
155 KOG0978 E3 ubiquitin ligase in 96.8 0.00043 9.2E-09 87.2 1.5 48 1115-1164 645-692 (698)
156 PF15227 zf-C3HC4_4: zinc fing 96.8 0.0007 1.5E-08 55.9 2.2 33 1116-1148 1-33 (42)
157 KOG0320 Predicted E3 ubiquitin 96.8 0.00052 1.1E-08 72.3 1.7 51 1112-1165 130-182 (187)
158 PF00097 zf-C3HC4: Zinc finger 96.4 0.002 4.3E-08 52.6 2.0 37 1116-1152 1-39 (41)
159 COG4581 Superfamily II RNA hel 96.3 0.02 4.4E-07 75.8 11.6 168 659-959 112-283 (1041)
160 KOG0337 ATP-dependent RNA heli 96.2 0.0048 1E-07 72.9 5.1 99 1278-1378 261-359 (529)
161 PF13086 AAA_11: AAA domain; P 96.2 0.086 1.9E-06 58.5 14.8 39 666-711 1-40 (236)
162 KOG0352 ATP-dependent DNA heli 96.2 0.011 2.3E-07 69.9 7.4 103 1279-1383 256-358 (641)
163 PF13445 zf-RING_UBOX: RING-ty 96.0 0.0023 5E-08 53.1 0.8 30 1116-1146 1-34 (43)
164 PF13920 zf-C3HC4_3: Zinc fing 96.0 0.0044 9.5E-08 53.0 2.5 44 1114-1160 3-47 (50)
165 KOG2164 Predicted E3 ubiquitin 96.0 0.0037 8.1E-08 75.6 2.5 53 1113-1165 186-240 (513)
166 TIGR00599 rad18 DNA repair pro 95.8 0.0051 1.1E-07 74.1 2.6 48 1113-1163 26-73 (397)
167 PHA02929 N1R/p28-like protein; 95.7 0.01 2.2E-07 67.1 4.2 46 1113-1161 174-227 (238)
168 smart00184 RING Ring finger. E 95.7 0.0067 1.5E-07 47.6 2.0 37 1116-1152 1-37 (39)
169 TIGR01407 dinG_rel DnaQ family 95.3 0.097 2.1E-06 70.3 12.4 100 1277-1381 673-808 (850)
170 COG5574 PEX10 RING-finger-cont 95.1 0.009 2E-07 66.9 1.5 48 1114-1163 216-264 (271)
171 KOG1802 RNA helicase nonsense 95.1 0.058 1.3E-06 67.1 8.2 81 666-818 410-491 (935)
172 PF04564 U-box: U-box domain; 94.9 0.013 2.7E-07 54.4 1.7 40 1114-1153 5-44 (73)
173 cd00162 RING RING-finger (Real 94.6 0.021 4.4E-07 46.5 2.1 42 1115-1158 1-43 (45)
174 TIGR03117 cas_csf4 CRISPR-asso 94.6 0.19 4.1E-06 64.7 11.5 81 1277-1362 470-564 (636)
175 TIGR00570 cdk7 CDK-activating 94.4 0.027 5.8E-07 65.5 3.1 49 1114-1164 4-57 (309)
176 PF14634 zf-RING_5: zinc-RING 94.3 0.026 5.7E-07 47.0 2.0 37 1116-1153 2-41 (44)
177 PF13639 zf-RING_2: Ring finge 94.3 0.022 4.9E-07 47.3 1.5 38 1115-1153 2-42 (44)
178 PHA02926 zinc finger-like prot 94.3 0.025 5.4E-07 62.1 2.3 47 1113-1161 170-230 (242)
179 PF11789 zf-Nse: Zinc-finger o 94.1 0.023 5E-07 50.2 1.4 45 1113-1157 11-57 (57)
180 COG0653 SecA Preprotein transl 94.0 2 4.3E-05 56.5 18.8 95 1277-1375 428-533 (822)
181 PRK10536 hypothetical protein; 93.6 0.37 7.9E-06 55.4 10.0 40 908-949 178-217 (262)
182 PF02562 PhoH: PhoH-like prote 93.6 0.2 4.3E-06 55.8 7.7 43 906-950 119-161 (205)
183 KOG0287 Postreplication repair 93.2 0.024 5.2E-07 65.0 -0.1 45 1114-1161 24-68 (442)
184 COG3587 Restriction endonuclea 93.1 0.2 4.4E-06 64.3 7.8 35 909-944 208-242 (985)
185 COG5432 RAD18 RING-finger-cont 92.6 0.053 1.2E-06 61.0 1.5 49 1114-1162 26-76 (391)
186 PF14835 zf-RING_6: zf-RING of 92.4 0.095 2.1E-06 47.0 2.5 42 1114-1160 8-50 (65)
187 PF13307 Helicase_C_2: Helicas 92.3 0.33 7.2E-06 52.3 7.2 98 1277-1380 8-143 (167)
188 TIGR01407 dinG_rel DnaQ family 91.7 0.78 1.7E-05 61.9 11.2 42 665-709 244-285 (850)
189 TIGR00376 DNA helicase, putati 91.7 2.1 4.6E-05 55.8 14.6 41 665-711 156-196 (637)
190 KOG1132 Helicase of the DEAD s 91.0 0.99 2.1E-05 58.7 10.1 43 666-711 21-63 (945)
191 COG1199 DinG Rad3-related DNA 90.9 1 2.2E-05 58.9 10.8 102 1277-1382 478-612 (654)
192 KOG0824 Predicted E3 ubiquitin 90.3 0.19 4.1E-06 57.6 2.8 55 1113-1169 7-61 (324)
193 PRK08074 bifunctional ATP-depe 90.2 1.5 3.2E-05 59.7 11.6 103 1277-1381 751-887 (928)
194 smart00492 HELICc3 helicase su 89.8 1.4 3.1E-05 46.2 8.8 71 1290-1362 3-83 (141)
195 KOG4172 Predicted E3 ubiquitin 89.3 0.13 2.8E-06 44.2 0.4 46 1113-1160 7-53 (62)
196 COG5220 TFB3 Cdk activating ki 89.1 0.12 2.6E-06 56.9 0.1 51 1114-1164 11-67 (314)
197 KOG0311 Predicted E3 ubiquitin 89.1 0.052 1.1E-06 63.1 -2.8 47 1114-1162 44-91 (381)
198 KOG1785 Tyrosine kinase negati 89.1 0.23 5.1E-06 58.2 2.3 52 1109-1162 365-417 (563)
199 PRK07246 bifunctional ATP-depe 89.0 2.3 5E-05 57.1 11.9 99 1277-1380 646-776 (820)
200 PF13604 AAA_30: AAA domain; P 88.9 3.7 7.9E-05 45.5 11.6 38 907-946 94-132 (196)
201 PRK14873 primosome assembly pr 88.1 2.2 4.8E-05 55.7 10.5 57 778-837 189-252 (665)
202 KOG0347 RNA helicase [RNA proc 87.8 1.1 2.4E-05 55.3 7.0 57 780-837 266-325 (731)
203 COG5222 Uncharacterized conser 87.7 0.25 5.4E-06 55.9 1.4 42 1114-1157 275-317 (427)
204 KOG2879 Predicted E3 ubiquitin 87.6 0.3 6.5E-06 55.3 2.0 43 1111-1153 237-281 (298)
205 COG5152 Uncharacterized conser 87.3 0.25 5.4E-06 53.1 1.0 35 1113-1147 196-230 (259)
206 TIGR00604 rad3 DNA repair heli 86.5 2.4 5.3E-05 56.0 9.8 102 1277-1380 521-667 (705)
207 KOG4150 Predicted ATP-dependen 86.3 1.6 3.5E-05 53.8 7.2 98 1277-1376 524-629 (1034)
208 PRK11747 dinG ATP-dependent DN 86.2 4.4 9.6E-05 53.5 11.9 76 1279-1359 535-616 (697)
209 PF07517 SecA_DEAD: SecA DEAD- 85.4 2.2 4.8E-05 49.5 7.5 101 664-838 75-179 (266)
210 KOG0340 ATP-dependent RNA heli 85.1 6.2 0.00013 46.9 10.8 58 780-838 78-138 (442)
211 KOG2177 Predicted E3 ubiquitin 84.9 0.36 7.8E-06 55.6 0.9 42 1113-1157 13-54 (386)
212 COG5540 RING-finger-containing 84.5 0.41 8.9E-06 54.7 1.1 45 1114-1160 324-371 (374)
213 PRK10875 recD exonuclease V su 84.5 5.7 0.00012 51.6 11.4 42 905-948 264-305 (615)
214 KOG1803 DNA helicase [Replicat 84.0 3.2 7E-05 52.3 8.5 44 662-711 181-224 (649)
215 TIGR01447 recD exodeoxyribonuc 83.8 6.6 0.00014 50.8 11.6 40 906-947 259-298 (586)
216 PF09848 DUF2075: Uncharacteri 82.8 4.8 0.0001 48.7 9.3 16 905-920 82-97 (352)
217 PF06862 DUF1253: Protein of u 82.1 11 0.00024 46.8 12.1 126 1277-1403 299-431 (442)
218 PRK08074 bifunctional ATP-depe 82.0 7 0.00015 53.4 11.3 39 665-706 256-294 (928)
219 smart00491 HELICc2 helicase su 81.5 4.1 8.8E-05 42.9 7.0 68 1290-1359 3-80 (142)
220 PF02399 Herpes_ori_bp: Origin 81.4 5.5 0.00012 52.3 9.4 98 1277-1383 281-384 (824)
221 TIGR01448 recD_rel helicase, p 81.2 9 0.0002 50.8 11.7 40 906-947 416-455 (720)
222 KOG1813 Predicted E3 ubiquitin 79.1 1 2.2E-05 51.8 1.6 44 1113-1159 241-284 (313)
223 KOG0802 E3 ubiquitin ligase [P 78.4 0.79 1.7E-05 58.6 0.6 51 1112-1165 290-345 (543)
224 PF12678 zf-rbx1: RING-H2 zinc 77.9 1.5 3.1E-05 40.9 2.1 39 1114-1153 20-71 (73)
225 PRK07246 bifunctional ATP-depe 77.6 11 0.00025 50.7 11.0 41 665-708 244-284 (820)
226 KOG4159 Predicted E3 ubiquitin 76.6 1.3 2.7E-05 54.1 1.6 46 1113-1161 84-129 (398)
227 KOG0344 ATP-dependent RNA heli 76.1 2.3 4.9E-05 53.3 3.6 35 668-709 160-194 (593)
228 PF02399 Herpes_ori_bp: Origin 76.0 16 0.00034 48.3 11.1 38 907-944 143-190 (824)
229 PRK07003 DNA polymerase III su 75.4 45 0.00097 44.3 14.8 44 1371-1414 751-794 (830)
230 KOG1814 Predicted E3 ubiquitin 75.3 2 4.4E-05 51.4 2.8 57 1105-1161 176-242 (445)
231 KOG3800 Predicted E3 ubiquitin 75.1 1.7 3.6E-05 50.0 1.9 48 1115-1164 2-54 (300)
232 PF05876 Terminase_GpA: Phage 74.5 12 0.00026 48.2 9.7 48 659-711 9-56 (557)
233 KOG0922 DEAH-box RNA helicase 73.1 13 0.00029 47.5 9.2 113 1277-1392 257-393 (674)
234 KOG0329 ATP-dependent RNA heli 73.0 2 4.3E-05 48.5 1.9 45 1334-1378 302-346 (387)
235 PF06733 DEAD_2: DEAD_2; Inte 72.9 2 4.4E-05 46.4 1.9 17 822-838 116-132 (174)
236 KOG2660 Locus-specific chromos 72.5 1.2 2.7E-05 51.9 0.2 45 1114-1161 16-61 (331)
237 KOG4692 Predicted E3 ubiquitin 72.3 1.9 4E-05 50.3 1.5 36 1113-1148 422-457 (489)
238 KOG4628 Predicted E3 ubiquitin 72.2 2 4.3E-05 51.3 1.7 48 1114-1163 230-280 (348)
239 KOG0922 DEAH-box RNA helicase 72.0 15 0.00032 47.1 9.2 46 906-955 163-216 (674)
240 KOG0926 DEAH-box RNA helicase 71.9 13 0.00029 48.3 8.7 21 689-709 272-292 (1172)
241 PF14447 Prok-RING_4: Prokaryo 71.3 2.2 4.8E-05 37.3 1.4 44 1114-1162 8-51 (55)
242 KOG0337 ATP-dependent RNA heli 71.0 9.5 0.00021 46.3 6.9 108 779-944 92-205 (529)
243 KOG0297 TNF receptor-associate 70.8 2.2 4.7E-05 52.4 1.7 46 1114-1162 22-68 (391)
244 TIGR02881 spore_V_K stage V sp 70.0 75 0.0016 36.7 14.1 19 691-709 45-63 (261)
245 KOG1805 DNA replication helica 69.0 32 0.00069 46.0 11.4 39 666-710 669-707 (1100)
246 COG1643 HrpA HrpA-like helicas 67.7 40 0.00087 45.3 12.3 20 691-710 68-87 (845)
247 PHA02533 17 large terminase pr 65.5 50 0.0011 42.4 12.3 42 663-711 56-97 (534)
248 PF12340 DUF3638: Protein of u 64.5 19 0.00041 40.9 7.4 43 665-711 22-64 (229)
249 PF13401 AAA_22: AAA domain; P 63.5 5.6 0.00012 40.2 2.8 35 908-944 89-125 (131)
250 PRK08769 DNA polymerase III su 62.8 1.1E+02 0.0024 36.7 13.8 48 665-712 3-50 (319)
251 TIGR00631 uvrb excinuclease AB 62.2 32 0.0007 45.2 9.9 66 670-801 13-79 (655)
252 KOG0828 Predicted E3 ubiquitin 61.5 3.5 7.7E-05 50.2 1.0 45 1114-1160 572-633 (636)
253 KOG4739 Uncharacterized protei 61.3 3.8 8.2E-05 46.3 1.1 45 1114-1163 4-50 (233)
254 smart00489 DEXDc3 DEAD-like he 60.3 5.3 0.00012 47.0 2.2 42 666-710 8-49 (289)
255 smart00488 DEXDc2 DEAD-like he 60.3 5.3 0.00012 47.0 2.2 42 666-710 8-49 (289)
256 KOG0329 ATP-dependent RNA heli 60.2 21 0.00045 40.7 6.5 59 779-837 112-173 (387)
257 PRK14958 DNA polymerase III su 57.2 1.4E+02 0.0031 38.2 14.2 57 906-964 119-178 (509)
258 PRK14960 DNA polymerase III su 56.6 1.3E+02 0.0029 39.6 13.6 39 670-711 22-60 (702)
259 PRK14956 DNA polymerase III su 56.5 1.3E+02 0.0028 38.2 13.3 21 691-711 43-63 (484)
260 KOG1039 Predicted E3 ubiquitin 55.4 5.7 0.00012 47.6 1.4 45 1113-1159 161-219 (344)
261 KOG0950 DNA polymerase theta/e 54.4 19 0.00041 47.9 5.8 106 1305-1415 525-636 (1008)
262 PRK14949 DNA polymerase III su 54.0 1.5E+02 0.0034 40.2 14.0 40 906-947 119-161 (944)
263 KOG0924 mRNA splicing factor A 53.9 23 0.0005 45.4 6.1 106 1289-1397 578-705 (1042)
264 TIGR02562 cas3_yersinia CRISPR 52.9 3E+02 0.0065 38.1 16.3 44 666-709 408-452 (1110)
265 KOG3039 Uncharacterized conser 51.8 7.3 0.00016 43.8 1.4 32 1114-1145 44-75 (303)
266 KOG0826 Predicted E3 ubiquitin 51.1 6.3 0.00014 46.1 0.8 48 1112-1160 299-347 (357)
267 KOG4265 Predicted E3 ubiquitin 49.6 7.2 0.00016 46.4 0.9 46 1113-1161 290-336 (349)
268 COG5243 HRD1 HRD ubiquitin lig 49.4 14 0.0003 43.9 3.1 48 1110-1160 284-344 (491)
269 PRK11747 dinG ATP-dependent DN 49.3 11 0.00024 49.8 2.8 42 665-706 24-67 (697)
270 KOG1133 Helicase of the DEAD s 49.2 5.9 0.00013 50.6 0.2 82 1278-1360 629-721 (821)
271 PF13177 DNA_pol3_delta2: DNA 48.3 3.7E+02 0.0081 28.7 13.9 43 671-713 2-44 (162)
272 TIGR03117 cas_csf4 CRISPR-asso 48.1 1.2E+02 0.0025 40.0 11.4 40 778-817 47-89 (636)
273 COG1643 HrpA HrpA-like helicas 47.4 51 0.0011 44.4 8.2 112 1278-1392 259-390 (845)
274 PRK07994 DNA polymerase III su 46.6 2.2E+02 0.0049 37.5 13.6 51 1374-1432 584-636 (647)
275 KOG1645 RING-finger-containing 46.5 7.5 0.00016 46.7 0.5 58 1113-1172 4-67 (463)
276 KOG0920 ATP-dependent RNA heli 46.2 37 0.00081 45.8 6.7 109 1277-1391 412-546 (924)
277 KOG0346 RNA helicase [RNA proc 45.9 30 0.00065 42.4 5.2 60 780-839 96-159 (569)
278 KOG2932 E3 ubiquitin ligase in 45.7 10 0.00022 44.0 1.3 44 1112-1160 89-133 (389)
279 KOG1734 Predicted RING-contain 45.4 7.9 0.00017 44.1 0.4 53 1113-1167 224-287 (328)
280 PRK14962 DNA polymerase III su 44.7 1.8E+02 0.004 36.8 12.2 41 668-711 19-59 (472)
281 TIGR03420 DnaA_homol_Hda DnaA 44.6 1.8E+02 0.004 32.2 11.2 21 689-709 39-59 (226)
282 PRK14961 DNA polymerase III su 44.5 3.1E+02 0.0066 33.5 13.9 21 691-711 41-61 (363)
283 KOG3039 Uncharacterized conser 44.3 11 0.00023 42.5 1.2 38 1114-1152 222-263 (303)
284 PF13607 Succ_CoA_lig: Succiny 43.3 77 0.0017 33.3 7.3 85 1280-1385 3-89 (138)
285 TIGR00604 rad3 DNA repair heli 42.8 52 0.0011 43.8 7.4 43 666-711 10-52 (705)
286 KOG2817 Predicted E3 ubiquitin 42.7 13 0.00029 44.8 1.7 46 1112-1159 333-383 (394)
287 PHA02544 44 clamp loader, smal 42.1 3.2E+02 0.007 32.2 13.4 39 908-946 102-142 (316)
288 TIGR02880 cbbX_cfxQ probable R 41.3 50 0.0011 38.9 6.2 22 690-711 60-81 (284)
289 PRK08691 DNA polymerase III su 41.0 3.4E+02 0.0073 36.2 13.9 52 1373-1432 640-694 (709)
290 PRK05298 excinuclease ABC subu 40.6 1.2E+02 0.0026 40.1 10.2 72 664-801 10-82 (652)
291 KOG0951 RNA helicase BRR2, DEA 40.4 1.2E+02 0.0026 42.1 9.7 59 778-837 1187-1246(1674)
292 PF04641 Rtf2: Rtf2 RING-finge 39.7 19 0.00041 41.8 2.4 50 1113-1166 113-166 (260)
293 KOG1812 Predicted E3 ubiquitin 39.7 16 0.00034 44.9 1.8 52 1114-1165 147-207 (384)
294 COG0464 SpoVK ATPases of the A 39.2 54 0.0012 41.6 6.5 44 667-710 250-298 (494)
295 cd03418 GRX_GRXb_1_3_like Glut 39.1 1.2E+02 0.0025 27.5 7.1 59 1280-1338 1-60 (75)
296 PF14570 zf-RING_4: RING/Ubox 38.6 26 0.00057 30.1 2.4 42 1116-1159 1-46 (48)
297 KOG0950 DNA polymerase theta/e 38.2 83 0.0018 42.3 7.8 56 779-837 271-327 (1008)
298 TIGR02768 TraA_Ti Ti-type conj 38.1 1.9E+02 0.0041 38.9 11.5 39 665-709 351-389 (744)
299 PRK10917 ATP-dependent DNA hel 37.5 1.5E+02 0.0032 39.4 10.3 77 1277-1354 309-389 (681)
300 PRK05580 primosome assembly pr 37.4 1.8E+02 0.0039 38.7 11.0 77 1277-1356 189-266 (679)
301 cd03028 GRX_PICOT_like Glutare 35.8 1.1E+02 0.0025 29.3 6.7 59 1277-1336 6-70 (90)
302 KOG1571 Predicted E3 ubiquitin 35.7 15 0.00033 43.8 0.8 43 1112-1160 304-346 (355)
303 TIGR00595 priA primosomal prot 35.7 1.9E+02 0.0041 37.1 10.5 77 1277-1356 24-101 (505)
304 PRK14964 DNA polymerase III su 34.1 5.2E+02 0.011 33.0 13.8 22 689-710 36-57 (491)
305 TIGR00365 monothiol glutaredox 33.7 1.3E+02 0.0027 29.6 6.7 58 1277-1334 10-73 (97)
306 smart00489 DEXDc3 DEAD-like he 33.6 64 0.0014 38.1 5.5 16 823-838 209-224 (289)
307 smart00488 DEXDc2 DEAD-like he 33.6 64 0.0014 38.1 5.5 16 823-838 209-224 (289)
308 KOG4275 Predicted E3 ubiquitin 33.5 14 0.00029 42.7 -0.1 28 1114-1141 301-329 (350)
309 PF13173 AAA_14: AAA domain 33.4 45 0.00099 34.0 3.8 39 908-947 63-101 (128)
310 PRK05707 DNA polymerase III su 32.1 2.6E+02 0.0056 33.8 10.3 45 666-713 3-47 (328)
311 PF13245 AAA_19: Part of AAA d 31.9 61 0.0013 30.4 4.0 20 692-711 14-33 (76)
312 CHL00181 cbbX CbbX; Provisiona 30.7 98 0.0021 36.5 6.4 20 691-710 62-81 (287)
313 KOG1815 Predicted E3 ubiquitin 30.7 33 0.00072 43.0 2.6 51 1113-1163 70-128 (444)
314 PF12861 zf-Apc11: Anaphase-pr 30.2 44 0.00096 32.2 2.7 43 1116-1160 35-81 (85)
315 PRK14959 DNA polymerase III su 29.8 6.3E+02 0.014 33.3 13.7 39 670-711 23-61 (624)
316 TIGR00643 recG ATP-dependent D 28.9 2.2E+02 0.0048 37.5 9.8 77 1277-1354 283-363 (630)
317 PRK14953 DNA polymerase III su 28.9 7E+02 0.015 31.8 13.9 19 692-710 42-60 (486)
318 TIGR02562 cas3_yersinia CRISPR 28.8 2.2E+02 0.0047 39.4 9.5 48 1329-1379 837-884 (1110)
319 PRK14969 DNA polymerase III su 28.6 5.3E+02 0.012 33.3 12.9 40 669-711 22-61 (527)
320 KOG0920 ATP-dependent RNA heli 28.5 3.1E+02 0.0067 37.5 10.9 42 664-712 171-212 (924)
321 PRK05896 DNA polymerase III su 28.1 8.2E+02 0.018 32.2 14.2 24 689-712 39-62 (605)
322 PLN03025 replication factor C 28.0 1.2E+02 0.0026 36.2 6.6 60 906-965 99-159 (319)
323 PHA00673 acetyltransferase dom 27.6 95 0.002 33.4 5.0 44 907-950 88-134 (154)
324 KOG0923 mRNA splicing factor A 27.5 1.9E+02 0.0042 37.6 8.2 103 1277-1388 472-605 (902)
325 PRK14087 dnaA chromosomal repl 27.5 2.1E+02 0.0047 36.0 8.9 37 907-943 207-247 (450)
326 KOG1133 Helicase of the DEAD s 27.3 2.6E+02 0.0057 36.7 9.4 14 907-920 349-362 (821)
327 KOG0952 DNA/RNA helicase MER3/ 26.8 1.1E+02 0.0023 41.7 6.1 58 777-836 973-1031(1230)
328 KOG4367 Predicted Zn-finger pr 26.1 29 0.00062 41.9 0.9 32 1115-1146 6-37 (699)
329 PRK11054 helD DNA helicase IV; 25.0 96 0.0021 41.1 5.5 38 665-711 195-232 (684)
330 cd05563 PTS_IIB_ascorbate PTS_ 24.6 1.8E+02 0.0039 27.4 5.9 51 780-834 2-54 (86)
331 PF02302 PTS_IIB: PTS system, 24.5 87 0.0019 29.6 3.8 55 780-836 2-58 (90)
332 COG0553 HepA Superfamily II DN 24.4 10 0.00023 51.0 -3.6 80 1281-1377 445-524 (866)
333 KOG0925 mRNA splicing factor A 24.2 57 0.0012 40.6 2.9 54 903-960 156-217 (699)
334 PHA03096 p28-like protein; Pro 23.9 38 0.00082 39.9 1.3 34 1114-1147 179-220 (284)
335 COG1875 NYN ribonuclease and A 23.8 61 0.0013 39.3 3.0 38 908-947 353-390 (436)
336 COG1199 DinG Rad3-related DNA 23.6 1.7E+02 0.0038 38.4 7.5 45 664-711 13-57 (654)
337 KOG4185 Predicted E3 ubiquitin 23.5 46 0.00099 39.2 1.9 45 1113-1159 3-53 (296)
338 COG4581 Superfamily II RNA hel 23.0 2.1E+02 0.0046 39.4 8.0 78 1307-1386 449-534 (1041)
339 KOG0327 Translation initiation 22.9 1.5E+02 0.0033 36.1 5.9 43 902-944 165-210 (397)
340 cd05566 PTS_IIB_galactitol PTS 22.6 1.3E+02 0.0029 28.5 4.6 55 779-835 2-58 (89)
341 KOG3629 Guanine-nucleotide rel 22.4 4.3E+02 0.0092 33.6 9.5 76 31-113 463-551 (728)
342 PRK13889 conjugal transfer rel 22.1 3.4E+02 0.0074 37.7 9.8 42 907-950 434-476 (988)
343 cd00133 PTS_IIB PTS_IIB: subun 22.1 1.8E+02 0.0038 26.4 5.3 53 780-835 2-56 (84)
344 PRK05563 DNA polymerase III su 22.0 1.1E+03 0.023 30.9 13.8 21 691-711 41-61 (559)
345 TIGR00362 DnaA chromosomal rep 21.7 2.3E+02 0.005 35.0 7.7 21 690-710 138-158 (405)
346 COG0626 MetC Cystathionine bet 21.6 1.5E+02 0.0031 36.8 5.7 78 1276-1378 100-178 (396)
347 PF00580 UvrD-helicase: UvrD/R 21.3 1.6E+02 0.0034 34.1 5.9 36 667-711 1-36 (315)
348 PRK07993 DNA polymerase III su 21.2 5E+02 0.011 31.4 10.1 48 666-713 2-49 (334)
349 KOG0827 Predicted E3 ubiquitin 20.9 52 0.0011 39.6 1.7 46 1113-1160 4-55 (465)
350 TIGR00614 recQ_fam ATP-depende 20.8 7E+02 0.015 31.5 11.8 76 1278-1354 51-133 (470)
351 PRK06871 DNA polymerase III su 20.7 7.3E+02 0.016 30.0 11.2 47 667-713 3-49 (325)
352 PRK00149 dnaA chromosomal repl 20.7 2.6E+02 0.0056 35.1 7.9 22 689-710 149-170 (450)
353 PF03354 Terminase_1: Phage Te 20.4 6E+02 0.013 32.2 11.1 43 669-711 1-45 (477)
354 COG4646 DNA methylase [Transcr 20.4 51 0.0011 40.6 1.5 32 933-964 472-503 (637)
355 PRK14873 primosome assembly pr 20.4 3.7E+02 0.0081 35.7 9.4 61 1277-1339 187-249 (665)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=4.7e-103 Score=887.68 Aligned_cols=576 Identities=41% Similarity=0.709 Sum_probs=477.8
Q ss_pred CCCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000539 656 ASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 656 ~~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~ 735 (1433)
+.+|.+ +.++|+|||+++|+|+..+|.++. .|||||||||+|||+|+|||++..-
T Consensus 175 aeqP~d-lii~LL~fQkE~l~Wl~~QE~Ss~--~GGiLADEMGMGKTIQtIaLllae~---------------------- 229 (791)
T KOG1002|consen 175 AEQPDD-LIIPLLPFQKEGLAWLTSQEESSV--AGGILADEMGMGKTIQTIALLLAEV---------------------- 229 (791)
T ss_pred ccCccc-ceecchhhhHHHHHHHHHhhhhhh--ccceehhhhccchHHHHHHHHHhcc----------------------
Confidence 445666 578999999999999999999865 8999999999999999999998621
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000539 736 DNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSS 815 (1433)
Q Consensus 736 ~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~ 815 (1433)
..+|||||||.-.+.||.+||.+|.. +.++|++|||..
T Consensus 230 ----------------------------------------~ra~tLVvaP~VAlmQW~nEI~~~T~--gslkv~~YhG~~ 267 (791)
T KOG1002|consen 230 ----------------------------------------DRAPTLVVAPTVALMQWKNEIERHTS--GSLKVYIYHGAK 267 (791)
T ss_pred ----------------------------------------ccCCeeEEccHHHHHHHHHHHHHhcc--CceEEEEEeccc
Confidence 12469999999999999999998875 789999999999
Q ss_pred CCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccc
Q 000539 816 RTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLL 895 (1433)
Q Consensus 816 r~k~~~~L~~~DVVITTY~~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 000539 896 DIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK------- 968 (1433)
Q Consensus 896 e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~------- 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-----hhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEE
Q 000539 969 ------------------------SFCSMIKVPISKNP-----VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVI 1019 (1433)
Q Consensus 969 ------------------------~F~~~i~~pi~~~~-----~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e 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 22333345665543 23456789999999999998654432 57999999
Q ss_pred EEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchH
Q 000539 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 9999999999999999999999999999999999999999999999999999999999853211 11111
Q ss_pred HHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhcc----CCCCCCCccccccccccchhhhhhccccc
Q 000539 1100 ERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTA----DDNQCPTRNCKIRLSLSSVFSKATLNNSL 1175 (1433)
Q Consensus 1100 e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~CgHvfC~~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-ek~~l 599 (791)
T KOG1002|consen 532 E---------NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCP--VCHIGLSIDLSEPAL-EKTDL 599 (791)
T ss_pred c---------ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCc--cccccccccccchhh-hhcch
Confidence 1 2234789999999999999999999999999888644 234677 488777654111000 00000
Q ss_pred ccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcc
Q 000539 1176 SQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTL 1255 (1433)
Q Consensus 1176 ~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L 1255 (1433)
.. .... -+ -.......+..|.||++|.+.|.-+.+.+
T Consensus 600 ~~-Fk~s---------SI-lnRinm~~~qsSTKIEAL~EEl~~l~~rd-------------------------------- 636 (791)
T KOG1002|consen 600 KG-FKAS---------SI-LNRINMDDWQSSTKIEALVEELYFLRERD-------------------------------- 636 (791)
T ss_pred hh-hhhH---------HH-hhhcchhhhcchhHHHHHHHHHHHHHHcc--------------------------------
Confidence 00 0000 00 00122345677899999999888754311
Q ss_pred cccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEe
Q 000539 1256 DNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIM 1335 (1433)
Q Consensus 1256 ~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~ 1335 (1433)
...|.|||||||+|||+|+..|.+.|+.++.+.|+|++++|.+.|+.|.++++++||||
T Consensus 637 ---------------------~t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLv 695 (791)
T KOG1002|consen 637 ---------------------RTAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLV 695 (791)
T ss_pred ---------------------cchhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEE
Confidence 45799999999999999999999999999999999999999999999999999999999
Q ss_pred eccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCc
Q 000539 1336 SLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDET 1415 (1433)
Q Consensus 1336 StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~ 1415 (1433)
|++|||+.|||+.|++|++|||||||++|.||.+|+|||||.|||.|.||++++|||++|+++|++|.+|+++.+|+++.
T Consensus 696 SLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~ 775 (791)
T KOG1002|consen 696 SLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEE 775 (791)
T ss_pred EeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998875
Q ss_pred CcccccCCHHHHHHhhc
Q 000539 1416 GGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1416 ~~~~~~lt~~DL~~LF~ 1432 (1433)
.+.+|+.+||++||.
T Consensus 776 --Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 776 --AISKLTEEDMQFLFN 790 (791)
T ss_pred --HHHhcCHHHHHHHhc
Confidence 567999999999995
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=1.6e-86 Score=780.93 Aligned_cols=548 Identities=38% Similarity=0.630 Sum_probs=430.9
Q ss_pred CCCCCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccc
Q 000539 654 AEASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLD 733 (1433)
Q Consensus 654 ~e~~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~ 733 (1433)
.+...+|..++++|+|||+.|+.||+.+|... +.|||||||||||||+++|++|+..+.... .
T Consensus 313 t~lte~P~g~~v~LmpHQkaal~Wl~wRE~q~--~~GGILaddmGLGKTlsmislil~qK~~~~------------~--- 375 (901)
T KOG4439|consen 313 TDLTETPDGLKVELMPHQKAALRWLLWRESQP--PSGGILADDMGLGKTLSMISLILHQKAARK------------A--- 375 (901)
T ss_pred ccccCCCCcceeecchhhhhhhhhhcccccCC--CCCcccccccccccchHHHHHHHHHHHHHH------------h---
Confidence 33444444468999999999999999999875 499999999999999999999987432100 0
Q ss_pred ccccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeC
Q 000539 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 56799999999
Q ss_pred CC-CCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000539 814 SS-RTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 814 ~~-r~k~~~~L~~~DVVITTY~~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 777889999999999999998741 0011 00
Q ss_pred cccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHh
Q 000539 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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 001147899999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HhccCCCCCchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHc-
Q 000539 973 MIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAA- 1051 (1433)
Q Consensus 973 ~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 NIDNMS----KGGANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQR 605 (901)
T ss_pred hccCcc----ccchhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhh
Confidence 876432 345578888999999999999998889999999999999999999999999999988877766654422
Q ss_pred -----------------------------------CcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhh
Q 000539 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 1222345679999999999999997665432211000 0000
Q ss_pred c-hHHHHHHH--HHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhccc
Q 000539 1097 L-PQERQMYL--LNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNN 1173 (1433)
Q Consensus 1097 l-~~e~~~~l--l~~le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~ 1173 (1433)
. ..+.+..+ +..++.. +...|-.-+|.
T Consensus 682 ~~sde~~~e~~~l~el~k~----------------------------------~~T~~~~D~~e---------------- 711 (901)
T KOG4439|consen 682 DDSDEEQLEEDNLAELEKN----------------------------------DETDCSDDNCE---------------- 711 (901)
T ss_pred chhhhhhhhhhHHHhhhhc----------------------------------ccccccccccc----------------
Confidence 0 00001111 1111100 00111111111
Q ss_pred ccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCC
Q 000539 1174 SLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGD 1253 (1433)
Q Consensus 1174 ~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1253 (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 112245889999988888741
Q ss_pred cccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCC-CccE
Q 000539 1254 TLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSV 1332 (1433)
Q Consensus 1254 ~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~-~v~V 1332 (1433)
....+|+||.|||+.+|++++..|.+.|..|..++|....++|+.+|+.||... +.+|
T Consensus 743 ---------------------~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rV 801 (901)
T KOG4439|consen 743 ---------------------TSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARV 801 (901)
T ss_pred ---------------------hcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceE
Confidence 125799999999999999999999999999999999999999999999999865 4999
Q ss_pred EEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCC
Q 000539 1333 MIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGE 1412 (1433)
Q Consensus 1333 LL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~ 1412 (1433)
||+|+.|||+||||+.|||+|++|++|||+.|.||.+||+|+||+++|+||||+++||||+||..+|++|..++..++.+
T Consensus 802 mLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G 881 (901)
T KOG4439|consen 802 MLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTG 881 (901)
T ss_pred EEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred CCcCcccccCCHHHHHHhhcC
Q 000539 1413 DETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1413 d~~~~~~~~lt~~DL~~LF~~ 1433 (1433)
..+ +..++||..|||-||++
T Consensus 882 ~~t-r~~~kLT~adlk~LFgl 901 (901)
T KOG4439|consen 882 SAT-RKMNKLTLADLKKLFGL 901 (901)
T ss_pred ccc-cccccccHHHHHHHhCC
Confidence 554 47889999999999985
No 3
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=7.3e-84 Score=764.64 Aligned_cols=459 Identities=33% Similarity=0.535 Sum_probs=395.5
Q ss_pred CCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000539 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 5666666889999999999999987754 469999999999999999999875421
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000539 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 0124689999999999999999999987 8999999999744
Q ss_pred C-----CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000539 818 K-----DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 818 k-----~~~~L~~~DVVITTY~~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 000539 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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 23588899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCCCCchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcC
Q 000539 973 MIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 973 ~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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-----SLPPKKELIIYVGMSSMQKKWYKAILMKDLDA---LNGEG 427 (971)
T ss_pred HHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhh-----cCCCcceeeEeccchHHHHHHHHHHHHhcchh---hcccc
Confidence 99887776777789999999999999999999987 79999999999999999999999876443222 22222
Q ss_pred cccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccC
Q 000539 1053 TVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICG 1132 (1433)
Q Consensus 1053 ~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~Cg 1132 (1433)
. .....++..+++||++|+||+|+.+.+..
T Consensus 428 ~--~~k~kL~NI~mQLRKccnHPYLF~g~ePg------------------------------------------------ 457 (971)
T KOG0385|consen 428 K--GEKTKLQNIMMQLRKCCNHPYLFDGAEPG------------------------------------------------ 457 (971)
T ss_pred c--chhhHHHHHHHHHHHhcCCccccCCCCCC------------------------------------------------
Confidence 2 13456788899999999999998653210
Q ss_pred cccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHH
Q 000539 1133 HVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAA 1212 (1433)
Q Consensus 1133 HvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~al 1212 (1433)
+. ....+.....+.|+..|
T Consensus 458 ----------------------------------------------------~p---------yttdehLv~nSGKm~vL 476 (971)
T KOG0385|consen 458 ----------------------------------------------------PP---------YTTDEHLVTNSGKMLVL 476 (971)
T ss_pred ----------------------------------------------------CC---------CCcchHHHhcCcceehH
Confidence 00 00111223457787777
Q ss_pred HHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHH
Q 000539 1213 LEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLD 1292 (1433)
Q Consensus 1213 lelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~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 7777664 337999999999999999
Q ss_pred HHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhh
Q 000539 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRA 1371 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1372 HRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGED 1413 (1433)
Q Consensus 1372 hRIGQtr~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 999999999999999999999999999999999999998776
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=5.8e-82 Score=753.18 Aligned_cols=473 Identities=30% Similarity=0.496 Sum_probs=398.7
Q ss_pred CCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000539 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
.|. .+...|++||+.||.||+++... ..|||||||||||||+|+|++++.....
