Query 000740
Match_columns 1321
No_of_seqs 682 out of 2794
Neff 6.6
Searched_HMMs 46136
Date Mon Apr 1 22:53:31 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000740.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000740hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1015 Transcription regulato 100.0 2E-182 3E-187 1599.4 54.7 1173 3-1318 216-1512(1567)
2 KOG1016 Predicted DNA helicase 100.0 2E-107 4E-112 946.5 37.8 667 539-1231 228-960 (1387)
3 KOG0387 Transcription-coupled 100.0 1E-102 2E-107 923.5 41.8 498 553-1146 193-703 (923)
4 KOG0385 Chromatin remodeling c 100.0 4.5E-93 9.7E-98 836.9 47.3 483 558-1146 159-648 (971)
5 KOG0392 SNF2 family DNA-depend 100.0 7.9E-86 1.7E-90 801.6 42.8 519 543-1144 953-1499(1549)
6 KOG0384 Chromodomain-helicase 100.0 1.1E-85 2.4E-90 805.8 32.1 481 564-1146 369-862 (1373)
7 KOG0389 SNF2 family DNA-depend 100.0 1.1E-83 2.5E-88 760.7 42.0 507 558-1126 390-913 (941)
8 KOG0391 SNF2 family DNA-depend 100.0 5.2E-83 1.1E-87 765.4 41.0 542 553-1145 603-1432(1958)
9 PLN03142 Probable chromatin-re 100.0 2.5E-82 5.4E-87 807.2 49.3 481 557-1145 161-645 (1033)
10 KOG0390 DNA repair protein, SN 100.0 2.1E-81 4.5E-86 765.8 44.1 515 554-1146 227-753 (776)
11 KOG0388 SNF2 family DNA-depend 100.0 2.6E-80 5.6E-85 717.5 38.3 513 553-1126 555-1179(1185)
12 KOG0386 Chromatin remodeling c 100.0 8.1E-79 1.8E-83 733.7 29.0 500 547-1140 375-877 (1157)
13 KOG4439 RNA polymerase II tran 100.0 5.3E-72 1.2E-76 653.6 34.6 533 554-1142 314-901 (901)
14 KOG1002 Nucleotide excision re 100.0 1.3E-71 2.9E-76 627.1 33.2 544 554-1141 173-790 (791)
15 COG0553 HepA Superfamily II DN 100.0 1.5E-62 3.3E-67 641.1 36.5 504 560-1142 333-865 (866)
16 KOG1000 Chromatin remodeling p 100.0 1.9E-54 4.2E-59 490.2 34.5 428 558-1124 191-626 (689)
17 PRK04914 ATP-dependent helicas 100.0 5.9E-53 1.3E-57 537.3 31.3 453 562-1140 149-644 (956)
18 KOG1001 Helicase-like transcri 100.0 2.1E-51 4.4E-56 506.8 22.8 499 570-1124 135-673 (674)
19 KOG0383 Predicted helicase [Ge 100.0 3.6E-51 7.8E-56 497.1 12.6 383 564-1055 294-696 (696)
20 PF00176 SNF2_N: SNF2 family N 100.0 1.8E-39 3.9E-44 371.9 22.6 296 569-890 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 4.1E-36 8.9E-41 372.1 35.0 353 563-1109 253-615 (732)
22 PRK13766 Hef nuclease; Provisi 100.0 7.1E-31 1.5E-35 339.5 33.3 464 565-1121 15-499 (773)
23 KOG0298 DEAD box-containing he 100.0 3.4E-32 7.5E-37 337.4 15.0 279 594-892 374-693 (1394)
24 COG1111 MPH1 ERCC4-like helica 99.9 7.5E-25 1.6E-29 254.0 33.6 475 565-1123 15-503 (542)
25 COG1061 SSL2 DNA or RNA helica 99.9 2.1E-24 4.6E-29 261.1 31.7 369 560-1113 31-406 (442)
26 PHA02558 uvsW UvsW helicase; P 99.9 3.7E-24 8.1E-29 263.4 31.4 337 564-1101 113-455 (501)
27 KOG1123 RNA polymerase II tran 99.9 2.4E-22 5.3E-27 229.6 19.4 361 553-1106 290-658 (776)
28 KOG0354 DEAD-box like helicase 99.9 1.3E-20 2.8E-25 230.4 34.1 473 563-1126 60-553 (746)
29 PTZ00110 helicase; Provisional 99.9 6.9E-20 1.5E-24 227.5 29.6 125 959-1101 360-484 (545)
30 TIGR00614 recQ_fam ATP-depende 99.8 3.4E-19 7.3E-24 218.3 32.1 105 975-1095 225-329 (470)
31 PLN00206 DEAD-box ATP-dependen 99.8 1.4E-19 3E-24 223.9 27.1 124 961-1101 352-475 (518)
32 PRK11776 ATP-dependent RNA hel 99.8 4.2E-19 9.1E-24 217.1 30.0 122 960-1101 228-349 (460)
33 PRK11192 ATP-dependent RNA hel 99.8 7.8E-19 1.7E-23 213.2 31.5 118 960-1095 231-348 (434)
34 PRK10590 ATP-dependent RNA hel 99.8 3.9E-19 8.4E-24 217.0 28.5 103 976-1094 245-347 (456)
35 PRK04837 ATP-dependent RNA hel 99.8 3.9E-19 8.5E-24 215.1 28.2 121 960-1100 241-361 (423)
36 PRK01297 ATP-dependent RNA hel 99.8 4.2E-19 9.1E-24 217.9 28.7 122 959-1100 320-441 (475)
37 PRK04537 ATP-dependent RNA hel 99.8 1.3E-18 2.8E-23 217.0 29.7 121 960-1100 243-363 (572)
38 PTZ00424 helicase 45; Provisio 99.8 1.9E-18 4.1E-23 207.5 27.6 108 976-1101 267-374 (401)
39 PRK11448 hsdR type I restricti 99.8 1.1E-18 2.4E-23 228.9 26.7 115 976-1098 698-815 (1123)
40 TIGR01389 recQ ATP-dependent D 99.8 6.1E-18 1.3E-22 212.9 32.4 116 961-1094 211-326 (591)
41 PRK11057 ATP-dependent DNA hel 99.8 7.3E-18 1.6E-22 212.2 32.5 104 975-1094 235-338 (607)
42 TIGR00643 recG ATP-dependent D 99.8 7.5E-18 1.6E-22 212.9 32.1 311 564-1094 234-561 (630)
43 PRK11634 ATP-dependent RNA hel 99.8 1.4E-17 3E-22 209.2 30.1 117 960-1094 231-347 (629)
44 PRK10917 ATP-dependent DNA hel 99.8 1.8E-17 4E-22 210.8 30.6 311 563-1094 259-584 (681)
45 TIGR00580 mfd transcription-re 99.8 2E-17 4.3E-22 213.7 29.9 311 565-1100 451-769 (926)
46 TIGR03817 DECH_helic helicase/ 99.8 5.7E-17 1.2E-21 207.4 32.2 349 564-1109 35-394 (742)
47 PLN03137 ATP-dependent DNA hel 99.8 1.9E-16 4.1E-21 202.0 31.5 105 976-1096 680-784 (1195)
48 PRK10689 transcription-repair 99.8 1.9E-16 4.2E-21 208.6 31.3 310 564-1098 599-916 (1147)
49 PRK13767 ATP-dependent helicas 99.8 2.8E-16 6.1E-21 204.7 31.5 120 967-1096 275-395 (876)
50 KOG0331 ATP-dependent RNA heli 99.7 3.7E-16 7.9E-21 186.8 26.2 119 959-1093 323-442 (519)
51 KOG0330 ATP-dependent RNA heli 99.7 1E-15 2.2E-20 172.7 23.7 130 960-1111 286-415 (476)
52 PRK02362 ski2-like helicase; P 99.7 2.4E-15 5.1E-20 193.9 29.8 153 564-753 22-181 (737)
53 TIGR00348 hsdR type I site-spe 99.7 8.1E-15 1.8E-19 186.0 31.4 168 562-756 235-405 (667)
54 COG0513 SrmB Superfamily II DN 99.7 1.6E-14 3.4E-19 178.4 32.2 134 960-1114 259-392 (513)
55 PRK01172 ski2-like helicase; P 99.7 8.2E-15 1.8E-19 187.4 27.7 125 968-1097 228-374 (674)
56 TIGR01587 cas3_core CRISPR-ass 99.7 2.2E-14 4.8E-19 169.9 29.3 132 961-1110 208-350 (358)
57 PRK00254 ski2-like helicase; P 99.7 1.8E-14 3.9E-19 185.3 28.8 153 564-753 22-179 (720)
58 COG4096 HsdR Type I site-speci 99.7 2.1E-15 4.6E-20 184.4 18.7 378 553-1098 153-545 (875)
59 TIGR03714 secA2 accessory Sec 99.6 7.1E-14 1.5E-18 175.0 28.9 117 958-1093 406-531 (762)
60 TIGR02621 cas3_GSU0051 CRISPR- 99.6 8.1E-14 1.8E-18 176.1 28.2 118 974-1109 270-402 (844)
61 COG1200 RecG RecG-like helicas 99.6 2.3E-13 5E-18 165.3 27.8 321 562-1094 259-586 (677)
62 cd00079 HELICc Helicase superf 99.6 5.9E-15 1.3E-19 147.9 11.8 120 960-1095 12-131 (131)
63 KOG0350 DEAD-box ATP-dependent 99.6 2.2E-13 4.8E-18 157.8 23.0 133 961-1111 416-548 (620)
64 PRK09200 preprotein translocas 99.6 5.9E-13 1.3E-17 168.3 28.9 117 958-1092 410-534 (790)
65 PF04851 ResIII: Type III rest 99.5 2.6E-14 5.5E-19 151.7 11.8 168 564-754 2-183 (184)
66 KOG0328 Predicted ATP-dependen 99.5 1.9E-13 4E-18 148.6 17.7 123 961-1103 253-375 (400)
67 PRK12898 secA preprotein trans 99.5 3.8E-12 8.3E-17 158.0 31.6 130 958-1110 455-592 (656)
68 KOG0345 ATP-dependent RNA heli 99.5 8.8E-13 1.9E-17 152.2 22.6 124 956-1095 237-360 (567)
69 PHA02653 RNA helicase NPH-II; 99.5 4.3E-12 9.4E-17 159.6 29.9 112 975-1104 394-517 (675)
70 TIGR00963 secA preprotein tran 99.5 2.7E-13 5.9E-18 168.9 17.9 118 959-1094 388-512 (745)
71 COG1201 Lhr Lhr-like helicases 99.5 2.6E-12 5.6E-17 161.9 26.5 320 563-1089 20-352 (814)
72 COG1205 Distinct helicase fami 99.5 2.1E-12 4.4E-17 166.6 26.4 344 566-1108 71-429 (851)
73 TIGR03158 cas3_cyano CRISPR-as 99.5 4.7E-12 1E-16 150.1 25.2 87 975-1084 271-357 (357)
74 PRK09751 putative ATP-dependen 99.5 5.3E-12 1.2E-16 168.0 27.2 108 975-1086 243-371 (1490)
75 COG4889 Predicted helicase [Ge 99.5 4.5E-12 9.8E-17 153.4 23.2 86 1012-1098 499-585 (1518)
76 KOG0333 U5 snRNP-like RNA heli 99.5 9E-12 2E-16 145.3 24.6 125 956-1100 499-623 (673)
77 PRK05580 primosome assembly pr 99.5 4.1E-11 8.8E-16 152.7 32.7 105 982-1100 432-550 (679)
78 KOG0342 ATP-dependent RNA heli 99.4 7E-12 1.5E-16 145.9 23.2 114 959-1089 314-427 (543)
79 COG0514 RecQ Superfamily II DN 99.4 1.5E-11 3.2E-16 150.3 26.7 314 564-1104 16-340 (590)
80 PRK09401 reverse gyrase; Revie 99.4 1.9E-11 4.2E-16 162.2 30.1 104 960-1086 315-431 (1176)
81 KOG0348 ATP-dependent RNA heli 99.4 8.8E-12 1.9E-16 145.5 22.2 141 958-1104 405-557 (708)
82 KOG0335 ATP-dependent RNA heli 99.4 7.5E-12 1.6E-16 148.0 21.8 122 957-1094 311-439 (482)
83 KOG0343 RNA Helicase [RNA proc 99.4 3E-11 6.5E-16 141.5 24.6 138 958-1114 297-434 (758)
84 smart00487 DEXDc DEAD-like hel 99.4 1.8E-12 3.9E-17 137.7 12.2 163 563-756 6-173 (201)
85 TIGR00595 priA primosomal prot 99.4 5E-11 1.1E-15 147.0 26.1 98 989-1100 271-382 (505)
86 COG1204 Superfamily II helicas 99.4 2.7E-11 5.8E-16 154.5 23.6 153 565-753 31-190 (766)
87 PF00271 Helicase_C: Helicase 99.4 6.2E-13 1.3E-17 122.4 6.4 73 1011-1087 6-78 (78)
88 cd00046 DEXDc DEAD-like helica 99.4 4.6E-12 1E-16 126.7 13.2 139 596-753 2-144 (144)
89 KOG0336 ATP-dependent RNA heli 99.4 2.9E-11 6.4E-16 137.0 19.2 116 959-1091 449-564 (629)
90 TIGR01054 rgy reverse gyrase. 99.3 1.2E-10 2.6E-15 155.0 26.4 87 963-1071 316-409 (1171)
91 TIGR01970 DEAH_box_HrpB ATP-de 99.3 1.8E-10 4E-15 148.3 25.8 111 976-1102 209-337 (819)
92 KOG0340 ATP-dependent RNA heli 99.3 3.8E-10 8.3E-15 126.9 23.9 115 959-1089 236-351 (442)
93 KOG4284 DEAD box protein [Tran 99.3 2E-11 4.2E-16 144.7 14.2 112 961-1090 259-370 (980)
94 COG1197 Mfd Transcription-repa 99.3 1.5E-09 3.3E-14 139.1 31.7 325 565-1111 594-924 (1139)
95 PRK09694 helicase Cas3; Provis 99.3 8.1E-10 1.8E-14 142.5 29.6 111 967-1089 551-665 (878)
96 KOG0347 RNA helicase [RNA proc 99.3 2E-10 4.4E-15 134.7 21.7 97 976-1088 463-559 (731)
97 KOG0338 ATP-dependent RNA heli 99.3 3.1E-10 6.8E-15 132.1 21.3 142 964-1127 416-562 (691)
98 KOG0332 ATP-dependent RNA heli 99.3 4E-10 8.6E-15 127.4 21.5 126 959-1104 315-447 (477)
99 PRK12906 secA preprotein trans 99.2 5.4E-10 1.2E-14 141.0 24.0 117 959-1093 423-547 (796)
100 smart00490 HELICc helicase sup 99.2 1.7E-11 3.6E-16 112.5 7.7 73 1011-1087 10-82 (82)
101 PRK13104 secA preprotein trans 99.2 1.9E-09 4.1E-14 136.7 28.1 119 959-1095 427-583 (896)
102 KOG0344 ATP-dependent RNA heli 99.2 2.3E-10 5.1E-15 136.3 18.6 114 959-1089 372-485 (593)
103 PRK14701 reverse gyrase; Provi 99.2 2.4E-09 5.2E-14 145.5 30.4 103 963-1089 320-446 (1638)
104 PRK11664 ATP-dependent RNA hel 99.2 1.1E-09 2.3E-14 141.5 24.9 112 976-1103 212-341 (812)
105 TIGR00631 uvrb excinuclease AB 99.2 4.5E-09 9.8E-14 133.0 28.1 134 958-1110 424-564 (655)
106 COG1202 Superfamily II helicas 99.2 6.6E-10 1.4E-14 130.9 17.9 108 977-1101 441-553 (830)
107 PRK12904 preprotein translocas 99.2 1.7E-08 3.7E-13 128.1 31.4 119 959-1095 413-569 (830)
108 PRK13107 preprotein translocas 99.1 8.8E-08 1.9E-12 121.6 31.5 119 959-1095 432-587 (908)
109 KOG0339 ATP-dependent RNA heli 99.0 2E-08 4.4E-13 117.1 23.0 126 960-1104 453-578 (731)
110 KOG0326 ATP-dependent RNA heli 99.0 5.2E-10 1.1E-14 123.9 9.6 113 959-1089 307-419 (459)
111 PRK05298 excinuclease ABC subu 99.0 1.3E-07 2.9E-12 120.4 31.6 124 958-1100 428-556 (652)
112 cd00268 DEADc DEAD-box helicas 99.0 5.3E-09 1.1E-13 113.8 15.8 160 565-754 21-185 (203)
113 KOG0334 RNA helicase [RNA proc 99.0 1.3E-08 2.7E-13 128.6 20.6 124 958-1100 596-719 (997)
114 PRK12900 secA preprotein trans 99.0 1.9E-07 4.2E-12 119.0 30.1 116 959-1092 581-704 (1025)
115 COG4098 comFA Superfamily II D 99.0 2.6E-07 5.6E-12 104.3 27.5 125 964-1104 293-419 (441)
116 PF00270 DEAD: DEAD/DEAH box h 99.0 6E-09 1.3E-13 109.5 14.0 161 568-760 2-168 (169)
117 PF11496 HDA2-3: Class II hist 99.0 1.1E-08 2.3E-13 117.8 16.2 219 834-1112 4-256 (297)
118 KOG0952 DNA/RNA helicase MER3/ 98.9 2.7E-07 5.8E-12 116.0 28.3 161 591-772 123-299 (1230)
119 TIGR01967 DEAH_box_HrpA ATP-de 98.9 1.6E-07 3.4E-12 124.6 26.5 112 975-1104 278-407 (1283)
120 PF13872 AAA_34: P-loop contai 98.9 3.9E-08 8.5E-13 111.5 17.1 256 556-852 26-302 (303)
121 KOG0346 RNA helicase [RNA proc 98.9 6.2E-08 1.3E-12 111.9 18.1 123 959-1100 252-409 (569)
122 COG1203 CRISPR-associated heli 98.9 1.5E-07 3.2E-12 121.5 23.9 136 969-1120 433-571 (733)
123 PRK11131 ATP-dependent RNA hel 98.9 2.1E-07 4.6E-12 123.0 25.0 111 975-1103 285-413 (1294)
124 PRK12326 preprotein translocas 98.8 3E-06 6.6E-11 105.7 32.6 119 959-1095 410-543 (764)
125 PRK12899 secA preprotein trans 98.8 1.6E-06 3.5E-11 110.6 29.3 118 959-1095 551-677 (970)
126 KOG0327 Translation initiation 98.8 1.4E-07 3E-12 108.2 17.0 119 961-1101 252-370 (397)
127 KOG0337 ATP-dependent RNA heli 98.8 2.4E-07 5.1E-12 106.8 18.1 124 959-1101 245-368 (529)
128 KOG0351 ATP-dependent DNA heli 98.7 2.9E-07 6.3E-12 119.1 20.6 109 974-1098 483-591 (941)
129 COG0556 UvrB Helicase subunit 98.7 8.2E-06 1.8E-10 97.0 29.1 138 959-1113 429-571 (663)
130 PRK13103 secA preprotein trans 98.6 6.2E-06 1.4E-10 105.2 27.3 119 959-1095 432-587 (913)
131 KOG0341 DEAD-box protein abstr 98.6 7.1E-08 1.5E-12 109.4 8.3 130 959-1109 407-536 (610)
132 TIGR01407 dinG_rel DnaQ family 98.5 1.3E-05 2.8E-10 105.7 25.4 93 964-1071 661-756 (850)
133 PRK12903 secA preprotein trans 98.4 1.3E-05 2.7E-10 101.6 22.5 119 959-1095 409-535 (925)
134 KOG0352 ATP-dependent DNA heli 98.4 1.6E-05 3.6E-10 91.8 20.8 103 978-1096 257-359 (641)
135 KOG0951 RNA helicase BRR2, DEA 98.4 1.1E-05 2.4E-10 103.0 20.4 161 594-773 325-502 (1674)
136 TIGR00596 rad1 DNA repair prot 98.4 3.7E-06 8E-11 108.3 15.8 75 1047-1124 431-538 (814)
137 COG0610 Type I site-specific r 98.4 3.2E-06 6.9E-11 111.6 15.4 171 566-757 245-417 (962)
138 PRK15483 type III restriction- 98.1 2.7E-05 5.9E-10 100.6 15.8 185 595-789 60-278 (986)
139 KOG0353 ATP-dependent DNA heli 98.1 0.00019 4.2E-09 81.7 20.6 107 976-1098 317-466 (695)
140 KOG1513 Nuclear helicase MOP-3 98.1 4.2E-05 9E-10 93.7 15.1 265 556-855 255-539 (1300)
141 COG1198 PriA Primosomal protei 98.0 0.0007 1.5E-08 86.3 25.5 110 976-1101 482-605 (730)
142 TIGR00604 rad3 DNA repair heli 98.0 0.00052 1.1E-08 89.1 24.5 72 565-647 10-82 (705)
143 CHL00122 secA preprotein trans 98.0 0.00065 1.4E-08 87.0 24.1 84 959-1059 407-491 (870)
144 PRK12901 secA preprotein trans 98.0 0.00096 2.1E-08 86.2 25.6 118 959-1095 611-737 (1112)
145 KOG4299 PHD Zn-finger protein 98.0 1.9E-06 4E-11 104.2 1.1 49 377-429 254-305 (613)
146 PF13871 Helicase_C_4: Helicas 97.9 2.6E-05 5.6E-10 88.6 8.5 93 1029-1125 52-152 (278)
147 KOG0329 ATP-dependent RNA heli 97.9 0.00016 3.4E-09 79.0 13.9 45 1046-1090 302-346 (387)
148 COG4581 Superfamily II RNA hel 97.8 0.0015 3.3E-08 85.3 23.3 151 562-753 116-270 (1041)
149 PRK12902 secA preprotein trans 97.8 0.00088 1.9E-08 85.7 20.0 84 959-1059 422-506 (939)
150 PF07652 Flavi_DEAD: Flaviviru 97.8 0.00012 2.5E-09 75.2 9.9 130 594-754 4-137 (148)
151 KOG0349 Putative DEAD-box RNA 97.7 7.1E-05 1.5E-09 86.6 8.5 98 976-1086 505-602 (725)
152 KOG0948 Nuclear exosomal RNA h 97.7 0.0007 1.5E-08 83.4 16.6 146 563-753 127-276 (1041)
153 KOG0926 DEAH-box RNA helicase 97.7 0.00084 1.8E-08 83.2 16.1 65 1032-1100 621-703 (1172)
154 COG1110 Reverse gyrase [DNA re 97.6 0.015 3.2E-07 74.9 26.8 115 594-727 97-215 (1187)
155 KOG0947 Cytoplasmic exosomal R 97.5 0.0082 1.8E-07 76.2 22.0 145 564-753 296-444 (1248)
156 PF00628 PHD: PHD-finger; Int 97.4 2.5E-05 5.4E-10 66.2 -0.4 47 378-428 1-50 (51)
157 KOG0922 DEAH-box RNA helicase 97.4 0.018 3.8E-07 71.5 23.2 119 977-1103 259-392 (674)
158 KOG1244 Predicted transcriptio 97.4 4.5E-05 9.8E-10 83.3 0.9 72 333-427 247-329 (336)
159 KOG0949 Predicted helicase, DE 97.4 0.0075 1.6E-07 76.7 19.8 154 592-766 524-682 (1330)
160 COG0653 SecA Preprotein transl 97.4 0.035 7.7E-07 71.3 26.2 112 959-1088 412-534 (822)
161 PF02399 Herpes_ori_bp: Origin 97.3 0.0079 1.7E-07 76.6 18.9 108 965-1095 271-384 (824)
162 COG1643 HrpA HrpA-like helicas 97.3 0.024 5.2E-07 73.8 23.7 114 976-1104 259-390 (845)
163 KOG0920 ATP-dependent RNA heli 97.3 0.029 6.4E-07 72.9 24.2 130 961-1102 396-545 (924)
164 PF13086 AAA_11: AAA domain; P 97.2 0.011 2.4E-07 65.0 16.4 69 565-647 1-75 (236)
165 KOG0950 DNA polymerase theta/e 97.2 0.031 6.8E-07 71.6 21.8 69 1015-1088 525-598 (1008)
166 smart00249 PHD PHD zinc finger 97.1 0.00036 7.7E-09 57.3 2.9 44 378-426 1-47 (47)
167 KOG0953 Mitochondrial RNA heli 97.0 0.002 4.4E-08 77.5 9.4 109 973-1097 355-473 (700)
168 smart00489 DEXDc3 DEAD-like he 97.0 0.0076 1.6E-07 70.0 13.9 73 566-648 9-84 (289)
169 smart00488 DEXDc2 DEAD-like he 97.0 0.0076 1.6E-07 70.0 13.9 73 566-648 9-84 (289)
170 TIGR03117 cas_csf4 CRISPR-asso 96.9 0.0084 1.8E-07 76.0 14.3 93 976-1086 471-573 (636)
171 KOG1473 Nucleosome remodeling 96.8 0.00048 1E-08 87.5 1.8 52 371-428 339-390 (1414)
172 PRK10536 hypothetical protein; 96.8 0.0025 5.5E-08 71.9 7.3 151 566-757 60-216 (262)
173 PF02562 PhoH: PhoH-like prote 96.8 0.0011 2.3E-08 72.8 4.2 151 566-758 5-160 (205)
174 TIGR02562 cas3_yersinia CRISPR 96.3 2 4.4E-05 57.0 29.7 87 567-660 410-496 (1110)
175 KOG0924 mRNA splicing factor A 96.3 0.084 1.8E-06 65.3 15.8 93 1012-1108 597-704 (1042)
176 PF12340 DUF3638: Protein of u 96.2 0.029 6.3E-07 62.4 10.3 152 564-731 22-188 (229)
177 KOG4323 Polycomb-like PHD Zn-f 95.9 0.005 1.1E-07 73.9 3.3 100 329-430 97-225 (464)
178 PF07517 SecA_DEAD: SecA DEAD- 95.9 0.088 1.9E-06 60.3 12.9 164 562-762 74-266 (266)
179 PF13401 AAA_22: AAA domain; P 95.9 0.043 9.3E-07 55.1 9.4 115 595-753 5-125 (131)
180 KOG1803 DNA helicase [Replicat 95.7 0.083 1.8E-06 65.1 12.4 69 560-645 180-249 (649)
181 COG3587 Restriction endonuclea 95.7 0.069 1.5E-06 67.8 11.9 180 593-788 73-268 (985)
182 PRK07246 bifunctional ATP-depe 95.7 0.12 2.5E-06 68.5 14.7 90 963-1071 634-725 (820)
183 KOG1802 RNA helicase nonsense 95.5 0.18 3.8E-06 62.5 13.9 68 564-648 409-477 (935)
184 PF13604 AAA_30: AAA domain; P 95.4 0.17 3.7E-06 55.4 12.7 59 565-639 1-59 (196)
185 PRK08074 bifunctional ATP-depe 95.1 0.23 4.9E-06 66.8 15.0 98 963-1074 738-839 (928)
186 PF13307 Helicase_C_2: Helicas 95.1 0.061 1.3E-06 57.3 7.6 83 973-1071 6-92 (167)
187 COG0553 HepA Superfamily II DN 94.9 0.038 8.3E-07 73.3 6.8 183 561-775 80-289 (866)
188 KOG4150 Predicted ATP-dependen 94.8 0.05 1.1E-06 65.7 6.5 124 957-1088 506-629 (1034)
189 TIGR00376 DNA helicase, putati 94.5 0.58 1.3E-05 60.3 15.8 67 564-647 156-223 (637)
190 PRK14873 primosome assembly pr 94.5 0.29 6.2E-06 63.1 12.9 124 603-754 169-304 (665)
191 KOG1512 PHD Zn-finger protein 94.4 0.02 4.2E-07 63.6 1.8 43 378-428 316-363 (381)
192 KOG0923 mRNA splicing factor A 94.2 1 2.2E-05 56.2 15.8 82 1012-1102 506-607 (902)
193 TIGR01448 recD_rel helicase, p 93.9 0.38 8.3E-06 62.8 12.4 135 563-756 321-455 (720)
194 PF09848 DUF2075: Uncharacteri 93.8 0.31 6.8E-06 58.2 10.6 46 597-644 4-49 (352)
195 KOG1131 RNA polymerase II tran 93.6 1.1 2.4E-05 54.5 14.1 61 564-635 15-75 (755)
196 PRK04296 thymidine kinase; Pro 93.6 0.19 4.2E-06 54.7 7.6 34 597-634 5-38 (190)
197 PRK10875 recD exonuclease V su 93.4 0.56 1.2E-05 60.0 12.4 148 567-756 154-304 (615)
198 KOG1973 Chromatin remodeling p 93.4 0.033 7.1E-07 64.1 1.3 43 378-429 223-268 (274)
199 COG1199 DinG Rad3-related DNA 92.8 0.97 2.1E-05 58.6 13.6 114 975-1109 478-624 (654)
200 KOG1805 DNA replication helica 92.7 1.3 2.7E-05 57.7 13.7 150 564-755 668-831 (1100)
201 KOG0825 PHD Zn-finger protein 92.3 0.082 1.8E-06 65.8 2.7 48 377-430 216-267 (1134)
202 TIGR01447 recD exodeoxyribonuc 92.3 0.89 1.9E-05 58.0 11.9 149 568-756 148-298 (586)
203 PRK08074 bifunctional ATP-depe 92.0 0.64 1.4E-05 62.6 10.8 83 565-663 257-344 (928)
204 PRK11747 dinG ATP-dependent DN 91.9 1.1 2.4E-05 58.5 12.4 95 962-1071 520-616 (697)
205 cd00009 AAA The AAA+ (ATPases 91.9 1.6 3.4E-05 43.5 11.1 26 593-618 18-43 (151)
206 TIGR02881 spore_V_K stage V sp 91.8 1.7 3.7E-05 49.7 12.5 28 593-620 41-68 (261)
207 PRK12723 flagellar biosynthesi 91.5 3.6 7.8E-05 49.9 15.3 76 714-789 253-344 (388)
208 KOG0957 PHD finger protein [Ge 91.2 0.11 2.4E-06 61.8 2.0 50 378-429 546-598 (707)
209 COG1875 NYN ribonuclease and A 91.2 0.49 1.1E-05 55.6 7.1 37 717-755 353-389 (436)
210 PRK08116 hypothetical protein; 91.0 5.3 0.00012 46.1 15.5 48 593-644 113-160 (268)
211 smart00382 AAA ATPases associa 90.7 1 2.3E-05 44.2 8.4 44 595-642 3-46 (148)
212 PRK11747 dinG ATP-dependent DN 90.5 2.4 5.2E-05 55.4 13.4 67 565-639 25-91 (697)
213 PRK07246 bifunctional ATP-depe 90.3 1.6 3.5E-05 57.9 11.8 69 564-647 244-314 (820)
214 KOG1473 Nucleosome remodeling 89.7 0.11 2.4E-06 67.2 0.4 58 378-439 430-492 (1414)
215 KOG4299 PHD Zn-finger protein 89.6 0.16 3.4E-06 62.9 1.5 45 377-426 48-92 (613)
216 TIGR02880 cbbX_cfxQ probable R 89.6 1.9 4.2E-05 50.0 10.5 42 593-634 57-98 (284)
217 KOG1132 Helicase of the DEAD s 89.6 2 4.4E-05 55.5 11.2 95 976-1078 561-663 (945)
218 PRK06526 transposase; Provisio 89.6 1.4 3E-05 50.4 9.1 29 593-621 97-125 (254)
219 CHL00181 cbbX CbbX; Provisiona 89.0 3 6.5E-05 48.6 11.4 46 593-638 58-103 (287)
220 TIGR03420 DnaA_homol_Hda DnaA 88.5 3.1 6.6E-05 46.0 10.8 27 593-619 37-63 (226)
221 cd01124 KaiC KaiC is a circadi 87.8 3.9 8.5E-05 43.6 10.7 48 597-648 2-49 (187)
222 KOG0925 mRNA splicing factor A 87.3 1.2 2.5E-05 53.9 6.6 33 1073-1105 359-391 (699)
223 KOG0341 DEAD-box protein abstr 86.8 1.2 2.6E-05 52.3 6.2 144 595-753 208-367 (610)
224 KOG4443 Putative transcription 86.1 0.37 8.1E-06 59.8 1.8 43 378-426 70-115 (694)
225 PHA02533 17 large terminase pr 86.0 6.3 0.00014 49.9 12.5 56 564-635 58-113 (534)
226 PF05876 Terminase_GpA: Phage 85.9 1.2 2.6E-05 56.6 6.2 174 557-764 8-190 (557)
227 PF13245 AAA_19: Part of AAA d 85.7 2.5 5.5E-05 39.1 6.7 45 596-640 12-56 (76)
228 PRK07952 DNA replication prote 85.6 7.7 0.00017 44.1 11.9 44 595-646 100-143 (244)
229 PTZ00112 origin recognition co 84.8 11 0.00025 49.6 13.8 54 557-619 752-806 (1164)
230 PF06745 KaiC: KaiC; InterPro 84.3 12 0.00026 41.6 12.7 52 593-648 18-70 (226)
231 PRK05707 DNA polymerase III su 83.2 8 0.00017 46.0 11.2 46 566-621 4-49 (328)
232 TIGR02928 orc1/cdc6 family rep 83.1 22 0.00048 42.4 15.1 56 556-620 11-66 (365)
233 TIGR03015 pepcterm_ATPase puta 83.0 19 0.00042 40.8 14.0 22 596-617 45-66 (269)
234 cd04718 BAH_plant_2 BAH, or Br 83.0 0.57 1.2E-05 48.6 1.3 27 397-429 1-27 (148)
235 PRK14956 DNA polymerase III su 83.0 6.4 0.00014 48.9 10.5 27 594-620 40-66 (484)
236 PRK08727 hypothetical protein; 82.5 12 0.00025 42.3 11.7 26 595-620 42-67 (233)
237 PF10497 zf-4CXXC_R1: Zinc-fin 82.1 0.74 1.6E-05 45.4 1.7 48 380-428 22-69 (105)
238 PF06862 DUF1253: Protein of u 82.1 14 0.00031 45.5 12.8 127 959-1100 280-414 (442)
239 PRK07003 DNA polymerase III su 82.0 15 0.00032 48.1 13.3 27 594-620 38-64 (830)
240 PRK08769 DNA polymerase III su 82.0 6.6 0.00014 46.4 9.8 52 563-621 2-53 (319)
241 PRK11889 flhF flagellar biosyn 81.8 40 0.00086 41.2 16.1 75 715-789 320-409 (436)
242 smart00491 HELICc2 helicase su 81.7 4.5 9.7E-05 42.1 7.4 45 1026-1071 32-80 (142)
243 PRK14087 dnaA chromosomal repl 81.6 12 0.00026 46.5 12.3 50 594-645 141-190 (450)
244 PRK05703 flhF flagellar biosyn 81.4 13 0.00028 45.8 12.4 55 715-770 299-359 (424)
245 PRK12402 replication factor C 81.2 8 0.00017 45.5 10.3 24 596-619 38-61 (337)
246 TIGR02768 TraA_Ti Ti-type conj 81.0 8.6 0.00019 50.7 11.3 60 564-640 351-410 (744)
247 PRK07994 DNA polymerase III su 80.8 16 0.00035 47.2 13.3 28 594-621 38-65 (647)
248 PRK08084 DNA replication initi 80.7 12 0.00027 42.1 11.1 26 594-619 45-70 (235)
249 PLN03025 replication factor C 80.5 16 0.00034 43.1 12.4 25 595-619 35-59 (319)
250 PF05970 PIF1: PIF1-like helic 80.5 7.7 0.00017 46.8 9.9 63 565-639 1-63 (364)
251 PRK09112 DNA polymerase III su 80.4 9.5 0.00021 45.8 10.5 29 593-621 44-72 (351)
252 PRK00149 dnaA chromosomal repl 80.2 10 0.00022 47.0 11.1 27 595-621 149-175 (450)
253 PRK14974 cell division protein 80.1 32 0.00069 41.1 14.6 47 595-645 141-191 (336)
254 smart00492 HELICc3 helicase su 79.7 6.9 0.00015 40.7 7.9 52 1016-1071 26-79 (141)
255 PRK14960 DNA polymerase III su 79.5 11 0.00023 48.7 10.8 26 594-619 37-62 (702)
256 PRK09111 DNA polymerase III su 79.3 9.1 0.0002 49.1 10.4 29 593-621 45-73 (598)
257 PF06733 DEAD_2: DEAD_2; Inte 79.1 1.9 4.1E-05 46.2 3.7 43 677-729 117-159 (174)
258 PF00265 TK: Thymidine kinase; 78.9 8 0.00017 41.8 8.4 34 598-635 5-38 (176)
259 PF13177 DNA_pol3_delta2: DNA 78.6 23 0.0005 37.6 11.7 32 592-623 17-48 (162)
260 PRK07764 DNA polymerase III su 78.5 13 0.00028 49.4 11.8 27 594-620 37-63 (824)
261 KOG1081 Transcription factor N 78.4 1 2.2E-05 55.7 1.6 60 373-432 86-163 (463)
262 TIGR00362 DnaA chromosomal rep 78.0 13 0.00027 45.5 10.9 28 594-621 136-163 (405)
263 KOG1245 Chromatin remodeling c 78.0 0.82 1.8E-05 63.1 0.6 51 374-430 1106-1159(1404)
264 PRK07471 DNA polymerase III su 77.9 25 0.00055 42.5 13.1 31 592-622 39-69 (365)
265 KOG0951 RNA helicase BRR2, DEA 77.8 8 0.00017 52.0 9.2 107 592-730 1157-1268(1674)
266 PRK08181 transposase; Validate 77.8 20 0.00043 41.5 11.7 29 593-621 105-133 (269)
267 PRK06835 DNA replication prote 77.2 30 0.00065 41.2 13.2 29 593-621 182-210 (329)
268 PRK14952 DNA polymerase III su 76.9 17 0.00038 46.5 11.8 27 594-620 35-61 (584)
269 COG1199 DinG Rad3-related DNA 76.9 7.4 0.00016 50.6 8.9 72 563-647 13-85 (654)
270 PRK12377 putative replication 76.5 1.1E+02 0.0023 35.2 16.9 43 594-640 101-143 (248)
271 PRK07993 DNA polymerase III su 76.4 7.7 0.00017 46.2 8.1 50 565-621 2-51 (334)
272 COG5034 TNG2 Chromatin remodel 75.9 1.3 2.8E-05 49.5 1.3 46 373-427 218-268 (271)
273 COG0464 SpoVK ATPases of the A 75.6 20 0.00043 45.0 11.9 76 564-648 248-323 (494)
274 KOG1513 Nuclear helicase MOP-3 75.6 4.4 9.6E-05 51.6 5.9 80 1031-1115 850-937 (1300)
275 KOG0957 PHD finger protein [Ge 75.2 3.5 7.6E-05 49.7 4.7 46 353-398 136-192 (707)
276 KOG3612 PHD Zn-finger protein 75.0 1.1 2.3E-05 54.8 0.5 59 372-435 56-114 (588)
277 PHA02544 44 clamp loader, smal 74.9 21 0.00045 41.8 11.2 40 715-754 100-141 (316)
278 PRK14961 DNA polymerase III su 74.8 26 0.00057 42.2 12.2 26 594-619 38-63 (363)
279 PRK13889 conjugal transfer rel 74.6 24 0.00052 47.8 12.7 133 565-762 346-479 (988)
280 PRK14088 dnaA chromosomal repl 74.5 20 0.00043 44.4 11.3 27 595-621 131-157 (440)
281 PRK14959 DNA polymerase III su 74.4 11 0.00023 48.4 9.0 27 594-620 38-64 (624)
282 COG3421 Uncharacterized protei 74.3 2.2 4.7E-05 53.0 2.8 40 601-643 4-44 (812)
283 PRK11054 helD DNA helicase IV; 74.3 8.6 0.00019 50.2 8.4 83 564-664 195-278 (684)
284 PRK12422 chromosomal replicati 74.1 19 0.00041 44.7 10.9 37 595-635 142-178 (445)
285 PRK12323 DNA polymerase III su 73.8 28 0.0006 45.0 12.3 27 594-620 38-64 (700)
286 COG1484 DnaC DNA replication p 73.8 12 0.00026 42.8 8.6 50 593-646 104-153 (254)
287 PF00580 UvrD-helicase: UvrD/R 73.6 6.5 0.00014 45.3 6.5 57 566-638 1-57 (315)
288 PRK14949 DNA polymerase III su 73.6 23 0.0005 47.2 11.8 26 595-620 39-64 (944)
289 KOG0955 PHD finger protein BR1 73.6 2.6 5.6E-05 56.3 3.4 48 375-430 218-270 (1051)
290 cd01120 RecA-like_NTPases RecA 73.5 35 0.00076 34.8 11.3 33 598-634 3-35 (165)
291 PF00448 SRP54: SRP54-type pro 73.4 12 0.00027 41.0 8.2 59 713-771 81-143 (196)
292 PRK06921 hypothetical protein; 73.2 27 0.00059 40.2 11.3 29 593-621 116-144 (266)
293 cd01121 Sms Sms (bacterial rad 73.2 30 0.00064 42.0 12.0 45 594-642 82-126 (372)
294 PF05621 TniB: Bacterial TniB 73.0 36 0.00078 39.9 12.1 39 715-753 145-189 (302)
295 PRK06871 DNA polymerase III su 72.8 32 0.00069 40.9 11.9 49 566-621 3-51 (325)
296 PRK00411 cdc6 cell division co 72.8 30 0.00066 41.8 12.2 29 592-620 53-81 (394)
297 PHA03372 DNA packaging termina 72.7 9.7 0.00021 48.1 7.8 48 603-652 211-263 (668)
298 cd00561 CobA_CobO_BtuR ATP:cor 71.9 33 0.00072 36.5 10.6 54 713-766 93-150 (159)
299 KOG0989 Replication factor C, 71.8 13 0.00028 43.3 8.0 43 569-619 40-82 (346)
300 PRK05986 cob(I)alamin adenolsy 71.4 25 0.00053 38.6 9.7 58 712-769 112-173 (191)
301 COG5432 RAD18 RING-finger-cont 71.0 1.3 2.8E-05 49.9 -0.1 48 373-431 23-70 (391)
302 COG0552 FtsY Signal recognitio 70.9 25 0.00053 41.6 10.1 55 706-760 212-276 (340)
303 PRK06645 DNA polymerase III su 70.9 38 0.00083 42.7 12.6 28 593-620 42-69 (507)
304 PRK06893 DNA replication initi 70.8 29 0.00064 38.9 10.6 25 596-620 41-65 (229)
305 KOG2807 RNA polymerase II tran 70.3 2.5 5.3E-05 48.7 1.8 47 374-430 328-377 (378)
306 TIGR00595 priA primosomal prot 70.3 25 0.00054 44.4 10.9 97 956-1068 5-101 (505)
307 PRK14958 DNA polymerase III su 69.5 35 0.00076 43.1 12.0 27 594-620 38-64 (509)
308 PRK14722 flhF flagellar biosyn 68.9 51 0.0011 40.0 12.6 27 593-619 136-162 (374)
309 PRK14962 DNA polymerase III su 68.6 37 0.0008 42.5 11.8 26 594-619 36-61 (472)
310 PHA03368 DNA packaging termina 68.4 20 0.00043 46.0 9.3 53 597-651 257-314 (738)
311 KOG0954 PHD finger protein [Ge 68.1 2.4 5.3E-05 53.4 1.4 45 375-427 270-319 (893)
312 PRK14969 DNA polymerase III su 68.1 33 0.00071 43.6 11.4 27 593-619 37-63 (527)
313 PRK14086 dnaA chromosomal repl 68.1 33 0.00071 44.1 11.2 46 595-642 315-360 (617)
314 TIGR01075 uvrD DNA helicase II 68.0 13 0.00028 49.0 8.1 70 565-650 4-74 (715)
315 PRK05642 DNA replication initi 67.6 30 0.00065 39.0 9.9 38 715-752 97-138 (234)
316 PF01695 IstB_IS21: IstB-like 67.4 10 0.00022 41.0 5.8 43 592-638 45-87 (178)
317 TIGR00708 cobA cob(I)alamin ad 67.2 29 0.00063 37.4 9.1 55 712-766 94-152 (173)
318 PRK14964 DNA polymerase III su 67.1 46 0.001 41.8 12.1 28 593-620 34-61 (491)
319 cd01122 GP4d_helicase GP4d_hel 66.6 50 0.0011 37.6 11.7 39 593-634 29-67 (271)
320 PRK05580 primosome assembly pr 66.5 35 0.00076 44.7 11.5 97 956-1068 170-266 (679)
321 COG5141 PHD zinc finger-contai 66.2 2.9 6.2E-05 50.3 1.4 83 322-404 200-334 (669)
322 PRK08451 DNA polymerase III su 66.1 30 0.00066 43.8 10.3 27 594-620 36-62 (535)
323 TIGR03877 thermo_KaiC_1 KaiC d 65.5 51 0.0011 37.1 11.2 37 593-633 20-56 (237)
324 PRK09183 transposase/IS protei 65.1 48 0.001 38.1 11.0 27 593-619 101-127 (259)
325 PRK14955 DNA polymerase III su 64.2 65 0.0014 39.3 12.6 28 593-620 37-64 (397)
326 PRK10917 ATP-dependent DNA hel 63.9 29 0.00064 45.4 10.1 101 956-1067 290-390 (681)
327 PF00004 AAA: ATPase family as 63.9 27 0.00058 34.6 7.8 21 598-618 2-22 (132)
328 PRK14957 DNA polymerase III su 63.8 59 0.0013 41.4 12.3 26 595-620 39-64 (546)
329 PRK08691 DNA polymerase III su 63.6 1E+02 0.0023 40.3 14.5 27 593-619 37-63 (709)
330 PF13173 AAA_14: AAA domain 63.2 15 0.00032 37.2 5.7 37 715-755 61-100 (128)
331 KOG0298 DEAD box-containing he 63.1 3.4 7.4E-05 55.3 1.4 122 975-1116 1220-1341(1394)
332 PRK06090 DNA polymerase III su 63.0 72 0.0016 37.9 12.1 51 565-622 3-53 (319)
333 PF14835 zf-RING_6: zf-RING of 63.0 4.6 0.0001 36.1 1.7 39 379-429 10-49 (65)
334 PRK11773 uvrD DNA-dependent he 62.4 23 0.00049 46.8 8.7 71 564-650 8-79 (721)
335 PRK07940 DNA polymerase III su 62.3 18 0.0004 44.1 7.3 27 594-620 36-62 (394)
336 TIGR01242 26Sp45 26S proteasom 62.3 27 0.0006 41.9 8.8 25 593-617 155-179 (364)
337 PRK03992 proteasome-activating 62.2 24 0.00052 43.0 8.3 26 592-617 163-188 (389)
338 TIGR03117 cas_csf4 CRISPR-asso 62.2 40 0.00087 43.6 10.5 68 570-649 2-70 (636)
339 PRK00440 rfc replication facto 61.9 98 0.0021 35.9 13.2 24 595-618 39-62 (319)
340 PLN03208 E3 ubiquitin-protein 61.9 3.2 6.9E-05 45.2 0.7 56 374-429 16-77 (193)
341 PRK14963 DNA polymerase III su 61.8 45 0.00099 42.1 10.8 26 595-620 37-62 (504)
342 PRK08533 flagellar accessory p 61.0 68 0.0015 36.1 11.1 39 593-635 23-61 (230)
343 PRK11823 DNA repair protein Ra 61.0 77 0.0017 39.4 12.5 49 594-646 80-128 (446)
344 PRK10919 ATP-dependent DNA hel 60.9 23 0.0005 46.3 8.3 69 565-649 2-71 (672)
345 PF07015 VirC1: VirC1 protein; 60.8 1.2E+02 0.0025 34.4 12.6 40 604-647 12-53 (231)
346 TIGR03346 chaperone_ClpB ATP-d 60.4 57 0.0012 44.0 12.1 26 593-618 193-218 (852)
347 PRK14712 conjugal transfer nic 60.1 66 0.0014 45.8 12.6 149 561-766 831-980 (1623)
348 PF13832 zf-HC5HC2H_2: PHD-zin 59.6 6.3 0.00014 38.9 2.3 32 375-406 54-88 (110)
349 PRK13342 recombination factor 59.6 35 0.00076 41.9 9.2 24 593-616 35-58 (413)
350 PRK06067 flagellar accessory p 59.5 66 0.0014 36.0 10.7 51 593-647 24-74 (234)
351 PRK13709 conjugal transfer nic 59.5 58 0.0012 46.9 12.1 69 559-639 961-1029(1747)
352 PRK06964 DNA polymerase III su 59.5 77 0.0017 38.0 11.7 48 566-622 2-49 (342)
353 PRK12727 flagellar biosynthesi 59.3 1.8E+02 0.0038 37.1 15.0 27 594-620 350-376 (559)
354 PF06564 YhjQ: YhjQ protein; 59.1 48 0.001 37.8 9.4 32 604-639 12-45 (243)
355 TIGR01074 rep ATP-dependent DN 58.9 29 0.00063 45.2 8.8 69 566-650 2-71 (664)
356 PTZ00454 26S protease regulato 58.7 32 0.0007 42.1 8.5 43 592-641 177-219 (398)
357 PRK13826 Dtr system oriT relax 58.6 65 0.0014 44.3 12.0 138 564-766 380-518 (1102)
358 CHL00206 ycf2 Ycf2; Provisiona 58.2 43 0.00094 47.9 10.2 43 592-641 1628-1670(2281)
359 COG0593 DnaA ATPase involved i 58.0 38 0.00083 41.4 8.9 41 715-755 175-221 (408)
360 PF01197 Ribosomal_L31: Riboso 57.8 7.5 0.00016 35.5 2.2 44 331-374 12-57 (69)
361 KOG0740 AAA+-type ATPase [Post 57.6 25 0.00054 43.1 7.2 50 592-648 184-233 (428)
362 COG3973 Superfamily I DNA and 57.5 25 0.00053 44.4 7.1 69 562-645 209-279 (747)
363 PRK04328 hypothetical protein; 57.1 84 0.0018 35.8 11.1 36 594-633 23-58 (249)
364 KOG1701 Focal adhesion adaptor 57.1 4 8.6E-05 48.8 0.4 28 347-376 356-383 (468)
365 PRK07133 DNA polymerase III su 56.7 76 0.0016 41.7 11.7 28 593-620 39-66 (725)
366 PRK13531 regulatory ATPase Rav 56.6 46 0.001 41.6 9.4 26 593-618 38-63 (498)
367 TIGR02760 TraI_TIGR conjugativ 56.5 73 0.0016 46.8 12.7 64 564-639 1018-1081(1960)
368 TIGR01243 CDC48 AAA family ATP 56.5 38 0.00082 44.8 9.3 42 593-641 486-527 (733)
369 PRK06731 flhF flagellar biosyn 56.5 1.5E+02 0.0033 34.4 13.1 48 594-645 75-126 (270)
370 TIGR03689 pup_AAA proteasome A 56.3 31 0.00067 43.5 7.9 26 593-618 215-240 (512)
371 PF03354 Terminase_1: Phage Te 55.8 82 0.0018 39.5 11.7 41 596-636 24-64 (477)
372 PRK10865 protein disaggregatio 55.8 50 0.0011 44.5 10.3 26 593-618 198-223 (857)
373 TIGR00643 recG ATP-dependent D 55.6 45 0.00098 43.3 9.7 101 956-1067 264-364 (630)
374 COG1702 PhoH Phosphate starvat 55.5 18 0.0004 42.7 5.4 38 717-756 245-282 (348)
375 CHL00176 ftsH cell division pr 55.5 77 0.0017 41.3 11.5 25 593-617 215-239 (638)
376 TIGR02688 conserved hypothetic 55.4 37 0.0008 41.7 8.1 25 593-617 208-232 (449)
377 PRK14948 DNA polymerase III su 55.4 1.1E+02 0.0023 39.9 12.8 27 594-620 38-64 (620)
378 PRK14951 DNA polymerase III su 55.1 70 0.0015 41.4 11.0 27 594-620 38-64 (618)
379 PHA02929 N1R/p28-like protein; 55.0 5.2 0.00011 45.2 0.9 46 374-429 172-225 (238)
380 cd02037 MRP-like MRP (Multiple 54.9 67 0.0014 33.9 9.3 53 714-770 66-118 (169)