T Consensus 198 vPg-~I~~~Lf~yQreGV~WL~~L~~q---~~GGILgDeMGLGKTIQiisFLaaL~~S---------------------- 251 (923)
T KOG0387|consen 198 VPG-FIWSKLFPYQREGVQWLWELYCQ---RAGGILGDEMGLGKTIQIISFLAALHHS---------------------- 251 (923)
T ss_pred ccH-HHHHHhhHHHHHHHHHHHHHHhc---cCCCeecccccCccchhHHHHHHHHhhc----------------------
Confidence 343 45667999999999999998764 4899999999999999999999875432
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000539 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~ 817 (1433)
+...+|+|||||++|+.||.+|+++|++ .++|.+|||....
T Consensus 252 ------------------------------------~k~~~paLIVCP~Tii~qW~~E~~~w~p---~~rv~ilh~t~s~ 292 (923)
T KOG0387|consen 252 ------------------------------------GKLTKPALIVCPATIIHQWMKEFQTWWP---PFRVFILHGTGSG 292 (923)
T ss_pred ------------------------------------ccccCceEEEccHHHHHHHHHHHHHhCc---ceEEEEEecCCcc
Confidence 0123689999999999999999999987 7999999998763
Q ss_pred C---------------CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccc
Q 000539 818 K---------------DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRK 882 (1433)
Q Consensus 818 k---------------~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk 882 (1433)
. .........|+||||+.++..
T Consensus 293 ~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~------------------------------------------- 329 (923)
T KOG0387|consen 293 ARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQ------------------------------------------- 329 (923)
T ss_pred cccccchhhhhhhhhheeeecccCcEEEEehhhhccc-------------------------------------------
Confidence 1 112233556999999998631
Q ss_pred cccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccC
Q 000539 883 GSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYD 962 (1433)
Q Consensus 883 ~~~~kk~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~ 962 (1433)
..++..+.|+.||+||+|+|||++|+.+.+|..|++.+|++||||||||++.|||+++.|+.|+
T Consensus 330 ----------------~d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG 393 (923)
T KOG0387|consen 330 ----------------GDDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPG 393 (923)
T ss_pred ----------------CcccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCC
Confidence 1247788999999999999999999999999999999999999999999999999999999999
Q ss_pred CccchHHHHhHhccCCCCCchh---------h---HHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHH
Q 000539 963 PFAVYKSFCSMIKVPISKNPVK---------G---YKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEE 1030 (1433)
Q Consensus 963 pf~~~~~F~~~i~~pi~~~~~~---------~---~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~lS~eE 1030 (1433)
.+++...|...|..||..+... + ...|+.++.|++|||+|.+|.. ..||.+.+.++.|.||+.|
T Consensus 394 ~Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~----~~Lp~K~E~VlfC~LT~~Q 469 (923)
T KOG0387|consen 394 KLGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKG----LKLPKKEEIVLFCRLTKLQ 469 (923)
T ss_pred cccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh----ccCCCccceEEEEeccHHH
Confidence 9999999999999999876422 2 3468999999999999999975 5899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhh
Q 000539 1031 RDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLE 1110 (1433)
Q Consensus 1031 re~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le 1110 (1433)
|.+|+.+..-.. +..+.. | ..++|..+.-||++||||.|+.+.....
T Consensus 470 R~~Y~~fl~s~~--v~~i~n-g-----~~~~l~Gi~iLrkICnHPdll~~~~~~~------------------------- 516 (923)
T KOG0387|consen 470 RRLYQRFLNSSE--VNKILN-G-----KRNCLSGIDILRKICNHPDLLDRRDEDE------------------------- 516 (923)
T ss_pred HHHHHHHhhhHH--HHHHHc-C-----CccceechHHHHhhcCCcccccCccccc-------------------------
Confidence 999998864322 222222 2 1345677778999999998875321000
Q ss_pred hhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCC
Q 000539 1111 ASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSD 1190 (1433)
Q Consensus 1111 ~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~ 1190 (1433)
T Consensus 517 -------------------------------------------------------------------------------- 516 (923)
T KOG0387|consen 517 -------------------------------------------------------------------------------- 516 (923)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhc
Q 000539 1191 SKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCS 1270 (1433)
Q Consensus 1191 ~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~ 1270 (1433)
.+.+..++.+..+.|++.+.++|..+.
T Consensus 517 ---~~~~D~~g~~k~sGKm~vl~~ll~~W~-------------------------------------------------- 543 (923)
T KOG0387|consen 517 ---KQGPDYEGDPKRSGKMKVLAKLLKDWK-------------------------------------------------- 543 (923)
T ss_pred ---ccCCCcCCChhhcchHHHHHHHHHHHh--------------------------------------------------
Confidence 000011123345889999999988753
Q ss_pred ccccccCCCeEEEEcccHHHHHHHHHHHH-hcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc
Q 000539 1271 IDSIKLGGEKAIVFSQWTKMLDLLEASLK-DSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA 1349 (1433)
Q Consensus 1271 ~~~i~~~~eKvIVFSq~t~~LdlLe~~L~-~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~A 1349 (1433)
..+.|+|+|||...|||+|+..|. ..|+.|+|+||.++.+.|+.+|++||++..+.|||++|++||+|||||.|
T Consensus 544 -----kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgA 618 (923)
T KOG0387|consen 544 -----KQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGA 618 (923)
T ss_pred -----hCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecccccccccccC
Confidence 267899999999999999999999 68999999999999999999999999999999999999999999999999
Q ss_pred CEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCccccc-CCHHHHH
Q 000539 1350 CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTR-LTVDDLN 1428 (1433)
Q Consensus 1350 n~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~-lt~~DL~ 1428 (1433)
|+||+|||.|||.+..||..|+|||||||+|.||||++.+||||+||.+|-.|..+...++... ++.| +...||.
T Consensus 619 nRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~Kq~Ltn~il~~p----~q~RfF~~~dl~ 694 (923)
T KOG0387|consen 619 NRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIFKQFLTNRILKNP----EQRRFFKGNDLH 694 (923)
T ss_pred ceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCH----HHhhhcccccHH
Confidence 9999999999999999999999999999999999999999999999999999999999998543 3333 7777899
Q ss_pred HhhcC
Q 000539 1429 YLFMV 1433 (1433)
Q Consensus 1429 ~LF~~ 1433 (1433)
.||.+
T Consensus 695 dLFsl 699 (923)
T KOG0387|consen 695 DLFSL 699 (923)
T ss_pred HHhCC
Confidence 99863
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=1.3e-81 Score=770.16 Aligned_cols=528 Identities=31% Similarity=0.493 Sum_probs=422.6
Q ss_pred HHHHHHHHHhhccCCCCCCCCCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCC
Q 000539 637 DERLILQVAMQGISQPNAEASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPS 716 (1433)
Q Consensus 637 ~e~~~~~~~l~~l~~p~~e~~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~ 716 (1433)
.||.+++..+..-..|...+..| ++..||+||.+||+|+....+ |...||||||||||||+|+|+.++.....+
T Consensus 949 ~erkFLeqlldpski~~y~Ip~p---I~a~LRkYQqEGVnWLaFLnk---y~LHGILcDDMGLGKTLQticilAsd~y~r 1022 (1549)
T KOG0392|consen 949 EERKFLEQLLDPSKIPEYKIPVP---ISAKLRKYQQEGVNWLAFLNK---YKLHGILCDDMGLGKTLQTICILASDHYKR 1022 (1549)
T ss_pred HHHHHHHHhcCcccCCccccccc---hhHHHHHHHHhccHHHHHHHH---hcccceeeccccccHHHHHHHHHHHHHHhh
Confidence 55666665544333343333333 467899999999999998766 345699999999999999999998643220
Q ss_pred CCCcchhhhhhhhccccccccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHH
Q 000539 717 FRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEEL 796 (1433)
Q Consensus 717 ~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI 796 (1433)
+....+| ...|.|||||++|..+|+.|+
T Consensus 1023 -------------------------------~s~~~e~---------------------~~~PSLIVCPsTLtGHW~~E~ 1050 (1549)
T KOG0392|consen 1023 -------------------------------RSESSEF---------------------NRLPSLIVCPSTLTGHWKSEV 1050 (1549)
T ss_pred -------------------------------cccchhh---------------------ccCCeEEECCchhhhHHHHHH
Confidence 0011111 124689999999999999999
Q ss_pred HHHhcCCCCcEEEEEeCCC--CCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCC
Q 000539 797 RNKVTSKGSLSVLVYHGSS--RTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRK 874 (1433)
Q Consensus 797 ~k~~~~~~~L~VlvyhG~~--r~k~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk 874 (1433)
.+++| .|+|+.|-|.. |........+++|+||+|+++++++.
T Consensus 1051 ~kf~p---fL~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d--------------------------------- 1094 (1549)
T KOG0392|consen 1051 KKFFP---FLKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVD--------------------------------- 1094 (1549)
T ss_pred HHhcc---hhhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHH---------------------------------
Confidence 99998 49999999875 44456677789999999999986431
Q ss_pred CCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHh
Q 000539 875 CPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYS 954 (1433)
Q Consensus 875 ~~~~~~rk~~~~kk~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLys 954 (1433)
.|.++.|..+|+||+|-|||.+++.++++++|++.+|++||||||||++.|||+
T Consensus 1095 --------------------------~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWS 1148 (1549)
T KOG0392|consen 1095 --------------------------YLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWS 1148 (1549)
T ss_pred --------------------------HHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHH
Confidence 267789999999999999999999999999999999999999999999999999
Q ss_pred hhhccccCCccchHHHHhHhccCCCCC------------chhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEE
Q 000539 955 YFRFLRYDPFAVYKSFCSMIKVPISKN------------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLK 1022 (1433)
Q Consensus 955 lL~FL~p~pf~~~~~F~~~i~~pi~~~------------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv 1022 (1433)
++.||+|+.++..+.|.++|.+||-.. ...++..|++.+-|||+||+|++|+. +||||.++.+
T Consensus 1149 LFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~-----DLPpKIIQDy 1223 (1549)
T KOG0392|consen 1149 LFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLK-----DLPPKIIQDY 1223 (1549)
T ss_pred HHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh-----hCChhhhhhe
Confidence 999999999999999999999999432 12246778999999999999999997 8999999999
Q ss_pred EecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccch--HHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHH
Q 000539 1023 QVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQN--YVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQE 1100 (1433)
Q Consensus 1023 ~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~--~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e 1100 (1433)
+|+|++.|+++|+.+....+.......+.+..... ..+++++|..||+.|+||.|+.......+. .+
T Consensus 1224 yCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~hp~la----~i------- 1292 (1549)
T KOG0392|consen 1224 YCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVHPDLA----AI------- 1292 (1549)
T ss_pred eeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCcchHH----HH-------
Confidence 99999999999999877644333333333322222 689999999999999999998654221110 00
Q ss_pred HHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCC
Q 000539 1101 RQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQP 1180 (1433)
Q Consensus 1101 ~~~~ll~~le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~ 1180 (1433)
+..|+| .+..+.
T Consensus 1293 ---------------------------~~~l~~-------------------------------------~~~~LH---- 1304 (1549)
T KOG0392|consen 1293 ---------------------------VSHLAH-------------------------------------FNSSLH---- 1304 (1549)
T ss_pred ---------------------------HHHHHH-------------------------------------hhhhHH----
Confidence 111111 000010
Q ss_pred CCCCCCCCCCcccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccch
Q 000539 1181 GQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISD 1260 (1433)
Q Consensus 1181 ~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~ 1260 (1433)
....++|+.|+-++|.+- +.++........ .+
T Consensus 1305 ---------------------di~hspKl~AL~qLL~eC----------------------Gig~~~~~~~g~-~s---- 1336 (1549)
T KOG0392|consen 1305 ---------------------DIQHSPKLSALKQLLSEC----------------------GIGNNSDSEVGT-PS---- 1336 (1549)
T ss_pred ---------------------HhhhchhHHHHHHHHHHh----------------------CCCCCCcccccC-cc----
Confidence 012378999999999873 222221111100 00
Q ss_pred hhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhc---CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeec
Q 000539 1261 ENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDS---SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSL 1337 (1433)
Q Consensus 1261 ~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L~~~---gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~St 1337 (1433)
...++|++|||||.+|+|+++.-|-+. .+.|.|+||++++.+|++++++||+||.+.|||++|
T Consensus 1337 --------------~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTT 1402 (1549)
T KOG0392|consen 1337 --------------DVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTT 1402 (1549)
T ss_pred --------------hhccceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEee
Confidence 026799999999999999999999765 677999999999999999999999999999999999
Q ss_pred cccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCc
Q 000539 1338 KAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGG 1417 (1433)
Q Consensus 1338 kaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~ 1417 (1433)
.+||+|||||.|++|||+|-.|||+...||+||||||||||.|.|||||++||+||+|+.+|.-|...++.+++.+- .
T Consensus 1403 hVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN--a 1480 (1549)
T KOG0392|consen 1403 HVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN--A 1480 (1549)
T ss_pred eccccccccCCCceEEEEecCCCchhhHHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc--c
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999997654 3
Q ss_pred ccccCCHHHHHHhhc
Q 000539 1418 QQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1418 ~~~~lt~~DL~~LF~ 1432 (1433)
.+..+.-++|..||.
T Consensus 1481 sl~tM~TdqLLdlF~ 1495 (1549)
T KOG0392|consen 1481 SLETMDTDQLLDLFT 1495 (1549)
T ss_pred cccccCHHHHHHHhc
Confidence 577888999999997
No 6
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=8.3e-82 Score=777.38 Aligned_cols=601 Identities=26% Similarity=0.407 Sum_probs=479.8
Q ss_pred ccCCCcccccccccchhhhhhhhcccccccccccCCCccccccCCCCCccCCCCCCCeEEEeccCCccccchhhhhhccc
Q 000539 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 000539 589 SMNRSACSNHSVALGKPVVTSQHSSYSDYPGYPGVPLTGLGGMKSKASDERLILQVAMQGISQPNAEASAPDGVLAVPLL 668 (1433)
Q Consensus 589 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~l~~l~~p~~e~~~P~g~l~v~L~ 668 (1433)
+|+|..|.|.......|....+...|..+......|..+..-...+. .++. + ...|...-...|+
T Consensus 308 ~LpY~e~TWE~~~~I~~~~~~~~~~~~~Re~sk~~p~~~~~~~~~rp-----~~~K----l------e~qp~~~~g~~LR 372 (1373)
T KOG0384|consen 308 GLPYEECTWEDAEDIAKKAQEEIEEFQSRENSKTLPNKGCKYRPQRP-----RFRK----L------EKQPEYKGGNELR 372 (1373)
T ss_pred CCCcccccccchhhhhhhHHHHHHHHhhhhccccCCCCccccCccch-----hHHH----h------hcCccccccchhh
Confidence 99999999999999999777776666655433323322222222221 1221 2 1234444456899
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccc
Q 000539 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVK 748 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~k 748 (1433)
.||++||+||+...... ..||||||||||||||+|+++.+....
T Consensus 373 dyQLeGlNWl~~~W~~~---~n~ILADEmgLgktvqti~fl~~l~~~--------------------------------- 416 (1373)
T KOG0384|consen 373 DYQLEGLNWLLYSWYKR---NNCILADEMGLGKTVQTITFLSYLFHS--------------------------------- 416 (1373)
T ss_pred hhhcccchhHHHHHHhc---ccceehhhcCCCcchHHHHHHHHHHHh---------------------------------
Confidence 99999999999875432 459999999999999999999664321
Q ss_pred cccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC---------
Q 000539 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 122468999999999999999999996 499999999864321
Q ss_pred -c-ccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccccc
Q 000539 820 -P-CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDI 897 (1433)
Q Consensus 820 -~-~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~ 897 (1433)
. ...-+++++||||+++.++
T Consensus 468 ~~~~~~lkf~~lltTye~~LkD---------------------------------------------------------- 489 (1373)
T KOG0384|consen 468 SSNTKKLKFNALLTTYEIVLKD---------------------------------------------------------- 489 (1373)
T ss_pred cCCccccccceeehhhHHHhcc----------------------------------------------------------
Confidence 1 2234799999999999642
Q ss_pred ccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhHhccC
Q 000539 898 VAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVP 977 (1433)
Q Consensus 898 ~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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 1348889999999999999999999999999999999999999999999999999999999999999999998876
Q ss_pred CCCCchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccch
Q 000539 978 ISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQN 1057 (1433)
Q Consensus 978 i~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 000539 1058 YVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCN 1137 (1433)
Q Consensus 1058 ~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~CgHvfC~ 1137 (1433)
.++|..++.||++|+||+|+++.+..-. ...+.
T Consensus 636 -~~lLNimmELkKccNHpyLi~gaee~~~------------~~~~~---------------------------------- 668 (1373)
T KOG0384|consen 636 -PSLLNIMMELKKCCNHPYLIKGAEEKIL------------GDFRD---------------------------------- 668 (1373)
T ss_pred -chHHHHHHHHHHhcCCccccCcHHHHHH------------Hhhhh----------------------------------
Confidence 7889999999999999999986432110 00000
Q ss_pred hhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHHHHHHH
Q 000539 1138 QCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQ 1217 (1433)
Q Consensus 1138 ~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~ 1217 (1433)
|. ... .| ......|.|+..|-++|.
T Consensus 669 -------------~~---------~d~-----~L----------------------------~~lI~sSGKlVLLDKLL~ 693 (1373)
T KOG0384|consen 669 -------------KM---------RDE-----AL----------------------------QALIQSSGKLVLLDKLLP 693 (1373)
T ss_pred -------------cc---------hHH-----HH----------------------------HHHHHhcCcEEeHHHHHH
Confidence 00 000 00 000012444444444444
Q ss_pred HhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHH
Q 000539 1218 SLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEAS 1297 (1433)
Q Consensus 1218 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~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 34789999999999999999999
Q ss_pred HHhcCCcEEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCC
Q 000539 1298 LKDSSIQYRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQ 1376 (1433)
Q Consensus 1298 L~~~gI~~~rldGsms~~qR~~aI~~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 4678999999999999999999999999999999999999999999999
Q ss_pred CCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC---cCcccccCCHHHHHHhh
Q 000539 1377 TRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE---TGGQQTRLTVDDLNYLF 1431 (1433)
Q Consensus 1377 tr~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 22345668888887654
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=4.1e-81 Score=775.79 Aligned_cols=556 Identities=46% Similarity=0.718 Sum_probs=481.9
Q ss_pred cCCCCCCCCCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhh
Q 000539 649 ISQPNAEASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLE 728 (1433)
Q Consensus 649 l~~p~~e~~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 445555566677666666 66666777766666667799999999999999999999988654300
Q ss_pred hccccccccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEE
Q 000539 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 66677889999
Q ss_pred EEEeCCCCCCCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000539 809 LVYHGSSRTKDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 809 lvyhG~~r~k~~~~L~~~DVVITTY~~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 88999999999999999999952
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchH
Q 000539 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~ 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-hhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHH
Q 000539 969 SFCSMIKVPISKNP-VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKE 1047 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~-~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 000539 1048 YAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAV 1127 (1433)
Q Consensus 1048 ~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~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 99999999999999999999999999999876443222111111110 11144455555 89999999 88899
Q ss_pred hcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccH
Q 000539 1128 VSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSS 1207 (1433)
Q Consensus 1128 vt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~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 0588
Q ss_pred HHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEccc
Q 000539 1208 KIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQW 1287 (1433)
Q Consensus 1208 Ki~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~ 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 99999999883100 003 499999999
Q ss_pred HHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHH
Q 000539 1288 TKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQA 1367 (1433)
Q Consensus 1288 t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1368 IDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGE 1412 (1433)
Q Consensus 1368 iGRahRIGQtr~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=1.9e-78 Score=777.72 Aligned_cols=474 Identities=29% Similarity=0.479 Sum_probs=395.7
Q ss_pred CCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000539 658 APDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 658 ~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
.|. .++..|++||+.||+||+..... +.|||||||||||||+|+|+++...+..
T Consensus 162 qP~-~i~~~Lr~YQleGlnWLi~l~~~---g~gGILADEMGLGKTlQaIalL~~L~~~---------------------- 215 (1033)
T PLN03142 162 QPS-CIKGKMRDYQLAGLNWLIRLYEN---GINGILADEMGLGKTLQTISLLGYLHEY---------------------- 215 (1033)
T ss_pred CCh-HhccchHHHHHHHHHHHHHHHhc---CCCEEEEeCCCccHHHHHHHHHHHHHHh----------------------
Confidence 344 45578999999999999987553 4789999999999999999999763211
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000539 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~ 817 (1433)
....+|+|||||++++.||.+||.+|++ .+++++|+|....
T Consensus 216 ------------------------------------~~~~gp~LIVvP~SlL~nW~~Ei~kw~p---~l~v~~~~G~~~e 256 (1033)
T PLN03142 216 ------------------------------------RGITGPHMVVAPKSTLGNWMNEIRRFCP---VLRAVKFHGNPEE 256 (1033)
T ss_pred ------------------------------------cCCCCCEEEEeChHHHHHHHHHHHHHCC---CCceEEEeCCHHH
Confidence 0123679999999999999999999986 6899999998643
Q ss_pred CC-----cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCC
Q 000539 818 KD-----PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDG 892 (1433)
Q Consensus 818 k~-----~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~ 892 (1433)
+. .....++|||||||+++.++.
T Consensus 257 R~~~~~~~~~~~~~dVvITSYe~l~~e~---------------------------------------------------- 284 (1033)
T PLN03142 257 RAHQREELLVAGKFDVCVTSFEMAIKEK---------------------------------------------------- 284 (1033)
T ss_pred HHHHHHHHhcccCCCcceecHHHHHHHH----------------------------------------------------
Confidence 21 112357999999999986421
Q ss_pred cccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHh
Q 000539 893 LLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCS 972 (1433)
Q Consensus 893 ~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~F~~ 972 (1433)
..|..+.|++|||||||+|||..++++++++.|++.+||+|||||++|++.|||++++||.|+.|.+...|..
T Consensus 285 -------~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~ 357 (1033)
T PLN03142 285 -------TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDE 357 (1033)
T ss_pred -------HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHH
Confidence 1366788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhccCCCCCchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcC
Q 000539 973 MIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 973 ~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g 1052 (1433)
+|..+........+.+|+.+|++||+||+|.+|.. .|||+.+.+++|.||+.|+++|..+.......+ ..+
T Consensus 358 ~f~~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~-----~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l----~~g 428 (1033)
T PLN03142 358 WFQISGENDQQEVVQQLHKVLRPFLLRRLKSDVEK-----GLPPKKETILKVGMSQMQKQYYKALLQKDLDVV----NAG 428 (1033)
T ss_pred HHccccccchHHHHHHHHHHhhHHHhhhhHHHHhh-----hCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH----hcc
Confidence 99876555566678899999999999999999975 799999999999999999999998876543322 222
Q ss_pred cccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccC
Q 000539 1053 TVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICG 1132 (1433)
Q Consensus 1053 ~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~Cg 1132 (1433)
. ....++..+++||++|+||.|+....... +.
T Consensus 429 ~---~~~~LlnilmqLRk~cnHP~L~~~~ep~~----------------------------------------~~----- 460 (1033)
T PLN03142 429 G---ERKRLLNIAMQLRKCCNHPYLFQGAEPGP----------------------------------------PY----- 460 (1033)
T ss_pred c---cHHHHHHHHHHHHHHhCCHHhhhcccccC----------------------------------------cc-----
Confidence 1 23457888999999999998764321000 00
Q ss_pred cccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHH
Q 000539 1133 HVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAA 1212 (1433)
Q Consensus 1133 HvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~al 1212 (1433)
..+ ......+.|+..+
T Consensus 461 -------------------------------------------------------~~~---------e~lie~SgKl~lL 476 (1033)
T PLN03142 461 -------------------------------------------------------TTG---------EHLVENSGKMVLL 476 (1033)
T ss_pred -------------------------------------------------------cch---------hHHhhhhhHHHHH
Confidence 000 0011236788888
Q ss_pred HHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHH
Q 000539 1213 LEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLD 1292 (1433)
Q Consensus 1213 lelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~Ld 1292 (1433)
.++|..+. ..+.||||||||+.+++
T Consensus 477 dkLL~~Lk-------------------------------------------------------~~g~KVLIFSQft~~Ld 501 (1033)
T PLN03142 477 DKLLPKLK-------------------------------------------------------ERDSRVLIFSQMTRLLD 501 (1033)
T ss_pred HHHHHHHH-------------------------------------------------------hcCCeEEeehhHHHHHH
Confidence 88777642 26789999999999999
Q ss_pred HHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhh
Q 000539 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRA 1371 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~-~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRa 1371 (1433)
+|+.+|...|++|++|+|+++..+|+++|++|+.++ ...|||+|++|||+|||||.|++||+||+||||+.+.||+|||
T Consensus 502 iLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRa 581 (1033)
T PLN03142 502 ILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRA 581 (1033)
T ss_pred HHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHh
Confidence 999999999999999999999999999999999754 5679999999999999999999999999999999999999999
Q ss_pred hccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000539 1372 HRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1372 hRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
|||||+++|+||||++++||||+|++++.+|..+...+++.+... ....++-+||..||.
T Consensus 582 HRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~Ld~~Vi~~g~~~-~~~~~~~~eL~~ll~ 641 (1033)
T PLN03142 582 HRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVIQQGRLA-EQKTVNKDELLQMVR 641 (1033)
T ss_pred hhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHHHHHHHhcCccc-ccccCCHHHHHHHHH
Confidence 999999999999999999999999999999999999998765432 235688889988874
No 9
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=2.6e-79 Score=729.17 Aligned_cols=495 Identities=30% Similarity=0.506 Sum_probs=390.0
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 5699999999999998777553 47999999999999999999875432
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-----
Q 000539 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 799999999974321
Q ss_pred -cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccc
Q 000539 820 -PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIV 898 (1433)
Q Consensus 820 -~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~ 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 000539 899 AGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVY-KSFCSMIKVP 977 (1433)
Q Consensus 899 ~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~-~~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 3444444332
Q ss_pred CC-CC-------chhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHH
Q 000539 978 IS-KN-------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYA 1049 (1433)
Q Consensus 978 i~-~~-------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 11 13357788999999999999999998 8999999999999999999999988655422211111
Q ss_pred HcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHH------HHHHHHhhhhcccccCCCCCC
Q 000539 1050 AAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQ------MYLLNCLEASLAICGICNDPP 1123 (1433)
Q Consensus 1050 ~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~------~~ll~~le~s~~~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----GNVLMQLRKAANHPLLFRSIYTDEKLR---KMAKRILNEPAYKKANEQYIFEDMEVMS---------- 733 (941)
T ss_pred cc-ccccc----chHHHHHHHHhcChhHHHHhccHHHHH---HHHHHHhCchhhhhcCHHHHHHHHHhhh----------
Confidence 11 00111 346899999999999998877655433 34444333211 11111111100
Q ss_pred CcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcc
Q 000539 1124 EDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVW 1203 (1433)
Q Consensus 1124 e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~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 000539 1204 YNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIV 1283 (1433)
Q Consensus 1204 ~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIV 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 36899999
Q ss_pred EcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcCh
Q 000539 1284 FSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTT 1363 (1433)
Q Consensus 1284 FSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1364 EDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1364 e~QAiGRahRIGQtr~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=8.5e-77 Score=716.88 Aligned_cols=582 Identities=30% Similarity=0.455 Sum_probs=423.5
Q ss_pred CCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccc
Q 000539 657 SAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEED 736 (1433)
Q Consensus 657 ~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~ 736 (1433)
.+-+.+|...|+.||+.||.||+...... ..||||||||||||||+|+|+++.--
T Consensus 606 tpvPsLLrGqLReYQkiGLdWLatLYekn---lNGILADEmGLGKTIQtISllAhLAC---------------------- 660 (1958)
T KOG0391|consen 606 TPVPSLLRGQLREYQKIGLDWLATLYEKN---LNGILADEMGLGKTIQTISLLAHLAC---------------------- 660 (1958)
T ss_pred cCchHHHHHHHHHHHHhhHHHHHHHHHhc---ccceehhhhcccchhHHHHHHHHHHh----------------------
Confidence 34456778889999999999999987765 45999999999999999999976321
Q ss_pred cccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCC
Q 000539 737 NGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSR 816 (1433)
Q Consensus 737 ~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r 816 (1433)
.....+|.|||||++++-+|+-|+++|++ .|+++.|+|+.+
T Consensus 661 ------------------------------------eegnWGPHLIVVpTsviLnWEMElKRwcP---glKILTYyGs~k 701 (1958)
T KOG0391|consen 661 ------------------------------------EEGNWGPHLIVVPTSVILNWEMELKRWCP---GLKILTYYGSHK 701 (1958)
T ss_pred ------------------------------------cccCCCCceEEeechhhhhhhHHHhhhCC---cceEeeecCCHH
Confidence 12345789999999999999999999998 799999999976
Q ss_pred CCC-----cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCC
Q 000539 817 TKD-----PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPD 891 (1433)
Q Consensus 817 ~k~-----~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~ 891 (1433)
.+. ..+-..|.|.||+|..+..+.
T Consensus 702 ErkeKRqgW~kPnaFHVCItSYklv~qd~--------------------------------------------------- 730 (1958)
T KOG0391|consen 702 ERKEKRQGWAKPNAFHVCITSYKLVFQDL--------------------------------------------------- 730 (1958)
T ss_pred HHHHHhhcccCCCeeEEeehhhHHHHhHH---------------------------------------------------
Confidence 542 233346889999999996432
Q ss_pred CcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHH
Q 000539 892 GLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFC 971 (1433)
Q Consensus 892 ~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~F~ 971 (1433)
..|.+.+|..+||||||+|||.++++++|+..+++.+|++|||||+||++.|||++++||+|..|.+...|.
T Consensus 731 --------~AFkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk 802 (1958)
T KOG0391|consen 731 --------TAFKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFK 802 (1958)
T ss_pred --------HHHHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHH
Confidence 125667899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhccCCCCC-------chhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHH
Q 000539 972 SMIKVPISKN-------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQ 1044 (1433)
Q Consensus 972 ~~i~~pi~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~~~~~ 1044 (1433)
.||.+|+... ..+.+.+|+++|++|+|||+|.+|.+ .||.|.+++++|.|+..||.+|+.+..+ ..
T Consensus 803 ~wfsnPltgmiEgsqeyn~klV~RLHkVlrPfiLRRlK~dVEK-----QlpkKyEHvv~CrLSkRQR~LYDDfmsq--~~ 875 (1958)
T KOG0391|consen 803 PWFSNPLTGMIEGSQEYNHKLVIRLHKVLRPFILRRLKRDVEK-----QLPKKYEHVVKCRLSKRQRALYDDFMSQ--PG 875 (1958)
T ss_pred HHhcCcchhhcccchhhchHHHHHHHHHhHHHHHHHHHHHHHH-----hcchhhhhheeeehhhhHHHHHHHHhhc--cc
Confidence 9999998643 23447899999999999999999987 8999999999999999999999987543 23
Q ss_pred HHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccC-------------ch-hhhhhHHH------------------
Q 000539 1045 FKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFD-------------SN-SLLRSSVE------------------ 1092 (1433)
Q Consensus 1045 ~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~-------------~~-s~~~~s~e------------------ 1092 (1433)
-++.+.. .+++++|..||+||++||||-|+...- .. ...+...+
T Consensus 876 TKetLkS----GhfmsVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~ 951 (1958)
T KOG0391|consen 876 TKETLKS----GHFMSVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTS 951 (1958)
T ss_pred hhhHhhc----CchhHHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcc
Confidence 3444444 478999999999999999998863210 00 00000000
Q ss_pred --------------------------------------------------------------------------------
Q 000539 1093 -------------------------------------------------------------------------------- 1092 (1433)
Q Consensus 1093 -------------------------------------------------------------------------------- 1092 (1433)
T Consensus 952 ~vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p 1031 (1958)
T KOG0391|consen 952 AVPAVRPASAKLSASPLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGP 1031 (1958)
T ss_pred cccccchhhhhhcccccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCc
Confidence
Q ss_pred --HHh---------------------------------------------------------------------------
Q 000539 1093 --MAK--------------------------------------------------------------------------- 1095 (1433)
Q Consensus 1093 --~a~--------------------------------------------------------------------------- 1095 (1433)
+.+
T Consensus 1032 ~~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gt 1111 (1958)
T KOG0391|consen 1032 QSRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGT 1111 (1958)
T ss_pred HhHhhcCCCceeeeeecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcch
Confidence 000
Q ss_pred --------------hchHHHHHHHHHHhhh----h--------cccccCCCC--------CCCcchhcccCc-ccchhhh
Q 000539 1096 --------------KLPQERQMYLLNCLEA----S--------LAICGICND--------PPEDAVVSICGH-VFCNQCI 1140 (1433)
Q Consensus 1096 --------------~l~~e~~~~ll~~le~----s--------~~~C~iC~~--------~~e~~vvt~CgH-vfC~~Ci 1140 (1433)
++..+++..+..+|.. . ..+|.+=++ .+...+++.|.- -.|..-|
T Consensus 1112 at~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iI 1191 (1958)
T KOG0391|consen 1112 ATLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDII 1191 (1958)
T ss_pred hhhccCCCccccccchhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHH
Confidence 0000000001001000 0 011222111 111123333321 1122222
Q ss_pred hhhhc-cCCCCCCCcccccc-----ccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHHHH
Q 000539 1141 CERLT-ADDNQCPTRNCKIR-----LSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALE 1214 (1433)
Q Consensus 1141 ~e~l~-~~~~~Cp~~~C~~~-----l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~alle 1214 (1433)
..+.. .....-+.+.|+.. +....-.-...+...+........+ ...-....+...=..|...|+.+|.-
T Consensus 1192 drfafv~ppvva~ppslra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~----~~~r~lqFPelrLiqyDcGKLQtLAi 1267 (1958)
T KOG0391|consen 1192 DRFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQT----TAPRLLQFPELRLIQYDCGKLQTLAI 1267 (1958)
T ss_pred HHheeecccccCCChhhcCCCCCcccchHHHHHHHHHHHHhccccchhhc----cchhhhcCcchheeecccchHHHHHH
Confidence 22211 01111111112111 1111000001111111110000000 00111112222333467788888888
Q ss_pred HHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHH
Q 000539 1215 VLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLL 1294 (1433)
Q Consensus 1215 lL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlL 1294 (1433)
+|+.+ +..|+++|||+|.+.|||+|
T Consensus 1268 LLqQL-------------------------------------------------------k~eghRvLIfTQMtkmLDVL 1292 (1958)
T KOG0391|consen 1268 LLQQL-------------------------------------------------------KSEGHRVLIFTQMTKMLDVL 1292 (1958)
T ss_pred HHHHH-------------------------------------------------------HhcCceEEehhHHHHHHHHH
Confidence 77774 23789999999999999999
Q ss_pred HHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc
Q 000539 1295 EASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1295 e~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRI 1374 (1433)
+.+|..+|+.|+||||.++.++|++++++||.|..+.++|+|+++||+|+|||.|++|||||..|||+...||.+|+|||
T Consensus 1293 eqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRI 1372 (1958)
T KOG0391|consen 1293 EQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRI 1372 (1958)
T ss_pred HHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhcC
Q 000539 1375 GQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1375 GQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~~ 1433 (1433)
||+|+|||||||.+.|||+.|++....|+.+-+-++.+++. ...-++..+++.||++
T Consensus 1373 GqtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdf--Tt~ff~q~ti~dLFd~ 1429 (1958)
T KOG0391|consen 1373 GQTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDF--TTAFFKQRTIRDLFDV 1429 (1958)
T ss_pred cCccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCc--cHHHHhhhhHHHHhcC
Confidence 99999999999999999999999999999998888766543 2345777788888874
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=2.7e-74 Score=672.24 Aligned_cols=544 Identities=30% Similarity=0.472 Sum_probs=393.1
Q ss_pred CCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccc
Q 000539 660 DGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGI 739 (1433)
Q Consensus 660 ~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 45788999999999999999987644 3499999999999999999997642 111
Q ss_pred ccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 000539 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 123689999999999999999999988 799999999864432
Q ss_pred -----------cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000539 820 -----------PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 820 -----------~~~L~~~DVVITTY~~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 12446789999999998531 1
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchH
Q 000539 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~ 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-------chhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHH
Q 000539 969 SFCSMIKVPISKN-------PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINS 1041 (1433)
Q Consensus 969 ~F~~~i~~pi~~~-------~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 9999998887643 35668999999999999999999976 89999999999999999999999885443
Q ss_pred HHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhh--------hhHHH-----HHhhchHH---HHHHH
Q 000539 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 112234789999999999998654332111 00000 00011110 00000
Q ss_pred H--HHhhhhcccccCC---C-CCCC---cchh--cccCc-ccc-----hhhhhhhhcc---------------------C
Q 000539 1106 L--NCLEASLAICGIC---N-DPPE---DAVV--SICGH-VFC-----NQCICERLTA---------------------D 1147 (1433)
Q Consensus 1106 l--~~le~s~~~C~iC---~-~~~e---~~vv--t~CgH-vfC-----~~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 0 0011111122211 1 1110 0000 00110 010 0000000000 0
Q ss_pred CCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCccccc---CCcCCCcccccHHHHHHHHHHHHhcCCCC
Q 000539 1148 DNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVE---APSCEGVWYNSSKIKAALEVLQSLAKPRG 1224 (1433)
Q Consensus 1148 ~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~---~~~~~~~~~~ssKi~allelL~~l~~~~~ 1224 (1433)
...|..|+....- .|-...++.+ +++.......+.. .++.......|.|+..|-++|.++
T Consensus 978 ~~y~y~P~v~apP---------vLI~~ead~P---eId~E~~~~pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kL----- 1040 (1185)
T KOG0388|consen 978 HVYCYSPVVAAPP---------VLISNEADLP---EIDLENRHIPLNTTIYVPPMNTFITDSGKLVVLDELLPKL----- 1040 (1185)
T ss_pred heeeeccccCCCC---------eeeecccCCC---CCCccccCcccccceecCcHHhhhccccceeeHHHHHHHh-----
Confidence 0012211111110 0111111111 0000000000000 011122223455655555555542
Q ss_pred CcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhcCCc
Q 000539 1225 NTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSSIQ 1304 (1433)
Q Consensus 1225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~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 347999999999999999999999999999
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEE
Q 000539 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLR 1384 (1433)
Q Consensus 1305 ~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 000539 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 999999999999999999998888875543
No 12
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=5.9e-66 Score=635.22 Aligned_cols=494 Identities=27% Similarity=0.387 Sum_probs=386.4
Q ss_pred CCCCcccCCchHHHHHHHHHHHhhccCC---CCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000539 659 PDGVLAVPLLRHQRIALSWMVQKETSSL---HCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 659 P~g~l~v~L~phQk~av~wMl~rE~~~~---~~~GGILADEMGLGKTlqaIALI~~~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 45789999999999999999999764321
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000539 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 --------------FPQ-A-------------------KPLINKPLVVAPSSLVNNWKKEFGKWLGN-HRINPLDFYSTK 335 (776)
T ss_pred --------------CcC-c-------------------cccccccEEEccHHHHHHHHHHHHHhccc-cccceeeeeccc
Confidence 000 0 01235689999999999999999999763 478888888887
Q ss_pred CCC---------CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccC
Q 000539 816 RTK---------DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQ 886 (1433)
Q Consensus 816 r~k---------~~~~L~~~DVVITTY~~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 1111223458899999886321
Q ss_pred CCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccc
Q 000539 887 KKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAV 966 (1433)
Q Consensus 887 kk~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~ 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 1145566789999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhHhccCCCCCch-----------hhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHH
Q 000539 967 YKSFCSMIKVPISKNPV-----------KGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYS 1035 (1433)
Q Consensus 967 ~~~F~~~i~~pi~~~~~-----------~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 99999999999866322 236779999999999999966655 89999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhccc
Q 000539 1036 QLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAI 1115 (1433)
Q Consensus 1036 ~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~ 1115 (1433)
.+.... .. ..+ .| + .|..++.|+++|+||.|+...+
T Consensus 512 ~l~~~~-~~-~~~--~~-----~--~l~~~~~L~k~cnhP~L~~~~~--------------------------------- 547 (776)
T KOG0390|consen 512 KLLDSM-KM-RTL--KG-----Y--ALELITKLKKLCNHPSLLLLCE--------------------------------- 547 (776)
T ss_pred HHHHHH-Hh-hhh--hc-----c--hhhHHHHHHHHhcCHHhhcccc---------------------------------
Confidence 986542 11 110 11 1 5778889999999998874110
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCccccc
Q 000539 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVE 1195 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~ 1195 (1433)
.|.. ++. .+....+ . .....
T Consensus 548 --~~~~----------------------------------e~~------~~~~~~~----~-------------~~~~~- 567 (776)
T KOG0390|consen 548 --KTEK----------------------------------EKA------FKNPALL----L-------------DPGKL- 567 (776)
T ss_pred --cccc----------------------------------ccc------ccChHhh----h-------------ccccc-
Confidence 0000 000 0000000 0 00000
Q ss_pred CCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccc
Q 000539 1196 APSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIK 1275 (1433)
Q Consensus 1196 ~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~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 0001111236777777777644211
Q ss_pred cCCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCc-cEEEeeccccccccCccccCEEEE
Q 000539 1276 LGGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEV-SVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1276 ~~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAiGRahRIGQtr~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 999999999999999999999999999999999999999999999999999999998766532 2233378888875
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=2.3e-67 Score=639.28 Aligned_cols=461 Identities=31% Similarity=0.491 Sum_probs=381.9
Q ss_pred CCCCCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccc
Q 000539 656 ASAPDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEE 735 (1433)
Q Consensus 656 ~~~P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 446777777899999999999999887765 459999999999999999999874311
Q ss_pred ccccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC
Q 000539 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 1223689999999999999999999976 79999999986
Q ss_pred CCCC----cccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCC
Q 000539 816 RTKD----PCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPD 891 (1433)
Q Consensus 816 r~k~----~~~L~~~DVVITTY~~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 12236999999999988531
Q ss_pred CcccccccCCccccCccEEEEcCccccCChhhHHHHHHH-hcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHH
Q 000539 892 GLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACW-GLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSF 970 (1433)
Q Consensus 892 ~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~-~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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----------hHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHH
Q 000539 971 CSMIKVPISKNPVK----------GYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEIN 1040 (1433)
Q Consensus 971 ~~~i~~pi~~~~~~----------~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 26799999999999999999986 8999999999999999999999877432
Q ss_pred HHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCC
Q 000539 1041 SRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICN 1120 (1433)
Q Consensus 1041 ~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~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 21110 11122345566788899999999999886322100 00000
Q ss_pred CCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCC
Q 000539 1121 DPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCE 1200 (1433)
Q Consensus 1121 ~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~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 000539 1201 GVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEK 1280 (1433)
Q Consensus 1201 ~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eK 1280 (1433)
..+..+.|++.+-.+|-+ +++.+++
T Consensus 704 dL~R~sGKfELLDRiLPK-------------------------------------------------------LkatgHR 728 (1157)
T KOG0386|consen 704 DLVRVSGKFELLDRILPK-------------------------------------------------------LKATGHR 728 (1157)
T ss_pred HHHHhccHHHHHHhhhHH-------------------------------------------------------HHhcCcc
Confidence 112235666555555544 3447899
Q ss_pred EEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEEEcCCC
Q 000539 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWW 1359 (1433)
Q Consensus 1281 vIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 46899999999999999999999999999999
Q ss_pred CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhC
Q 000539 1360 NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFG 1411 (1433)
Q Consensus 1360 NPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~lg 1411 (1433)
||..+.||.+|+|||||+++|.|.||++-+++||+|++.+..|..+...++.
T Consensus 809 np~~d~qaqdrahrigq~~evRv~rl~tv~sveE~il~~a~~Kl~~d~kviq 860 (1157)
T KOG0386|consen 809 NPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEEKILAEAFYKLDVDGKVIQ 860 (1157)
T ss_pred CchhHHHHHHHHHHhhchhheeeeeeehhhHHHHHHHHHHHHhcCchHhhhh
Confidence 9999999999999999999999999999999999999999999887766653
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=5.5e-61 Score=572.88 Aligned_cols=580 Identities=25% Similarity=0.318 Sum_probs=382.4
Q ss_pred cccCCchHHHHHHHHHHHhhc------cCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccc
Q 000539 663 LAVPLLRHQRIALSWMVQKET------SSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEED 736 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~------~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~ 736 (1433)
|...|.|||..||.||+.--- ....+.||||||=||||||+|.|+++......
T Consensus 665 lv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c--------------------- 723 (1567)
T KOG1015|consen 665 LVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLC--------------------- 723 (1567)
T ss_pred HHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHh---------------------
Confidence 345699999999999997321 22356899999999999999999998553210
Q ss_pred cccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcC---CCCcEEEEEeC
Q 000539 737 NGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTS---KGSLSVLVYHG 813 (1433)
Q Consensus 737 ~~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~---~~~L~VlvyhG 813 (1433)
. ..-.++.|||||.+++.+|.+|+++|.+. ...|.|.-+..
T Consensus 724 ------------------~------------------klg~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~ 767 (1567)
T KOG1015|consen 724 ------------------D------------------KLGFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELAT 767 (1567)
T ss_pred ------------------h------------------ccCCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhh
Confidence 0 01235689999999999999999999873 12455555544
Q ss_pred CCCCCCc----ccc-cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCC
Q 000539 814 SSRTKDP----CEL-AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKK 888 (1433)
Q Consensus 814 ~~r~k~~----~~L-~~~DVVITTY~~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 4443221 111 2457999999999752100 0000 00 0
Q ss_pred CCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchH
Q 000539 889 GPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYK 968 (1433)
Q Consensus 889 ~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~ 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------------hhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHH
Q 000539 969 SFCSMIKVPISKNPV------------KGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQ 1036 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~~------------~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 223458889999998887776655 799999999999999999999998
Q ss_pred HHHHHHHHHHHHHHcCccc---chHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhc
Q 000539 1037 LEINSRDQFKEYAAAGTVK---QNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASL 1113 (1433)
Q Consensus 1037 L~~~~~~~~~~~~~~g~~~---~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~ 1113 (1433)
+..... . ..+... ....++|+.+.-|+++..||..+.-.... .+ .+.+..+ ..
T Consensus 959 yL~h~~-~-----~G~d~eg~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~------~e-nkR~~se-----------dd 1014 (1567)
T KOG1015|consen 959 YLDHLT-G-----VGNDSEGGRGAGARLFQDFQMLSRIWTHPWCLQLDSIS------KE-NKRYFSE-----------DD 1014 (1567)
T ss_pred HHhhcc-c-----cCCccccccchhhhHHHHHHHHHHHhcCCCceeechhh------hh-hcccccc-----------cc
Confidence 754111 0 111111 24567888888999999999754321100 00 0000000 00
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhcc-CCCCCCCccccccccccchhhh---hhcccccccCCCCCCC----C
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTA-DDNQCPTRNCKIRLSLSSVFSK---ATLNNSLSQRQPGQEI----P 1185 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~-~~~~Cp~~~C~~~l~~~~~f~~---~~l~~~~~~~~~~~~~----~ 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 111222221111100000 00000000000000 0000000 00000000000000 0000000000000000 0
Q ss_pred CCCCCcccccC------------CcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCC
Q 000539 1186 TDYSDSKLVEA------------PSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGD 1253 (1433)
Q Consensus 1186 ~~~s~~~~~~~------------~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 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 0000111123333333333332
Q ss_pred cccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHh----------------------cCCcEEecCCC
Q 000539 1254 TLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKD----------------------SSIQYRRLDGT 1311 (1433)
Q Consensus 1254 ~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L~~----------------------~gI~~~rldGs 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 123589999999999999999999963 26789999999
Q ss_pred CCHHHHHHHHHHHhcCCC--ccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1312 MSVFARDKAVKDFNTLPE--VSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1312 ms~~qR~~aI~~Fn~d~~--v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 667999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000539 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 99999999999999999999976433 34588889998885
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.9e-60 Score=626.39 Aligned_cols=495 Identities=38% Similarity=0.579 Sum_probs=396.9
Q ss_pred CCcccCCchHHHHHHHHHHH-hhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccc
Q 000539 661 GVLAVPLLRHQRIALSWMVQ-KETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGI 739 (1433)
Q Consensus 661 g~l~v~L~phQk~av~wMl~-rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 433 23799999999999999999999752211
Q ss_pred ccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcE-EEEEeCCCCC-
Q 000539 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 000539 818 ----KDPCELAK------FDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQK 887 (1433)
Q Consensus 818 ----k~~~~L~~------~DVVITTY~~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 000539 888 KGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFR-FLRYDPFA- 965 (1433)
Q Consensus 888 k~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~-FL~p~pf~- 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 0012367889999999999999999999999999999999999999999999999999999 99999999
Q ss_pred chHHHHhHhccCCCCCch--------hhHHHHHHHHhhhhheecccc--ccCCCCccCCCCcEEEEEEecCCHHHHHHHH
Q 000539 966 VYKSFCSMIKVPISKNPV--------KGYKKLQAVLKTIMLRRTKGT--LLDGEPIINLPPKVIMLKQVDFTDEERDFYS 1035 (1433)
Q Consensus 966 ~~~~F~~~i~~pi~~~~~--------~~~~~L~~lL~~~mLRRtK~d--v~dg~pii~LPpk~e~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 000539 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 444444443333211 11 36789999999999999998875321 000
Q ss_pred HhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCC
Q 000539 1108 CLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTD 1187 (1433)
Q Consensus 1108 ~le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~ 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 000539 1188 YSDSKLVEAPSCEGVWYNS-SKIKAALEVL-QSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKI 1265 (1433)
Q Consensus 1188 ~s~~~~~~~~~~~~~~~~s-sKi~allelL-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~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 000539 1266 AAKCSIDSIKLGGE--KAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1266 ~~~~~~~~i~~~~e--KvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1344 LNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLT 1423 (1433)
Q Consensus 1344 LNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 2234678899
Q ss_pred HHHHHHhhc
Q 000539 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=501.67 Aligned_cols=580 Identities=24% Similarity=0.347 Sum_probs=383.3
Q ss_pred ccCCchHHHHHHHHHHHhhcc------CCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccc
Q 000539 664 AVPLLRHQRIALSWMVQKETS------SLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDN 737 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~------~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~ 737 (1433)
.--|.|||+-|+.||...--. ...+.|+|||+.||||||+|.|+++-...+
T Consensus 252 a~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflR----------------------- 308 (1387)
T KOG1016|consen 252 AHVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLR----------------------- 308 (1387)
T ss_pred HhhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhh-----------------------
Confidence 334899999999999764221 124689999999999999999998732211
Q ss_pred ccccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcC--------CCCcEEE
Q 000539 738 GIQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTS--------KGSLSVL 809 (1433)
Q Consensus 738 ~~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~--------~~~L~Vl 809 (1433)
..+++.+|+|+|-..|.+|-.|+..|.+. +..+.|+
T Consensus 309 ------------------------------------hT~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf 352 (1387)
T KOG1016|consen 309 ------------------------------------HTKAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVF 352 (1387)
T ss_pred ------------------------------------cCccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEE
Confidence 12356799999999999999999999984 2355666
Q ss_pred EEeCCCCCCC-----cccc-cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCcccc
Q 000539 810 VYHGSSRTKD-----PCEL-AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKG 883 (1433)
Q Consensus 810 vyhG~~r~k~-----~~~L-~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~ 883 (1433)
+.....++-+ ...| ....|+++.|++++-...+ ..+ ..++ +++..++.
T Consensus 353 ~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRLL~lk------------~~~----------~~gr----pkkt~kr~ 406 (1387)
T KOG1016|consen 353 LLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRLLILK------------TLP----------KKGR----PKKTLKRI 406 (1387)
T ss_pred EecCchhhHHHHHHHHHHHhccCCEEEehHHHHHHHHHh------------ccc----------ccCC----cccccccc
Confidence 6655443221 1112 3557999999999742111 000 0000 00000000
Q ss_pred ccCCCCCC-----CcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhc
Q 000539 884 SKQKKGPD-----GLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRF 958 (1433)
Q Consensus 884 ~~~kk~~~-----~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~F 958 (1433)
...--+.+ ..++..+...|.+-+.++||+||+|+|||....++.|+..+++++|+.|||-|+||++-|.|.++.|
T Consensus 407 ~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVDF 486 (1387)
T KOG1016|consen 407 SSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVDF 486 (1387)
T ss_pred CCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhhee
Confidence 00000000 0122345566888899999999999999999999999999999999999999999999999999999
Q ss_pred cccCCccchHHHHhHhccCCCCCc------------hhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecC
Q 000539 959 LRYDPFAVYKSFCSMIKVPISKNP------------VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDF 1026 (1433)
Q Consensus 959 L~p~pf~~~~~F~~~i~~pi~~~~------------~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~l 1026 (1433)
++|..+++.++|+.+|++||..+. ..+...|+.+|..|+-||+..-+. +.||.+.+.++.|.+
T Consensus 487 VRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk-----~~LP~k~EyViLvr~ 561 (1387)
T KOG1016|consen 487 VRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLK-----KILPEKKEYVILVRK 561 (1387)
T ss_pred ccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHh-----hhcccccceEEEEeH
Confidence 999999999999999999998763 122356899999999999976554 489999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHH
Q 000539 1027 TDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLL 1106 (1433)
Q Consensus 1027 S~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll 1106 (1433)
+..||++|..+...... +....+. ...+-|.+.----++.+||.++-.+- .... ...+....+.
T Consensus 562 s~iQR~LY~~Fm~d~~r---~~~~~~~---~~~NPLkAF~vCcKIWNHPDVLY~~l----~k~~------~a~e~dl~ve 625 (1387)
T KOG1016|consen 562 SQIQRQLYRNFMLDAKR---EIAANND---AVFNPLKAFSVCCKIWNHPDVLYRLL----EKKK------RAEEDDLRVE 625 (1387)
T ss_pred HHHHHHHHHHHHHHHHH---hhccccc---cccChHHHHHHHHHhcCChHHHHHHH----HHhh------hhhhhhhhHH
Confidence 99999999987533322 2222211 11244555555667779996542210 0000 1111000000
Q ss_pred HH-hhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCC
Q 000539 1107 NC-LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIP 1185 (1433)
Q Consensus 1107 ~~-le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~ 1185 (1433)
.. .......|+--+.++.++-.+ +.. -.++........ ......+
T Consensus 626 e~~~ag~~~~~~P~~~~~~~~s~~------------------------------laS--s~~k~~n~t~kp--~~s~~~p 671 (1387)
T KOG1016|consen 626 EMKFAGLQQQQSPFNSIPSNPSTP------------------------------LAS--STSKSANKTKKP--RGSKKAP 671 (1387)
T ss_pred HHhhhcccccCCCCCCCCCCCCCc------------------------------ccc--hhhhhhcccCCc--ccCcCCC
Confidence 00 001112232222222111100 000 000000000000 0000000
Q ss_pred C-CCCCcccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHH
Q 000539 1186 T-DYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEK 1264 (1433)
Q Consensus 1186 ~-~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~ 1264 (1433)
. +..+.+++.+ . .+..+++..... ..+.. ++ .. .-.++.+.+
T Consensus 672 ~f~ee~~e~~~y--------~----~w~~el~~nYq~--------gvLen-------~p---k~---V~~~~~~de---- 714 (1387)
T KOG1016|consen 672 KFDEEDEEVEKY--------S----DWTFELFENYQE--------GVLEN-------GP---KI---VISLEILDE---- 714 (1387)
T ss_pred Ccccccccccch--------h----hHHHHHHhhhhc--------ccccC-------CC---ce---EEEEeeecc----
Confidence 0 0011111111 0 233344433210 00000 00 00 001111111
Q ss_pred HHhhhcccccccCCCeEEEEcccHHHHHHHHHHHHhcC------------------CcEEecCCCCCHHHHHHHHHHHhc
Q 000539 1265 IAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDSS------------------IQYRRLDGTMSVFARDKAVKDFNT 1326 (1433)
Q Consensus 1265 ~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L~~~g------------------I~~~rldGsms~~qR~~aI~~Fn~ 1326 (1433)
-..-++|+|||||....|++|++.|.++. +.|++++|.++.++|+++|++||.
T Consensus 715 ---------s~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~ 785 (1387)
T KOG1016|consen 715 ---------STQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNS 785 (1387)
T ss_pred ---------ccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccC
Confidence 12368999999999999999999998753 348999999999999999999999
Q ss_pred CCCcc-EEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHH
Q 000539 1327 LPEVS-VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREM 1405 (1433)
Q Consensus 1327 d~~v~-VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l 1405 (1433)
.+++. .+|+|+++|..|+||..|+++|++|..|||....||++||+|+||+|+++||||++.+|+|.+|+.+|-+|+.|
T Consensus 786 e~~lsWlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGm 865 (1387)
T KOG1016|consen 786 EPGLSWLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGM 865 (1387)
T ss_pred CCCceeeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccc
Confidence 88887 78889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCCCcCcccccCCHHHHHHhhc
Q 000539 1406 VASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1406 ~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
.+.++++-. -...++..||..|.+
T Consensus 866 sdRvVDd~n---p~an~s~Ke~enLl~ 889 (1387)
T KOG1016|consen 866 SDRVVDDAN---PDANISQKELENLLM 889 (1387)
T ss_pred hhhhhcccC---ccccccHHHHHHHhh
Confidence 999997643 346788899988865
No 17
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=1.5e-52 Score=478.40 Aligned_cols=417 Identities=29% Similarity=0.354 Sum_probs=320.8
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000539 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
--.|+|+|++||.|.++|. +..|||||||||||+||||++.+.+..
T Consensus 196 vs~LlPFQreGv~faL~Rg------GR~llADeMGLGKTiQAlaIA~yyraE---------------------------- 241 (689)
T KOG1000|consen 196 VSRLLPFQREGVIFALERG------GRILLADEMGLGKTIQALAIARYYRAE---------------------------- 241 (689)
T ss_pred HHhhCchhhhhHHHHHhcC------CeEEEecccccchHHHHHHHHHHHhhc----------------------------
Confidence 4469999999999999752 236999999999999999998775432
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeC-CCCCCCccc
Q 000539 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHG-SSRTKDPCE 822 (1433)
Q Consensus 744 ~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG-~~r~k~~~~ 822 (1433)
+|.|||||+++...|++++.+|++.-.. +.+..+ ..+..+.
T Consensus 242 ----------------------------------wplliVcPAsvrftWa~al~r~lps~~p--i~vv~~~~D~~~~~-- 283 (689)
T KOG1000|consen 242 ----------------------------------WPLLIVCPASVRFTWAKALNRFLPSIHP--IFVVDKSSDPLPDV-- 283 (689)
T ss_pred ----------------------------------CcEEEEecHHHhHHHHHHHHHhcccccc--eEEEecccCCcccc--
Confidence 4689999999999999999999985433 333333 3322211
Q ss_pred ccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCc
Q 000539 823 LAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPL 902 (1433)
Q Consensus 823 L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~pL 902 (1433)
-....|+|++|+.+...- ..|
T Consensus 284 ~t~~~v~ivSye~ls~l~-----------------------------------------------------------~~l 304 (689)
T KOG1000|consen 284 CTSNTVAIVSYEQLSLLH-----------------------------------------------------------DIL 304 (689)
T ss_pred ccCCeEEEEEHHHHHHHH-----------------------------------------------------------HHH
Confidence 123459999999986320 114
Q ss_pred cccCccEEEEcCccccCChhhHHHHHHHhc--ccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhHhccCCCC
Q 000539 903 AKVGWFRVVLDEAQSIKNHRTQVARACWGL--RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISK 980 (1433)
Q Consensus 903 ~~i~W~rVILDEAH~IKN~~T~~srAl~~L--~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~F~~~i~~pi~~ 980 (1433)
..-+|..||+||+|++|+.++++.+++.-+ .+++.++|||||.-.++.|||.+++.+.+..|.++.+|..+|+.-..-
T Consensus 305 ~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~v 384 (689)
T KOG1000|consen 305 KKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQV 384 (689)
T ss_pred hcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCcccc
Confidence 445699999999999999999999998877 799999999999999999999999999999999999999888753321
Q ss_pred ------CchhhHHHHHHHHh-hhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCc
Q 000539 981 ------NPVKGYKKLQAVLK-TIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGT 1053 (1433)
Q Consensus 981 ------~~~~~~~~L~~lL~-~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~ 1053 (1433)
..-.+..+|..+|. .+|+||+|.+|+. .|||+..+++.+ .....-+..+.+... .++ ++
T Consensus 385 r~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~-----qLPpKrr~Vv~~-~~gr~da~~~~lv~~-------a~~-~t 450 (689)
T KOG1000|consen 385 RFCFDYKGCTNLEELAALLFKRLMIRRLKADVLK-----QLPPKRREVVYV-SGGRIDARMDDLVKA-------AAD-YT 450 (689)
T ss_pred ceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHh-----hCCccceEEEEE-cCCccchHHHHHHHH-------hhh-cc
Confidence 12334677887774 5799999999987 899996555544 333222222222111 111 11
Q ss_pred ccchH-HHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccC
Q 000539 1054 VKQNY-VNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICG 1132 (1433)
Q Consensus 1054 ~~~~~-~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~Cg 1132 (1433)
..... .+-+.+++..++
T Consensus 451 ~~~~~e~~~~~l~l~y~~-------------------------------------------------------------- 468 (689)
T KOG1000|consen 451 KVNSMERKHESLLLFYSL-------------------------------------------------------------- 468 (689)
T ss_pred hhhhhhhhhHHHHHHHHH--------------------------------------------------------------
Confidence 00000 000000000000
Q ss_pred cccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHH
Q 000539 1133 HVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAA 1212 (1433)
Q Consensus 1133 HvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~al 1212 (1433)
..-.|+.+.
T Consensus 469 -----------------------------------------------------------------------tgiaK~~av 477 (689)
T KOG1000|consen 469 -----------------------------------------------------------------------TGIAKAAAV 477 (689)
T ss_pred -----------------------------------------------------------------------hcccccHHH
Confidence 013466666
Q ss_pred HHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHH
Q 000539 1213 LEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLD 1292 (1433)
Q Consensus 1213 lelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~Ld 1292 (1433)
.+.|....- + ...++.|++||+.+..+||
T Consensus 478 ~eyi~~~~~---------------------------------l------------------~d~~~~KflVFaHH~~vLd 506 (689)
T KOG1000|consen 478 CEYILENYF---------------------------------L------------------PDAPPRKFLVFAHHQIVLD 506 (689)
T ss_pred HHHHHhCcc---------------------------------c------------------ccCCCceEEEEehhHHHHH
Confidence 666655110 0 0126899999999999999
Q ss_pred HHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhh
Q 000539 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAH 1372 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRah 1372 (1433)
-|+..+.++++.++||||+++..+|+.+++.|+.+.+++|-|+|..|+|+||.|++|+.|+|.+++|||....||.+|+|
T Consensus 507 ~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaH 586 (689)
T KOG1000|consen 507 TIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAH 586 (689)
T ss_pred HHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHH
Q 000539 1373 RIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASA 1409 (1433)
Q Consensus 1373 RIGQtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~~~ 1409 (1433)
|+|||.-|.|++|++++|+||.++.+.++|...+.++
T Consensus 587 RiGQkssV~v~ylvAKgT~Ddy~Wp~l~~KL~vl~s~ 623 (689)
T KOG1000|consen 587 RIGQKSSVFVQYLVAKGTADDYMWPMLQQKLDVLGSV 623 (689)
T ss_pred hccccceeeEEEEEecCchHHHHHHHHHHHHHHHhhc
Confidence 9999999999999999999999999999999988776
No 18
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=7e-52 Score=531.70 Aligned_cols=421 Identities=20% Similarity=0.287 Sum_probs=315.0
Q ss_pred cccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccc
Q 000539 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVN 742 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~ 742 (1433)
..+.|+|||...+.+++.+.. .+.|||||||||||++|++++.....
T Consensus 149 ~~~~l~pHQl~~~~~vl~~~~-----~R~LLADEvGLGKTIeAglil~~l~~---------------------------- 195 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGRRHA-----PRVLLADEVGLGKTIEAGMIIHQQLL---------------------------- 195 (956)
T ss_pred CCCCCCHHHHHHHHHHhhccC-----CCEEEEeCCcCcHHHHHHHHHHHHHH----------------------------
Confidence 356799999999998876632 45799999999999999777643210
Q ss_pred cccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC----C
Q 000539 743 GLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT----K 818 (1433)
Q Consensus 743 ~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~----k 818 (1433)
....+++|||||++|+.||..|+.++|. +.+.++.+..-. .
T Consensus 196 -------------------------------~g~~~rvLIVvP~sL~~QW~~El~~kF~----l~~~i~~~~~~~~~~~~ 240 (956)
T PRK04914 196 -------------------------------TGRAERVLILVPETLQHQWLVEMLRRFN----LRFSLFDEERYAEAQHD 240 (956)
T ss_pred -------------------------------cCCCCcEEEEcCHHHHHHHHHHHHHHhC----CCeEEEcCcchhhhccc
Confidence 1234679999999999999999998875 556666554311 1
Q ss_pred CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccc
Q 000539 819 DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIV 898 (1433)
Q Consensus 819 ~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~ 898 (1433)
....+..++++|+||+.+...- . .
T Consensus 241 ~~~pf~~~~~vI~S~~~l~~~~----------~----~------------------------------------------ 264 (956)
T PRK04914 241 ADNPFETEQLVICSLDFLRRNK----------Q----R------------------------------------------ 264 (956)
T ss_pred ccCccccCcEEEEEHHHhhhCH----------H----H------------------------------------------
Confidence 1234457899999999996310 0 0
Q ss_pred cCCccccCccEEEEcCccccCCh---hhHHHHHHHhc--ccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhH
Q 000539 899 AGPLAKVGWFRVVLDEAQSIKNH---RTQVARACWGL--RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSM 973 (1433)
Q Consensus 899 ~~pL~~i~W~rVILDEAH~IKN~---~T~~srAl~~L--~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~F~~~ 973 (1433)
...+....|++|||||||++|+. .++.++++..| +++++++|||||++|++.|+|++++||+|+.|.++..|...
T Consensus 265 ~~~l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e 344 (956)
T PRK04914 265 LEQALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEE 344 (956)
T ss_pred HHHHhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHH
Confidence 01144568999999999999953 46678888888 67899999999999999999999999999999999999764
Q ss_pred hcc--CC--------CCC--chhhHHHH-------------------------------HHHH-----hhhhheeccccc
Q 000539 974 IKV--PI--------SKN--PVKGYKKL-------------------------------QAVL-----KTIMLRRTKGTL 1005 (1433)
Q Consensus 974 i~~--pi--------~~~--~~~~~~~L-------------------------------~~lL-----~~~mLRRtK~dv 1005 (1433)
... |+ ... .......| +.++ ..+|+|+++.++
T Consensus 345 ~~~~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v 424 (956)
T PRK04914 345 QQQYRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAV 424 (956)
T ss_pred HHhhHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhh
Confidence 331 11 000 01111111 1111 257899999987
Q ss_pred cCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchh
Q 000539 1006 LDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNS 1085 (1433)
Q Consensus 1006 ~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s 1085 (1433)
. .+|++..+.+.++++++.+..+... . ..++++ +.+|..+.
T Consensus 425 ~------~fp~R~~~~~~l~~~~~y~~~~~~~---~-----------------------~~~~~~-~l~pe~~~------ 465 (956)
T PRK04914 425 K------GFPKRELHPIPLPLPEQYQTAIKVS---L-----------------------EARARD-MLYPEQIY------ 465 (956)
T ss_pred c------CCCcCceeEeecCCCHHHHHHHHHh---H-----------------------HHHHHh-hcCHHHHH------
Confidence 5 5899999999999987644433210 0 001111 11221000
Q ss_pred hhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccch
Q 000539 1086 LLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1086 ~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~ 1165 (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 hhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCC
Q 000539 1166 FSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGD 1245 (1433)
Q Consensus 1166 f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 1245 (1433)
....+..++|++.++++|+.+
T Consensus 471 ---------------------------------~~~~~~~d~Ki~~L~~~L~~~-------------------------- 491 (956)
T PRK04914 471 ---------------------------------NATWWNFDPRVEWLIDFLKSH-------------------------- 491 (956)
T ss_pred ---------------------------------hhhccccCHHHHHHHHHHHhc--------------------------
Confidence 000111358999999888762
Q ss_pred CCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEEcccHHHHHHHHHHH-HhcCCcEEecCCCCCHHHHHHHHHHH
Q 000539 1246 SNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDF 1324 (1433)
Q Consensus 1246 ~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVFSq~t~~LdlLe~~L-~~~gI~~~rldGsms~~qR~~aI~~F 1324 (1433)
.++|+|||+++..+++.|++.| ...|++++.|+|+|+..+|+++++.|
T Consensus 492 -------------------------------~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F 540 (956)
T PRK04914 492 -------------------------------RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYF 540 (956)
T ss_pred -------------------------------CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHH
Confidence 3689999999999999999999 56799999999999999999999999
Q ss_pred hcC-CCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000539 1325 NTL-PEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKR 1403 (1433)
Q Consensus 1325 n~d-~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK~ 1403 (1433)
++. ++++||| ++.+||+||||+.|++||+||+||||..++|||||+||+||+++|.||+++.++|+|++|+++..+|.
T Consensus 541 ~~~~~~~~VLI-sTdvgseGlNlq~a~~VInfDlP~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l 619 (956)
T PRK04914 541 ADEEDGAQVLL-CSEIGSEGRNFQFASHLVLFDLPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGL 619 (956)
T ss_pred hcCCCCccEEE-echhhccCCCcccccEEEEecCCCCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhc
Confidence 985 3688887 55999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCC
Q 000539 1404 EMVASAFGE 1412 (1433)
Q Consensus 1404 ~l~~~~lg~ 1412 (1433)
.+++..++.
T Consensus 620 ~ife~~~~~ 628 (956)
T PRK04914 620 NAFEHTCPT 628 (956)
T ss_pred CceeccCCC
Confidence 777655543
No 19
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=2.5e-50 Score=500.97 Aligned_cols=258 Identities=31% Similarity=0.571 Sum_probs=201.1
Q ss_pred CCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC--CcccccCCCEEEEechhhhccCCCCCCCCchhHHH
Q 000539 776 PAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTK--DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEE 853 (1433)
Q Consensus 776 p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k--~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~e 853 (1433)
-.++||||||.+++.||-.||.+|++ ..|+|+.|.|-.... .+.++.+||||+|||++++.|+... +
T Consensus 419 ~tgaTLII~P~aIl~QW~~EI~kH~~--~~lKv~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~ht----e----- 487 (1394)
T KOG0298|consen 419 ETGATLIICPNAILMQWFEEIHKHIS--SLLKVLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHT----E----- 487 (1394)
T ss_pred ecCceEEECcHHHHHHHHHHHHHhcc--ccceEEEEechhhhcccCchhhhccCEEEeehHHHHhHhhcc----c-----
Confidence 45899999999999999999999987 347999999987543 5678899999999999999877432 0
Q ss_pred HhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcc
Q 000539 854 KMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLR 933 (1433)
Q Consensus 854 k~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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----------------FGSDRQ-LRHQSRY-----MRPNSPLLMVNWWRICLDEAQMVESSSSAAAEMVRRLH 539 (1394)
T ss_pred ------c----------------cCChhh-hhcccCC-----CCCCCchHHHHHHHHhhhHHHhhcchHHHHHHHHHHhh
Confidence 0 001111 1122221 12368999999999999999999999999999999999
Q ss_pred cCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhHhccCCCCCchhhHHHHHHHHhhhhheeccccccCCCCccC
Q 000539 934 AKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIIN 1013 (1433)
Q Consensus 934 a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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 999999999999999999999999888766654 3445788999999999999888653 67
Q ss_pred CCCcEEEEEEecCCHHHHHHHHHHH----HHHHHHHHHHHHc---------CcccchHHHHHHHHHHHHHHccCcccc
Q 000539 1014 LPPKVIMLKQVDFTDEERDFYSQLE----INSRDQFKEYAAA---------GTVKQNYVNILLMLLRLRQACDHPLLV 1078 (1433)
Q Consensus 1014 LPpk~e~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 9999888888888887777775433 3333332222211 111234567889999999999999653
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=1.3e-42 Score=401.27 Aligned_cols=291 Identities=40% Similarity=0.653 Sum_probs=224.8
Q ss_pred HHHHHHHHHHHhh------ccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000539 670 HQRIALSWMVQKE------TSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 670 hQk~av~wMl~rE------~~~~~~~GGILADEMGLGKTlqaIALI~~~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 111245899999999999999999999642210
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCC--CCCCcc
Q 000539 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 3368999999987 334455
Q ss_pred cccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCC
Q 000539 822 ELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 822 ~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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 67789999999999961000 000123
Q ss_pred ccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhHhccCCCCC
Q 000539 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISKN 981 (1433)
Q Consensus 902 L~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~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 56678999999999999999999999999999999999999999999999999999999999999999998886663444
Q ss_pred chhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccchHHHH
Q 000539 982 PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNI 1061 (1433)
Q Consensus 982 ~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 000539 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=1.7e-34 Score=360.62 Aligned_cols=115 Identities=22% Similarity=0.255 Sum_probs=102.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1357 LWW-NPTTEDQAIDRAHRIGQTRP-----VSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1357 p~W-NPa~e~QAiGRahRIGQtr~-----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 986 99999999999999987653 789999999999987654
No 22
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=5.8e-37 Score=376.35 Aligned_cols=378 Identities=28% Similarity=0.444 Sum_probs=289.4
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 469999999999999876643 348999999999999998887442211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc-
Q 000539 745 DLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCEL- 823 (1433)
Q Consensus 745 ~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L- 823 (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 1123578999999999999999999976 6888889997654321000
Q ss_pred -----------------------cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCc
Q 000539 824 -----------------------AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSD 880 (1433)
Q Consensus 824 -----------------------~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~ 880 (1433)
.++.+.+++|++
T Consensus 390 e~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~--------------------------------------------- 424 (696)
T KOG0383|consen 390 EFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYET--------------------------------------------- 424 (696)
T ss_pred cccccccccccCCccccccchhhcccccCCCchhh---------------------------------------------
Confidence 011111111111
Q ss_pred cccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccc
Q 000539 881 RKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLR 960 (1433)
Q Consensus 881 rk~~~~kk~~~~~~~e~~~~pL~~i~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~ 960 (1433)
.+.....+..+.|..+|+||+|++||..+...+.+......++++|||||.+|++++|+++|+||.
T Consensus 425 --------------~~~~~~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt 490 (696)
T KOG0383|consen 425 --------------IEIDQSILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLT 490 (696)
T ss_pred --------------cccCHHHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccC
Confidence 122234588999999999999999999999999988889999999999999999999999999999
Q ss_pred cCCccchHHHHhHhccCCCCCchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHH
Q 000539 961 YDPFAVYKSFCSMIKVPISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEIN 1040 (1433)
Q Consensus 961 p~pf~~~~~F~~~i~~pi~~~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~ 1040 (1433)
++.|.+..+|.+.|.. .......++|+.++.+.|+||.|.++++ ..|++++-++.+.|++-|+++|..++..
T Consensus 491 ~~~~~~~~~f~e~~~d---~~~~~~~~~l~~l~~p~~lrr~k~d~l~-----~~P~Kte~i~~~~~~~~Q~~~yk~~~t~ 562 (696)
T KOG0383|consen 491 PGRFNSLEWFLEEFHD---ISCEEQIKKLHLLLCPHMLRRLKLDVLK-----PMPLKTELIGRVELSPCQKKYYKKILTR 562 (696)
T ss_pred cccccchhhhhhhcch---hhHHHHHHhhccccCchhhhhhhhhhcc-----CCCccceeEEEEecCHHHHHHHHHHHcC
Confidence 9999999999887653 2345668899999999999999999998 6999999999999999999999988755
Q ss_pred HHHHHHHHHHcCcccchHHHHHHHHHHHHHHccCcccccccCchhhhhhHHHHHhhchHHHHHHHHHHhhhhcccccCCC
Q 000539 1041 SRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICN 1120 (1433)
Q Consensus 1041 ~~~~~~~~~~~g~~~~~~~~IL~~LlrLRq~c~HP~Lv~~~~~~s~~~~s~e~a~~l~~e~~~~ll~~le~s~~~C~iC~ 1120 (1433)
.-..+.. | .+...++..++.||+.|+||++....... .. +..++.+.