381 PRK13341 recombination factor 54.0 58 0.0013 43.0 10.2 24 593-616 51-74 (725)
382 PRK14873 primosome assembly pr 54.0 53 0.0011 42.9 9.7 80 958-1052 170-250 (665)
383 PF13771 zf-HC5HC2H: PHD-like 53.9 9.2 0.0002 36.2 2.3 52 373-427 33-87 (90)
384 CHL00095 clpC Clp protease ATP 53.9 34 0.00074 45.8 8.4 26 593-618 199-224 (821)
385 KOG3970 Predicted E3 ubiquitin 53.9 3.4 7.3E-05 45.1 -0.8 85 352-439 20-115 (299)
386 KOG0956 PHD finger protein AF1 53.7 5.8 0.00013 49.8 1.1 43 379-429 8-57 (900)
387 cd03115 SRP The signal recogni 53.4 1.4E+02 0.003 31.6 11.4 25 597-621 3-27 (173)
388 PF00308 Bac_DnaA: Bacterial d 52.9 1.1E+02 0.0024 34.1 11.0 37 715-751 97-137 (219)
389 PRK14953 DNA polymerase III su 52.8 1.1E+02 0.0024 38.5 12.1 25 595-619 39-63 (486)
390 PRK08903 DnaA regulatory inact 52.7 82 0.0018 34.9 10.0 26 593-618 41-66 (227)
391 PRK00771 signal recognition pa 52.6 1.2E+02 0.0027 37.6 12.2 36 594-633 95-130 (437)
392 PRK14965 DNA polymerase III su 51.9 1.1E+02 0.0023 39.5 12.0 28 593-620 37-64 (576)
393 PRK14950 DNA polymerase III su 51.2 75 0.0016 41.0 10.5 25 595-619 39-63 (585)
394 PRK14721 flhF flagellar biosyn 51.1 3.4E+02 0.0074 33.6 15.5 74 715-789 269-358 (420)
395 PF13481 AAA_25: AAA domain; P 51.1 1.2E+02 0.0025 32.5 10.6 56 594-649 32-93 (193)
396 PF15446 zf-PHD-like: PHD/FYVE 50.8 9.2 0.0002 40.5 1.8 49 379-427 2-58 (175)
397 TIGR03345 VI_ClpV1 type VI sec 50.8 85 0.0018 42.3 11.2 118 570-753 192-325 (852)
398 PRK08939 primosomal protein Dn 50.8 50 0.0011 38.9 8.2 43 593-639 155-197 (306)
399 PRK05563 DNA polymerase III su 50.5 97 0.0021 39.7 11.2 27 593-619 37-63 (559)
400 PRK11034 clpA ATP-dependent Cl 50.1 78 0.0017 42.0 10.5 26 593-618 206-231 (758)
401 TIGR00678 holB DNA polymerase 50.0 57 0.0012 35.1 7.9 29 593-621 13-41 (188)
402 COG3267 ExeA Type II secretory 49.7 1.7E+02 0.0036 33.7 11.5 41 715-755 131-175 (269)
403 PRK06646 DNA polymerase III su 49.3 92 0.002 33.1 9.0 43 956-998 9-51 (154)
404 PF13639 zf-RING_2: Ring finge 49.0 3.9 8.5E-05 33.5 -1.0 38 378-426 2-43 (44)
405 KOG2231 Predicted E3 ubiquitin 48.7 6.2 0.00014 50.3 0.3 91 333-429 100-215 (669)
406 TIGR01073 pcrA ATP-dependent D 48.6 45 0.00097 44.1 8.1 69 565-649 4-73 (726)
407 PHA02926 zinc finger-like prot 48.4 6.1 0.00013 43.6 0.1 50 376-429 170-228 (242)
408 COG1435 Tdk Thymidine kinase [ 48.3 1E+02 0.0022 34.1 9.2 34 716-752 83-118 (201)
409 KOG0956 PHD finger protein AF1 48.2 6.9 0.00015 49.1 0.5 54 373-428 114-179 (900)
410 COG1474 CDC6 Cdc6-related prot 48.0 1.3E+02 0.0028 36.4 11.3 56 557-621 14-69 (366)
411 COG0254 RpmE Ribosomal protein 47.5 11 0.00023 35.0 1.5 46 329-374 11-58 (75)
412 KOG1002 Nucleotide excision re 47.5 6 0.00013 48.1 -0.1 55 370-429 530-584 (791)
413 PRK10416 signal recognition pa 47.4 2.6E+02 0.0057 33.2 13.5 53 712-764 193-255 (318)
414 TIGR00416 sms DNA repair prote 47.3 1.4E+02 0.003 37.4 11.6 50 594-647 94-143 (454)
415 cd00984 DnaB_C DnaB helicase C 46.6 1.8E+02 0.0039 32.4 11.7 49 593-644 12-64 (242)
416 PF05496 RuvB_N: Holliday junc 46.5 39 0.00083 38.1 5.9 18 594-611 50-67 (233)
417 COG5141 PHD zinc finger-contai 46.3 7.6 0.00017 46.9 0.5 50 373-430 190-244 (669)
418 PRK05973 replicative DNA helic 46.3 1.8E+02 0.0038 33.2 11.3 37 593-633 63-99 (237)
419 PRK06647 DNA polymerase III su 46.0 1.6E+02 0.0035 37.8 12.2 28 593-620 37-64 (563)
420 cd00162 RING RING-finger (Real 45.6 5.9 0.00013 31.4 -0.4 41 379-428 2-43 (45)
421 smart00184 RING Ring finger. E 45.5 5 0.00011 30.6 -0.8 29 379-407 1-29 (39)
422 TIGR00580 mfd transcription-re 45.1 86 0.0019 42.6 9.9 99 957-1066 481-579 (926)
423 COG0470 HolB ATPase involved i 45.0 1.1E+02 0.0023 35.7 9.8 27 596-622 26-52 (325)
424 KOG4443 Putative transcription 45.0 7.1 0.00015 49.1 -0.0 47 378-429 20-71 (694)
425 COG0630 VirB11 Type IV secreto 44.4 95 0.0021 36.7 9.2 54 705-765 207-260 (312)
426 COG0467 RAD55 RecA-superfamily 44.3 1.7E+02 0.0037 33.3 11.1 46 593-642 22-71 (260)
427 PHA00350 putative assembly pro 44.2 37 0.0008 41.4 5.8 15 717-731 83-97 (399)
428 PRK06305 DNA polymerase III su 44.0 1.1E+02 0.0023 38.3 9.9 27 594-620 39-65 (451)
429 TIGR00064 ftsY signal recognit 43.9 5E+02 0.011 30.1 14.8 34 596-633 74-107 (272)
430 COG1198 PriA Primosomal protei 43.9 64 0.0014 42.4 8.2 84 952-1050 221-304 (730)
431 TIGR01243 CDC48 AAA family ATP 43.7 69 0.0015 42.4 8.7 25 592-616 210-234 (733)
432 TIGR01425 SRP54_euk signal rec 43.5 5.1E+02 0.011 32.2 15.4 34 597-634 103-136 (429)
433 PRK07399 DNA polymerase III su 43.4 1.9E+02 0.0041 34.3 11.4 29 593-621 25-53 (314)
434 PRK12724 flagellar biosynthesi 43.1 3.5E+02 0.0077 33.5 13.8 75 714-789 298-391 (432)
435 PRK00080 ruvB Holliday junctio 43.1 3.5E+02 0.0077 31.9 13.9 25 593-617 50-74 (328)
436 PRK10867 signal recognition pa 42.5 1.7E+02 0.0038 36.2 11.3 36 595-633 101-136 (433)
437 TIGR02639 ClpA ATP-dependent C 41.9 1.3E+02 0.0029 39.8 10.9 27 593-619 202-228 (731)
438 PF13831 PHD_2: PHD-finger; PD 41.7 8.4 0.00018 30.6 -0.1 35 386-427 2-36 (36)
439 PF12678 zf-rbx1: RING-H2 zinc 41.4 8.1 0.00018 35.5 -0.2 26 392-427 48-73 (73)
440 PF11793 FANCL_C: FANCL C-term 41.3 6.9 0.00015 35.7 -0.7 52 378-429 4-64 (70)
441 KOG0383 Predicted helicase [Ge 41.3 6.1 0.00013 50.9 -1.4 55 371-430 501-555 (696)
442 KOG0317 Predicted E3 ubiquitin 41.2 8.1 0.00018 44.2 -0.3 42 378-429 241-282 (293)
443 COG3972 Superfamily I DNA and 41.2 1.1E+02 0.0025 38.0 9.0 39 715-756 295-334 (660)
444 PRK08760 replicative DNA helic 40.8 2.6E+02 0.0057 35.1 12.7 53 593-648 228-280 (476)
445 TIGR02655 circ_KaiC circadian 40.8 1.5E+02 0.0033 37.2 10.7 51 593-647 262-312 (484)
446 PRK14954 DNA polymerase III su 40.6 2.6E+02 0.0055 36.5 12.8 28 593-620 37-64 (620)
447 PHA03333 putative ATPase subun 40.4 1.9E+02 0.0041 37.8 11.2 36 598-636 191-226 (752)
448 COG3598 RepA RecA-family ATPas 40.1 1.3E+02 0.0028 35.7 8.9 26 593-618 88-113 (402)
449 cd01125 repA Hexameric Replica 40.0 4.9E+02 0.011 29.1 13.8 53 596-648 3-66 (239)
450 cd01131 PilT Pilus retraction 39.5 2.1E+02 0.0045 31.3 10.4 22 597-618 4-25 (198)
451 PF01443 Viral_helicase1: Vira 39.5 57 0.0012 36.1 6.1 40 715-757 62-101 (234)
452 PF13923 zf-C3HC4_2: Zinc fing 39.4 5.8 0.00013 31.6 -1.3 38 379-426 1-39 (39)
453 PRK08058 DNA polymerase III su 39.2 2.7E+02 0.0058 33.2 12.0 29 593-621 27-55 (329)
454 TIGR00570 cdk7 CDK-activating 39.2 13 0.00029 43.4 1.0 27 393-428 25-51 (309)
455 TIGR01241 FtsH_fam ATP-depende 38.4 75 0.0016 40.0 7.5 26 592-617 86-111 (495)
456 COG2888 Predicted Zn-ribbon RN 38.4 17 0.00036 32.1 1.2 48 333-395 10-57 (61)
457 COG2256 MGS1 ATPase related to 38.3 1.1E+02 0.0025 37.2 8.4 22 592-613 46-67 (436)
458 PRK05917 DNA polymerase III su 38.2 1.5E+02 0.0032 34.8 9.3 30 592-621 17-46 (290)
459 PRK14723 flhF flagellar biosyn 38.2 3.4E+02 0.0074 36.1 13.4 35 597-633 188-222 (767)
460 PF07227 DUF1423: Protein of u 37.8 36 0.00077 41.6 4.2 58 378-444 143-205 (446)
461 KOG1701 Focal adhesion adaptor 37.8 4.4 9.5E-05 48.4 -3.2 67 334-402 276-360 (468)
462 PRK06904 replicative DNA helic 37.1 3.3E+02 0.0071 34.3 12.7 51 593-646 220-270 (472)
463 TIGR00959 ffh signal recogniti 37.1 2E+02 0.0044 35.6 10.7 36 595-633 100-135 (428)
464 PRK07414 cob(I)yrinic acid a,c 37.0 1.2E+02 0.0027 32.9 7.8 52 713-764 113-168 (178)
465 PF15227 zf-C3HC4_4: zinc fing 36.9 8.9 0.00019 31.4 -0.6 28 393-426 15-42 (42)
466 KOG0827 Predicted E3 ubiquitin 36.9 8.5 0.00018 45.5 -1.0 48 378-434 6-59 (465)
467 PRK09302 circadian clock prote 36.9 1.8E+02 0.0038 36.8 10.5 50 594-647 273-322 (509)
468 PRK14971 DNA polymerase III su 36.7 2.1E+02 0.0045 37.3 11.2 27 593-619 38-64 (614)
469 PTZ00396 Casein kinase II subu 36.7 17 0.00036 41.5 1.2 34 393-427 122-155 (251)
470 PRK06995 flhF flagellar biosyn 36.4 5.1E+02 0.011 32.7 14.1 53 715-768 334-391 (484)
471 KOG1734 Predicted RING-contain 36.2 10 0.00022 42.8 -0.5 49 373-429 221-279 (328)
472 PRK09302 circadian clock prote 35.9 2.3E+02 0.0049 35.9 11.3 39 593-634 30-68 (509)
473 COG4626 Phage terminase-like p 35.6 2.9E+02 0.0064 35.1 11.7 73 560-636 56-128 (546)
474 KOG0978 E3 ubiquitin ligase in 35.6 7.2 0.00016 50.0 -2.0 42 378-428 645-686 (698)
475 KOG0320 Predicted E3 ubiquitin 35.6 8.7 0.00019 41.0 -1.1 41 379-429 134-176 (187)
476 PRK10689 transcription-repair 34.9 1.5E+02 0.0034 41.2 10.1 98 957-1065 630-727 (1147)
477 COG2804 PulE Type II secretory 34.7 1.6E+02 0.0035 36.9 9.2 40 566-618 242-282 (500)
478 KOG3362 Predicted BBOX Zn-fing 34.5 15 0.00032 37.9 0.4 29 377-406 119-148 (156)
479 PF07649 C1_3: C1-like domain; 33.8 18 0.00038 27.3 0.6 26 378-403 2-30 (30)
480 CHL00136 rpl31 ribosomal prote 33.4 21 0.00045 32.6 1.1 42 332-374 15-56 (68)
481 PF04364 DNA_pol3_chi: DNA pol 33.4 1.4E+02 0.0031 30.9 7.3 37 962-998 15-51 (137)
482 COG0626 MetC Cystathionine bet 33.3 1.3E+02 0.0028 36.8 8.1 108 956-1105 82-190 (396)
483 PHA02542 41 41 helicase; Provi 33.1 3.4E+02 0.0074 34.1 12.0 35 595-633 191-225 (473)
484 PF02318 FYVE_2: FYVE-type zin 32.8 22 0.00047 35.9 1.3 43 378-429 56-103 (118)
485 PRK06620 hypothetical protein; 32.7 1.8E+02 0.0039 32.4 8.6 37 715-753 85-122 (214)
486 COG1419 FlhF Flagellar GTP-bin 32.3 3.4E+02 0.0073 33.3 11.2 56 715-771 281-341 (407)
487 KOG2164 Predicted E3 ubiquitin 32.2 16 0.00035 45.0 0.2 49 376-429 186-234 (513)
488 PRK01678 rpmE2 50S ribosomal p 32.2 21 0.00045 34.2 0.9 44 331-374 12-69 (87)
489 PRK04132 replication factor C 32.0 2.1E+02 0.0045 38.5 10.2 40 715-757 630-673 (846)
490 COG2109 BtuR ATP:corrinoid ade 31.7 6.7E+02 0.015 27.8 12.1 57 713-769 120-180 (198)
491 TIGR02640 gas_vesic_GvpN gas v 31.6 1.2E+02 0.0027 34.7 7.3 24 593-616 20-43 (262)
492 KOG0780 Signal recognition par 31.1 99 0.0021 37.4 6.3 35 597-635 104-138 (483)
493 PF01286 XPA_N: XPA protein N- 31.1 27 0.00058 27.6 1.2 29 333-361 4-32 (34)
494 KOG0738 AAA+-type ATPase [Post 31.1 49 0.0011 39.9 3.8 46 595-648 246-292 (491)
495 COG5222 Uncharacterized conser 30.8 25 0.00053 40.2 1.3 41 394-443 293-341 (427)
496 TIGR02760 TraI_TIGR conjugativ 30.7 3.9E+02 0.0084 39.7 13.4 60 565-640 429-488 (1960)
497 KOG4628 Predicted E3 ubiquitin 30.6 24 0.00052 42.0 1.3 43 377-428 230-275 (348)
498 PF02223 Thymidylate_kin: Thym 30.5 71 0.0015 34.2 4.9 41 603-647 5-47 (186)
499 PRK14559 putative protein seri 30.4 28 0.00062 45.0 2.0 23 372-395 12-34 (645)
500 PRK09165 replicative DNA helic 30.4 4.9E+02 0.011 32.9 12.9 52 594-645 217-279 (497)
No 1
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=1.6e-182 Score=1599.38 Aligned_cols=1173 Identities=34% Similarity=0.483 Sum_probs=958.2
Q ss_pred ccchhhcccchhcccccccchhhccCCCCCCCCccccccccchhhhcccCCccchhcccccccceeeeecCCHHHHHHcc
Q 000740 3 MHCVFRRHGKLLEEGASGFLQKKIANDGSENGGKEVSDINWNSVNKIFSGDVSEKCAAFGSKHWASVYLASTPQQAAAMG 82 (1321)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (1321)
++|+++||||+++||+++|++|++............++.+|.+.|+-|.+.+ ++.-.||++.|+++||||+|.++++||
T Consensus 216 ed~~~~r~~kn~~egrekk~~K~l~k~~~k~~~~~ssd~dk~sakk~~~~ss-dE~v~~~e~~pr~~llsS~ktkerasg 294 (1567)
T KOG1015|consen 216 EDSSEDRKSKNGAEGREKKRCKLLGKSSRKRQDCSSSDTDKYSAKKDGCNSS-DERVKRIELRPRRNLLSSRKTKERASG 294 (1567)
T ss_pred cCcchhhhhhhhhhhhhhHHHHHhccchhhhcccCCCchhhhhhhhcccccc-cccchhhhhhhHhhhccCcchhhhhcc
Confidence 5799999999999999999999998765544456788999999999999988 677999999999999999999999999
Q ss_pred CCCCCCccccccCCCCCCcccchhhhhhhccccCCccceeccccCCCCChhHHHHhcchhhhcccHHHHHhhcccccchh
Q 000740 83 LKFPGVDEVTDFSSNCPNMWKFRSIITYRLCKVSGSVEEIEDVDGNSDDPFVADAIANEKELALSEEQRKKFRKVKEEDD 162 (1321)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (1321)
+.||||.| ++|++|++...++||.+++|.+|+|..+.++|...|..++||||
T Consensus 295 ~s~sd~~e----------------------------s~E~ed~kksk~s~~~k~vi~keKern~k~a~~ts~s~~eeeDd 346 (1567)
T KOG1015|consen 295 SSSSDAEE----------------------------SSEDEDKKKSKTSSKKKAVIVKEKERNRKQADITSSSSSEEEDD 346 (1567)
T ss_pred CCcCCccc----------------------------cchhhhhhhhccchhhhhhhhHHHHhhhhhhhcccccccchhhh
Confidence 99999999 99999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHhhhhhhhhccccccccccccccccccccccchhccccccCCCCCCCCCCCCchhhhhhccccCcccccc
Q 000740 163 ANMDRKLQLHLKRRRHRKISKQKEIGSVDWTIEDSAVETRPLVDASKSLSNKKTDDGDMPGNNNEVALQNLETGVLESSV 242 (1321)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (1321)
...++-+|+.||++++.|++||...++. ..+.+.++... + ++. .. |. .-+..++
T Consensus 347 e~es~~~~~~lkkk~kqk~~kq~sskss-ees~dd~~~r~----~-----kk~-------------t~-n~-aKa~~ss- 400 (1567)
T KOG1015|consen 347 EQESIGEGSSLKKKIKQKSGKQASSKSS-EESVDDPENRI----A-----KKM-------------TL-NE-AKANLSS- 400 (1567)
T ss_pred hhhhhhhcccchHhhhhccchhhhhhcc-hhccccHHHHh----h-----hhc-------------ch-HH-HHhhhcC-
Confidence 9999999999999999999999999888 44554444331 0 000 00 00 0111111
Q ss_pred cccccCCCCCcccCCCCCCchhhcccccCCCCCCCCcccccceeEeeCCCCcccccccccccccCCCCCccccccccccc
Q 000740 243 KERSLSNGISSVSDSALPDSSELRGIKRSNESEEPNSEKKRSRTIIIGSDEADVVKDECSTKLEDHSVSPENINDAATDN 322 (1321)
Q Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 322 (1321)
++.|+- -|++| +|+|+....-+.+.......+- +++ +..
T Consensus 401 ------~eTs~~-----s~esE-~~sk~sgk~~es~~~~e~~s~~-~n~------------------------~s~---- 439 (1567)
T KOG1015|consen 401 ------DETSSS-----SDESE-EGSKRSGKQNESNPGDEEASNQ-VNS------------------------ESD---- 439 (1567)
T ss_pred ------CCcccc-----ccccc-cchhhhcccccCCCCccccccc-ccc------------------------ccc----
Confidence 222111 01111 3333321111111111111000 000 000
Q ss_pred cccccCCCCceecccCCccccccccccccccccCCcchhhhhhcCcccCCCCCcccccccCCCCceeccCCccccccccc
Q 000740 323 SLHSQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTC 402 (1321)
Q Consensus 323 ~~~~~~~~~~~~C~~Cg~~~~~~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~C 402 (1321)
+-.++..-..+.|+.|.+.....+.||...++.|+.|..... ......++..+..|.||+..-.+.-|..|++.||..|
T Consensus 440 ~dsk~~~k~~~r~~~~~K~~vsd~e~peekkt~~k~ksR~~~-~~sSese~d~d~eee~~s~~~~~~e~~~~~k~~sa~e 518 (1567)
T KOG1015|consen 440 SDSKESKKPRYRRLLRHKLTVSDGESPEEKKTKPKEKSRNRR-KVSSESEEDSDFEEEGVSEEVSESEDEQRPKTRSAKE 518 (1567)
T ss_pred cccccccCcchhhhhhcchhhcccccchhhhcchhhhccchh-hhcccccccchhhcccccCccccchhhhcccccchHH
Confidence 111233344577999999989999999999999999865543 3445566667779999999999999999999999999
Q ss_pred cccCCCcccccccccCCCceeecCCchhHHHHHHHHHhhhcCcccccCCCCCCCCCCccccCcccCcchhhhhhhhhhhc
Q 000740 403 VKRNISEACLSDEVQASCWQCCCCSPSLLKRLTSELGRAMGSENLIVSSSESDSENSDADNNLKIGGKRKQKKKIRRILD 482 (1321)
Q Consensus 403 l~~~~~~~~~~~~~~~~~W~C~~C~p~~l~~l~~~~~~~~~~~~~~~~~s~~d~d~sd~~~~~~~~~~~k~~k~ir~il~ 482 (1321)
...+.+...++ ....-.|.|.+|++.+.+ .++.++.+........+++..++++.+..|++..+|.|+||+||+||+
T Consensus 519 ~~~esd~Evmp-qkkkr~~~~~~sds~~e~--kse~E~ee~ekK~~ek~~kk~esseSd~vn~~sksK~K~rKkiRkII~ 595 (1567)
T KOG1015|consen 519 AELESDQEVMP-QKKKRRRIKVQSDSSSEN--KSESEEEEEEKKEEEKEEKKEESSESDNVNDDSKSKGKGRKKIRKIIK 595 (1567)
T ss_pred Hhhccchhhhh-hhhhcCceeeecCCcccc--cccccHHHHHHHHHhhhhhcccccccCCcCccccccccchhHHHhhcc
Confidence 99999999888 444455999999999988 677788877766555555544444434477788889999999999999
Q ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcccccccCCCCCCCchhhhhccccccchhhhccccCCcccccCcch
Q 000740 483 DAELGEETKRKIAIEKERQERLKSLQVQFSSKSKLMNSVTLDGDLSAGASIEVLGDAITGYIVNVVREKGEEAVRIPSSI 562 (1321)
Q Consensus 483 d~~l~e~t~~~~~~e~~r~~rl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ev~~~~~~~~i~~~~~~~~~~~v~vP~~l 562 (1321)
|++|..+|+.|+++|++|++||++.+. ..+......+.....++++ ....+++++..+..+++|.||..|
T Consensus 596 d~kL~keT~~a~k~EkeRrkRie~~~~--rqK~~n~i~ied~s~~~e~--------it~~lVld~deet~e~~VqV~rsl 665 (1567)
T KOG1015|consen 596 DDKLRKETQNALKEEKERRKRIEEERE--RQKLRNVIEIEDASPTKEP--------ITTKLVLDEDEETKEPLVQVHRSL 665 (1567)
T ss_pred hhhhchhHHHHHHHHHHHHHHHHHHHH--HhhhhceeeeccCCCCccc--------cceeEEecchhhhccchhhccHhH
Confidence 999999999999999999999998432 2111111111122222221 123788899999999999999999
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~ 642 (1321)
..+|+|||..||+|||+++++++.+. ..++|.||||||+||||||+|+|+|+++++.....+.+++|||||.+++.||.
T Consensus 666 v~kLKpHQv~GvqFMwd~~~eSlkr~-~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt~~NW~ 744 (1567)
T KOG1015|consen 666 VIKLKPHQVDGVQFMWDCCCESLKRT-KKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNTALNWM 744 (1567)
T ss_pred HhhcCcccccchhHHHHHHHHHHHhh-cCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHHHHHHH
Confidence 99999999999999999999999987 45799999999999999999999999999999889999999999999999999
Q ss_pred HHHHHHCCC--CCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHh-hhcCCCCE
Q 000740 643 QEFMKWRPS--ELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICH-ALQDGPDI 718 (1321)
Q Consensus 643 ~E~~kw~p~--~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~-ll~~~~dl 718 (1321)
+||.+|.++ ...++.|+.+...++ ..|...+..|+..++|+|++|++||+|+.+..++.+.....+.. ++.+|||+
T Consensus 745 ~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdpGPD~ 824 (1567)
T KOG1015|consen 745 NEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDPGPDF 824 (1567)
T ss_pred HHHHHhcccccccccceeehhhhccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHHHhccCCCCCe
Confidence 999999985 234689999888776 78899999999999999999999999999999888875555544 44559999
Q ss_pred EEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChH
Q 000740 719 LVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 798 (1321)
Q Consensus 719 VIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~ 798 (1321)
|||||||.|||..|.+++|+.+++++|||+|||||+||||+|||||++|+.|++||+..+|+++|.+||.+|++.+++..
T Consensus 825 vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvNpI~nGq~~dST~~ 904 (1567)
T KOG1015|consen 825 VVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVNPIQNGQCADSTMV 904 (1567)
T ss_pred EEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcCccccCccCCCcHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccc--cchHHHHhhHHHH
Q 000740 799 DVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR--VSNEKIRKSFFAG 876 (1321)
Q Consensus 799 dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~--~~~~~~~~~~l~~ 876 (1321)
++++|++|+|+|+++|++||+|+++.++.+.||||++|||.|.||+.|..||.+|+. +.+.... ..+.+...++|..
T Consensus 905 DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~-h~~~~G~d~eg~~g~~arlf~d 983 (1567)
T KOG1015|consen 905 DVRVMKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLD-HLTGVGNDSEGGRGAGARLFQD 983 (1567)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHh-hccccCCccccccchhhhHHHH
Confidence 999999999999999999999999999999999999999999999999999999999 3332221 1223467789999
Q ss_pred HHHHHHHhcCcchhhhcccc----CCCCCcc---c--cCC----------------------CCccccccccccc-----
Q 000740 877 YQALAQIWNHPGILQLTKDK----GYPSRED---A--EDS----------------------SSDENMDYNVVIG----- 920 (1321)
Q Consensus 877 l~~LrkicnhP~Ll~~~~~~----~~~~~e~---~--~d~----------------------~~d~~~d~~~~~~----- 920 (1321)
|+.|++||+||+.++..... .+.+..+ . +++ ..|+.++.....+
T Consensus 984 fqmlsrIwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss~~~~~g~~ev~ 1063 (1567)
T KOG1015|consen 984 FQMLSRIWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSSGSGSDGDVEVI 1063 (1567)
T ss_pred HHHHHHHhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccccccccccccccccccCCchhhh
Confidence 99999999999998764431 1111111 0 111 0011222222222
Q ss_pred -CCCccchhhccC------------------C----CCCccchhhhhhhhhhhccccccccCchHHHHHHHHHHhhcCCC
Q 000740 921 -EKPRNMNDFLQG------------------K----NDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGD 977 (1321)
Q Consensus 921 -~~~~~~~d~~~~------------------~----~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~g~ 977 (1321)
.+.+..+.+... . .......+.||.+++.+..+..+.+|+||.+|++||..+.+.|+
T Consensus 1064 k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGD 1143 (1567)
T KOG1015|consen 1064 KVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGD 1143 (1567)
T ss_pred hhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcc
Confidence 111111111111 0 01112345799999999999999999999999999999999999
Q ss_pred eEEEEeCchhhHHHHHHHHhcCCCCCC-----------CcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEE
Q 000740 978 KSLVFSQSIPTLDLIEFYLSKLPRPGK-----------QGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTL 1046 (1321)
Q Consensus 978 KVLVFSQ~~~tLdlLe~~L~~l~~~~~-----------~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfL 1046 (1321)
|+|||||++.+||+|+.||..+.+.++ .| .|..|.+|+||||+++..+|+++.++||++.|-+.++||
T Consensus 1144 KlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eG-kW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~L 1222 (1567)
T KOG1015|consen 1144 KLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEG-KWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFL 1222 (1567)
T ss_pred eeEEeecccchhHHHHHHHHhhcccCcccccccccccccc-ceecCCceEEecCcccHHHHHHHHHHhcCcccceeEEEE
Confidence 999999999999999999998877655 33 499999999999999999999999999999999999999
Q ss_pred eeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcccc
Q 000740 1047 ISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQ 1126 (1321)
Q Consensus 1047 ISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~ 1126 (1321)
|||+||++||||.+||||||||.+|||+++.|+|+|+||+||+||||||||++.||||++||+||+.|+.++.+|||++|
T Consensus 1223 ISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQVTKqsls~RVVDeqQ 1302 (1567)
T KOG1015|consen 1223 ISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQVTKQSLSFRVVDEQQ 1302 (1567)
T ss_pred EeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHHhHhhhhhhhhhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCHHHHHHhhcCCCCCCCChhhhhhhccCCCCCccccccccccCCCCCCCCchHHHHHHhcccCCCcccccccccc
Q 000740 1127 VHRTISKEEMLHLFEFGDDENPDPLTAVSKENGQGSSQNTNCALKHKLPLSHEGCSDKLMESLLGKHHPRWISNYHEHET 1206 (1321)
Q Consensus 1127 ~~r~~s~~eL~eLf~~~~~e~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ll~~ll~~~~~~~i~~~~~h~s 1206 (1321)
+.|||+++||.+||.|.++-. ++-. ...++..|+|+|++.+|..| .+.|++||||||
T Consensus 1303 v~Rhy~~neLteLy~fep~~d-dp~s---------------------Er~~~~lpKdrllae~l~~~-q~~i~~y~ehdS 1359 (1567)
T KOG1015|consen 1303 VERHYTMNELTELYTFEPDLD-DPNS---------------------ERDTPMLPKDRLLAELLQIH-QEHIVGYHEHDS 1359 (1567)
T ss_pred HHHHhhHhhhHHHhhcCCccC-Cccc---------------------ccccccCCchhHHHHHHHHH-HHHhhhhhhhhh
Confidence 999999999999999997421 1100 01234466999999999998 778999999999
Q ss_pred ccccchhhcCCHHHHHHHHHHHHHHh------------------------------------------------hhhhcc
Q 000740 1207 LLQENEEERLSKEEQDMAWEVFRKSL------------------------------------------------EWEEVQ 1238 (1321)
Q Consensus 1207 ll~~~~~~~lt~~e~~~a~~~~~~~~------------------------------------------------~~~~~~ 1238 (1321)
||.+.++++||++|++.||.+|+.+. +|+.++
T Consensus 1360 ll~~~e~eelteee~k~aWaeye~Ek~~~~~r~~~pt~t~~p~~~~~q~~Q~~~~nR~~~~~~~nq~~~d~~~~e~ekv~ 1439 (1567)
T KOG1015|consen 1360 LLDHKEEEELTEEERKAAWAEYEAEKKVLTMRFNIPTGTNLPPVSFNQQTQYIPFNRGALSAMSNQQLEDLINQEREKVV 1439 (1567)
T ss_pred hhcchhHHHHHHHhhhhhhhhHHhhhccccccccCCCCCCCCccchhhhhhhhhhhhhhhhhhhHHHHHHHHhhhhhhee
Confidence 99999999999999999999998742 667777
Q ss_pred ccccCCCccccCccCCCCCCCCCCCCCCCCCCccccchhhhHhhhccchhHHHHhhcCCCCCcccccccccccccccccc
Q 000740 1239 RVTVDESISERKPASMSNLTPPAPETSSVTQPRGILRSHVVIRKCTNLSHKLTLRSQGTKPGCSTVCGECAQEISWENCK 1318 (1321)
Q Consensus 1239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1318 (1321)
|+|.....+-..|. +.-++.+.+++... .|++|+++.||...|.+|++++|-++|-.++|++|+..+.|++.-
T Consensus 1440 r~~ns~tavr~~pl-~~ll~~il~~~~~~------nr~qv~~~n~trqa~qetd~k~~~~~~~dll~~~~~~v~~v~~m~ 1512 (1567)
T KOG1015|consen 1440 RATNSVTAVRIQPL-EDLLSAILKENMNL------NRAQVQALNLTRQASQETDVKRREAIYNDLLTKQQMLVSCVQRML 1512 (1567)
T ss_pred ecccCccceeeccc-HHHHhhhccccchh------hHhhhHhhhhHHHHHHHHhhhccchhhHHHHHhhcceeeeHHHHH
Confidence 77776666655555 44444445555555 899999999999999999999999999999999999999999753
No 2
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=2.1e-107 Score=946.51 Aligned_cols=667 Identities=39% Similarity=0.644 Sum_probs=550.9
Q ss_pred ccccchhhhccccCCcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 539 AITGYIVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 539 ~~~~~i~~~~~~~~~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...++++|..++.+++.+++.+.|...|+|||+-||+|||++++++++|++. +.|+||||||.||||||+|+|+|+..+
T Consensus 228 ~~Grv~VN~~HPeeee~iflapqla~v~kPHQiGGiRFlYDN~iESl~rykk-SsGFGCILAHSMGLGKTlQVisF~dif 306 (1387)
T KOG1016|consen 228 KEGRVLVNAGHPEEEEDIFLAPQLAHVLKPHQIGGIRFLYDNTIESLGRYKK-SSGFGCILAHSMGLGKTLQVISFSDIF 306 (1387)
T ss_pred ccCcEEEecCCCCCCcceeehhhhHhhcCccccCcEEEehhhHHHHHhhccc-cCCcceeeeeccccCceeEEeehhHHH
Confidence 4456778888999999999999999999999999999999999999999987 689999999999999999999999999
Q ss_pred HHhcccCCCceEEEcchhHHHHHHHHHHHHCCCC-------CCCeEEEEecCcc--hhHHHHHHHHHhhcCCEEEEcccc
Q 000740 619 MRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSE-------LKPLRVFMLEDVS--RDRRAELLAKWRAKGGVFLIGYTA 689 (1321)
Q Consensus 619 l~~~~~~~k~vLIV~P~sLl~qW~~E~~kw~p~~-------~~~l~V~~~~~~~--~~~r~~~l~~~~~~~~VvI~tY~~ 689 (1321)
+++.. .+++|+|+|.+++.||..||.+|+|.- ...+.|+++.+.. ...|++++..|...|||++++|+|
T Consensus 307 lRhT~--AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYem 384 (1387)
T KOG1016|consen 307 LRHTK--AKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEM 384 (1387)
T ss_pred hhcCc--cceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHHhccCCEEEehHHH
Confidence 98865 689999999999999999999999862 2347889988764 468999999999999999999999
Q ss_pred cccccccccc-----------------c------chhhHHHHHh-hhcCCCCEEEEcCCcccCCcchhHHHHHhhcccce
Q 000740 690 FRNLSFGKHV-----------------K------DRNMAREICH-ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQR 745 (1321)
Q Consensus 690 ~r~l~~~~~~-----------------k------d~~~~~~i~~-ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~ 745 (1321)
||.+...+.. + ...+...+.. ++..++|+|||||+|+|||..+.++.+|+.|+++|
T Consensus 385 fRLL~lk~~~~~grpkkt~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrR 464 (1387)
T KOG1016|consen 385 FRLLILKTLPKKGRPKKTLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRR 464 (1387)
T ss_pred HHHHHHhcccccCCccccccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhce
Confidence 9987543111 0 0122333333 44569999999999999999999999999999999
Q ss_pred EEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhh
Q 000740 746 RIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNV 825 (1321)
Q Consensus 746 RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~ 825 (1321)
||+|||.|+||||.|||||++|++|++||+..+|.++|.+||.+|++.++++.++++|+.|+|+||.+|.+|++||+..+
T Consensus 465 RiVLTGYPLQNNLlEYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~Htv 544 (1387)
T KOG1016|consen 465 RIVLTGYPLQNNLLEYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTV 544 (1387)
T ss_pred eEEEeccccccchHHHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCcccc
Q 000740 826 VKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAE 905 (1321)
Q Consensus 826 v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~ 905 (1321)
++..||.|.|+||.|++|..|++||+.|+...... -.......-+.+.+|..+++|||||++++...++.....++..
T Consensus 545 Lk~~LP~k~EyViLvr~s~iQR~LY~~Fm~d~~r~--~~~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl 622 (1387)
T KOG1016|consen 545 LKKILPEKKEYVILVRKSQIQRQLYRNFMLDAKRE--IAANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDL 622 (1387)
T ss_pred HhhhcccccceEEEEeHHHHHHHHHHHHHHHHHHh--hccccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhh
Confidence 99999999999999999999999999998432110 0011122236889999999999999999876543211111100
Q ss_pred C------------------CCCcccccccccccCCCccchhhccCCC-------CCc-cchhhhhhhhhhhccccccccC
Q 000740 906 D------------------SSSDENMDYNVVIGEKPRNMNDFLQGKN-------DDG-FFQKDWWNDLLHEHTYKELDYS 959 (1321)
Q Consensus 906 d------------------~~~d~~~d~~~~~~~~~~~~~d~~~~~~-------~~~-~~~~~~~~~ll~~~~~~~~~~S 959 (1321)
+ ..++.........+.+.....+...... +.. .....|..+++..+..+.++.+
T Consensus 623 ~vee~~~ag~~~~~~P~~~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~ 702 (1387)
T KOG1016|consen 623 RVEEMKFAGLQQQQSPFNSIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENG 702 (1387)
T ss_pred hHHHHhhhcccccCCCCCCCCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCC
Confidence 0 0000000000000000000011111111 111 1223788899999999999999
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCC------CcccccCCCcEEecCCCCCHHHHHHHHHH
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGK------QGKLWKKGKDWYRLDGRTESSERQKLVER 1033 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~------~~~~w~~Gi~y~rldGsts~~eR~~lI~~ 1033 (1321)
+|+..+++++.+....|+|+|||||.+..|++|+++|.+...+.+ .+..|.++..|+++||.++..+|+++|++
T Consensus 703 pk~V~~~~~~des~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinq 782 (1387)
T KOG1016|consen 703 PKIVISLEILDESTQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQ 782 (1387)
T ss_pred CceEEEEeeeccccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHh
Confidence 999999999999999999999999999999999999998765433 34579999999999999999999999999
Q ss_pred HhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHH
Q 000740 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVT 1113 (1321)
Q Consensus 1034 Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~ 1113 (1321)
||++++-. ++||+||+||..||||.+||++|+||..|||+++.||++|+||+||+|+|+|||||+.+|+|.+||+||+.
T Consensus 783 fN~e~~ls-Wlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIs 861 (1387)
T KOG1016|consen 783 FNSEPGLS-WLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQIS 861 (1387)
T ss_pred ccCCCCce-eeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHh
Confidence 99987655 79999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccccccccCCHHHHHHhhcCCCCCCCChhhhhhhccCCCCCccccccccccCCCCCCCCchHHHHHHhccc
Q 000740 1114 KEGLAARVVDRQQVHRTISKEEMLHLFEFGDDENPDPLTAVSKENGQGSSQNTNCALKHKLPLSHEGCSDKLMESLLGKH 1193 (1321)
Q Consensus 1114 K~~La~~Vvd~~~~~r~~s~~eL~eLf~~~~~e~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ll~~ll~~~ 1193 (1321)
|++|+++|||+.++..+||+.|+..|+.|.+... +...++... .+..+.|..+..+-...
T Consensus 862 KqGmsdRvVDd~np~an~s~Ke~enLl~~~ea~~-~~~~~vnL~-------------------~~g~~~~e~~~~~t~~m 921 (1387)
T KOG1016|consen 862 KQGMSDRVVDDANPDANISQKELENLLMYDEAQD-VNHDKVNLT-------------------DDGDFGDEVLDSITKRM 921 (1387)
T ss_pred hccchhhhhcccCccccccHHHHHHHhhhhhccc-Cccccceec-------------------CCCCccchhhhhhhhhc
Confidence 9999999999999999999999999998876221 111111100 01112466666666666
Q ss_pred CCCcccc-ccccccccccchhhcCCHHHHHHHHHHHHHH
Q 000740 1194 HPRWISN-YHEHETLLQENEEERLSKEEQDMAWEVFRKS 1231 (1321)
Q Consensus 1194 ~~~~i~~-~~~h~sll~~~~~~~lt~~e~~~a~~~~~~~ 1231 (1321)
.|.++.+ +|+|++|+-+.+...|++.|+++|...|.+.
T Consensus 922 sp~~~~KkPf~he~l~~n~~shsl~k~EK~~a~~~~~~d 960 (1387)
T KOG1016|consen 922 SPMFAGKKPFLHETLIMNSESHSLSKQEKREAQLLFDRD 960 (1387)
T ss_pred CcccccCCCccccccCcCccccchhHHHHhHhhhhhhhh
Confidence 6778855 9999999999999999999999999999886
No 3
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.1e-102 Score=923.52 Aligned_cols=498 Identities=37% Similarity=0.618 Sum_probs=443.2
Q ss_pred CcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEE
Q 000740 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1321)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV 632 (1321)
+..+.||..|...|+|||.+||+|||+.+. .+.|||||||||||||+|+|+||+.++.++.. .+|+|||
T Consensus 193 ~~~~~vPg~I~~~Lf~yQreGV~WL~~L~~----------q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~-~~paLIV 261 (923)
T KOG0387|consen 193 EGGFKVPGFIWSKLFPYQREGVQWLWELYC----------QRAGGILGDEMGLGKTIQIISFLAALHHSGKL-TKPALIV 261 (923)
T ss_pred cccccccHHHHHHhhHHHHHHHHHHHHHHh----------ccCCCeecccccCccchhHHHHHHHHhhcccc-cCceEEE
Confidence 456899999999999999999999999864 46899999999999999999999999888544 4899999
Q ss_pred cchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHH----------HH-HHHHHhhcCCEEEEcccccccccccccccc
Q 000740 633 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRR----------AE-LLAKWRAKGGVFLIGYTAFRNLSFGKHVKD 701 (1321)
Q Consensus 633 ~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r----------~~-~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd 701 (1321)
||++++.||.+||++|+|. ++|+++|+.....| .. +...-...++|+||+|+.|+...
T Consensus 262 CP~Tii~qW~~E~~~w~p~----~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~------- 330 (923)
T KOG0387|consen 262 CPATIIHQWMKEFQTWWPP----FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG------- 330 (923)
T ss_pred ccHHHHHHHHHHHHHhCcc----eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC-------
Confidence 9999999999999999997 89999998765221 11 11222356789999999998532
Q ss_pred hhhHHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHh
Q 000740 702 RNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRN 781 (1321)
Q Consensus 702 ~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~ 781 (1321)
..++...|++||+||||+|||++|+++.++++|++.+||+||||||||||.|||+||+|+.|+.||+...|.+
T Consensus 331 -------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~ 403 (923)
T KOG0387|consen 331 -------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQ 403 (923)
T ss_pred -------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHh
Confidence 1244568999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhh-cCCCceEEEEEecCCHHHHHHHHHHHHhhccc
Q 000740 782 RFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFT 860 (1321)
Q Consensus 782 ~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~-~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~ 860 (1321)
.|..||..|++.++++..++.+++++..|+.+++||++||++.++.. .||.|.++|++|.||+.|+.+|++|++.....
T Consensus 404 ~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~ 483 (923)
T KOG0387|consen 404 NFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVN 483 (923)
T ss_pred hhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHH
Confidence 99999999999999999999999999999999999999999999999 99999999999999999999999998753221
Q ss_pred ccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccch
Q 000740 861 NDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQ 940 (1321)
Q Consensus 861 ~~~~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~ 940 (1321)
.. -....+.+.++..||+|||||.++....+...
T Consensus 484 ~i----~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~~------------------------------------------ 517 (923)
T KOG0387|consen 484 KI----LNGKRNCLSGIDILRKICNHPDLLDRRDEDEK------------------------------------------ 517 (923)
T ss_pred HH----HcCCccceechHHHHhhcCCcccccCcccccc------------------------------------------
Confidence 00 01123568899999999999999863211000
Q ss_pred hhhhhhhhhhccc-cccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecC
Q 000740 941 KDWWNDLLHEHTY-KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLD 1019 (1321)
Q Consensus 941 ~~~~~~ll~~~~~-~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rld 1019 (1321)
....+ +.+..||||.+|..+|..|...|+|||+|||...|||+|+.+|.. ..|+.|+|||
T Consensus 518 --------~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~-----------~~~ysylRmD 578 (923)
T KOG0387|consen 518 --------QGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRR-----------AKGYSYLRMD 578 (923)
T ss_pred --------cCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHh-----------cCCceEEEec
Confidence 00111 345779999999999999999999999999999999999999984 2699999999
Q ss_pred CCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEe
Q 000740 1020 GRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMA 1099 (1321)
Q Consensus 1020 Gsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva 1099 (1321)
|+|+...|+.+|++||+ +..++|||++|+|||+|+|||+|||||||||+|||++|.||..|+|||||+|.|.||||++
T Consensus 579 GtT~~~~R~~lVd~Fne--~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~t 656 (923)
T KOG0387|consen 579 GTTPAALRQKLVDRFNE--DESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLMT 656 (923)
T ss_pred CCCccchhhHHHHhhcC--CCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEec
Confidence 99999999999999998 5668899999999999999999999999999999999999999999999999999999999
Q ss_pred CCChHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhcCCCCC
Q 000740 1100 HGTMEEKIYKRQVTKEGLAARVVDRQQVHRTISKEEMLHLFEFGDDE 1146 (1321)
Q Consensus 1100 ~gTIEEkI~~rq~~K~~La~~Vvd~~~~~r~~s~~eL~eLf~~~~~e 1146 (1321)
.|||||+||.||+.|+.|+++++..+.+.|+|...+|.+||.+.+..
T Consensus 657 ~gTIEEkiY~rQI~Kq~Ltn~il~~p~q~RfF~~~dl~dLFsl~~~G 703 (923)
T KOG0387|consen 657 AGTIEEKIYHRQIFKQFLTNRILKNPEQRRFFKGNDLHDLFSLKDFG 703 (923)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHhcCHHHhhhcccccHHHHhCCCCCC
Confidence 99999999999999999999999999999999999999999998853
No 4
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=4.5e-93 Score=836.87 Aligned_cols=483 Identities=34% Similarity=0.518 Sum_probs=412.8
Q ss_pred cCcchh-hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 558 IPSSIS-AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 558 vP~~l~-~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
-|..+. +.|||||++|+.||...+ ..|.+|||||+||||||+|+|+|+.++....+. .+|+||+||.|
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~----------engingILaDEMGLGKTlQtIs~l~yl~~~~~~-~GPfLVi~P~S 227 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLY----------ENGINGILADEMGLGKTLQTISLLGYLKGRKGI-PGPFLVIAPKS 227 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHH----------hcCcccEeehhcccchHHHHHHHHHHHHHhcCC-CCCeEEEeeHh
Confidence 477777 899999999999998654 467899999999999999999999988765432 57999999999
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHh--hcCCEEEEcccccccccccccccchhhHHHHHhhhcC
Q 000740 637 VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1321)
Q Consensus 637 Ll~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~--~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~ 714 (1321)
++.||.+||.+|+|. +++..|+|.. ..|..+.+... ...+|+||||++.- +++. .+-..
T Consensus 228 tL~NW~~Ef~rf~P~----l~~~~~~Gdk-~eR~~~~r~~~~~~~fdV~iTsYEi~i--------~dk~------~lk~~ 288 (971)
T KOG0385|consen 228 TLDNWMNEFKRFTPS----LNVVVYHGDK-EERAALRRDIMLPGRFDVCITSYEIAI--------KDKS------FLKKF 288 (971)
T ss_pred hHHHHHHHHHHhCCC----cceEEEeCCH-HHHHHHHHHhhccCCCceEeehHHHHH--------hhHH------HHhcC
Confidence 999999999999998 8999999876 45555555543 35799999999863 2222 22334
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 794 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~ 794 (1321)
.|.++||||||+|||.+|..++.++.+.+.+|++|||||+||||.|||+|++||.|++|++...|..||......+..
T Consensus 289 ~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~-- 366 (971)
T KOG0385|consen 289 NWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQ-- 366 (971)
T ss_pred CceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCH--
Confidence 999999999999999999999999999999999999999999999999999999999999999999999865332221
Q ss_pred CChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000740 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 874 (1321)
Q Consensus 795 st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l 874 (1321)
.....||.+|+||++||.+.+|...||||.|.+++|.||+.|++.|..++...-....... ......+.
T Consensus 367 ----------e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~-~~~k~kL~ 435 (971)
T KOG0385|consen 367 ----------ELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEG-KGEKTKLQ 435 (971)
T ss_pred ----------HHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcccc-cchhhHHH
Confidence 1345689999999999999999999999999999999999999999999875322221111 11245788
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccc
Q 000740 875 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 954 (1321)
Q Consensus 875 ~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 954 (1321)
.+++.||++||||+|+.... .+.+ + .....
T Consensus 436 NI~mQLRKccnHPYLF~g~e-Pg~p--------------------------------------y-----------ttdeh 465 (971)
T KOG0385|consen 436 NIMMQLRKCCNHPYLFDGAE-PGPP--------------------------------------Y-----------TTDEH 465 (971)
T ss_pred HHHHHHHHhcCCccccCCCC-CCCC--------------------------------------C-----------CcchH
Confidence 99999999999999997421 1111 0 00112
Q ss_pred ccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHH
Q 000740 955 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1034 (1321)
Q Consensus 955 ~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~F 1034 (1321)
.+..||||.+|.++|..+.+.|+|||||||++.|||+|++|+.. +|+.|+||||+|+.++|...|+.|
T Consensus 466 Lv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~------------R~y~ycRiDGSt~~eeR~~aI~~f 533 (971)
T KOG0385|consen 466 LVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCML------------RGYEYCRLDGSTSHEEREDAIEAF 533 (971)
T ss_pred HHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHh------------cCceeEeecCCCCcHHHHHHHHhc
Confidence 35679999999999999999999999999999999999999974 799999999999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHH
Q 000740 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1114 (1321)
Q Consensus 1035 n~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K 1114 (1321)
|.++ ...+|||+||+|||+||||++|++||+||.+|||..|.||.+|+|||||+|+|.||||++++||||+|++|...|
T Consensus 534 n~~~-s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~K 612 (971)
T KOG0385|consen 534 NAPP-SEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAK 612 (971)
T ss_pred CCCC-cceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHHH
Confidence 9874 457899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccc----cccccCCHHHHHHhhcCCCCC
Q 000740 1115 EGLAARVVDRQ----QVHRTISKEEMLHLFEFGDDE 1146 (1321)
Q Consensus 1115 ~~La~~Vvd~~----~~~r~~s~~eL~eLf~~~~~e 1146 (1321)
.+|.+-|+... +.......+++..+..++.+.
T Consensus 613 L~Ld~~VIq~g~l~~~~~~~~~k~~~l~~~r~g~~~ 648 (971)
T KOG0385|consen 613 LRLDKLVIQQGRLEEQKSNGLGKDELLNLLRFGADP 648 (971)
T ss_pred hchhhhhhccCchhhhhccccchHHHHHHHHcCchh
Confidence 99999999877 333446789999999988643
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=7.9e-86 Score=801.59 Aligned_cols=519 Identities=32% Similarity=0.508 Sum_probs=433.5
Q ss_pred chhhhccccCCcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhc
Q 000740 543 YIVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1321)
Q Consensus 543 ~i~~~~~~~~~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~ 622 (1321)
.+.....+..-+++.+|-.|...||.||.+||.|+- + +++ .+-.|||||+||||||+|+|++++.-....
T Consensus 953 FLeqlldpski~~y~Ip~pI~a~LRkYQqEGVnWLa--F---Lnk-----y~LHGILcDDMGLGKTLQticilAsd~y~r 1022 (1549)
T KOG0392|consen 953 FLEQLLDPSKIPEYKIPVPISAKLRKYQQEGVNWLA--F---LNK-----YKLHGILCDDMGLGKTLQTICILASDHYKR 1022 (1549)
T ss_pred HHHHhcCcccCCccccccchhHHHHHHHHhccHHHH--H---HHH-----hcccceeeccccccHHHHHHHHHHHHHHhh
Confidence 333444555667799999999999999999999983 2 332 346899999999999999999998754332
Q ss_pred c-----cCCCceEEEcchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccc
Q 000740 623 N-----LGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK 697 (1321)
Q Consensus 623 ~-----~~~k~vLIV~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~ 697 (1321)
+ ....|.|||||.+|..+|+.|+.+|+|. ++|..|-|... .|..+ +.-..+.+|+|++|+.+|+
T Consensus 1023 ~s~~~e~~~~PSLIVCPsTLtGHW~~E~~kf~pf----L~v~~yvg~p~-~r~~l-R~q~~~~~iiVtSYDv~Rn----- 1091 (1549)
T KOG0392|consen 1023 RSESSEFNRLPSLIVCPSTLTGHWKSEVKKFFPF----LKVLQYVGPPA-ERREL-RDQYKNANIIVTSYDVVRN----- 1091 (1549)
T ss_pred cccchhhccCCeEEECCchhhhHHHHHHHHhcch----hhhhhhcCChH-HHHHH-HhhccccceEEeeHHHHHH-----
Confidence 1 1245899999999999999999999996 67776666543 33333 2334677999999999986
Q ss_pred cccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChH
Q 000740 698 HVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH 777 (1321)
Q Consensus 698 ~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~ 777 (1321)
++..+....|.|+|+||||-|||..++.++++++|++.||++|||||||||+.|||++++||+|+++|+.+
T Consensus 1092 ---------D~d~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEK 1162 (1549)
T KOG0392|consen 1092 ---------DVDYLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEK 1162 (1549)
T ss_pred ---------HHHHHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHH
Confidence 23445566999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhh
Q 000740 778 EFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLH 857 (1321)
Q Consensus 778 eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~ 857 (1321)
.|..+|.+||.......++..+.+....+...||+.+-||++||.+.+|.++||||..+.++|+|+|.|+++|+.|....
T Consensus 1163 qFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~ 1242 (1549)
T KOG0392|consen 1163 QFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKA 1242 (1549)
T ss_pred HHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998762
Q ss_pred ccccc------ccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhcc
Q 000740 858 GFTND------RVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQ 931 (1321)
Q Consensus 858 ~~~~~------~~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~ 931 (1321)
..... ..+.......+|++++.+|+.||||.+.....- +.. ..+
T Consensus 1243 k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~h---p~l-------------------------a~i-- 1292 (1549)
T KOG0392|consen 1243 KQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVH---PDL-------------------------AAI-- 1292 (1549)
T ss_pred ccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCc---chH-------------------------HHH--
Confidence 11100 000000144689999999999999998742110 000 000
Q ss_pred CCCCCccchhhhhhhh-hhhccccccccCchHHHHHHHHHHhhc--------------CCCeEEEEeCchhhHHHHHHHH
Q 000740 932 GKNDDGFFQKDWWNDL-LHEHTYKELDYSGKMVLLLDILTMCSN--------------MGDKSLVFSQSIPTLDLIEFYL 996 (1321)
Q Consensus 932 ~~~~~~~~~~~~~~~l-l~~~~~~~~~~S~Kl~~L~eiL~~~~~--------------~g~KVLVFSQ~~~tLdlLe~~L 996 (1321)
...+ ........+.+|+|+.+|.++|.+|-- .+||+|||+|+.+|+|+++.-|
T Consensus 1293 ------------~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL 1360 (1549)
T KOG0392|consen 1293 ------------VSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDL 1360 (1549)
T ss_pred ------------HHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHH
Confidence 0000 001122345789999999999998721 3689999999999999999988
Q ss_pred hcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchh
Q 000740 997 SKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYD 1076 (1321)
Q Consensus 997 ~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d 1076 (1321)
-+-. ...+.|.|+||++++.+|++++++||+ ++.+.|+|++|.+||+|||||+|++|||++-+|||..|
T Consensus 1361 ~k~~---------mpsVtymRLDGSVpp~~R~kiV~~FN~--DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrD 1429 (1549)
T KOG0392|consen 1361 FKKY---------MPSVTYMRLDGSVPPGDRQKIVERFNE--DPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRD 1429 (1549)
T ss_pred hhhh---------cCceeEEEecCCCCcHHHHHHHHHhcC--CCceeEEEEeeeccccccccCCCceEEEEecCCCchhh
Confidence 7632 346789999999999999999999999 46788999999999999999999999999999999999
Q ss_pred hhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHHhhc-CCC
Q 000740 1077 LQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLFE-FGD 1144 (1321)
Q Consensus 1077 ~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~~~-r~~s~~eL~eLf~-~~~ 1144 (1321)
.||++|||||||+|.|.|||||++||+||||+..|..|...++.||..++.. ..+..++|.+||+ .+.
T Consensus 1430 LQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqNasl~tM~TdqLLdlF~~~~g 1499 (1549)
T KOG0392|consen 1430 LQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQNASLETMDTDQLLDLFTVLDG 1499 (1549)
T ss_pred HHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhcccccccccCHHHHHHHhcccCC
Confidence 9999999999999999999999999999999999999999999999988765 6899999999998 444
No 6
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=1.1e-85 Score=805.78 Aligned_cols=481 Identities=34% Similarity=0.500 Sum_probs=404.5
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
..||.||++|+.||+-... .+.+||||||||||||+|+|+||.+++..... .+|+|||||.|++.+|+.
T Consensus 369 ~~LRdyQLeGlNWl~~~W~----------~~~n~ILADEmgLgktvqti~fl~~l~~~~~~-~gpflvvvplst~~~W~~ 437 (1373)
T KOG0384|consen 369 NELRDYQLEGLNWLLYSWY----------KRNNCILADEMGLGKTVQTITFLSYLFHSLQI-HGPFLVVVPLSTITAWER 437 (1373)
T ss_pred chhhhhhcccchhHHHHHH----------hcccceehhhcCCCcchHHHHHHHHHHHhhhc-cCCeEEEeehhhhHHHHH
Confidence 6899999999999987653 56899999999999999999999999887654 589999999999999999
Q ss_pred HHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHh--h-----cCCEEEEcccccccccccccccchhhHHHHHhhhcCCC
Q 000740 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--A-----KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 716 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~--~-----~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~ 716 (1321)
||..|+ . +++++|+|....+.....-+|. . +++++||||+++- ++.. .+-...|
T Consensus 438 ef~~w~-~----mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~L--------kDk~------~L~~i~w 498 (1373)
T KOG0384|consen 438 EFETWT-D----MNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVL--------KDKA------ELSKIPW 498 (1373)
T ss_pred HHHHHh-h----hceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHh--------ccHh------hhccCCc
Confidence 999999 4 7888888875443322222332 1 4678999999863 2332 2334499
Q ss_pred CEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCC
Q 000740 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 796 (1321)
Q Consensus 717 dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st 796 (1321)
.++++||||++||..|..+..+..++..+|+++||||+|||+.|||+|++||+|+.|.++.+|...|.. .+
T Consensus 499 ~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~---------~~ 569 (1373)
T KOG0384|consen 499 RYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDE---------ET 569 (1373)
T ss_pred ceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcc---------hh
Confidence 999999999999999999999999999999999999999999999999999999999999999987721 11
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000740 797 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 876 (1321)
Q Consensus 797 ~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~ 876 (1321)
. .-.+.|+..|+|||+||.+++|.+.||+|.|.++.|+||+.|++.|+.++...-..... ...+...+++..
T Consensus 570 e-------~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtK-G~~g~~~~lLNi 641 (1373)
T KOG0384|consen 570 E-------EQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTK-GAKGSTPSLLNI 641 (1373)
T ss_pred H-------HHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhc-cCCCCCchHHHH
Confidence 1 22456999999999999999999999999999999999999999999999753211111 111122579999
Q ss_pred HHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccccc
Q 000740 877 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 956 (1321)
Q Consensus 877 l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~ 956 (1321)
++.|+++||||+|+..+.+.... ++. + .. .....-..+
T Consensus 642 mmELkKccNHpyLi~gaee~~~~----------------------------~~~----~--~~--------~d~~L~~lI 679 (1373)
T KOG0384|consen 642 MMELKKCCNHPYLIKGAEEKILG----------------------------DFR----D--KM--------RDEALQALI 679 (1373)
T ss_pred HHHHHHhcCCccccCcHHHHHHH----------------------------hhh----h--cc--------hHHHHHHHH
Confidence 99999999999998644321110 000 0 00 011122335
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
..||||.+|.++|..+.+.|||||||||++.|||+|++||.. +|++|-||||+++.+.|+.+|++||.
T Consensus 680 ~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~------------r~ypfQRLDGsvrgelRq~AIDhFna 747 (1373)
T KOG0384|consen 680 QSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSL------------RGYPFQRLDGSVRGELRQQAIDHFNA 747 (1373)
T ss_pred HhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHH------------cCCcceeccCCcchHHHHHHHHhccC
Confidence 679999999999999999999999999999999999999996 79999999999999999999999999
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHH
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEG 1116 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~ 1116 (1321)
+... -+|||+||+|||+||||+.|++|||||.+|||..|.||..|+|||||++.|.|||||+.+|+||-|++|+..|+.
T Consensus 748 p~Sd-dFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~Kmv 826 (1373)
T KOG0384|consen 748 PDSD-DFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKMV 826 (1373)
T ss_pred CCCC-ceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHHHHHhh
Confidence 8554 579999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccc------ccccCCHHHHHHhhcCCCCC
Q 000740 1117 LAARVVDRQQ------VHRTISKEEMLHLFEFGDDE 1146 (1321)
Q Consensus 1117 La~~Vvd~~~------~~r~~s~~eL~eLf~~~~~e 1146 (1321)
|-..||.... -...|+++||.+|+.|+..+
T Consensus 827 LD~aVIQ~m~t~~~~s~~~~f~K~ELsaILKfGA~~ 862 (1373)
T KOG0384|consen 827 LDHAVIQRMDTKGKTSKSNPFSKEELSAILKFGAYE 862 (1373)
T ss_pred hHHHHHHhhccccccCCCCCCCHHHHHHHHHhchHH
Confidence 9999987543 24689999999999998754
No 7
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=1.1e-83 Score=760.73 Aligned_cols=507 Identities=33% Similarity=0.442 Sum_probs=392.9
Q ss_pred cCcchh--hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 558 IPSSIS--AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 558 vP~~l~--~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
.|+.+. .+|+|||+.||.||.-.+ ..+-.||||||||||||+|+|||++++.+.+. .+|.|||||.
T Consensus 390 qp~~l~s~i~LkdYQlvGvNWL~Lly----------k~~l~gILADEMGLGKTiQvIaFlayLkq~g~--~gpHLVVvPs 457 (941)
T KOG0389|consen 390 QPKLLSSGIQLKDYQLVGVNWLLLLY----------KKKLNGILADEMGLGKTIQVIAFLAYLKQIGN--PGPHLVVVPS 457 (941)
T ss_pred CccccCCCCcccchhhhhHHHHHHHH----------HccccceehhhccCcchhHHHHHHHHHHHcCC--CCCcEEEecc
Confidence 455553 469999999999996543 35678899999999999999999999998876 5699999999
Q ss_pred hHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHH---hhcCCEEEEcccccccccccccccchhhHHHHHhhh
Q 000740 636 NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW---RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 712 (1321)
Q Consensus 636 sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~---~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll 712 (1321)
|++.||.+||.+|+|. ++|..|+|+.. .|..+.... ...++|++|||..+.. ...++.+.+
T Consensus 458 STleNWlrEf~kwCPs----l~Ve~YyGSq~-ER~~lR~~i~~~~~~ydVllTTY~la~~-----~kdDRsflk------ 521 (941)
T KOG0389|consen 458 STLENWLREFAKWCPS----LKVEPYYGSQD-ERRELRERIKKNKDDYDVLLTTYNLAAS-----SKDDRSFLK------ 521 (941)
T ss_pred hhHHHHHHHHHHhCCc----eEEEeccCcHH-HHHHHHHHHhccCCCccEEEEEeecccC-----ChHHHHHHH------
Confidence 9999999999999998 99999999874 333332222 2367999999998753 122333332
Q ss_pred cCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCCh-HHHHhhccCCcccCC
Q 000740 713 QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-HEFRNRFQNPIENGQ 791 (1321)
Q Consensus 713 ~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~-~eF~~~f~~pI~~g~ 791 (1321)
...|++||.||||.+||..|.+++.|..|++++||+|||||+||||.||++|+.|+.|..|.+. ..+...|..--
T Consensus 522 ~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~---- 597 (941)
T KOG0389|consen 522 NQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKK---- 597 (941)
T ss_pred hccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccC----
Confidence 3389999999999999999999999999999999999999999999999999999999998765 45655554311
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHh
Q 000740 792 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 871 (1321)
Q Consensus 792 ~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~ 871 (1321)
..++.....-+...|......+++|||+||.+.+|.++||||..++.+|.|+..|+.+|..+++................
T Consensus 598 ~~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~ 677 (941)
T KOG0389|consen 598 TSDGDIENALLSQERISRAKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELK 677 (941)
T ss_pred CccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccc
Confidence 11333334444455677788899999999999999999999999999999999999999999886532211111111111
Q ss_pred hHHHHHHHHHHHhcCcchhhhccccCCCC---CccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhh
Q 000740 872 SFFAGYQALAQIWNHPGILQLTKDKGYPS---REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLL 948 (1321)
Q Consensus 872 ~~l~~l~~LrkicnhP~Ll~~~~~~~~~~---~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll 948 (1321)
+ ...+++||+++|||.|+...-...... .....+..-.. .......+....+.+|. +..+.
T Consensus 678 ~-~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~il~e~ay~~--~n~qyIfEDm~~msDfe-------------lHqLc 741 (941)
T KOG0389|consen 678 S-GNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRILNEPAYKK--ANEQYIFEDMEVMSDFE-------------LHQLC 741 (941)
T ss_pred c-chHHHHHHHHhcChhHHHHhccHHHHHHHHHHHhCchhhhh--cCHHHHHHHHHhhhHHH-------------HHHHH
Confidence 2 457899999999999886421100000 00000000000 00000011111111110 00011
Q ss_pred hhc--------cccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCC
Q 000740 949 HEH--------TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDG 1020 (1321)
Q Consensus 949 ~~~--------~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldG 1020 (1321)
... .-..+-.|||+..|..+|.++...|+||||||||+.|||+|+.+|.. .|+.|+|+||
T Consensus 742 ~~f~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~------------l~~~ylRLDG 809 (941)
T KOG0389|consen 742 CQFRHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDT------------LGYKYLRLDG 809 (941)
T ss_pred HhcCCCcccccCCchhhhhhhHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHh------------cCceEEeecC
Confidence 000 01123459999999999999999999999999999999999999997 5899999999
Q ss_pred CCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1021 RTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1021 sts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+|....||.+|+.||. +..++|||+||+|||.||||++||+||++|.++||..+.||.+|+||+||+|||+|||||++
T Consensus 810 sTqV~~RQ~lId~Fn~--d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk 887 (941)
T KOG0389|consen 810 STQVNDRQDLIDEFNT--DKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITK 887 (941)
T ss_pred CccchHHHHHHHhhcc--CCceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEec
Confidence 9999999999999998 46689999999999999999999999999999999999999999999999999999999999
Q ss_pred CChHHHHHHHHHHHHHHHHHHhcccc
Q 000740 1101 GTMEEKIYKRQVTKEGLAARVVDRQQ 1126 (1321)
Q Consensus 1101 gTIEEkI~~rq~~K~~La~~Vvd~~~ 1126 (1321)
+||||.|+.....|..|-..+.+...
T Consensus 888 ~TIEE~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 888 STIEEGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred CcHHHHHHHHHHHhhhhhhhhccCcc
Confidence 99999999999999999888876543
No 8
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=5.2e-83 Score=765.42 Aligned_cols=542 Identities=30% Similarity=0.466 Sum_probs=424.3
Q ss_pred CcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEE
Q 000740 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1321)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV 632 (1321)
...+.+|..|.+.||.||+.|+.||...+ .++.+||||||||||||+|+|+|++++.... ..++|.|||
T Consensus 603 qVktpvPsLLrGqLReYQkiGLdWLatLY----------eknlNGILADEmGLGKTIQtISllAhLACee-gnWGPHLIV 671 (1958)
T KOG0391|consen 603 QVKTPVPSLLRGQLREYQKIGLDWLATLY----------EKNLNGILADEMGLGKTIQTISLLAHLACEE-GNWGPHLIV 671 (1958)
T ss_pred eeccCchHHHHHHHHHHHHhhHHHHHHHH----------HhcccceehhhhcccchhHHHHHHHHHHhcc-cCCCCceEE
Confidence 45678999999999999999999997654 4678999999999999999999999886554 458999999
Q ss_pred cchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhh--cCCEEEEcccccccccccccccchhhHHHHHh
Q 000740 633 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA--KGGVFLIGYTAFRNLSFGKHVKDRNMAREICH 710 (1321)
Q Consensus 633 ~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~--~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ 710 (1321)
||++++.||.-||++|+|. ++|..|.|+.+.+ ....+.|.. .++|.||+|..+- +.+..
T Consensus 672 VpTsviLnWEMElKRwcPg----lKILTYyGs~kEr-keKRqgW~kPnaFHVCItSYklv~--------------qd~~A 732 (1958)
T KOG0391|consen 672 VPTSVILNWEMELKRWCPG----LKILTYYGSHKER-KEKRQGWAKPNAFHVCITSYKLVF--------------QDLTA 732 (1958)
T ss_pred eechhhhhhhHHHhhhCCc----ceEeeecCCHHHH-HHHhhcccCCCeeEEeehhhHHHH--------------hHHHH
Confidence 9999999999999999998 8999999987544 344567754 4689999998763 34444
Q ss_pred hhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccC
Q 000740 711 ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENG 790 (1321)
Q Consensus 711 ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g 790 (1321)
+-...|.|+|+||||+|||..|++++++..+++.+|++|||||+||+++|||+|++||+|..|.+...|+.||.+|+..-
T Consensus 733 FkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgm 812 (1958)
T KOG0391|consen 733 FKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGM 812 (1958)
T ss_pred HHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhh
Confidence 45569999999999999999999999999999999999999999999999999999999999999999999999997532
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHH
Q 000740 791 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 870 (1321)
Q Consensus 791 ~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~ 870 (1321)
-.. +.. ........||+.|+||++||.+.+|.+.||.|.|++|+|+||..|+.||+.|+......... ..+..
T Consensus 813 iEg-sqe----yn~klV~RLHkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKetL--kSGhf 885 (1958)
T KOG0391|consen 813 IEG-SQE----YNHKLVIRLHKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKETL--KSGHF 885 (1958)
T ss_pred ccc-chh----hchHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhhHh--hcCch
Confidence 211 111 11344567999999999999999999999999999999999999999999998754322211 12223
Q ss_pred hhHHHHHHHHHHHhcCcchhhhccc-c-------CCCCCcc-----c----cCC----CCcc--ccccccc---------
Q 000740 871 KSFFAGYQALAQIWNHPGILQLTKD-K-------GYPSRED-----A----EDS----SSDE--NMDYNVV--------- 918 (1321)
Q Consensus 871 ~~~l~~l~~LrkicnhP~Ll~~~~~-~-------~~~~~e~-----~----~d~----~~d~--~~d~~~~--------- 918 (1321)
.+.+..++.||++||||.|+.-.-- . .+..... . .+. .+.. ......+
T Consensus 886 msVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sA 965 (1958)
T KOG0391|consen 886 MSVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSA 965 (1958)
T ss_pred hHHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhcc
Confidence 3678999999999999999853111 0 0000000 0 000 0000 0000000
Q ss_pred --------ccC---CCc---------cc----------hh----------------------------hccCCC------
Q 000740 919 --------IGE---KPR---------NM----------ND----------------------------FLQGKN------ 934 (1321)
Q Consensus 919 --------~~~---~~~---------~~----------~d----------------------------~~~~~~------ 934 (1321)
... .+. .. .. +....+
T Consensus 966 spl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~ 1045 (1958)
T KOG0391|consen 966 SPLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQ 1045 (1958)
T ss_pred cccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeee
Confidence 000 000 00 00 000000
Q ss_pred ------------------------------------------------CC--ccc-------------------------
Q 000740 935 ------------------------------------------------DD--GFF------------------------- 939 (1321)
Q Consensus 935 ------------------------------------------------~~--~~~------------------------- 939 (1321)
++ .++
T Consensus 1046 htt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~ 1125 (1958)
T KOG0391|consen 1046 HTTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGG 1125 (1958)
T ss_pred eecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCcccccc
Confidence 00 000
Q ss_pred --h---h----------------------------------hhh------------------hhhhhhccc---------
Q 000740 940 --Q---K----------------------------------DWW------------------NDLLHEHTY--------- 953 (1321)
Q Consensus 940 --~---~----------------------------------~~~------------------~~ll~~~~~--------- 953 (1321)
. + .|- .+++....+
T Consensus 1126 klee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~p 1205 (1958)
T KOG0391|consen 1126 KLEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAP 1205 (1958)
T ss_pred chhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCC
Confidence 0 0 000 000000000
Q ss_pred -----------------------------------------------cc-cccCchHHHHHHHHHHhhcCCCeEEEEeCc
Q 000740 954 -----------------------------------------------KE-LDYSGKMVLLLDILTMCSNMGDKSLVFSQS 985 (1321)
Q Consensus 954 -----------------------------------------------~~-~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~ 985 (1321)
.. -..+||+..|.=+|+++...|+|||||+|+
T Consensus 1206 pslra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQM 1285 (1958)
T KOG0391|consen 1206 PSLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQM 1285 (1958)
T ss_pred hhhcCCCCCcccchHHHHHHHHHHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHH
Confidence 00 012789999999999999999999999999
Q ss_pred hhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEE
Q 000740 986 IPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI 1065 (1321)
Q Consensus 986 ~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VI 1065 (1321)
+.|||+|+.||.. .|+.|+||||+|+.++|+.++++||. +.+++|||+||+.||+||||++||+||
T Consensus 1286 tkmLDVLeqFLny------------HgylY~RLDg~t~vEqRQaLmerFNa--D~RIfcfILSTrSggvGiNLtgADTVv 1351 (1958)
T KOG0391|consen 1286 TKMLDVLEQFLNY------------HGYLYVRLDGNTSVEQRQALMERFNA--DRRIFCFILSTRSGGVGINLTGADTVV 1351 (1958)
T ss_pred HHHHHHHHHHHhh------------cceEEEEecCCccHHHHHHHHHHhcC--CCceEEEEEeccCCccccccccCceEE
Confidence 9999999999996 79999999999999999999999998 678999999999999999999999999
Q ss_pred EEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHHhhcCCC
Q 000740 1066 IVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLFEFGD 1144 (1321)
Q Consensus 1066 i~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~~~-r~~s~~eL~eLf~~~~ 1144 (1321)
|||.+|||+.|.||.+|+|||||+|.|+|||||.+.|||++|+++...|+.|-+-++++.+.. .+|+..++.+||+...
T Consensus 1352 FYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdfTt~ff~q~ti~dLFd~~~ 1431 (1958)
T KOG0391|consen 1352 FYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDFTTAFFKQRTIRDLFDVYL 1431 (1958)
T ss_pred EecCCCCchhhhHHHHHHHhhcCccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCccHHHHhhhhHHHHhcCCC
Confidence 999999999999999999999999999999999999999999999999999999999998876 6889999999998755
Q ss_pred C
Q 000740 1145 D 1145 (1321)
Q Consensus 1145 ~ 1145 (1321)
.
T Consensus 1432 p 1432 (1958)
T KOG0391|consen 1432 P 1432 (1958)
T ss_pred c
Confidence 3
No 9
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=2.5e-82 Score=807.25 Aligned_cols=481 Identities=31% Similarity=0.462 Sum_probs=404.4
Q ss_pred ccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 557 ~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
..|..+...|+|||++|++||+..+ ..+.||||||+||||||+|+|+++.++..... ..+|+|||||++
T Consensus 161 ~qP~~i~~~Lr~YQleGlnWLi~l~----------~~g~gGILADEMGLGKTlQaIalL~~L~~~~~-~~gp~LIVvP~S 229 (1033)
T PLN03142 161 VQPSCIKGKMRDYQLAGLNWLIRLY----------ENGINGILADEMGLGKTLQTISLLGYLHEYRG-ITGPHMVVAPKS 229 (1033)
T ss_pred cCChHhccchHHHHHHHHHHHHHHH----------hcCCCEEEEeCCCccHHHHHHHHHHHHHHhcC-CCCCEEEEeChH
Confidence 4688899999999999999998754 35789999999999999999999988765432 357999999999
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHH--hhcCCEEEEcccccccccccccccchhhHHHHHhhhcC
Q 000740 637 VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1321)
Q Consensus 637 Ll~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~--~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~ 714 (1321)
++.||.+||.+|+|. +.++.+++....+. .....+ ...++|+||+|+++.. ....+...
T Consensus 230 lL~nW~~Ei~kw~p~----l~v~~~~G~~~eR~-~~~~~~~~~~~~dVvITSYe~l~~--------------e~~~L~k~ 290 (1033)
T PLN03142 230 TLGNWMNEIRRFCPV----LRAVKFHGNPEERA-HQREELLVAGKFDVCVTSFEMAIK--------------EKTALKRF 290 (1033)
T ss_pred HHHHHHHHHHHHCCC----CceEEEeCCHHHHH-HHHHHHhcccCCCcceecHHHHHH--------------HHHHhccC
Confidence 999999999999986 78888888654332 222222 2357899999998753 12233445
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 794 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~ 794 (1321)
.|++|||||||+|||..|+++++++.+++.+||+|||||++|++.|||+|++||.|+.|++...|..+|..+...+.
T Consensus 291 ~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~--- 367 (1033)
T PLN03142 291 SWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQ--- 367 (1033)
T ss_pred CCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccch---
Confidence 89999999999999999999999999999999999999999999999999999999999999999999986322111
Q ss_pred CChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000740 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 874 (1321)
Q Consensus 795 st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l 874 (1321)
......|+.+|+||++||++.++...|||+.+.+++|.||+.|+.+|..++....... ........++
T Consensus 368 ---------~e~i~~L~~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l---~~g~~~~~Ll 435 (1033)
T PLN03142 368 ---------QEVVQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVV---NAGGERKRLL 435 (1033)
T ss_pred ---------HHHHHHHHHHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH---hccccHHHHH
Confidence 1235568999999999999999999999999999999999999999999886432111 1112234678
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccc
Q 000740 875 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 954 (1321)
Q Consensus 875 ~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 954 (1321)
..++.||++|+||+++...... . .... ...
T Consensus 436 nilmqLRk~cnHP~L~~~~ep~-~--------------------------------------~~~~-----------~e~ 465 (1033)
T PLN03142 436 NIAMQLRKCCNHPYLFQGAEPG-P--------------------------------------PYTT-----------GEH 465 (1033)
T ss_pred HHHHHHHHHhCCHHhhhccccc-C--------------------------------------cccc-----------hhH
Confidence 8899999999999987522100 0 0000 001
Q ss_pred ccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHH
Q 000740 955 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1034 (1321)
Q Consensus 955 ~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~F 1034 (1321)
.+..|+|+.+|.++|..+...|+||||||||+.++++|+++|.. .|+.|++|||+++..+|+.+|++|
T Consensus 466 lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~------------~g~~y~rIdGsts~~eRq~~Id~F 533 (1033)
T PLN03142 466 LVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMY------------RGYQYCRIDGNTGGEDRDASIDAF 533 (1033)
T ss_pred HhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHH------------cCCcEEEECCCCCHHHHHHHHHHh
Confidence 23568999999999999999999999999999999999999985 689999999999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHH
Q 000740 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1114 (1321)
Q Consensus 1035 n~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K 1114 (1321)
|++.+ ...|||+||+|||+||||+.||+||+||++|||+.+.||+||+|||||+++|+||||++.|||||+|++++..|
T Consensus 534 n~~~s-~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~K 612 (1033)
T PLN03142 534 NKPGS-EKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKK 612 (1033)
T ss_pred ccccC-CceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHH
Confidence 97643 34689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccccc--cccCCHHHHHHhhcCCCC
Q 000740 1115 EGLAARVVDRQQV--HRTISKEEMLHLFEFGDD 1145 (1321)
Q Consensus 1115 ~~La~~Vvd~~~~--~r~~s~~eL~eLf~~~~~ 1145 (1321)
..+...|++.... ...++.+||.+||.++.+
T Consensus 613 l~Ld~~Vi~~g~~~~~~~~~~~eL~~ll~~ga~ 645 (1033)
T PLN03142 613 LALDALVIQQGRLAEQKTVNKDELLQMVRYGAE 645 (1033)
T ss_pred HHHHHHHHhcCcccccccCCHHHHHHHHHhChH
Confidence 9999999986543 257899999999998764
No 10
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=2.1e-81 Score=765.80 Aligned_cols=515 Identities=35% Similarity=0.592 Sum_probs=419.1
Q ss_pred cccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccC---CCceE
Q 000740 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLG---LRTAL 630 (1321)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~---~k~vL 630 (1321)
..+.+.|.+...|||||.+|++|||+++...+. +....|||+||+||+|||+|+|+||+++++..+.. ..+.|
T Consensus 227 v~v~~dP~l~~~LrPHQ~EG~~FL~knl~g~~~----~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~l 302 (776)
T KOG0390|consen 227 VHVVIDPLLKKILRPHQREGFEFLYKNLAGLIR----PKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPL 302 (776)
T ss_pred ceEEecccHhhhcCchHHHHHHHHHhhhhcccc----cCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccE
Confidence 467889999999999999999999999876432 12568999999999999999999999999886541 25789
Q ss_pred EEcchhHHHHHHHHHHHHCCC-CCCCeEEEEecCcchhHHHHHHHHHh------hcCCEEEEcccccccccccccccchh
Q 000740 631 IVTPVNVLHNWKQEFMKWRPS-ELKPLRVFMLEDVSRDRRAELLAKWR------AKGGVFLIGYTAFRNLSFGKHVKDRN 703 (1321)
Q Consensus 631 IV~P~sLl~qW~~E~~kw~p~-~~~~l~V~~~~~~~~~~r~~~l~~~~------~~~~VvI~tY~~~r~l~~~~~~kd~~ 703 (1321)
||||.+||.||.+||.+|... .+.++.++ +.... .......|. -..-|.+++|++++
T Consensus 303 VV~P~sLv~nWkkEF~KWl~~~~i~~l~~~---~~~~~-~w~~~~sil~~~~~~~~~~vli~sye~~~------------ 366 (776)
T KOG0390|consen 303 VVAPSSLVNNWKKEFGKWLGNHRINPLDFY---STKKS-SWIKLKSILFLGYKQFTTPVLIISYETAS------------ 366 (776)
T ss_pred EEccHHHHHHHHHHHHHhccccccceeeee---cccch-hhhhhHHHHHhhhhheeEEEEeccHHHHH------------
Confidence 999999999999999999874 44444444 33322 111111111 12346777787765
Q ss_pred hHHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhc
Q 000740 704 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRF 783 (1321)
Q Consensus 704 ~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f 783 (1321)
.....++...+++|||||||++||..|.++++|..+++++|++|||||+||++.|||++++|++|++||+...|.+.|
T Consensus 367 --~~~~~il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~ 444 (776)
T KOG0390|consen 367 --DYCRKILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKF 444 (776)
T ss_pred --HHHHHHhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHh
Confidence 334566777999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccc
Q 000740 784 QNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 863 (1321)
Q Consensus 784 ~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~ 863 (1321)
..|+..++..+.+..+... ..+...|..+...|+.||+...+.+.||++.+++|++.+|+.|..+|..++... ..
T Consensus 445 ~~~i~~~~~~~~s~e~~~~-~~rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~~--- 519 (776)
T KOG0390|consen 445 EIPILRGRDADASEEDRER-EERLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-KM--- 519 (776)
T ss_pred hcccccccCCCcchhhhhh-HHHHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH-Hh---
Confidence 9999999998888777666 566889999999999999999999999999999999999999999999998753 11
Q ss_pred cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhh
Q 000740 864 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 943 (1321)
Q Consensus 864 ~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~ 943 (1321)
.......+..+..|.++||||.|+........ ++........
T Consensus 520 ---~~~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~----------e~~~~~~~~~------------------------- 561 (776)
T KOG0390|consen 520 ---RTLKGYALELITKLKKLCNHPSLLLLCEKTEK----------EKAFKNPALL------------------------- 561 (776)
T ss_pred ---hhhhcchhhHHHHHHHHhcCHHhhcccccccc----------cccccChHhh-------------------------
Confidence 11122367788899999999999852211000 0000000000
Q ss_pred hhhhhhhccccccccCchHHHHHHHHHHhhc-CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCC
Q 000740 944 WNDLLHEHTYKELDYSGKMVLLLDILTMCSN-MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRT 1022 (1321)
Q Consensus 944 ~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~-~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGst 1022 (1321)
...............|+|+..|+.+|....+ .-.++++-++++.++++++.++. |. |+.+++|||+|
T Consensus 562 ~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~-----------~~-g~~~~rLdG~~ 629 (776)
T KOG0390|consen 562 LDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCR-----------WR-GYEVLRLDGKT 629 (776)
T ss_pred hcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHh-----------hc-CceEEEEcCCC
Confidence 0000001112233458999999999865544 34677888888899999999887 55 99999999999
Q ss_pred CHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCC
Q 000740 1023 ESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGT 1102 (1321)
Q Consensus 1023 s~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gT 1102 (1321)
+..+|+.+|+.||++.++. +|||+|++|||+||||++|+|||+||++|||+.+.||++||||.||+|+||||||++.||
T Consensus 630 ~~~qRq~~vd~FN~p~~~~-~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatGt 708 (776)
T KOG0390|consen 630 SIKQRQKLVDTFNDPESPS-FVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATGT 708 (776)
T ss_pred chHHHHHHHHhccCCCCCc-eEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEEeecCCC
Confidence 9999999999999987654 799999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHhcccc-ccccCCHHHHHHhhcCCCCC
Q 000740 1103 MEEKIYKRQVTKEGLAARVVDRQQ-VHRTISKEEMLHLFEFGDDE 1146 (1321)
Q Consensus 1103 IEEkI~~rq~~K~~La~~Vvd~~~-~~r~~s~~eL~eLf~~~~~e 1146 (1321)
+||+||+||..|+.|+..|++... ..++++.+++..+|.+..++
T Consensus 709 iEEk~~qrq~~K~~lS~~v~~~~~~~~~~~~~~~~~~lf~~~~~~ 753 (776)
T KOG0390|consen 709 IEEKIYQRQTHKEGLSSMVFDEEEDVEKHFFTEDLKTLFDLELDT 753 (776)
T ss_pred chHHHHHHHHHhhhhhheEEecccccccccchHHHHHHHhhhccc
Confidence 999999999999999999999764 56788889999999877654
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=2.6e-80 Score=717.55 Aligned_cols=513 Identities=31% Similarity=0.453 Sum_probs=407.8
Q ss_pred CcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEE
Q 000740 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1321)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV 632 (1321)
...|+.|.-+.++|+.||+.|++||...+ ++|-+||||||||||||+|+|++++++.+..+. ++|+|||
T Consensus 555 t~tV~qPkil~ctLKEYQlkGLnWLvnlY----------dqGiNGILADeMGLGKTVQsisvlAhLaE~~nI-wGPFLVV 623 (1185)
T KOG0388|consen 555 TRTVPQPKILKCTLKEYQLKGLNWLVNLY----------DQGINGILADEMGLGKTVQSISVLAHLAETHNI-WGPFLVV 623 (1185)
T ss_pred eeeccCchhhhhhhHHHhhccHHHHHHHH----------HccccceehhhhccchhHHHHHHHHHHHHhccC-CCceEEe
Confidence 45688999999999999999999998765 578899999999999999999999999887664 6999999
Q ss_pred cchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHH--------hhcCCEEEEcccccccccccccccchhh
Q 000740 633 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--------RAKGGVFLIGYTAFRNLSFGKHVKDRNM 704 (1321)
Q Consensus 633 ~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~--------~~~~~VvI~tY~~~r~l~~~~~~kd~~~ 704 (1321)
+|+++++||.+||.+|+|. +++..|.|+... |..+.+.| ...++|+||+|+++.. +..+
T Consensus 624 tpaStL~NWaqEisrFlP~----~k~lpywGs~~e-RkiLrKfw~rKnmY~rna~fhVviTSYQlvVt--------Deky 690 (1185)
T KOG0388|consen 624 TPASTLHNWAQEISRFLPS----FKVLPYWGSPSE-RKILRKFWNRKNMYRRNAPFHVVITSYQLVVT--------DEKY 690 (1185)
T ss_pred ehHHHHhHHHHHHHHhCcc----ceeecCcCChhh-hHHHHHhcchhhhhccCCCceEEEEeeeeeec--------hHHH
Confidence 9999999999999999997 888888886543 33333333 2467899999998743 3333
Q ss_pred HHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhcc
Q 000740 705 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQ 784 (1321)
Q Consensus 705 ~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~ 784 (1321)
.+ ...|.++|+|||+.||...|.+++.+..++++.|++||||||||+..|||+|++|++|.+|.+..+|..||.
T Consensus 691 ~q------kvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFS 764 (1185)
T KOG0388|consen 691 LQ------KVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFS 764 (1185)
T ss_pred HH------hhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHh
Confidence 33 338999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhccccccc
Q 000740 785 NPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRV 864 (1321)
Q Consensus 785 ~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~ 864 (1321)
+-|+..-..+.+..+. ....||.+|+|||+||.+++|..+|..|++..|+|.||..|+.+|+.+-....
T Consensus 765 KdIEshAe~~~tlneq-----qL~RLH~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS------ 833 (1185)
T KOG0388|consen 765 KDIESHAEMNTTLNEQ-----QLQRLHAILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSIS------ 833 (1185)
T ss_pred hhhHhHHHhcCCcCHH-----HHHHHHHHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhh------
Confidence 9998766655554443 34568999999999999999999999999999999999999999998865432
Q ss_pred chHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCC---C--cccccc------------------------
Q 000740 865 SNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSS---S--DENMDY------------------------ 915 (1321)
Q Consensus 865 ~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~---~--d~~~d~------------------------ 915 (1321)
...++..++.||++||||.|+...........+..+..+ + ..-+++
T Consensus 834 -----~~E~~~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~ 908 (1185)
T KOG0388|consen 834 -----SMEMENLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIER 908 (1185)
T ss_pred -----HHHHHHHHHHHHHhcCChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHH
Confidence 112345889999999999999865443222111100000 0 000000
Q ss_pred -----cccccCCCccchhh--ccCCCCCcc--------------------chhhhhhhhhh-------------------
Q 000740 916 -----NVVIGEKPRNMNDF--LQGKNDDGF--------------------FQKDWWNDLLH------------------- 949 (1321)
Q Consensus 916 -----~~~~~~~~~~~~d~--~~~~~~~~~--------------------~~~~~~~~ll~------------------- 949 (1321)
..+.|+.+.....- +..+.+.-. ........++.
T Consensus 909 ~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~a 988 (1185)
T KOG0388|consen 909 INGLRRIVNGEGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAA 988 (1185)
T ss_pred HhhhHhhhcCCCcchhcccceeeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCC
Confidence 00111111000000 000000000 00000000000
Q ss_pred ------------hc-----------------cccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCC
Q 000740 950 ------------EH-----------------TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLP 1000 (1321)
Q Consensus 950 ------------~~-----------------~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~ 1000 (1321)
+. .-..+..|+|+..|.++|..+...||+||+|-|++.|+++|++||..
T Consensus 989 pPvLI~~ead~PeId~E~~~~pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~y-- 1066 (1185)
T KOG0388|consen 989 PPVLISNEADLPEIDLENRHIPLNTTIYVPPMNTFITDSGKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVY-- 1066 (1185)
T ss_pred CCeeeecccCCCCCCccccCcccccceecCcHHhhhccccceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHh--
Confidence 00 00113469999999999999999999999999999999999999986
Q ss_pred CCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhh
Q 000740 1001 RPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAI 1080 (1321)
Q Consensus 1001 ~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAi 1080 (1321)
+|+.|+|+||+....+|..+|..|+. +.++|||+||+|||+|||||+|++|||||.+|||+.+.||+
T Consensus 1067 ----------r~Y~ylRLDGSsk~~dRrd~vrDwQ~---sdiFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAM 1133 (1185)
T KOG0388|consen 1067 ----------RGYTYLRLDGSSKASDRRDVVRDWQA---SDIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAM 1133 (1185)
T ss_pred ----------hccceEEecCcchhhHHHHHHhhccC---CceEEEEEecccCcccccccccceEEEecCCCCcchhhHHH
Confidence 79999999999999999999999997 56899999999999999999999999999999999999999
Q ss_pred hhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcccc
Q 000740 1081 YRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQ 1126 (1321)
Q Consensus 1081 GRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~ 1126 (1321)
+|+||+||++.|+||||++.|||||+|.+|...|......|+.+..