T Consensus 563 n~~~l~~----~---~~~~s~~n~~mel~K~~~hpy~~~~~e~~------------~~--~~~~~~~~------------ 609 (696)
T KOG0383|consen 563 NWQGLLA----G---VHQYSLLNIVMELRKQCNHPYLSPLEEPL------------EE--NGEYLGSA------------ 609 (696)
T ss_pred ChHHHhh----c---chhHHHHHHHHHHHHhhcCcccCcccccc------------cc--chHHHHHH------------
Confidence 4333322 2 23345678899999999999987531100 00 00000000
Q ss_pred CCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCC
Q 000539 1121 DPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCE 1200 (1433)
Q Consensus 1121 ~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~ 1200 (1433)
T Consensus 610 -------------------------------------------------------------------------------- 609 (696)
T KOG0383|consen 610 -------------------------------------------------------------------------------- 609 (696)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CcccccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCe
Q 000539 1201 GVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEK 1280 (1433)
Q Consensus 1201 ~~~~~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eK 1280 (1433)
....+.|+..|...++++ +..++|
T Consensus 610 -l~k~~~k~~~l~~~~~~l-------------------------------------------------------~~~ghr 633 (696)
T KOG0383|consen 610 -LIKASGKLTLLLKMLKKL-------------------------------------------------------KSSGHR 633 (696)
T ss_pred -HHHHHHHHHHHHHHHHHH-------------------------------------------------------Hhcchh
Confidence 000134444444444442 337899
Q ss_pred EEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhc-CCCccEEEeeccccccc
Q 000539 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNT-LPEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1281 vIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~-d~~v~VLL~StkaGg~G 1343 (1433)
|+||+|++.+||+|+.++...+ +|.|+||..+..+|++++++||. +..-.++|+||+|||+|
T Consensus 634 vl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 634 VLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGGLG 696 (696)
T ss_pred hHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeecccccCC
Confidence 9999999999999999999999 99999999999999999999996 45678999999999988
No 23
>PRK13766 Hef nuclease; Provisional
Probab=99.97 E-value=1.9e-29 Score=328.98 Aligned_cols=125 Identities=21% Similarity=0.247 Sum_probs=112.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCC--------CCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGT--------MSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGs--------ms~~qR~~aI~~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 000539 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 678999999999999887766655544
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.93 E-value=1.2e-23 Score=246.07 Aligned_cols=456 Identities=18% Similarity=0.173 Sum_probs=288.8
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 45678999988888754 35999999999999997777643211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-Cccc
Q 000539 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 99999999988776 3457888999987765 3456
Q ss_pred ccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCc
Q 000539 823 LAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPL 902 (1433)
Q Consensus 823 L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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 cccCccEEEEcCccccCChhh--HHHHHHHhccc-CcEEEEEcccCCCChhHHHhhhhccccCCccchHHHHhHhccCCC
Q 000539 903 AKVGWFRVVLDEAQSIKNHRT--QVARACWGLRA-KRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPIS 979 (1433)
Q Consensus 903 ~~i~W~rVILDEAH~IKN~~T--~~srAl~~L~a-~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~~~~~F~~~i~~pi~ 979 (1433)
..-.+.+||+||||+.-+..+ ..++....-.. .+.++|||||=. +.+.+...+.=|+.+.
T Consensus 128 d~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPGs-~~ekI~eV~~nLgIe~---------------- 190 (542)
T COG1111 128 DLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPGS-DLEKIQEVVENLGIEK---------------- 190 (542)
T ss_pred ChHHceEEEechhhhccCcchHHHHHHHHHHhccCceEEEEecCCCC-CHHHHHHHHHhCCcce----------------
Confidence 444577899999999755333 33333322233 368999999954 3444444444443321
Q ss_pred CCchhhHHHHHHHHhhhhheeccc-cccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcCcccchH
Q 000539 980 KNPVKGYKKLQAVLKTIMLRRTKG-TLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNY 1058 (1433)
Q Consensus 980 ~~~~~~~~~L~~lL~~~mLRRtK~-dv~dg~pii~LPpk~e~vv~v~lS~eEre~Y~~L~~~~~~~~~~~~~~g~~~~~~ 1058 (1433)
+.+|.-.+ ||.. .+-++..+.++|+++++-.++-+.+..-....++.+...|-.....
T Consensus 191 ----------------vevrTE~d~DV~~-----Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~ 249 (542)
T COG1111 191 ----------------VEVRTEEDPDVRP-----YVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSS 249 (542)
T ss_pred ----------------EEEecCCCccHHH-----hhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccC
Confidence 12221111 1211 4556778899999999888888887777777777777776544322
Q ss_pred ----HHHHHHH-HHHHHHccCcccccccCchhhhhhH--HHHHhhc------h-HHHHHHHHHHhhhhcccccCCCCCCC
Q 000539 1059 ----VNILLML-LRLRQACDHPLLVKGFDSNSLLRSS--VEMAKKL------P-QERQMYLLNCLEASLAICGICNDPPE 1124 (1433)
Q Consensus 1059 ----~~IL~~L-lrLRq~c~HP~Lv~~~~~~s~~~~s--~e~a~~l------~-~e~~~~ll~~le~s~~~C~iC~~~~e 1124 (1433)
..++.+. .++-.+.. . +...++.. ...+.++ . ......+..+|+.....|..
T Consensus 250 ~~~~kdl~~~~~~~~~~a~~-------~-~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~------ 315 (542)
T COG1111 250 PVSKKDLLELRQIRLIMAKN-------E-DSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATK------ 315 (542)
T ss_pred cccHhHHHHHHHHHHHhccC-------c-cHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcc------
Confidence 2333332 11111111 0 11111110 1111111 1 01111111111111000000
Q ss_pred cchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhhhcccccccCCCCCCCCCCCCCcccccCCcCCCccc
Q 000539 1125 DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWY 1204 (1433)
Q Consensus 1125 ~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~~l~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~ 1204 (1433)
. .......+..+.-|.++.-.. -.......
T Consensus 316 ----------------------~-----~sk~a~~l~~d~~~~~al~~~-----------------------~~~~~~~v 345 (542)
T COG1111 316 ----------------------G-----GSKAAKSLLADPYFKRALRLL-----------------------IRADESGV 345 (542)
T ss_pred ----------------------c-----chHHHHHHhcChhhHHHHHHH-----------------------HHhccccC
Confidence 0 000000000011111110000 00012234
Q ss_pred ccHHHHHHHHHHHHhcCCCCCcccccccccccCCCccCCCCCCCCCCCCcccccchhhHHHHhhhcccccccCCCeEEEE
Q 000539 1205 NSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVF 1284 (1433)
Q Consensus 1205 ~ssKi~allelL~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~~~~~i~~~~eKvIVF 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 56888888888887432 1256899999
Q ss_pred cccHHHHHHHHHHHHhcCCcEE-ecCC--------CCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1285 SQWTKMLDLLEASLKDSSIQYR-RLDG--------TMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1285 Sq~t~~LdlLe~~L~~~gI~~~-rldG--------sms~~qR~~aI~~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 9999999999999999988875 5544 5999999999999998 8999998 67999999999999999999
Q ss_pred cCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000539 1356 DLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1356 Dp~WNPa~e~QAiGRahRIGQtr~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 477788899999999987777766665544
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=248.21 Aligned_cols=122 Identities=16% Similarity=0.169 Sum_probs=107.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 368999999999999999999999989 89999999999999999999994 476766 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhcc-CCCCc--EEEEEEEeCCCHHHHHHHHHHH
Q 000539 1357 LWWNPTTEDQAIDRAHRI-GQTRP--VSVLRLTVKNTVEDRILALQQK 1401 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRI-GQtr~--V~VyrLi~kdTIEErIl~lq~k 1401 (1433)
|.=++..+.|++||+.|. ..+.. +.+|-++.+++.+..+.+....
T Consensus 359 ~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (442)
T COG1061 359 PTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRRL 406 (442)
T ss_pred CCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhhh
Confidence 999999999999999994 44444 7777788888888877766553
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.91 E-value=1.3e-22 Score=251.79 Aligned_cols=113 Identities=17% Similarity=0.138 Sum_probs=103.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 46789999999999999999999999999999999999999999999986 67788998889999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCc-EEEEEEEeCCC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRP-VSVLRLTVKNT 1390 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~-V~VyrLi~kdT 1390 (1433)
|.-+.....|++||++|.|..|+ +.||.|+-.-.
T Consensus 422 p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~ 456 (501)
T PHA02558 422 PSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLS 456 (501)
T ss_pred CCcchhhhhhhhhccccCCCCCceEEEEEeecccc
Confidence 99999999999999999988764 89999886443
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=2.2e-20 Score=215.34 Aligned_cols=112 Identities=24% Similarity=0.268 Sum_probs=94.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 789999999987766655554443 3578999999999999999999999888888 9999999999999999998
Q ss_pred CCC-CcChHHHHHHhhhccCCCC----cEEEEEEEeCCCHHHH
Q 000539 1357 LWW-NPTTEDQAIDRAHRIGQTR----PVSVLRLTVKNTVEDR 1394 (1433)
Q Consensus 1357 p~W-NPa~e~QAiGRahRIGQtr----~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 3889999999998853
No 28
>PTZ00110 helicase; Provisional
Probab=99.81 E-value=6e-18 Score=212.06 Aligned_cols=109 Identities=21% Similarity=0.252 Sum_probs=98.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7778876 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kd 1389 (1433)
+++++....||+||+.|.|.+-. ++.|+..+
T Consensus 454 ~P~s~~~yvqRiGRtGR~G~~G~--ai~~~~~~ 484 (545)
T PTZ00110 454 FPNQIEDYVHRIGRTGRAGAKGA--SYTFLTPD 484 (545)
T ss_pred CCCCHHHHHHHhcccccCCCCce--EEEEECcc
Confidence 99999999999999999998754 34455555
No 29
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.81 E-value=9.4e-18 Score=207.04 Aligned_cols=109 Identities=23% Similarity=0.310 Sum_probs=98.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7888888 569999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 99999999999999999997643 44455554
No 30
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.79 E-value=1.4e-17 Score=204.08 Aligned_cols=104 Identities=23% Similarity=0.330 Sum_probs=96.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 34799999999999999999999999999999999999999999999997 8888888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEE
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 99999999999999999998765443
No 31
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.79 E-value=7.9e-17 Score=199.11 Aligned_cols=105 Identities=22% Similarity=0.250 Sum_probs=87.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHh---cCCcEEecCC--------CCCHHHHHHHHHHHhcCCCccEEEeeccccccccC
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDG--------TMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLN 1345 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~---~gI~~~rldG--------sms~~qR~~aI~~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 2555444433 5899999999999999 9999998 5699999999
Q ss_pred ccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEe
Q 000539 1346 MVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTV 1387 (1433)
Q Consensus 1346 Lq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~ 1387 (1433)
...++-||-||..-||.+..||+|| .| ++.=+++.|..
T Consensus 490 I~ec~lVIcYd~~snpIrmIQrrGR-gR---a~ns~~vll~t 527 (746)
T KOG0354|consen 490 IGECNLVICYDYSSNPIRMVQRRGR-GR---ARNSKCVLLTT 527 (746)
T ss_pred cccccEEEEecCCccHHHHHHHhcc-cc---ccCCeEEEEEc
Confidence 9999999999999999999999999 55 55545554455
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=99.79 E-value=1.8e-17 Score=204.90 Aligned_cols=105 Identities=22% Similarity=0.270 Sum_probs=96.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 35677999999999999999999999999999999999999999999997 7889888 558999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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=3.9e-17 Score=203.99 Aligned_cols=107 Identities=21% Similarity=0.310 Sum_probs=96.0
Q ss_pred CeEEEEcccHHHHHHHHHHHHh-cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKD-SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~-~gI~~~rldGsms~~qR~~aI~~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 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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=97.9
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7888888 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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=4.4e-17 Score=200.71 Aligned_cols=108 Identities=23% Similarity=0.305 Sum_probs=97.6
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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=1e-16 Score=201.83 Aligned_cols=108 Identities=17% Similarity=0.324 Sum_probs=98.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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
>PTZ00424 helicase 45; Provisional
Probab=99.76 E-value=9.2e-17 Score=194.55 Aligned_cols=108 Identities=19% Similarity=0.325 Sum_probs=97.6
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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 999999999999999998653 445566554
No 38
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.76 E-value=1.3e-16 Score=197.62 Aligned_cols=108 Identities=20% Similarity=0.334 Sum_probs=97.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp 1357 (1433)
..|+|||++....++.|...|...|+.+..++|.++.++|.++++.|++ ++++||| +|.+++.|||+...++||++++
T Consensus 335 ~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~-G~~~vLv-aT~~l~~GIDi~~v~~VI~~~~ 412 (475)
T PRK01297 335 WERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFRE-GKIRVLV-ATDVAGRGIHIDGISHVINFTL 412 (475)
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhC-CCCcEEE-EccccccCCcccCCCEEEEeCC
Confidence 4699999999999999999999999999999999999999999999998 7888888 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kd 1389 (1433)
++++....|++||++|.|+.-. ++.|+.++
T Consensus 413 P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 413 PEDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred CCCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 9999999999999999998653 33344443
No 39
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.76 E-value=3.7e-16 Score=198.02 Aligned_cols=100 Identities=18% Similarity=0.269 Sum_probs=94.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCc
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
+.++....|++||+.|.|.+-.
T Consensus 323 P~~~e~yvqRiGRtGRaGr~G~ 344 (629)
T PRK11634 323 PMDSESYVHRIGRTGRAGRAGR 344 (629)
T ss_pred CCCHHHHHHHhccccCCCCcce
Confidence 9999999999999999997654
No 40
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.75 E-value=1.7e-16 Score=201.45 Aligned_cols=101 Identities=18% Similarity=0.229 Sum_probs=94.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~ 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=201.54 Aligned_cols=102 Identities=23% Similarity=0.263 Sum_probs=94.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6788877 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEE
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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 999999999999999999766543
No 42
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.72 E-value=1.4e-15 Score=194.03 Aligned_cols=79 Identities=15% Similarity=0.199 Sum_probs=69.3
Q ss_pred cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCC-CcChHHHHHHhhhccCCCCc
Q 000539 1301 SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1301 ~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~W-NPa~e~QAiGRahRIGQtr~ 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 568999999999999999999874 66788999999999987654
Q ss_pred EE
Q 000539 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=8.3e-16 Score=203.69 Aligned_cols=106 Identities=14% Similarity=0.355 Sum_probs=85.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc------CC---cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS------SI---QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~------gI---~~~rldGsms~~qR~~aI~~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 3467899985 67889999988 444455558899999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCC---CCcEEEEEEE
Q 000539 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQ---TRPVSVLRLT 1386 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAiGRahRIGQ---tr~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 9999999999999999999999999854 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=2.5e-15 Score=195.98 Aligned_cols=108 Identities=13% Similarity=0.162 Sum_probs=92.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 3578999999999999999999874 7899999999999999999999998 7888888 6689999999999999999
Q ss_pred EcCC-CCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1355 LDLW-WNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1355 ~Dp~-WNPa~e~QAiGRahRIGQtr~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=3e-15 Score=199.04 Aligned_cols=102 Identities=12% Similarity=0.130 Sum_probs=90.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 7899988 56999999999999999987
Q ss_pred cCC-CCcChHHHHHHhhhccCCCCcEE
Q 000539 1356 DLW-WNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1356 Dp~-WNPa~e~QAiGRahRIGQtr~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 67778999999999998775333
No 46
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.69 E-value=5.9e-15 Score=189.58 Aligned_cols=76 Identities=14% Similarity=0.213 Sum_probs=67.6
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCC-CcChHHHHHHhhhccCCCCc
Q 000539 1302 SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1302 gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~W-NPa~e~QAiGRahRIGQtr~ 1379 (1433)
++++..++|.|+.++|++++++|.+ ++++||| +|.+.+.|+|+..++.||+++++. ..+...|++||+.|-|.+-.
T Consensus 505 ~~~v~~lHG~m~~~eR~~i~~~F~~-g~~~ILV-aT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~ 581 (681)
T PRK10917 505 ELRVGLLHGRMKPAEKDAVMAAFKA-GEIDILV-ATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSY 581 (681)
T ss_pred CCcEEEEeCCCCHHHHHHHHHHHHc-CCCCEEE-ECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceE
Confidence 4789999999999999999999998 7888887 668999999999999999999874 56788899999999887543
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.68 E-value=4.5e-15 Score=191.08 Aligned_cols=104 Identities=18% Similarity=0.173 Sum_probs=95.9
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEE
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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=173.61 Aligned_cols=101 Identities=23% Similarity=0.268 Sum_probs=95.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
+|=|.....+|+||..|-|++-.
T Consensus 418 fP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 418 FPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred CCCCHHHHHhhcCccccCCCCce
Confidence 99999999999999999888764
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=99.60 E-value=1.6e-13 Score=177.32 Aligned_cols=115 Identities=15% Similarity=0.158 Sum_probs=98.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc--------CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS--------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA 1349 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~--------gI~~~rldGsms~~qR~~aI~~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 CEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHH
Q 000539 1350 CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRIL 1396 (1433)
Q Consensus 1350 n~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl 1396 (1433)
++||+++.|-+.....||+||+.|.|+.-- ++.++..+..|..++
T Consensus 349 d~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~~ 393 (742)
T TIGR03817 349 DAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYLV 393 (742)
T ss_pred cEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHHH
Confidence 999999999999999999999999997653 333444455665443
No 50
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.57 E-value=4.7e-13 Score=176.27 Aligned_cols=104 Identities=16% Similarity=0.149 Sum_probs=91.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc------CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACH 1351 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~------gI~~~rldGsms~~qR~~aI~~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-CCCCcEEEE
Q 000539 1352 VLLLDLWWNPTTEDQAIDRAHRI-GQTRPVSVL 1383 (1433)
Q Consensus 1352 VI~~Dp~WNPa~e~QAiGRahRI-GQtr~V~Vy 1383 (1433)
||+++++.+.....||+||++|- |+...-.++
T Consensus 362 VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii 394 (876)
T PRK13767 362 VVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRII 394 (876)
T ss_pred EEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEE
Confidence 99999999999999999999985 454444444
No 51
>PRK02362 ski2-like helicase; Provisional
Probab=99.56 E-value=3.5e-13 Score=175.34 Aligned_cols=81 Identities=20% Similarity=0.090 Sum_probs=66.9
Q ss_pred cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec-----CCCCcChHHHHHHhhhcc
Q 000539 1304 QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD-----LWWNPTTEDQAIDRAHRI 1374 (1433)
Q Consensus 1304 ~~~rldGsms~~qR~~aI~~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 5699999999988877775 66 456777899999999999
Q ss_pred CCCCcEEEEEEE
Q 000539 1375 GQTRPVSVLRLT 1386 (1433)
Q Consensus 1375 GQtr~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=99.55 E-value=5.2e-13 Score=171.13 Aligned_cols=108 Identities=17% Similarity=0.052 Sum_probs=74.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc-----CCcEEecCCCCCHH---------------------HHHHHHHHHhcCCCcc
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS-----SIQYRRLDGTMSVF---------------------ARDKAVKDFNTLPEVS 1331 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~-----gI~~~rldGsms~~---------------------qR~~aI~~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 356666666666666665555432 23334455543222 3357999998866788
Q ss_pred EEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc-CC-CCcEEEEEEEe
Q 000539 1332 VMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRI-GQ-TRPVSVLRLTV 1387 (1433)
Q Consensus 1332 VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRI-GQ-tr~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 899999999999999998887655 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=99.52 E-value=3e-12 Score=159.70 Aligned_cols=119 Identities=24% Similarity=0.408 Sum_probs=102.2
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKK 1402 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr~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 99999999999999999544 34445554 2244444444433
No 54
>PRK01172 ski2-like helicase; Provisional
Probab=99.51 E-value=2.6e-12 Score=166.04 Aligned_cols=72 Identities=21% Similarity=0.178 Sum_probs=60.2
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---------CCcChHHHHHHhhhccC
Q 000539 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---------WNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1305 ~~rldGsms~~qR~~aI~~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 000539 1376 QTRP 1379 (1433)
Q Consensus 1376 Qtr~ 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=7.1e-14 Score=141.31 Aligned_cols=105 Identities=31% Similarity=0.479 Sum_probs=96.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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=99.50 E-value=1.7e-12 Score=155.14 Aligned_cols=108 Identities=16% Similarity=0.184 Sum_probs=88.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCC--cEEecCCCCCHHHHHHH----HHHHhcCCCccEEEeeccccccccCccccC
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI--QYRRLDGTMSVFARDKA----VKDFNTLPEVSVMIMSLKAASLGLNMVAAC 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI--~~~rldGsms~~qR~~a----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 457999999999999999999988776 48999999999999764 889987 6677766 77999999999 488
Q ss_pred EEEEEcCCCCcChHHHHHHhhhccCCCC----cEEEEEEEeCC
Q 000539 1351 HVLLLDLWWNPTTEDQAIDRAHRIGQTR----PVSVLRLTVKN 1389 (1433)
Q Consensus 1351 ~VI~~Dp~WNPa~e~QAiGRahRIGQtr----~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=5.6e-12 Score=163.85 Aligned_cols=84 Identities=14% Similarity=0.064 Sum_probs=64.3
Q ss_pred cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-------EcCCCCc-ChHHHHHHhhhccC
Q 000539 1304 QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-------LDLWWNP-TTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1304 ~~~rldGsms~~qR~~aI~~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 56778999999999999999997 7899888 6699999999987776663 2222223 35589999999998
Q ss_pred CCCcEEEEEEEeCC
Q 000539 1376 QTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1376 Qtr~V~VyrLi~kd 1389 (1433)
..+.-.++-++..+
T Consensus 375 ~d~~G~~ii~~~~~ 388 (720)
T PRK00254 375 YDEVGEAIIVATTE 388 (720)
T ss_pred cCCCceEEEEecCc
Confidence 76655555555443
No 58
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.44 E-value=7.3e-12 Score=143.10 Aligned_cols=123 Identities=26% Similarity=0.278 Sum_probs=108.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6777777 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH--HHHHHHHHHH
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED--RILALQQKKR 1403 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 6667777888765552 4555444444
No 59
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.44 E-value=3.3e-11 Score=153.92 Aligned_cols=113 Identities=13% Similarity=0.124 Sum_probs=93.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCc---cccC---
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNM---VAAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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---GAVTV-ATNMAGRGTDIKLGEGVHELG 502 (790)
T ss_pred cCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCC---CeEEE-EccchhcCcCCCccccccccc
Confidence 57899999999999999999999999999999999987777766666654 25665 77999999999 4666
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000539 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 99999999999999999999999998754322 22 446666543
No 60
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.44 E-value=2.2e-12 Score=163.21 Aligned_cols=98 Identities=12% Similarity=0.090 Sum_probs=83.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 57899999999999999999999999999999999987777666655554 25655 779999999998
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCCCc
Q 000539 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
..++|+.++++-+. .+.|++||+.|.|..-.
T Consensus 499 GL~vIit~~~ps~r-id~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 499 GLAVIGTERMENSR-VDLQLRGRSGRQGDPGS 529 (762)
T ss_pred CeEEEEecCCCCcH-HHHHhhhcccCCCCcee
Confidence 77888889998554 55999999999998765
No 61
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.42 E-value=1.4e-11 Score=151.37 Aligned_cols=74 Identities=14% Similarity=0.243 Sum_probs=65.2
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC-CCcChHHHHHHhhhccCCC
Q 000539 1302 SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW-WNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1302 gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~-WNPa~e~QAiGRahRIGQt 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 77999999999999999999876 5667888999999994433
No 62
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.41 E-value=8.6e-12 Score=136.99 Aligned_cols=109 Identities=20% Similarity=0.349 Sum_probs=99.6
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 478999999999999999999999999999999999999999999998 7778888 77999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEEEEEeCCCH
Q 000539 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr~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 99999999999999999875 44566766543
No 63
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.40 E-value=5.7e-11 Score=148.96 Aligned_cols=114 Identities=18% Similarity=0.239 Sum_probs=90.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---ccC---
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV---AAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 67777777765 3345665 779999999988 333
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000539 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 9999999999999999999999999764432 223 4466655443
No 64
>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=8.8e-13 Score=141.13 Aligned_cols=167 Identities=23% Similarity=0.285 Sum_probs=103.7
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 5799999999998887544321125689999999999999998886521
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeC--CC------
Q 000539 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 058999998 5889999999766541 112211100 00
Q ss_pred -CCC-----CcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCC
Q 000539 816 -RTK-----DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKG 889 (1433)
Q Consensus 816 -r~k-----~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~ 889 (1433)
... ........++++++++.+...... ..... +. . .
T Consensus 96 ~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-----------~~~~~--~~-----------~--------------~ 137 (184)
T PF04851_consen 96 SIQDDISDKSESDNNDKDIILTTYQSLQSDIKE-----------EKKID--ES-----------A--------------R 137 (184)
T ss_dssp TTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH-----------------------------------------------
T ss_pred ccccccccccccccccccchhhHHHHHHhhccc-----------ccccc--cc-----------h--------------h
Confidence 000 112234778999999999743210 00000 00 0 0
Q ss_pred CCCcccccccCCccccCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccC
Q 000539 890 PDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPI 945 (1433)
Q Consensus 890 ~~~~~~e~~~~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 --------RSYKLLKNKFDLVIIDEAHHYPSDS--SYREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp --------GCHHGGGGSESEEEEETGGCTHHHH--HHHHHHHSSCCEEEEEESS-S
T ss_pred --------hhhhhccccCCEEEEehhhhcCCHH--HHHHHHcCCCCeEEEEEeCcc
Confidence 0011344567899999999996533 266666688999999999996
No 65
>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=1.7e-10 Score=147.72 Aligned_cols=104 Identities=23% Similarity=0.327 Sum_probs=85.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHH-----HHHHHHhc----CC-----CccEEEeecccccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARD-----KAVKDFNT----LP-----EVSVMIMSLKAASL 1342 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~-----~aI~~Fn~----d~-----~v~VLL~StkaGg~ 1342 (1433)
.+.++|||++....++.|.+.|...++ ..++|.|+..+|. +++++|+. .. ....+|++|++++.
T Consensus 271 ~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaer 348 (844)
T TIGR02621 271 SGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEV 348 (844)
T ss_pred CCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhh
Confidence 457899999999999999999998887 8999999999999 78999986 11 11345668899999
Q ss_pred ccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCc--EEEEEE
Q 000539 1343 GLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP--VSVLRL 1385 (1433)
Q Consensus 1343 GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~--V~VyrL 1385 (1433)
||++.. ++||+...++ ....||+||++|.|.... ++|+.+
T Consensus 349 GLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 349 GVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred cccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 999975 8999866654 688999999999998644 444433
No 66
>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=4.7e-13 Score=124.41 Aligned_cols=78 Identities=33% Similarity=0.515 Sum_probs=72.7
Q ss_pred HHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccC
Q 000539 1296 ASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1296 ~~L~~~gI~~~rldGsms~~qR~~aI~~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 67
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.35 E-value=9.2e-11 Score=150.80 Aligned_cols=95 Identities=20% Similarity=0.218 Sum_probs=74.8
Q ss_pred HHHHHHHHHHhc--CCcEEecCCCCC--HHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---CCc-
Q 000539 1290 MLDLLEASLKDS--SIQYRRLDGTMS--VFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---WNP- 1361 (1433)
Q Consensus 1290 ~LdlLe~~L~~~--gI~~~rldGsms--~~qR~~aI~~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 788999999985 4679999999998 7888888 56889999999999999888754 333
Q ss_pred --------ChHHHHHHhhhccCCCCcEEEEEEE
Q 000539 1362 --------TTEDQAIDRAHRIGQTRPVSVLRLT 1386 (1433)
Q Consensus 1362 --------a~e~QAiGRahRIGQtr~V~VyrLi 1386 (1433)
....|+.||+.|.|....|.+..+-
T Consensus 516 fra~Er~~~~l~q~~GRagR~~~~g~viiqT~~ 548 (679)
T PRK05580 516 FRASERTFQLLTQVAGRAGRAEKPGEVLIQTYH 548 (679)
T ss_pred cchHHHHHHHHHHHHhhccCCCCCCEEEEEeCC
Confidence 4678999999998877777665443
No 68
>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=99.34 E-value=6.7e-12 Score=157.93 Aligned_cols=101 Identities=18% Similarity=0.173 Sum_probs=91.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc-------c
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA-------A 1349 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6899999999987 5566777 6699999999987 6
Q ss_pred CEEEEEcCCCCcChHHHHHHhhhccCCCCcEE
Q 000539 1350 CHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1350 n~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 79999999999999999999999999886533
No 69
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.34 E-value=7.5e-12 Score=134.12 Aligned_cols=164 Identities=27% Similarity=0.288 Sum_probs=110.1
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGL 744 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 458999999999998431 468999999999999887777553211
Q ss_pred cccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc
Q 000539 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 000539 824 A--KFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 824 ~--~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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 239999999988643210 00
Q ss_pred ccccCccEEEEcCccccCC-hh-hHHHHHHHhc-ccCcEEEEEcccCCCChh
Q 000539 902 LAKVGWFRVVLDEAQSIKN-HR-TQVARACWGL-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 33 3333333444 578899999999754333
No 70
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.32 E-value=9.4e-11 Score=145.55 Aligned_cols=107 Identities=12% Similarity=0.211 Sum_probs=85.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc----CCc-EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS----SIQ-YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~----gI~-~~rldGsms~~qR~~aI~~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 479999999999999999999765 223 35677775 45667888888744444455588999999999999999
Q ss_pred EEEcCCCCcChHHHHHHhhhcc-------CCCCc-EEEEEEE
Q 000539 1353 LLLDLWWNPTTEDQAIDRAHRI-------GQTRP-VSVLRLT 1386 (1433)
Q Consensus 1353 I~~Dp~WNPa~e~QAiGRahRI-------GQtr~-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 9999999999999999999997 35554 5555553
No 71
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.31 E-value=1.4e-10 Score=136.20 Aligned_cols=107 Identities=20% Similarity=0.228 Sum_probs=93.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHH----hcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLK----DSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~----~~gI~~~rldGsms~~qR~~aI~~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 45799999999988887777776 346777789999999999999999999 899999977 999999999999999
Q ss_pred EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEe
Q 000539 1353 LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTV 1387 (1433)
Q Consensus 1353 I~~Dp~WNPa~e~QAiGRahRIGQtr~V~VyrLi~ 1387 (1433)
|.||||-.-.....|+||..|-||.- ++|.++.
T Consensus 506 INYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~ 538 (620)
T KOG0350|consen 506 INYDPPASDKTYVHRAGRTARAGQDG--YAITLLD 538 (620)
T ss_pred eecCCCchhhHHHHhhcccccccCCc--eEEEeec
Confidence 99999999999999999999999975 3444443
No 72
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.29 E-value=1.4e-09 Score=138.47 Aligned_cols=110 Identities=15% Similarity=0.189 Sum_probs=88.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 467788885446677766 78999999999999999999
Q ss_pred cCCC------------CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH
Q 000539 1356 DLWW------------NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED 1393 (1433)
Q Consensus 1356 Dp~W------------NPa~e~QAiGRahRIGQtr~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 7222 444566777777776 5678889998876543
No 73
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.29 E-value=1.9e-10 Score=135.60 Aligned_cols=110 Identities=22% Similarity=0.277 Sum_probs=97.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6677787 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdT 1390 (1433)
.=+-.....||||..|-|+.-.+ +..|...+|
T Consensus 595 aksieDYtHRIGRTgRAGk~Gta-iSflt~~dt 626 (673)
T KOG0333|consen 595 AKSIEDYTHRIGRTGRAGKSGTA-ISFLTPADT 626 (673)
T ss_pred hhhHHHHHHHhccccccccCcee-EEEeccchh
Confidence 98888999999999999987643 333344443
No 74
>PRK09401 reverse gyrase; Reviewed
Probab=99.27 E-value=5e-10 Score=150.16 Aligned_cols=90 Identities=13% Similarity=0.147 Sum_probs=76.8
Q ss_pred CeEEEEcccHHH---HHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee---ccccccccCccc-cCE
Q 000539 1279 EKAIVFSQWTKM---LDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS---LKAASLGLNMVA-ACH 1351 (1433)
Q Consensus 1279 eKvIVFSq~t~~---LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 578999998766 9999999999999999999999 334699998 899999986 789999999997 899
Q ss_pred EEEEcCCC------CcChHHHHHHhhhcc
Q 000539 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=99.26 E-value=5.4e-10 Score=133.86 Aligned_cols=85 Identities=13% Similarity=0.236 Sum_probs=68.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcC--CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSS--IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~g--I~~~rldGsms~~qR~~aI~~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 345555 77999999999754 666
Q ss_pred EcCCCCcChHHHHHHhhh
Q 000539 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=4.7e-11 Score=120.44 Aligned_cols=137 Identities=26% Similarity=0.233 Sum_probs=95.4
Q ss_pred CcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccccccccccccCCCCCCccchhh
Q 000539 690 GGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQESDYCRVVPNGSSAKSFNFV 769 (1433)
Q Consensus 690 GGILADEMGLGKTlqaIALI~~~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 000539 770 EQAKGRPAAGTLVVCPTSVL-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDP--CELAKFDVVITTYSIVSMEVPKQPLG 846 (1433)
Q Consensus 770 ~~~~~~p~~~TLIVcP~SLL-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~--~~L~~~DVVITTY~~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 6667777766542 5777777776544432 2245789999999988642210
Q ss_pred CchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCChhhHHH
Q 000539 847 DKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVA 926 (1433)
Q Consensus 847 ~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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 002234588999999999988664443
Q ss_pred ---HHHHhcccCcEEEEEccc
Q 000539 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=113.98 Aligned_cols=81 Identities=31% Similarity=0.488 Sum_probs=74.1
Q ss_pred HHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhh
Q 000539 1293 LLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAH 1372 (1433)
Q Consensus 1293 lLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 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=8.9e-10 Score=131.76 Aligned_cols=105 Identities=23% Similarity=0.333 Sum_probs=97.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7888888 459999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~V~Vy 1383 (1433)
.+=+-.....||||..|-|+.-..+.+
T Consensus 414 mP~d~d~YvHRIGRTGR~Gn~G~atsf 440 (482)
T KOG0335|consen 414 MPADIDDYVHRIGRTGRVGNGGRATSF 440 (482)
T ss_pred cCcchhhHHHhccccccCCCCceeEEE
Confidence 999999999999999999998765554
No 79
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.21 E-value=7.6e-10 Score=132.57 Aligned_cols=109 Identities=23% Similarity=0.228 Sum_probs=96.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 3577899999999999999999999999999999999999999999987 5677777 8899999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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
>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=1.2e-09 Score=135.98 Aligned_cols=95 Identities=17% Similarity=0.211 Sum_probs=72.6
Q ss_pred HHHHHHHHhc--CCcEEecCCCCCHHHH--HHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC--CC-c---
Q 000539 1292 DLLEASLKDS--SIQYRRLDGTMSVFAR--DKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW--WN-P--- 1361 (1433)
Q Consensus 1292 dlLe~~L~~~--gI~~~rldGsms~~qR--~~aI~~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 4445555554 6789999999876655 899999998 7888887 56889999999999999876654 33 4
Q ss_pred ------ChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1362 ------TTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1362 ------a~e~QAiGRahRIGQtr~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 357899999999887777766544433
No 81
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.19 E-value=3.1e-09 Score=135.65 Aligned_cols=120 Identities=17% Similarity=0.145 Sum_probs=99.7
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcC-CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSS-IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~g-I~~~rldGsms~~qR~~aI~~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 588999999999999999999886 888999999999999999999999 7799988 5599999999999999999999
Q ss_pred CCCcChHHHHHHhhh-ccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000539 1358 WWNPTTEDQAIDRAH-RIGQTRPVSVLRLTVKNTVEDRILALQQKKRE 1404 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRah-RIGQtr~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 4565433 3344555 56555554444443
No 82
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.18 E-value=2e-09 Score=145.19 Aligned_cols=95 Identities=21% Similarity=0.228 Sum_probs=79.6
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcC---------------------------------CcEEecCCCCCHHHHHHHHHHH
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSS---------------------------------IQYRRLDGTMSVFARDKAVKDF 1324 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~g---------------------------------I~~~rldGsms~~qR~~aI~~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 3566777777777777776665421 1245688999999999999999
Q ss_pred hcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhcc
Q 000539 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 7888887 669999999999999999999999999999999999995
No 83
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.17 E-value=1.5e-09 Score=124.29 Aligned_cols=110 Identities=27% Similarity=0.353 Sum_probs=98.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 99999999999999999997763 444444444
No 84
>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=99.13 E-value=2.8e-09 Score=143.34 Aligned_cols=76 Identities=16% Similarity=0.236 Sum_probs=69.2
Q ss_pred CCeEEEEcccH---HHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee---ccccccccCccc-cC
Q 000539 1278 GEKAIVFSQWT---KMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS---LKAASLGLNMVA-AC 1350 (1433)
Q Consensus 1278 ~eKvIVFSq~t---~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~S---tkaGg~GLNLq~-An 1350 (1433)
+.++|||++.. ..++.|...|...|++...++|.++ ++++++|.+ ++++|||.+ +..++.||++.. ..
T Consensus 326 ~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~-G~~~vLVata~~tdv~aRGIDip~~V~ 400 (1171)
T TIGR01054 326 GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAE-GEIDVLIGVASYYGTLVRGLDLPERVR 400 (1171)
T ss_pred CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHc-CCCCEEEEeccccCcccccCCCCcccc
Confidence 35789999988 8999999999999999999999996 478999998 899999987 689999999998 79
Q ss_pred EEEEEcCC
Q 000539 1351 HVLLLDLW 1358 (1433)
Q Consensus 1351 ~VI~~Dp~ 1358 (1433)
+||++|+|
T Consensus 401 ~vI~~~~P 408 (1171)
T TIGR01054 401 YAVFLGVP 408 (1171)
T ss_pred EEEEECCC
Confidence 99999987
No 85
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=3.3e-09 Score=135.67 Aligned_cols=113 Identities=16% Similarity=0.178 Sum_probs=96.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 68999999999999999999999999999999999999999999999998 3 3565 679999998875
Q ss_pred -----------------------------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000539 1348 -----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 -----------------------------~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 2358999999999999999999999999876544332 566666554
No 86
>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=99.11 E-value=7.3e-09 Score=134.86 Aligned_cols=107 Identities=23% Similarity=0.275 Sum_probs=90.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHh---cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~---~gI~~~rldGsms~~qR~~aI~~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 47899999999999999999999987 5667766 78999999999999999998
Q ss_pred cCC----CCcCh--------------HHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000539 1356 DLW----WNPTT--------------EDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1356 Dp~----WNPa~--------------e~QAiGRahRIGQtr~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 56654 56888888886 5667888887653
No 87
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.09 E-value=1e-08 Score=126.76 Aligned_cols=103 Identities=20% Similarity=0.239 Sum_probs=95.5
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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 88
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.08 E-value=5.3e-09 Score=136.56 Aligned_cols=119 Identities=20% Similarity=0.189 Sum_probs=95.5
Q ss_pred CCCeEEEEcccHHHHHHHH----HHHHhcC----CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLE----ASLKDSS----IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe----~~L~~~g----I~~~rldGsms~~qR~~aI~~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 5789999999999999987 4444445 568899999999999999999998 7888887 7899999999999
Q ss_pred cCEEEEEcCCC-CcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000539 1349 ACHVLLLDLWW-NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1349 An~VI~~Dp~W-NPa~e~QAiGRahRIGQtr~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 567888999999999955443322 22666666655443
No 89
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.07 E-value=1.1e-08 Score=121.57 Aligned_cols=122 Identities=25% Similarity=0.243 Sum_probs=102.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 3479999999988899998888764 9999999999999999999999997 34567778899999999999999999
Q ss_pred EcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000539 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKR 1403 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAiGRahRIGQtr~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--LT-PSEEEAMLKKLQKKK 435 (758)
T ss_pred ecCchhHHHHHHHhhhhhcccCCCceEEE--Ec-chhHHHHHHHHHHcC
Confidence 99999999999999999999877665443 22 344577777666664
No 90
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.06 E-value=1.4e-08 Score=119.83 Aligned_cols=99 Identities=18% Similarity=0.190 Sum_probs=90.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 45567999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCc
Q 000539 1359 WNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
-+|...+.|+||..|-|-+-.