T Consensus 1134 DRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm~G~~ 1179 (1185)
T KOG0388|consen 1134 DRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVMHGNI 1179 (1185)
T ss_pred HHHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHHcCCc
Confidence 9999999999999999999999999999999999999998887643
No 12
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=8.1e-79 Score=733.65 Aligned_cols=500 Identities=32% Similarity=0.476 Sum_probs=424.0
Q ss_pred hccccCCcccccCcch-hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccC
Q 000740 547 VVREKGEEAVRIPSSI-SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLG 625 (1321)
Q Consensus 547 ~~~~~~~~~v~vP~~l-~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~ 625 (1321)
.++...+.....|..+ .+.|++||+.|++||... ++.+.+||||||||||||+|+|++|.++++..+.
T Consensus 375 ~AH~I~E~v~~Qps~l~GG~Lk~YQl~GLqWmVSL----------yNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~- 443 (1157)
T KOG0386|consen 375 TAHPIKENVAKQPSSLQGGELKEYQLHGLQWMVSL----------YNNNLNGILADEMGLGKTIQTISLITYLMEHKQM- 443 (1157)
T ss_pred hcchhhhccccCcchhcCCCCchhhhhhhHHHhhc----------cCCCcccccchhcccchHHHHHHHHHHHHHHccc-
Confidence 3445555566677666 478999999999999764 3677899999999999999999999999988654
Q ss_pred CCceEEEcchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhH
Q 000740 626 LRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMA 705 (1321)
Q Consensus 626 ~k~vLIV~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~ 705 (1321)
.+|.|||||.+++.||..||.+|.|+ +..+.|.|....++...-.....+++|++|+|+.+- +++.+.
T Consensus 444 ~GP~LvivPlstL~NW~~Ef~kWaPS----v~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyii--------kdk~lL 511 (1157)
T KOG0386|consen 444 QGPFLIIVPLSTLVNWSSEFPKWAPS----VQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYII--------KDKALL 511 (1157)
T ss_pred CCCeEEeccccccCCchhhccccccc----eeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhc--------CCHHHH
Confidence 58999999999999999999999997 778888887665555444444578899999998753 244333
Q ss_pred HHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHh-hcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhcc
Q 000740 706 REICHALQDGPDILVCDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQ 784 (1321)
Q Consensus 706 ~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~-~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~ 784 (1321)
. ...|.++||||+|+|||..++.+..+. ...+++|++|||||+||++.|+|+||+|+-|.+|.+...|..||.
T Consensus 512 s------KI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN 585 (1157)
T KOG0386|consen 512 S------KISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFN 585 (1157)
T ss_pred h------ccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhh
Confidence 2 339999999999999999999999998 679999999999999999999999999999999999999999999
Q ss_pred CCcccCCC-CCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccc
Q 000740 785 NPIENGQH-TNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 863 (1321)
Q Consensus 785 ~pI~~g~~-~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~ 863 (1321)
.|+.+-+. ...+..+.-++ .+.||++|+||++||.+++|...||.|+++++.|.||..|+.+|..+.+.-....+.
T Consensus 586 ~PFantGek~eLteEEtlLI---IrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~ 662 (1157)
T KOG0386|consen 586 QPFANTGEKVELTEEETLLI---IRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDT 662 (1157)
T ss_pred hhhhhcCCcccccchHHHHH---HHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCc
Confidence 99987653 34455554443 455889999999999999999999999999999999999999999988654443333
Q ss_pred cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhh
Q 000740 864 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 943 (1321)
Q Consensus 864 ~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~ 943 (1321)
..+.+..+.++..++.||+|||||+++......-.. .|
T Consensus 663 ~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~------------------------------------------~~ 700 (1157)
T KOG0386|consen 663 AKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTL------------------------------------------HY 700 (1157)
T ss_pred hhccccchhhhhHhHHHHHhcCCchhhhhhcccccc------------------------------------------cc
Confidence 334455667899999999999999998533211000 00
Q ss_pred hhhhhhhccccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCC
Q 000740 944 WNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE 1023 (1321)
Q Consensus 944 ~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts 1023 (1321)
-. ...+..|||+.+|..+|.++...||+||.|+|++..+++++.||.- .++.|.|+||+|+
T Consensus 701 ~~-------~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~------------~~~kYlRLDG~TK 761 (1157)
T KOG0386|consen 701 DI-------KDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQI------------REYKYLRLDGQTK 761 (1157)
T ss_pred Ch-------hHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhh------------hhhheeeecCCcc
Confidence 00 1123569999999999999999999999999999999999999985 7899999999999
Q ss_pred HHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1024 SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1024 ~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
..+|..+++.||.| +..+++||+||+|||+|+|||.|++||+||++|||..+.||.+|+|||||+++|.|+||++.+++
T Consensus 762 ~~eRg~ll~~FN~P-ds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~sv 840 (1157)
T KOG0386|consen 762 VEERGDLLEIFNAP-DSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSV 840 (1157)
T ss_pred hhhHHHHHHHhcCC-CCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhhHH
Confidence 99999999999987 45699999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhh
Q 000740 1104 EEKIYKRQVTKEGLAARVVDRQQVHRTISKEEMLHLF 1140 (1321)
Q Consensus 1104 EEkI~~rq~~K~~La~~Vvd~~~~~r~~s~~eL~eLf 1140 (1321)
||+|+.++..|..+..+|+..+.....=|.+|-.+++
T Consensus 841 eE~il~~a~~Kl~~d~kviqag~fdn~st~~eR~~~L 877 (1157)
T KOG0386|consen 841 EEKILAEAFYKLDVDGKVIQAGKFDNKSTAEEREMFL 877 (1157)
T ss_pred HHHHHHHHHHhcCchHhhhhcccccCCCcHHHHHHHH
Confidence 9999999999999999999887766665665544443
No 13
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=5.3e-72 Score=653.55 Aligned_cols=533 Identities=25% Similarity=0.382 Sum_probs=406.7
Q ss_pred cccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcc------cCCC
Q 000740 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLR 627 (1321)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~------~~~k 627 (1321)
...+-|.++...|.|||+.|++||... ....+.||||||+||||||+++|++|..-..... ....
T Consensus 314 ~lte~P~g~~v~LmpHQkaal~Wl~wR---------E~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~ 384 (901)
T KOG4439|consen 314 DLTETPDGLKVELMPHQKAALRWLLWR---------ESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESAS 384 (901)
T ss_pred cccCCCCcceeecchhhhhhhhhhccc---------ccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccC
Confidence 445678999999999999999999754 2367899999999999999999999977543221 1123
Q ss_pred ceEEEcchhHHHHHHHHHHHHCCCCCCCeEEEEecCcc-hhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHH
Q 000740 628 TALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVS-RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAR 706 (1321)
Q Consensus 628 ~vLIV~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~-~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~ 706 (1321)
++|||||++|++||.+|+.+-+... .+.||+|||.. +...+..+ ..++|+||||....+..-...- ...
T Consensus 385 ~TLII~PaSli~qW~~Ev~~rl~~n--~LsV~~~HG~n~r~i~~~~L----~~YDvViTTY~lva~~~~~e~~----~~~ 454 (901)
T KOG4439|consen 385 KTLIICPASLIHQWEAEVARRLEQN--ALSVYLYHGPNKREISAKEL----RKYDVVITTYNLVANKPDDELE----EGK 454 (901)
T ss_pred CeEEeCcHHHHHHHHHHHHHHHhhc--ceEEEEecCCccccCCHHHH----hhcceEEEeeeccccCCchhhh----ccc
Confidence 6999999999999999999988653 59999999987 33333333 5679999999987652211100 001
Q ss_pred HHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCC
Q 000740 707 EICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNP 786 (1321)
Q Consensus 707 ~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~p 786 (1321)
....++...|.+||+||||.|||+.++.+.|++.|.+..||+|||||||||+.|+|+|+.||+..+|++...|..+..++
T Consensus 455 ~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~ 534 (901)
T KOG4439|consen 455 NSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNM 534 (901)
T ss_pred CccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCc
Confidence 11234455899999999999999999999999999999999999999999999999999999999999999999887654
Q ss_pred cccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhh-----cCCCceEEEEEecCCHHHHHHHHHHHHhhcccc
Q 000740 787 IENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-----DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTN 861 (1321)
Q Consensus 787 I~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~-----~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~ 861 (1321)
-.-|. . .+.-+.+++++||++..+.. .||++...++.++|+..+.+.|+-+++......
T Consensus 535 s~~g~-------------~---rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~ 598 (901)
T KOG4439|consen 535 SKGGA-------------N---RLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLF 598 (901)
T ss_pred cccch-------------h---hhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHH
Confidence 33322 1 23345678899999988876 799999999999999999999976654211000
Q ss_pred --------------cc--------------------------cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCC
Q 000740 862 --------------DR--------------------------VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSR 901 (1321)
Q Consensus 862 --------------~~--------------------------~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~ 901 (1321)
.. .++......++..+.+|||+|+||.++....+......
T Consensus 599 kq~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~ 678 (901)
T KOG4439|consen 599 KQFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQM 678 (901)
T ss_pred HHHHHhhhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhh
Confidence 00 00111222468889999999999988765443211111
Q ss_pred ccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccccccCchHHHHHHHHHHh-hcCCCeEE
Q 000740 902 EDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-SNMGDKSL 980 (1321)
Q Consensus 902 e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~-~~~g~KVL 980 (1321)
...++++++ ..+.... .+.... +......+... -....+....|.....|.|+..+++++..+ ....+|++
T Consensus 679 ~g~~~sde~-~~e~~~l-~el~k~--~~T~~~~D~~e----d~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~v 750 (901)
T KOG4439|consen 679 NGGDDSDEE-QLEEDNL-AELEKN--DETDCSDDNCE----DLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVV 750 (901)
T ss_pred cCcchhhhh-hhhhhHH-Hhhhhc--ccccccccccc----cccccchhhhcccccchhHHHHHHHHHHHHhhcccceee
Confidence 111111111 0000000 000000 00000000000 000112233356667899999999999987 56689999
Q ss_pred EEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccc
Q 000740 981 VFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHS 1060 (1321)
Q Consensus 981 VFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~ 1060 (1321)
|-|||+.+|++++..|.+ .|..|..++|.+...+|+.+|+.||.. ++..+|+|+|..|||+||||++
T Consensus 751 iVSQwtsvLniv~~hi~~------------~g~~y~si~Gqv~vK~Rq~iv~~FN~~-k~~~rVmLlSLtAGGVGLNL~G 817 (901)
T KOG4439|consen 751 IVSQWTSVLNIVRKHIQK------------GGHIYTSITGQVLVKDRQEIVDEFNQE-KGGARVMLLSLTAGGVGLNLIG 817 (901)
T ss_pred ehhHHHHHHHHHHHHHhh------------CCeeeeeecCccchhHHHHHHHHHHhc-cCCceEEEEEEccCcceeeecc
Confidence 999999999999999997 689999999999999999999999985 4557899999999999999999
Q ss_pred CCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhccccc--cccCCHHHHHH
Q 000740 1061 ANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQV--HRTISKEEMLH 1138 (1321)
Q Consensus 1061 An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~~--~r~~s~~eL~e 1138 (1321)
|||+|++|.+|||+.++||.+||||+||+|+|+||||++.||+|++|...|..|..++..|+.+... .+.+|..+|..
T Consensus 818 aNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~tr~~~kLT~adlk~ 897 (901)
T KOG4439|consen 818 ANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSATRKMNKLTLADLKK 897 (901)
T ss_pred cceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCccccccccccHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999997654 68999999999
Q ss_pred hhcC
Q 000740 1139 LFEF 1142 (1321)
Q Consensus 1139 Lf~~ 1142 (1321)
||++
T Consensus 898 LFgl 901 (901)
T KOG4439|consen 898 LFGL 901 (901)
T ss_pred HhCC
Confidence 9975
No 14
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=1.3e-71 Score=627.06 Aligned_cols=544 Identities=23% Similarity=0.348 Sum_probs=402.6
Q ss_pred cccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
+..+.|.++...|.|||++|+.|+..+.. +.-.|||||||||+|||+|+|+++..- ....|+||||
T Consensus 173 e~aeqP~dlii~LL~fQkE~l~Wl~~QE~---------Ss~~GGiLADEMGMGKTIQtIaLllae-----~~ra~tLVva 238 (791)
T KOG1002|consen 173 ERAEQPDDLIIPLLPFQKEGLAWLTSQEE---------SSVAGGILADEMGMGKTIQTIALLLAE-----VDRAPTLVVA 238 (791)
T ss_pred hcccCcccceecchhhhHHHHHHHHHhhh---------hhhccceehhhhccchHHHHHHHHHhc-----cccCCeeEEc
Confidence 34578999999999999999999976543 345799999999999999999998762 2346899999
Q ss_pred chhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccc--cccchh-hHHHHHh
Q 000740 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK--HVKDRN-MAREICH 710 (1321)
Q Consensus 634 P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~--~~kd~~-~~~~i~~ 710 (1321)
|+..+.||.+||.+++.+ .+++++|+|.++....+.+ ..+++++|||..+.+..... ..+.+. ...+..-
T Consensus 239 P~VAlmQW~nEI~~~T~g---slkv~~YhG~~R~~nikel----~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~Sl 311 (791)
T KOG1002|consen 239 PTVALMQWKNEIERHTSG---SLKVYIYHGAKRDKNIKEL----MNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSL 311 (791)
T ss_pred cHHHHHHHHHHHHHhccC---ceEEEEEecccccCCHHHh----hcCcEEEEecHHHHHHHHhccccccccCCcccccch
Confidence 999999999999999875 5899999998876655444 45799999999886542210 001110 1111122
Q ss_pred hhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCCh--------------
Q 000740 711 ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-------------- 776 (1321)
Q Consensus 711 ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~-------------- 776 (1321)
+-...|..||+||||.||+..|.+++|+..|.+.+||+|||||+||.+.|||+|+.||+.++|..+
T Consensus 312 LHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~~~~f 391 (791)
T KOG1002|consen 312 LHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASLDWKF 391 (791)
T ss_pred hhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhccccccceee
Confidence 233489999999999999999999999999999999999999999999999999999997765321
Q ss_pred -----------------HHHHhhccCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhh--cCCCceEEE
Q 000740 777 -----------------HEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK--DLPPKTVFV 837 (1321)
Q Consensus 777 -----------------~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~--~LP~K~e~v 837 (1321)
--|.+....||...+...-. +......+.+|+.+|+||++-.-.. .|||....+
T Consensus 392 tdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpG-------k~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~v 464 (791)
T KOG1002|consen 392 TDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPG-------KEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTV 464 (791)
T ss_pred cccccCCcccchhhhhhhhhcccccccchhhcccCch-------HHHHHHHHHHHHHHHHHHhhcccccccCCCccceee
Confidence 01222223455443322211 1222346778899999998855444 489999998
Q ss_pred EEecCCHHHHHHHHHHHHhhcccccccchH----HHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccc------cCC
Q 000740 838 ITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDA------EDS 907 (1321)
Q Consensus 838 v~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~----~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~------~d~ 907 (1321)
..--++..+..+|+.+...........-.. ....++|..+.++||+..||+|+........+..... -.+
T Consensus 465 RrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n~~~enk~~~~C~lc~d 544 (791)
T KOG1002|consen 465 RRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANANLPDENKGEVECGLCHD 544 (791)
T ss_pred ehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcCCCccccCceeecccCC
Confidence 888899999999988765322221111111 1234689999999999999999865433222211100 000
Q ss_pred CCccccccc------------------------ccccCCCccchhhccCCCCCccchhhh-hhhhhhhccccccccCchH
Q 000740 908 SSDENMDYN------------------------VVIGEKPRNMNDFLQGKNDDGFFQKDW-WNDLLHEHTYKELDYSGKM 962 (1321)
Q Consensus 908 ~~d~~~d~~------------------------~~~~~~~~~~~d~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~S~Kl 962 (1321)
...+-+... .+....+-++. . ............+ ...++.......+..|.|+
T Consensus 545 ~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD-l-se~alek~~l~~Fk~sSIlnRinm~~~qsSTKI 622 (791)
T KOG1002|consen 545 PAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID-L-SEPALEKTDLKGFKASSILNRINMDDWQSSTKI 622 (791)
T ss_pred hhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc-c-cchhhhhcchhhhhhHHHhhhcchhhhcchhHH
Confidence 000000000 00000000000 0 0000000000111 1234444555677889999
Q ss_pred HHHHHHHHHhhcCC--CeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 963 VLLLDILTMCSNMG--DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 963 ~~L~eiL~~~~~~g--~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
++|.+-|..+.++. -|.||||||++|||+|+..|.+ .|+..+.+.|+|++..|...|+.|.+ +.
T Consensus 623 EAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~k------------aGfscVkL~GsMs~~ardatik~F~n--d~ 688 (791)
T KOG1002|consen 623 EALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGK------------AGFSCVKLVGSMSPAARDATIKYFKN--DI 688 (791)
T ss_pred HHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhc------------cCceEEEeccCCChHHHHHHHHHhcc--CC
Confidence 99999998877654 4999999999999999999987 79999999999999999999999998 56
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHH
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAAR 1120 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~ 1120 (1321)
.++|||+|.+|||+.|||+.|++|+++||||||+.+.||.+|+|||||.|||.|.||+.++|||++|.+.|..|..|+..
T Consensus 689 ~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~miha 768 (791)
T KOG1002|consen 689 DCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHA 768 (791)
T ss_pred CeEEEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhh
Confidence 68899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhcccc-ccccCCHHHHHHhhc
Q 000740 1121 VVDRQQ-VHRTISKEEMLHLFE 1141 (1321)
Q Consensus 1121 Vvd~~~-~~r~~s~~eL~eLf~ 1141 (1321)
.++..+ ....++.+||.-||+
T Consensus 769 Ti~qde~Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 769 TIGQDEEAISKLTEEDMQFLFN 790 (791)
T ss_pred hcCCcHHHHHhcCHHHHHHHhc
Confidence 998754 446899999999985
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.5e-62 Score=641.08 Aligned_cols=504 Identities=35% Similarity=0.515 Sum_probs=406.4
Q ss_pred cchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 560 ~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
..+...|+|||..|+.||++.+. ..+.||||||+||||||+|+|+++.+.+.......+|+|||||.+++.
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~---------~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~ 403 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLR---------SNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLS 403 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHH---------hccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHH
Confidence 67779999999999999974221 457899999999999999999999886655544357999999999999
Q ss_pred HHHHHHHHHCCCCCCCeE-EEEecCcch--hHHHHHHHHHhhc-----CCEEEEcccccccccccccccchhhHHHHHhh
Q 000740 640 NWKQEFMKWRPSELKPLR-VFMLEDVSR--DRRAELLAKWRAK-----GGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1321)
Q Consensus 640 qW~~E~~kw~p~~~~~l~-V~~~~~~~~--~~r~~~l~~~~~~-----~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~l 711 (1321)
||.+|+.+|.|. ++ +..+++... ..+...+..+... .+++++||+.++... .....+
T Consensus 404 nw~~e~~k~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~-----------~~~~~l 468 (866)
T COG0553 404 NWKREFEKFAPD----LRLVLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFL-----------VDHGGL 468 (866)
T ss_pred HHHHHHhhhCcc----ccceeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhh-----------hhHHHH
Confidence 999999999997 55 777777653 2223333333332 789999999987421 122234
Q ss_pred hcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhh-hhccCCCC-ChHHHHhhccCCccc
Q 000740 712 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD-FVREGFLG-SSHEFRNRFQNPIEN 789 (1321)
Q Consensus 712 l~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~-FL~P~~lg-s~~eF~~~f~~pI~~ 789 (1321)
....|+++|+||||+|||..|..+++++.+++.++++|||||++|++.|||++++ |+.|++++ +...|..+|..|+..
T Consensus 469 ~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~ 548 (866)
T COG0553 469 KKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQA 548 (866)
T ss_pred hhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhh
Confidence 4459999999999999999999999999999999999999999999999999999 99999999 569999999999988
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhh--hhhcCCCceEEEEEecCCHHHHHHHHHHHHhh---ccccccc
Q 000740 790 GQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNV--VKKDLPPKTVFVITVKLSPLQRRLYKRFLDLH---GFTNDRV 864 (1321)
Q Consensus 790 g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~--v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~---~~~~~~~ 864 (1321)
...... ........+.|+.++.+|++||.+.+ +..+||++.+.++++.|++.|..+|..++... .......
T Consensus 549 ~~~~~~----~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~ 624 (866)
T COG0553 549 EEDIGP----LEARELGIELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDL 624 (866)
T ss_pred cccccc----hhhHHHHHHHHHHHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 776544 12222334448899999999999999 88899999999999999999999999988722 1111110
Q ss_pred chHH--------HHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCC
Q 000740 865 SNEK--------IRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDD 936 (1321)
Q Consensus 865 ~~~~--------~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~ 936 (1321)
.... ....++..+..|+++|+||.++.......... ..... .. +
T Consensus 625 ~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~~~--~~~~~------------~~-------------~- 676 (866)
T COG0553 625 EKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEATFDR--IVLLL------------RE-------------D- 676 (866)
T ss_pred HhhccccccccchhhHHHHHHHHHHHhccCccccccccccccch--hhhhh------------hc-------------c-
Confidence 0010 14568899999999999999885331000000 00000 00 0
Q ss_pred ccchhhhhhhhhhhccccccccC-chHHHHHHHH-HHhhcCCC--eEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCC
Q 000740 937 GFFQKDWWNDLLHEHTYKELDYS-GKMVLLLDIL-TMCSNMGD--KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG 1012 (1321)
Q Consensus 937 ~~~~~~~~~~ll~~~~~~~~~~S-~Kl~~L~eiL-~~~~~~g~--KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~G 1012 (1321)
. .........+..| +|+..+.++| ......|+ |+|||+||+.++++|+.+|.. .+
T Consensus 677 -~--------~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~------------~~ 735 (866)
T COG0553 677 -K--------DFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKA------------LG 735 (866)
T ss_pred -c--------ccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHh------------cC
Confidence 0 0000011123456 9999999999 78888899 999999999999999999997 45
Q ss_pred CcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcE
Q 000740 1013 KDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1092 (1321)
Q Consensus 1013 i~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V 1092 (1321)
+.|+++||+++...|+.++++|+++ ....|||+|++|||.||||++|++||+||+||||+.+.||++|+||+||+++|
T Consensus 736 ~~~~~ldG~~~~~~r~~~i~~f~~~--~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v 813 (866)
T COG0553 736 IKYVRLDGSTPAKRRQELIDRFNAD--EEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPV 813 (866)
T ss_pred CcEEEEeCCCChhhHHHHHHHhhcC--CCCceEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCccee
Confidence 8899999999999999999999985 45678999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCChHHHHHHHHHHHHHHHHHHhcc--ccccccCCHHHHHHhhcC
Q 000740 1093 FAYRLMAHGTMEEKIYKRQVTKEGLAARVVDR--QQVHRTISKEEMLHLFEF 1142 (1321)
Q Consensus 1093 ~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~--~~~~r~~s~~eL~eLf~~ 1142 (1321)
.||||++.||+||+|+.+|..|+.+...+++. ......++.+++..+|..
T Consensus 814 ~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ 865 (866)
T COG0553 814 KVYRLITRGTIEEKILELQEKKQELLDSLIDAEGEKELSKLSIEDLLDLFSL 865 (866)
T ss_pred EEEEeecCCcHHHHHHHHHHHHHHHHHHHhhhhcccchhhccHHHHHHHhcc
Confidence 99999999999999999999999999999995 456678899999999864
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=1.9e-54 Score=490.24 Aligned_cols=428 Identities=25% Similarity=0.331 Sum_probs=331.5
Q ss_pred cCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH
Q 000740 558 IPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV 637 (1321)
Q Consensus 558 vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL 637 (1321)
.|+.|...|.|||++||.|.++ .|+.+|||||||||||+|||++..++... .|.|||||+++
T Consensus 191 ~d~kLvs~LlPFQreGv~faL~-------------RgGR~llADeMGLGKTiQAlaIA~yyraE-----wplliVcPAsv 252 (689)
T KOG1000|consen 191 MDPKLVSRLLPFQREGVIFALE-------------RGGRILLADEMGLGKTIQALAIARYYRAE-----WPLLIVCPASV 252 (689)
T ss_pred cCHHHHHhhCchhhhhHHHHHh-------------cCCeEEEecccccchHHHHHHHHHHHhhc-----CcEEEEecHHH
Confidence 4889999999999999999974 67899999999999999999988877543 49999999999
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcC-CC
Q 000740 638 LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GP 716 (1321)
Q Consensus 638 l~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~-~~ 716 (1321)
...|.+++.+|+|.... +++..+.... +......+.|.|++|+++..+ ...+.. .|
T Consensus 253 rftWa~al~r~lps~~p---i~vv~~~~D~-----~~~~~t~~~v~ivSye~ls~l---------------~~~l~~~~~ 309 (689)
T KOG1000|consen 253 RFTWAKALNRFLPSIHP---IFVVDKSSDP-----LPDVCTSNTVAIVSYEQLSLL---------------HDILKKEKY 309 (689)
T ss_pred hHHHHHHHHHhcccccc---eEEEecccCC-----ccccccCCeEEEEEHHHHHHH---------------HHHHhcccc
Confidence 99999999999998543 3333332210 111123357899999987542 233333 59
Q ss_pred CEEEEcCCcccCCcchhHHHHHhhc--ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCC
Q 000740 717 DILVCDEAHMIKNTRADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 794 (1321)
Q Consensus 717 dlVIlDEAH~IKN~~S~~skal~~L--ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~ 794 (1321)
.+||+||+|++|+..+++.+++.-+ .++|.|+|||||-...+.|||.++..+++.+|....+|..+|++--.-+...+
T Consensus 310 ~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~D 389 (689)
T KOG1000|consen 310 RVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFD 389 (689)
T ss_pred eEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeee
Confidence 9999999999999999999999887 79999999999999999999999999999999999999999987543332222
Q ss_pred CChHHHHHHHHHHHHHHHHHhH-HhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhH
Q 000740 795 STSEDVKIMNQRSHILYEQLKG-FVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1321)
Q Consensus 795 st~~dv~~~~~r~~~L~~~L~~-fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~ 873 (1321)
..- -.++..|+-+|.. .|+||.+.+|..+||||...++. ..+..+-+..+.++...... . ......+
T Consensus 390 ykg------~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKrr~Vv~-~~~gr~da~~~~lv~~a~~~-t--~~~~~e~-- 457 (689)
T KOG1000|consen 390 YKG------CTNLEELAALLFKRLMIRRLKADVLKQLPPKRREVVY-VSGGRIDARMDDLVKAAADY-T--KVNSMER-- 457 (689)
T ss_pred cCC------CCCHHHHHHHHHHHHHHHHHHHHHHhhCCccceEEEE-EcCCccchHHHHHHHHhhhc-c--hhhhhhh--
Confidence 111 0123345545543 58999999999999999555544 44444444444443322110 0 0000000
Q ss_pred HHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccc
Q 000740 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1321)
Q Consensus 874 l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1321)
+|-.++. +
T Consensus 458 -----------~~~~l~l-------------------------------------------------------------~ 465 (689)
T KOG1000|consen 458 -----------KHESLLL-------------------------------------------------------------F 465 (689)
T ss_pred -----------hhHHHHH-------------------------------------------------------------H
Confidence 0000000 0
Q ss_pred cccccCchHHHHHHHHHH----hhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHH
Q 000740 954 KELDYSGKMVLLLDILTM----CSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQK 1029 (1321)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~----~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~ 1029 (1321)
.....-.|+..+.+.|.. ....+.|+|||+++..+||-|+.++.+ +++.++||||+|+..+|+.
T Consensus 466 y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~------------r~vg~IRIDGst~s~~R~l 533 (689)
T KOG1000|consen 466 YSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNK------------RKVGSIRIDGSTPSHRRTL 533 (689)
T ss_pred HHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHH------------cCCCeEEecCCCCchhHHH
Confidence 001123577777777665 345678999999999999999999986 7899999999999999999
Q ss_pred HHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHH
Q 000740 1030 LVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1030 lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~ 1109 (1321)
+++.|+. +.+++|-++|..|+|+||+|++|+.|||.+.+|||....||.+|+||+||+..|.||+|+++||+|+.++.
T Consensus 534 l~qsFQ~--seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp 611 (689)
T KOG1000|consen 534 LCQSFQT--SEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWP 611 (689)
T ss_pred HHHHhcc--ccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHH
Confidence 9999998 56788899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcc
Q 000740 1110 RQVTKEGLAARVVDR 1124 (1321)
Q Consensus 1110 rq~~K~~La~~Vvd~ 1124 (1321)
....|......+-..
T Consensus 612 ~l~~KL~vl~s~gl~ 626 (689)
T KOG1000|consen 612 MLQQKLDVLGSVGLS 626 (689)
T ss_pred HHHHHHHHHhhcccC
Confidence 999998877666443
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=5.9e-53 Score=537.34 Aligned_cols=453 Identities=18% Similarity=0.242 Sum_probs=326.4
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHH
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW 641 (1321)
....|.|||+..+.++.. ....++|||||||||||++|++++..++..+. .+|+|||||.+|+.||
T Consensus 149 ~~~~l~pHQl~~~~~vl~------------~~~~R~LLADEvGLGKTIeAglil~~l~~~g~--~~rvLIVvP~sL~~QW 214 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGR------------RHAPRVLLADEVGLGKTIEAGMIIHQQLLTGR--AERVLILVPETLQHQW 214 (956)
T ss_pred CCCCCCHHHHHHHHHHhh------------ccCCCEEEEeCCcCcHHHHHHHHHHHHHHcCC--CCcEEEEcCHHHHHHH
Confidence 346799999999876643 24578999999999999999999988876643 5799999999999999
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcchhHHH-HHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRA-ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~~~r~-~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
..|+.+|+.- .+.++++....... .....| ...+++|++|++++.- . .....++...||+||
T Consensus 215 ~~El~~kF~l-----~~~i~~~~~~~~~~~~~~~pf-~~~~~vI~S~~~l~~~--------~---~~~~~l~~~~wdlvI 277 (956)
T PRK04914 215 LVEMLRRFNL-----RFSLFDEERYAEAQHDADNPF-ETEQLVICSLDFLRRN--------K---QRLEQALAAEWDLLV 277 (956)
T ss_pred HHHHHHHhCC-----CeEEEcCcchhhhcccccCcc-ccCcEEEEEHHHhhhC--------H---HHHHHHhhcCCCEEE
Confidence 9999888752 33333332211000 000112 3467999999988631 1 122344556999999
Q ss_pred EcCCcccCCc---chhHHHHHhhc--ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccC--Cc------
Q 000740 721 CDEAHMIKNT---RADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQN--PI------ 787 (1321)
Q Consensus 721 lDEAH~IKN~---~S~~skal~~L--ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~--pI------ 787 (1321)
|||||+++|. .|..++++..+ +++++++|||||+||++.|+|++++||+|+.|+++..|...+.. |+
T Consensus 278 vDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~ 357 (956)
T PRK04914 278 VDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQA 357 (956)
T ss_pred EechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHH
Confidence 9999999953 46678888888 67899999999999999999999999999999999999875542 22
Q ss_pred -ccCCCCCC-ChHHHHHH---------------------HHHHHHHHHHH-----hHHhhhhhhhhhhhcCCCceEEEEE
Q 000740 788 -ENGQHTNS-TSEDVKIM---------------------NQRSHILYEQL-----KGFVQRMDMNVVKKDLPPKTVFVIT 839 (1321)
Q Consensus 788 -~~g~~~~s-t~~dv~~~---------------------~~r~~~L~~~L-----~~fv~Rr~k~~v~~~LP~K~e~vv~ 839 (1321)
..+..... ........ ..+...+..++ ..++.|+++..+. .+|++..+.+.
T Consensus 358 l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-~fp~R~~~~~~ 436 (956)
T PRK04914 358 LLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-GFPKRELHPIP 436 (956)
T ss_pred HhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc-CCCcCceeEee
Confidence 11111000 00000000 00111222222 2456788888876 69999999999
Q ss_pred ecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccc
Q 000740 840 VKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVI 919 (1321)
Q Consensus 840 v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~ 919 (1321)
+++.+.....+..... ..+++ +.+|..+.....
T Consensus 437 l~~~~~y~~~~~~~~~----------------------~~~~~-~l~pe~~~~~~~------------------------ 469 (956)
T PRK04914 437 LPLPEQYQTAIKVSLE----------------------ARARD-MLYPEQIYQEFE------------------------ 469 (956)
T ss_pred cCCCHHHHHHHHHhHH----------------------HHHHh-hcCHHHHHHHHh------------------------
Confidence 9987654333321000 00111 112211100000
Q ss_pred cCCCccchhhccCCCCCccchhhhhhhhhhhccccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcC
Q 000740 920 GEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKL 999 (1321)
Q Consensus 920 ~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l 999 (1321)
....| ...++|+..|.++|+... ++|+|||+++..+++.|.+.|..
T Consensus 470 -------------------~~~~~------------~~~d~Ki~~L~~~L~~~~--~~KvLVF~~~~~t~~~L~~~L~~- 515 (956)
T PRK04914 470 -------------------DNATW------------WNFDPRVEWLIDFLKSHR--SEKVLVICAKAATALQLEQALRE- 515 (956)
T ss_pred -------------------hhhhc------------cccCHHHHHHHHHHHhcC--CCeEEEEeCcHHHHHHHHHHHhh-
Confidence 00001 234689999999998653 78999999999999999999964
Q ss_pred CCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhh
Q 000740 1000 PRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQA 1079 (1321)
Q Consensus 1000 ~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QA 1079 (1321)
..|+.+..++|+++..+|+++++.|+++++ .++ +||+|.+||+|+||+.|++||+||+||||..++||
T Consensus 516 ----------~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~-~~~-VLIsTdvgseGlNlq~a~~VInfDlP~nP~~~eQR 583 (956)
T PRK04914 516 ----------REGIRAAVFHEGMSIIERDRAAAYFADEED-GAQ-VLLCSEIGSEGRNFQFASHLVLFDLPFNPDLLEQR 583 (956)
T ss_pred ----------ccCeeEEEEECCCCHHHHHHHHHHHhcCCC-Ccc-EEEechhhccCCCcccccEEEEecCCCCHHHHHHH
Confidence 258999999999999999999999997432 343 57889999999999999999999999999999999
Q ss_pred hhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHHhh
Q 000740 1080 IYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLF 1140 (1321)
Q Consensus 1080 iGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~~~~~-r~~s~~eL~eLf 1140 (1321)
|||+||+||+++|.||.++.++|+|++|++....|..+++.++...+.. ..| .++|...+
T Consensus 584 IGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~~~v~~~~-~~~l~~~l 644 (956)
T PRK04914 584 IGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTGRALYDEF-GDELIPYL 644 (956)
T ss_pred hcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCHHHHHHHH-HHHHHHHH
Confidence 9999999999999999999999999999999999999998888765433 333 35555555
No 18
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=2.1e-51 Score=506.77 Aligned_cols=499 Identities=28% Similarity=0.335 Sum_probs=363.3
Q ss_pred HHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcc-----cCCCceEEEcchhHHHHHHHH
Q 000740 570 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN-----LGLRTALIVTPVNVLHNWKQE 644 (1321)
Q Consensus 570 Q~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~-----~~~k~vLIV~P~sLl~qW~~E 644 (1321)
|.....|+|..- .....-.|||+||+||+|||+++|+++........ ...+.+|||||.+++.||..|
T Consensus 135 ~~~~~~~~~~~~-------~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~~~~~~~~~kttLivcp~s~~~qW~~e 207 (674)
T KOG1001|consen 135 LKQKYRWSLLKS-------REQQSLRGGILADDMGLGKTVKTIALILKQKLKSKEEDRQKEFKTTLIVCPTSLLTQWKTE 207 (674)
T ss_pred HHHHHHHHhhcc-------cccCccccceEeeccccchHHHHHHHHHhcccCCcchhhccccCceeEecchHHHHHHHHH
Confidence 455555665321 13356789999999999999999999876543322 246789999999999999999
Q ss_pred HHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000740 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1321)
Q Consensus 645 ~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEA 724 (1321)
+.+..+. ..+.+++++| +.+-... ...++|++|||.++.+. .+....|-+||+|||
T Consensus 208 lek~~~~--~~l~v~v~~g--r~kd~~e----l~~~dVVltTy~il~~~----------------~l~~i~w~Riildea 263 (674)
T KOG1001|consen 208 LEKVTEE--DKLSIYVYHG--RTKDKSE----LNSYDVVLTTYDILKNS----------------PLVKIKWLRIVLDEA 263 (674)
T ss_pred HhccCCc--cceEEEEecc--cccccch----hcCCceEEeeHHHhhcc----------------cccceeEEEEEeccc
Confidence 9555543 3588888888 2111111 24668999999998751 233358999999999
Q ss_pred cccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHHHHHH
Q 000740 725 HMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMN 804 (1321)
Q Consensus 725 H~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv~~~~ 804 (1321)
|.|+|.+++.++++..+.+.+||+|||||+||++.|+|+++.|+.-+++.....|...+..|+..+.+ .
T Consensus 264 ~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~-----------~ 332 (674)
T KOG1001|consen 264 HTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKY-----------K 332 (674)
T ss_pred cccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhH-----------H
Confidence 99999999999999999999999999999999999999999999999999999999999999887654 1
Q ss_pred HHHHHHHHHHhHHhhhhhhhhh-----hhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchH----HHHhhHHH
Q 000740 805 QRSHILYEQLKGFVQRMDMNVV-----KKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFA 875 (1321)
Q Consensus 805 ~r~~~L~~~L~~fv~Rr~k~~v-----~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~----~~~~~~l~ 875 (1321)
.-...++-.|+.++.||++... ...|||+...++.+.++..++.+|..+.............. .....++.
T Consensus 333 ~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~ 412 (674)
T KOG1001|consen 333 EGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLK 412 (674)
T ss_pred HHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHH
Confidence 1223366778889999887522 23799999999999999999999998876543322221111 12335778
Q ss_pred HHHHHHHHhcCcchhhhccccCC-CCCcc---------ccCC---CCcccccccccccCCCccc----hhhccCCCCC--
Q 000740 876 GYQALAQIWNHPGILQLTKDKGY-PSRED---------AEDS---SSDENMDYNVVIGEKPRNM----NDFLQGKNDD-- 936 (1321)
Q Consensus 876 ~l~~LrkicnhP~Ll~~~~~~~~-~~~e~---------~~d~---~~d~~~d~~~~~~~~~~~~----~d~~~~~~~~-- 936 (1321)
.+.+||++|+||.++........ ..... ...+ ....+.+............ ....+.....
T Consensus 413 ~lLrlrq~c~h~~lv~~~~~~~~~~~~~~~~~~~~i~~l~~~~~c~ic~~~~~~~it~c~h~~c~~c~~~~i~~~~~~~~ 492 (674)
T KOG1001|consen 413 NLLRLRQACDHSLLVMYEMDSLGDSGSAAALIIRLIVDLSVSHWCHICCDLDSFFITRCGHDFCVECLKKSIQQSENAPC 492 (674)
T ss_pred HHHHHHHHccchHhhhhhhhccccccccchHHHHHHHHHhhccccccccccccceeecccchHHHHHHHhccccccCCCC
Confidence 88999999999998753322110 00000 0000 0000000000000000000 0000000000
Q ss_pred ccchhhh-hhhhhhhccc-----cccccCchHHHHHHHHHHhhcCCC-eEEEEeCchhhHHHHHHHHhcCCCCCCCcccc
Q 000740 937 GFFQKDW-WNDLLHEHTY-----KELDYSGKMVLLLDILTMCSNMGD-KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLW 1009 (1321)
Q Consensus 937 ~~~~~~~-~~~ll~~~~~-----~~~~~S~Kl~~L~eiL~~~~~~g~-KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w 1009 (1321)
+...... ...++..... .....|.|+..+.++|........ |+|||||++.++++++..|..
T Consensus 493 ~~cr~~l~~~~l~s~~~~~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~----------- 561 (674)
T KOG1001|consen 493 PLCRNVLKEKKLLSANPLPSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFF----------- 561 (674)
T ss_pred cHHHHHHHHHHHhhcccccchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhh-----------
Confidence 0000000 0001110000 011268899999999985444344 999999999999999999974
Q ss_pred cCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1010 KKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1010 ~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
.|+.+.+++|.++...|.+.+..|+. ++.+.|+|+|++|||.||||+.|++||++||||||+.+.|||+|+||+||+
T Consensus 562 -~~~~~~~~~g~~~~~~r~~s~~~~~~--~~~~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~ 638 (674)
T KOG1001|consen 562 -KGFVFLRYDGEMLMKIRTKSFTDFPC--DPLVTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQT 638 (674)
T ss_pred -cccccchhhhhhHHHHHHhhhccccc--CccHHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHHHHHHhccc
Confidence 68999999999999999999999996 566778999999999999999999999999999999999999999999999
Q ss_pred CcEEEEEEEeCCChHHHHHHHHHHHHHHHHHHhcc
Q 000740 1090 KPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDR 1124 (1321)
Q Consensus 1090 K~V~VYRLva~gTIEEkI~~rq~~K~~La~~Vvd~ 1124 (1321)
|+|.|+||+..+|+|++|...|..|+.+...+++.
T Consensus 639 k~v~v~r~~i~dtveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 639 KPVKVSRFIIKDTVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred ceeeeeeehhhhccHHHHHHHHHHHHHHHhhhccC
Confidence 99999999999999999999999999998877654
No 19
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=3.6e-51 Score=497.11 Aligned_cols=383 Identities=32% Similarity=0.476 Sum_probs=302.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
..|.|||.+|++|+.... ..+.-+||||+||||||+|+|.|+..++..... .+|.||++|.+++.||..
T Consensus 294 g~L~~~qleGln~L~~~w----------s~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~-~~P~Lv~ap~sT~~nwe~ 362 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISW----------SPGVDAILADEMGLGKTVQSIVFLYSLPKEIHS-PGPPLVVAPLSTIVNWER 362 (696)
T ss_pred ccccccchhhhhhhhccc----------ccCCCcccchhhcCCceeeEEEEEeecccccCC-CCCceeeccCccccCCCC
Confidence 789999999999995432 567889999999999999999999998776543 469999999999999999
Q ss_pred HHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHh--------------------hcCCEEEEcccccccccccccccchh
Q 000740 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--------------------AKGGVFLIGYTAFRNLSFGKHVKDRN 703 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~--------------------~~~~VvI~tY~~~r~l~~~~~~kd~~ 703 (1321)
|+..|+|. +.+..+.|..+.+-......+. ....+.+++|++..+ +
T Consensus 363 e~~~wap~----~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~--------~-- 428 (696)
T KOG0383|consen 363 EFELWAPS----FYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEI--------D-- 428 (696)
T ss_pred chhccCCC----cccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhccc--------C--
Confidence 99999997 5666666654322211111111 223445555554322 1
Q ss_pred hHHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhc
Q 000740 704 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRF 783 (1321)
Q Consensus 704 ~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f 783 (1321)
..-+....|.++|+||||+++|..|..++.+......++++|||||+|||+.||+++|+|+.|+.|.+...|.+.|
T Consensus 429 ----~~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~ 504 (696)
T KOG0383|consen 429 ----QSILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEF 504 (696)
T ss_pred ----HHHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhc
Confidence 1123344899999999999999999999999999999999999999999999999999999999999999998887
Q ss_pred cCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccc
Q 000740 784 QNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 863 (1321)
Q Consensus 784 ~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~ 863 (1321)
..-. .. .....|+.++.|+++||.+.++.+.+|+|++-++.+.|++.|+++|+.++... +. .
T Consensus 505 ~d~~--------~~-------~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n-~~--~ 566 (696)
T KOG0383|consen 505 HDIS--------CE-------EQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRN-WQ--G 566 (696)
T ss_pred chhh--------HH-------HHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCC-hH--H
Confidence 5421 11 23445889999999999999999999999999999999999999999987642 11 1
Q ss_pred cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhh
Q 000740 864 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 943 (1321)
Q Consensus 864 ~~~~~~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~ 943 (1321)
.......-+++.+++.|++.|+||+++........ ++ ..
T Consensus 567 l~~~~~~~s~~n~~mel~K~~~hpy~~~~~e~~~~-------------------------------------~~----~~ 605 (696)
T KOG0383|consen 567 LLAGVHQYSLLNIVMELRKQCNHPYLSPLEEPLEE-------------------------------------NG----EY 605 (696)
T ss_pred HhhcchhHHHHHHHHHHHHhhcCcccCcccccccc-------------------------------------ch----HH
Confidence 11122233678999999999999998854111000 00 00
Q ss_pred hhhhhhhccccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCC
Q 000740 944 WNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE 1023 (1321)
Q Consensus 944 ~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts 1023 (1321)
. .......|+|+.+|..+++++...||||+||+|++.+||+|++++.. .| .|.|+||..+
T Consensus 606 ~-------~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~------------~~-~~~r~dG~~~ 665 (696)
T KOG0383|consen 606 L-------GSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTY------------EG-KYERIDGPIT 665 (696)
T ss_pred H-------HHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhc------------cC-cceeccCCcc
Confidence 0 01123568999999999999999999999999999999999999996 56 8999999999
Q ss_pred HHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 1024 SSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 1024 ~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
...|+.+|++||.+. ..-+|||+||+|||+|
T Consensus 666 ~~~rq~ai~~~n~~~-~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 666 GPERQAAIDRFNAPG-SNQFCFLLSTRAGGLG 696 (696)
T ss_pred chhhhhhccccCCCC-ccceEEEeecccccCC
Confidence 999999999999764 4557999999999998
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=1.8e-39 Score=371.92 Aligned_cols=296 Identities=30% Similarity=0.451 Sum_probs=221.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhccc-CCCceEEEcchhHHHHHHHHHHH
Q 000740 569 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHNWKQEFMK 647 (1321)
Q Consensus 569 hQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~-~~k~vLIV~P~sLl~qW~~E~~k 647 (1321)
||+.||.||+........ ........||||||+||+|||+++|+++..+...... +.+++|||||.+++.||..||.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~-~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEY-PNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----T-TSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcc-cccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhcc
Confidence 899999999987511111 1223567899999999999999999999977665432 23479999999999999999999
Q ss_pred HCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc
Q 000740 648 WRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 727 (1321)
Q Consensus 648 w~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~I 727 (1321)
|++.. .++++.+.+... +......+...++++|++|+++.... .... ...+...+|++||+||||.+
T Consensus 80 ~~~~~--~~~v~~~~~~~~--~~~~~~~~~~~~~vvi~ty~~~~~~~------~~~~---~~~l~~~~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 80 WFDPD--SLRVIIYDGDSE--RRRLSKNQLPKYDVVITTYETLRKAR------KKKD---KEDLKQIKWDRVIVDEAHRL 146 (299)
T ss_dssp HSGT---TS-EEEESSSCH--HHHTTSSSCCCSSEEEEEHHHHH--T------STHT---THHHHTSEEEEEEETTGGGG
T ss_pred ccccc--cccccccccccc--cccccccccccceeeecccccccccc------cccc---ccccccccceeEEEeccccc
Confidence 99531 368888887661 11222334567899999999987111 0011 11222347999999999999
Q ss_pred CCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHHHHHHHHH
Q 000740 728 KNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRS 807 (1321)
Q Consensus 728 KN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~ 807 (1321)
||..+.+++++..+.+.++|+|||||++|++.|+|++++||.|+.+++...|.+.|..+ .........
T Consensus 147 k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~------------~~~~~~~~~ 214 (299)
T PF00176_consen 147 KNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRP------------DKENSYENI 214 (299)
T ss_dssp TTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHH------------HHTHHHHHH
T ss_pred ccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhh------------ccccccccc
Confidence 99999999999999999999999999999999999999999999999999999998655 222334556
Q ss_pred HHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccc--hHHHHhhHHHHHHHHHHHhc
Q 000740 808 HILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVS--NEKIRKSFFAGYQALAQIWN 885 (1321)
Q Consensus 808 ~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~--~~~~~~~~l~~l~~Lrkicn 885 (1321)
..|...+++++.|+...++...||+..++++.++||+.|+.+|+.+............ .......++..+.+||++|+
T Consensus 215 ~~L~~~l~~~~~r~~~~d~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lr~~c~ 294 (299)
T PF00176_consen 215 ERLRELLSEFMIRRTKKDVEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQSSRKKSKKLSSLLQILKRLRQVCN 294 (299)
T ss_dssp HHHHHHHCCCEECHCGGGGCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T--TCHHHHHHHHHHHHHHHHHH
T ss_pred cccccccchhhhhhhcccccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHhC
Confidence 7799999999999999999888999999999999999999999998876544333322 23445578999999999999
Q ss_pred Ccchh
Q 000740 886 HPGIL 890 (1321)
Q Consensus 886 hP~Ll 890 (1321)
||.|+
T Consensus 295 hp~l~ 299 (299)
T PF00176_consen 295 HPYLV 299 (299)
T ss_dssp -THHC
T ss_pred CcccC
Confidence 99874
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=4.1e-36 Score=372.12 Aligned_cols=353 Identities=17% Similarity=0.290 Sum_probs=251.6
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW 641 (1321)
...|||||.+++.+|+.+ ....+|||...||+|||+++++++..+ .+++|||||.. ++.||
T Consensus 253 ~~~LRpYQ~eAl~~~~~~-----------gr~r~GIIvLPtGaGKTlvai~aa~~l-------~k~tLILvps~~Lv~QW 314 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKSLVGVTAACTV-------KKSCLVLCTSAVSVEQW 314 (732)
T ss_pred CCCcCHHHHHHHHHHHhc-----------CCCCCcEEEeCCCCChHHHHHHHHHHh-------CCCEEEEeCcHHHHHHH
Confidence 578999999999998642 233689999999999999999988664 35899999987 58899
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
.+||.+|+.- .+..+..+.+..+. .+....+|+|+||+++.+... +.......+..+....|++||+
T Consensus 315 ~~ef~~~~~l--~~~~I~~~tg~~k~-------~~~~~~~VvVtTYq~l~~~~~----r~~~~~~~l~~l~~~~~gLII~ 381 (732)
T TIGR00603 315 KQQFKMWSTI--DDSQICRFTSDAKE-------RFHGEAGVVVSTYSMVAHTGK----RSYESEKVMEWLTNREWGLILL 381 (732)
T ss_pred HHHHHHhcCC--CCceEEEEecCccc-------ccccCCcEEEEEHHHhhcccc----cchhhhHHHHHhccccCCEEEE
Confidence 9999999742 22455555554322 122346899999999864311 1111112222333458999999
Q ss_pred cCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhh-ccCCCCChHHHHhhccCCcccCCCCCCChHHH
Q 000740 722 DEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV-REGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 800 (1321)
Q Consensus 722 DEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL-~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv 800 (1321)
||+|++.+ ....+.+..+.+++||+|||||++++ +.+..+.|+ .|..+.
T Consensus 382 DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye-------------------------- 431 (732)
T TIGR00603 382 DEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYE-------------------------- 431 (732)
T ss_pred EccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeee--------------------------
Confidence 99999954 34555777889999999999999875 233333332 232211
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhhh--hcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHH
Q 000740 801 KIMNQRSHILYEQLKGFVQRMDMNVVK--KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQ 878 (1321)
Q Consensus 801 ~~~~~r~~~L~~~L~~fv~Rr~k~~v~--~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l~ 878 (1321)
....++. ..|.+.....|+|+|++.. |..++.... . . +..+
T Consensus 432 --------------------~~~~eLi~~G~LA~~~~~ev~v~~t~~~---~~~yl~~~~--------~-~-k~~l---- 474 (732)
T TIGR00603 432 --------------------ANWMELQKKGFIANVQCAEVWCPMTPEF---YREYLRENS--------R-K-RMLL---- 474 (732)
T ss_pred --------------------cCHHHHHhCCccccceEEEEEecCCHHH---HHHHHHhcc--------h-h-hhHH----
Confidence 0111111 2466667778999999875 443332110 0 0 0000
Q ss_pred HHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccccccc
Q 000740 879 ALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDY 958 (1321)
Q Consensus 879 ~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~ 958 (1321)
. ...
T Consensus 475 -----------~-----------------------------------------------------------------~~n 478 (732)
T TIGR00603 475 -----------Y-----------------------------------------------------------------VMN 478 (732)
T ss_pred -----------h-----------------------------------------------------------------hhC
Confidence 0 012
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|+.++..++......|+|+|||++++..+..+...|. ...|+|.|+..+|.+++++|+.
T Consensus 479 p~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----------------~~~I~G~ts~~ER~~il~~Fr~-- 539 (732)
T TIGR00603 479 PNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----------------KPFIYGPTSQQERMQILQNFQH-- 539 (732)
T ss_pred hHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----------------CceEECCCCHHHHHHHHHHHHh--
Confidence 368888888888766689999999999988877776653 2348999999999999999986
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCC-CcchhhhhhhhhhccCCCC-----cEEEEEEEeCCChHHHHHH
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTK-----PVFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-NP~~d~QAiGRa~RiGQkK-----~V~VYRLva~gTIEEkI~~ 1109 (1321)
++.+.+ |+++++|++||||+.|+.||++++++ |+..+.||+||+.|.+..+ +.++|.|++.+|.|+..-.
T Consensus 540 ~~~i~v-Lv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~s~ 615 (732)
T TIGR00603 540 NPKVNT-IFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYST 615 (732)
T ss_pred CCCccE-EEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHHHH
Confidence 334554 55569999999999999999999987 9999999999999999764 4799999999999998753
No 22
>PRK13766 Hef nuclease; Provisional
Probab=99.98 E-value=7.1e-31 Score=339.55 Aligned_cols=464 Identities=17% Similarity=0.155 Sum_probs=272.5
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch-hHHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~-sLl~qW~~ 643 (1321)
.+|+||.+.+...++ .++|++.++|+|||++++.++...+.. ..+++|||||. .++.||..
T Consensus 15 ~~r~yQ~~~~~~~l~---------------~n~lv~~ptG~GKT~~a~~~i~~~l~~---~~~~vLvl~Pt~~L~~Q~~~ 76 (773)
T PRK13766 15 EARLYQQLLAATALK---------------KNTLVVLPTGLGKTAIALLVIAERLHK---KGGKVLILAPTKPLVEQHAE 76 (773)
T ss_pred CccHHHHHHHHHHhc---------------CCeEEEcCCCccHHHHHHHHHHHHHHh---CCCeEEEEeCcHHHHHHHHH
Confidence 679999998876532 389999999999999999888877632 24689999998 68899999
Q ss_pred HHHHHCCCCCCCeEEEEecCcc-hhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 644 EFMKWRPSELKPLRVFMLEDVS-RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~-~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
++.+++... ...+..+.+.. ...|.. .| ..++|+++|+..+.+..... .+....|++||+|
T Consensus 77 ~~~~~~~~~--~~~v~~~~g~~~~~~r~~---~~-~~~~iiv~T~~~l~~~l~~~------------~~~~~~~~liVvD 138 (773)
T PRK13766 77 FFRKFLNIP--EEKIVVFTGEVSPEKRAE---LW-EKAKVIVATPQVIENDLIAG------------RISLEDVSLLIFD 138 (773)
T ss_pred HHHHHhCCC--CceEEEEeCCCCHHHHHH---HH-hCCCEEEECHHHHHHHHHcC------------CCChhhCcEEEEE
Confidence 999987431 23555555543 233332 23 46789999998875421110 1112378999999
Q ss_pred CCcccCCcchhHHHHHhhc---ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChH----HHHhhccCCcccCCCCCC
Q 000740 723 EAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH----EFRNRFQNPIENGQHTNS 795 (1321)
Q Consensus 723 EAH~IKN~~S~~skal~~L---ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~----eF~~~f~~pI~~g~~~~s 795 (1321)
|||++.+..+..+.+-... +..++++|||||.++ ...+..++.-|....+..+. .....+..+-.......
T Consensus 139 EaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~- 216 (773)
T PRK13766 139 EAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVE- 216 (773)
T ss_pred CCccccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeC-
Confidence 9999987654433222212 456699999999876 45555555544322211111 11111111100000000
Q ss_pred ChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhc-CCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000740 796 TSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKD-LPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 874 (1321)
Q Consensus 796 t~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~-LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l 874 (1321)
+......++..|..++.++.+...... +++....+....+...+..++..+.... .........+
T Consensus 217 -------l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~-------~~~~~~~~~~ 282 (773)
T PRK13766 217 -------LPEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDD-------SEGYEAISIL 282 (773)
T ss_pred -------CcHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCc-------hHHHHHHHHH
Confidence 112233455666666665544332211 2222222222233334444443322100 0000111122
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCC-CccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccc
Q 000740 875 AGYQALAQIWNHPGILQLTKDKGYPS-REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1321)
Q Consensus 875 ~~l~~LrkicnhP~Ll~~~~~~~~~~-~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1321)
+.+..++.. ..++.......+.. ......... ..+. ......+. .+. .. ...+. ...
T Consensus 283 ~~~~~l~~~---~~~l~~~~~~~~~~y~~~l~~~~~--------~~~~-~~~~~~l~----~~~----~~-~~~~~-~~~ 340 (773)
T PRK13766 283 AEAMKLRHA---VELLETQGVEALRRYLERLREEAR--------SSGG-SKASKRLV----EDP----RF-RKAVR-KAK 340 (773)
T ss_pred HHHHHHHHH---HHHHHHhCHHHHHHHHHHHHhhcc--------ccCC-cHHHHHHH----hCH----HH-HHHHH-HHH
Confidence 222222221 11110000000000 000000000 0000 00000000 000 00 00000 001
Q ss_pred cccccCchHHHHHHHHHHhh--cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCC--------CC
Q 000740 954 KELDYSGKMVLLLDILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR--------TE 1023 (1321)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~~~--~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGs--------ts 1023 (1321)
.....++|+..|.++|.+.. ..+.|+|||+++..+++.|.++|.. .|+.+.+++|. ++
T Consensus 341 ~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~------------~~~~~~~~~g~~~~~~~~~~~ 408 (773)
T PRK13766 341 ELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEK------------EGIKAVRFVGQASKDGDKGMS 408 (773)
T ss_pred hcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHh------------CCCceEEEEccccccccCCCC
Confidence 11244799999999999876 5688999999999999999999975 57788888886 88
Q ss_pred HHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1024 SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1024 ~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
..+|..++++|+++ .+. +|++|.++++|+|++.+++||+|||+|||...+|++||++|.|+ +.||.|++.+|+
T Consensus 409 ~~~r~~~~~~F~~g---~~~-vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~~~---~~v~~l~~~~t~ 481 (773)
T PRK13766 409 QKEQIEILDKFRAG---EFN-VLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQEE---GRVVVLIAKGTR 481 (773)
T ss_pred HHHHHHHHHHHHcC---CCC-EEEECChhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcCCC---CEEEEEEeCCCh
Confidence 88999999999974 344 58899999999999999999999999999999998888888765 678999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 000740 1104 EEKIYKRQVTKEGLAARV 1121 (1321)
Q Consensus 1104 EEkI~~rq~~K~~La~~V 1121 (1321)
||.+|..+..|...+...
T Consensus 482 ee~~y~~~~~ke~~~~~~ 499 (773)
T PRK13766 482 DEAYYWSSRRKEKKMKEE 499 (773)
T ss_pred HHHHHHHhhHHHHHHHHH
Confidence 999999888777766333
No 23
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.97 E-value=3.4e-32 Score=337.41 Aligned_cols=279 Identities=18% Similarity=0.246 Sum_probs=196.8
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhc--------------ccCCCceEEEcchhHHHHHHHHHHHHCCCCCCCeEEE
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSV--------------NLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVF 659 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~--------------~~~~k~vLIV~P~sLl~qW~~E~~kw~p~~~~~l~V~ 659 (1321)
|..+++|||||+|||+..++.....+... ....|++|||||.+++.||..||.+|++.. ++|+
T Consensus 374 g~~~~~ade~~~qk~~~~l~~~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~~---lKv~ 450 (1394)
T KOG0298|consen 374 GKRVQCADEMGWQKTSEKLILELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISSL---LKVL 450 (1394)
T ss_pred CcceeehhhhhccchHHHHHHHHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhcccc---ceEE
Confidence 34479999999999999888765543110 123579999999999999999999999874 6888
Q ss_pred EecCcchhHHHHHHHHHhhcCCEEEEcccccccccccc-cccc-hhhHHH------HHhhhcCCCCEEEEcCCcccCCcc
Q 000740 660 MLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK-HVKD-RNMARE------ICHALQDGPDILVCDEAHMIKNTR 731 (1321)
Q Consensus 660 ~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~-~~kd-~~~~~~------i~~ll~~~~dlVIlDEAH~IKN~~ 731 (1321)
.|.|..+.....- .-...++|++|||+.+|+-.+.. ...+ +.+..+ -..++...|-+|++|||+.+....
T Consensus 451 ~Y~Girk~~~~~~--~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v~wWRIclDEaQMvesss 528 (1394)
T KOG0298|consen 451 LYFGIRKTFWLSP--FELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMVNWWRICLDEAQMVESSS 528 (1394)
T ss_pred EEechhhhcccCc--hhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHHHHHHHhhhHHHhhcchH
Confidence 8887643221111 11246799999999998743322 1111 111000 112333478899999999999999
Q ss_pred hhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHHHHHHHHHHHHH
Q 000740 732 ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILY 811 (1321)
Q Consensus 732 S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~ 811 (1321)
|+.++.+..|.+.++|+.||||||+ +.++|.++.||+-.+|+....|.+....++... .....++
T Consensus 529 S~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~r--------------a~~~~~~ 593 (1394)
T KOG0298|consen 529 SAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLR--------------AKCEPLL 593 (1394)
T ss_pred HHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHH--------------hhhhhHH
Confidence 9999999999999999999999999 999999999999999999999988766544321 2233456
Q ss_pred HHHhHHhhhhhhhhhhh--cCCCceEEEEEecCCHHHHHHHHHHH----Hhhcc---------c---c-cccchHHHHhh
Q 000740 812 EQLKGFVQRMDMNVVKK--DLPPKTVFVITVKLSPLQRRLYKRFL----DLHGF---------T---N-DRVSNEKIRKS 872 (1321)
Q Consensus 812 ~~L~~fv~Rr~k~~v~~--~LP~K~e~vv~v~LS~~Q~~lY~~~l----~~~~~---------~---~-~~~~~~~~~~~ 872 (1321)
++++..+-|+.+..+.. .+||..+.+....+++.+..+|+..- ..+.. . . ...........
T Consensus 594 dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~a~ 673 (1394)
T KOG0298|consen 594 DLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLLAI 673 (1394)
T ss_pred HHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhHHH
Confidence 66777777877777765 48999888888888888777664321 11100 0 0 00011122335
Q ss_pred HHHHHHHHHHHhcCcchhhh
Q 000740 873 FFAGYQALAQIWNHPGILQL 892 (1321)
Q Consensus 873 ~l~~l~~LrkicnhP~Ll~~ 892 (1321)
++.-+.+||++|+||.....
T Consensus 674 i~~~l~rLRq~Cchplv~~~ 693 (1394)
T KOG0298|consen 674 ILKWLLRLRQACCHPLVGNS 693 (1394)
T ss_pred HHHHHHHHHHhhcccccccC
Confidence 67788899999999976643
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.94 E-value=7.5e-25 Score=253.95 Aligned_cols=475 Identities=19% Similarity=0.175 Sum_probs=260.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 643 (1321)
.-|.||..-+.-.+. .+++++-.+|||||+.|+.+++..++... +++|+++|+- |+.|-..
T Consensus 15 e~R~YQ~~i~a~al~---------------~NtLvvlPTGLGKT~IA~~V~~~~l~~~~---~kvlfLAPTKPLV~Qh~~ 76 (542)
T COG1111 15 EPRLYQLNIAAKALF---------------KNTLVVLPTGLGKTFIAAMVIANRLRWFG---GKVLFLAPTKPLVLQHAE 76 (542)
T ss_pred cHHHHHHHHHHHHhh---------------cCeEEEecCCccHHHHHHHHHHHHHHhcC---CeEEEecCCchHHHHHHH
Confidence 457888887654432 58999999999999999999998877643 3899999975 8888888
Q ss_pred HHHHHCCCCCCCeEEEEecCcc-hhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 644 EFMKWRPSELKPLRVFMLEDVS-RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~-~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
-+.+.+.- ++-.+..+.|.. ..+|... | ..+.|++.|.+++.|..... .+-...+.++|+|
T Consensus 77 ~~~~v~~i--p~~~i~~ltGev~p~~R~~~---w-~~~kVfvaTPQvveNDl~~G------------rid~~dv~~lifD 138 (542)
T COG1111 77 FCRKVTGI--PEDEIAALTGEVRPEEREEL---W-AKKKVFVATPQVVENDLKAG------------RIDLDDVSLLIFD 138 (542)
T ss_pred HHHHHhCC--ChhheeeecCCCChHHHHHH---H-hhCCEEEeccHHHHhHHhcC------------ccChHHceEEEec
Confidence 88888642 234555666654 3445443 4 56789999999987632111 1112267899999
Q ss_pred CCcccCCcchhHHHH--Hhhc-ccceEEEEecCCCCCchhhHHhhhhhhccCCCCCh---HHHHhhccCCcccCCCCCCC
Q 000740 723 EAHMIKNTRADTTQA--LKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS---HEFRNRFQNPIENGQHTNST 796 (1321)
Q Consensus 723 EAH~IKN~~S~~ska--l~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~---~eF~~~f~~pI~~g~~~~st 796 (1321)
|||+.-+..+-.+-+ ..+- +..+.++|||||- +.+..+...++=|..+...-. +.=...|...+.-....-.-
T Consensus 139 EAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPG-s~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~l 217 (542)
T COG1111 139 EAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPG-SDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDL 217 (542)
T ss_pred hhhhccCcchHHHHHHHHHHhccCceEEEEecCCC-CCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccC
Confidence 999987655433322 2222 4557899999993 455555555555543321100 00001111111110000001
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000740 797 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 876 (1321)
Q Consensus 797 ~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~ 876 (1321)
+.... .....|..+|++.+..-. + .-.+....+. .++++.....................-+.++.
T Consensus 218 p~e~~---~ir~~l~~~l~~~Lk~L~------~---~g~~~~~~~~--~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~ 283 (542)
T COG1111 218 PEEIK---EIRDLLRDALKPRLKPLK------E---LGVIESSSPV--SKKDLLELRQIRLIMAKNEDSDKFRLLSVLAE 283 (542)
T ss_pred cHHHH---HHHHHHHHHHHHHHHHHH------H---cCceeccCcc--cHhHHHHHHHHHHHhccCccHHHHHHHHHHHH
Confidence 11111 111122233332221100 0 0011111111 12233222200000000000000000012222
Q ss_pred HHHHHHHhcCcchhhhccccCCCC----CccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcc
Q 000740 877 YQALAQIWNHPGILQLTKDKGYPS----REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHT 952 (1321)
Q Consensus 877 l~~LrkicnhP~Ll~~~~~~~~~~----~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~ 952 (1321)
+..+..+.. ++.. .+... .+...+. ...+.. .....+ ..+..+... .. ++...
T Consensus 284 ~~kl~~a~e---llet---qGi~~~~~Yl~~l~e~---------~~~~~s-k~a~~l----~~d~~~~~a-l~-~~~~~- 340 (542)
T COG1111 284 AIKLAHALE---LLET---QGIRPFYQYLEKLEEE---------ATKGGS-KAAKSL----LADPYFKRA-LR-LLIRA- 340 (542)
T ss_pred HHHHHHHHH---HHHh---hChHHHHHHHHHHHHH---------hcccch-HHHHHH----hcChhhHHH-HH-HHHHh-
Confidence 222211110 1100 00000 0000000 000000 000000 000001000 00 01000
Q ss_pred ccccccCchHHHHHHHHHHhh--cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHH
Q 000740 953 YKELDYSGKMVLLLDILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1030 (1321)
Q Consensus 953 ~~~~~~S~Kl~~L~eiL~~~~--~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~l 1030 (1321)
....-..|||..+.++|++.. ..+.|||||++|.++++.|..+|........ .. .-|-.-..-+-+|++.+..++
T Consensus 341 ~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~-~r--FiGQa~r~~~~GMsQkeQ~ei 417 (542)
T COG1111 341 DESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKAR-VR--FIGQASREGDKGMSQKEQKEI 417 (542)
T ss_pred ccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcce-eE--EeeccccccccccCHHHHHHH
Confidence 112234699999999999876 4578999999999999999999997432110 00 001001112235899999999
Q ss_pred HHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHH
Q 000740 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKR 1110 (1321)
Q Consensus 1031 I~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~r 1110 (1321)
|++|+. +.+. +|++|.+|.+||+++..|-||+|||.-+|...+||.||.+| ++.-.||-|+++||-|+--|..
T Consensus 418 I~~Fr~---Ge~n-VLVaTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR---~r~Grv~vLvt~gtrdeayy~~ 490 (542)
T COG1111 418 IDQFRK---GEYN-VLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGR---KRKGRVVVLVTEGTRDEAYYYS 490 (542)
T ss_pred HHHHhc---CCce-EEEEcccccccCCCCcccEEEEecCCcHHHHHHHhhCcccc---CCCCeEEEEEecCchHHHHHHH
Confidence 999996 4444 59999999999999999999999999999999999999998 4788999999999999999999
Q ss_pred HHHHHHHHHHHhc
Q 000740 1111 QVTKEGLAARVVD 1123 (1321)
Q Consensus 1111 q~~K~~La~~Vvd 1123 (1321)
..+|.+.+...+.
T Consensus 491 s~rke~~m~e~i~ 503 (542)
T COG1111 491 SRRKEQKMIESIR 503 (542)
T ss_pred HHHHHHHHHHHHH
Confidence 9988776655543
No 25
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.93 E-value=2.1e-24 Score=261.07 Aligned_cols=369 Identities=17% Similarity=0.225 Sum_probs=259.5
Q ss_pred cchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HH
Q 000740 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VL 638 (1321)
Q Consensus 560 ~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll 638 (1321)
......|+|||.+++.-++.+.. . ...|++...+|.|||+.++.++..+ ..++|||||.. ++
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~---------~-~~~gvivlpTGaGKT~va~~~~~~~-------~~~~Lvlv~~~~L~ 93 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRR---------T-ERRGVIVLPTGAGKTVVAAEAIAEL-------KRSTLVLVPTKELL 93 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcc---------c-CCceEEEeCCCCCHHHHHHHHHHHh-------cCCEEEEECcHHHH
Confidence 45667899999999987765421 2 5789999999999999999988776 23599999977 78
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCE
Q 000740 639 HNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 718 (1321)
Q Consensus 639 ~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dl 718 (1321)
.||.+.+.+++... -.+..+.+..+. +.. ..|.+.+|+++.... .+..+....|++
T Consensus 94 ~Qw~~~~~~~~~~~---~~~g~~~~~~~~--------~~~-~~i~vat~qtl~~~~------------~l~~~~~~~~~l 149 (442)
T COG1061 94 DQWAEALKKFLLLN---DEIGIYGGGEKE--------LEP-AKVTVATVQTLARRQ------------LLDEFLGNEFGL 149 (442)
T ss_pred HHHHHHHHHhcCCc---cccceecCceec--------cCC-CcEEEEEhHHHhhhh------------hhhhhcccccCE
Confidence 89998888887642 123344443321 111 479999999875310 223344448999
Q ss_pred EEEcCCcccCCcchhHHHHHhhcccce-EEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCCh
Q 000740 719 LVCDEAHMIKNTRADTTQALKQVKCQR-RIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTS 797 (1321)
Q Consensus 719 VIlDEAH~IKN~~S~~skal~~Lka~~-RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~ 797 (1321)
||+||+|++-.+... +.+..+...+ |++|||||..........+..++.|
T Consensus 150 iI~DE~Hh~~a~~~~--~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~--------------------------- 200 (442)
T COG1061 150 IIFDEVHHLPAPSYR--RILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGP--------------------------- 200 (442)
T ss_pred EEEEccccCCcHHHH--HHHHhhhcccceeeeccCceeecCCchhHHHHhcCC---------------------------
Confidence 999999998654333 3444455666 9999999974432333333333221
Q ss_pred HHHHHHHHHHHHHHHHHhHHhhhhhhhhh-h-hcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHH
Q 000740 798 EDVKIMNQRSHILYEQLKGFVQRMDMNVV-K-KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 875 (1321)
Q Consensus 798 ~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v-~-~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~ 875 (1321)
.+......++ . ..|.|.....+.+.++......|.......... +.
T Consensus 201 -------------------~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~-------------~~ 248 (442)
T COG1061 201 -------------------IVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFREL-------------LR 248 (442)
T ss_pred -------------------eEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhh-------------hh
Confidence 1111121122 1 358889999999999999998887654331100 00
Q ss_pred HHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccc
Q 000740 876 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 955 (1321)
Q Consensus 876 ~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 955 (1321)
.... +... .......
T Consensus 249 ~~~~---------~~~~--------------------------------------------------------~~~~~~~ 263 (442)
T COG1061 249 ARGT---------LRAE--------------------------------------------------------NEARRIA 263 (442)
T ss_pred hhhh---------hhHH--------------------------------------------------------HHHHHHh
Confidence 0000 0000 0000001
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
.....|+..+..++.... .+.+++||+.+...+..|...|.. .|+ ...++|.++..+|..++++|.
T Consensus 264 ~~~~~~~~~~~~~~~~~~-~~~~~lif~~~~~~a~~i~~~~~~------------~~~-~~~it~~t~~~eR~~il~~fr 329 (442)
T COG1061 264 IASERKIAAVRGLLLKHA-RGDKTLIFASDVEHAYEIAKLFLA------------PGI-VEAITGETPKEEREAILERFR 329 (442)
T ss_pred hccHHHHHHHHHHHHHhc-CCCcEEEEeccHHHHHHHHHHhcC------------CCc-eEEEECCCCHHHHHHHHHHHH
Confidence 123467778888887665 789999999999999999999875 455 889999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhc-cCCCCc--EEEEEEEeCCChHHHHHHHHH
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWR-YGQTKP--VFAYRLMAHGTMEEKIYKRQV 1112 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~R-iGQkK~--V~VYRLva~gTIEEkI~~rq~ 1112 (1321)
... + ..|++++++.+|++++.|+.+|+..|.=++..+.|++||+.| ...++. ++.|-++...+.+..+.....
T Consensus 330 ~g~---~-~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (442)
T COG1061 330 TGG---I-KVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRR 405 (442)
T ss_pred cCC---C-CEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhh
Confidence 743 3 369999999999999999999999999999999999999999 444544 777888899999888876655
Q ss_pred H
Q 000740 1113 T 1113 (1321)
Q Consensus 1113 ~ 1113 (1321)
.
T Consensus 406 ~ 406 (442)
T COG1061 406 L 406 (442)
T ss_pred h
Confidence 4
No 26
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.93 E-value=3.7e-24 Score=263.40 Aligned_cols=337 Identities=14% Similarity=0.154 Sum_probs=222.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
..|+|||.+++.-++. +..+||...+|.|||+.+++++..+.... ..++|||||.. |+.||.
T Consensus 113 ~~~r~~Q~~av~~~l~--------------~~~~il~apTGsGKT~i~~~l~~~~~~~~---~~~vLilvpt~eL~~Q~~ 175 (501)
T PHA02558 113 IEPHWYQYDAVYEGLK--------------NNRRLLNLPTSAGKSLIQYLLSRYYLENY---EGKVLIIVPTTSLVTQMI 175 (501)
T ss_pred CCCCHHHHHHHHHHHh--------------cCceEEEeCCCCCHHHHHHHHHHHHHhcC---CCeEEEEECcHHHHHHHH
Confidence 5799999999976542 25679999999999998876655443332 23899999975 899999
Q ss_pred HHHHHHCCCCCCCeEE-EEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 643 QEFMKWRPSELKPLRV-FMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V-~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
++|.+|.... ...+ .++.+.... ..+.|+|+|++.+.... .. ....+++||+
T Consensus 176 ~~l~~~~~~~--~~~~~~i~~g~~~~----------~~~~I~VaT~qsl~~~~--------------~~-~~~~~~~iIv 228 (501)
T PHA02558 176 DDFVDYRLFP--REAMHKIYSGTAKD----------TDAPIVVSTWQSAVKQP--------------KE-WFDQFGMVIV 228 (501)
T ss_pred HHHHHhcccc--ccceeEEecCcccC----------CCCCEEEeeHHHHhhch--------------hh-hccccCEEEE
Confidence 9999986321 1222 223332211 34689999998764210 01 1237899999
Q ss_pred cCCcccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHH
Q 000740 722 DEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 800 (1321)
Q Consensus 722 DEAH~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv 800 (1321)
||||++... .....+..+ +++++++|||||-..... .+.+..++.| +...
T Consensus 229 DEaH~~~~~--~~~~il~~~~~~~~~lGLTATp~~~~~~-~~~~~~~fG~----------------i~~~---------- 279 (501)
T PHA02558 229 DECHLFTGK--SLTSIITKLDNCKFKFGLTGSLRDGKAN-ILQYVGLFGD----------------IFKP---------- 279 (501)
T ss_pred Echhcccch--hHHHHHHhhhccceEEEEeccCCCcccc-HHHHHHhhCC----------------ceEE----------
Confidence 999999753 345566667 688999999999532211 1111111111 1000
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhhh--hcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHH
Q 000740 801 KIMNQRSHILYEQLKGFVQRMDMNVVK--KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQ 878 (1321)
Q Consensus 801 ~~~~~r~~~L~~~L~~fv~Rr~k~~v~--~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l~ 878 (1321)
....++. ..+.+.....+.+..++.....+. . . .+-..
T Consensus 280 --------------------v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~---------~-----~----~~~~~-- 319 (501)
T PHA02558 280 --------------------VTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLK---------G-----E----DYQEE-- 319 (501)
T ss_pred --------------------ecHHHHHhCCCcCCceEEEEeccCCHHHhhhhc---------c-----c----chHHH--
Confidence 0000000 112222333344444332111000 0 0 00000
Q ss_pred HHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccccccc
Q 000740 879 ALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDY 958 (1321)
Q Consensus 879 ~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~ 958 (1321)
+.. ....
T Consensus 320 -~~~------------------------------------------------------------------------l~~~ 326 (501)
T PHA02558 320 -IKY------------------------------------------------------------------------ITSH 326 (501)
T ss_pred -HHH------------------------------------------------------------------------Hhcc
Confidence 000 0011
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..+..++.+++..+...+.++|||+..+.+++.|.+.|.. .|+++..++|+++.++|..+++.|++
T Consensus 327 ~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~------------~g~~v~~i~G~~~~~eR~~i~~~~~~-- 392 (501)
T PHA02558 327 TKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKK------------VYDKVYYVSGEVDTEDRNEMKKIAEG-- 392 (501)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHhC--
Confidence 3455667777777767789999999999999999999986 57899999999999999999999985
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCC-cEEEEEEEeCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK-PVFAYRLMAHG 1101 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK-~V~VYRLva~g 1101 (1321)
+...|+|.|++..++|+|++..++||+++|+-+.....|++||++|.|..| .+.||.|+-.-
T Consensus 393 -~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~ 455 (501)
T PHA02558 393 -GKGIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDL 455 (501)
T ss_pred -CCCeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeeccc
Confidence 344556666699999999999999999999999999999999999998765 68999998643
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=99.89 E-value=2.4e-22 Score=229.56 Aligned_cols=361 Identities=22% Similarity=0.345 Sum_probs=246.6
Q ss_pred CcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEE
Q 000740 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1321)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV 632 (1321)
.+++.+.-.-...|||||...++-|..+ ...+.||+.-..|.|||+..|+.+.+. .+.+||+
T Consensus 290 npdl~idLKPst~iRpYQEksL~KMFGN-----------gRARSGiIVLPCGAGKtLVGvTAa~ti-------kK~clvL 351 (776)
T KOG1123|consen 290 NPDLDIDLKPSTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKTLVGVTAACTI-------KKSCLVL 351 (776)
T ss_pred CCCCCcCcCcccccCchHHHHHHHHhCC-----------CcccCceEEEecCCCCceeeeeeeeee-------cccEEEE
Confidence 3455555555788999999999999754 455779999999999999988877664 4689999
Q ss_pred cchhH-HHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhh
Q 000740 633 TPVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1321)
Q Consensus 633 ~P~sL-l~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~l 711 (1321)
|-.++ +.||..+|..|..-....+..+. ...+. .+....+|+|+||.|+..-. +...-.+.+..+
T Consensus 352 cts~VSVeQWkqQfk~wsti~d~~i~rFT--sd~Ke-------~~~~~~gvvvsTYsMva~t~-----kRS~eaek~m~~ 417 (776)
T KOG1123|consen 352 CTSAVSVEQWKQQFKQWSTIQDDQICRFT--SDAKE-------RFPSGAGVVVTTYSMVAYTG-----KRSHEAEKIMDF 417 (776)
T ss_pred ecCccCHHHHHHHHHhhcccCccceEEee--ccccc-------cCCCCCcEEEEeeehhhhcc-----cccHHHHHHHHH
Confidence 98875 89999999999754322233333 22211 12356799999999986422 111223344445
Q ss_pred hc-CCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhh-ccCCCCChHHHHhhccCCccc
Q 000740 712 LQ-DGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV-REGFLGSSHEFRNRFQNPIEN 789 (1321)
Q Consensus 712 l~-~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL-~P~~lgs~~eF~~~f~~pI~~ 789 (1321)
+. ..|+++|+||.|.+ +....-+.+.-+.+.-.++||||-+... |-..=++|| .|.++.. .|..
T Consensus 418 l~~~EWGllllDEVHvv--PA~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYEA--nWmd-------- 483 (776)
T KOG1123|consen 418 LRGREWGLLLLDEVHVV--PAKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEA--NWMD-------- 483 (776)
T ss_pred HhcCeeeeEEeehhccc--hHHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhhhc--cHHH--------
Confidence 54 49999999999988 4444445555568888999999987542 112223443 3433321 0100
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHH
Q 000740 790 GQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKI 869 (1321)
Q Consensus 790 g~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~ 869 (1321)
| .-++ .+..-.-..|+|+||++ +|+.|+....
T Consensus 484 --------------------L--~~kG------------hIA~VqCaEVWCpMt~e---Fy~eYL~~~t----------- 515 (776)
T KOG1123|consen 484 --------------------L--QKKG------------HIAKVQCAEVWCPMTPE---FYREYLRENT----------- 515 (776)
T ss_pred --------------------H--HhCC------------ceeEEeeeeeecCCCHH---HHHHHHhhhh-----------
Confidence 0 0011 12223345689999975 5666654311
Q ss_pred HhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhh
Q 000740 870 RKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLH 949 (1321)
Q Consensus 870 ~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~ 949 (1321)
++.. |+.
T Consensus 516 ~kr~---------------lLy---------------------------------------------------------- 522 (776)
T KOG1123|consen 516 RKRM---------------LLY---------------------------------------------------------- 522 (776)
T ss_pred hhhh---------------eee----------------------------------------------------------
Confidence 0000 000
Q ss_pred hccccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHH
Q 000740 950 EHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQK 1029 (1321)
Q Consensus 950 ~~~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~ 1029 (1321)
+-+..|+.+..-+|+-...+|+|+||||..+-.|....--|.+ ..|.|.|++.+|.+
T Consensus 523 ------vMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----------------pfIYG~Tsq~ERm~ 579 (776)
T KOG1123|consen 523 ------VMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----------------PFIYGPTSQNERMK 579 (776)
T ss_pred ------ecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----------------ceEECCCchhHHHH
Confidence 0123577777778887888999999999988766654444432 34789999999999
Q ss_pred HHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCC-CcchhhhhhhhhhccCCC----CcEEEEEEEeCCChH
Q 000740 1030 LVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQT----KPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1030 lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-NP~~d~QAiGRa~RiGQk----K~V~VYRLva~gTIE 1104 (1321)
+++.|+. |+.+.-+++| ++|...|+|+.||.+|-..... +-..+.||.||+.|---. -+++.|-||..+|.|
T Consensus 580 ILqnFq~--n~~vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqE 656 (776)
T KOG1123|consen 580 ILQNFQT--NPKVNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQE 656 (776)
T ss_pred HHHhccc--CCccceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHH
Confidence 9999998 5556555555 8999999999999999999877 556789999999997522 458999999999998
Q ss_pred HH
Q 000740 1105 EK 1106 (1321)
Q Consensus 1105 Ek 1106 (1321)
..
T Consensus 657 M~ 658 (776)
T KOG1123|consen 657 MY 658 (776)
T ss_pred HH
Confidence 64
No 28
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.89 E-value=1.3e-20 Score=230.36 Aligned_cols=473 Identities=15% Similarity=0.143 Sum_probs=259.2
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW 641 (1321)
...||+||.+-++-.+ |.+.|+|..||+|||+.|+.++..+++.... +++++.+|.. |+.|-
T Consensus 60 ~~~lR~YQ~eivq~AL---------------gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~--~KiVF~aP~~pLv~QQ 122 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL---------------GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK--GKVVFLAPTRPLVNQQ 122 (746)
T ss_pred cccccHHHHHHhHHhh---------------cCCeEEEeecCCCccchHHHHHHHHHhcCCc--ceEEEeeCCchHHHHH
Confidence 3479999999887552 5799999999999999999999998887654 6999999987 67777
Q ss_pred HHHHHHHCCCCCCCeEEEEecC--cchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLED--VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 719 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~--~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlV 719 (1321)
...|..++-+ -.+....+ ..+..|..+ | ...+|+++|.+.+.+......... ...|-++
T Consensus 123 ~a~~~~~~~~----~~~T~~l~~~~~~~~r~~i---~-~s~~vff~TpQil~ndL~~~~~~~-----------ls~fs~i 183 (746)
T KOG0354|consen 123 IACFSIYLIP----YSVTGQLGDTVPRSNRGEI---V-ASKRVFFRTPQILENDLKSGLHDE-----------LSDFSLI 183 (746)
T ss_pred HHHHhhccCc----ccceeeccCccCCCchhhh---h-cccceEEeChHhhhhhcccccccc-----------cceEEEE
Confidence 7888777643 23333322 334444432 3 466899999999876321111000 1257899
Q ss_pred EEcCCcccCCcc--hhHHHHHhhc--ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChH--HHHhhccCCcccCCCC
Q 000740 720 VCDEAHMIKNTR--ADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH--EFRNRFQNPIENGQHT 793 (1321)
Q Consensus 720 IlDEAH~IKN~~--S~~skal~~L--ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~--eF~~~f~~pI~~g~~~ 793 (1321)
|+||||+..... +.+.+.+..+ ...+.|+|||||- +++......++=|.-. +..+. .-...|. .-...
T Consensus 184 v~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~as-ldvr~~ssi~~~y~----~lr~~ 257 (746)
T KOG0354|consen 184 VFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLCAS-LDVRTESSIKSNYE----ELREH 257 (746)
T ss_pred EEcccccccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhhee-cccchhhhhhhhHH----HHhcc
Confidence 999999975432 3333333333 3447899999997 7777766666555444 22110 0011111 00000
Q ss_pred CCChH-HHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEec--CCHHHHHHHHHHHHhhcccccccchHHHH
Q 000740 794 NSTSE-DVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVK--LSPLQRRLYKRFLDLHGFTNDRVSNEKIR 870 (1321)
Q Consensus 794 ~st~~-dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~--LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~ 870 (1321)
...+. -...+......|...++|++++.... .|++..-..-... ....+.+.|..+ . ...
T Consensus 258 ~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~-~~q--- 320 (746)
T KOG0354|consen 258 VQIPVDLSLCERDIEDPFGMIIEPLLQQLQEE----GLIEISDKSTSYEQWVVQAEKAAAPNG---------P-ENQ--- 320 (746)
T ss_pred CcccCcHHHhhhhhhhhHHHHHHHHHHHHHhc----CccccccccccccchhhhhhhhhccCC---------C-ccc---
Confidence 00000 11122233445666677776654422 2222211110000 011111111100 0 000
Q ss_pred hhHHHHHHHHH----HHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhh
Q 000740 871 KSFFAGYQALA----QIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWND 946 (1321)
Q Consensus 871 ~~~l~~l~~Lr----kicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ 946 (1321)
+..|.++..+. .+.+|---+..... ...+-.+.... +. ...... +...-..+..
T Consensus 321 ~~~f~~~~~~~~~~~ll~~~gir~~~~l~-------~~~~f~~e~~~------~k---~~~~~~------e~~~~~~~~~ 378 (746)
T KOG0354|consen 321 RNCFYALHLRKYNLALLISDGIRFVDALD-------YLEDFYEEVAL------KK---YLKLEL------EARLIRNFTE 378 (746)
T ss_pred hhhHHHHHHHHHHHHHHhhcchhhHHHHh-------hhhhhccccch------hH---HHHHHh------cchhhHHHHH
Confidence 00122222111 11111100000000 00000000000 00 000000 0000000011
Q ss_pred hh---hhccccccccCchHHHHHHHHHHhhcC--CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCC
Q 000740 947 LL---HEHTYKELDYSGKMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR 1021 (1321)
Q Consensus 947 ll---~~~~~~~~~~S~Kl~~L~eiL~~~~~~--g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGs 1021 (1321)
.. ...........+|++.|.++|....+. ..++|||+.+...+..|..+|..+...+..+. |.-|..-..-.-+
T Consensus 379 ~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~-~fiGq~~s~~~~g 457 (746)
T KOG0354|consen 379 NMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAE-IFIGQGKSTQSTG 457 (746)
T ss_pred HHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccc-eeeeccccccccc
Confidence 11 111112224579999999999876543 56999999999999999999985433322111 1122211122235
Q ss_pred CCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1022 TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1022 ts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
++..+.++.++.|++ |.+. +||+|.+|.+||++..+|-||-||..-||...+||+|| +| ++.-.++-|.+ +
T Consensus 458 mtqk~Q~evl~~Fr~---G~~N-vLVATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR-gR---a~ns~~vll~t-~ 528 (746)
T KOG0354|consen 458 MTQKEQKEVLDKFRD---GEIN-VLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GR---ARNSKCVLLTT-G 528 (746)
T ss_pred cCHHHHHHHHHHHhC---CCcc-EEEEecchhccCCcccccEEEEecCCccHHHHHHHhcc-cc---ccCCeEEEEEc-c
Confidence 778889999999997 4454 69999999999999999999999999999999999999 66 45555555555 5
Q ss_pred ChHHHHHHHHHHHHHHHHHHhcccc
Q 000740 1102 TMEEKIYKRQVTKEGLAARVVDRQQ 1126 (1321)
Q Consensus 1102 TIEEkI~~rq~~K~~La~~Vvd~~~ 1126 (1321)
.-+-+--..+..|..+....+..-+
T Consensus 529 ~~~~~~E~~~~~~e~lm~~~i~~~q 553 (746)
T KOG0354|consen 529 SEVIEFERNNLAKEKLMNQTISKIQ 553 (746)
T ss_pred hhHHHHHHHHHhHHHHHHHHHHHHH
Confidence 4444444556667777766665543
No 29
>PTZ00110 helicase; Provisional
Probab=99.86 E-value=6.9e-20 Score=227.49 Aligned_cols=125 Identities=22% Similarity=0.238 Sum_probs=109.1
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|...|.++|..+...+.++|||++....++.|...|.. .|+....++|.++..+|..+++.|++
T Consensus 360 ~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~------------~g~~~~~ihg~~~~~eR~~il~~F~~-- 425 (545)
T PTZ00110 360 HEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRL------------DGWPALCIHGDKKQEERTWVLNEFKT-- 425 (545)
T ss_pred hhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHH------------cCCcEEEEECCCcHHHHHHHHHHHhc--
Confidence 3567778888887766788999999999999999999985 57888999999999999999999997
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
+.++ +||+|.++++|||+..+++||+||+++++..+.|++||++|.|.+-.+ |.|++.+
T Consensus 426 -G~~~-ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~a--i~~~~~~ 484 (545)
T PTZ00110 426 -GKSP-IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGAS--YTFLTPD 484 (545)
T ss_pred -CCCc-EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCceE--EEEECcc
Confidence 3444 689999999999999999999999999999999999999999986544 5556654
No 30
>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=99.85 E-value=3.4e-19 Score=218.30 Aligned_cols=105 Identities=19% Similarity=0.177 Sum_probs=95.4
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
.+.++|||+.+....+.+...|.. .|+....++|+++..+|..+++.|.+ +.++ +|++|.+.|.
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~------------~g~~~~~~H~~l~~~eR~~i~~~F~~---g~~~-vLVaT~~~~~ 288 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQN------------LGIAAGAYHAGLEISARDDVHHKFQR---DEIQ-VVVATVAFGM 288 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHh------------cCCCeeEeeCCCCHHHHHHHHHHHHc---CCCc-EEEEechhhc
Confidence 467789999999999999999986 58889999999999999999999996 4454 5889999999
Q ss_pred ccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1055 GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
|||+++.+.||+|++|.++..+.|++||++|.|+...+.+|
T Consensus 289 GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 289 GINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred cCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 99999999999999999999999999999999998776665
No 31
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.84 E-value=1.4e-19 Score=223.91 Aligned_cols=124 Identities=23% Similarity=0.275 Sum_probs=104.1
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
|...|.++|........++|||+.....++.|...|... .|+.+..++|+++..+|..+++.|.+ +
T Consensus 352 k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~-----------~g~~~~~~Hg~~~~~eR~~il~~Fr~---G 417 (518)
T PLN00206 352 KKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVV-----------TGLKALSIHGEKSMKERREVMKSFLV---G 417 (518)
T ss_pred HHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhc-----------cCcceEEeeCCCCHHHHHHHHHHHHC---C
Confidence 455666677655444568999999999999999999752 47889999999999999999999996 4
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
.++ +|++|.+++.|||+..+++||+||+|.++..+.|++||++|.|..- .+|.|+..+
T Consensus 418 ~~~-ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~G--~ai~f~~~~ 475 (518)
T PLN00206 418 EVP-VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKG--TAIVFVNEE 475 (518)
T ss_pred CCC-EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCCe--EEEEEEchh
Confidence 454 6899999999999999999999999999999999999999999753 444566543
No 32
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.84 E-value=4.2e-19 Score=217.12 Aligned_cols=122 Identities=20% Similarity=0.314 Sum_probs=105.1
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+..|..+|... .+.++|||++....++.+...|.. .|+....++|.++..+|+.+++.|.+
T Consensus 228 ~k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~------------~~~~v~~~hg~~~~~eR~~~l~~F~~--- 290 (460)
T PRK11776 228 ERLPALQRLLLHH--QPESCVVFCNTKKECQEVADALNA------------QGFSALALHGDLEQRDRDQVLVRFAN--- 290 (460)
T ss_pred HHHHHHHHHHHhc--CCCceEEEECCHHHHHHHHHHHHh------------CCCcEEEEeCCCCHHHHHHHHHHHHc---
Confidence 3777777777643 357899999999999999999986 58889999999999999999999996
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
+.++ +||+|.+++.|||+.++++||+||++.++..+.|++||++|.|+.- ..|.|+..+
T Consensus 291 g~~~-vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 291 RSCS-VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred CCCc-EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 3444 6889999999999999999999999999999999999999999764 445566553
No 33
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.84 E-value=7.8e-19 Score=213.21 Aligned_cols=118 Identities=24% Similarity=0.352 Sum_probs=102.4
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|..+|..++.. ....++|||+.....++.|...|.. .|+....++|.++..+|..++++|++
T Consensus 231 ~k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~------------~~~~~~~l~g~~~~~~R~~~l~~f~~--- 293 (434)
T PRK11192 231 HKTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRK------------AGINCCYLEGEMVQAKRNEAIKRLTD--- 293 (434)
T ss_pred HHHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHh------------CCCCEEEecCCCCHHHHHHHHHHHhC---
Confidence 466666666653 2457999999999999999999986 57899999999999999999999996
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
+.++ +|++|.+++.|||++++++||+||+++++..+.|++||++|.|.+..+.++
T Consensus 294 G~~~-vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~l 348 (434)
T PRK11192 294 GRVN-VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAISL 348 (434)
T ss_pred CCCc-EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEEE
Confidence 4454 689999999999999999999999999999999999999999987555443
No 34
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.84 E-value=3.9e-19 Score=217.01 Aligned_cols=103 Identities=17% Similarity=0.250 Sum_probs=93.1
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
..++|||+......+.|...|.. .|+....++|.++..+|..+++.|.+ +.++ +||+|.+++.|
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~------------~g~~~~~lhg~~~~~~R~~~l~~F~~---g~~~-iLVaTdv~~rG 308 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNK------------DGIRSAAIHGNKSQGARTRALADFKS---GDIR-VLVATDIAARG 308 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHH------------CCCCEEEEECCCCHHHHHHHHHHHHc---CCCc-EEEEccHHhcC
Confidence 46899999999999999999986 57889999999999999999999996 4454 68899999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
||+.+.++||+||++.++..+.|++||++|.|.+-.+.+
T Consensus 309 iDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~ai~ 347 (456)
T PRK10590 309 LDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEALS 347 (456)
T ss_pred CCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeEEE
Confidence 999999999999999999999999999999998754443
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=3.9e-19 Score=215.11 Aligned_cols=121 Identities=20% Similarity=0.257 Sum_probs=104.7
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+..|..++.. ....++|||++....++.|...|.. .|+.+..++|.++..+|..+++.|++
T Consensus 241 ~k~~~l~~ll~~--~~~~~~lVF~~t~~~~~~l~~~L~~------------~g~~v~~lhg~~~~~~R~~~l~~F~~--- 303 (423)
T PRK04837 241 EKMRLLQTLIEE--EWPDRAIIFANTKHRCEEIWGHLAA------------DGHRVGLLTGDVAQKKRLRILEEFTR--- 303 (423)
T ss_pred HHHHHHHHHHHh--cCCCeEEEEECCHHHHHHHHHHHHh------------CCCcEEEecCCCChhHHHHHHHHHHc---
Confidence 467777777764 2367999999999999999999986 58899999999999999999999996
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+.++ +|++|.+++.|||+++.++||+||+|+++..+.|++||++|.|+.-. ++-|+++
T Consensus 304 g~~~-vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 304 GDLD-ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGH--SISLACE 361 (423)
T ss_pred CCCc-EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCee--EEEEeCH
Confidence 4454 69999999999999999999999999999999999999999997644 4455554
No 36
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=4.2e-19 Score=217.90 Aligned_cols=122 Identities=25% Similarity=0.336 Sum_probs=102.7
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
+.|...|.+++.. ....++|||++....++.|...|.. .|+.+..++|.++..+|.++++.|++
T Consensus 320 ~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~------------~~~~~~~~~g~~~~~~R~~~~~~Fr~-- 383 (475)
T PRK01297 320 SDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVK------------DGINAAQLSGDVPQHKRIKTLEGFRE-- 383 (475)
T ss_pred hhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEECCCCHHHHHHHHHHHhC--
Confidence 3455666666653 2357999999999999999999976 57889999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+.++ +|++|.++++|||+.+++.||+||+++++..+.|++||++|.|+.-. ++-|+..