T Consensus 409 ~d~~~YIHRvGRTaR~gk~G~ 429 (543)
T KOG0342|consen 409 SDPEQYIHRVGRTAREGKEGK 429 (543)
T ss_pred CCHHHHHHHhccccccCCCce
Confidence 999999999999999776543
No 91
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.06 E-value=4.6e-09 Score=133.84 Aligned_cols=100 Identities=15% Similarity=0.107 Sum_probs=85.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---ccC---
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV---AAC--- 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 669999999984 566
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcE
Q 000539 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAiGRahRIGQtr~V 1380 (1433)
|||.++.+-+...+.|++||+.|.|..-..
T Consensus 515 GLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s 546 (796)
T PRK12906 515 GLAVIGTERHESRRIDNQLRGRSGRQGDPGSS 546 (796)
T ss_pred CcEEEeeecCCcHHHHHHHhhhhccCCCCcce
Confidence 999999999999999999999999988764
No 92
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.06 E-value=2.6e-08 Score=118.10 Aligned_cols=122 Identities=17% Similarity=0.276 Sum_probs=93.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHH----h------------------cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLK----D------------------SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMI 1334 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~----~------------------~gI~~~rldGsms~~qR~~aI~~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 34699999888887665444432 2 145699999999999999999999985443 555
Q ss_pred eeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000539 1335 MSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKRE 1404 (1433)
Q Consensus 1335 ~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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--YVNYLKKHHI 567 (708)
T ss_pred -ehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEE--EecccHHH--HHHHHHhhcc
Confidence 77999999999999999999999999999999999999998876433 34444444 3344444433
No 93
>PRK14701 reverse gyrase; Provisional
Probab=99.03 E-value=3e-08 Score=136.25 Aligned_cols=94 Identities=15% Similarity=0.204 Sum_probs=78.4
Q ss_pred CCeEEEEcccHHH---HHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeec---cccccccCccc-cC
Q 000539 1278 GEKAIVFSQWTKM---LDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSL---KAASLGLNMVA-AC 1350 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~---LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 3578999987654 589999999999999999995 8999999998 8999999774 57889999997 99
Q ss_pred EEEEEcCCC---CcChHH-------------HHHHhhhccCCC
Q 000539 1351 HVLLLDLWW---NPTTED-------------QAIDRAHRIGQT 1377 (1433)
Q Consensus 1351 ~VI~~Dp~W---NPa~e~-------------QAiGRahRIGQt 1377 (1433)
+|||++.|= +-..+. |.++|+.|-|..
T Consensus 404 yvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 404 FAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred EEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 999999986 444444 455999988864
No 94
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.03 E-value=1e-08 Score=122.12 Aligned_cols=118 Identities=18% Similarity=0.266 Sum_probs=97.6
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL---- 1354 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~---- 1354 (1433)
...|||+....-...|+.+|...|++..-|+++++-.+|..+-..|.. .++.+++ +|.|.|.|+++.+ +.|||
T Consensus 441 GQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~-q~l~~VV-TTAAL~AGVDFPA-SQVIFEsLa 517 (830)
T COG1202 441 GQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAA-QELAAVV-TTAALAAGVDFPA-SQVIFESLA 517 (830)
T ss_pred CceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhc-CCcceEe-ehhhhhcCCCCch-HHHHHHHHH
Confidence 578999999999999999999999999999999999999999999998 7787777 7899999999985 44544
Q ss_pred Ec-CCCCcChHHHHHHhhhccCCCCcEEEEEEEe---------CCCHHHHHHHHH
Q 000539 1355 LD-LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTV---------KNTVEDRILALQ 1399 (1433)
Q Consensus 1355 ~D-p~WNPa~e~QAiGRahRIGQtr~V~VyrLi~---------kdTIEErIl~lq 1399 (1433)
|. -|.+|....|..||++|.|-...=.||-++- .+|=|+--+.+.
T Consensus 518 MG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg~~Y~~~m~~TEdevA~kLL 572 (830)
T COG1202 518 MGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPGKKYHASMEETEDEVAFKLL 572 (830)
T ss_pred cccccCCHHHHHHHhcccCCCCcccCceEEEEecCChhhcccccccHHHHHHHHh
Confidence 43 3559999999999999999776666666663 355555555544
No 95
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.02 E-value=1.1e-08 Score=131.98 Aligned_cols=103 Identities=20% Similarity=0.244 Sum_probs=78.2
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccc
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLD 745 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~ 745 (1433)
.|+++|+.++.-.+.. ..-.|+|-.+|.|||+.++..|+.....
T Consensus 31 el~~~qq~av~~~~~~------~~N~li~aPTgsGKTlIA~lai~~~l~~------------------------------ 74 (766)
T COG1204 31 ELFNPQQEAVEKGLLS------DENVLISAPTGSGKTLIALLAILSTLLE------------------------------ 74 (766)
T ss_pred HhhHHHHHHhhccccC------CCcEEEEcCCCCchHHHHHHHHHHHHHh------------------------------
Confidence 6999999999766533 1347999999999999987777542110
Q ss_pred ccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCccccc
Q 000539 746 LVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELA 824 (1433)
Q Consensus 746 ~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~ 824 (1433)
..++.+-|||.. |..+=.+|+.+| . .-.++|.+++|...... ..+.
T Consensus 75 ------------------------------~~~k~vYivPlkALa~Ek~~~~~~~-~-~~GirV~~~TgD~~~~~-~~l~ 121 (766)
T COG1204 75 ------------------------------GGGKVVYIVPLKALAEEKYEEFSRL-E-ELGIRVGISTGDYDLDD-ERLA 121 (766)
T ss_pred ------------------------------cCCcEEEEeChHHHHHHHHHHhhhH-H-hcCCEEEEecCCcccch-hhhc
Confidence 024689999974 778888888733 2 23699999999886554 6789
Q ss_pred CCCEEEEechhhh
Q 000539 825 KFDVVITTYSIVS 837 (1433)
Q Consensus 825 ~~DVVITTY~~L~ 837 (1433)
++|||||||+-+-
T Consensus 122 ~~~ViVtT~EK~D 134 (766)
T COG1204 122 RYDVIVTTPEKLD 134 (766)
T ss_pred cCCEEEEchHHhh
Confidence 9999999998874
No 96
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.01 E-value=3.4e-08 Score=128.87 Aligned_cols=109 Identities=20% Similarity=0.234 Sum_probs=89.4
Q ss_pred CCeEEEEcccHHHHHHHHHHHHh---cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKD---SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~---~gI~~~rldGsms~~qR~~aI~~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 36799999999999999999986 57889999999999999999999986 5666666 7799999999999999999
Q ss_pred EcCC----CCcC--------------hHHHHHHhhhccCCCCcEEEEEEEeCCCH
Q 000539 1355 LDLW----WNPT--------------TEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391 (1433)
Q Consensus 1355 ~Dp~----WNPa--------------~e~QAiGRahRIGQtr~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 6654 4443 356777777775 57788999876543
No 97
>PRK09694 helicase Cas3; Provisional
Probab=99.00 E-value=1.4e-07 Score=123.20 Aligned_cols=98 Identities=11% Similarity=0.150 Sum_probs=79.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcC---CcEEecCCCCCHHHH----HHHHHHHhcCCCc--cEEEeeccccccccCcc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFAR----DKAVKDFNTLPEV--SVMIMSLKAASLGLNMV 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~g---I~~~rldGsms~~qR----~~aI~~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 46899999999999999999998764 678999999999999 5678899443332 2455688999999999
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCC
Q 000539 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAiGRahRIGQt 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 45889999999999875
No 98
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=98.98 E-value=2.4e-08 Score=127.88 Aligned_cols=112 Identities=19% Similarity=0.208 Sum_probs=94.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc--------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA-------- 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1349 ------------------------------ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1349 ------------------------------An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 568999999999999999999999999887654432 45555544
No 99
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.97 E-value=9.2e-09 Score=121.16 Aligned_cols=97 Identities=22% Similarity=0.285 Sum_probs=91.1
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 56999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCC
Q 000539 1359 WNPTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQt 1377 (1433)
-.-..+..|+||.-|-|.-
T Consensus 505 ~t~e~Y~HRVGRTARAGRa 523 (691)
T KOG0338|consen 505 KTIEHYLHRVGRTARAGRA 523 (691)
T ss_pred hhHHHHHHHhhhhhhcccC
Confidence 8888899999999888864
No 100
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.97 E-value=7.2e-08 Score=113.57 Aligned_cols=111 Identities=20% Similarity=0.269 Sum_probs=99.1
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 4699999999999999999999999999999999999999999999998 66778774 599999999999999999998
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~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 87888888999999999988 3566778776555
No 101
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=98.96 E-value=1.3e-07 Score=122.65 Aligned_cols=118 Identities=14% Similarity=0.159 Sum_probs=83.8
Q ss_pred CeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 33333334444455555555443 3457889999999999999999998 8899999 558889999999999999966
Q ss_pred CC-CCcChHHHHHHhhhccCCCCcEEEEEEEeCC-----CHHHHHHHHHH
Q 000539 1357 LW-WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN-----TVEDRILALQQ 1400 (1433)
Q Consensus 1357 p~-WNPa~e~QAiGRahRIGQtr~V~VyrLi~kd-----TIEErIl~lq~ 1400 (1433)
.. +--+..-|--|||+|- .+.-+-|-|+..+ .-+.|+..++.
T Consensus 882 AD~fGLsQLyQLRGRVGRS--~~~AYAYfl~p~~k~lT~~A~kRL~aI~~ 929 (1139)
T COG1197 882 ADKFGLAQLYQLRGRVGRS--NKQAYAYFLYPPQKALTEDAEKRLEAIAS 929 (1139)
T ss_pred cccccHHHHHHhccccCCc--cceEEEEEeecCccccCHHHHHHHHHHHh
Confidence 54 4567888999999994 3446777666543 23445544443
No 102
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=98.90 E-value=9.8e-08 Score=122.16 Aligned_cols=113 Identities=19% Similarity=0.210 Sum_probs=95.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1348 ----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 ----------------------------~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 3458999999999999999999999999876533321 556655543
No 103
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.90 E-value=3.1e-07 Score=108.14 Aligned_cols=104 Identities=21% Similarity=0.235 Sum_probs=90.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc--CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS--SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~--gI~~~rldGsms~~qR~~aI~~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 4589999998888888888877654 7889999999999999999999998 3334555 7799999999999999999
Q ss_pred EcCCCCcChHHHHHHhhhccCCCCcEEE
Q 000539 1355 LDLWWNPTTEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAiGRahRIGQtr~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 9999999999999999999998765444
No 104
>COG4889 Predicted helicase [General function prediction only]
Probab=98.88 E-value=3.1e-08 Score=121.89 Aligned_cols=77 Identities=25% Similarity=0.301 Sum_probs=60.6
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhc-CC-CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCc
Q 000539 1302 SIQYRRLDGTMSVFARDKAVKDFNT-LP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1302 gI~~~rldGsms~~qR~~aI~~Fn~-d~-~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
.+.+.-+||.|...+|.+.+..=+. .+ +++| |-..++.++|++..+-+-|||++|--.-....||+|||-|.--.|.
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neckI-lSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECKI-LSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchhee-eccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCc
Confidence 4556789999999999666554433 23 4554 5588999999999999999999998777778899999999765443
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=2.4e-08 Score=109.72 Aligned_cols=109 Identities=22% Similarity=0.198 Sum_probs=75.1
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccc
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLD 745 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 479999999998885 2568999999999999854443321100
Q ss_pred ccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCC-cccc
Q 000539 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 000539 824 -AKFDVVITTYSIVSM 838 (1433)
Q Consensus 824 -~~~DVVITTY~~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=98.80 E-value=1.3e-06 Score=112.41 Aligned_cols=114 Identities=18% Similarity=0.184 Sum_probs=94.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccC------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAAC------ 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 5556776 669999999988333
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000539 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQ 1399 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 458889999999999999999999988653222 1 5666666543
No 107
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.66 E-value=1.5e-06 Score=110.28 Aligned_cols=83 Identities=16% Similarity=0.168 Sum_probs=63.6
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCCcCh----------HHHHHHhhhccCCC
Q 000539 1308 LDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTT----------EDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1308 ldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~----------e~QAiGRahRIGQt 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 4678889999999999998 8888888 6689999999998777766666677664 67999999998755
Q ss_pred CcEEEEEEEeCCCHH
Q 000539 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 444444455555444
No 108
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.61 E-value=2.7e-07 Score=105.82 Aligned_cols=110 Identities=20% Similarity=0.280 Sum_probs=95.1
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 567999999999999999999999999999999999999999999998 7778888 77999999999999999999998
Q ss_pred CC------cChHHHHHHhhhccCCCCcEEEEEEEe-CCCHH
Q 000539 1359 WN------PTTEDQAIDRAHRIGQTRPVSVLRLTV-KNTVE 1392 (1433)
Q Consensus 1359 WN------Pa~e~QAiGRahRIGQtr~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 53 457889999999999765 3333 443 34443
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=98.58 E-value=1.9e-07 Score=99.04 Aligned_cols=158 Identities=21% Similarity=0.256 Sum_probs=103.9
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccccccccccccc
Q 000539 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVK 748 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 236999999999999987555431100
Q ss_pred cccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-C-cccc-c
Q 000539 749 QESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTK-D-PCEL-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 889999999988763 457888888766432 1 1222 4
Q ss_pred CCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccc
Q 000539 825 KFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAK 904 (1433)
Q Consensus 825 ~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~pL~~ 904 (1433)
..+|+|+|++.|...+.. . ...+
T Consensus 95 ~~~ilv~T~~~l~~~~~~-----------------~--------------------------------------~~~~-- 117 (169)
T PF00270_consen 95 QADILVTTPEQLLDLISN-----------------G--------------------------------------KINI-- 117 (169)
T ss_dssp TSSEEEEEHHHHHHHHHT-----------------T--------------------------------------SSTG--
T ss_pred cccccccCcchhhccccc-----------------c--------------------------------------cccc--
Confidence 699999999998642200 0 0011
Q ss_pred cCccEEEEcCccccCCh--hhHHHHHHHhc---ccCcEEEEEcccCCCChhH
Q 000539 905 VGWFRVVLDEAQSIKNH--RTQVARACWGL---RAKRRWCLSGTPIQNAIDD 951 (1433)
Q Consensus 905 i~W~rVILDEAH~IKN~--~T~~srAl~~L---~a~~RwlLTGTPiqN~l~D 951 (1433)
....+||+||+|.+... .......+..+ +..+.+++||||- ..+++
T Consensus 118 ~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 118 SRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp TTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred ccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 22578999999998652 22233333333 2466899999998 55554
No 110
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.56 E-value=1.9e-06 Score=110.36 Aligned_cols=108 Identities=18% Similarity=0.270 Sum_probs=92.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 4454554 669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 9866667788888888887776 44445555
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=98.56 E-value=5.7e-06 Score=111.15 Aligned_cols=108 Identities=12% Similarity=0.166 Sum_probs=85.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcC---CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~g---I~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
..++|||..-...++.+...|...+ +.+..++|.++.++|.++++.+ +..+| |++|..+..||++....+||.
T Consensus 279 ~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~~rkI-VLATNIAEtSLTIpgV~yVID 354 (1283)
T TIGR01967 279 PGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---SGRRI-VLATNVAETSLTVPGIHYVID 354 (1283)
T ss_pred CCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---CCceE-EEeccHHHhccccCCeeEEEe
Confidence 3689999999999999999998764 4578899999999999885433 33455 558899999999999999998
Q ss_pred EcCC----CC--------------cChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000539 1355 LDLW----WN--------------PTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1355 ~Dp~----WN--------------Pa~e~QAiGRahRIGQtr~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 7632 22 246679999998887 66788998876543
No 112
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.55 E-value=3.8e-06 Score=112.43 Aligned_cols=108 Identities=13% Similarity=0.150 Sum_probs=84.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCc---EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQ---YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~---~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
..++|||..-...++.+.+.|...+++ +..++|.++.++|.++++. .+..+|+| +|..+..||++....+||.
T Consensus 286 ~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~---~g~rkIIV-ATNIAEtSITIpgI~yVID 361 (1294)
T PRK11131 286 PGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS---HSGRRIVL-ATNVAETSLTVPGIKYVID 361 (1294)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc---cCCeeEEE-eccHHhhccccCcceEEEE
Confidence 468999999999999999999988775 5678999999999988664 34555555 8899999999999999999
Q ss_pred Ec---------------CCCCc---ChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000539 1355 LD---------------LWWNP---TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1355 ~D---------------p~WNP---a~e~QAiGRahRIGQtr~V~VyrLi~kdTIE 1392 (1433)
++ ++..| +...||.||++|. ++=..|+|+++...+
T Consensus 362 ~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 362 PGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred CCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 74 33334 3566777777776 466788888765443
No 113
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.54 E-value=2.5e-07 Score=105.87 Aligned_cols=125 Identities=22% Similarity=0.260 Sum_probs=105.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7777888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH----HHHHHHHH
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA----LQQKKREM 1405 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 98777777889999998887753 3346777776666555 45566653
No 114
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.52 E-value=1.1e-05 Score=101.77 Aligned_cols=115 Identities=16% Similarity=0.186 Sum_probs=86.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc---------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6899999999999999999999999999999998743 2333344332 22223444678888997765
Q ss_pred ------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000539 1348 ------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1348 ------~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 3458999999999999999999999999876644332 55666654443
No 115
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.51 E-value=2.8e-06 Score=97.55 Aligned_cols=245 Identities=20% Similarity=0.207 Sum_probs=141.8
Q ss_pred CchHHHHHHHHHHHhhccCC---CCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000539 667 LLRHQRIALSWMVQKETSSL---HCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~---~~~GGILADEMGLGKTlqaIALI~~~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 56689999998887654321 33678999999999999998888653211
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc
Q 000539 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 1123344555556765555556533 1 1123333332221111 1 11
Q ss_pred cCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCcc
Q 000539 824 AKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLA 903 (1433)
Q Consensus 824 ~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~pL~ 903 (1433)
.+..|+.+||.+|..+..+ +.+ .+.+++ .+.++ +.
T Consensus 135 ~~~GvlF~TYs~L~~~~~~-----------------------------~~~-----------~~sRl~-ql~~W----~g 169 (303)
T PF13872_consen 135 LKEGVLFSTYSTLISESQS-----------------------------GGK-----------YRSRLD-QLVDW----CG 169 (303)
T ss_pred CCCCccchhHHHHHhHHhc-----------------------------cCC-----------ccchHH-HHHHH----Hh
Confidence 2567999999999754210 000 000000 00000 00
Q ss_pred ccCc-cEEEEcCccccCChhh------HHHHHHHhc----ccCcEEEEEcccCCCChhHHHhhhhccc----cCCccchH
Q 000539 904 KVGW-FRVVLDEAQSIKNHRT------QVARACWGL----RAKRRWCLSGTPIQNAIDDLYSYFRFLR----YDPFAVYK 968 (1433)
Q Consensus 904 ~i~W-~rVILDEAH~IKN~~T------~~srAl~~L----~a~~RwlLTGTPiqN~l~DLyslL~FL~----p~pf~~~~ 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 21 13567777
Q ss_pred HHHhHhccCCCCCchhhHHHHHHHH--hhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHH
Q 000539 969 SFCSMIKVPISKNPVKGYKKLQAVL--KTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQ 1036 (1433)
Q Consensus 969 ~F~~~i~~pi~~~~~~~~~~L~~lL--~~~mLRRtK~dv~dg~pii~LPpk~e~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 DFLEAMEK----GGVGAMEMVAMDLKARGMYIARQL----------SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HHHHHHHh----cCchHHHHHHHHHHhcchheeeec----------ccCCceEEEEEecCCHHHHHHhcC
Confidence 88776542 3333344333333 335666664 355567889999999999999974
No 116
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.49 E-value=1.6e-05 Score=103.93 Aligned_cols=127 Identities=14% Similarity=0.130 Sum_probs=98.0
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhc---CCCccEEEeeccccccccCccccCEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNT---LPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 57899999999999999999999887789999999999999999987663 23344 555889999999998 44444
Q ss_pred EEcCCCCcChHHHHHHhhhccC--CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHH
Q 000539 1354 LLDLWWNPTTEDQAIDRAHRIG--QTRPVSVLRLTVKNTVEDRILALQQKKREMVA 1407 (1433)
Q Consensus 1354 ~~Dp~WNPa~e~QAiGRahRIG--Qtr~V~VyrLi~kdTIEErIl~lq~kK~~l~~ 1407 (1433)
-|+. -.....||.||++|-| ....++|+...-......+.++....+.....
T Consensus 517 -Te~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 570 (733)
T COG1203 517 -TELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSLE 570 (733)
T ss_pred -ecCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhhcccc
Confidence 4432 2357889999999999 45568888777776777666666666555443
No 117
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.47 E-value=1.1e-06 Score=112.57 Aligned_cols=117 Identities=24% Similarity=0.295 Sum_probs=97.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 669999999999999999999
Q ss_pred -----CCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCC--HHHHHHHH
Q 000539 1357 -----LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT--VEDRILAL 1398 (1433)
Q Consensus 1357 -----p~WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdT--IEErIl~l 1398 (1433)
.+=+.....|++||+.|.. .- .|+.|+...| +...|.+.
T Consensus 519 adifG~p~~~~~~iqriGRagR~~-~G--~vi~~~~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 519 ADKEGFLRSERSLIQTIGRAARNV-NG--KVIMYADKITDSMQKAIEET 564 (655)
T ss_pred cccccCCCCHHHHHHHhcCCCCCC-CC--EEEEEEcCCCHHHHHHHHHH
Confidence 3456778899999999973 22 3455555544 44444443
No 118
>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=98.38 E-value=9.9e-06 Score=94.41 Aligned_cols=123 Identities=18% Similarity=0.171 Sum_probs=73.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHH------------HHHhc--CCCccEEEeecccccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAV------------KDFNT--LPEVSVMIMSLKAASL 1342 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI------------~~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 2356677776554433
Q ss_pred ----ccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000539 1343 ----GLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQ 1400 (1433)
Q Consensus 1343 ----GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 2334467889999999999876544444443333 88999999999999988877666
No 119
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.38 E-value=0.0001 Score=91.20 Aligned_cols=86 Identities=27% Similarity=0.340 Sum_probs=67.9
Q ss_pred HHHhcCCCccEEEeeccccccccCccccCEE--------EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHH
Q 000539 1322 KDFNTLPEVSVMIMSLKAASLGLNMVAACHV--------LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED 1393 (1433)
Q Consensus 1322 ~~Fn~d~~v~VLL~StkaGg~GLNLq~An~V--------I~~Dp~WNPa~e~QAiGRahRIGQtr~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 778888888 999999999965444 55999999999999999999999998766666776655577
Q ss_pred HHHHHHHHHHHHHHHH
Q 000539 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 7777777776665444
No 120
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=98.37 E-value=4.3e-06 Score=107.78 Aligned_cols=107 Identities=24% Similarity=0.313 Sum_probs=92.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6777776 669999999999999999999
Q ss_pred C-----CCCcChHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1357 L-----WWNPTTEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1357 p-----~WNPa~e~QAiGRahRIGQtr~V~VyrLi~k 1388 (1433)
. +-++....|++||+.|- . .=.++.|+..
T Consensus 523 ~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~~~~ 556 (652)
T PRK05298 523 ADKEGFLRSERSLIQTIGRAARN-V--NGKVILYADK 556 (652)
T ss_pred CcccccCCCHHHHHHHhccccCC-C--CCEEEEEecC
Confidence 6 34778899999999994 3 2235555553
No 121
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.31 E-value=4.7e-07 Score=101.79 Aligned_cols=98 Identities=19% Similarity=0.304 Sum_probs=93.4
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 899999976 999999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCC
Q 000539 1359 WNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr 1378 (1433)
-|+.....||||.+|.|---
T Consensus 401 k~aEtYLHRIGRsGRFGhlG 420 (459)
T KOG0326|consen 401 KNAETYLHRIGRSGRFGHLG 420 (459)
T ss_pred CCHHHHHHHccCCccCCCcc
Confidence 99999999999999999653
No 122
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.27 E-value=5.9e-05 Score=97.55 Aligned_cols=112 Identities=15% Similarity=0.238 Sum_probs=84.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHH-HHHHHHhcCCCccEEEeeccccccccCcc--------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARD-KAVKDFNTLPEVSVMIMSLKAASLGLNMV-------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~-~aI~~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 KGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKN--HAQEAEIIAGA---GKLGAVTVATNMAGRGTDIKLDEEAVAV 641 (970)
T ss_pred CCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccch--hhhHHHHHHhc---CCCCcEEEeeccccCCcccccCchHHhc
Confidence 678999999999999999999999999999998873 3444 333321 33233444678888997764
Q ss_pred ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000539 1348 AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 ~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 3468999999999999999999999999886533321 556666654
No 123
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.27 E-value=0.0011 Score=76.50 Aligned_cols=95 Identities=15% Similarity=0.195 Sum_probs=75.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcE---EecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQY---RRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~---~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI 1353 (1433)
.+.-++||..-..++..+...|+.. +++ ..++.. ...|.+.+++|++ +.+.+|| +|.....|+.+...+..+
T Consensus 304 ~~~P~liF~p~I~~~eq~a~~lk~~-~~~~~i~~Vhs~--d~~R~EkV~~fR~-G~~~lLi-TTTILERGVTfp~vdV~V 378 (441)
T COG4098 304 TGRPVLIFFPEIETMEQVAAALKKK-LPKETIASVHSE--DQHRKEKVEAFRD-GKITLLI-TTTILERGVTFPNVDVFV 378 (441)
T ss_pred cCCcEEEEecchHHHHHHHHHHHhh-CCccceeeeecc--CccHHHHHHHHHc-CceEEEE-EeehhhcccccccceEEE
Confidence 5788999999999999999999543 333 334433 2578999999998 7777766 779999999999999888
Q ss_pred EEc--CCCCcChHHHHHHhhhccCC
Q 000539 1354 LLD--LWWNPTTEDQAIDRAHRIGQ 1376 (1433)
Q Consensus 1354 ~~D--p~WNPa~e~QAiGRahRIGQ 1376 (1433)
+=. +.+..++..|--||++|---
T Consensus 379 lgaeh~vfTesaLVQIaGRvGRs~~ 403 (441)
T COG4098 379 LGAEHRVFTESALVQIAGRVGRSLE 403 (441)
T ss_pred ecCCcccccHHHHHHHhhhccCCCc
Confidence 843 44888999999999999543
No 124
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.26 E-value=0.0017 Score=78.58 Aligned_cols=123 Identities=21% Similarity=0.290 Sum_probs=102.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 8888888 678899999999999999999
Q ss_pred CC-----CCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000539 1357 LW-----WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKK 1402 (1433)
Q Consensus 1357 p~-----WNPa~e~QAiGRahRIGQtr~V~VyrLi~kdTIEErIl~lq~kK 1402 (1433)
.. -+-...+|-|||+-|--.-+ |..|-=.+.++++..|-+...++
T Consensus 523 ADKeGFLRse~SLIQtIGRAARN~~Gk-vIlYAD~iT~sM~~Ai~ET~RRR 572 (663)
T COG0556 523 ADKEGFLRSERSLIQTIGRAARNVNGK-VILYADKITDSMQKAIDETERRR 572 (663)
T ss_pred cCccccccccchHHHHHHHHhhccCCe-EEEEchhhhHHHHHHHHHHHHHH
Confidence 65 46778999999999943322 44444444556666666654443
No 125
>PF13871 Helicase_C_4: Helicase_C-like
Probab=98.23 E-value=1.9e-06 Score=98.67 Aligned_cols=95 Identities=24% Similarity=0.282 Sum_probs=80.0
Q ss_pred HHHHHHhcCCCccEEEeeccccccccCcccc-------CEE-EEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCC
Q 000539 1319 KAVKDFNTLPEVSVMIMSLKAASLGLNMVAA-------CHV-LLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNT 1390 (1433)
Q Consensus 1319 ~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~A-------n~V-I~~Dp~WNPa~e~QAiGRahRIGQtr~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 000539 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 8999999999999988777655443
No 126
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.18 E-value=6.2e-06 Score=94.51 Aligned_cols=101 Identities=22% Similarity=0.291 Sum_probs=94.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6788888 559999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCc
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~ 1379 (1433)
.|-.|.....|+||.-|-|..-.
T Consensus 331 iPr~P~~yiHRvGRtARAGR~G~ 353 (442)
T KOG0340|consen 331 IPRDPKDYIHRVGRTARAGRKGM 353 (442)
T ss_pred CCCCHHHHHHhhcchhcccCCcc
Confidence 99999999999999998887654
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=0.00019 Score=93.74 Aligned_cols=111 Identities=12% Similarity=0.048 Sum_probs=63.6
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhc----ccCcEEEEEcccCCC--ChhHHHhhhhccccCCccchHHHHhHhccCCCC
Q 000539 907 WFRVVLDEAQSIKNHRTQVARACWGL----RAKRRWCLSGTPIQN--AIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISK 980 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~srAl~~L----~a~~RwlLTGTPiqN--~l~DLyslL~FL~p~pf~~~~~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 45799999999965433322 22222 345688999999763 334444445544443333333332221
Q ss_pred CchhhHHHHHHHHhhhhheeccccccCCCCccCCCCcEEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHHcC
Q 000539 981 NPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAG 1052 (1433)
Q Consensus 981 ~~~~~~~~L~~lL~~~mLRRtK~dv~dg~pii~LPpk~e~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 1011346677899999988888877766666666665544
No 128
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.13 E-value=8.5e-05 Score=95.98 Aligned_cols=112 Identities=16% Similarity=0.236 Sum_probs=84.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCC-ccEEEeeccccccccCcc--------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPE-VSVMIMSLKAASLGLNMV-------- 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6899999999999999999999999999988888743 44443333 22 32 34455 668888997764
Q ss_pred -----------------------------ccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000539 1348 -----------------------------AACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1348 -----------------------------~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 3458999999999999999999999999876644332 345555543
No 129
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.05 E-value=0.00037 Score=89.45 Aligned_cols=113 Identities=15% Similarity=0.172 Sum_probs=86.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccC------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAAC------ 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An------ 1350 (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 678999999999999999999999999999999874 345544443 22 33333444678899998876433
Q ss_pred --EEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHHH
Q 000539 1351 --HVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILAL 1398 (1433)
Q Consensus 1351 --~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 9999999999999999999999999876644432 455555543
No 130
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=9.6e-06 Score=94.29 Aligned_cols=107 Identities=20% Similarity=0.320 Sum_probs=97.4
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 678999999999999999999999999999999999999999999998 7888888 66899999999999999999999
Q ss_pred CCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1359 WNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr~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 344455554
No 131
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.96 E-value=2.4e-05 Score=95.17 Aligned_cols=103 Identities=18% Similarity=0.226 Sum_probs=92.9
Q ss_pred CeEEEEcccHHHHHHHHHHH-HhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1279 EKAIVFSQWTKMLDLLEASL-KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L-~~~gI~~~rldGsms~~qR~~aI~~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~IwvLic-Tdll~RGiDf~gvn~VInyD~ 465 (593)
T KOG0344|consen 388 PPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRI-GKIWVLIC-TDLLARGIDFKGVNLVINYDF 465 (593)
T ss_pred CCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhc-cCeeEEEe-hhhhhccccccCcceEEecCC
Confidence 36899999999999999999 6779999999999999999999999999 89999995 599999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCCc-EEEE
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRP-VSVL 1383 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~-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
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.95 E-value=0.00054 Score=88.00 Aligned_cols=96 Identities=21% Similarity=0.240 Sum_probs=70.6
Q ss_pred HHHHHHHHhc--CCcEEecCCCCCHH--HHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC---CCcC--
Q 000539 1292 DLLEASLKDS--SIQYRRLDGTMSVF--ARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW---WNPT-- 1362 (1433)
Q Consensus 1292 dlLe~~L~~~--gI~~~rldGsms~~--qR~~aI~~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 3455555443 67888998887643 35678999998 8888888 55889999999999999887754 2333
Q ss_pred -------hHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1363 -------TEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1363 -------~e~QAiGRahRIGQtr~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 456999999998766667766655543
No 133
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.74 E-value=0.00058 Score=87.79 Aligned_cols=75 Identities=17% Similarity=0.295 Sum_probs=62.9
Q ss_pred CCeEEEEccc---HHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecccc---ccccCcc-ccC
Q 000539 1278 GEKAIVFSQW---TKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAA---SLGLNMV-AAC 1350 (1433)
Q Consensus 1278 ~eKvIVFSq~---t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 889999999999999999888663 3788999998 9999999654443 3599996 889
Q ss_pred EEEEEcCC
Q 000539 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 134
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.67 E-value=0.0009 Score=85.12 Aligned_cols=81 Identities=23% Similarity=0.259 Sum_probs=55.5
Q ss_pred ecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-E---c----CCCCcChHHHHHHhhhccCCCC
Q 000539 1307 RLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-L---D----LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1307 rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~-~---D----p~WNPa~e~QAiGRahRIGQtr 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 34566555455555556776 7788888 6699999999997666653 1 1 2357999999999999999765
Q ss_pred cEEEEEEEeCCC
Q 000539 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 135
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=97.54 E-value=9.4e-05 Score=89.01 Aligned_cols=130 Identities=19% Similarity=0.235 Sum_probs=105.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D 1356 (1433)
-+.+.|||++..+-+..|.-+|...+|+...++..|.+++|-+.+++|.+.+. -| |+.|++++.||+++...|||+|.
T Consensus 462 yPGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~-~V-LiaTDVAARGLDIp~V~HVIHYq 539 (731)
T KOG0347|consen 462 YPGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPS-GV-LIATDVAARGLDIPGVQHVIHYQ 539 (731)
T ss_pred cCCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCC-eE-EEeehhhhccCCCCCcceEEEee
Confidence 45789999999999999999999999999999999999999999999998443 34 44669999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEEEEEe----------------CC----CHHHHHHHHHHHHHHHHHHH
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTV----------------KN----TVEDRILALQQKKREMVASA 1409 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 VPRTSEIYVHRSGRTARANS-EGVSVMLCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREI 611 (731)
T ss_pred cCCccceeEecccccccccC-CCeEEEEeChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHH
Confidence 99999999999999999763 2344432210 11 24677777777776666544
No 136
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.46 E-value=0.00056 Score=82.81 Aligned_cols=106 Identities=22% Similarity=0.306 Sum_probs=83.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCc-EEecCCCCCHHHHHHHHHHHhcC-CCccEEEeeccccccccCccccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ-YRRLDGTMSVFARDKAVKDFNTL-PEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~-~~rldGsms~~qR~~aI~~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 78899999874 344566677777766 99999999999999999999984 578999976 9999999995 578999
Q ss_pred EcCC-CC--------cChHHHHHHhhhccCCCCc-EEEEEEE
Q 000539 1355 LDLW-WN--------PTTEDQAIDRAHRIGQTRP-VSVLRLT 1386 (1433)
Q Consensus 1355 ~Dp~-WN--------Pa~e~QAiGRahRIGQtr~-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 2345699999999987754 4444343
No 137
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.45 E-value=0.0029 Score=78.88 Aligned_cols=83 Identities=24% Similarity=0.268 Sum_probs=52.2
Q ss_pred CCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE----c----CCCCcChHHHHHHhhhccCCCCcE
Q 000539 1309 DGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL----D----LWWNPTTEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1309 dGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~----D----p~WNPa~e~QAiGRahRIGQtr~V 1380 (1433)
+++.-+--++-+---|++ +=++||. .|...+-|||+.+-..|+-- | -|-.....+|.-|||+|-|--..=
T Consensus 453 HsGLLPIlKE~IEILFqE-GLvKvLF-ATETFsiGLNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~DdrG 530 (1041)
T KOG0948|consen 453 HSGLLPILKEVIEILFQE-GLVKVLF-ATETFSIGLNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDRG 530 (1041)
T ss_pred cccchHHHHHHHHHHHhc-cHHHHHH-hhhhhhhccCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCCc
Confidence 344333344444445665 6677777 56999999999976655542 2 234567788999999999965443
Q ss_pred EEEEEEeCCCHHHH
Q 000539 1381 SVLRLTVKNTVEDR 1394 (1433)
Q Consensus 1381 ~VyrLi~kdTIEEr 1394 (1433)
.|. +++...+|..
T Consensus 531 ivI-lmiDekm~~~ 543 (1041)
T KOG0948|consen 531 IVI-LMIDEKMEPQ 543 (1041)
T ss_pred eEE-EEecCcCCHH
Confidence 332 3444444443
No 138
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=5.1e-05 Score=83.11 Aligned_cols=57 Identities=33% Similarity=0.722 Sum_probs=47.5
Q ss_pred hhcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhh
Q 000539 1111 ASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFS 1167 (1433)
Q Consensus 1111 ~s~~~C~iC~~~~e~~vvt~CgHvfC~~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 455789999999999999999999999999999977655322347999998887764
No 139
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.42 E-value=0.00033 Score=81.95 Aligned_cols=95 Identities=22% Similarity=0.247 Sum_probs=84.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcC---CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSS---IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~g---I~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI 1353 (1433)
.-.|.||||.-..-.|-|++++.+.| +.++.++|...+.+|.+-++.|+. .+++.||+ +++++.||+++....||
T Consensus 504 ~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk-~dvkflic-tdvaargldi~g~p~~i 581 (725)
T KOG0349|consen 504 AMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKK-FDVKFLIC-TDVAARGLDITGLPFMI 581 (725)
T ss_pred ccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhh-cCeEEEEE-ehhhhccccccCCceEE
Confidence 56899999999999999999998764 567899999999999999999998 77887775 59999999999999999
Q ss_pred EEcCCCCcChHHHHHHhhhc
Q 000539 1354 LLDLWWNPTTEDQAIDRAHR 1373 (1433)
Q Consensus 1354 ~~Dp~WNPa~e~QAiGRahR 1373 (1433)
++-++-.-.....||||+.|
T Consensus 582 nvtlpd~k~nyvhrigrvgr 601 (725)
T KOG0349|consen 582 NVTLPDDKTNYVHRIGRVGR 601 (725)
T ss_pred EEecCcccchhhhhhhccch
Confidence 99999888888888887776
No 140
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.39 E-value=0.019 Score=73.87 Aligned_cols=69 Identities=25% Similarity=0.242 Sum_probs=59.5
Q ss_pred cCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc-CCCCcChHHHHHHhhhccCCCC
Q 000539 1308 LDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD-LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1308 ldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~D-p~WNPa~e~QAiGRahRIGQtr 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 4677889999999889998 8888888 679999999999887777776 6789999999999999998443
No 141
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=97.35 E-value=0.016 Score=76.13 Aligned_cols=70 Identities=21% Similarity=0.307 Sum_probs=57.1
Q ss_pred CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE-----EcCC---C---CcChHHHHHHhh
Q 000539 1303 IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL-----LDLW---W---NPTTEDQAIDRA 1371 (1433)
Q Consensus 1303 I~~~rldGsms~~qR~~aI~~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 455677889999999999999987 8899988 8899999999985 55555 5554 4 356788999999
Q ss_pred hccC
Q 000539 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 142
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.33 E-value=0.036 Score=72.90 Aligned_cols=112 Identities=17% Similarity=0.208 Sum_probs=84.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--------c
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--------A 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 6899999999999999999999999999999988743 44444433222 1234555 668888887765 5
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000539 1349 ACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1349 An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 679999999999999999999999999876533331 45555544
No 143
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=97.32 E-value=0.0073 Score=69.85 Aligned_cols=88 Identities=16% Similarity=0.189 Sum_probs=76.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 889998855 8899999999999999999
Q ss_pred CCCCcChHHH
Q 000539 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 144
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.23 E-value=0.015 Score=75.75 Aligned_cols=66 Identities=18% Similarity=0.215 Sum_probs=47.6
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHH-HHHHHHhcCCCccEEEeeccccccccC
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARD-KAVKDFNTLPEVSVMIMSLKAASLGLN 1345 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~-~aI~~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 689999999999999999999999999999999874322333 44443 22 1223444 6677777744
No 145
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=97.20 E-value=0.00052 Score=80.99 Aligned_cols=109 Identities=18% Similarity=0.195 Sum_probs=93.7
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeec--------------------
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSL-------------------- 1337 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7778888764
Q ss_pred ----c-c---------cccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCcEEEEEEEeCC
Q 000539 1338 ----K-A---------ASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKN 1389 (1433)
Q Consensus 1338 ----k-a---------Gg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~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 2469999999999999999999999999999999776654 33344443
No 146
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=97.20 E-value=0.00069 Score=89.31 Aligned_cols=105 Identities=16% Similarity=0.160 Sum_probs=97.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 67899999999999999999999999999999999999999999999998 668887754 8999999999999999999
Q ss_pred CCCCcChHHHHHHhhhccCCCCcEEEE
Q 000539 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1357 p~WNPa~e~QAiGRahRIGQtr~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 999999999999999999998875544
No 147
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.17 E-value=0.0033 Score=82.73 Aligned_cols=37 Identities=16% Similarity=0.157 Sum_probs=30.6
Q ss_pred EEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCC
Q 000539 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 6999999999652 346788899999999999999644
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=97.16 E-value=0.003 Score=65.75 Aligned_cols=43 Identities=16% Similarity=0.227 Sum_probs=24.7
Q ss_pred cccCccEEEEcCccccCChhhHHHHHH-Hhc-cc--CcEEEEEcccCC
Q 000539 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 3467999999999974 4444444432 222 22 367999999964
No 149
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.12 E-value=0.00024 Score=76.71 Aligned_cols=52 Identities=38% Similarity=0.800 Sum_probs=42.2
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhcc---------------CCCCCCCccccccccccchh
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTA---------------DDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 3679999999999999999999999999998742 123566 699888766555
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=97.01 E-value=0.00031 Score=56.90 Aligned_cols=37 Identities=46% Similarity=1.051 Sum_probs=31.2
Q ss_pred ccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCC
Q 000539 1116 CGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1116 C~iC~~~~e~~-vvt~CgHvfC~~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 68999999999999999887 677873
No 151
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=96.93 E-value=0.0041 Score=83.55 Aligned_cols=69 Identities=14% Similarity=0.143 Sum_probs=44.6
Q ss_pred HHHHHHHHH-hcCCCccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccC-C-CCcEEEEEEE
Q 000539 1316 ARDKAVKDF-NTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG-Q-TRPVSVLRLT 1386 (1433)
Q Consensus 1316 qR~~aI~~F-n~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIG-Q-tr~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 344444554 555678888877 55557888888777765 44466677889999999964 4 2334555444
No 152
>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=96.90 E-value=0.00045 Score=61.65 Aligned_cols=47 Identities=19% Similarity=0.300 Sum_probs=39.0
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000539 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgHvfC~~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 69999999999999999999999999999976 567885 555554433
No 153
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=96.88 E-value=0.06 Score=70.24 Aligned_cols=64 Identities=22% Similarity=0.220 Sum_probs=45.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCC-CCHHHHHHHHHHHhcCCCccEEEeeccccccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGT-MSVFARDKAVKDFNTLPEVSVMIMSLKAASLG 1343 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGs-ms~~qR~~aI~~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 68999999999999999999999999999999987 333333445443211 123344 44555555
No 154
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.0005 Score=77.58 Aligned_cols=50 Identities=30% Similarity=0.789 Sum_probs=42.1
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~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 569999999999999999999999999999876544 77 588877665543
No 155
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=96.82 E-value=0.00043 Score=87.25 Aligned_cols=48 Identities=35% Similarity=0.954 Sum_probs=42.5
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000539 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgHvfC~~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 399999999999999999999999999999999999995 776665543
No 156
>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=55.86 Aligned_cols=33 Identities=36% Similarity=0.765 Sum_probs=28.4
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCC
Q 000539 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADD 1148 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgHvfC~~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 157
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.80 E-value=0.00052 Score=72.33 Aligned_cols=51 Identities=39% Similarity=0.903 Sum_probs=37.7
Q ss_pred hcccccCCCCCCCc--chhcccCcccchhhhhhhhccCCCCCCCccccccccccch
Q 000539 1112 SLAICGICNDPPED--AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1112 s~~~C~iC~~~~e~--~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~ 1165 (1433)
...-|++|.+.... ++-+.|||+||.+||...+... .+||. |+..+....+
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~-~~CP~--C~kkIt~k~~ 182 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT-NKCPT--CRKKITHKQF 182 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHhC-CCCCC--cccccchhhh
Confidence 34679999998655 4669999999999999887543 56885 6655554443
No 158
>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=96.35 E-value=0.002 Score=52.60 Aligned_cols=37 Identities=43% Similarity=1.048 Sum_probs=32.6
Q ss_pred ccCCCCCCCcch-hcccCcccchhhhhhhhc-cCCCCCC
Q 000539 1116 CGICNDPPEDAV-VSICGHVFCNQCICERLT-ADDNQCP 1152 (1433)
Q Consensus 1116 C~iC~~~~e~~v-vt~CgHvfC~~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 4555676
No 159
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=96.28 E-value=0.02 Score=75.76 Aligned_cols=168 Identities=17% Similarity=0.153 Sum_probs=106.4
Q ss_pred CCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhccccccccc
Q 000539 659 PDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNG 738 (1433)
Q Consensus 659 P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~ 738 (1433)
|..-...+|-++|++|++-+.+- .+.++|--+|.|||+.+-..|......
T Consensus 112 ~~~~~~F~LD~fQ~~a~~~Ler~-------esVlV~ApTssGKTvVaeyAi~~al~~----------------------- 161 (1041)
T COG4581 112 PAREYPFELDPFQQEAIAILERG-------ESVLVCAPTSSGKTVVAEYAIALALRD----------------------- 161 (1041)
T ss_pred HHHhCCCCcCHHHHHHHHHHhCC-------CcEEEEccCCCCcchHHHHHHHHHHHc-----------------------
Confidence 33345678999999999988743 457999999999999987666432110
Q ss_pred cccccccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeCh-hhHHHHHHHHHHHhcCCCCcEEEEEeCCCCC
Q 000539 739 IQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLSVLVYHGSSRT 817 (1433)
Q Consensus 739 ~~~~~~~~~k~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~VlvyhG~~r~ 817 (1433)
...+.-..|- +|..|=-+++...|..- .--|-++.|....
T Consensus 162 --------------------------------------~qrviYTsPIKALsNQKyrdl~~~fgdv-~~~vGL~TGDv~I 202 (1041)
T COG4581 162 --------------------------------------GQRVIYTSPIKALSNQKYRDLLAKFGDV-ADMVGLMTGDVSI 202 (1041)
T ss_pred --------------------------------------CCceEeccchhhhhhhHHHHHHHHhhhh-hhhccceecceee
Confidence 1126777785 56788888888776521 1234566665443
Q ss_pred CCcccccCCCEEEEechhhhccCCCCCCCCchhHHHHhhhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCccccc
Q 000539 818 KDPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDI 897 (1433)
Q Consensus 818 k~~~~L~~~DVVITTY~~L~~e~~k~~~~~~~de~ek~~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~ 897 (1433)
. ..+.+++.|-++|++-+.. +.
T Consensus 203 N-----~~A~clvMTTEILRnMlyr----------------g~------------------------------------- 224 (1041)
T COG4581 203 N-----PDAPCLVMTTEILRNMLYR----------------GS------------------------------------- 224 (1041)
T ss_pred C-----CCCceEEeeHHHHHHHhcc----------------Cc-------------------------------------
Confidence 3 3567888888999754321 10
Q ss_pred ccCCccccCccEEEEcCccccCChh-hHHHHHH-Hhc-ccCcEEEEEcccCCCChhHHHhhhhcc
Q 000539 898 VAGPLAKVGWFRVVLDEAQSIKNHR-TQVARAC-WGL-RAKRRWCLSGTPIQNAIDDLYSYFRFL 959 (1433)
Q Consensus 898 ~~~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--PNAEEFAEWIQRV 283 (1041)
T ss_pred --ccccccc--eEEEEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC--CCHHHHHHHHHhc
Confidence 0133333 49999999997754 3333333 333 444889999993 2456666555544
No 160
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.25 E-value=0.0048 Score=72.88 Aligned_cols=99 Identities=19% Similarity=0.236 Sum_probs=90.0
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 4555555 6699999999999999999999
Q ss_pred CCCcChHHHHHHhhhccCCCC
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr 1378 (1433)
+=.+.....|+||+.|-|.+-
T Consensus 339 p~~~klFvhRVgr~aragrtg 359 (529)
T KOG0337|consen 339 PPDDKLFVHRVGRVARAGRTG 359 (529)
T ss_pred CCCCceEEEEecchhhccccc
Confidence 999999999999999998664
No 161
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.21 E-value=0.086 Score=58.49 Aligned_cols=39 Identities=26% Similarity=0.381 Sum_probs=27.3
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCC-cEEEcCCCCChHHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSG-GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~G-GILADEMGLGKTlqaIALI~~ 711 (1433)
.|-+.|+.|+.-++.. .+ .++.-..|.|||-+..+++..
T Consensus 1 ~ln~~Q~~Ai~~~~~~-------~~~~~i~GpPGTGKT~~l~~~i~~ 40 (236)
T PF13086_consen 1 KLNESQREAIQSALSS-------NGITLIQGPPGTGKTTTLASIIAQ 40 (236)
T ss_dssp ---HHHHHHHHHHCTS-------SE-EEEE-STTSSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcC-------CCCEEEECCCCCChHHHHHHHHHH
Confidence 3678999999877743 33 677888899999777676655
No 162
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=96.17 E-value=0.011 Score=69.88 Aligned_cols=103 Identities=15% Similarity=0.114 Sum_probs=92.7
Q ss_pred CeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW 1358 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 000539 1359 WNPTTEDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1359 WNPa~e~QAiGRahRIGQtr~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 163
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.03 E-value=0.0023 Score=53.05 Aligned_cols=30 Identities=37% Similarity=0.912 Sum_probs=20.0
Q ss_pred ccCCCCCCCc----chhcccCcccchhhhhhhhcc
Q 000539 1116 CGICNDPPED----AVVSICGHVFCNQCICERLTA 1146 (1433)
Q Consensus 1116 C~iC~~~~e~----~vvt~CgHvfC~~Ci~e~l~~ 1146 (1433)
|++|.+ ..+ |++.+|||+||.+|+..+...
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 788887 544 788889999999999998864
No 164
>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=96.01 E-value=0.0044 Score=53.02 Aligned_cols=44 Identities=36% Similarity=0.961 Sum_probs=36.5
Q ss_pred ccccCCCCCCCcchhcccCcc-cchhhhhhhhccCCCCCCCccccccc
Q 000539 1114 AICGICNDPPEDAVVSICGHV-FCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHv-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 165
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.96 E-value=0.0037 Score=75.61 Aligned_cols=53 Identities=30% Similarity=0.758 Sum_probs=41.8
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccC--CCCCCCccccccccccch
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTAD--DNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 57899999999999999999999999999988654 333445568776655433
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=95.78 E-value=0.0051 Score=74.14 Aligned_cols=48 Identities=33% Similarity=0.710 Sum_probs=39.7
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccccc
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 35799999999999999999999999999988653 4677 587766543
No 167
>PHA02929 N1R/p28-like protein; Provisional
Probab=95.68 E-value=0.01 Score=67.06 Aligned_cols=46 Identities=35% Similarity=0.770 Sum_probs=35.7
Q ss_pred cccccCCCCCCCc--------chhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000539 1113 LAICGICNDPPED--------AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~--------~vvt~CgHvfC~~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 4679999987443 367899999999999999864 567884 886653
No 168
>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=95.65 E-value=0.0067 Score=47.65 Aligned_cols=37 Identities=46% Similarity=1.053 Sum_probs=31.7
Q ss_pred ccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCC
Q 000539 1116 CGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCP 1152 (1433)
Q Consensus 1116 C~iC~~~~e~~vvt~CgHvfC~~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 7889888888889999999999999999875555676
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=95.31 E-value=0.097 Score=70.34 Aligned_cols=100 Identities=20% Similarity=0.238 Sum_probs=72.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHh----cCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcccc--C
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKD----SSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAA--C 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~----~gI~~~rldGsms~~qR~~aI~~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 3322 479999999997 5556676 56999999999854 4
Q ss_pred EEEEEcCCC-CcC-----------------------------hHHHHHHhhhccCCCCcEE
Q 000539 1351 HVLLLDLWW-NPT-----------------------------TEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1351 ~VI~~Dp~W-NPa-----------------------------~e~QAiGRahRIGQtr~V~ 1381 (1433)
.||+.-+|+ +|. ...||+||+.|-.+.+-|.
T Consensus 748 ~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v 808 (850)
T TIGR01407 748 CLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSI 808 (850)
T ss_pred EEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEE
Confidence 566666554 332 2349999999987777653
No 170
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.11 E-value=0.009 Score=66.95 Aligned_cols=48 Identities=29% Similarity=0.735 Sum_probs=38.2
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCC-CCCCCcccccccccc
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADD-NQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~-~~Cp~~~C~~~l~~~ 1163 (1433)
..|.+|.+.++.|..++|||+||.-||...++... ..||. |+....+.
T Consensus 216 ~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~Cpl--CRak~~pk 264 (271)
T COG5574 216 YKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPL--CRAKVYPK 264 (271)
T ss_pred cceeeeecccCCcccccccchhhHHHHHHHHHhhccccCch--hhhhccch
Confidence 56999999999999999999999999999555444 44884 76654443
No 171
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.06 E-value=0.058 Score=67.07 Aligned_cols=81 Identities=23% Similarity=0.379 Sum_probs=59.7
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccc
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLD 745 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~ 745 (1433)
+|-.-|..||...+++.- .||--..|.|||++.-+++ ++...
T Consensus 410 kLN~SQ~~AV~~VL~rpl-------sLIQGPPGTGKTvtsa~IV-yhl~~------------------------------ 451 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQRPL-------SLIQGPPGTGKTVTSATIV-YHLAR------------------------------ 451 (935)
T ss_pred hhchHHHHHHHHHHcCCc-------eeeecCCCCCceehhHHHH-HHHHH------------------------------
Confidence 477899999999998744 4778889999999884444 32110
Q ss_pred ccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhh-HHHHHHHHHHHhcCCCCcEEEEEeCCCCCC
Q 000539 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 79999999754 58998877666543
No 172
>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=94.91 E-value=0.013 Score=54.43 Aligned_cols=40 Identities=23% Similarity=0.365 Sum_probs=34.4
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCC
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~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 4699999999999999999999999999999987788885
No 173
>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=94.62 E-value=0.021 Score=46.53 Aligned_cols=42 Identities=40% Similarity=0.963 Sum_probs=32.2
Q ss_pred cccCCCCCCCcch-hcccCcccchhhhhhhhccCCCCCCCccccc
Q 000539 1115 ICGICNDPPEDAV-VSICGHVFCNQCICERLTADDNQCPTRNCKI 1158 (1433)
Q Consensus 1115 ~C~iC~~~~e~~v-vt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~ 1158 (1433)
.|.+|.+....++ +.+|+|.||..|+..++......||. |+.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~--C~~ 43 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPL--CRT 43 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCC--CCC
Confidence 3889988875554 45599999999999998876667874 543
No 174
>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=94.57 E-value=0.19 Score=64.70 Aligned_cols=81 Identities=11% Similarity=0.135 Sum_probs=54.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcE-EecCCCCCHHHHHHHHHHHhcC---CCccEEEeeccccccccCc------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQY-RRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSLKAASLGLNM------ 1346 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~-~rldGsms~~qR~~aI~~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 QGGTLVLTTAFS-HISAIGQLVELG-IPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLI-AAGGAWTGIDLTHKPVS 544 (636)
T ss_pred CCCEEEEechHH-HHHHHHHHHHhh-cCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEE-eCCccccccccCCccCC
Confidence 456666676665 455566666543 323 45556542 468899999984 3345555 66999999999
Q ss_pred ----cccCEEEEEcCCCCcC
Q 000539 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 3678899988887664
No 175
>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=94.42 E-value=0.027 Score=65.50 Aligned_cols=49 Identities=27% Similarity=0.738 Sum_probs=37.5
Q ss_pred ccccCCCCC----CCc-chhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000539 1114 AICGICNDP----PED-AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~----~e~-~vvt~CgHvfC~~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 469999873 221 244589999999999999877777788 7988877665
No 176
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=94.30 E-value=0.026 Score=46.99 Aligned_cols=37 Identities=30% Similarity=0.891 Sum_probs=29.5
Q ss_pred ccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCC
Q 000539 1116 CGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1116 C~iC~~~~---e~~vvt~CgHvfC~~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 177
>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=94.27 E-value=0.022 Score=47.26 Aligned_cols=38 Identities=45% Similarity=0.846 Sum_probs=29.9
Q ss_pred cccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCC
Q 000539 1115 ICGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1115 ~C~iC~~~~---e~~vvt~CgHvfC~~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 345678899999999999999774 57874
No 178
>PHA02926 zinc finger-like protein; Provisional
Probab=94.26 E-value=0.025 Score=62.09 Aligned_cols=47 Identities=30% Similarity=0.771 Sum_probs=35.2
Q ss_pred cccccCCCCCC------C---cchhcccCcccchhhhhhhhccC-----CCCCCCcccccccc
Q 000539 1113 LAICGICNDPP------E---DAVVSICGHVFCNQCICERLTAD-----DNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~------e---~~vvt~CgHvfC~~Ci~e~l~~~-----~~~Cp~~~C~~~l~ 1161 (1433)
...|+||.+.. . ..++.+|+|.||..||..|.... ...|| .|+..+.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCP--iCR~~f~ 230 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCP--ICRTRFR 230 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCC--CCcceee
Confidence 46799999853 1 25788999999999999998653 23588 4877653
No 179
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=94.13 E-value=0.023 Score=50.16 Aligned_cols=45 Identities=33% Similarity=0.667 Sum_probs=32.1
Q ss_pred cccccCCCCCCCcchhc-ccCcccchhhhhhhh-ccCCCCCCCcccc
Q 000539 1113 LAICGICNDPPEDAVVS-ICGHVFCNQCICERL-TADDNQCPTRNCK 1157 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt-~CgHvfC~~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 3455689998884
No 180
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=94.03 E-value=2 Score=56.46 Aligned_cols=95 Identities=21% Similarity=0.205 Sum_probs=71.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccC------
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAAC------ 1350 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 566655555532 234455 668888888886332
Q ss_pred -----EEEEEcCCCCcChHHHHHHhhhccC
Q 000539 1351 -----HVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1351 -----~VI~~Dp~WNPa~e~QAiGRahRIG 1375 (1433)
+||=-+-.=+-....|--||++|.|
T Consensus 504 ~lGGL~VIgTERhESRRIDnQLRGRsGRQG 533 (822)
T COG0653 504 ELGGLHVIGTERHESRRIDNQLRGRAGRQG 533 (822)
T ss_pred HhCCcEEEecccchhhHHHHHhhcccccCC
Confidence 4555565555555668889999999
No 181
>PRK10536 hypothetical protein; Provisional
Probab=93.57 E-value=0.37 Score=55.40 Aligned_cols=40 Identities=25% Similarity=0.213 Sum_probs=32.2
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCCh
Q 000539 908 FRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAI 949 (1433)
Q Consensus 908 ~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN~l 949 (1433)
..|||||||++.- .+....+.++....+++++|-|-|..+
T Consensus 178 ~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 178 AVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred CEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 5799999999954 455556778889999999999987653
No 182
>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=93.56 E-value=0.2 Score=55.81 Aligned_cols=43 Identities=16% Similarity=0.223 Sum_probs=22.2
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCChh
Q 000539 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 357899999999853 3444456677788999999999886543
No 183
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=93.24 E-value=0.024 Score=64.98 Aligned_cols=45 Identities=36% Similarity=0.835 Sum_probs=36.7
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~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 3599999999999999999999999999998654 46775 655443
No 184
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.14 E-value=0.2 Score=64.34 Aligned_cols=35 Identities=17% Similarity=0.068 Sum_probs=30.1
Q ss_pred EEEEcCccccCChhhHHHHHHHhcccCcEEEEEccc
Q 000539 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 5999999999865 7889999999988887788883
No 185
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=92.61 E-value=0.053 Score=61.00 Aligned_cols=49 Identities=31% Similarity=0.634 Sum_probs=37.2
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCC--CCCCccccccccc
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDN--QCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~--~Cp~~~C~~~l~~ 1162 (1433)
..|.||.+-..-|++|+|||.||.-||..+|....+ .|-...|..++..
T Consensus 26 lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp~CP~Cr~~~~esrlr~ 76 (391)
T COG5432 26 LRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQPFCPVCREDPCESRLRG 76 (391)
T ss_pred HHhhhhhheeecceecccccchhHHHHHHHhcCCCCCccccccHHhhhccc
Confidence 469999999999999999999999999999976543 2333444444433
No 186
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=92.43 E-value=0.095 Score=46.96 Aligned_cols=42 Identities=33% Similarity=0.879 Sum_probs=22.4
Q ss_pred ccccCCCCCCCcch-hcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1114 AICGICNDPPEDAV-VSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~v-vt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
-.|.+|.+....|| +..|.|+||..||...+... || .|.++.
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~---CP--vC~~Pa 50 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGSE---CP--VCHTPA 50 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTTB----S--SS--B-
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCCC---CC--CcCChH
Confidence 46999999999997 68999999999998876543 66 466554
No 187
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=92.33 E-value=0.33 Score=52.27 Aligned_cols=98 Identities=21% Similarity=0.261 Sum_probs=63.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc----CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecc--ccccccCcc--c
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS----SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLK--AASLGLNMV--A 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~----gI~~~rldGsms~~qR~~aI~~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 5689999999999999999999876 3443333 2 357899999999843 33444 555 789999998 4
Q ss_pred cCEEEEEcCCC-CcC-----------------------------hHHHHHHhhhccCCCCcE
Q 000539 1349 ACHVLLLDLWW-NPT-----------------------------TEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1349 An~VI~~Dp~W-NPa-----------------------------~e~QAiGRahRIGQtr~V 1380 (1433)
+..||+.-+|+ +|. ...||+||+.|-.+-+-+
T Consensus 82 ~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~ 143 (167)
T PF13307_consen 82 LRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGV 143 (167)
T ss_dssp EEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEE
T ss_pred hheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEE
Confidence 66788888776 342 123899999996654433
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=91.74 E-value=0.78 Score=61.86 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=28.1
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI 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 234555699999998775444
No 189
>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=91.70 E-value=2.1 Score=55.83 Aligned_cols=41 Identities=24% Similarity=0.282 Sum_probs=31.2
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 458889999999987431 12467777899999988888754
No 190
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=90.95 E-value=0.99 Score=58.66 Aligned_cols=43 Identities=19% Similarity=0.254 Sum_probs=31.9
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
.+|+-|+.-...++...... ..|+|=...|.|||+..|+-.++
T Consensus 21 qpY~~Q~a~M~rvl~~L~~~---q~~llESPTGTGKSLsLLCS~LA 63 (945)
T KOG1132|consen 21 QPYPTQLAFMTRVLSCLDRK---QNGLLESPTGTGKSLSLLCSTLA 63 (945)
T ss_pred CcchHHHHHHHHHHHHHHHh---hhhhccCCCCCCccHHHHHHHHH
Confidence 46788887777777655543 33899999999999987765543
No 191
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=90.88 E-value=1 Score=58.94 Aligned_cols=102 Identities=21% Similarity=0.212 Sum_probs=75.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCc-EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQ-YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVL 1353 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~-~~rldGsms~~qR~~aI~~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 45555554 456999999986654 4555679999999998 457888
Q ss_pred EEcCCCC-cC-----------------------------hHHHHHHhhhccCCCCcEEE
Q 000539 1354 LLDLWWN-PT-----------------------------TEDQAIDRAHRIGQTRPVSV 1382 (1433)
Q Consensus 1354 ~~Dp~WN-Pa-----------------------------~e~QAiGRahRIGQtr~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 8887764 33 33499999999544555544
No 192
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.29 E-value=0.19 Score=57.56 Aligned_cols=55 Identities=25% Similarity=0.522 Sum_probs=46.7
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccchhhhh
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKA 1169 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~~~f~~~ 1169 (1433)
..+|.||...+..|+...|+|.||..||......+...|+ .|+..+..+-++.+.
T Consensus 7 ~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~Ca--vCR~pids~i~~~ps 61 (324)
T KOG0824|consen 7 KKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCA--VCRFPIDSTIDFEPS 61 (324)
T ss_pred CCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCc--eecCCCCcchhcchh
Confidence 4789999999999999999999999999999888888888 598888766555443
No 193
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.19 E-value=1.5 Score=59.71 Aligned_cols=103 Identities=17% Similarity=0.207 Sum_probs=70.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCC--cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc--cCEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI--QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA--ACHV 1352 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI--~~~rldGsms~~qR~~aI~~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-CcC-----------------------------hHHHHHHhhhccCCCCcEE
Q 000539 1353 LLLDLWW-NPT-----------------------------TEDQAIDRAHRIGQTRPVS 1381 (1433)
Q Consensus 1353 I~~Dp~W-NPa-----------------------------~e~QAiGRahRIGQtr~V~ 1381 (1433)
|+.-+|+ +|. ...|++||+.|-.+.+-|.
T Consensus 829 iI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v 887 (928)
T PRK08074 829 VIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTV 887 (928)
T ss_pred EEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEE
Confidence 8888776 454 1148999999987776553
No 194
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=89.85 E-value=1.4 Score=46.21 Aligned_cols=71 Identities=14% Similarity=0.170 Sum_probs=44.7
Q ss_pred HHHHHHHHHHhcCC-------cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEEEcCCC-
Q 000539 1290 MLDLLEASLKDSSI-------QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLLLDLWW- 1359 (1433)
Q Consensus 1290 ~LdlLe~~L~~~gI-------~~~rldGsms~~qR~~aI~~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 34456899999999754334554 556699999998 356777777554
Q ss_pred CcC
Q 000539 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 195
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.26 E-value=0.13 Score=44.17 Aligned_cols=46 Identities=33% Similarity=0.747 Sum_probs=40.2
Q ss_pred cccccCCCCCCCcchhcccCc-ccchhhhhhhhccCCCCCCCccccccc
Q 000539 1113 LAICGICNDPPEDAVVSICGH-VFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH-vfC~~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 76554
No 196
>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=89.15 E-value=0.12 Score=56.87 Aligned_cols=51 Identities=22% Similarity=0.573 Sum_probs=40.8
Q ss_pred ccccCCCCC-----CCcchhcc-cCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000539 1114 AICGICNDP-----PEDAVVSI-CGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1114 ~~C~iC~~~-----~e~~vvt~-CgHvfC~~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 469999642 22234566 9999999999999999999999999988876544
No 197
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.09 E-value=0.052 Score=63.12 Aligned_cols=47 Identities=36% Similarity=0.834 Sum_probs=38.8
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000539 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgHvfC~~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 5799998877666554 599999999999999999999996 8776543
No 198
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=89.06 E-value=0.23 Score=58.20 Aligned_cols=52 Identities=25% Similarity=0.822 Sum_probs=42.6
Q ss_pred hhhhcccccCCCCCCCcchhcccCcccchhhhhhhhccC-CCCCCCccccccccc
Q 000539 1109 LEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTAD-DNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1109 le~s~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~-~~~Cp~~~C~~~l~~ 1162 (1433)
+.++...|.||.+...+.-+.+|||++|..|+..|-..+ ...||. |+..+.-
T Consensus 365 MgsTFeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPF--CRcEIKG 417 (563)
T KOG1785|consen 365 MGSTFELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPF--CRCEIKG 417 (563)
T ss_pred ccchHHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCc--eeeEecc
Confidence 455667899999999999999999999999999998766 668996 6555543
No 199
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=89.02 E-value=2.3 Score=57.08 Aligned_cols=99 Identities=18% Similarity=0.148 Sum_probs=67.9
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 45678888778888888888887655443 5555322 36779999997 4445666 458899999996 4556677
Q ss_pred EcCC-CCcC-----------------------------hHHHHHHhhhccCCCCcE
Q 000539 1355 LDLW-WNPT-----------------------------TEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1355 ~Dp~-WNPa-----------------------------~e~QAiGRahRIGQtr~V 1380 (1433)
.-+| .+|. ...|++||+.|--.-+-|
T Consensus 721 ~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gv 776 (820)
T PRK07246 721 TRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSA 776 (820)
T ss_pred ecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEE
Confidence 6644 3442 123899999996655554
No 200
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=88.89 E-value=3.7 Score=45.48 Aligned_cols=38 Identities=26% Similarity=0.292 Sum_probs=24.1
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhcc-cCcEEEEEcccCC
Q 000539 907 WFRVVLDEAQSIKNHRTQVARACWGLR-AKRRWCLSGTPIQ 946 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~srAl~~L~-a~~RwlLTGTPiq 946 (1433)
.++||||||..+-.. .....+..+. ...+++|.|-|-|
T Consensus 94 ~~vliVDEasmv~~~--~~~~ll~~~~~~~~klilvGD~~Q 132 (196)
T PF13604_consen 94 KDVLIVDEASMVDSR--QLARLLRLAKKSGAKLILVGDPNQ 132 (196)
T ss_dssp TSEEEESSGGG-BHH--HHHHHHHHS-T-T-EEEEEE-TTS
T ss_pred ccEEEEecccccCHH--HHHHHHHHHHhcCCEEEEECCcch
Confidence 458999999999543 3444444443 4789999999987
No 201
>PRK14873 primosome assembly protein PriA; Provisional
Probab=88.08 E-value=2.2 Score=55.70 Aligned_cols=57 Identities=26% Similarity=0.244 Sum_probs=40.9
Q ss_pred CcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc------ccccCCCEEEEechhhh
Q 000539 778 AGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDP------CELAKFDVVITTYSIVS 837 (1433)
Q Consensus 778 ~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~------~~L~~~DVVITTY~~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 3468889987543321 11245679999887663
No 202
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=87.82 E-value=1.1 Score=55.30 Aligned_cols=57 Identities=25% Similarity=0.299 Sum_probs=42.4
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccc--cCCCEEEEechhhh
Q 000539 780 TLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCEL--AKFDVVITTYSIVS 837 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L--~~~DVVITTY~~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 77888888876555 457899988887654433333 26789999998884
No 203
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=87.67 E-value=0.25 Score=55.94 Aligned_cols=42 Identities=36% Similarity=0.930 Sum_probs=36.8
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCcccc
Q 000539 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCK 1157 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~ 1157 (1433)
-.|+.|......++-+ .|+|.||.+||...|...+..|| +|.
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~Cp--nC~ 317 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCP--NCS 317 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCC--Ccc
Confidence 3599999988888887 69999999999999999999999 465
No 204
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.62 E-value=0.3 Score=55.32 Aligned_cols=43 Identities=30% Similarity=0.771 Sum_probs=34.8
Q ss_pred hhcccccCCCCCCCcch-hcccCcccchhhhhhhhcc-CCCCCCC
Q 000539 1111 ASLAICGICNDPPEDAV-VSICGHVFCNQCICERLTA-DDNQCPT 1153 (1433)
Q Consensus 1111 ~s~~~C~iC~~~~e~~v-vt~CgHvfC~~Ci~e~l~~-~~~~Cp~ 1153 (1433)
++...|++|.++|..|. +.+|+|++|.-|+...... ....||.
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~ 281 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPL 281 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCc
Confidence 34578999999999885 5679999999999987654 4668884
No 205
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=87.29 E-value=0.25 Score=53.07 Aligned_cols=35 Identities=37% Similarity=0.881 Sum_probs=30.8
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccC
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTAD 1147 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 35799999999999999999999999998876544
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=86.54 E-value=2.4 Score=56.04 Aligned_cols=102 Identities=16% Similarity=0.194 Sum_probs=69.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCC-------cEEecCCCCCHHHHHHHHHHHhcC---CCccEEEeec--ccccccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSI-------QYRRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSL--KAASLGL 1344 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI-------~~~rldGsms~~qR~~aI~~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 457888888888888888877765432 223333332 25889999999752 2334555 44 5688999
Q ss_pred Ccc--ccCEEEEEcCCC-CcC------------------------------hHHHHHHhhhccCCCCcE
Q 000539 1345 NMV--AACHVLLLDLWW-NPT------------------------------TEDQAIDRAHRIGQTRPV 1380 (1433)
Q Consensus 1345 NLq--~An~VI~~Dp~W-NPa------------------------------~e~QAiGRahRIGQtr~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 997 478888888887 542 234899999996554443
No 207
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=86.30 E-value=1.6 Score=53.79 Aligned_cols=98 Identities=20% Similarity=0.180 Sum_probs=77.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHh----cCC----cEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKD----SSI----QYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~----~gI----~~~rldGsms~~qR~~aI~~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 567999999999887765443332 111 23467899999999998877665 4544444 7899999999999
Q ss_pred cCEEEEEcCCCCcChHHHHHHhhhccCC
Q 000539 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 208
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=86.18 E-value=4.4 Score=53.52 Aligned_cols=76 Identities=14% Similarity=0.240 Sum_probs=53.3
Q ss_pred CeEEEEcccHHHHHHHHHHHHhc-CCcEEecCCCCCHHHHHHHHHHHhcC---CCccEEEeeccccccccCcc--ccCEE
Q 000539 1279 EKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTL---PEVSVMIMSLKAASLGLNMV--AACHV 1352 (1433)
Q Consensus 1279 eKvIVFSq~t~~LdlLe~~L~~~-gI~~~rldGsms~~qR~~aI~~Fn~d---~~v~VLL~StkaGg~GLNLq--~An~V 1352 (1433)
.+++||.....+++.+...|... +.+ +...|. ..|.++++.|.+. ++..||+ .+....+|+++. ....|
T Consensus 535 gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~VL~-g~~sf~EGVD~pGd~l~~v 609 (697)
T PRK11747 535 KGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGSVLF-GLQSFAEGLDLPGDYLTQV 609 (697)
T ss_pred CCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCeEEE-EeccccccccCCCCceEEE
Confidence 34677777778888888888643 333 444564 3578899888752 3445666 458889999997 47888
Q ss_pred EEEcCCC
Q 000539 1353 LLLDLWW 1359 (1433)
Q Consensus 1353 I~~Dp~W 1359 (1433)
|+.-+|+
T Consensus 610 II~kLPF 616 (697)
T PRK11747 610 IITKIPF 616 (697)
T ss_pred EEEcCCC
Confidence 8887776
No 209
>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=85.36 E-value=2.2 Score=49.53 Aligned_cols=101 Identities=20% Similarity=0.144 Sum_probs=60.4
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000539 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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---------KGRLAEMKTGEGKTLIA-ALPAALNA----------------------------- 115 (266)
T ss_dssp S----HHHHHHHHHHH---------TTSEEEESTTSHHHHHH-HHHHHHHH-----------------------------
T ss_pred CCcccHHHHhhhhhcc---------cceeEEecCCCCcHHHH-HHHHHHHH-----------------------------
Confidence 3456667888876663 56788889999999988 34333210
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChhhH----HHHHHHHHHHhcCCCCcEEEEEeCCCCCCC
Q 000539 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 011346778877655 368888887764 78877766543322
Q ss_pred cccccCCCEEEEechhhhc
Q 000539 820 PCELAKFDVVITTYSIVSM 838 (1433)
Q Consensus 820 ~~~L~~~DVVITTY~~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 210
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.07 E-value=6.2 Score=46.89 Aligned_cols=58 Identities=24% Similarity=0.208 Sum_probs=39.8
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCC-Cccc-ccCCCEEEEechhhhc
Q 000539 780 TLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTK-DPCE-LAKFDVVITTYSIVSM 838 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k-~~~~-L~~~DVVITTY~~L~~ 838 (1433)
.||+.|+. |..|-.+.+. .+...-.+++.++.|....- .... ..+.++||+|-+.+.-
T Consensus 78 alvlTPTrELA~QiaEQF~-alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad 138 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFI-ALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLAD 138 (442)
T ss_pred EEEecchHHHHHHHHHHHH-HhcccccceEEEEEccHHHhhhhhhcccCCCeEecCcccccc
Confidence 59999998 6678877775 44545578888877764322 2222 3467899999888753
No 211
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.93 E-value=0.36 Score=55.64 Aligned_cols=42 Identities=31% Similarity=0.785 Sum_probs=35.5
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccc
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCK 1157 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 467999999988888899999999999999887 445666 466
No 212
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.54 E-value=0.41 Score=54.70 Aligned_cols=45 Identities=29% Similarity=0.642 Sum_probs=37.5
Q ss_pred ccccCCCCCC---CcchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1114 AICGICNDPP---EDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~---e~~vvt~CgHvfC~~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 5799998753 235789999999999999999999999995 87654
No 213
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=84.49 E-value=5.7 Score=51.58 Aligned_cols=42 Identities=26% Similarity=0.162 Sum_probs=34.0
Q ss_pred cCccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCCC
Q 000539 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 357899999999995 346667778889999999999987743
No 214
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=84.04 E-value=3.2 Score=52.27 Aligned_cols=44 Identities=25% Similarity=0.372 Sum_probs=32.1
Q ss_pred CcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 662 VLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 662 ~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 3445688899999999886531 1 355567899999988777754
No 215
>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=83.80 E-value=6.6 Score=50.79 Aligned_cols=40 Identities=23% Similarity=0.148 Sum_probs=32.5
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000539 906 GWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQN 947 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~srAl~~L~a~~RwlLTGTPiqN 947 (1433)
.+++||||||-++-. ....+.+..++...|++|.|=|-|=
T Consensus 259 ~~dvlIiDEaSMvd~--~l~~~ll~al~~~~rlIlvGD~~QL 298 (586)
T TIGR01447 259 PLDVLVVDEASMVDL--PLMAKLLKALPPNTKLILLGDKNQL 298 (586)
T ss_pred cccEEEEcccccCCH--HHHHHHHHhcCCCCEEEEECChhhC
Confidence 578999999999954 3566667778888999999988764
No 216
>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=82.85 E-value=4.8 Score=48.70 Aligned_cols=16 Identities=25% Similarity=0.449 Sum_probs=13.9
Q ss_pred cCccEEEEcCccccCC
Q 000539 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 4578999999999977
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=82.09 E-value=11 Score=46.77 Aligned_cols=126 Identities=13% Similarity=0.115 Sum_probs=94.4
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccc-cccCccccCEEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAAS-LGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 88999999966532 23456689999999
Q ss_pred cCCCCcChHHHHHHhhhccCC----CCcEEEEEEEeCC-CH-HHHHHHHHHHHH
Q 000539 1356 DLWWNPTTEDQAIDRAHRIGQ----TRPVSVLRLTVKN-TV-EDRILALQQKKR 1403 (1433)
Q Consensus 1356 Dp~WNPa~e~QAiGRahRIGQ----tr~V~VyrLi~kd-TI-EErIl~lq~kK~ 1403 (1433)
.||-+|.-....+.-+..-.+ ..+..|.-|.++= .+ =|||+..+..++
T Consensus 378 ~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~LErIVGt~ra~~ 431 (442)
T PF06862_consen 378 GPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALRLERIVGTERASK 431 (442)
T ss_pred CCCCChhHHHHHHhhhcccccccccccCceEEEEecHhHHHHHHHHhCHHHHHH
Confidence 999999988877765554333 3446666666553 22 255555544443
No 218
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=81.99 E-value=7 Score=53.43 Aligned_cols=39 Identities=13% Similarity=0.159 Sum_probs=25.0
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTI 706 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaI 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 457889998666665543321 123344489999998764
No 219
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=81.46 E-value=4.1 Score=42.91 Aligned_cols=68 Identities=12% Similarity=0.237 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhcCC----cEEecCCCCCHHHHHHHHHHHhcCCC--ccEEEeeccc--cccccCcc--ccCEEEEEcCCC
Q 000539 1290 MLDLLEASLKDSSI----QYRRLDGTMSVFARDKAVKDFNTLPE--VSVMIMSLKA--ASLGLNMV--AACHVLLLDLWW 1359 (1433)
Q Consensus 1290 ~LdlLe~~L~~~gI----~~~rldGsms~~qR~~aI~~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 45555566665543 234444443 2355799999997432 23555 4344 79999998 366788877664
No 220
>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=81.36 E-value=5.5 Score=52.32 Aligned_cols=98 Identities=15% Similarity=0.206 Sum_probs=73.3
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCcc--ccCEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMV--AACHVLL 1354 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7899999999999999999999999999999998876552 2333 458888866 7778898885 3455665
Q ss_pred E-cC-CCCcCh--HHHHHHhhhccCCCCcEEEE
Q 000539 1355 L-DL-WWNPTT--EDQAIDRAHRIGQTRPVSVL 1383 (1433)
Q Consensus 1355 ~-Dp-~WNPa~--e~QAiGRahRIGQtr~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 22 233553 589999999998554 4444
No 221
>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=81.22 E-value=9 Score=50.85 Aligned_cols=40 Identities=18% Similarity=0.081 Sum_probs=31.1
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000539 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 3445666677888899999988774
No 222
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.12 E-value=1 Score=51.81 Aligned_cols=44 Identities=30% Similarity=0.638 Sum_probs=34.8
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~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 356999999999999999999999999988775532 344 45544
No 223
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=78.37 E-value=0.79 Score=58.63 Aligned_cols=51 Identities=27% Similarity=0.604 Sum_probs=40.3
Q ss_pred hcccccCCCCCCCc-----chhcccCcccchhhhhhhhccCCCCCCCccccccccccch
Q 000539 1112 SLAICGICNDPPED-----AVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1112 s~~~C~iC~~~~e~-----~vvt~CgHvfC~~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 667885 7765444433
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=77.87 E-value=1.5 Score=40.89 Aligned_cols=39 Identities=41% Similarity=0.963 Sum_probs=28.3
Q ss_pred ccccCCCCCCCc------------c-hhcccCcccchhhhhhhhccCCCCCCC
Q 000539 1114 AICGICNDPPED------------A-VVSICGHVFCNQCICERLTADDNQCPT 1153 (1433)
Q Consensus 1114 ~~C~iC~~~~e~------------~-vvt~CgHvfC~~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 2 3467999999999999996655 7874
No 225
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=77.63 E-value=11 Score=50.66 Aligned_cols=41 Identities=12% Similarity=0.123 Sum_probs=25.7
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIAL 708 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIAL 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 457889998666555533321 11345558999999866433
No 226
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.57 E-value=1.3 Score=54.07 Aligned_cols=46 Identities=33% Similarity=0.800 Sum_probs=37.8
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
...|.+|......|+.++|||.||..||...+. ....||. |+..+.