T Consensus 384 -G~~~-vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~ 441 (475)
T PRK01297 384 -GKIR-VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGV--SISFAGE 441 (475)
T ss_pred -CCCc-EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCce--EEEEecH
Confidence 3454 68899999999999999999999999999999999999999998644 3334443
No 37
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.83 E-value=1.3e-18 Score=216.97 Aligned_cols=121 Identities=21% Similarity=0.349 Sum_probs=103.7
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+..|..++.. ..+.++|||+.....++.|.+.|.. .|+....++|.++..+|..+++.|++
T Consensus 243 ~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~------------~g~~v~~lhg~l~~~eR~~il~~Fr~--- 305 (572)
T PRK04537 243 EKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLER------------HGYRVGVLSGDVPQKKRESLLNRFQK--- 305 (572)
T ss_pred HHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHHc---
Confidence 356666666653 3468999999999999999999986 57899999999999999999999996
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+.++ +||+|.+++.|||+.+.++||+||.+|++..+.|++||+.|.|.+-.+. .|++.
T Consensus 306 G~~~-VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~ai--~~~~~ 363 (572)
T PRK04537 306 GQLE-ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAI--SFACE 363 (572)
T ss_pred CCCe-EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceEE--EEecH
Confidence 3444 6999999999999999999999999999999999999999999875443 44543
No 38
>PTZ00424 helicase 45; Provisional
Probab=99.82 E-value=1.9e-18 Score=207.50 Aligned_cols=108 Identities=17% Similarity=0.281 Sum_probs=95.4
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
..++|||+.....++.+...|.. .++....++|.++..+|..+++.|++ +.++ +|++|.+.++|
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~------------~~~~~~~~h~~~~~~~R~~i~~~f~~---g~~~-vLvaT~~l~~G 330 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHE------------RDFTVSCMHGDMDQKDRDLIMREFRS---GSTR-VLITTDLLARG 330 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHH------------CCCcEEEEeCCCCHHHHHHHHHHHHc---CCCC-EEEEcccccCC
Confidence 46899999999999999999986 57889999999999999999999996 4454 68999999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
||++.++.||+||++.++....|++||++|.|.. -.+|.|++..
T Consensus 331 iDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~ 374 (401)
T PTZ00424 331 IDVQQVSLVINYDLPASPENYIHRIGRSGRFGRK--GVAINFVTPD 374 (401)
T ss_pred cCcccCCEEEEECCCCCHHHEeecccccccCCCC--ceEEEEEcHH
Confidence 9999999999999999999999999999999865 3455566554
No 39
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.81 E-value=1.1e-18 Score=228.86 Aligned_cols=115 Identities=14% Similarity=0.197 Sum_probs=90.6
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
+.|+|||+....+++.+.+.|...+.....+ ..+..+..++|+++ ++..++++|.++. ...+|+|++..++|
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~---~~~~~v~~itg~~~--~~~~li~~Fk~~~---~p~IlVsvdmL~TG 769 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQ---VEDDAVIKITGSID--KPDQLIRRFKNER---LPNIVVTVDLLTTG 769 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCC---cCccceEEEeCCcc--chHHHHHHHhCCC---CCeEEEEecccccC
Confidence 4799999999999998888887632110000 01234567999986 6788999998743 33579999999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhccCC---CCcEEEEEEE
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ---TKPVFAYRLM 1098 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQ---kK~V~VYRLv 1098 (1321)
+|.+....||++.|.-++....|++||+.|..- |....||.++
T Consensus 770 ~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 770 IDVPSICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred CCcccccEEEEecCCCCHHHHHHHHhhhccCCccCCCceEEEEehH
Confidence 999999999999999999999999999999854 5667788765
No 40
>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=99.81 E-value=6.1e-18 Score=212.93 Aligned_cols=116 Identities=23% Similarity=0.208 Sum_probs=99.7
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
+...+.++|... .+.+.|||+.+....+.+..+|.. .|+.+..++|+++.++|..+++.|..+
T Consensus 211 ~~~~l~~~l~~~--~~~~~IIf~~sr~~~e~la~~L~~------------~g~~~~~~H~~l~~~~R~~i~~~F~~g--- 273 (591)
T TIGR01389 211 KQKFLLDYLKKH--RGQSGIIYASSRKKVEELAERLES------------QGISALAYHAGLSNKVRAENQEDFLYD--- 273 (591)
T ss_pred HHHHHHHHHHhc--CCCCEEEEECcHHHHHHHHHHHHh------------CCCCEEEEECCCCHHHHHHHHHHHHcC---
Confidence 344555555543 268999999999999999999986 588899999999999999999999863
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
.+. +|++|.+.|.|||++..+.||+|++++|+..+.|++||++|.|+...+.+
T Consensus 274 ~~~-vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il 326 (591)
T TIGR01389 274 DVK-VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAIL 326 (591)
T ss_pred CCc-EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEE
Confidence 343 69999999999999999999999999999999999999999997765543
No 41
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.81 E-value=7.3e-18 Score=212.16 Aligned_cols=104 Identities=19% Similarity=0.204 Sum_probs=94.0
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
.+.++|||+.+....+.+...|.. .|+.+..++|+++..+|..+++.|.. +.++ +|++|.+.|.
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~------------~g~~v~~~Ha~l~~~~R~~i~~~F~~---g~~~-VLVaT~a~~~ 298 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQS------------RGISAAAYHAGLDNDVRADVQEAFQR---DDLQ-IVVATVAFGM 298 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHh------------CCCCEEEecCCCCHHHHHHHHHHHHC---CCCC-EEEEechhhc
Confidence 478999999999999999999986 58899999999999999999999986 3444 6889999999
Q ss_pred ccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1055 GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
|||+++.+.||+||+|.++..+.|++||++|.|....+.+
T Consensus 299 GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~il 338 (607)
T PRK11057 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAML 338 (607)
T ss_pred cCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEEE
Confidence 9999999999999999999999999999999997755443
No 42
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.81 E-value=7.5e-18 Score=212.92 Aligned_cols=311 Identities=16% Similarity=0.215 Sum_probs=196.8
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
-.|.++|..++..++.... .......+|.-++|.|||+.++..+...+.. ...+||++|+. |..||.
T Consensus 234 f~lt~~Q~~ai~~I~~~~~--------~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~----g~qvlilaPT~~LA~Q~~ 301 (630)
T TIGR00643 234 FKLTRAQKRVVKEILQDLK--------SDVPMNRLLQGDVGSGKTLVAALAMLAAIEA----GYQVALMAPTEILAEQHY 301 (630)
T ss_pred CCCCHHHHHHHHHHHHHhc--------cCCCccEEEECCCCCcHHHHHHHHHHHHHHc----CCcEEEECCHHHHHHHHH
Confidence 4689999999988765321 1233467999999999999876655554433 24799999987 667999
Q ss_pred HHHHHHCCCCCCCeEEEEecCcch-hHHHHHHHHHh-hcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~-~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
+++.+|++.. .+++..+.+... ..+...+.... ...+|+|.|+..+... ..-...++||
T Consensus 302 ~~~~~l~~~~--gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~-----------------~~~~~l~lvV 362 (630)
T TIGR00643 302 NSLRNLLAPL--GIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEK-----------------VEFKRLALVI 362 (630)
T ss_pred HHHHHHhccc--CcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcc-----------------ccccccceEE
Confidence 9999998641 367777776543 33333333332 2458999888765320 0112578999
Q ss_pred EcCCcccCCcchhHHHHHhhcc---cceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCCh
Q 000740 721 CDEAHMIKNTRADTTQALKQVK---CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTS 797 (1321)
Q Consensus 721 lDEAH~IKN~~S~~skal~~Lk---a~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~ 797 (1321)
+||+|++.- .++........ ..+.++|||||+...+. +..+ +.. +
T Consensus 363 IDEaH~fg~--~qr~~l~~~~~~~~~~~~l~~SATp~prtl~----l~~~------~~l-----------------~--- 410 (630)
T TIGR00643 363 IDEQHRFGV--EQRKKLREKGQGGFTPHVLVMSATPIPRTLA----LTVY------GDL-----------------D--- 410 (630)
T ss_pred EechhhccH--HHHHHHHHhcccCCCCCEEEEeCCCCcHHHH----HHhc------CCc-----------------c---
Confidence 999998732 22222333333 57899999999753221 0000 000 0
Q ss_pred HHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCce--EEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHH
Q 000740 798 EDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKT--VFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 875 (1321)
Q Consensus 798 ~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~--e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~ 875 (1321)
. .....+|+.. .....+.-
T Consensus 411 -------------------------~-~~i~~~p~~r~~i~~~~~~~--------------------------------- 431 (630)
T TIGR00643 411 -------------------------T-SIIDELPPGRKPITTVLIKH--------------------------------- 431 (630)
T ss_pred -------------------------e-eeeccCCCCCCceEEEEeCc---------------------------------
Confidence 0 0000122110 00000000
Q ss_pred HHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccc
Q 000740 876 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 955 (1321)
Q Consensus 876 ~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 955 (1321)
T Consensus 432 -------------------------------------------------------------------------------- 431 (630)
T TIGR00643 432 -------------------------------------------------------------------------------- 431 (630)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCch--------hhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHH
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSI--------PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER 1027 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~--------~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR 1027 (1321)
.+...+.+.+......|++++||+... ..+..+.+.|... ..++.+..++|.++..+|
T Consensus 432 ----~~~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~----------~~~~~v~~lHG~m~~~eR 497 (630)
T TIGR00643 432 ----DEKDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKA----------FPKYNVGLLHGRMKSDEK 497 (630)
T ss_pred ----chHHHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhh----------CCCCcEEEEeCCCCHHHH
Confidence 001122233333334466777776543 2334455555531 146789999999999999
Q ss_pred HHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCC-CcchhhhhhhhhhccCCCCcEEE
Q 000740 1028 QKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1028 ~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-NP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
..++++|.+ +.++ +|++|.+.++|||++.++.||+++++. +-+...|++||++|-|..-.|++
T Consensus 498 ~~i~~~F~~---g~~~-ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il 561 (630)
T TIGR00643 498 EAVMEEFRE---GEVD-ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLL 561 (630)
T ss_pred HHHHHHHHc---CCCC-EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEEE
Confidence 999999996 3443 689999999999999999999999975 67889999999999987655544
No 43
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.80 E-value=1.4e-17 Score=209.21 Aligned_cols=117 Identities=20% Similarity=0.245 Sum_probs=102.1
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|...|..+|... ...++|||+......+.|...|.. .|+....++|.++..+|..++++|.+
T Consensus 231 ~k~~~L~~~L~~~--~~~~~IVF~~tk~~a~~l~~~L~~------------~g~~~~~lhgd~~q~~R~~il~~Fr~--- 293 (629)
T PRK11634 231 RKNEALVRFLEAE--DFDAAIIFVRTKNATLEVAEALER------------NGYNSAALNGDMNQALREQTLERLKD--- 293 (629)
T ss_pred hHHHHHHHHHHhc--CCCCEEEEeccHHHHHHHHHHHHh------------CCCCEEEeeCCCCHHHHHHHHHHHhC---
Confidence 4677777777642 347899999999999999999986 58899999999999999999999996
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
+.+. +||+|.+.+.|||+...++||+||+|.++..+.|++||+.|.|..-.+.+
T Consensus 294 G~~~-ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ai~ 347 (629)
T PRK11634 294 GRLD-ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALL 347 (629)
T ss_pred CCCC-EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceEEE
Confidence 3444 69999999999999999999999999999999999999999997654443
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.79 E-value=1.8e-17 Score=210.79 Aligned_cols=311 Identities=16% Similarity=0.215 Sum_probs=200.2
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW 641 (1321)
.-.|.++|..++.-+..... .......+|.-++|.|||+.++..+...... ...+||++|+. |..|+
T Consensus 259 ~f~lt~~Q~~ai~~I~~d~~--------~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~----g~q~lilaPT~~LA~Q~ 326 (681)
T PRK10917 259 PFELTGAQKRVVAEILADLA--------SPKPMNRLLQGDVGSGKTVVAALAALAAIEA----GYQAALMAPTEILAEQH 326 (681)
T ss_pred CCCCCHHHHHHHHHHHHhhh--------ccCCceEEEECCCCCcHHHHHHHHHHHHHHc----CCeEEEEeccHHHHHHH
Confidence 34699999999987765321 1223467999999999999887666554433 24799999987 67789
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcch-hHHHHHHHHHhh-cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 719 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~-~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlV 719 (1321)
.+.+.+|++. ..+++..+.|... ..+...+..+.. ..+|+|.|+..+... ..-...++|
T Consensus 327 ~~~l~~l~~~--~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~-----------------v~~~~l~lv 387 (681)
T PRK10917 327 YENLKKLLEP--LGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDD-----------------VEFHNLGLV 387 (681)
T ss_pred HHHHHHHHhh--cCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhccc-----------------chhcccceE
Confidence 9999999865 1367777776643 445555555543 478999888765321 001267899
Q ss_pred EEcCCcccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChH
Q 000740 720 VCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 798 (1321)
Q Consensus 720 IlDEAH~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~ 798 (1321)
|+||+|++. ......+... ...+.++|||||+...+. +..+ +.
T Consensus 388 VIDE~Hrfg---~~qr~~l~~~~~~~~iL~~SATp~prtl~----~~~~------g~----------------------- 431 (681)
T PRK10917 388 IIDEQHRFG---VEQRLALREKGENPHVLVMTATPIPRTLA----MTAY------GD----------------------- 431 (681)
T ss_pred EEechhhhh---HHHHHHHHhcCCCCCEEEEeCCCCHHHHH----HHHc------CC-----------------------
Confidence 999999973 2223333333 357899999999642211 0000 00
Q ss_pred HHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCce--EEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000740 799 DVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKT--VFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 876 (1321)
Q Consensus 799 dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~--e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~ 876 (1321)
+ .. .....+|+.. .....+
T Consensus 432 ---------------~-------~~-s~i~~~p~~r~~i~~~~~------------------------------------ 452 (681)
T PRK10917 432 ---------------L-------DV-SVIDELPPGRKPITTVVI------------------------------------ 452 (681)
T ss_pred ---------------C-------ce-EEEecCCCCCCCcEEEEe------------------------------------
Confidence 0 00 0000111100 000000
Q ss_pred HHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccccc
Q 000740 877 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 956 (1321)
Q Consensus 877 l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~ 956 (1321)
T Consensus 453 -------------------------------------------------------------------------------- 452 (681)
T PRK10917 453 -------------------------------------------------------------------------------- 452 (681)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchh--------hHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHH
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIP--------TLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1028 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~--------tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~ 1028 (1321)
...+...+.+.+......|++++||+.... .+..+.+.|... ..++.+..++|+++..+|+
T Consensus 453 -~~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~----------~~~~~v~~lHG~m~~~eR~ 521 (681)
T PRK10917 453 -PDSRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEA----------FPELRVGLLHGRMKPAEKD 521 (681)
T ss_pred -CcccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHH----------CCCCcEEEEeCCCCHHHHH
Confidence 001112233444444456888888887432 234455555541 1347899999999999999
Q ss_pred HHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCC-CcchhhhhhhhhhccCCCCcEEE
Q 000740 1029 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1029 ~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-NP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
.++++|.+ +.++ +|++|.+.++|+|+++++.||+++++. ..+...|++||++|-|..-.|++
T Consensus 522 ~i~~~F~~---g~~~-ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il 584 (681)
T PRK10917 522 AVMAAFKA---GEID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCVL 584 (681)
T ss_pred HHHHHHHc---CCCC-EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEEEE
Confidence 99999996 3444 689999999999999999999999975 56888999999999987644443
No 45
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.79 E-value=2e-17 Score=213.66 Aligned_cols=311 Identities=15% Similarity=0.237 Sum_probs=203.2
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 643 (1321)
.+.|+|..++..+...+. ...+...++.-++|.|||..++..+...... .+.+||++|+. |..|..+
T Consensus 451 ~~T~~Q~~aI~~I~~d~~--------~~~~~d~Ll~adTGsGKT~val~a~l~al~~----g~qvlvLvPT~~LA~Q~~~ 518 (926)
T TIGR00580 451 EETPDQLKAIEEIKADME--------SPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD----GKQVAVLVPTTLLAQQHFE 518 (926)
T ss_pred CCCHHHHHHHHHHHhhhc--------ccCcCCEEEECCCCccHHHHHHHHHHHHHHh----CCeEEEEeCcHHHHHHHHH
Confidence 468999999988765321 1234568999999999999877555444333 25799999987 6778999
Q ss_pred HHHHHCCCCCCCeEEEEecCcc-hhHHHHHHHHHhh-cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 644 EFMKWRPSELKPLRVFMLEDVS-RDRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~-~~~r~~~l~~~~~-~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
.|.+++.. .++++..+++.. ...+...+..+.. ..+|+|.|+..+.. . ..-....+||+
T Consensus 519 ~f~~~~~~--~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~-----~------------v~f~~L~llVI 579 (926)
T TIGR00580 519 TFKERFAN--FPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQK-----D------------VKFKDLGLLII 579 (926)
T ss_pred HHHHHhcc--CCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhC-----C------------CCcccCCEEEe
Confidence 99988764 246776666543 3334444444433 46788888754321 0 01125689999
Q ss_pred cCCcccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHH
Q 000740 722 DEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 800 (1321)
Q Consensus 722 DEAH~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv 800 (1321)
||+|++.. .....++.+ .....++|||||+...+.. .+..+..+.
T Consensus 580 DEahrfgv---~~~~~L~~~~~~~~vL~~SATpiprtl~~--~l~g~~d~s----------------------------- 625 (926)
T TIGR00580 580 DEEQRFGV---KQKEKLKELRTSVDVLTLSATPIPRTLHM--SMSGIRDLS----------------------------- 625 (926)
T ss_pred ecccccch---hHHHHHHhcCCCCCEEEEecCCCHHHHHH--HHhcCCCcE-----------------------------
Confidence 99999732 233445555 3567999999997532211 000000000
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEE---EecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHH
Q 000740 801 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVI---TVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGY 877 (1321)
Q Consensus 801 ~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv---~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l 877 (1321)
.+ ..||.....+ .+..
T Consensus 626 ------------------------~I--~~~p~~R~~V~t~v~~~----------------------------------- 644 (926)
T TIGR00580 626 ------------------------II--ATPPEDRLPVRTFVMEY----------------------------------- 644 (926)
T ss_pred ------------------------EE--ecCCCCccceEEEEEec-----------------------------------
Confidence 00 0111100000 0000
Q ss_pred HHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccccc
Q 000740 878 QALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELD 957 (1321)
Q Consensus 878 ~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~ 957 (1321)
T Consensus 645 -------------------------------------------------------------------------------- 644 (926)
T TIGR00580 645 -------------------------------------------------------------------------------- 644 (926)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
+. ..+.+.+......|.+++||++....++.+...|.++. .++.+..++|.++..+|.+++.+|.+
T Consensus 645 -~~--~~i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~~----------p~~~v~~lHG~m~~~eRe~im~~F~~- 710 (926)
T TIGR00580 645 -DP--ELVREAIRRELLRGGQVFYVHNRIESIEKLATQLRELV----------PEARIAIAHGQMTENELEEVMLEFYK- 710 (926)
T ss_pred -CH--HHHHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHhC----------CCCeEEEecCCCCHHHHHHHHHHHHc-
Confidence 00 00111111112347899999999999999999998631 46789999999999999999999996
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeCC-CCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~-WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+++. +|++|.+.+.|||++.++.||+++++ +..+...|++||++|.|.. -++|-|+..
T Consensus 711 --Gk~~-ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~--g~aill~~~ 769 (926)
T TIGR00580 711 --GEFQ-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKK--AYAYLLYPH 769 (926)
T ss_pred --CCCC-EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCC--eEEEEEECC
Confidence 3444 69999999999999999999999985 4667789999999998864 455555544
No 46
>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=99.78 E-value=5.7e-17 Score=207.36 Aligned_cols=349 Identities=14% Similarity=0.137 Sum_probs=215.0
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
..|+|||.+++..+. .|...|+.-.+|.|||+..+.-+...+... ....+|||+|+. |..|-.
T Consensus 35 ~~p~~~Q~~ai~~il--------------~G~nvvv~apTGSGKTla~~LPiL~~l~~~--~~~~aL~l~PtraLa~q~~ 98 (742)
T TIGR03817 35 HRPWQHQARAAELAH--------------AGRHVVVATGTASGKSLAYQLPVLSALADD--PRATALYLAPTKALAADQL 98 (742)
T ss_pred CcCCHHHHHHHHHHH--------------CCCCEEEECCCCCcHHHHHHHHHHHHHhhC--CCcEEEEEcChHHHHHHHH
Confidence 358999999998763 467899999999999988765544443322 234799999976 667888
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
.++.++.. ..+++..++|.........+ ....+|+|+|.+++......... .+..+ ..+.++||+|
T Consensus 99 ~~l~~l~~---~~i~v~~~~Gdt~~~~r~~i---~~~~~IivtTPd~L~~~~L~~~~-------~~~~~-l~~l~~vViD 164 (742)
T TIGR03817 99 RAVRELTL---RGVRPATYDGDTPTEERRWA---REHARYVLTNPDMLHRGILPSHA-------RWARF-LRRLRYVVID 164 (742)
T ss_pred HHHHHhcc---CCeEEEEEeCCCCHHHHHHH---hcCCCEEEEChHHHHHhhccchh-------HHHHH-HhcCCEEEEe
Confidence 88888862 24777777776543322222 24578999999887531111110 11111 2367899999
Q ss_pred CCcccCC-cchhHHHHHhhc--------ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCC
Q 000740 723 EAHMIKN-TRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 793 (1321)
Q Consensus 723 EAH~IKN-~~S~~skal~~L--------ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~ 793 (1321)
|||.+.+ ..+.....+..+ .....+++|||. . ++.++. ..+ +..|+.
T Consensus 165 Eah~~~g~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi-~-n~~~~~---~~l--------------~g~~~~----- 220 (742)
T TIGR03817 165 ECHSYRGVFGSHVALVLRRLRRLCARYGASPVFVLASATT-A-DPAAAA---SRL--------------IGAPVV----- 220 (742)
T ss_pred ChhhccCccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCC-C-CHHHHH---HHH--------------cCCCeE-----
Confidence 9999975 334444454444 235689999994 2 223221 111 011100
Q ss_pred CCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhh-hcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhh
Q 000740 794 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVK-KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKS 872 (1321)
Q Consensus 794 ~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~-~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~ 872 (1321)
.+. ..-|.....+....... +. . ...
T Consensus 221 -------------------------------~i~~~~~~~~~~~~~~~~p~~-----~~-~------~~~---------- 247 (742)
T TIGR03817 221 -------------------------------AVTEDGSPRGARTVALWEPPL-----TE-L------TGE---------- 247 (742)
T ss_pred -------------------------------EECCCCCCcCceEEEEecCCc-----cc-c------ccc----------
Confidence 000 00111111111100000 00 0 000
Q ss_pred HHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcc
Q 000740 873 FFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHT 952 (1321)
Q Consensus 873 ~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~ 952 (1321)
....
T Consensus 248 -----------------------~~~~----------------------------------------------------- 251 (742)
T TIGR03817 248 -----------------------NGAP----------------------------------------------------- 251 (742)
T ss_pred -----------------------cccc-----------------------------------------------------
Confidence 0000
Q ss_pred ccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHH
Q 000740 953 YKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1032 (1321)
Q Consensus 953 ~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~ 1032 (1321)
........+..+|..++. .+.++|||+++....+.|..+|........ ...+..+..++|+++.++|.++.+
T Consensus 252 ~r~~~~~~~~~~l~~l~~----~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~----~~l~~~v~~~hgg~~~~eR~~ie~ 323 (742)
T TIGR03817 252 VRRSASAEAADLLADLVA----EGARTLTFVRSRRGAELVAAIARRLLGEVD----PDLAERVAAYRAGYLPEDRRELER 323 (742)
T ss_pred cccchHHHHHHHHHHHHH----CCCCEEEEcCCHHHHHHHHHHHHHHHHhhc----cccccchhheecCCCHHHHHHHHH
Confidence 000001124444445544 478999999999999999998875210000 012456778899999999999999
Q ss_pred HHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHH
Q 000740 1033 RFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1033 ~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~ 1109 (1321)
+|.+ +.++ +|++|.+.++|||+.+.+.||+|+.|-+.....|++||++|.|+.-- ++-++..+..|..+..
T Consensus 324 ~f~~---G~i~-vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~~~ 394 (742)
T TIGR03817 324 ALRD---GELL-GVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYLVH 394 (742)
T ss_pred HHHc---CCce-EEEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHHHh
Confidence 9996 5555 68999999999999999999999999999999999999999997643 3445555566665443
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.76 E-value=1.9e-16 Score=201.98 Aligned_cols=105 Identities=18% Similarity=0.149 Sum_probs=95.0
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
+...|||+.+....+.|..+|.. .|+....++|+++..+|..++++|.. +.++ +|++|.|.|.|
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~------------~Gika~~YHAGLs~eeR~~vqe~F~~---Gei~-VLVATdAFGMG 743 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQE------------FGHKAAFYHGSMDPAQRAFVQKQWSK---DEIN-IICATVAFGMG 743 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHH------------CCCCeeeeeCCCCHHHHHHHHHHHhc---CCCc-EEEEechhhcC
Confidence 45789999999999999999986 68999999999999999999999996 3454 58889999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEE
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYR 1096 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYR 1096 (1321)
||+...+.||+|++|-++..+.|++||++|.|+.-.+..|+
T Consensus 744 IDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 744 INKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred CCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 99999999999999999999999999999999986666554
No 48
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.75 E-value=1.9e-16 Score=208.59 Aligned_cols=310 Identities=17% Similarity=0.233 Sum_probs=200.4
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
-.+.|.|..++.-+..... ...+...++..++|.|||.+++-.+...... .+.+||+||+. |..|..
T Consensus 599 ~~~T~~Q~~aI~~il~d~~--------~~~~~d~Ll~a~TGsGKT~val~aa~~~~~~----g~qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 599 FETTPDQAQAINAVLSDMC--------QPLAMDRLVCGDVGFGKTEVAMRAAFLAVEN----HKQVAVLVPTTLLAQQHY 666 (1147)
T ss_pred CCCCHHHHHHHHHHHHHhh--------cCCCCCEEEEcCCCcCHHHHHHHHHHHHHHc----CCeEEEEeCcHHHHHHHH
Confidence 3578899999987654321 1344678999999999999876444333222 35799999987 567888
Q ss_pred HHHHHHCCCCCCCeEEEEecCc-chhHHHHHHHHHh-hcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 643 QEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~-~~~~r~~~l~~~~-~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
+.|.+++.. .++++..+.+. +...+...+.... ...+|+|.|+..++.. +.....++||
T Consensus 667 ~~f~~~~~~--~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~-----------------v~~~~L~lLV 727 (1147)
T PRK10689 667 DNFRDRFAN--WPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSD-----------------VKWKDLGLLI 727 (1147)
T ss_pred HHHHHhhcc--CCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCC-----------------CCHhhCCEEE
Confidence 888887643 13566655543 3334444444332 3468999998655310 0012578999
Q ss_pred EcCCcccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHH
Q 000740 721 CDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSED 799 (1321)
Q Consensus 721 lDEAH~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~d 799 (1321)
+||+|++.. .....++.+ .....+++||||++..+.. ++..+.++.
T Consensus 728 IDEahrfG~---~~~e~lk~l~~~~qvLl~SATpiprtl~l--~~~gl~d~~---------------------------- 774 (1147)
T PRK10689 728 VDEEHRFGV---RHKERIKAMRADVDILTLTATPIPRTLNM--AMSGMRDLS---------------------------- 774 (1147)
T ss_pred Eechhhcch---hHHHHHHhcCCCCcEEEEcCCCCHHHHHH--HHhhCCCcE----------------------------
Confidence 999999832 223445555 4567899999997643221 000000000
Q ss_pred HHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEE---EEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000740 800 VKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVF---VITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 876 (1321)
Q Consensus 800 v~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~---vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~ 876 (1321)
.+ ..|+.... .+.....
T Consensus 775 -------------------------~I--~~~p~~r~~v~~~~~~~~--------------------------------- 794 (1147)
T PRK10689 775 -------------------------II--ATPPARRLAVKTFVREYD--------------------------------- 794 (1147)
T ss_pred -------------------------EE--ecCCCCCCCceEEEEecC---------------------------------
Confidence 00 00110000 0000000
Q ss_pred HHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhcccccc
Q 000740 877 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 956 (1321)
Q Consensus 877 l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~ 956 (1321)
T Consensus 795 -------------------------------------------------------------------------------- 794 (1147)
T PRK10689 795 -------------------------------------------------------------------------------- 794 (1147)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
.......++.++. .+.+++||++....++.+.+.|.++ ..++.+..++|.++..+|.+++.+|.+
T Consensus 795 ----~~~~k~~il~el~-r~gqv~vf~n~i~~ie~la~~L~~~----------~p~~~v~~lHG~m~q~eRe~im~~Fr~ 859 (1147)
T PRK10689 795 ----SLVVREAILREIL-RGGQVYYLYNDVENIQKAAERLAEL----------VPEARIAIGHGQMRERELERVMNDFHH 859 (1147)
T ss_pred ----cHHHHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHh----------CCCCcEEEEeCCCCHHHHHHHHHHHHh
Confidence 0000111222222 3678999999999999999999873 146788899999999999999999996
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEEEEeCC-CCcchhhhhhhhhhccCCCCcEEEEEEE
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFAYRLM 1098 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~-WNP~~d~QAiGRa~RiGQkK~V~VYRLv 1098 (1321)
+.+. +|++|.+.+.|||++.+++||+.+++ |..+...|++||++|.|.+- ++|-+.
T Consensus 860 ---Gk~~-VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g--~a~ll~ 916 (1147)
T PRK10689 860 ---QRFN-VLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQA--YAWLLT 916 (1147)
T ss_pred ---cCCC-EEEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCce--EEEEEe
Confidence 4454 58899999999999999999998774 68788999999999998764 444344
No 49
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.75 E-value=2.8e-16 Score=204.67 Aligned_cols=120 Identities=16% Similarity=0.141 Sum_probs=96.8
Q ss_pred HHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEE
Q 000740 967 DILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTL 1046 (1321)
Q Consensus 967 eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfL 1046 (1321)
..|..+...+.++|||++.....+.+...|...... +..+..+..++|+++.++|..+.++|++ +.++ +|
T Consensus 275 ~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~------~~~~~~i~~hHg~ls~~~R~~ve~~fk~---G~i~-vL 344 (876)
T PRK13767 275 ETLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPE------EYDEDNIGAHHSSLSREVRLEVEEKLKR---GELK-VV 344 (876)
T ss_pred HHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchh------hccccceeeeeCCCCHHHHHHHHHHHHc---CCCe-EE
Confidence 344444455789999999999999999998863210 0134678889999999999999999996 4454 68
Q ss_pred eeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhcc-CCCCcEEEEE
Q 000740 1047 ISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY-GQTKPVFAYR 1096 (1321)
Q Consensus 1047 ISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~Ri-GQkK~V~VYR 1096 (1321)
++|.+.+.|||+...+.||+|++|.++....|++||++|- |+...-.++-
T Consensus 345 VaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii~ 395 (876)
T PRK13767 345 VSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRIIV 395 (876)
T ss_pred EECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEEE
Confidence 8999999999999999999999999999999999999986 4545555554
No 50
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.73 E-value=3.7e-16 Score=186.80 Aligned_cols=119 Identities=24% Similarity=0.275 Sum_probs=106.1
Q ss_pred CchHHHHHHHHHHhh-cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~-~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
..|...|..+|.... ..+.|+|||++...+.+.|+..|.. .+++..-|||..++.+|...++.|.++
T Consensus 323 ~~K~~~l~~lL~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~------------~~~~a~~iHGd~sQ~eR~~~L~~FreG 390 (519)
T KOG0331|consen 323 TAKLRKLGKLLEDISSDSEGKVIIFCETKRTCDELARNLRR------------KGWPAVAIHGDKSQSERDWVLKGFREG 390 (519)
T ss_pred HHHHHHHHHHHHHHhccCCCcEEEEecchhhHHHHHHHHHh------------cCcceeeecccccHHHHHHHHHhcccC
Confidence 568888888888776 4567999999999999999999986 578999999999999999999999974
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEE
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1093 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~ 1093 (1321)
+.. +|++|++++.||++.+.+.||+||+|-|...+.+|+||.+|-|++-..+
T Consensus 391 ---~~~-vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~A~ 442 (519)
T KOG0331|consen 391 ---KSP-VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGTAI 442 (519)
T ss_pred ---Ccc-eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCceEE
Confidence 332 7999999999999999999999999999999999999999988775443
No 51
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.71 E-value=1e-15 Score=172.65 Aligned_cols=130 Identities=20% Similarity=0.273 Sum_probs=113.0
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
-|-..|+.||++.. |.-+||||..-.+.+.+.-+|.. .|+....++|.|++..|...++.|++.
T Consensus 286 ~K~~yLV~ll~e~~--g~s~iVF~~t~~tt~~la~~L~~------------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~-- 349 (476)
T KOG0330|consen 286 DKDTYLVYLLNELA--GNSVIVFCNTCNTTRFLALLLRN------------LGFQAIPLHGQMSQSKRLGALNKFKAG-- 349 (476)
T ss_pred ccchhHHHHHHhhc--CCcEEEEEeccchHHHHHHHHHh------------cCcceecccchhhHHHHHHHHHHHhcc--
Confidence 35667888888654 68999999999999999999997 589999999999999999999999973
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHH
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQ 1111 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq 1111 (1321)
.. -+|++|++|+.||+.+.++.||+||.|-+...+++|+||+.|.| +.-.+..||+.- |--.|+|.
T Consensus 350 -~r-~iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtqy--Dve~~qrI 415 (476)
T KOG0330|consen 350 -AR-SILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQY--DVELVQRI 415 (476)
T ss_pred -CC-cEEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEehh--hhHHHHHH
Confidence 22 37999999999999999999999999999999999999999999 777788899984 44444443
No 52
>PRK02362 ski2-like helicase; Provisional
Probab=99.70 E-value=2.4e-15 Score=193.87 Aligned_cols=153 Identities=18% Similarity=0.196 Sum_probs=101.8
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
..|+|+|.+++.-++ ..+.++|++..+|.|||+.+...+...+.. .+++|+|+|.. |+.|+.
T Consensus 22 ~~l~p~Q~~ai~~~~-------------~~g~nvlv~APTGSGKTlia~lail~~l~~----~~kal~i~P~raLa~q~~ 84 (737)
T PRK02362 22 EELYPPQAEAVEAGL-------------LDGKNLLAAIPTASGKTLIAELAMLKAIAR----GGKALYIVPLRALASEKF 84 (737)
T ss_pred CcCCHHHHHHHHHHH-------------hCCCcEEEECCCcchHHHHHHHHHHHHHhc----CCcEEEEeChHHHHHHHH
Confidence 368999999997543 245789999999999999876544443322 35899999965 888999
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
.+|.++.+. .+++..+.|..... ..+....+|+|+|++.+..+.... . . .....++||+|
T Consensus 85 ~~~~~~~~~---g~~v~~~tGd~~~~-----~~~l~~~~IiV~Tpek~~~llr~~----~-------~-~l~~v~lvViD 144 (737)
T PRK02362 85 EEFERFEEL---GVRVGISTGDYDSR-----DEWLGDNDIIVATSEKVDSLLRNG----A-------P-WLDDITCVVVD 144 (737)
T ss_pred HHHHHhhcC---CCEEEEEeCCcCcc-----ccccCCCCEEEECHHHHHHHHhcC----h-------h-hhhhcCEEEEE
Confidence 999987542 25666665543221 123356799999998875442110 0 0 11267999999
Q ss_pred CCcccCCcc--hhHHHHHhhc----ccceEEEEecCC
Q 000740 723 EAHMIKNTR--ADTTQALKQV----KCQRRIALTGSP 753 (1321)
Q Consensus 723 EAH~IKN~~--S~~skal~~L----ka~~RllLTGTP 753 (1321)
|+|.+-+.. ...-..+..+ ...+.++||||+
T Consensus 145 E~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl 181 (737)
T PRK02362 145 EVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATI 181 (737)
T ss_pred CccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccC
Confidence 999996532 2222223333 345789999996
No 53
>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=99.69 E-value=8.1e-15 Score=186.04 Aligned_cols=168 Identities=20% Similarity=0.240 Sum_probs=108.5
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHH
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHN 640 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~q 640 (1321)
+....++||..+|+-+.+.+... ..+....+|++.|.+|.|||++++.++..++... ...++|||||.. |..|
T Consensus 235 ~k~~~r~~Q~~av~~~~~~~~~~----~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--~~~~vl~lvdR~~L~~Q 308 (667)
T TIGR00348 235 TKPYQRYMQYRAVKKIVESITRK----TWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--KNPKVFFVVDRRELDYQ 308 (667)
T ss_pred eeeehHHHHHHHHHHHHHHHHhc----ccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc--CCCeEEEEECcHHHHHH
Confidence 34458999999999887765431 1112346899999999999999999988776543 346899999966 8899
Q ss_pred HHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCC-CEE
Q 000740 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP-DIL 719 (1321)
Q Consensus 641 W~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~-dlV 719 (1321)
|.++|..+.+... ... + +...-...+. ....+|+|+|++.|.... ............ .+|
T Consensus 309 ~~~~f~~~~~~~~-----~~~-~-s~~~L~~~l~--~~~~~iivtTiQk~~~~~----------~~~~~~~~~~~~~~lv 369 (667)
T TIGR00348 309 LMKEFQSLQKDCA-----ERI-E-SIAELKRLLE--KDDGGIIITTIQKFDKKL----------KEEEEKFPVDRKEVVV 369 (667)
T ss_pred HHHHHHhhCCCCC-----ccc-C-CHHHHHHHHh--CCCCCEEEEEhHHhhhhH----------hhhhhccCCCCCCEEE
Confidence 9999999875311 000 1 1111111111 134689999999886310 000111111122 389
Q ss_pred EEcCCcccCCcchhHHHHHh-hcccceEEEEecCCCCC
Q 000740 720 VCDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQN 756 (1321)
Q Consensus 720 IlDEAH~IKN~~S~~skal~-~Lka~~RllLTGTPlqN 756 (1321)
|+||||+... ....+.++ .+...++++|||||+..
T Consensus 370 IvDEaHrs~~--~~~~~~l~~~~p~a~~lGfTaTP~~~ 405 (667)
T TIGR00348 370 IFDEAHRSQY--GELAKNLKKALKNASFFGFTGTPIFK 405 (667)
T ss_pred EEEcCccccc--hHHHHHHHhhCCCCcEEEEeCCCccc
Confidence 9999998632 23344553 56778999999999853
No 54
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=1.6e-14 Score=178.45 Aligned_cols=134 Identities=24% Similarity=0.344 Sum_probs=112.1
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+.+|..+|..... .++|||+.....++.|...|.. .|+....|+|++++.+|.+.++.|++
T Consensus 259 ~k~~~L~~ll~~~~~--~~~IVF~~tk~~~~~l~~~l~~------------~g~~~~~lhG~l~q~~R~~~l~~F~~--- 321 (513)
T COG0513 259 EKLELLLKLLKDEDE--GRVIVFVRTKRLVEELAESLRK------------RGFKVAALHGDLPQEERDRALEKFKD--- 321 (513)
T ss_pred HHHHHHHHHHhcCCC--CeEEEEeCcHHHHHHHHHHHHH------------CCCeEEEecCCCCHHHHHHHHHHHHc---
Confidence 488888888885443 4799999999999999999997 68999999999999999999999995
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHH
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1114 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K 1114 (1321)
+.++ +|+.|++++.||++.+.++||+||++.++..+.+++||.+|.|.+ -..+.|++. .-|...+.+....
T Consensus 322 g~~~-vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~~--G~ai~fv~~-~~e~~~l~~ie~~ 392 (513)
T COG0513 322 GELR-VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRK--GVAISFVTE-EEEVKKLKRIEKR 392 (513)
T ss_pred CCCC-EEEEechhhccCCccccceeEEccCCCCHHHheeccCccccCCCC--CeEEEEeCc-HHHHHHHHHHHHH
Confidence 4454 699999999999999999999999999999999999999999944 355667766 2244444444333
No 55
>PRK01172 ski2-like helicase; Provisional
Probab=99.67 E-value=8.2e-15 Score=187.43 Aligned_cols=125 Identities=20% Similarity=0.135 Sum_probs=87.3
Q ss_pred HHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCc-------ccc------cCCCcEEecCCCCCHHHHHHHHHHH
Q 000740 968 ILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQG-------KLW------KKGKDWYRLDGRTESSERQKLVERF 1034 (1321)
Q Consensus 968 iL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~-------~~w------~~Gi~y~rldGsts~~eR~~lI~~F 1034 (1321)
++......+.++|||+........+...|.........- ... .-...+..++|+++..+|..+.+.|
T Consensus 228 ~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f 307 (674)
T PRK01172 228 LIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMF 307 (674)
T ss_pred HHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHH
Confidence 344444567899999999988877777776431110000 000 0012356679999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCcccCCEEEEEeC---------CCCcchhhhhhhhhhccCCCCcEEEEEE
Q 000740 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG---------SWNPTYDLQAIYRAWRYGQTKPVFAYRL 1097 (1321)
Q Consensus 1035 n~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~---------~WNP~~d~QAiGRa~RiGQkK~V~VYRL 1097 (1321)
.+ +.++ +|++|.+.+.|+|+++ .+||++|. ++++....|++||++|.|....-..+-+
T Consensus 308 ~~---g~i~-VLvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~ 374 (674)
T PRK01172 308 RN---RYIK-VIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIY 374 (674)
T ss_pred Hc---CCCe-EEEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCCCCCCcceEEEE
Confidence 96 4555 6899999999999985 68888775 3466677899999999997665333333
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=99.66 E-value=2.2e-14 Score=169.92 Aligned_cols=132 Identities=17% Similarity=0.241 Sum_probs=98.7
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHH----HHHHhC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL----VERFNE 1036 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~l----I~~Fn~ 1036 (1321)
|...+.+++... ..+.++|||++.....+.+...|.+.. .+..+..++|.++..+|.+. ++.|.+
T Consensus 208 ~~~~l~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~----------~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~ 276 (358)
T TIGR01587 208 EISSLERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENA----------PEEEIMLLHSRFTEKDRAKKEAELLEEMKK 276 (358)
T ss_pred CHHHHHHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhc----------CCCeEEEEECCCCHHHHHHHHHHHHHHhcC
Confidence 344455555433 357899999999999999999998621 12358899999999999764 888986
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCC----cEEEEEEEeCC---ChHHHHHH
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK----PVFAYRLMAHG---TMEEKIYK 1109 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK----~V~VYRLva~g---TIEEkI~~ 1109 (1321)
+..+ +|++|.+.+.|||+ .++.||.++.+ +....|++||++|.|.+. .|+||.....+ ..+.++++
T Consensus 277 ---~~~~-ilvaT~~~~~GiDi-~~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~~~~~~~~~~~~ 349 (358)
T TIGR01587 277 ---NEKF-VIVATQVIEASLDI-SADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEGKLFPYPYELVE 349 (358)
T ss_pred ---CCCe-EEEECcchhceecc-CCCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCCCeecCCHHHHH
Confidence 3333 69999999999999 58899888765 788999999999999763 56776665544 34444444
Q ss_pred H
Q 000740 1110 R 1110 (1321)
Q Consensus 1110 r 1110 (1321)
+
T Consensus 350 ~ 350 (358)
T TIGR01587 350 R 350 (358)
T ss_pred H
Confidence 3
No 57
>PRK00254 ski2-like helicase; Provisional
Probab=99.65 E-value=1.8e-14 Score=185.29 Aligned_cols=153 Identities=20% Similarity=0.242 Sum_probs=103.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHH-HHHHHHHhcccCCCceEEEcchh-HHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIA-FLYTAMRSVNLGLRTALIVTPVN-VLHNW 641 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIa-ll~~ll~~~~~~~k~vLIV~P~s-Ll~qW 641 (1321)
..|+|+|.+++.-.+ ..+.+.|++..+|.|||+.+.. ++..+... .+++|+|+|.. |+.|+
T Consensus 22 ~~l~~~Q~~ai~~~~-------------~~g~nvlv~apTGsGKT~~~~l~il~~l~~~----~~~~l~l~P~~aLa~q~ 84 (720)
T PRK00254 22 EELYPPQAEALKSGV-------------LEGKNLVLAIPTASGKTLVAEIVMVNKLLRE----GGKAVYLVPLKALAEEK 84 (720)
T ss_pred CCCCHHHHHHHHHHH-------------hCCCcEEEECCCCcHHHHHHHHHHHHHHHhc----CCeEEEEeChHHHHHHH
Confidence 468999999996322 2457899999999999998844 34333322 35899999975 78889
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
.++|..|... .+++..+.|..... ..|....+|+|+|++.+..+..... .+ ....++||+
T Consensus 85 ~~~~~~~~~~---g~~v~~~~Gd~~~~-----~~~~~~~~IiV~Tpe~~~~ll~~~~-----------~~-l~~l~lvVi 144 (720)
T PRK00254 85 YREFKDWEKL---GLRVAMTTGDYDST-----DEWLGKYDIIIATAEKFDSLLRHGS-----------SW-IKDVKLVVA 144 (720)
T ss_pred HHHHHHHhhc---CCEEEEEeCCCCCc-----hhhhccCCEEEEcHHHHHHHHhCCc-----------hh-hhcCCEEEE
Confidence 9999887432 36676666543322 1234567999999988754321100 01 136789999
Q ss_pred cCCcccCC--cchhHHHHHhhc-ccceEEEEecCC
Q 000740 722 DEAHMIKN--TRADTTQALKQV-KCQRRIALTGSP 753 (1321)
Q Consensus 722 DEAH~IKN--~~S~~skal~~L-ka~~RllLTGTP 753 (1321)
||+|.+.. ........+..+ ...+.++||||+
T Consensus 145 DE~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl 179 (720)
T PRK00254 145 DEIHLIGSYDRGATLEMILTHMLGRAQILGLSATV 179 (720)
T ss_pred cCcCccCCccchHHHHHHHHhcCcCCcEEEEEccC
Confidence 99999864 334444455555 456789999997
No 58
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.65 E-value=2.1e-15 Score=184.39 Aligned_cols=378 Identities=17% Similarity=0.177 Sum_probs=228.3
Q ss_pred CcccccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEE
Q 000740 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1321)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV 632 (1321)
....+.|......+|+||..+|+.+.+.+.. .....+|+..+|.|||.+||+++..+++++. .+++|++
T Consensus 153 ~~~~~~~~~s~i~~RyyQ~~AI~rv~Eaf~~---------g~~raLlvMATGTGKTrTAiaii~rL~r~~~--~KRVLFL 221 (875)
T COG4096 153 QQLAYIDIDSAIGPRYYQIIAIRRVIEAFSK---------GQNRALLVMATGTGKTRTAIAIIDRLIKSGW--VKRVLFL 221 (875)
T ss_pred cccccCcccccccchHHHHHHHHHHHHHHhc---------CCceEEEEEecCCCcceeHHHHHHHHHhcch--hheeeEE
Confidence 5667788888899999999999998877642 3345999999999999999999999999865 6799999
Q ss_pred cc-hhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhh
Q 000740 633 TP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1321)
Q Consensus 633 ~P-~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~l 711 (1321)
+- ++|+.|-..+|..|.|.+.. .+.. .+... .....|++.+|.++......... ....+
T Consensus 222 aDR~~Lv~QA~~af~~~~P~~~~-~n~i--~~~~~----------~~s~~i~lsTyqt~~~~~~~~~~-------~~~~f 281 (875)
T COG4096 222 ADRNALVDQAYGAFEDFLPFGTK-MNKI--EDKKG----------DTSSEIYLSTYQTMTGRIEQKED-------EYRRF 281 (875)
T ss_pred echHHHHHHHHHHHHHhCCCccc-eeee--ecccC----------CcceeEEEeehHHHHhhhhcccc-------ccccC
Confidence 96 66899999999999998532 1111 11110 11458999999998653322210 11122
Q ss_pred hcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCC
Q 000740 712 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQ 791 (1321)
Q Consensus 712 l~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~ 791 (1321)
-...||+||+||||+- ....++.+...-...+++|||||-..--..-|.+++ ..|+....
T Consensus 282 ~~g~FDlIvIDEaHRg---i~~~~~~I~dYFdA~~~gLTATP~~~~d~~T~~~F~-----------------g~Pt~~Ys 341 (875)
T COG4096 282 GPGFFDLIVIDEAHRG---IYSEWSSILDYFDAATQGLTATPKETIDRSTYGFFN-----------------GEPTYAYS 341 (875)
T ss_pred CCCceeEEEechhhhh---HHhhhHHHHHHHHHHHHhhccCcccccccccccccC-----------------CCcceeec
Confidence 3347999999999973 223334444445566777799996521111111111 33332221
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHh
Q 000740 792 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 871 (1321)
Q Consensus 792 ~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~ 871 (1321)
+ .+.+.. ..|-|...+.+.+.+.. .+.
T Consensus 342 l------------------eeAV~D-----------GfLvpy~vi~i~~~~~~------------~G~------------ 368 (875)
T COG4096 342 L------------------EEAVED-----------GFLVPYKVIRIDTDFDL------------DGW------------ 368 (875)
T ss_pred H------------------HHHhhc-----------cccCCCCceEEeeeccc------------cCc------------
Confidence 1 111110 11222333333222210 000
Q ss_pred hHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhc
Q 000740 872 SFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEH 951 (1321)
Q Consensus 872 ~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~ 951 (1321)
+|.-+. +......+..++ ++..+... ..+.
T Consensus 369 --------------~~~~~s---erek~~g~~i~~----dd~~~~~~--------------d~dr--------------- 398 (875)
T COG4096 369 --------------KPDAGS---EREKLQGEAIDE----DDQNFEAR--------------DFDR--------------- 398 (875)
T ss_pred --------------CcCccc---hhhhhhccccCc----cccccccc--------------ccch---------------
Confidence 000000 000000000000 00000000 0000
Q ss_pred cccccccCchHHHHHHHHHHhhcC---C---CeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHH
Q 000740 952 TYKELDYSGKMVLLLDILTMCSNM---G---DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESS 1025 (1321)
Q Consensus 952 ~~~~~~~S~Kl~~L~eiL~~~~~~---g---~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~ 1025 (1321)
....-.....+...|...... | .|.|||+...++++.|...|...+.. .+|--...|+|...
T Consensus 399 ---~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype-------~~~~~a~~IT~d~~-- 466 (875)
T COG4096 399 ---TLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPE-------YNGRYAMKITGDAE-- 466 (875)
T ss_pred ---hccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCcc-------ccCceEEEEeccch--
Confidence 001112233444444444333 3 49999999999999999999975432 13344567888776
Q ss_pred HHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhcc-------CCCCc-EEEEEE
Q 000740 1026 ERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY-------GQTKP-VFAYRL 1097 (1321)
Q Consensus 1026 eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~Ri-------GQkK~-V~VYRL 1097 (1321)
+=+..|+.|-. +.....+.+|......|++...+-.+||+-.--+-+...|.+||.-|+ ||.|. ..|+.+
T Consensus 467 ~~q~~Id~f~~--ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf 544 (875)
T COG4096 467 QAQALIDNFID--KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDF 544 (875)
T ss_pred hhHHHHHHHHh--cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEh
Confidence 55668899976 344556799999999999999999999999999999999999999997 34443 566666
Q ss_pred E
Q 000740 1098 M 1098 (1321)
Q Consensus 1098 v 1098 (1321)
+
T Consensus 545 ~ 545 (875)
T COG4096 545 V 545 (875)
T ss_pred h
Confidence 5
No 59
>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=99.63 E-value=7.1e-14 Score=175.03 Aligned_cols=117 Identities=16% Similarity=0.160 Sum_probs=99.9
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
...|..++.+.+.+....+.+||||+.+....+.|...|.+ .|+++..++|.+...+|..+..+|+.
T Consensus 406 ~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~------------~gi~~~~L~a~~~~~E~~ii~~ag~~- 472 (762)
T TIGR03714 406 LPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLR------------EGIPHNLLNAQNAAKEAQIIAEAGQK- 472 (762)
T ss_pred HHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHH------------CCCCEEEecCCChHHHHHHHHHcCCC-
Confidence 35699999999998888899999999999999999999986 68999999999998777666665553
Q ss_pred CCCCceEEEeeccccccccCcc---------cCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEE
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH---------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1093 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt---------~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~ 1093 (1321)
+. ++|+|..+|.|+++. +.+.||.|+++-+.. +.|++||++|.|..-.+.
T Consensus 473 --g~---VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~ri-d~qr~GRtGRqG~~G~s~ 531 (762)
T TIGR03714 473 --GA---VTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSRV-DLQLRGRSGRQGDPGSSQ 531 (762)
T ss_pred --Ce---EEEEccccccccCCCCCccccccCCeEEEEecCCCCcHH-HHHhhhcccCCCCceeEE
Confidence 22 689999999999999 889999999997764 499999999999775443
No 60
>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=99.62 E-value=8.1e-14 Score=176.09 Aligned_cols=118 Identities=20% Similarity=0.306 Sum_probs=90.4
Q ss_pred cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHH-----HHHHHHhC----CC----CC
Q 000740 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-----KLVERFNE----PL----NK 1040 (1321)
Q Consensus 974 ~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~-----~lI~~Fn~----~~----n~ 1040 (1321)
..+.++|||++....++.|...|.. .++ ..++|.++..+|. .++++|.+ .. ++
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~------------~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~ 335 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPK------------EKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQ 335 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHh------------cCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccc
Confidence 4578999999999999999999986 344 8999999999999 78999975 21 11
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCc--EEEEEEEeCCChHHHHHH
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP--VFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~--V~VYRLva~gTIEEkI~~ 1109 (1321)
.. .+||+|++.+.|||+.. ++||++..++ ..++||+||++|.|.... ++|+.+-....-+..||.
T Consensus 336 g~-~ILVATdVaerGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~~~~~~~~~~vY~ 402 (844)
T TIGR02621 336 GT-VYLVCTSAGEVGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHLDLGKDQDFDVYG 402 (844)
T ss_pred cc-eEEeccchhhhcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEeeccCCCcccCCCC
Confidence 12 47999999999999975 9999877664 689999999999998643 455443111223355664
No 61
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.59 E-value=2.3e-13 Score=165.31 Aligned_cols=321 Identities=18% Similarity=0.236 Sum_probs=200.3
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHH-HH
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL-HN 640 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl-~q 640 (1321)
+.-.|-..|..+++-+..-+.. ...-.-+|--|+|.|||+.|+..+......+ .-+.+.+|+.++ .|
T Consensus 259 LPF~LT~aQ~~vi~EI~~Dl~~--------~~~M~RLlQGDVGSGKTvVA~laml~ai~~G----~Q~ALMAPTEILA~Q 326 (677)
T COG1200 259 LPFKLTNAQKRVIKEILADLAS--------PVPMNRLLQGDVGSGKTVVALLAMLAAIEAG----YQAALMAPTEILAEQ 326 (677)
T ss_pred CCCCccHHHHHHHHHHHhhhcC--------chhhHHHhccCcCCCHHHHHHHHHHHHHHcC----CeeEEeccHHHHHHH
Confidence 3346677899888766543321 2334567778899999999877776666553 367899999865 58
Q ss_pred HHHHHHHHCCCCCCCeEEEEecCcch-hHHHHHHHHHhh-cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCE
Q 000740 641 WKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 718 (1321)
Q Consensus 641 W~~E~~kw~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~-~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dl 718 (1321)
-.+.+.+|++.- .++|..+.|.-+ ..|...+..... ..+++|-|+..|..-. --.+..+
T Consensus 327 H~~~~~~~l~~~--~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V-----------------~F~~LgL 387 (677)
T COG1200 327 HYESLRKWLEPL--GIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKV-----------------EFHNLGL 387 (677)
T ss_pred HHHHHHHHhhhc--CCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcce-----------------eecceeE
Confidence 899999999752 377888777643 444555554433 3578888877664210 0015578
Q ss_pred EEEcCCcccCCcchhHHHHHhhc-c-cceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCC
Q 000740 719 LVCDEAHMIKNTRADTTQALKQV-K-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 796 (1321)
Q Consensus 719 VIlDEAH~IKN~~S~~skal~~L-k-a~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st 796 (1321)
||+||-|++.- ..-..++.- . .++.++||||||.-.+.=- .||+.
T Consensus 388 VIiDEQHRFGV---~QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt----------~fgDl-------------------- 434 (677)
T COG1200 388 VIIDEQHRFGV---HQRLALREKGEQNPHVLVMTATPIPRTLALT----------AFGDL-------------------- 434 (677)
T ss_pred EEEeccccccH---HHHHHHHHhCCCCCcEEEEeCCCchHHHHHH----------Hhccc--------------------
Confidence 99999999842 233333333 4 6899999999998654410 00100
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCC-HHHHHHHHHHHHhhcccccccchHHHHhhHHH
Q 000740 797 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLS-PLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 875 (1321)
Q Consensus 797 ~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS-~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~ 875 (1321)
+. .+..+||+..--+...-+. ..-.++|+.+........
T Consensus 435 -------------------------dv-S~IdElP~GRkpI~T~~i~~~~~~~v~e~i~~ei~~Gr-------------- 474 (677)
T COG1200 435 -------------------------DV-SIIDELPPGRKPITTVVIPHERRPEVYERIREEIAKGR-------------- 474 (677)
T ss_pred -------------------------cc-hhhccCCCCCCceEEEEeccccHHHHHHHHHHHHHcCC--------------
Confidence 00 1224688763222222221 222344444332211000
Q ss_pred HHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccc
Q 000740 876 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 955 (1321)
Q Consensus 876 ~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 955 (1321)
+..|...+
T Consensus 475 ----------------------------------------------------------------QaY~VcPL-------- 482 (677)
T COG1200 475 ----------------------------------------------------------------QAYVVCPL-------- 482 (677)
T ss_pred ----------------------------------------------------------------EEEEEecc--------
Confidence 00011111
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
++.|.|+. ...+..+...|.. +..++.+..++|.++.+++++++.+|+
T Consensus 483 IeESE~l~----------------------l~~a~~~~~~L~~----------~~~~~~vgL~HGrm~~~eKd~vM~~Fk 530 (677)
T COG1200 483 IEESEKLE----------------------LQAAEELYEELKS----------FLPELKVGLVHGRMKPAEKDAVMEAFK 530 (677)
T ss_pred ccccccch----------------------hhhHHHHHHHHHH----------HcccceeEEEecCCChHHHHHHHHHHH
Confidence 12233333 0112223333432 124678899999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEeC-CCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG-SWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~-~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
+ +.+. +|+||.+..+|+|++.|+.+||.++ -+--+...|-.||++|=+...-|..
T Consensus 531 ~---~e~~-ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~L 586 (677)
T COG1200 531 E---GEID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCVL 586 (677)
T ss_pred c---CCCc-EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceEEEE
Confidence 7 3444 6999999999999999999999998 4688899999999999776655544
No 62
>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=99.59 E-value=5.9e-15 Score=147.87 Aligned_cols=120 Identities=32% Similarity=0.392 Sum_probs=109.6
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+..+.+++......+.++|||+.+...+..+...|.. .+..+..++|+++..+|..+++.|+++.
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~------------~~~~~~~~~~~~~~~~~~~~~~~f~~~~- 78 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK------------PGIKVAALHGDGSQEEREEVLKDFREGE- 78 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh------------cCCcEEEEECCCCHHHHHHHHHHHHcCC-
Confidence 699999999998776789999999999999999999985 4678999999999999999999999743
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
..+|++|.++++|+|++.+++||+++++|++....|++||++|.||+..|++|
T Consensus 79 ---~~ili~t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 79 ---IVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred ---CcEEEEcChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 24788999999999999999999999999999999999999999998888775
No 63
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.57 E-value=2.2e-13 Score=157.84 Aligned_cols=133 Identities=20% Similarity=0.290 Sum_probs=103.2
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
|-..+..+|... ...++|+|+.+.+....+...|.-.+. ..++.+-.++|+.+.+.|.+++.+|+.+
T Consensus 416 kpl~~~~lI~~~--k~~r~lcf~~S~~sa~Rl~~~L~v~~~--------~~~~~~s~~t~~l~~k~r~k~l~~f~~g--- 482 (620)
T KOG0350|consen 416 KPLAVYALITSN--KLNRTLCFVNSVSSANRLAHVLKVEFC--------SDNFKVSEFTGQLNGKRRYKMLEKFAKG--- 482 (620)
T ss_pred chHhHHHHHHHh--hcceEEEEecchHHHHHHHHHHHHHhc--------cccchhhhhhhhhhHHHHHHHHHHHhcC---
Confidence 445566666643 368999999999999888888872110 1245566699999999999999999974
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHH
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQ 1111 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq 1111 (1321)
.+. +||.+++++.||++-+.+.||.||||-.-..+.+|+||..|-||.- ++|.++... |++.+...
T Consensus 483 ~i~-vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~~--~~r~F~kl 548 (620)
T KOG0350|consen 483 DIN-VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDKH--EKRLFSKL 548 (620)
T ss_pred Cce-EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeeccc--cchHHHHH
Confidence 344 6888999999999999999999999999999999999999999874 455555442 34444333
No 64
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.56 E-value=5.9e-13 Score=168.32 Aligned_cols=117 Identities=18% Similarity=0.175 Sum_probs=101.5
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
...|..+|.+.+......+.++|||+.+....+.|...|.+ .|+++..++|.+...++..+...|..
T Consensus 410 ~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~------------~gi~~~~L~~~~~~~e~~~i~~ag~~- 476 (790)
T PRK09200 410 LDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDE------------AGIPHNLLNAKNAAKEAQIIAEAGQK- 476 (790)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCEEEecCCccHHHHHHHHHcCCC-
Confidence 35699999999988777799999999999999999999986 68999999999887777766666653
Q ss_pred CCCCceEEEeeccccccccCc---ccCC-----EEEEEeCCCCcchhhhhhhhhhccCCCCcE
Q 000740 1038 LNKRVKCTLISTRAGSLGINL---HSAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1092 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNL---t~An-----~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V 1092 (1321)
+. ++|+|..+|.|+++ .+.. +||.+|.|-|+..+.|++||++|.|..-.+
T Consensus 477 --g~---VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~s 534 (790)
T PRK09200 477 --GA---VTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGSS 534 (790)
T ss_pred --Ce---EEEEccchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCeeE
Confidence 22 68999999999999 4666 999999999999999999999999987544
No 65
>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=99.54 E-value=2.6e-14 Score=151.69 Aligned_cols=168 Identities=21% Similarity=0.302 Sum_probs=107.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch-hHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~-sLl~qW~ 642 (1321)
-.|+|||.+++.-+++.+... .....++|...||.|||+.+++++..+.. ++|||||. +++.||.
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~-------~~~~~~ll~~~tGsGKT~~~~~~~~~l~~-------~~l~~~p~~~l~~Q~~ 67 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENK-------KEERRVLLNAPTGSGKTIIALALILELAR-------KVLIVAPNISLLEQWY 67 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTT-------SGCSEEEEEESTTSSHHHHHHHHHHHHHC-------EEEEEESSHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHhc-------CCCCCEEEEECCCCCcChhhhhhhhcccc-------ceeEecCHHHHHHHHH
Confidence 369999999999887654320 13578999999999999999988877743 89999997 6888999
Q ss_pred HHHHHHCCCCCCCeEEEEe-------------cCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHH
Q 000740 643 QEFMKWRPSELKPLRVFML-------------EDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREIC 709 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~-------------~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~ 709 (1321)
++|..+.+.. ..+... ........ ...-.....+++++|..+........... .......
T Consensus 68 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~~~~~~l~~~~~~~~~~~-~~~~~~~ 140 (184)
T PF04851_consen 68 DEFDDFGSEK---YNFFEKSIKPAYDSKEFISIQDDISDK---SESDNNDKDIILTTYQSLQSDIKEEKKID-ESARRSY 140 (184)
T ss_dssp HHHHHHSTTS---EEEEE--GGGCCE-SEEETTTTEEEHH---HHHCBSS-SEEEEEHHHHHHHHHH----------GCH
T ss_pred HHHHHhhhhh---hhhcccccccccccccccccccccccc---cccccccccchhhHHHHHHhhcccccccc-cchhhhh
Confidence 9998887652 111111 00000111 11123466899999998865321110000 0000112
Q ss_pred hhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCC
Q 000740 710 HALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPL 754 (1321)
Q Consensus 710 ~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPl 754 (1321)
......+++||+||||++.+... ++.+..+...++|+|||||-
T Consensus 141 ~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 141 KLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp HGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred hhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 23345889999999999865432 56666688999999999994
No 66
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.53 E-value=1.9e-13 Score=148.62 Aligned_cols=123 Identities=20% Similarity=0.282 Sum_probs=104.0
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
|+..|.++...+. =...+|||+.....|+|.+-+.. .++.+..++|.++.++|.++++.|+...
T Consensus 253 KfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~------------~nftVssmHGDm~qkERd~im~dFRsg~-- 316 (400)
T KOG0328|consen 253 KFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMRE------------ANFTVSSMHGDMEQKERDKIMNDFRSGK-- 316 (400)
T ss_pred hHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHh------------hCceeeeccCCcchhHHHHHHHHhhcCC--
Confidence 5556666555432 25789999999999999999986 6889999999999999999999999743
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
-+ +||+|++-+.||+.+..+.||+||.|-|+..+++||||.+|+|.+ -.+..|+....+
T Consensus 317 -Sr-vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRk--GvainFVk~~d~ 375 (400)
T KOG0328|consen 317 -SR-VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK--GVAINFVKSDDL 375 (400)
T ss_pred -ce-EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCc--ceEEEEecHHHH
Confidence 23 599999999999999999999999999999999999999999965 345667766544
No 67
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.53 E-value=3.8e-12 Score=158.00 Aligned_cols=130 Identities=14% Similarity=0.181 Sum_probs=104.5
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
...|..+|.+++......+..+|||+.+....+.|...|.+ .|+++..|+|... +|+..+..|...
T Consensus 455 ~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~------------~gi~~~~Lhg~~~--~rE~~ii~~ag~ 520 (656)
T PRK12898 455 AAAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLRE------------AGLPHQVLNAKQD--AEEAAIVARAGQ 520 (656)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCEEEeeCCcH--HHHHHHHHHcCC
Confidence 35699999999988777788999999999999999999986 6899999999865 666666667642
Q ss_pred CCCCceEEEeeccccccccCcc---cCC-----EEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHH
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt---~An-----~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~ 1109 (1321)
. + . ++|+|..+|.|+++. ... +||.+|.|-|+..+.|++||++|.|..-.+. .|+ |.|+.++.
T Consensus 521 ~-g--~-VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s~--~~i---s~eD~l~~ 591 (656)
T PRK12898 521 R-G--R-ITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSYE--AIL---SLEDDLLQ 591 (656)
T ss_pred C-C--c-EEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEEE--EEe---chhHHHHH
Confidence 2 2 2 689999999999988 333 9999999999999999999999999764333 233 34666654
Q ss_pred H
Q 000740 1110 R 1110 (1321)
Q Consensus 1110 r 1110 (1321)
+
T Consensus 592 ~ 592 (656)
T PRK12898 592 S 592 (656)
T ss_pred h
Confidence 4
No 68
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.52 E-value=8.8e-13 Score=152.18 Aligned_cols=124 Identities=20% Similarity=0.349 Sum_probs=107.7
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
....-|+..|+++|.. ...+|+|||-..-...++...+|..+ ..++.++-++|.++...|.+.+..|.
T Consensus 237 ~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~----------l~~~~i~~iHGK~~q~~R~k~~~~F~ 304 (567)
T KOG0345|consen 237 CEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRL----------LKKREIFSIHGKMSQKARAKVLEAFR 304 (567)
T ss_pred ecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHH----------hCCCcEEEecchhcchhHHHHHHHHH
Confidence 3445699999999987 34589999999999999999888864 25788999999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
+..++ +|++|++++.||++++.+.||.||||-+|....+|.||..|.|..-.-.|+
T Consensus 305 ~~~~~----vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aivf 360 (567)
T KOG0345|consen 305 KLSNG----VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIVF 360 (567)
T ss_pred hccCc----eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEEE
Confidence 85444 699999999999999999999999999999999999999999987554443
No 69
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.51 E-value=4.3e-12 Score=159.65 Aligned_cols=112 Identities=19% Similarity=0.212 Sum_probs=89.1
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
.+..+|||......++.+...|.... .++.+..++|+++. +++.+++|.. +++.+ +|+||..++.
T Consensus 394 ~~g~iLVFlpg~~ei~~l~~~L~~~~----------~~~~v~~LHG~Lsq--~eq~l~~ff~--~gk~k-ILVATdIAER 458 (675)
T PHA02653 394 KGSSGIVFVASVSQCEEYKKYLEKRL----------PIYDFYIIHGKVPN--IDEILEKVYS--SKNPS-IIISTPYLES 458 (675)
T ss_pred cCCcEEEEECcHHHHHHHHHHHHhhc----------CCceEEeccCCcCH--HHHHHHHHhc--cCcee-EEeccChhhc
Confidence 35689999999999999999998621 26889999999995 4567788742 23444 7999999999
Q ss_pred ccCcccCCEEEEEe----CC--------CCcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1055 GINLHSANRVIIVD----GS--------WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1055 GLNLt~An~VIi~D----~~--------WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
||++.+.++||-++ |. .+.+...||.||++|. ++-.+|+|+++..+.
T Consensus 459 GIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~~ 517 (675)
T PHA02653 459 SVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV---SPGTYVYFYDLDLLK 517 (675)
T ss_pred cccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC---CCCeEEEEECHHHhH
Confidence 99999999999997 21 2556778999998887 578889999887753
No 70
>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=99.50 E-value=2.7e-13 Score=168.86 Aligned_cols=118 Identities=19% Similarity=0.132 Sum_probs=103.6
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++.+.+......|..|||||.+....+.|..+|.+ .|+++..++|. ..+|+..+..|...+
T Consensus 388 ~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~L~~------------~gi~~~~Lna~--q~~rEa~ii~~ag~~ 453 (745)
T TIGR00963 388 EEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNLLKE------------RGIPHNVLNAK--NHEREAEIIAQAGRK 453 (745)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------cCCCeEEeeCC--hHHHHHHHHHhcCCC
Confidence 3588888888888888899999999999999999999997 68999999998 679999999998532
Q ss_pred CCCceEEEeeccccccccCccc-------CCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1039 NKRVKCTLISTRAGSLGINLHS-------ANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~-------An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
. -++|+|..+|.|+++.. ..+||.++.+-|+..+.|++||++|.|..-....
T Consensus 454 ---g-~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s~~ 512 (745)
T TIGR00963 454 ---G-AVTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSSRF 512 (745)
T ss_pred ---c-eEEEEeccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcceEE
Confidence 2 26999999999999887 6799999999999999999999999998855433
No 71
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.50 E-value=2.6e-12 Score=161.85 Aligned_cols=320 Identities=17% Similarity=0.170 Sum_probs=207.8
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcc-cC---CCceEEEcchhHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN-LG---LRTALIVTPVNVL 638 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~-~~---~k~vLIV~P~sLl 638 (1321)
...+.|+|..++..+ ..|.+.++...+|.|||..|+.-+...+.... .. .-.+|-|.|..-+
T Consensus 20 ~~~~t~~Q~~a~~~i--------------~~G~nvLiiAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkAL 85 (814)
T COG1201 20 FTSLTPPQRYAIPEI--------------HSGENVLIIAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKAL 85 (814)
T ss_pred cCCCCHHHHHHHHHH--------------hCCCceEEEcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHH
Confidence 456899999998766 36789999999999999998776655544331 11 1358999998766
Q ss_pred HH-HHHHHHHHCCCCCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCC
Q 000740 639 HN-WKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 716 (1321)
Q Consensus 639 ~q-W~~E~~kw~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~ 716 (1321)
.+ -..-+..|... ..+.|.+-+|... ..|... .....+|+|||.+++..+..++. +.+ .+ .+.
T Consensus 86 n~Di~~rL~~~~~~--~G~~v~vRhGDT~~~er~r~---~~~PPdILiTTPEsL~lll~~~~-----~r~----~l-~~v 150 (814)
T COG1201 86 NNDIRRRLEEPLRE--LGIEVAVRHGDTPQSEKQKM---LKNPPHILITTPESLAILLNSPK-----FRE----LL-RDV 150 (814)
T ss_pred HHHHHHHHHHHHHH--cCCccceecCCCChHHhhhc---cCCCCcEEEeChhHHHHHhcCHH-----HHH----Hh-cCC
Confidence 54 44555555432 2355555555543 333332 23678999999999976543321 111 11 266
Q ss_pred CEEEEcCCcccCCc--chhHHHHHhhc---c-cceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccC
Q 000740 717 DILVCDEAHMIKNT--RADTTQALKQV---K-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENG 790 (1321)
Q Consensus 717 dlVIlDEAH~IKN~--~S~~skal~~L---k-a~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g 790 (1321)
.+||+||.|.+.+. .++.+-.+.+| . --.|++||||-- ++.+ ...||.+.--
T Consensus 151 r~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSATV~--~~~~---varfL~g~~~----------------- 208 (814)
T COG1201 151 RYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSATVG--PPEE---VAKFLVGFGD----------------- 208 (814)
T ss_pred cEEEeehhhhhhccccchhhhhhHHHHHhhCcccEEEeehhccC--CHHH---HHHHhcCCCC-----------------
Confidence 78999999999864 36677766666 2 467999999942 2222 2222221100
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHH
Q 000740 791 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 870 (1321)
Q Consensus 791 ~~~~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~ 870 (1321)
....+......+.++.+.++--.
T Consensus 209 -------------------------------~~~Iv~~~~~k~~~i~v~~p~~~-------------------------- 231 (814)
T COG1201 209 -------------------------------PCEIVDVSAAKKLEIKVISPVED-------------------------- 231 (814)
T ss_pred -------------------------------ceEEEEcccCCcceEEEEecCCc--------------------------
Confidence 00000000111111111100000
Q ss_pred hhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhh
Q 000740 871 KSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHE 950 (1321)
Q Consensus 871 ~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~ 950 (1321)
. .|.
T Consensus 232 ---------------------------------~-------------------------------------~~~------ 235 (814)
T COG1201 232 ---------------------------------L-------------------------------------IYD------ 235 (814)
T ss_pred ---------------------------------c-------------------------------------ccc------
Confidence 0 000
Q ss_pred ccccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHH
Q 000740 951 HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1030 (1321)
Q Consensus 951 ~~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~l 1030 (1321)
..=...+.+.|..+.+....+|||++...+...+...|.++ .+..+..-|||.+.++|...
T Consensus 236 --------~~~~~~~~~~i~~~v~~~~ttLIF~NTR~~aE~l~~~L~~~-----------~~~~i~~HHgSlSre~R~~v 296 (814)
T COG1201 236 --------EELWAALYERIAELVKKHRTTLIFTNTRSGAERLAFRLKKL-----------GPDIIEVHHGSLSRELRLEV 296 (814)
T ss_pred --------cchhHHHHHHHHHHHhhcCcEEEEEeChHHHHHHHHHHHHh-----------cCCceeeecccccHHHHHHH
Confidence 00111233344444445568999999999999999999873 23788899999999999999
Q ss_pred HHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhh-hccCCC
Q 000740 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRA-WRYGQT 1089 (1321)
Q Consensus 1031 I~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa-~RiGQk 1089 (1321)
-++|.+ +..+ .+++|....+||+.-..+.||.|.+|-.-+...|++||+ ||+|..
T Consensus 297 E~~lk~---G~lr-avV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~ 352 (814)
T COG1201 297 EERLKE---GELK-AVVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEV 352 (814)
T ss_pred HHHHhc---CCce-EEEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccCCc
Confidence 999997 4465 488888999999999999999999999999999999999 566654
No 72
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.50 E-value=2.1e-12 Score=166.62 Aligned_cols=344 Identities=19% Similarity=0.193 Sum_probs=222.9
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQE 644 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E 644 (1321)
|++||.++++.++ .|...|+.-.||.|||..-+..|...+.... ..+.|+|-|.+ |.....+.
T Consensus 71 lY~HQ~~A~~~~~--------------~G~~vvVtTgTgSGKTe~FllPIld~~l~~~--~a~AL~lYPtnALa~DQ~~r 134 (851)
T COG1205 71 LYSHQVDALRLIR--------------EGRNVVVTTGTGSGKTESFLLPILDHLLRDP--SARALLLYPTNALANDQAER 134 (851)
T ss_pred ccHHHHHHHHHHH--------------CCCCEEEECCCCCchhHHHHHHHHHHHhhCc--CccEEEEechhhhHhhHHHH
Confidence 9999999999884 4689999999999999886665554443332 34889999987 56668888
Q ss_pred HHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000740 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1321)
Q Consensus 645 ~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEA 724 (1321)
|.+|.......+.+..|+|.....+.. .-...+.+|++|+|+|+..+....... ..++...+.+||+||+
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~--~~~~~pp~IllTNpdMLh~~llr~~~~--------~~~~~~~Lk~lVvDEl 204 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERR--AIIRNPPDILLTNPDMLHYLLLRNHDA--------WLWLLRNLKYLVVDEL 204 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHH--HHHhCCCCEEEeCHHHHHHHhccCcch--------HHHHHhcCcEEEEecc
Confidence 999875543357888888876654443 223468899999999986532211111 1122224899999999
Q ss_pred cccCC-cchhHHHHHhhcc--------cceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCC-cccCCCCC
Q 000740 725 HMIKN-TRADTTQALKQVK--------CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNP-IENGQHTN 794 (1321)
Q Consensus 725 H~IKN-~~S~~skal~~Lk--------a~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~p-I~~g~~~~ 794 (1321)
|..++ ..|..+-.+++|+ ....++.|||= ++..+|...+..- ...
T Consensus 205 HtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~--------------------~np~e~~~~l~~~~f~~----- 259 (851)
T COG1205 205 HTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATL--------------------ANPGEFAEELFGRDFEV----- 259 (851)
T ss_pred eeccccchhHHHHHHHHHHHHHhccCCCceEEEEeccc--------------------cChHHHHHHhcCCccee-----
Confidence 99986 4577777777772 34558888883 2333333322110 000
Q ss_pred CChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhh-cCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhH
Q 000740 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1321)
Q Consensus 795 st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~-~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~ 873 (1321)
.+.. .-|.-..+++.-.. +....-+
T Consensus 260 ------------------------------~v~~~g~~~~~~~~~~~~p-~~~~~~~----------------------- 285 (851)
T COG1205 260 ------------------------------PVDEDGSPRGLRYFVRREP-PIRELAE----------------------- 285 (851)
T ss_pred ------------------------------eccCCCCCCCceEEEEeCC-cchhhhh-----------------------
Confidence 0000 01111111111100 0000000
Q ss_pred HHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccc
Q 000740 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1321)
Q Consensus 874 l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1321)
T Consensus 286 -------------------------------------------------------------------------------- 285 (851)
T COG1205 286 -------------------------------------------------------------------------------- 285 (851)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCC-CCCCCcccccCCCcEEecCCCCCHHHHHHHHH
Q 000740 954 KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLP-RPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1032 (1321)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~-~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~ 1032 (1321)
...-++...+..++..+...|-+.|+|+.+...+..+........ ..+ + ..........|++...+|.++..
T Consensus 286 --~~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~--~---~l~~~v~~~~~~~~~~er~~ie~ 358 (851)
T COG1205 286 --SIRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREG--G---KLLDAVSTYRAGLHREERRRIEA 358 (851)
T ss_pred --hcccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcc--h---hhhhheeeccccCCHHHHHHHHH
Confidence 001134555566777777889999999999999998862222110 000 0 01245778889999999999999
Q ss_pred HHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCC-CcchhhhhhhhhhccCCCCc-EEEEEEEeCCChHHHHH
Q 000740 1033 RFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKP-VFAYRLMAHGTMEEKIY 1108 (1321)
Q Consensus 1033 ~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-NP~~d~QAiGRa~RiGQkK~-V~VYRLva~gTIEEkI~ 1108 (1321)
.|+.+ ++ .+++||.|.-+||++.+.+.||..--|- .-....|+.||++|-||.-. +.|++ .+-++....
T Consensus 359 ~~~~g---~~-~~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~---~~~~d~yy~ 429 (851)
T COG1205 359 EFKEG---EL-LGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLR---SDPLDSYYL 429 (851)
T ss_pred HHhcC---Cc-cEEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCceEEEEeC---CCccchhhh
Confidence 99973 44 3799999999999999999999998887 66888999999999996533 33333 555555443
No 73
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.48 E-value=4.7e-12 Score=150.11 Aligned_cols=87 Identities=16% Similarity=0.271 Sum_probs=69.8
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
.+.|+|||+.....++.+...|... ..++.+..++|.++..+|.+.. .. .+|++|.+.+.
T Consensus 271 ~~~k~LIf~nt~~~~~~l~~~L~~~----------~~~~~~~~l~g~~~~~~R~~~~---------~~-~iLVaTdv~~r 330 (357)
T TIGR03158 271 PGERGAIILDSLDEVNRLSDLLQQQ----------GLGDDIGRITGFAPKKDRERAM---------QF-DILLGTSTVDV 330 (357)
T ss_pred CCCeEEEEECCHHHHHHHHHHHhhh----------CCCceEEeeecCCCHHHHHHhc---------cC-CEEEEecHHhc
Confidence 5789999999999999999999862 1246788999999998887543 12 27999999999
Q ss_pred ccCcccCCEEEEEeCCCCcchhhhhhhhhh
Q 000740 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAW 1084 (1321)
Q Consensus 1055 GLNLt~An~VIi~D~~WNP~~d~QAiGRa~ 1084 (1321)
|||+.. +.|| ++ +-++..+.||+||++
T Consensus 331 GiDi~~-~~vi-~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 331 GVDFKR-DWLI-FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred ccCCCC-ceEE-EC-CCCHHHHhhhcccCC
Confidence 999985 4666 66 567888999999974
No 74
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.47 E-value=5.3e-12 Score=168.05 Aligned_cols=108 Identities=18% Similarity=0.127 Sum_probs=85.7
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCC---C-cc----c---c-------cCC---CcEEecCCCCCHHHHHHHHHH
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGK---Q-GK----L---W-------KKG---KDWYRLDGRTESSERQKLVER 1033 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~---~-~~----~---w-------~~G---i~y~rldGsts~~eR~~lI~~ 1033 (1321)
.+.++|||+++....+.+...|.+...... . .. . + ..+ +....++|+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 468999999999999999999876421000 0 00 0 0 001 124567899999999999999
Q ss_pred HhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhcc
Q 000740 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY 1086 (1321)
Q Consensus 1034 Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~Ri 1086 (1321)
|++ +.++ +|++|.+.+.|||+...+.||+|+.|.+.+...|++||++|.
T Consensus 323 fK~---G~Lr-vLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 323 LKS---GELR-CVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HHh---CCce-EEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 996 4555 689999999999999999999999999999999999999985
No 75
>COG4889 Predicted helicase [General function prediction only]
Probab=99.46 E-value=4.5e-12 Score=153.40 Aligned_cols=86 Identities=23% Similarity=0.183 Sum_probs=66.1
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC-C
Q 000740 1012 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT-K 1090 (1321)
Q Consensus 1012 Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk-K 1090 (1321)
.+..-.+||+|...+|.++...=|.-+...++ +|-..+..++|++.++-+-||||||--.-....||+||+.|-.-. +
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neck-IlSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECK-ILSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchhe-eeccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCc
Confidence 35567799999999997666544432233455 588889999999999999999999988888889999999997544 3
Q ss_pred cEEEEEEE
Q 000740 1091 PVFAYRLM 1098 (1321)
Q Consensus 1091 ~V~VYRLv 1098 (1321)
--||.--|
T Consensus 578 yGYIILPI 585 (1518)
T COG4889 578 YGYIILPI 585 (1518)
T ss_pred cceEEEEe
Confidence 34554433
No 76
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.46 E-value=9e-12 Score=145.28 Aligned_cols=125 Identities=20% Similarity=0.247 Sum_probs=110.0
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
+..+.|...|+++|... ....+|||.+.....+.|.+.|.+ .|+..++++|+-++++|+.++..|.
T Consensus 499 ~~ed~k~kkL~eil~~~--~~ppiIIFvN~kk~~d~lAk~LeK------------~g~~~~tlHg~k~qeQRe~aL~~fr 564 (673)
T KOG0333|consen 499 VSEDEKRKKLIEILESN--FDPPIIIFVNTKKGADALAKILEK------------AGYKVTTLHGGKSQEQRENALADFR 564 (673)
T ss_pred ecchHHHHHHHHHHHhC--CCCCEEEEEechhhHHHHHHHHhh------------ccceEEEeeCCccHHHHHHHHHHHH
Confidence 45578899999999875 457999999999999999999997 5899999999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
++..+ +|+.|+++|.||+++..++||.||..-+-..+.++|||.+|-|+.-.+. -|++.
T Consensus 565 ~~t~d----IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gtai--Sflt~ 623 (673)
T KOG0333|consen 565 EGTGD----ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTAI--SFLTP 623 (673)
T ss_pred hcCCC----EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCceeE--EEecc
Confidence 74322 6999999999999999999999999999999999999999999875443 34444
No 77
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.45 E-value=4.1e-11 Score=152.72 Aligned_cols=105 Identities=20% Similarity=0.210 Sum_probs=81.2
Q ss_pred EeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCC--HHHHHHHHHHHhCCCCCCceEEEeeccccccccCcc
Q 000740 982 FSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE--SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLH 1059 (1321)
Q Consensus 982 FSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts--~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt 1059 (1321)
|..+..-.+.+++.|.+++ .+..+.++||.+. ..++++++++|.++ ++. +|++|...+.|+|+.
T Consensus 432 l~~~g~G~e~~~e~l~~~f----------p~~~v~~~~~d~~~~~~~~~~~l~~f~~g---~~~-ILVgT~~iakG~d~p 497 (679)
T PRK05580 432 LVPVGPGTERLEEELAELF----------PEARILRIDRDTTRRKGALEQLLAQFARG---EAD-ILIGTQMLAKGHDFP 497 (679)
T ss_pred eEEeeccHHHHHHHHHHhC----------CCCcEEEEeccccccchhHHHHHHHHhcC---CCC-EEEEChhhccCCCCC
Confidence 3344455677888888743 4788999999986 46799999999963 343 689999999999999
Q ss_pred cCCEEEEEeCC---CCc---------chhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1060 SANRVIIVDGS---WNP---------TYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1060 ~An~VIi~D~~---WNP---------~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
..+.|+++|.+ ..| ....|+.||++|.|....|.|...-..
T Consensus 498 ~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p~ 550 (679)
T PRK05580 498 NVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHPE 550 (679)
T ss_pred CcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCCC
Confidence 99999998875 333 568999999999888877777554443
No 78
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.45 E-value=7e-12 Score=145.88 Aligned_cols=114 Identities=17% Similarity=0.235 Sum_probs=102.6
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..++.+|..+|++.... .|||||+....+..++.+.|.. -.+++..|+|..++..|.....+|....
T Consensus 314 ~~~f~ll~~~LKk~~~~-~KiiVF~sT~~~vk~~~~lL~~------------~dlpv~eiHgk~~Q~kRT~~~~~F~kae 380 (543)
T KOG0342|consen 314 DSRFSLLYTFLKKNIKR-YKIIVFFSTCMSVKFHAELLNY------------IDLPVLEIHGKQKQNKRTSTFFEFCKAE 380 (543)
T ss_pred cchHHHHHHHHHHhcCC-ceEEEEechhhHHHHHHHHHhh------------cCCchhhhhcCCcccccchHHHHHhhcc
Confidence 45678899999877654 8999999999999999999997 3688999999999999999999999754
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
.+ +|++|++++.|+|++..+.||-||||-+|..+++|+||..|-|-+
T Consensus 381 sg----IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~ 427 (543)
T KOG0342|consen 381 SG----ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE 427 (543)
T ss_pred cc----eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC
Confidence 33 799999999999999999999999999999999999999997655
No 79
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.44 E-value=1.5e-11 Score=150.27 Aligned_cols=314 Identities=16% Similarity=0.191 Sum_probs=208.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch-hHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~-sLl~qW~ 642 (1321)
...||-|.++|..++ .+..+|.-..+|-||++. ..|-+++. .+.+|||.|. +|+..-+
T Consensus 16 ~~FR~gQ~evI~~~l--------------~g~d~lvvmPTGgGKSlC--yQiPAll~-----~G~TLVVSPLiSLM~DQV 74 (590)
T COG0514 16 ASFRPGQQEIIDALL--------------SGKDTLVVMPTGGGKSLC--YQIPALLL-----EGLTLVVSPLISLMKDQV 74 (590)
T ss_pred cccCCCHHHHHHHHH--------------cCCcEEEEccCCCCcchH--hhhHHHhc-----CCCEEEECchHHHHHHHH
Confidence 356888999998774 347899999999999964 33333333 3589999995 6888888
Q ss_pred HHHHHHCCCCCCCeEEEEecCc-chhHHHHHHHHHhh-cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 643 QEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~-~~~~r~~~l~~~~~-~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
+.+.... +.+..+++. +...+..++..... ..+++.++.+.+.+- .+.+.+ ......+++
T Consensus 75 ~~l~~~G------i~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~---------~f~~~L---~~~~i~l~v 136 (590)
T COG0514 75 DQLEAAG------IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSP---------RFLELL---KRLPISLVA 136 (590)
T ss_pred HHHHHcC------ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcCh---------HHHHHH---HhCCCceEE
Confidence 8887653 555556555 55666666555433 257788888877541 222222 244889999
Q ss_pred EcCCcccCC-------cchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCC
Q 000740 721 CDEAHMIKN-------TRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 793 (1321)
Q Consensus 721 lDEAH~IKN-------~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~ 793 (1321)
|||||-+-. .-.........+....+++||||--.---.|+-.++..-.+..+ ..-|.+
T Consensus 137 IDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~------~~sfdR-------- 202 (590)
T COG0514 137 IDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIF------RGSFDR-------- 202 (590)
T ss_pred echHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceE------EecCCC--------
Confidence 999998753 33444455555566789999888543333333333322111110 000000
Q ss_pred CCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhH
Q 000740 794 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1321)
Q Consensus 794 ~st~~dv~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~ 873 (1321)
T Consensus 203 -------------------------------------------------------------------------------- 202 (590)
T COG0514 203 -------------------------------------------------------------------------------- 202 (590)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccc
Q 000740 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1321)
Q Consensus 874 l~~l~~LrkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1321)
|.+......
T Consensus 203 -------------pNi~~~v~~---------------------------------------------------------- 211 (590)
T COG0514 203 -------------PNLALKVVE---------------------------------------------------------- 211 (590)
T ss_pred -------------chhhhhhhh----------------------------------------------------------
Confidence 000000000
Q ss_pred cccccCchHHHHHHHHH-HhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHH
Q 000740 954 KELDYSGKMVLLLDILT-MCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1032 (1321)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~-~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~ 1032 (1321)
..+++.... .|. .....+...|||+.+....+.|..+|.. .|+....++|+++.++|+..-+
T Consensus 212 ---~~~~~~q~~--fi~~~~~~~~~~GIIYc~sRk~~E~ia~~L~~------------~g~~a~~YHaGl~~~eR~~~q~ 274 (590)
T COG0514 212 ---KGEPSDQLA--FLATVLPQLSKSGIIYCLTRKKVEELAEWLRK------------NGISAGAYHAGLSNEERERVQQ 274 (590)
T ss_pred ---cccHHHHHH--HHHhhccccCCCeEEEEeeHHhHHHHHHHHHH------------CCCceEEecCCCCHHHHHHHHH
Confidence 001111111 111 1123345589999999999999999996 6899999999999999999999
Q ss_pred HHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1033 RFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1033 ~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
+|.++ .++ +++.|.|-|.|||=++...||+||+|-+...+.|=+||++|-|..-.+.+ |+..+.+.
T Consensus 275 ~f~~~---~~~-iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~ail--l~~~~D~~ 340 (590)
T COG0514 275 AFLND---EIK-VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAIL--LYSPEDIR 340 (590)
T ss_pred HHhcC---CCc-EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEE--eeccccHH
Confidence 99974 333 68999999999999999999999999999999999999999997766554 44444433
No 80
>PRK09401 reverse gyrase; Reviewed
Probab=99.44 E-value=1.9e-11 Score=162.17 Aligned_cols=104 Identities=17% Similarity=0.134 Sum_probs=82.2
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhh---HHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~t---LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
.|...|.+++..+ +..+|||++.... ++.|..+|.. .|+.+..++|.+ .+.+++|.+
T Consensus 315 ~k~~~L~~ll~~l---~~~~LIFv~t~~~~~~ae~l~~~L~~------------~gi~v~~~hg~l-----~~~l~~F~~ 374 (1176)
T PRK09401 315 DSVEKLVELVKRL---GDGGLIFVPSDKGKEYAEELAEYLED------------LGINAELAISGF-----ERKFEKFEE 374 (1176)
T ss_pred cHHHHHHHHHHhc---CCCEEEEEecccChHHHHHHHHHHHH------------CCCcEEEEeCcH-----HHHHHHHHC
Confidence 4666777777643 4689999998777 9999999986 689999999998 234599996
Q ss_pred CCCCCceEEEee---ccccccccCccc-CCEEEEEeCCC------Ccchhhhhhhhhhcc
Q 000740 1037 PLNKRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW------NPTYDLQAIYRAWRY 1086 (1321)
Q Consensus 1037 ~~n~~v~VfLIS---TkAGg~GLNLt~-An~VIi~D~~W------NP~~d~QAiGRa~Ri 1086 (1321)
+.++|++.+ |.+++.|||++. ..+||+|+.|- .......++||+-.+
T Consensus 375 ---G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 375 ---GEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred ---CCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 566665554 789999999998 89999999987 555566777777643
No 81
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=8.8e-12 Score=145.53 Aligned_cols=141 Identities=20% Similarity=0.272 Sum_probs=104.4
Q ss_pred cCchHHHHHHHHHHhhc--CCCeEEEEeCchhhHHHHHHHHhcCCCC---CCCcc-------cccCCCcEEecCCCCCHH
Q 000740 958 YSGKMVLLLDILTMCSN--MGDKSLVFSQSIPTLDLIEFYLSKLPRP---GKQGK-------LWKKGKDWYRLDGRTESS 1025 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~--~g~KVLVFSQ~~~tLdlLe~~L~~l~~~---~~~~~-------~w~~Gi~y~rldGsts~~ 1025 (1321)
.--++..|..+|....+ ...|+|||-...++++.=..+|...... +..+. ....+.++++++|+|+++
T Consensus 405 pKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~Qe 484 (708)
T KOG0348|consen 405 PKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQE 484 (708)
T ss_pred CchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHH
Confidence 33466667777765533 2458899988888877666665542111 11110 112356799999999999
Q ss_pred HHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1026 ERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1026 eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
+|...+..|..... .+|++|++++.||+|+...-||-||||..++.+..||||.-|+|-+-.-.. |+++.-.|
T Consensus 485 eRts~f~~Fs~~~~----~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alL--fL~P~Eae 557 (708)
T KOG0348|consen 485 ERTSVFQEFSHSRR----AVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALL--FLLPSEAE 557 (708)
T ss_pred HHHHHHHhhccccc----eEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEE--EecccHHH
Confidence 99999999997432 379999999999999999999999999999999999999999998855444 34554444
No 82
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=7.5e-12 Score=147.96 Aligned_cols=122 Identities=22% Similarity=0.269 Sum_probs=104.7
Q ss_pred ccCchHHHHHHHHHHhhc---C----CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHH
Q 000740 957 DYSGKMVLLLDILTMCSN---M----GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQK 1029 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~---~----g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~ 1029 (1321)
....|...|+++|..... . -++++||++....++.|+.+|.. .|+.+..|+|..+..+|.+
T Consensus 311 ~~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~------------~~~~~~sIhg~~tq~er~~ 378 (482)
T KOG0335|consen 311 NEMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSS------------NGYPAKSIHGDRTQIEREQ 378 (482)
T ss_pred cchhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhc------------CCCCceeecchhhhhHHHH
Confidence 335677777777775441 1 24999999999999999999996 6899999999999999999
Q ss_pred HHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1030 LVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1030 lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
.++.|.+ +++. +||.|.+++.|||..+..+||+||.|-+-..+..||||.+|.|+.--.+.