T Consensus 84 ef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~--Cr~~l~ 129 (398)
T KOG4159|consen 84 EFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECPL--CRDELV 129 (398)
T ss_pred hhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCcc--cccccc
Confidence 467999999999999999999999999988555 5566775 776654
No 227
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=76.08 E-value=2.3 Score=53.30 Aligned_cols=35 Identities=23% Similarity=0.233 Sum_probs=27.1
Q ss_pred chHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHH
Q 000539 668 LRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 668 ~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI 709 (1433)
.|-|++++-.|+.+ +-++-|-..|-|||+.-+.=|
T Consensus 160 t~iq~~aipvfl~~-------r~~lAcapTGsgKtlaf~~Pi 194 (593)
T KOG0344|consen 160 TPIQKQAIPVFLEK-------RDVLACAPTGSGKTLAFNLPI 194 (593)
T ss_pred Ccccchhhhhhhcc-------cceEEeccCCCcchhhhhhHH
Confidence 56799999999965 447888999999987654444
No 228
>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=75.97 E-value=16 Score=48.33 Aligned_cols=38 Identities=26% Similarity=0.288 Sum_probs=23.7
Q ss_pred ccEEEEcCccccCCh--------hhHHHHHHHhc--ccCcEEEEEccc
Q 000539 907 WFRVVLDEAQSIKNH--------RTQVARACWGL--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 899999998654321 11112222233 789999999983
No 229
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=75.35 E-value=45 Score=44.28 Aligned_cols=44 Identities=18% Similarity=0.142 Sum_probs=31.2
Q ss_pred hhccCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCC
Q 000539 1371 AHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDE 1414 (1433)
Q Consensus 1371 ahRIGQtr~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 46889999888886566778766655666666667777666554
No 230
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=75.25 E-value=2 Score=51.42 Aligned_cols=57 Identities=28% Similarity=0.533 Sum_probs=42.4
Q ss_pred HHHHhhhhcccccCCCCCC---CcchhcccCcccchhhhhhhhcc--C-----CCCCCCcccccccc
Q 000539 1105 LLNCLEASLAICGICNDPP---EDAVVSICGHVFCNQCICERLTA--D-----DNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1105 ll~~le~s~~~C~iC~~~~---e~~vvt~CgHvfC~~Ci~e~l~~--~-----~~~Cp~~~C~~~l~ 1161 (1433)
-+..+..+...|.||.+.. ...+.++|.|+||..|...+.+. . .-+||.+.|+....
T Consensus 176 ~~~~F~~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~ 242 (445)
T KOG1814|consen 176 TLEKFVNSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAP 242 (445)
T ss_pred HHHHHHhhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCC
Confidence 3445666788999998753 34678999999999999998654 2 23799988876543
No 231
>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=75.11 E-value=1.7 Score=50.04 Aligned_cols=48 Identities=25% Similarity=0.707 Sum_probs=37.2
Q ss_pred cccCCCCC-----CCcchhcccCcccchhhhhhhhccCCCCCCCccccccccccc
Q 000539 1115 ICGICNDP-----PEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSS 1164 (1433)
Q Consensus 1115 ~C~iC~~~-----~e~~vvt~CgHvfC~~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 47777532 222345699999999999999999999999 8988877654
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=74.49 E-value=12 Score=48.20 Aligned_cols=48 Identities=13% Similarity=0.028 Sum_probs=35.7
Q ss_pred CCCCcccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 659 PDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 659 P~g~l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
-+|.......|||++-+.-|-... ++--.+.=-.-+|||..++.+|.+
T Consensus 9 ~pG~w~~~~~Py~~eimd~~~~~~-----v~~Vv~~k~aQ~GkT~~~~n~~g~ 56 (557)
T PF05876_consen 9 EPGPWRTDRTPYLREIMDALSDPS-----VREVVVMKSAQVGKTELLLNWIGY 56 (557)
T ss_pred CCCCCCCCCChhHHHHHHhcCCcC-----ccEEEEEEcchhhHhHHHHhhceE
Confidence 345567789999999888886543 345677777799999988777754
No 233
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=73.10 E-value=13 Score=47.51 Aligned_cols=113 Identities=20% Similarity=0.248 Sum_probs=84.2
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc------CC--cEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCcc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS------SI--QYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMV 1347 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~------gI--~~~rldGsms~~qR~~aI~~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 5568999998888777777777553 22 24678999998777655 76644 6676777989999888888
Q ss_pred ccCEEEE----EcCCCCc-----------ChHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000539 1348 AACHVLL----LDLWWNP-----------TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1348 ~An~VI~----~Dp~WNP-----------a~e~QAiGRahRIGQtr~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 7766641 1223565 3567999999999999999999999987663
No 234
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=73.05 E-value=2 Score=48.48 Aligned_cols=45 Identities=18% Similarity=0.199 Sum_probs=41.8
Q ss_pred EeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCC
Q 000539 1334 IMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1334 L~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr 1378 (1433)
++++...|.|++..+.|.||+||.+-.+.....+++|+.|.|-+-
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 457899999999999999999999999999999999999999664
No 235
>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=72.90 E-value=2 Score=46.42 Aligned_cols=17 Identities=24% Similarity=0.262 Sum_probs=12.7
Q ss_pred cccCCCEEEEechhhhc
Q 000539 822 ELAKFDVVITTYSIVSM 838 (1433)
Q Consensus 822 ~L~~~DVVITTY~~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 236
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=72.47 E-value=1.2 Score=51.92 Aligned_cols=45 Identities=36% Similarity=0.844 Sum_probs=37.3
Q ss_pred ccccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCCcccccccc
Q 000539 1114 AICGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~-vvt~CgHvfC~~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 5699999888776 57889999999999999988 778986 665543
No 237
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.26 E-value=1.9 Score=50.35 Aligned_cols=36 Identities=33% Similarity=0.667 Sum_probs=32.1
Q ss_pred cccccCCCCCCCcchhcccCcccchhhhhhhhccCC
Q 000539 1113 LAICGICNDPPEDAVVSICGHVFCNQCICERLTADD 1148 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~ 1148 (1433)
...|+||.-.+..++++||+|--|..||..++.+..
T Consensus 422 d~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k 457 (489)
T KOG4692|consen 422 DNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK 457 (489)
T ss_pred cccCcceecccchhhccCCCCchHHHHHHHHHhcCC
Confidence 356999999999999999999999999999987543
No 238
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.17 E-value=2 Score=51.26 Aligned_cols=48 Identities=31% Similarity=0.620 Sum_probs=38.7
Q ss_pred ccccCCCCCCC---cchhcccCcccchhhhhhhhccCCCCCCCcccccccccc
Q 000539 1114 AICGICNDPPE---DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1114 ~~C~iC~~~~e---~~vvt~CgHvfC~~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 48999988633 34679999999999999999999888995 88755443
No 239
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=71.96 E-value=15 Score=47.15 Aligned_cols=46 Identities=22% Similarity=0.330 Sum_probs=30.0
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc-------ccC-cEEEEEcccCCCChhHHHhh
Q 000539 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 46789999999 445555544433 333 67889999765555555544
No 240
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=71.86 E-value=13 Score=48.29 Aligned_cols=21 Identities=24% Similarity=0.355 Sum_probs=17.3
Q ss_pred CCcEEEcCCCCChHHHHHHHH
Q 000539 689 SGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 689 ~GGILADEMGLGKTlqaIALI 709 (1433)
.-.|+|-++|.|||.|.=-++
T Consensus 272 ~vvIIcGeTGsGKTTQvPQFL 292 (1172)
T KOG0926|consen 272 PVVIICGETGSGKTTQVPQFL 292 (1172)
T ss_pred CeEEEecCCCCCccccchHHH
Confidence 347999999999999985555
No 241
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=71.33 E-value=2.2 Score=37.33 Aligned_cols=44 Identities=27% Similarity=0.668 Sum_probs=31.8
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~ 1162 (1433)
..|-.|.......++.+|||++|..|+...-. +.|| .|..++..
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~~rY---ngCP--fC~~~~~~ 51 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPGERY---NGCP--FCGTPFEF 51 (55)
T ss_pred eeEEEccccccccccccccceeeccccChhhc---cCCC--CCCCcccC
Confidence 34667777777788899999999999976544 4466 36666543
No 242
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=70.98 E-value=9.5 Score=46.30 Aligned_cols=108 Identities=20% Similarity=0.148 Sum_probs=66.7
Q ss_pred cEEEEeChh-hHHHHHHHHHHHhcCCCCcEE-EEEeCCCCCCCccccc-CCCEEEEechhhhccCCCCCCCCchhHHHHh
Q 000539 779 GTLVVCPTS-VLRQWAEELRNKVTSKGSLSV-LVYHGSSRTKDPCELA-KFDVVITTYSIVSMEVPKQPLGDKEDEEEKM 855 (1433)
Q Consensus 779 ~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~V-lvyhG~~r~k~~~~L~-~~DVVITTY~~L~~e~~k~~~~~~~de~ek~ 855 (1433)
..||+.|+. |..|-.+=++..-.. -.++. +.|+|.........+. ..||||.|-..+.--. . +
T Consensus 92 RalilsptreLa~qtlkvvkdlgrg-t~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~-v-----------e- 157 (529)
T KOG0337|consen 92 RALILSPTRELALQTLKVVKDLGRG-TKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLG-V-----------E- 157 (529)
T ss_pred ceeeccCcHHHHHHHHHHHHHhccc-cchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeee-h-----------h-
Confidence 479999997 556655544433221 13444 4677776655555554 7899999887764110 0 0
Q ss_pred hhcCCCCCcccccCcccCCCCCCCccccccCCCCCCCcccccccCCccccCccEEEEcCccccCC--hhhHHHHHHHhcc
Q 000539 856 KIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGPLAKVGWFRVVLDEAQSIKN--HRTQVARACWGLR 933 (1433)
Q Consensus 856 ~~e~~~~~~~~~~~~~krk~~~~~~rk~~~~kk~~~~~~~e~~~~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 001222234699999999843 4566777777784
Q ss_pred -cCcEEEEEccc
Q 000539 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 243
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=70.85 E-value=2.2 Score=52.43 Aligned_cols=46 Identities=37% Similarity=0.930 Sum_probs=38.3
Q ss_pred ccccCCCCCCCcchhc-ccCcccchhhhhhhhccCCCCCCCccccccccc
Q 000539 1114 AICGICNDPPEDAVVS-ICGHVFCNQCICERLTADDNQCPTRNCKIRLSL 1162 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt-~CgHvfC~~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 5444433
No 244
>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=70.01 E-value=75 Score=36.69 Aligned_cols=19 Identities=32% Similarity=0.302 Sum_probs=15.7
Q ss_pred cEEEcCCCCChHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALI 709 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI 709 (1433)
-||.=..|.|||..|-++.
T Consensus 45 vll~GppGtGKTtlA~~ia 63 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILG 63 (261)
T ss_pred EEEEcCCCCCHHHHHHHHH
Confidence 4789999999998885554
No 245
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=69.04 E-value=32 Score=46.03 Aligned_cols=39 Identities=31% Similarity=0.256 Sum_probs=29.6
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~ 710 (1433)
.|-.-|+.|+...+.-+. -.++--..|.|||-++.+||-
T Consensus 669 ~LN~dQr~A~~k~L~aed------y~LI~GMPGTGKTTtI~~LIk 707 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAED------YALILGMPGTGKTTTISLLIK 707 (1100)
T ss_pred hcCHHHHHHHHHHHhccc------hheeecCCCCCchhhHHHHHH
Confidence 577899999988886544 145666789999988877763
No 246
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=67.69 E-value=40 Score=45.33 Aligned_cols=20 Identities=30% Similarity=0.459 Sum_probs=16.3
Q ss_pred cEEEcCCCCChHHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI~ 710 (1433)
.||+-++|.|||-+.=-+++
T Consensus 68 vii~getGsGKTTqlP~~ll 87 (845)
T COG1643 68 VIIVGETGSGKTTQLPQFLL 87 (845)
T ss_pred EEEeCCCCCChHHHHHHHHH
Confidence 79999999999988754443
No 247
>PHA02533 17 large terminase protein; Provisional
Probab=65.50 E-value=50 Score=42.42 Aligned_cols=42 Identities=21% Similarity=0.188 Sum_probs=28.5
Q ss_pred cccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 663 l~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 4577999999999887421 11244444589999888665543
No 248
>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=64.53 E-value=19 Score=40.94 Aligned_cols=43 Identities=14% Similarity=0.130 Sum_probs=32.5
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 2356799999999999766555443
No 249
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=63.47 E-value=5.6 Score=40.16 Aligned_cols=35 Identities=26% Similarity=0.347 Sum_probs=26.6
Q ss_pred cEEEEcCccccCChhhHHHHHHHhc--ccCcEEEEEccc
Q 000539 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 679999999983 24445555555 677789999999
No 250
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=62.82 E-value=1.1e+02 Score=36.68 Aligned_cols=48 Identities=21% Similarity=0.188 Sum_probs=34.6
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHc
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKE 712 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~ 712 (1433)
..+||||......+.+.-.....+.+-++.-..|+||+..|.+++...
T Consensus 3 ~~~yPW~~~~~~~l~~~~~~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~L 50 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAALDAGRLGHGLLICGPEGLGKRAVALALAEHV 50 (319)
T ss_pred ccccccHHHHHHHHHHHHHcCCcceeEeeECCCCCCHHHHHHHHHHHH
Confidence 458999998877766654332223445788899999999998887553
No 251
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=62.15 E-value=32 Score=45.23 Aligned_cols=66 Identities=23% Similarity=0.223 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccccccccc
Q 000539 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQ 749 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 78888888776543211 123577778999999997776431
Q ss_pred ccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhc
Q 000539 750 ESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVT 801 (1433)
Q Consensus 750 ~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~S-LL~QW~~EI~k~~~ 801 (1433)
.+|+|||+|.. +..||.+|++.|++
T Consensus 54 ---------------------------~~p~Lvi~~n~~~A~ql~~el~~f~p 79 (655)
T TIGR00631 54 ---------------------------NRPTLVIAHNKTLAAQLYNEFKEFFP 79 (655)
T ss_pred ---------------------------CCCEEEEECCHHHHHHHHHHHHHhCC
Confidence 14699999987 56899999999987
No 252
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.54 E-value=3.5 Score=50.19 Aligned_cols=45 Identities=29% Similarity=0.739 Sum_probs=34.9
Q ss_pred ccccCCCCCCC-----------------cchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1114 AICGICNDPPE-----------------DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1114 ~~C~iC~~~~e-----------------~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
..|.||..+.+ .-.++||.|+|-.+|+..|+....-.||. |+..|
T Consensus 572 ~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPv--CR~pL 633 (636)
T KOG0828|consen 572 NDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPV--CRCPL 633 (636)
T ss_pred ccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCc--cCCCC
Confidence 56999987532 23568999999999999999877778885 65543
No 253
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=61.26 E-value=3.8 Score=46.27 Aligned_cols=45 Identities=31% Similarity=0.797 Sum_probs=30.2
Q ss_pred ccccCCCCCC-Ccc-hhcccCcccchhhhhhhhccCCCCCCCcccccccccc
Q 000539 1114 AICGICNDPP-EDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1114 ~~C~iC~~~~-e~~-vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l~~~ 1163 (1433)
..|..|..-+ .++ .+|.|+|+||..|..-.... .|+ .|+..+...
T Consensus 4 VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~--lCkk~ir~i 50 (233)
T KOG4739|consen 4 VHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCP--LCKKSIRII 50 (233)
T ss_pred EEeccccccCCCCceeeeechhhhhhhhcccCCcc---ccc--cccceeeee
Confidence 3588886543 333 57999999999998554332 566 477665543
No 254
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=60.32 E-value=5.3 Score=47.03 Aligned_cols=42 Identities=26% Similarity=0.232 Sum_probs=29.6
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~ 710 (1433)
+.||.|+.-..-+.+.-... .-+|+--..|.|||+..|..++
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHH
Confidence 34899999666655543321 3467778899999999886654
No 255
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=60.32 E-value=5.3 Score=47.03 Aligned_cols=42 Identities=26% Similarity=0.232 Sum_probs=29.6
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~ 710 (1433)
+.||.|+.-..-+.+.-... .-+|+--..|.|||+..|..++
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al 49 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTL 49 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHH
Confidence 34899999666655543321 3467778899999999886654
No 256
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=60.25 E-value=21 Score=40.70 Aligned_cols=59 Identities=24% Similarity=0.196 Sum_probs=43.6
Q ss_pred cEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCc-cccc-CCCEEEEechhhh
Q 000539 779 GTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDP-CELA-KFDVVITTYSIVS 837 (1433)
Q Consensus 779 ~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~-~~L~-~~DVVITTY~~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 479999987 779999998877665568999999998665533 3333 3568888877764
No 257
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.18 E-value=1.4e+02 Score=38.17 Aligned_cols=57 Identities=12% Similarity=0.107 Sum_probs=31.8
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChhHHHhhhhccccCCc
Q 000539 906 GWFRVVLDEAQSIKNHRTQVARACWGL---RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPF 964 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~~srAl~~L---~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf 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 4678999999999542 223333444 34566777666544444445444333333333
No 258
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.57 E-value=1.3e+02 Score=39.57 Aligned_cols=39 Identities=23% Similarity=0.222 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 44445555554322 1234499999999999888766643
No 259
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.54 E-value=1.3e+02 Score=38.18 Aligned_cols=21 Identities=29% Similarity=0.320 Sum_probs=17.2
Q ss_pred cEEEcCCCCChHHHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI~~ 711 (1433)
-|+.-+.|.|||..|..++..
T Consensus 43 ~Lf~GP~GtGKTTlAriLAk~ 63 (484)
T PRK14956 43 YIFFGPRGVGKTTIARILAKR 63 (484)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 489999999999888777643
No 260
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.36 E-value=5.7 Score=47.63 Aligned_cols=45 Identities=31% Similarity=0.829 Sum_probs=32.0
Q ss_pred cccccCCCCCCCcc--------hhcccCcccchhhhhhhhccCC------CCCCCcccccc
Q 000539 1113 LAICGICNDPPEDA--------VVSICGHVFCNQCICERLTADD------NQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~--------vvt~CgHvfC~~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 EKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCP--FCRVP 219 (344)
T ss_pred cccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCC--cccCc
Confidence 46799998864332 3478999999999999984432 4577 36544
No 261
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=54.44 E-value=19 Score=47.90 Aligned_cols=106 Identities=18% Similarity=0.241 Sum_probs=65.9
Q ss_pred EEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCC-----CCcChHHHHHHhhhccCC-CC
Q 000539 1305 YRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLW-----WNPTTEDQAIDRAHRIGQ-TR 1378 (1433)
Q Consensus 1305 ~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~~Dp~-----WNPa~e~QAiGRahRIGQ-tr 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 3456667778899888888888 788888755 55899999985 555554433 234467799999999983 33
Q ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhCCCCc
Q 000539 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 2222 3444433344445554444444444444433
No 262
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.03 E-value=1.5e+02 Score=40.21 Aligned_cols=40 Identities=15% Similarity=0.160 Sum_probs=24.9
Q ss_pred CccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCC
Q 000539 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 355678887554443
No 263
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=53.89 E-value=23 Score=45.39 Aligned_cols=106 Identities=20% Similarity=0.258 Sum_probs=77.1
Q ss_pred HHHHHHHHHHHhc------CCcEEecCCCCCHHHHHHHHHHHhc-CCCccEEEeeccccccccCccccCEEEEEc----C
Q 000539 1289 KMLDLLEASLKDS------SIQYRRLDGTMSVFARDKAVKDFNT-LPEVSVMIMSLKAASLGLNMVAACHVLLLD----L 1357 (1433)
Q Consensus 1289 ~~LdlLe~~L~~~------gI~~~rldGsms~~qR~~aI~~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 3566677766543 6778888999987665554 773 467777788889999998888777776322 1
Q ss_pred CCCc-----------ChHHHHHHhhhccCCCCcEEEEEEEeCCCHHHHHHH
Q 000539 1358 WWNP-----------TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILA 1397 (1433)
Q Consensus 1358 ~WNP-----------a~e~QAiGRahRIGQtr~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 2444 455677778888888999999999999988777664
No 264
>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=52.90 E-value=3e+02 Score=38.15 Aligned_cols=44 Identities=23% Similarity=0.294 Sum_probs=29.3
Q ss_pred CCchHHHHHHHHHHHh-hccCCCCCCcEEEcCCCCChHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQK-ETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 666 ~L~phQk~av~wMl~r-E~~~~~~~GGILADEMGLGKTlqaIALI 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 3467999998876653 3333333337778889999999763333
No 265
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.79 E-value=7.3 Score=43.76 Aligned_cols=32 Identities=25% Similarity=0.429 Sum_probs=29.5
Q ss_pred ccccCCCCCCCcchhcccCcccchhhhhhhhc
Q 000539 1114 AICGICNDPPEDAVVSICGHVFCNQCICERLT 1145 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgHvfC~~Ci~e~l~ 1145 (1433)
.-|..|..|.-+||+++=||+||++||.+++.
T Consensus 44 dcCsLtLqPc~dPvit~~GylfdrEaILe~il 75 (303)
T KOG3039|consen 44 DCCSLTLQPCRDPVITPDGYLFDREAILEYIL 75 (303)
T ss_pred ceeeeecccccCCccCCCCeeeeHHHHHHHHH
Confidence 56999999999999999999999999999863
No 266
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=51.11 E-value=6.3 Score=46.14 Aligned_cols=48 Identities=23% Similarity=0.655 Sum_probs=38.2
Q ss_pred hcccccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1112 SLAICGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 s~~~C~iC~~~~e~~-vvt~CgHvfC~~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 346799998876665 6677899999999999998 66789988887543
No 267
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.64 E-value=7.2 Score=46.38 Aligned_cols=46 Identities=30% Similarity=0.645 Sum_probs=37.4
Q ss_pred cccccCCCCCCCcchhcccCc-ccchhhhhhhhccCCCCCCCcccccccc
Q 000539 1113 LAICGICNDPPEDAVVSICGH-VFCNQCICERLTADDNQCPTRNCKIRLS 1161 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~vvt~CgH-vfC~~Ci~e~l~~~~~~Cp~~~C~~~l~ 1161 (1433)
-..|.||...+.+.++.||.| -+|..|..... -..+.|| .|+..+.
T Consensus 290 gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CP--ICRqpi~ 336 (349)
T KOG4265|consen 290 GKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCP--ICRQPIE 336 (349)
T ss_pred CCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCC--ccccchH
Confidence 467999999999999999999 69999998766 4456788 4876653
No 268
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=49.39 E-value=14 Score=43.90 Aligned_cols=48 Identities=27% Similarity=0.579 Sum_probs=34.7
Q ss_pred hhhcccccCCCCCCC-------------cchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1110 EASLAICGICNDPPE-------------DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1110 e~s~~~C~iC~~~~e-------------~~vvt~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~l 1160 (1433)
-.+...|.||.|..- .|--.+|||++=..|+..|+.+.. .||. |+-.+
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPI--Cr~p~ 344 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPI--CRRPV 344 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCc--ccCcc
Confidence 445678999998632 234578999999999999986543 5773 66553
No 269
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=49.33 E-value=11 Score=49.81 Aligned_cols=42 Identities=19% Similarity=0.253 Sum_probs=23.9
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCc-EEEc-CCCCChHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGG-ILAD-DQGLGKTISTI 706 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GG-ILAD-EMGLGKTlqaI 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 456889988666555433321000122 3333 79999998754
No 270
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=49.23 E-value=5.9 Score=50.62 Aligned_cols=82 Identities=12% Similarity=0.183 Sum_probs=51.8
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCC-----HHHHHHHHHHHhcC--CCccEEEeec--cccccccCcc-
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMS-----VFARDKAVKDFNTL--PEVSVMIMSL--KAASLGLNMV- 1347 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms-----~~qR~~aI~~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 367899999999999999999987763 22222210 01145667777642 1112344342 3456999998
Q ss_pred -ccCEEEEEcCCCC
Q 000539 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 4677788888774
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=48.27 E-value=3.7e+02 Score=28.73 Aligned_cols=43 Identities=14% Similarity=0.041 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcC
Q 000539 671 QRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKER 713 (1433)
Q Consensus 671 Qk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~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 4444444443333222223347888889999999999986643
No 272
>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=48.06 E-value=1.2e+02 Score=39.98 Aligned_cols=40 Identities=20% Similarity=0.251 Sum_probs=27.0
Q ss_pred CcEEEEeChh-hHHHHHHHHHHHh-c-CCCCcEEEEEeCCCCC
Q 000539 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 6689998887553 1 1235777777776543
No 273
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=47.36 E-value=51 Score=44.43 Aligned_cols=112 Identities=19% Similarity=0.241 Sum_probs=81.2
Q ss_pred CCeEEEEcccHHHHHHHHHHHHh----cCCcEEecCCCCCHHHHHHHHHHHhcCCCc-cEEEeeccccccccCccccCEE
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKD----SSIQYRRLDGTMSVFARDKAVKDFNTLPEV-SVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~----~gI~~~rldGsms~~qR~~aI~~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 45789999888888888888877 3577899999999888877 57765544 4355588999999999887777
Q ss_pred EEE----cCCCCcC-----------hHHHHHHhhhccCCCCcEEEEEEEeCCCHH
Q 000539 1353 LLL----DLWWNPT-----------TEDQAIDRAHRIGQTRPVSVLRLTVKNTVE 1392 (1433)
Q Consensus 1353 I~~----Dp~WNPa-----------~e~QAiGRahRIGQtr~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 1224433 333555666666667888999999986655
No 274
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=46.59 E-value=2.2e+02 Score=37.50 Aligned_cols=51 Identities=14% Similarity=0.165 Sum_probs=31.7
Q ss_pred cCCCCcEEEEE--EEeCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000539 1374 IGQTRPVSVLR--LTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1374 IGQtr~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 56666666653 122346666666777777777777775554 3666666665
No 275
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=46.53 E-value=7.5 Score=46.70 Aligned_cols=58 Identities=33% Similarity=0.570 Sum_probs=41.7
Q ss_pred cccccCCCCCCCcc-----hhcccCcccchhhhhhhhcc-CCCCCCCccccccccccchhhhhhcc
Q 000539 1113 LAICGICNDPPEDA-----VVSICGHVFCNQCICERLTA-DDNQCPTRNCKIRLSLSSVFSKATLN 1172 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~~-----vvt~CgHvfC~~Ci~e~l~~-~~~~Cp~~~C~~~l~~~~~f~~~~l~ 1172 (1433)
...|++|.+.-+.+ +...|||.|-.+||+.|+.. ...+|| -|+..-....++....++
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp--~c~~katkr~i~~e~alR 67 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCP--LCSGKATKRQIRPEYALR 67 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCc--ccCChhHHHHHHHHHHHH
Confidence 35799999864433 45779999999999999952 223577 488877777776655443
No 276
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=46.20 E-value=37 Score=45.77 Aligned_cols=109 Identities=17% Similarity=0.197 Sum_probs=76.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc-------CCcEEecCCCCCHHHHHHHHHHHhcCC-CccEEEeeccccccccCccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS-------SIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVA 1348 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~-------gI~~~rldGsms~~qR~~aI~~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 2557889999998777666 76654 44556668899999988877
Q ss_pred cCEEE--------EEcCC---------C-CcChHHHHHHhhhccCCCCcEEEEEEEeCCCH
Q 000539 1349 ACHVL--------LLDLW---------W-NPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTV 1391 (1433)
Q Consensus 1349 An~VI--------~~Dp~---------W-NPa~e~QAiGRahRIGQtr~V~VyrLi~kdTI 1391 (1433)
.-+|| .|||. | .-+.-.||.||++| .++=..|+|+++.-.
T Consensus 489 VvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~~ 546 (924)
T KOG0920|consen 489 VVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSRY 546 (924)
T ss_pred eEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhhh
Confidence 66665 34443 2 23344577777776 556677888765433
No 277
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=45.91 E-value=30 Score=42.45 Aligned_cols=60 Identities=15% Similarity=0.162 Sum_probs=35.2
Q ss_pred EEEEeChh-hHHHHHHHHHHHhcC-CCCcEEEEEeCCCC-CC-CcccccCCCEEEEechhhhcc
Q 000539 780 TLVVCPTS-VLRQWAEELRNKVTS-KGSLSVLVYHGSSR-TK-DPCELAKFDVVITTYSIVSME 839 (1433)
Q Consensus 780 TLIVcP~S-LL~QW~~EI~k~~~~-~~~L~VlvyhG~~r-~k-~~~~L~~~DVVITTY~~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 11233333321111 11 122234789999999887543
No 278
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=45.67 E-value=10 Score=43.99 Aligned_cols=44 Identities=32% Similarity=0.698 Sum_probs=30.1
Q ss_pred hcccccCCCCCCCcc-hhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1112 SLAICGICNDPPEDA-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 s~~~C~iC~~~~e~~-vvt~CgHvfC~~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 356799998775543 467999999999985432 44566 365543
No 279
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.39 E-value=7.9 Score=44.07 Aligned_cols=53 Identities=32% Similarity=0.728 Sum_probs=39.1
Q ss_pred cccccCCCCCC-----Ccch-----hcccCcccchhhhhhhh-ccCCCCCCCccccccccccchhh
Q 000539 1113 LAICGICNDPP-----EDAV-----VSICGHVFCNQCICERL-TADDNQCPTRNCKIRLSLSSVFS 1167 (1433)
Q Consensus 1113 ~~~C~iC~~~~-----e~~v-----vt~CgHvfC~~Ci~e~l-~~~~~~Cp~~~C~~~l~~~~~f~ 1167 (1433)
...|.+|.... ++.+ -..|+|+|=.-||..|- -+....||. |+.++....+|+
T Consensus 224 d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPY--CKekVdl~rmfs 287 (328)
T KOG1734|consen 224 DSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPY--CKEKVDLKRMFS 287 (328)
T ss_pred cchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCch--HHHHhhHhhhcc
Confidence 35688887642 2222 26799999999999985 556678996 998888777774
No 280
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.67 E-value=1.8e+02 Score=36.84 Aligned_cols=41 Identities=22% Similarity=0.211 Sum_probs=25.8
Q ss_pred chHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 668 LRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 668 ~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 1123489999999999888776643
No 281
>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=44.60 E-value=1.8e+02 Score=32.23 Aligned_cols=21 Identities=24% Similarity=0.023 Sum_probs=16.9
Q ss_pred CCcEEEcCCCCChHHHHHHHH
Q 000539 689 SGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 689 ~GGILADEMGLGKTlqaIALI 709 (1433)
..-+|-=+.|.|||..+.++.
T Consensus 39 ~~lll~G~~G~GKT~la~~~~ 59 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAAC 59 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHH
Confidence 446788899999999887665
No 282
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=44.52 E-value=3.1e+02 Score=33.48 Aligned_cols=21 Identities=29% Similarity=0.351 Sum_probs=17.1
Q ss_pred cEEEcCCCCChHHHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI~~ 711 (1433)
-||.-+.|.|||..+.+++..
T Consensus 41 ~L~~Gp~G~GKTtla~~la~~ 61 (363)
T PRK14961 41 WLLSGTRGVGKTTIARLLAKS 61 (363)
T ss_pred EEEecCCCCCHHHHHHHHHHH
Confidence 379999999999888777643
No 283
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.29 E-value=11 Score=42.53 Aligned_cols=38 Identities=29% Similarity=0.524 Sum_probs=30.4
Q ss_pred ccccCCCCCCCc----chhcccCcccchhhhhhhhccCCCCCC
Q 000539 1114 AICGICNDPPED----AVVSICGHVFCNQCICERLTADDNQCP 1152 (1433)
Q Consensus 1114 ~~C~iC~~~~e~----~vvt~CgHvfC~~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 679999887654 57899999999999998886653 455
No 284
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=43.34 E-value=77 Score=33.34 Aligned_cols=85 Identities=19% Similarity=0.150 Sum_probs=57.7
Q ss_pred eEEEEcccHHHHHHHHHHHHhcCCcE--EecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcC
Q 000539 1280 KAIVFSQWTKMLDLLEASLKDSSIQY--RRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDL 1357 (1433)
Q Consensus 1280 KvIVFSq~t~~LdlLe~~L~~~gI~~--~rldGsms~~qR~~aI~~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 46689999999999999998886654 5556665555678899999999999999866 666
Q ss_pred CCCcChHHHHHHhhhccCCCCcEEEEEE
Q 000539 1358 WWNPTTEDQAIDRAHRIGQTRPVSVLRL 1385 (1433)
Q Consensus 1358 ~WNPa~e~QAiGRahRIGQtr~V~VyrL 1385 (1433)
.=||....++.-|+.|. |||.+++-
T Consensus 65 ~~d~~~f~~~~~~a~~~---KPVv~lk~ 89 (138)
T PF13607_consen 65 IGDGRRFLEAARRAARR---KPVVVLKA 89 (138)
T ss_dssp -S-HHHHHHHHHHHCCC---S-EEEEE-
T ss_pred CCCHHHHHHHHHHHhcC---CCEEEEeC
Confidence 66788888888888774 88888764
No 285
>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=42.80 E-value=52 Score=43.79 Aligned_cols=43 Identities=30% Similarity=0.353 Sum_probs=34.0
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 46999999888777655432 45788889999999999887765
No 286
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.67 E-value=13 Score=44.78 Aligned_cols=46 Identities=26% Similarity=0.632 Sum_probs=34.5
Q ss_pred hcccccCCCCCC--C-cchhcccCcccchhhhhhhhccCC--CCCCCcccccc
Q 000539 1112 SLAICGICNDPP--E-DAVVSICGHVFCNQCICERLTADD--NQCPTRNCKIR 1159 (1433)
Q Consensus 1112 s~~~C~iC~~~~--e-~~vvt~CgHvfC~~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 457799875532 2 367889999999999999887776 78885 6543
No 287
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=42.12 E-value=3.2e+02 Score=32.15 Aligned_cols=39 Identities=5% Similarity=0.063 Sum_probs=23.1
Q ss_pred cEEEEcCccccCChhh--HHHHHHHhcccCcEEEEEcccCC
Q 000539 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 12222333355668888886543
No 288
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=41.34 E-value=50 Score=38.87 Aligned_cols=22 Identities=18% Similarity=0.231 Sum_probs=17.2
Q ss_pred CcEEEcCCCCChHHHHHHHHHH
Q 000539 690 GGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 690 GGILADEMGLGKTlqaIALI~~ 711 (1433)
+-+|--+.|.|||..|-++...
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4678889999999988666543
No 289
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=40.97 E-value=3.4e+02 Score=36.16 Aligned_cols=52 Identities=12% Similarity=0.082 Sum_probs=31.8
Q ss_pred ccCCCCcEEEEEEE---eCCCHHHHHHHHHHHHHHHHHHHhCCCCcCcccccCCHHHHHHhhc
Q 000539 1373 RIGQTRPVSVLRLT---VKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1373 RIGQtr~V~VyrLi---~kdTIEErIl~lq~kK~~l~~~~lg~d~~~~~~~~lt~~DL~~LF~ 1432 (1433)
++|..=.|.|.-++ ...|--.+--++++.+++-+..++..|. .++.|...|+
T Consensus 640 ~~g~~~~~~~~~~~~~~~~eTpa~~~~~~~~~~~~~a~~~~~~D~--------~vq~l~~~f~ 694 (709)
T PRK08691 640 AYGLQLTLQTQDWRDEAGRETPAMQDKRVQAEDRQKAQALLEADP--------AAQKILQAFG 694 (709)
T ss_pred HhCCCeEEEEeeccccccccCHHHHHHHHHHHHHHHHHHHhhcCH--------HHHHHHHHhc
Confidence 44553334444333 2346666777777777887877776654 3667777775
No 290
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=40.63 E-value=1.2e+02 Score=40.05 Aligned_cols=72 Identities=19% Similarity=0.154 Sum_probs=51.2
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcCCCCCCCcchhhhhhhhcccccccccccccc
Q 000539 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 743 (1433)
...|.++|..++.-+...-.... +..+|---.|.|||+.+.+++...
T Consensus 10 ~~~~~~~Q~~ai~~l~~~~~~~~--~~~ll~Gl~gs~ka~lia~l~~~~------------------------------- 56 (652)
T PRK05298 10 PYKPAGDQPQAIEELVEGIEAGE--KHQTLLGVTGSGKTFTMANVIARL------------------------------- 56 (652)
T ss_pred CCCCChHHHHHHHHHHHhhhcCC--CcEEEEcCCCcHHHHHHHHHHHHh-------------------------------
Confidence 34678899999988776543211 124566677999999876654220
Q ss_pred ccccccccccccccCCCCCCccchhhhhhcCCCCCcEEEEeChh-hHHHHHHHHHHHhc
Q 000539 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTS-VLRQWAEELRNKVT 801 (1433)
Q Consensus 744 ~~~~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 67899999998886
No 291
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=40.40 E-value=1.2e+02 Score=42.13 Aligned_cols=59 Identities=17% Similarity=0.174 Sum_probs=35.5
Q ss_pred CcEEEEeChhhH-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhhh
Q 000539 778 AGTLVVCPTSVL-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIVS 837 (1433)
Q Consensus 778 ~~TLIVcP~SLL-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~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 346788898754 222223333333223455555544 45556677889999999987764
No 292
>PF04641 Rtf2: Rtf2 RING-finger
Probab=39.72 E-value=19 Score=41.81 Aligned_cols=50 Identities=20% Similarity=0.453 Sum_probs=36.0
Q ss_pred cccccCCCCCCCc---c-hhcccCcccchhhhhhhhccCCCCCCCccccccccccchh
Q 000539 1113 LAICGICNDPPED---A-VVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVF 1166 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~---~-vvt~CgHvfC~~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 477776654443
No 293
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.71 E-value=16 Score=44.95 Aligned_cols=52 Identities=38% Similarity=0.884 Sum_probs=37.9
Q ss_pred ccccCCC-CCCCc---chhcccCcccchhhhhhhhcc-----CCCCCCCccccccccccch
Q 000539 1114 AICGICN-DPPED---AVVSICGHVFCNQCICERLTA-----DDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1114 ~~C~iC~-~~~e~---~vvt~CgHvfC~~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 235779999999999988763 4558999999887765543
No 294
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=39.21 E-value=54 Score=41.60 Aligned_cols=44 Identities=20% Similarity=0.185 Sum_probs=34.3
Q ss_pred CchHHHHHHHHHHHhhc-----cCCCCCCcEEEcCCCCChHHHHHHHHH
Q 000539 667 LLRHQRIALSWMVQKET-----SSLHCSGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~-----~~~~~~GGILADEMGLGKTlqaIALI~ 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 233567899999999999999877764
No 295
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=39.09 E-value=1.2e+02 Score=27.45 Aligned_cols=59 Identities=12% Similarity=0.119 Sum_probs=41.0
Q ss_pred eEEEEc-ccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecc
Q 000539 1280 KAIVFS-QWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLK 1338 (1433)
Q Consensus 1280 KvIVFS-q~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 33456777888899999999988888777777776666655325556665533
No 296
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=38.60 E-value=26 Score=30.15 Aligned_cols=42 Identities=26% Similarity=0.800 Sum_probs=20.7
Q ss_pred ccCCCCCCC--cchhc--ccCcccchhhhhhhhccCCCCCCCcccccc
Q 000539 1116 CGICNDPPE--DAVVS--ICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1116 C~iC~~~~e--~~vvt--~CgHvfC~~Ci~e~l~~~~~~Cp~~~C~~~ 1159 (1433)
|++|.+... +.-+. .|+.-+|..|....+....+.|| +|+..
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CP--gCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCP--GCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-T--TT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCC--CCCCC
Confidence 566766542 12223 59999999999999988888999 47654
No 297
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=38.19 E-value=83 Score=42.32 Aligned_cols=56 Identities=18% Similarity=0.086 Sum_probs=31.8
Q ss_pred cEEEEeChhhHHHHHH-HHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhhh
Q 000539 779 GTLVVCPTSVLRQWAE-ELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIVS 837 (1433)
Q Consensus 779 ~TLIVcP~SLL~QW~~-EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~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 3678888765544433 444343 34567777777543 22233345568888876553
No 298
>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=38.11 E-value=1.9e+02 Score=38.88 Aligned_cols=39 Identities=18% Similarity=0.114 Sum_probs=29.4
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALI 709 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI 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 125788888999998776655
No 299
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=37.48 E-value=1.5e+02 Score=39.44 Aligned_cols=77 Identities=13% Similarity=0.153 Sum_probs=56.8
Q ss_pred CCCeEEEEcccHHHHHHHHHH----HHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEAS----LKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~----L~~~gI~~~rldGsms~~qR~~aI~~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 467899998887766655444 44558999999999999999999999887 6788888765555555555555444
Q ss_pred EE
Q 000539 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 300
>PRK05580 primosome assembly protein PriA; Validated
Probab=37.37 E-value=1.8e+02 Score=38.68 Aligned_cols=77 Identities=16% Similarity=0.094 Sum_probs=57.8
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc-CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~-gI~~~rldGsms~~qR~~aI~~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 4678999999999988888888764 8899999999999999888888776 5678888654332 2445555555554
Q ss_pred c
Q 000539 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 301
>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=35.76 E-value=1.1e+02 Score=29.26 Aligned_cols=59 Identities=8% Similarity=0.166 Sum_probs=39.3
Q ss_pred CCCeEEEEcc------cHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEee
Q 000539 1277 GGEKAIVFSQ------WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMS 1336 (1433)
Q Consensus 1277 ~~eKvIVFSq------~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 KENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLK-EYSNWPTFPQLYVN 70 (90)
T ss_pred ccCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHH-HHhCCCCCCEEEEC
Confidence 4689999987 55677888899999999998887554544444443 34333344444444
No 302
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.73 E-value=15 Score=43.76 Aligned_cols=43 Identities=40% Similarity=0.895 Sum_probs=32.1
Q ss_pred hcccccCCCCCCCcchhcccCcccchhhhhhhhccCCCCCCCccccccc
Q 000539 1112 SLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRL 1160 (1433)
Q Consensus 1112 s~~~C~iC~~~~e~~vvt~CgHvfC~~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 665544333 377 477654
No 303
>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=35.66 E-value=1.9e+02 Score=37.06 Aligned_cols=77 Identities=16% Similarity=0.087 Sum_probs=56.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc-CCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLL 1355 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~-gI~~~rldGsms~~qR~~aI~~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 4678999999999888888888764 7888999999999999888777665 5677777554332 2334455555554
Q ss_pred c
Q 000539 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 304
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=34.08 E-value=5.2e+02 Score=33.04 Aligned_cols=22 Identities=27% Similarity=0.389 Sum_probs=17.5
Q ss_pred CCcEEEcCCCCChHHHHHHHHH
Q 000539 689 SGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 689 ~GGILADEMGLGKTlqaIALI~ 710 (1433)
..-||.-..|.|||-.|..+..
T Consensus 36 ha~Lf~Gp~G~GKTT~ArilAk 57 (491)
T PRK14964 36 QSILLVGASGVGKTTCARIISL 57 (491)
T ss_pred ceEEEECCCCccHHHHHHHHHH
Confidence 4568899999999988766653
No 305
>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=33.73 E-value=1.3e+02 Score=29.58 Aligned_cols=58 Identities=7% Similarity=-0.016 Sum_probs=39.8
Q ss_pred CCCeEEEEcc------cHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEE
Q 000539 1277 GGEKAIVFSQ------WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMI 1334 (1433)
Q Consensus 1277 ~~eKvIVFSq------~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 445677888889999999988876555666666555544322244444
No 306
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=33.61 E-value=64 Score=38.08 Aligned_cols=16 Identities=19% Similarity=0.254 Sum_probs=13.0
Q ss_pred ccCCCEEEEechhhhc
Q 000539 823 LAKFDVVITTYSIVSM 838 (1433)
Q Consensus 823 L~~~DVVITTY~~L~~ 838 (1433)
+..+||||++|..+..
T Consensus 209 ~~~Adivi~ny~yll~ 224 (289)
T smart00489 209 IEFANVVVLPYQYLLD 224 (289)
T ss_pred hhcCCEEEECHHHHhc
Confidence 4578999999998853
No 307
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=33.61 E-value=64 Score=38.08 Aligned_cols=16 Identities=19% Similarity=0.254 Sum_probs=13.0
Q ss_pred ccCCCEEEEechhhhc
Q 000539 823 LAKFDVVITTYSIVSM 838 (1433)
Q Consensus 823 L~~~DVVITTY~~L~~ 838 (1433)
+..+||||++|..+..
T Consensus 209 ~~~Adivi~ny~yll~ 224 (289)
T smart00488 209 IEFANVVVLPYQYLLD 224 (289)
T ss_pred hhcCCEEEECHHHHhc
Confidence 4578999999998853
No 308
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.45 E-value=14 Score=42.75 Aligned_cols=28 Identities=46% Similarity=1.039 Sum_probs=24.4
Q ss_pred ccccCCCCCCCcchhcccCc-ccchhhhh
Q 000539 1114 AICGICNDPPEDAVVSICGH-VFCNQCIC 1141 (1433)
Q Consensus 1114 ~~C~iC~~~~e~~vvt~CgH-vfC~~Ci~ 1141 (1433)
..|.||.|.|.+=++..||| +-|.+|=.
T Consensus 301 ~LC~ICmDaP~DCvfLeCGHmVtCt~CGk 329 (350)
T KOG4275|consen 301 RLCAICMDAPRDCVFLECGHMVTCTKCGK 329 (350)
T ss_pred HHHHHHhcCCcceEEeecCcEEeehhhcc
Confidence 46999999999999999999 67888753
No 309
>PF13173 AAA_14: AAA domain
Probab=33.37 E-value=45 Score=33.96 Aligned_cols=39 Identities=13% Similarity=0.077 Sum_probs=25.2
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000539 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 1245799999985543
No 310
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=32.07 E-value=2.6e+02 Score=33.76 Aligned_cols=45 Identities=13% Similarity=0.079 Sum_probs=34.4
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcC
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKER 713 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r 713 (1433)
++||||.....-|+++.+- ..+-++.-..|+|||..|.+++....
T Consensus 3 ~~yPWl~~~~~~~~~~~r~---~ha~Lf~G~~G~GK~~~A~~~A~~ll 47 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRH---PHAYLLHGPAGIGKRALAERLAAALL 47 (328)
T ss_pred cCCCCcHHHHHHHHHCCCc---ceeeeeECCCCCCHHHHHHHHHHHHc
Confidence 4699999999988877332 23456788999999999988876543
No 311
>PF13245 AAA_19: Part of AAA domain
Probab=31.86 E-value=61 Score=30.38 Aligned_cols=20 Identities=30% Similarity=0.410 Sum_probs=16.0
Q ss_pred EEEcCCCCChHHHHHHHHHH
Q 000539 692 ILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 692 ILADEMGLGKTlqaIALI~~ 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 312
>CHL00181 cbbX CbbX; Provisional
Probab=30.74 E-value=98 Score=36.54 Aligned_cols=20 Identities=20% Similarity=0.247 Sum_probs=16.6
Q ss_pred cEEEcCCCCChHHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI~ 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 313
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.73 E-value=33 Score=43.00 Aligned_cols=51 Identities=27% Similarity=0.660 Sum_probs=39.6
Q ss_pred cccccCCCCCCCc-chhcccCcccchhhhhhhhccC----C---CCCCCcccccccccc
Q 000539 1113 LAICGICNDPPED-AVVSICGHVFCNQCICERLTAD----D---NQCPTRNCKIRLSLS 1163 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~-~vvt~CgHvfC~~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 314
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=30.22 E-value=44 Score=32.21 Aligned_cols=43 Identities=35% Similarity=0.779 Sum_probs=30.3
Q ss_pred ccCCCCCCCc-c-hhcccCcccchhhhhhhhccC--CCCCCCccccccc
Q 000539 1116 CGICNDPPED-A-VVSICGHVFCNQCICERLTAD--DNQCPTRNCKIRL 1160 (1433)
Q Consensus 1116 C~iC~~~~e~-~-vvt~CgHvfC~~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 4445444443 4 456799999999999999864 467884 76554
No 315
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.76 E-value=6.3e+02 Score=33.30 Aligned_cols=39 Identities=18% Similarity=0.217 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 670 HQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 670 hQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
|=+.-+..++...+ ....-||.-..|.|||..|..++..
T Consensus 23 ~v~~~L~~ai~~~r---i~ha~Lf~GPpG~GKTtiArilAk~ 61 (624)
T PRK14959 23 TVKAILSRAAQENR---VAPAYLFSGTRGVGKTTIARIFAKA 61 (624)
T ss_pred HHHHHHHHHHHcCC---CCceEEEECCCCCCHHHHHHHHHHh
Confidence 33444555554322 1233467999999999988777644
No 316
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=28.91 E-value=2.2e+02 Score=37.48 Aligned_cols=77 Identities=10% Similarity=0.145 Sum_probs=54.5
Q ss_pred CCCeEEEEcccHHHHHHHHHHH----HhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEE
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASL----KDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHV 1352 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L----~~~gI~~~rldGsms~~qR~~aI~~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 4568888888777666555544 4458999999999999999999988876 6777888665444444555444444
Q ss_pred EE
Q 000539 1353 LL 1354 (1433)
Q Consensus 1353 I~ 1354 (1433)
|+
T Consensus 362 VI 363 (630)
T TIGR00643 362 II 363 (630)
T ss_pred EE
Confidence 43
No 317
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.86 E-value=7e+02 Score=31.84 Aligned_cols=19 Identities=37% Similarity=0.405 Sum_probs=15.1
Q ss_pred EEEcCCCCChHHHHHHHHH
Q 000539 692 ILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 692 ILADEMGLGKTlqaIALI~ 710 (1433)
+|.-+.|.|||..+..+..
T Consensus 42 Lf~Gp~G~GKTtlAr~lAk 60 (486)
T PRK14953 42 IFAGPRGTGKTTIARILAK 60 (486)
T ss_pred EEECCCCCCHHHHHHHHHH
Confidence 6799999999887766553
No 318
>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=28.76 E-value=2.2e+02 Score=39.44 Aligned_cols=48 Identities=10% Similarity=0.033 Sum_probs=34.1
Q ss_pred CccEEEeeccccccccCccccCEEEEEcCCCCcChHHHHHHhhhccCCCCc
Q 000539 1329 EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRP 1379 (1433)
Q Consensus 1329 ~v~VLL~StkaGg~GLNLq~An~VI~~Dp~WNPa~e~QAiGRahRIGQtr~ 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 35577779999999999863 3333 3332 23467899999999998653
No 319
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.58 E-value=5.3e+02 Score=33.26 Aligned_cols=40 Identities=20% Similarity=0.228 Sum_probs=24.2
Q ss_pred hHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 669 RHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 669 phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 3444455545443221 123478999999999877666543
No 320
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=28.54 E-value=3.1e+02 Score=37.52 Aligned_cols=42 Identities=21% Similarity=0.406 Sum_probs=32.4
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHc
Q 000539 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKE 712 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~ 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 44567788887877765432 5889999999999999999763
No 321
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=28.07 E-value=8.2e+02 Score=32.17 Aligned_cols=24 Identities=21% Similarity=0.225 Sum_probs=18.8
Q ss_pred CCcEEEcCCCCChHHHHHHHHHHc
Q 000539 689 SGGILADDQGLGKTISTIALILKE 712 (1433)
Q Consensus 689 ~GGILADEMGLGKTlqaIALI~~~ 712 (1433)
.+-|+.-..|.|||..|.+++...
T Consensus 39 hA~Lf~GP~GvGKTTlA~~lAk~L 62 (605)
T PRK05896 39 HAYIFSGPRGIGKTSIAKIFAKAI 62 (605)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHh
Confidence 345789999999999988877543
No 322
>PLN03025 replication factor C subunit; Provisional
Probab=28.01 E-value=1.2e+02 Score=36.22 Aligned_cols=60 Identities=22% Similarity=0.277 Sum_probs=36.9
Q ss_pred CccEEEEcCccccCChhhH-HHHHHHhcccCcEEEEEcccCCCChhHHHhhhhccccCCcc
Q 000539 906 GWFRVVLDEAQSIKNHRTQ-VARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFA 965 (1433)
Q Consensus 906 ~W~rVILDEAH~IKN~~T~-~srAl~~L~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf~ 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 4789999999998532211 11122222455678898887766566676666555555554
No 323
>PHA00673 acetyltransferase domain containing protein
Probab=27.57 E-value=95 Score=33.37 Aligned_cols=44 Identities=14% Similarity=0.061 Sum_probs=36.0
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhc---ccCcEEEEEcccCCCChh
Q 000539 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 45699999999998888877766554 567899999999999765
No 324
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=27.52 E-value=1.9e+02 Score=37.59 Aligned_cols=103 Identities=20% Similarity=0.273 Sum_probs=64.7
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc---------CCcEEecCCCCCHHHHHHHHHHHhcCC-C-ccEEEeeccccccccC
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS---------SIQYRRLDGTMSVFARDKAVKDFNTLP-E-VSVMIMSLKAASLGLN 1345 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~---------gI~~~rldGsms~~qR~~aI~~Fn~d~-~-v~VLL~StkaGg~GLN 1345 (1433)
+..-||||---..-+...++.|.+. .+-++-|+...+.+...++ |..-| + -+|+| .|..+-..|.
T Consensus 472 p~GDILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakI---FePtP~gaRKVVL-ATNIAETSlT 547 (902)
T KOG0923|consen 472 PLGDILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKI---FEPTPPGARKVVL-ATNIAETSLT 547 (902)
T ss_pred CCccEEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhh---cCCCCCCceeEEE-eecchhhcee
Confidence 5567888876666666655555432 3457888999998777666 66544 3 44555 5577777766
Q ss_pred ccccCEEEEEcCC------CCcC--------------hHHHHHHhhhccCCCCcEEEEEEEeC
Q 000539 1346 MVAACHVLLLDLW------WNPT--------------TEDQAIDRAHRIGQTRPVSVLRLTVK 1388 (1433)
Q Consensus 1346 Lq~An~VI~~Dp~------WNPa--------------~e~QAiGRahRIGQtr~V~VyrLi~k 1388 (1433)
+....+| +||- +||. .-.||.||++|.|-- ..|||.+.
T Consensus 548 IdgI~yV--iDpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGRtgPG---KCfRLYt~ 605 (902)
T KOG0923|consen 548 IDGIKYV--IDPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGRTGPG---KCFRLYTA 605 (902)
T ss_pred ecCeEEE--ecCccccccCcCCCcCceeEEEeeechhhhhhhccccCCCCCC---ceEEeech
Confidence 6655444 5654 3443 345777777776654 45666663
No 325
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=27.48 E-value=2.1e+02 Score=35.99 Aligned_cols=37 Identities=8% Similarity=0.078 Sum_probs=22.4
Q ss_pred ccEEEEcCccccCChhh---HHHHHHHhc-ccCcEEEEEcc
Q 000539 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 222333333 34456888853
No 326
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=27.33 E-value=2.6e+02 Score=36.68 Aligned_cols=14 Identities=29% Similarity=0.349 Sum_probs=11.6
Q ss_pred ccEEEEcCccccCC
Q 000539 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 327
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=26.83 E-value=1.1e+02 Score=41.74 Aligned_cols=58 Identities=14% Similarity=0.256 Sum_probs=40.1
Q ss_pred CCcEEEEeChh-hHHHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhh
Q 000539 777 AAGTLVVCPTS-VLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIV 836 (1433)
Q Consensus 777 ~~~TLIVcP~S-LL~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~L 836 (1433)
.+.+.+|.|.. |+.--.+.+.+....+ .++++-..|..+.. .......+++|||.+..
T Consensus 973 ~~kvvyIap~kalvker~~Dw~~r~~~~-g~k~ie~tgd~~pd-~~~v~~~~~~ittpek~ 1031 (1230)
T KOG0952|consen 973 GSKVVYIAPDKALVKERSDDWSKRDELP-GIKVIELTGDVTPD-VKAVREADIVITTPEKW 1031 (1230)
T ss_pred CccEEEEcCCchhhcccccchhhhcccC-CceeEeccCccCCC-hhheecCceEEcccccc
Confidence 35689999974 5554444444443333 68888888876544 77888999999998765
No 328
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=26.13 E-value=29 Score=41.88 Aligned_cols=32 Identities=22% Similarity=0.644 Sum_probs=28.9
Q ss_pred cccCCCCCCCcchhcccCcccchhhhhhhhcc
Q 000539 1115 ICGICNDPPEDAVVSICGHVFCNQCICERLTA 1146 (1433)
Q Consensus 1115 ~C~iC~~~~e~~vvt~CgHvfC~~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 49999999999999999999999999877654
No 329
>PRK11054 helD DNA helicase IV; Provisional
Probab=25.03 E-value=96 Score=41.15 Aligned_cols=38 Identities=32% Similarity=0.099 Sum_probs=27.4
Q ss_pred cCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 665 VPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 665 v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
.+|-+-|++||..-. . .-.|+|- .|.|||.++++-+++
T Consensus 195 ~~L~~~Q~~av~~~~----~----~~lV~ag-aGSGKT~vl~~r~ay 232 (684)
T PRK11054 195 SPLNPSQARAVVNGE----D----SLLVLAG-AGSGKTSVLVARAGW 232 (684)
T ss_pred CCCCHHHHHHHhCCC----C----CeEEEEe-CCCCHHHHHHHHHHH
Confidence 469999999997432 1 1134554 799999999888765
No 330
>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=24.58 E-value=1.8e+02 Score=27.38 Aligned_cols=51 Identities=16% Similarity=0.273 Sum_probs=29.4
Q ss_pred EEEEeChhh-H-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEech
Q 000539 780 TLVVCPTSV-L-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYS 834 (1433)
Q Consensus 780 TLIVcP~SL-L-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~ 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 334457777776333 222222211111 12568999999975
No 331
>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=24.55 E-value=87 Score=29.64 Aligned_cols=55 Identities=20% Similarity=0.240 Sum_probs=33.4
Q ss_pred EEEEeChhhH-HHHH-HHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechhh
Q 000539 780 TLVVCPTSVL-RQWA-EELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSIV 836 (1433)
Q Consensus 780 TLIVcP~SLL-~QW~-~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~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 6999998643 2333 4455555433 3777777776 333333456799999997654
No 332
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=24.40 E-value=10 Score=50.96 Aligned_cols=80 Identities=20% Similarity=0.167 Sum_probs=57.7
Q ss_pred EEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEEEcCCCC
Q 000539 1281 AIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWN 1360 (1433)
Q Consensus 1281 vIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~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 7899999999999888651 11222222233333333331 34577889999999999999999999
Q ss_pred cChHHHHHHhhhccCCC
Q 000539 1361 PTTEDQAIDRAHRIGQT 1377 (1433)
Q Consensus 1361 Pa~e~QAiGRahRIGQt 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 333
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=24.15 E-value=57 Score=40.60 Aligned_cols=54 Identities=22% Similarity=0.224 Sum_probs=37.1
Q ss_pred cccCccEEEEcCccccCChhhHHHHHHHhc-------cc-CcEEEEEcccCCCChhHHHhhhhccc
Q 000539 903 AKVGWFRVVLDEAQSIKNHRTQVARACWGL-------RA-KRRWCLSGTPIQNAIDDLYSYFRFLR 960 (1433)
Q Consensus 903 ~~i~W~rVILDEAH~IKN~~T~~srAl~~L-------~a-~~RwlLTGTPiqN~l~DLyslL~FL~ 960 (1433)
.--.|..+|+|||| .+|..+..+..| +. -+.+.+|+|-.-.++...|+-.-++.
T Consensus 156 ~l~~y~viiLDeah----ERtlATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~ 217 (699)
T KOG0925|consen 156 LLGRYGVIILDEAH----ERTLATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLLA 217 (699)
T ss_pred ccccccEEEechhh----hhhHHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCeee
Confidence 34579999999999 456666655544 22 35678999987777777776555553
No 334
>PHA03096 p28-like protein; Provisional
Probab=23.95 E-value=38 Score=39.90 Aligned_cols=34 Identities=32% Similarity=0.517 Sum_probs=27.1
Q ss_pred ccccCCCCCCC--------cchhcccCcccchhhhhhhhccC
Q 000539 1114 AICGICNDPPE--------DAVVSICGHVFCNQCICERLTAD 1147 (1433)
Q Consensus 1114 ~~C~iC~~~~e--------~~vvt~CgHvfC~~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 78999998632 13568899999999999987654
No 335
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=23.76 E-value=61 Score=39.29 Aligned_cols=38 Identities=24% Similarity=0.331 Sum_probs=27.4
Q ss_pred cEEEEcCccccCChhhHHHHHHHhcccCcEEEEEcccCCC
Q 000539 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 46999999999543 222344555677899999999773
No 336
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=23.56 E-value=1.7e+02 Score=38.42 Aligned_cols=45 Identities=18% Similarity=0.164 Sum_probs=34.1
Q ss_pred ccCCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 664 ~v~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 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 234788888999999999887765
No 337
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.49 E-value=46 Score=39.22 Aligned_cols=45 Identities=31% Similarity=0.710 Sum_probs=35.4
Q ss_pred cccccCCCCCCC------cchhcccCcccchhhhhhhhccCCCCCCCcccccc
Q 000539 1113 LAICGICNDPPE------DAVVSICGHVFCNQCICERLTADDNQCPTRNCKIR 1159 (1433)
Q Consensus 1113 ~~~C~iC~~~~e------~~vvt~CgHvfC~~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 356999987532 3666779999999999999998888885 46655
No 338
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=23.01 E-value=2.1e+02 Score=39.44 Aligned_cols=78 Identities=22% Similarity=0.267 Sum_probs=61.4
Q ss_pred ecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE----Ec----CCCCcChHHHHHHhhhccCCCC
Q 000539 1307 RLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL----LD----LWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1307 rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~----~D----p~WNPa~e~QAiGRahRIGQtr 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 45778888899999999998 8888888 5599999999986555543 22 3457889999999999999998
Q ss_pred cEEEEEEE
Q 000539 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 339
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=22.95 E-value=1.5e+02 Score=36.14 Aligned_cols=43 Identities=28% Similarity=0.243 Sum_probs=29.7
Q ss_pred ccccCccEEEEcCcccc--CChhhHHHHHHHhcc-cCcEEEEEccc
Q 000539 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 33444567999999976 455667777666673 44678889984
No 340
>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=22.62 E-value=1.3e+02 Score=28.46 Aligned_cols=55 Identities=20% Similarity=0.266 Sum_probs=32.2
Q ss_pred cEEEEeChhh-H-HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechh
Q 000539 779 GTLVVCPTSV-L-RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSI 835 (1433)
Q Consensus 779 ~TLIVcP~SL-L-~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~ 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 3467778887763 23333332222111111 34689999999764
No 341
>KOG3629 consensus Guanine-nucleotide releasing factor [Signal transduction mechanisms]
Probab=22.37 E-value=4.3e+02 Score=33.61 Aligned_cols=76 Identities=22% Similarity=0.131 Sum_probs=41.3
Q ss_pred HHHhhhccccCCCCCCCCCCCcccc-----------CCCccccccccCCCCcccccCCCcccccccccccCCCccccCC-
Q 000539 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 000539 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
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=22.10 E-value=3.4e+02 Score=37.69 Aligned_cols=42 Identities=26% Similarity=0.192 Sum_probs=29.6
Q ss_pred ccEEEEcCccccCChhhHHHHHHHhc-ccCcEEEEEcccCCCChh
Q 000539 907 WFRVVLDEAQSIKNHRTQVARACWGL-RAKRRWCLSGTPIQNAID 950 (1433)
Q Consensus 907 W~rVILDEAH~IKN~~T~~srAl~~L-~a~~RwlLTGTPiqN~l~ 950 (1433)
-++||||||-++... ...+.+... ....+++|.|=|-|-..-
T Consensus 434 ~~vlIVDEASMv~~~--~m~~LL~~a~~~garvVLVGD~~QLpsV 476 (988)
T PRK13889 434 RDVLVIDEAGMVGTR--QLERVLSHAADAGAKVVLVGDPQQLQAI 476 (988)
T ss_pred CcEEEEECcccCCHH--HHHHHHHhhhhCCCEEEEECCHHHcCCC
Confidence 367999999999643 334444433 677899999988775543
No 343
>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=22.07 E-value=1.8e+02 Score=26.40 Aligned_cols=53 Identities=28% Similarity=0.381 Sum_probs=31.6
Q ss_pred EEEEeChhhH--HHHHHHHHHHhcCCCCcEEEEEeCCCCCCCcccccCCCEEEEechh
Q 000539 780 TLVVCPTSVL--RQWAEELRNKVTSKGSLSVLVYHGSSRTKDPCELAKFDVVITTYSI 835 (1433)
Q Consensus 780 TLIVcP~SLL--~QW~~EI~k~~~~~~~L~VlvyhG~~r~k~~~~L~~~DVVITTY~~ 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 6899998843 3345677777764333223222222211 456789999999753
No 344
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=21.96 E-value=1.1e+03 Score=30.86 Aligned_cols=21 Identities=19% Similarity=0.257 Sum_probs=16.6
Q ss_pred cEEEcCCCCChHHHHHHHHHH
Q 000539 691 GILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 691 GILADEMGLGKTlqaIALI~~ 711 (1433)
-|+.-.-|.|||..+-.+...
T Consensus 41 yLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 41 YLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 466999999999988766543
No 345
>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=34.96 Aligned_cols=21 Identities=29% Similarity=0.115 Sum_probs=16.7
Q ss_pred CcEEEcCCCCChHHHHHHHHH
Q 000539 690 GGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 690 GGILADEMGLGKTlqaIALI~ 710 (1433)
.-+|--..|+|||..+-|+..
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~ 158 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGN 158 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHH
Confidence 357889999999988866653
No 346
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=21.60 E-value=1.5e+02 Score=36.82 Aligned_cols=78 Identities=15% Similarity=0.217 Sum_probs=52.9
Q ss_pred cCCCeEEEEcc-cHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccccccccCccccCEEEE
Q 000539 1276 LGGEKAIVFSQ-WTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLL 1354 (1433)
Q Consensus 1276 ~~~eKvIVFSq-~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GLNLq~An~VI~ 1354 (1433)
.+|.++|+... |-.+..+++..|++.||.+..++.....+..++ ... ++. .+|+
T Consensus 100 ~~GD~vl~~~~~YG~t~~~~~~~l~~~gi~~~~~d~~~~~~~~~~----~~~-~~t--------------------k~v~ 154 (396)
T COG0626 100 KAGDHVLLPDDLYGGTYRLFEKILQKFGVEVTFVDPGDDEALEAA----IKE-PNT--------------------KLVF 154 (396)
T ss_pred CCCCEEEecCCccchHHHHHHHHHHhcCeEEEEECCCChHHHHHH----hcc-cCc--------------------eEEE
Confidence 35777777766 778888999999999999888887754333322 222 233 3556
Q ss_pred EcCCCCcChHHHHHHhhhccCCCC
Q 000539 1355 LDLWWNPTTEDQAIDRAHRIGQTR 1378 (1433)
Q Consensus 1355 ~Dp~WNPa~e~QAiGRahRIGQtr 1378 (1433)
+|.+-||..+.+=|.++-|+-...
T Consensus 155 lEtPsNP~l~v~DI~~i~~~A~~~ 178 (396)
T COG0626 155 LETPSNPLLEVPDIPAIARLAKAY 178 (396)
T ss_pred EeCCCCcccccccHHHHHHHHHhc
Confidence 888888887777666666654443
No 347
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=21.31 E-value=1.6e+02 Score=34.15 Aligned_cols=36 Identities=28% Similarity=0.265 Sum_probs=23.0
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 667 LLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
|-+-|+.++.+ .. ++. -|.|= .|.|||.+++.-++.
T Consensus 1 l~~eQ~~~i~~-~~---~~~----lV~a~-AGSGKT~~l~~ri~~ 36 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE---GPL----LVNAG-AGSGKTTTLLERIAY 36 (315)
T ss_dssp S-HHHHHHHHS--S---SEE----EEEE--TTSSHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC---CCE----EEEeC-CCCCchHHHHHHHHH
Confidence 45679999888 31 111 24444 799999999887754
No 348
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=21.15 E-value=5e+02 Score=31.39 Aligned_cols=48 Identities=13% Similarity=-0.015 Sum_probs=33.7
Q ss_pred CCchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcC
Q 000539 666 PLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKER 713 (1433)
Q Consensus 666 ~L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r 713 (1433)
.+||||...-..+.+.-.....+.+=+++-..|+||+..|.+++....
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~Ll 49 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLM 49 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHc
Confidence 368888877776665543322223456889999999999999886643
No 349
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.94 E-value=52 Score=39.62 Aligned_cols=46 Identities=35% Similarity=0.913 Sum_probs=32.1
Q ss_pred cccccCCCCCCCc--c--hhcccCcccchhhhhhhhccCCC--CCCCccccccc
Q 000539 1113 LAICGICNDPPED--A--VVSICGHVFCNQCICERLTADDN--QCPTRNCKIRL 1160 (1433)
Q Consensus 1113 ~~~C~iC~~~~e~--~--vvt~CgHvfC~~Ci~e~l~~~~~--~Cp~~~C~~~l 1160 (1433)
.++|.||.+.-.. . -+..|||+|=..|+-.|...+.. .||. |+-++
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpi--c~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPI--CQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCc--eeecc
Confidence 3689999764322 2 24569999999999999877654 5773 66333
No 350
>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=20.78 E-value=7e+02 Score=31.47 Aligned_cols=76 Identities=13% Similarity=0.155 Sum_probs=58.3
Q ss_pred CCeEEEEcccHHHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeecccccccc-------CccccC
Q 000539 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGL-------NMVAAC 1350 (1433)
Q Consensus 1278 ~eKvIVFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~StkaGg~GL-------NLq~An 1350 (1433)
+...||.+.....+.-....|...|++...+.|..+..++..++..... +.+++++++........ .+....
T Consensus 51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~-~~~~il~~TPe~l~~~~~~~~~l~~~~~i~ 129 (470)
T TIGR00614 51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKD-GKIKLLYVTPEKCSASNRLLQTLEERKGIT 129 (470)
T ss_pred CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhc-CCCCEEEECHHHHcCchhHHHHHHhcCCcC
Confidence 4578999998888777777888899999999999999988888888855 77889998876543322 334455
Q ss_pred EEEE
Q 000539 1351 HVLL 1354 (1433)
Q Consensus 1351 ~VI~ 1354 (1433)
.||+
T Consensus 130 ~iVi 133 (470)
T TIGR00614 130 LIAV 133 (470)
T ss_pred EEEE
Confidence 5555
No 351
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=20.74 E-value=7.3e+02 Score=30.01 Aligned_cols=47 Identities=19% Similarity=0.085 Sum_probs=30.7
Q ss_pred CchHHHHHHHHHHHhhccCCCCCCcEEEcCCCCChHHHHHHHHHHcC
Q 000539 667 LLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKER 713 (1433)
Q Consensus 667 L~phQk~av~wMl~rE~~~~~~~GGILADEMGLGKTlqaIALI~~~r 713 (1433)
+||||...-.-+.+.-.......+-++.-..|+||+..|.+++....
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~ll 49 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLM 49 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHc
Confidence 57877666555554433222223445788999999999988886543
No 352
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=20.68 E-value=2.6e+02 Score=35.12 Aligned_cols=22 Identities=27% Similarity=0.123 Sum_probs=17.1
Q ss_pred CCcEEEcCCCCChHHHHHHHHH
Q 000539 689 SGGILADDQGLGKTISTIALIL 710 (1433)
Q Consensus 689 ~GGILADEMGLGKTlqaIALI~ 710 (1433)
..-+|.-..|+|||..+-|+..
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~ 170 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGN 170 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 3467889999999988766653
No 353
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=20.45 E-value=6e+02 Score=32.21 Aligned_cols=43 Identities=16% Similarity=0.084 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHh--hccCCCCCCcEEEcCCCCChHHHHHHHHHH
Q 000539 669 RHQRIALSWMVQK--ETSSLHCSGGILADDQGLGKTISTIALILK 711 (1433)
Q Consensus 669 phQk~av~wMl~r--E~~~~~~~GGILADEMGLGKTlqaIALI~~ 711 (1433)
|+|+..+..+... ......-+-++|-=-=|=|||..+-+++++
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly 45 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALY 45 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHH
Confidence 6888877766632 121111123455555689999887666554
No 354
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=20.42 E-value=51 Score=40.61 Aligned_cols=32 Identities=28% Similarity=0.485 Sum_probs=27.9
Q ss_pred ccCcEEEEEcccCCCChhHHHhhhhccccCCc
Q 000539 933 RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPF 964 (1433)
Q Consensus 933 ~a~~RwlLTGTPiqN~l~DLyslL~FL~p~pf 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 34677899999999999999999999987654
No 355
>PRK14873 primosome assembly protein PriA; Provisional
Probab=20.37 E-value=3.7e+02 Score=35.68 Aligned_cols=61 Identities=18% Similarity=0.164 Sum_probs=50.1
Q ss_pred CCCeEEEEcccHHHHHHHHHHHHhc-C-CcEEecCCCCCHHHHHHHHHHHhcCCCccEEEeeccc
Q 000539 1277 GGEKAIVFSQWTKMLDLLEASLKDS-S-IQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKA 1339 (1433)
Q Consensus 1277 ~~eKvIVFSq~t~~LdlLe~~L~~~-g-I~~~rldGsms~~qR~~aI~~Fn~d~~v~VLL~Stka 1339 (1433)
.|+.+||-..-......+...|+.. | ..++.+++.++..+|.+.-.+... ++.+|+|.+ ++
T Consensus 187 ~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~-G~~~IViGt-RS 249 (665)
T PRK14873 187 AGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLR-GQARVVVGT-RS 249 (665)
T ss_pred cCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhC-CCCcEEEEc-ce
Confidence 5778999988888888888888764 4 679999999999999999888876 778888855 44
Done!