T Consensus 379 al~~Fr~---g~~p-vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~ats 439 (482)
T KOG0335|consen 379 ALNDFRN---GKAP-VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATS 439 (482)
T ss_pred HHHHhhc---CCcc-eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCceeEE
Confidence 9999996 4454 68999999999999999999999999999999999999999999844433
No 83
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.41 E-value=3e-11 Score=141.49 Aligned_cols=138 Identities=20% Similarity=0.265 Sum_probs=116.8
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
.-.|+.+|...|.... ..|.|||-.+-..+.++.+.+.++ +.|+..+.++|.+++..|..+..+|...
T Consensus 297 l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rl----------rpg~~l~~L~G~~~Q~~R~ev~~~F~~~ 364 (758)
T KOG0343|consen 297 LEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRL----------RPGIPLLALHGTMSQKKRIEVYKKFVRK 364 (758)
T ss_pred hhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhc----------CCCCceeeeccchhHHHHHHHHHHHHHh
Confidence 3468889999888655 489999999999999999999885 4799999999999999999999999863
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHH
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1114 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K 1114 (1321)
. .++|++|++++.||++++.|.||-+|.|-+-..+++|+||.-|++-.-..++|-. -+-||.+..++..|
T Consensus 365 ~----~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L~---psEeE~~l~~Lq~k 434 (758)
T KOG0343|consen 365 R----AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLT---PSEEEAMLKKLQKK 434 (758)
T ss_pred c----ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEEc---chhHHHHHHHHHHc
Confidence 2 3589999999999999999999999999999999999999999998877776543 23456666555544
No 84
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.39 E-value=1.8e-12 Score=137.74 Aligned_cols=163 Identities=21% Similarity=0.226 Sum_probs=111.8
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc-hhHHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P-~sLl~qW 641 (1321)
...++|||.+++..++. ...++++..++|+|||..++.++........ .+++||++| ..+..||
T Consensus 6 ~~~~~~~Q~~~~~~~~~-------------~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~--~~~~l~~~p~~~~~~~~ 70 (201)
T smart00487 6 FEPLRPYQKEAIEALLS-------------GLRDVILAAPTGSGKTLAALLPALEALKRGK--GKRVLVLVPTRELAEQW 70 (201)
T ss_pred CCCCCHHHHHHHHHHHc-------------CCCcEEEECCCCCchhHHHHHHHHHHhcccC--CCcEEEEeCCHHHHHHH
Confidence 35689999999988752 1168999999999999988877777655432 468999999 6688899
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcC-CEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKG-GVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~-~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
..++..+++... ......+++.... ..+..+.... ++++++|+.+........ .....++++|
T Consensus 71 ~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~v~~~t~~~l~~~~~~~~------------~~~~~~~~iI 134 (201)
T smart00487 71 AEELKKLGPSLG-LKVVGLYGGDSKR---EQLRKLESGKTDILVTTPGRLLDLLENDL------------LELSNVDLVI 134 (201)
T ss_pred HHHHHHHhccCC-eEEEEEeCCcchH---HHHHHHhcCCCCEEEeChHHHHHHHHcCC------------cCHhHCCEEE
Confidence 999999886421 1344455554322 2233344444 899999988764321110 1223788999
Q ss_pred EcCCcccCC-cc-hhHHHHHhhc-ccceEEEEecCCCCC
Q 000740 721 CDEAHMIKN-TR-ADTTQALKQV-KCQRRIALTGSPLQN 756 (1321)
Q Consensus 721 lDEAH~IKN-~~-S~~skal~~L-ka~~RllLTGTPlqN 756 (1321)
+||+|.+.+ .. ......+..+ ...+++++||||..+
T Consensus 135 iDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~ 173 (201)
T smart00487 135 LDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEE 173 (201)
T ss_pred EECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchh
Confidence 999999985 33 3333334444 588999999999643
No 85
>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=99.38 E-value=5e-11 Score=146.97 Aligned_cols=98 Identities=23% Similarity=0.239 Sum_probs=76.4
Q ss_pred HHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHH--HHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEE
Q 000740 989 LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER--QKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVII 1066 (1321)
Q Consensus 989 LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR--~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi 1066 (1321)
.+.+++.|.+.+ .+.++.++|+.++..++ +++++.|.++ .+. +|++|...+.|+|+...+.|++
T Consensus 271 te~~~e~l~~~f----------p~~~v~~~d~d~~~~~~~~~~~l~~f~~g---~~~-ILVgT~~i~kG~d~~~v~lV~v 336 (505)
T TIGR00595 271 TEQVEEELAKLF----------PGARIARIDSDTTSRKGAHEALLNQFANG---KAD-ILIGTQMIAKGHHFPNVTLVGV 336 (505)
T ss_pred HHHHHHHHHhhC----------CCCcEEEEecccccCccHHHHHHHHHhcC---CCC-EEEeCcccccCCCCCcccEEEE
Confidence 577777777642 46889999999876655 8999999963 333 6899999999999999999988
Q ss_pred EeCCC---Cc---------chhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1067 VDGSW---NP---------TYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1067 ~D~~W---NP---------~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+|.+- .| ....|+.||++|.+....|.|..+-..
T Consensus 337 l~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 337 LDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred EcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 87752 33 467999999999888777766544443
No 86
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.37 E-value=2.7e-11 Score=154.50 Aligned_cols=153 Identities=14% Similarity=0.148 Sum_probs=108.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 643 (1321)
.|+|+|..+|.-.+ ..+.++|++-.+|.|||+.|...|...+..+ .++++-|||.. |..+=..
T Consensus 31 el~~~qq~av~~~~-------------~~~~N~li~aPTgsGKTlIA~lai~~~l~~~---~~k~vYivPlkALa~Ek~~ 94 (766)
T COG1204 31 ELFNPQQEAVEKGL-------------LSDENVLISAPTGSGKTLIALLAILSTLLEG---GGKVVYIVPLKALAEEKYE 94 (766)
T ss_pred HhhHHHHHHhhccc-------------cCCCcEEEEcCCCCchHHHHHHHHHHHHHhc---CCcEEEEeChHHHHHHHHH
Confidence 89999999986442 1268999999999999999887777665543 35899999965 7888889
Q ss_pred HHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000740 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 723 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDE 723 (1321)
||.+|-.- .++|.++.|...... .+....+|+|+||+.+-++...... +....++||+||
T Consensus 95 ~~~~~~~~---GirV~~~TgD~~~~~-----~~l~~~~ViVtT~EK~Dsl~R~~~~------------~~~~V~lvViDE 154 (766)
T COG1204 95 EFSRLEEL---GIRVGISTGDYDLDD-----ERLARYDVIVTTPEKLDSLTRKRPS------------WIEEVDLVVIDE 154 (766)
T ss_pred HhhhHHhc---CCEEEEecCCcccch-----hhhccCCEEEEchHHhhHhhhcCcc------------hhhcccEEEEee
Confidence 99866443 378888877654332 3446789999999988654321111 223678999999
Q ss_pred CcccCCc-c-----hhHHHHHhhcccceEEEEecCC
Q 000740 724 AHMIKNT-R-----ADTTQALKQVKCQRRIALTGSP 753 (1321)
Q Consensus 724 AH~IKN~-~-----S~~skal~~Lka~~RllLTGTP 753 (1321)
+|.+... . +-+++....-..-+.++||||-
T Consensus 155 iH~l~d~~RG~~lE~iv~r~~~~~~~~rivgLSATl 190 (766)
T COG1204 155 IHLLGDRTRGPVLESIVARMRRLNELIRIVGLSATL 190 (766)
T ss_pred eeecCCcccCceehhHHHHHHhhCcceEEEEEeeec
Confidence 9999765 2 3333333333335889999994
No 87
>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=99.37 E-value=6.2e-13 Score=122.42 Aligned_cols=73 Identities=36% Similarity=0.471 Sum_probs=68.6
Q ss_pred CCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccC
Q 000740 1011 KGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1087 (1321)
Q Consensus 1011 ~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiG 1087 (1321)
.|+.+..++|.++..+|+.+++.|+.... .+|++|.++++|||++.+++||+++++||+..+.|++||++|.|
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~----~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEI----RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSS----SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCc----eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 68999999999999999999999997433 37899999999999999999999999999999999999999998
No 88
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.37 E-value=4.6e-12 Score=126.71 Aligned_cols=139 Identities=18% Similarity=0.150 Sum_probs=96.2
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH-HHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLA 674 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~ 674 (1321)
++++.+.+|.|||.+++.++....... ..+++||+||...+. +|...+.+|... .+.+..+.+....... ..
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~--~~~~~lv~~p~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~--~~ 74 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSL--KGGQVLVLAPTRELANQVAERLKELFGE---GIKVGYLIGGTSIKQQ--EK 74 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcc--cCCCEEEEcCcHHHHHHHHHHHHHHhhC---CcEEEEEecCcchhHH--HH
Confidence 689999999999999999998876652 346999999988555 566777777753 2445555443322111 12
Q ss_pred HHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchhHH---HHHhhcccceEEEEec
Q 000740 675 KWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTT---QALKQVKCQRRIALTG 751 (1321)
Q Consensus 675 ~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~s---kal~~Lka~~RllLTG 751 (1321)
.+....++++++|+++....... ......+++||+||+|.+.+...... .........+++++||
T Consensus 75 ~~~~~~~i~i~t~~~~~~~~~~~------------~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~sa 142 (144)
T cd00046 75 LLSGKTDIVVGTPGRLLDELERL------------KLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSA 142 (144)
T ss_pred HhcCCCCEEEECcHHHHHHHHcC------------CcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEec
Confidence 33467899999999775321000 01234799999999999988765443 3444457889999999
Q ss_pred CC
Q 000740 752 SP 753 (1321)
Q Consensus 752 TP 753 (1321)
||
T Consensus 143 Tp 144 (144)
T cd00046 143 TP 144 (144)
T ss_pred cC
Confidence 99
No 89
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.35 E-value=2.9e-11 Score=136.96 Aligned_cols=116 Identities=23% Similarity=0.266 Sum_probs=99.0
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
+.|+..+..++.. ....+|+|||+....++|.|..-|.- .|+..--|+|.-.+.+|+.+++.|..
T Consensus 449 ~~k~~~~~~f~~~-ms~ndKvIiFv~~K~~AD~LSSd~~l------------~gi~~q~lHG~r~Q~DrE~al~~~ks-- 513 (629)
T KOG0336|consen 449 SEKLEIVQFFVAN-MSSNDKVIIFVSRKVMADHLSSDFCL------------KGISSQSLHGNREQSDREMALEDFKS-- 513 (629)
T ss_pred HHHHHHHHHHHHh-cCCCceEEEEEechhhhhhccchhhh------------cccchhhccCChhhhhHHHHHHhhhc--
Confidence 4566555555543 45589999999999999888766653 68999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCc
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1091 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~ 1091 (1321)
+.++ +|+.|+.++.||++....||+.||.|-|-..+.+++||.+|-|.+-.
T Consensus 514 -G~vr-ILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~ 564 (629)
T KOG0336|consen 514 -GEVR-ILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGT 564 (629)
T ss_pred -CceE-EEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcc
Confidence 5676 69999999999999999999999999999999999999999997643
No 90
>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=99.33 E-value=1.2e-10 Score=155.02 Aligned_cols=87 Identities=15% Similarity=0.182 Sum_probs=71.2
Q ss_pred HHHHHHHHHhhcCCCeEEEEeCch---hhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 963 VLLLDILTMCSNMGDKSLVFSQSI---PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 963 ~~L~eiL~~~~~~g~KVLVFSQ~~---~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
..|.++|+.. +.++|||++.. ..++.|..+|.. .|++...++|.++ +..+++|.+
T Consensus 316 ~~L~~ll~~l---~~~~IVFv~t~~~~~~a~~l~~~L~~------------~g~~a~~lhg~~~----~~~l~~Fr~--- 373 (1171)
T TIGR01054 316 ETLLEIVKKL---GTGGIVYVSIDYGKEKAEEIAEFLEN------------HGVKAVAYHATKP----KEDYEKFAE--- 373 (1171)
T ss_pred HHHHHHHHHc---CCCEEEEEeccccHHHHHHHHHHHHh------------CCceEEEEeCCCC----HHHHHHHHc---
Confidence 4455666543 57899999998 889999999986 5899999999986 368999996
Q ss_pred CCceEEEee---ccccccccCccc-CCEEEEEeCCC
Q 000740 1040 KRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW 1071 (1321)
Q Consensus 1040 ~~v~VfLIS---TkAGg~GLNLt~-An~VIi~D~~W 1071 (1321)
+.++|++.+ |.+++.|||++. .++||+||+|-
T Consensus 374 G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 374 GEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred CCCCEEEEeccccCcccccCCCCccccEEEEECCCC
Confidence 566655554 689999999998 79999999974
No 91
>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=99.31 E-value=1.8e-10 Score=148.27 Aligned_cols=111 Identities=18% Similarity=0.195 Sum_probs=91.7
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
+.++|||......++.+...|.... ..++.++.++|+++.++|.++++.|.+ +..+ +|+||.+++.|
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~---------~~~~~v~pLHg~L~~~eq~~~~~~~~~---G~rk-VlVATnIAErg 275 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERL---------DSDVLICPLYGELSLAAQDRAIKPDPQ---GRRK-VVLATNIAETS 275 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhc---------CCCcEEEEecCCCCHHHHHHHHhhccc---CCeE-EEEecchHhhc
Confidence 4689999999999999999997521 136889999999999999999999975 3334 68999999999
Q ss_pred cCcccCCEEEEEeCC----CCcch--------------hhhhhhhhhccCCCCcEEEEEEEeCCC
Q 000740 1056 INLHSANRVIIVDGS----WNPTY--------------DLQAIYRAWRYGQTKPVFAYRLMAHGT 1102 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~----WNP~~--------------d~QAiGRa~RiGQkK~V~VYRLva~gT 1102 (1321)
|++.+.++||.++.+ |||.. ..||.||++|. ++-..|+|+++..
T Consensus 276 ItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 276 LTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred ccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 999999999998875 56654 57999998887 5778899988643
No 92
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.30 E-value=3.8e-10 Score=126.88 Aligned_cols=115 Identities=21% Similarity=0.289 Sum_probs=102.0
Q ss_pred CchHHHHHHHHHHhhc-CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCSN-MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~-~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
..|-.+|..+|....+ ....++||.|.+.+..+|...|+.+ ++....+++.+++.+|-..+.+|+.+
T Consensus 236 ~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~l------------e~r~~~lHs~m~Q~eR~~aLsrFrs~ 303 (442)
T KOG0340|consen 236 DVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNL------------EVRVVSLHSQMPQKERLAALSRFRSN 303 (442)
T ss_pred hhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhh------------ceeeeehhhcchHHHHHHHHHHHhhc
Confidence 4566778888887665 4568999999999999999999974 78899999999999999999999973
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
.++ +||.|++++.||+++..+-||+||.|-.|-.+++|+||.-|-|..
T Consensus 304 ---~~~-iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~ 351 (442)
T KOG0340|consen 304 ---AAR-ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRK 351 (442)
T ss_pred ---Ccc-EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCC
Confidence 344 699999999999999999999999999999999999999888876
No 93
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.29 E-value=2e-11 Score=144.69 Aligned_cols=112 Identities=25% Similarity=0.317 Sum_probs=98.9
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
|++.|-+++..+. -...||||....-.+-|..+|.. .|+++-.|.|.|++.+|..+++.+++ -
T Consensus 259 klq~L~~vf~~ip--y~QAlVF~~~~sra~~~a~~L~s------------sG~d~~~ISgaM~Q~~Rl~a~~~lr~---f 321 (980)
T KOG4284|consen 259 KLQKLTHVFKSIP--YVQALVFCDQISRAEPIATHLKS------------SGLDVTFISGAMSQKDRLLAVDQLRA---F 321 (980)
T ss_pred HHHHHHHHHhhCc--hHHHHhhhhhhhhhhHHHHHhhc------------cCCCeEEeccccchhHHHHHHHHhhh---c
Confidence 5556666665443 35789999999999999999986 79999999999999999999999985 5
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCC
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK 1090 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK 1090 (1321)
.++ +|+||+..+.||+-..+|-||.+|++-+...+.+||||++|+|..-
T Consensus 322 ~~r-ILVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~G 370 (980)
T KOG4284|consen 322 RVR-ILVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAHG 370 (980)
T ss_pred eEE-EEEecchhhccCCccccceEEecCCCcchHHHHHHhhhcccccccc
Confidence 666 6999999999999999999999999999999999999999999763
No 94
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.29 E-value=1.5e-09 Score=139.07 Aligned_cols=325 Identities=18% Similarity=0.246 Sum_probs=207.3
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH-HHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-qW~~ 643 (1321)
.--|-|..+|.-..+-+.. ...---+++-++|.|||=+|+=.+...... .+-+.|+||+.++. |-.+
T Consensus 594 eET~DQl~AI~eVk~DM~~--------~kpMDRLiCGDVGFGKTEVAmRAAFkAV~~----GKQVAvLVPTTlLA~QHy~ 661 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMES--------GKPMDRLICGDVGFGKTEVAMRAAFKAVMD----GKQVAVLVPTTLLAQQHYE 661 (1139)
T ss_pred cCCHHHHHHHHHHHHHhcc--------CCcchheeecCcCCcHHHHHHHHHHHHhcC----CCeEEEEcccHHhHHHHHH
Confidence 3456789998877654321 233456888899999998876544333222 36899999999776 4455
Q ss_pred HHHHHCCCCCCCeEEEEecCcchh-HHHHHHHHHh-hcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 644 EFMKWRPSELKPLRVFMLEDVSRD-RRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~~~-~r~~~l~~~~-~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
.|..-+.+ .|++|-.+...... .....++... ..-+|+|-|+..+..- -.+ .+.++||+
T Consensus 662 tFkeRF~~--fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kd--------v~F---------kdLGLlII 722 (1139)
T COG1197 662 TFKERFAG--FPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKD--------VKF---------KDLGLLII 722 (1139)
T ss_pred HHHHHhcC--CCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCC--------cEE---------ecCCeEEE
Confidence 55543332 35888888765433 3333444432 2346777776554321 000 15689999
Q ss_pred cCCcccCCcchhHHHHHhhcc-cceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcccCCCCCCChHHH
Q 000740 722 DEAHMIKNTRADTTQALKQVK-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 800 (1321)
Q Consensus 722 DEAH~IKN~~S~~skal~~Lk-a~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~g~~~~st~~dv 800 (1321)
||=|++.-..- ..++.|+ .-..+-||||||.-.|.
T Consensus 723 DEEqRFGVk~K---EkLK~Lr~~VDvLTLSATPIPRTL~----------------------------------------- 758 (1139)
T COG1197 723 DEEQRFGVKHK---EKLKELRANVDVLTLSATPIPRTLN----------------------------------------- 758 (1139)
T ss_pred echhhcCccHH---HHHHHHhccCcEEEeeCCCCcchHH-----------------------------------------
Confidence 99999864332 3566664 45789999999975433
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHH
Q 000740 801 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQAL 880 (1321)
Q Consensus 801 ~~~~~r~~~L~~~L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~~~~~~~~~~~~~~~~~~~l~~l~~L 880 (1321)
..|.+. |+.+.+ .-||...+.|..-..+..
T Consensus 759 -----------Msm~Gi---RdlSvI--~TPP~~R~pV~T~V~~~d---------------------------------- 788 (1139)
T COG1197 759 -----------MSLSGI---RDLSVI--ATPPEDRLPVKTFVSEYD---------------------------------- 788 (1139)
T ss_pred -----------HHHhcc---hhhhhc--cCCCCCCcceEEEEecCC----------------------------------
Confidence 111110 122222 234444333321111100
Q ss_pred HHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccccccCc
Q 000740 881 AQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSG 960 (1321)
Q Consensus 881 rkicnhP~Ll~~~~~~~~~~~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~ 960 (1321)
+
T Consensus 789 -------------------------------------------------------------------------------~ 789 (1139)
T COG1197 789 -------------------------------------------------------------------------------D 789 (1139)
T ss_pred -------------------------------------------------------------------------------h
Confidence 0
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
.++.+.|..-..+|..|-.-.+.+..+..+...|+.+. ....+...||.|+..+-++++..|.+ +
T Consensus 790 --~~ireAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LV----------PEarI~vaHGQM~e~eLE~vM~~F~~---g 854 (1139)
T COG1197 790 --LLIREAILRELLRGGQVFYVHNRVESIEKKAERLRELV----------PEARIAVAHGQMRERELEEVMLDFYN---G 854 (1139)
T ss_pred --HHHHHHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhC----------CceEEEEeecCCCHHHHHHHHHHHHc---C
Confidence 01222222223457788888888899999999999863 45678899999999999999999996 4
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCC-CCcchhhhhhhhhhccCCCCcEEEEEEEeCC-ChHHHHHHHH
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG-TMEEKIYKRQ 1111 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~-WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g-TIEEkI~~rq 1111 (1321)
++. +|++|.....||+++.||++|+-+.+ +--+..-|-.|||+|- .+.-|-|-|+..+ .+=+.-.+|+
T Consensus 855 ~~d-VLv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS--~~~AYAYfl~p~~k~lT~~A~kRL 924 (1139)
T COG1197 855 EYD-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRS--NKQAYAYFLYPPQKALTEDAEKRL 924 (1139)
T ss_pred CCC-EEEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCc--cceEEEEEeecCccccCHHHHHHH
Confidence 555 57777899999999999999998884 6788899999999994 4567788777643 3433333333
No 95
>PRK09694 helicase Cas3; Provisional
Probab=99.29 E-value=8.1e-10 Score=142.51 Aligned_cols=111 Identities=15% Similarity=0.169 Sum_probs=83.7
Q ss_pred HHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHH----HHHHHHHhCCCCCCc
Q 000740 967 DILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER----QKLVERFNEPLNKRV 1042 (1321)
Q Consensus 967 eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR----~~lI~~Fn~~~n~~v 1042 (1321)
+.+......|.++|||++.+..+..+.+.|.+.. ..+..+..++|.++..+| +++++.|.......-
T Consensus 551 ~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~---------~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~ 621 (878)
T PRK09694 551 QRMIAAANAGAQVCLICNLVDDAQKLYQRLKELN---------NTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQ 621 (878)
T ss_pred HHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhC---------CCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCC
Confidence 3333334568999999999999999999998621 023578999999999999 567889943211111
Q ss_pred eEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1043 KCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1043 ~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
..+||+|.+...|||+ .++.+|....| ....+|++||++|.|.+
T Consensus 622 ~~ILVaTQViE~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 622 GRILVATQVVEQSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred CeEEEECcchhheeec-CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 2479999999999999 57877775554 46789999999999875
No 96
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.28 E-value=2e-10 Score=134.75 Aligned_cols=97 Identities=20% Similarity=0.233 Sum_probs=89.5
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
..+.|||+++++.+..|.-+|.. -++..+.|+.+|.+.+|-+.+++|.+.++ .+||.|++++.|
T Consensus 463 PGrTlVF~NsId~vKRLt~~L~~------------L~i~p~~LHA~M~QKqRLknLEkF~~~~~----~VLiaTDVAARG 526 (731)
T KOG0347|consen 463 PGRTLVFCNSIDCVKRLTVLLNN------------LDIPPLPLHASMIQKQRLKNLEKFKQSPS----GVLIATDVAARG 526 (731)
T ss_pred CCceEEEechHHHHHHHHHHHhh------------cCCCCchhhHHHHHHHHHHhHHHHhcCCC----eEEEeehhhhcc
Confidence 46899999999999999999997 47889999999999999999999998544 379999999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhccCC
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ 1088 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQ 1088 (1321)
|++++..|||+|..|-..-.+.+|-||.-|-+.
T Consensus 527 LDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~ 559 (731)
T KOG0347|consen 527 LDIPGVQHVIHYQVPRTSEIYVHRSGRTARANS 559 (731)
T ss_pred CCCCCcceEEEeecCCccceeEecccccccccC
Confidence 999999999999999999999999999999874
No 97
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.26 E-value=3.1e-10 Score=132.12 Aligned_cols=142 Identities=20% Similarity=0.289 Sum_probs=110.5
Q ss_pred HHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCce
Q 000740 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1321)
Q Consensus 964 ~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~ 1043 (1321)
.|..++.... .++++||.+.......+.-+|.- .|+...-|+|+.++.+|-..++.|.+ ..+.
T Consensus 416 ~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGL------------lgl~agElHGsLtQ~QRlesL~kFk~---~eid 478 (691)
T KOG0338|consen 416 MLASLITRTF--QDRTIVFVRTKKQAHRLRILLGL------------LGLKAGELHGSLTQEQRLESLEKFKK---EEID 478 (691)
T ss_pred HHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHH------------hhchhhhhcccccHHHHHHHHHHHHh---ccCC
Confidence 3445555444 48999999999999988888874 48899999999999999999999996 4554
Q ss_pred EEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHH-----HHHH
Q 000740 1044 CTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK-----EGLA 1118 (1321)
Q Consensus 1044 VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K-----~~La 1118 (1321)
+||+|++++.||++.+.-+||+|+.|-.--++.+|+||.-|-|.. -+-..|+.++ |.+|+.-...- ..+-
T Consensus 479 -vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRa--GrsVtlvgE~--dRkllK~iik~~~~a~~klk 553 (691)
T KOG0338|consen 479 -VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRA--GRSVTLVGES--DRKLLKEIIKSSTKAGSKLK 553 (691)
T ss_pred -EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccC--cceEEEeccc--cHHHHHHHHhhhhhcccchh
Confidence 699999999999999999999999999999999999999999865 2333456665 66666544332 2344
Q ss_pred HHHhccccc
Q 000740 1119 ARVVDRQQV 1127 (1321)
Q Consensus 1119 ~~Vvd~~~~ 1127 (1321)
+++++...+
T Consensus 554 ~R~i~~~~I 562 (691)
T KOG0338|consen 554 NRNIPPEVI 562 (691)
T ss_pred hcCCCHHHH
Confidence 555554443
No 98
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.26 E-value=4e-10 Score=127.37 Aligned_cols=126 Identities=22% Similarity=0.322 Sum_probs=101.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|+.+|.++.. +... ...|||++...++..|...|.. .|+.+..++|.+...+|..++++|+.+
T Consensus 315 ~~K~~~l~~lyg-~~ti-gqsiIFc~tk~ta~~l~~~m~~------------~Gh~V~~l~G~l~~~~R~~ii~~Fr~g- 379 (477)
T KOG0332|consen 315 DDKYQALVNLYG-LLTI-GQSIIFCHTKATAMWLYEEMRA------------EGHQVSLLHGDLTVEQRAAIIDRFREG- 379 (477)
T ss_pred hhHHHHHHHHHh-hhhh-hheEEEEeehhhHHHHHHHHHh------------cCceeEEeeccchhHHHHHHHHHHhcC-
Confidence 357777777443 2222 3678999999999999999986 799999999999999999999999974
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCC------CcchhhhhhhhhhccCCCCcEEEEEEEe-CCChH
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSW------NPTYDLQAIYRAWRYGQTKPVFAYRLMA-HGTME 1104 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W------NP~~d~QAiGRa~RiGQkK~V~VYRLva-~gTIE 1104 (1321)
..+ +||+|.+.+.||+....+.||.||.|- .|..+.+||||.+|+|-+- + ++.|+- .++++
T Consensus 380 --~~k-VLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG-~-a~n~v~~~~s~~ 447 (477)
T KOG0332|consen 380 --KEK-VLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKG-L-AINLVDDKDSMN 447 (477)
T ss_pred --cce-EEEEechhhcccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccc-e-EEEeecccCcHH
Confidence 333 699999999999999999999999974 5678899999999999653 2 334553 34443
No 99
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.24 E-value=5.4e-10 Score=140.98 Aligned_cols=117 Identities=16% Similarity=0.154 Sum_probs=100.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..+|.+.+......|..||||+.+....+.|...|.+ .|+++..++|.....+++.+..+|..
T Consensus 423 ~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~------------~gi~~~~Lna~~~~~Ea~ii~~ag~~-- 488 (796)
T PRK12906 423 DSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDE------------AGIPHAVLNAKNHAKEAEIIMNAGQR-- 488 (796)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHH------------CCCCeeEecCCcHHHHHHHHHhcCCC--
Confidence 4588999999988888899999999999999999999997 68999999999886666555555553
Q ss_pred CCCceEEEeeccccccccCcc---cCC-----EEEEEeCCCCcchhhhhhhhhhccCCCCcEE
Q 000740 1039 NKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1093 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt---~An-----~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~ 1093 (1321)
+. ++|+|..+|.|+++. +.. +||.++.+-|+..+.|++||++|.|..-...
T Consensus 489 -g~---VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s~ 547 (796)
T PRK12906 489 -GA---VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSSR 547 (796)
T ss_pred -ce---EEEEeccccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcceE
Confidence 22 699999999999985 566 9999999999999999999999999885543
No 100
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.24 E-value=1.7e-11 Score=112.46 Aligned_cols=73 Identities=34% Similarity=0.491 Sum_probs=68.0
Q ss_pred CCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccC
Q 000740 1011 KGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1087 (1321)
Q Consensus 1011 ~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiG 1087 (1321)
.++.+..++|.++..+|..+++.|+++.. .+|++|.++++|+|++.++.||+++++||+....|++||++|.|
T Consensus 10 ~~~~~~~~~~~~~~~~r~~~~~~f~~~~~----~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 10 LGIKVARLHGGLSQEEREEILEKFNNGKI----KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82 (82)
T ss_pred CCCeEEEEECCCCHHHHHHHHHHHHcCCC----eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcccccCC
Confidence 47889999999999999999999997432 57899999999999999999999999999999999999999987
No 101
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.23 E-value=1.9e-09 Score=136.71 Aligned_cols=119 Identities=20% Similarity=0.180 Sum_probs=106.4
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++++.+..+...|..||||+.+....+.|..+|.+ .|+++..|+|.....+|+.+.+.|+.
T Consensus 427 ~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~------------~gi~h~vLnak~~q~Ea~iia~Ag~~-- 492 (896)
T PRK13104 427 ADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKK------------ENIKHQVLNAKFHEKEAQIIAEAGRP-- 492 (896)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHH------------cCCCeEeecCCCChHHHHHHHhCCCC--
Confidence 4689999999999999999999999999999999999997 79999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcc--------------------------------------cCCEEEEEeCCCCcchhhhhh
Q 000740 1039 NKRVKCTLISTRAGSLGINLH--------------------------------------SANRVIIVDGSWNPTYDLQAI 1080 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt--------------------------------------~An~VIi~D~~WNP~~d~QAi 1080 (1321)
+. ++|+|..+|.|+++. +.=+||.-+.+=|--.|.|..
T Consensus 493 -G~---VtIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLr 568 (896)
T PRK13104 493 -GA---VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLR 568 (896)
T ss_pred -Cc---EEEeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhc
Confidence 33 699999999999865 334899999999999999999
Q ss_pred hhhhccCCCCcEEEE
Q 000740 1081 YRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1081 GRa~RiGQkK~V~VY 1095 (1321)
||++|.|..-....|
T Consensus 569 GRaGRQGDPGss~f~ 583 (896)
T PRK13104 569 GRAGRQGDPGSSRFY 583 (896)
T ss_pred cccccCCCCCceEEE
Confidence 999999988655554
No 102
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.23 E-value=2.3e-10 Score=136.25 Aligned_cols=114 Identities=23% Similarity=0.226 Sum_probs=101.6
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
-+|+.++.+++.... .-.+|||.|+......|...|.. ..++++..++|..+..+|...+++|+.
T Consensus 372 ~~K~lA~rq~v~~g~--~PP~lIfVQs~eRak~L~~~L~~-----------~~~i~v~vIh~e~~~~qrde~~~~FR~-- 436 (593)
T KOG0344|consen 372 KGKLLALRQLVASGF--KPPVLIFVQSKERAKQLFEELEI-----------YDNINVDVIHGERSQKQRDETMERFRI-- 436 (593)
T ss_pred hhHHHHHHHHHhccC--CCCeEEEEecHHHHHHHHHHhhh-----------ccCcceeeEecccchhHHHHHHHHHhc--
Confidence 578999999998654 46899999999999888888842 268999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
+.++ +||.|.+.+.||++.++|.||+||.+-.-..++.+|||++|-|+.
T Consensus 437 -g~Iw-vLicTdll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~ 485 (593)
T KOG0344|consen 437 -GKIW-VLICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRS 485 (593)
T ss_pred -cCee-EEEehhhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCC
Confidence 6777 589999999999999999999999999999999999999999977
No 103
>PRK14701 reverse gyrase; Provisional
Probab=99.22 E-value=2.4e-09 Score=145.53 Aligned_cols=103 Identities=17% Similarity=0.191 Sum_probs=80.0
Q ss_pred HHHHHHHHHhhcCCCeEEEEeCchhh---HHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 963 VLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 963 ~~L~eiL~~~~~~g~KVLVFSQ~~~t---LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
..|.++|... |..+|||++.... ++.|..+|.. .|+....++|. |...+++|.+
T Consensus 320 ~~L~~ll~~~---g~~gIVF~~t~~~~e~ae~la~~L~~------------~Gi~a~~~h~~-----R~~~l~~F~~--- 376 (1638)
T PRK14701 320 EHVRELLKKL---GKGGLIFVPIDEGAEKAEEIEKYLLE------------DGFKIELVSAK-----NKKGFDLFEE--- 376 (1638)
T ss_pred HHHHHHHHhC---CCCeEEEEeccccchHHHHHHHHHHH------------CCCeEEEecch-----HHHHHHHHHc---
Confidence 4566666643 6789999998764 5788889986 68999999984 8999999996
Q ss_pred CCceEEEeec----cccccccCccc-CCEEEEEeCCC---Ccchhhhhh-------------hhhhccCCC
Q 000740 1040 KRVKCTLIST----RAGSLGINLHS-ANRVIIVDGSW---NPTYDLQAI-------------YRAWRYGQT 1089 (1321)
Q Consensus 1040 ~~v~VfLIST----kAGg~GLNLt~-An~VIi~D~~W---NP~~d~QAi-------------GRa~RiGQk 1089 (1321)
+.+.| |++| .+++.|||++. ..+|||||+|- |.-.+.|.. ||++|-|..
T Consensus 377 G~~~V-LVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 377 GEIDY-LIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred CCCCE-EEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 45554 6666 57899999998 89999999987 555455544 888887764
No 104
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.21 E-value=1.1e-09 Score=141.55 Aligned_cols=112 Identities=17% Similarity=0.162 Sum_probs=90.5
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
+..+|||......++.+.+.|.... ..++.+..++|+++..+|++++..|.+ +..+ +|++|.++..|
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~---------~~~~~v~~Lhg~l~~~eq~~~~~~~~~---G~rk-VlvATnIAErs 278 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRV---------ASDVLLCPLYGALSLAEQQKAILPAPA---GRRK-VVLATNIAETS 278 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhc---------cCCceEEEeeCCCCHHHHHHHhccccC---CCeE-EEEecchHHhc
Confidence 5789999999999999999998511 136788999999999999999998875 3333 79999999999
Q ss_pred cCcccCCEEEEEeCC----CCcc--------------hhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1056 INLHSANRVIIVDGS----WNPT--------------YDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~----WNP~--------------~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
|++.+.++||.++.. |+|. ...||.||++|. .+-..|||+++...
T Consensus 279 LtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 279 LTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred ccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 999999999996654 3332 467888888886 48899999987544
No 105
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.18 E-value=4.5e-09 Score=132.96 Aligned_cols=134 Identities=19% Similarity=0.141 Sum_probs=111.9
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
..+++..|++.|..+...|.++|||+.....++.|..+|.. .|+.+..++|.++..+|.+++..|..
T Consensus 424 ~~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~------------~gi~~~~lh~~~~~~eR~~~l~~fr~- 490 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKE------------LGIKVRYLHSEIDTLERVEIIRDLRL- 490 (655)
T ss_pred ccchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhh------------hccceeeeeCCCCHHHHHHHHHHHhc-
Confidence 45788899999999888999999999999999999999986 58889999999999999999999986
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEe-----CCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCC--hHHHHHHH
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVD-----GSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGT--MEEKIYKR 1110 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D-----~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gT--IEEkI~~r 1110 (1321)
+.+. +|++|...+.|++++.++.||++| .+-+.....|++||+.|.. . -.++-|+...| +...|.+.
T Consensus 491 --G~i~-VLV~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~-~--G~vi~~~~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 491 --GEFD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV-N--GKVIMYADKITDSMQKAIEET 564 (655)
T ss_pred --CCce-EEEEcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC-C--CEEEEEEcCCCHHHHHHHHHH
Confidence 4554 678999999999999999999999 4557889999999999973 2 33555555444 55555543
No 106
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.16 E-value=6.6e-10 Score=130.92 Aligned_cols=108 Identities=20% Similarity=0.234 Sum_probs=92.2
Q ss_pred CeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccccc
Q 000740 977 DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGI 1056 (1321)
Q Consensus 977 ~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GL 1056 (1321)
...|||+.+..-...|..+|.. +|++..-++++.+..+|..+-..|.+ ..+. .+++|.|.|.|+
T Consensus 441 GQtIVFT~SRrr~h~lA~~L~~------------kG~~a~pYHaGL~y~eRk~vE~~F~~---q~l~-~VVTTAAL~AGV 504 (830)
T COG1202 441 GQTIVFTYSRRRCHELADALTG------------KGLKAAPYHAGLPYKERKSVERAFAA---QELA-AVVTTAALAAGV 504 (830)
T ss_pred CceEEEecchhhHHHHHHHhhc------------CCcccccccCCCcHHHHHHHHHHHhc---CCcc-eEeehhhhhcCC
Confidence 4799999999999999999985 69999999999999999999999996 4443 589999999999
Q ss_pred CcccCCEEEE----EeCCC-CcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1057 NLHSANRVII----VDGSW-NPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1057 NLt~An~VIi----~D~~W-NP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
++++ +.||| |-..| +|...+|..||++|.|-...-.||-++-.|
T Consensus 505 DFPA-SQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 505 DFPA-SQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred CCch-HHHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 9985 56665 55555 999999999999999988777778777543
No 107
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.16 E-value=1.7e-08 Score=128.15 Aligned_cols=119 Identities=20% Similarity=0.158 Sum_probs=103.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++.+.+..+...|..|||||.+....+.|...|.. .|+++..|+|. ..+|+..|..|...+
T Consensus 413 ~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~------------~gi~~~vLnak--q~eREa~Iia~Ag~~ 478 (830)
T PRK12904 413 KEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKK------------AGIPHNVLNAK--NHEREAEIIAQAGRP 478 (830)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCceEeccCc--hHHHHHHHHHhcCCC
Confidence 4699999999998888899999999999999999999986 68999999996 679999999998632
Q ss_pred CCCceEEEeeccccccccCcc-c-------------------------------------CCEEEEEeCCCCcchhhhhh
Q 000740 1039 NKRVKCTLISTRAGSLGINLH-S-------------------------------------ANRVIIVDGSWNPTYDLQAI 1080 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt-~-------------------------------------An~VIi~D~~WNP~~d~QAi 1080 (1321)
. -++|+|..+|.|+++. + .=+||.-..+=|--.+.|..
T Consensus 479 ---g-~VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~Qlr 554 (830)
T PRK12904 479 ---G-AVTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLR 554 (830)
T ss_pred ---c-eEEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhh
Confidence 2 3699999999998865 2 45899999999999999999
Q ss_pred hhhhccCCCCcEEEE
Q 000740 1081 YRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1081 GRa~RiGQkK~V~VY 1095 (1321)
||++|.|..-....|
T Consensus 555 GRagRQGdpGss~f~ 569 (830)
T PRK12904 555 GRSGRQGDPGSSRFY 569 (830)
T ss_pred cccccCCCCCceeEE
Confidence 999999998665554
No 108
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.06 E-value=8.8e-08 Score=121.59 Aligned_cols=119 Identities=18% Similarity=0.157 Sum_probs=105.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++++-+..+.+.|..||||+.+....+.|..+|.. .|+.+..+++..+..+|..+.+.|+.
T Consensus 432 ~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~------------~gi~~~vLnak~~~~Ea~ii~~Ag~~-- 497 (908)
T PRK13107 432 DEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVK------------EKIPHEVLNAKFHEREAEIVAQAGRT-- 497 (908)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCeEeccCcccHHHHHHHHhCCCC--
Confidence 5688999999999999999999999999999999999996 68999999999999999999999986
Q ss_pred CCCceEEEeeccccccccCcc-------------------------------------cCCEEEEEeCCCCcchhhhhhh
Q 000740 1039 NKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAIY 1081 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt-------------------------------------~An~VIi~D~~WNP~~d~QAiG 1081 (1321)
+. ++|+|..+|.|+++. +.=+||.-..+=|--.|.|..|
T Consensus 498 -G~---VtIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrG 573 (908)
T PRK13107 498 -GA---VTIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRG 573 (908)
T ss_pred -Cc---EEEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhc
Confidence 33 699999999999965 3348999999999999999999
Q ss_pred hhhccCCCCcEEEE
Q 000740 1082 RAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1082 Ra~RiGQkK~V~VY 1095 (1321)
|++|.|..-....|
T Consensus 574 RaGRQGDPGss~f~ 587 (908)
T PRK13107 574 RAGRQGDAGSSRFY 587 (908)
T ss_pred ccccCCCCCceeEE
Confidence 99999988554443
No 109
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.05 E-value=2e-08 Score=117.12 Aligned_cols=126 Identities=25% Similarity=0.323 Sum_probs=109.0
Q ss_pred chHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCC
Q 000740 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1321)
Q Consensus 960 ~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n 1039 (1321)
.|+..|++-|..... ..+||||..-....+-|...|.- +|+++..++|++.+.+|.+.+.+|...
T Consensus 453 ~Kl~wl~~~L~~f~S-~gkvlifVTKk~~~e~i~a~Lkl------------k~~~v~llhgdkdqa~rn~~ls~fKkk-- 517 (731)
T KOG0339|consen 453 KKLNWLLRHLVEFSS-EGKVLIFVTKKADAEEIAANLKL------------KGFNVSLLHGDKDQAERNEVLSKFKKK-- 517 (731)
T ss_pred HHHHHHHHHhhhhcc-CCcEEEEEeccCCHHHHHHHhcc------------ccceeeeecCchhhHHHHHHHHHHhhc--
Confidence 578888877776655 35899999999999999998874 799999999999999999999999973
Q ss_pred CCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1040 ~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
+.. +|+.|++...|+++....+||+||.--.-....|+|||..|-|-+ -..|.||++-..+
T Consensus 518 -~~~-VlvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 518 -RKP-VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred -CCc-eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 222 688999999999999999999999988888899999999999977 5678899876554
No 110
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.04 E-value=5.2e-10 Score=123.88 Aligned_cols=113 Identities=21% Similarity=0.339 Sum_probs=97.7
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
+.|+-.|--++..+. =...||||+++..+++|..-+.+ -|+..+.++..|.++.|......|.+
T Consensus 307 ~qKvhCLntLfskLq--INQsIIFCNS~~rVELLAkKITe------------lGyscyyiHakM~Q~hRNrVFHdFr~-- 370 (459)
T KOG0326|consen 307 RQKVHCLNTLFSKLQ--INQSIIFCNSTNRVELLAKKITE------------LGYSCYYIHAKMAQEHRNRVFHDFRN-- 370 (459)
T ss_pred hhhhhhHHHHHHHhc--ccceEEEeccchHhHHHHHHHHh------------ccchhhHHHHHHHHhhhhhhhhhhhc--
Confidence 455555555555433 25789999999999999998887 48999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1089 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQk 1089 (1321)
+.++ .|+.|+..-.||+.++.|.||.||.+-|+..+..+|||.+|+|--
T Consensus 371 -G~cr-nLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhl 419 (459)
T KOG0326|consen 371 -GKCR-NLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHL 419 (459)
T ss_pred -cccc-eeeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCc
Confidence 6676 588889999999999999999999999999999999999999954
No 111
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.02 E-value=1.3e-07 Score=120.38 Aligned_cols=124 Identities=18% Similarity=0.157 Sum_probs=106.9
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
..+++..|++.|..+...|.++|||+.....++.|..+|.. .|+.+..++|.++..+|..++..|..
T Consensus 428 ~~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~------------~gi~~~~~h~~~~~~~R~~~l~~f~~- 494 (652)
T PRK05298 428 TKGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRL- 494 (652)
T ss_pred ccccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhh------------cceeEEEEECCCCHHHHHHHHHHHHc-
Confidence 35678899999999888999999999999999999999986 58899999999999999999999986
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeC-----CCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDG-----SWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~-----~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
+.+. +|++|...+.|+++..++.||++|. +-++....|++||++|- . .-.++.|+..
T Consensus 495 --g~i~-vlV~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~~~~ 556 (652)
T PRK05298 495 --GEFD-VLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-V--NGKVILYADK 556 (652)
T ss_pred --CCce-EEEEeCHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-C--CCEEEEEecC
Confidence 3453 6889999999999999999999996 45888999999999994 2 3345556654
No 112
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.01 E-value=5.3e-09 Score=113.82 Aligned_cols=160 Identities=16% Similarity=0.120 Sum_probs=104.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhc-ccCCCceEEEcchh-HHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV-NLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~-~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
.+++||.+++..+. .+.+.++..++|.|||+..+..+...+... .....++|||+|.. ++.||.
T Consensus 21 ~~~~~Q~~~~~~~~--------------~~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q~~ 86 (203)
T cd00268 21 KPTPIQARAIPPLL--------------SGRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQIA 86 (203)
T ss_pred CCCHHHHHHHHHHh--------------cCCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHHHH
Confidence 57999999998764 257899999999999998555444443332 11235799999976 888999
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
..+..+... ..+.+..+.+....... ...+....+|+|+|.+.+..+..... ......+++|+|
T Consensus 87 ~~~~~~~~~--~~~~~~~~~~~~~~~~~--~~~~~~~~~iiv~T~~~l~~~l~~~~------------~~~~~l~~lIvD 150 (203)
T cd00268 87 EVARKLGKH--TNLKVVVIYGGTSIDKQ--IRKLKRGPHIVVATPGRLLDLLERGK------------LDLSKVKYLVLD 150 (203)
T ss_pred HHHHHHhcc--CCceEEEEECCCCHHHH--HHHhcCCCCEEEEChHHHHHHHHcCC------------CChhhCCEEEEe
Confidence 999998753 23566666554432211 22333467899999887643221110 111267899999
Q ss_pred CCcccCCcc--hhHHHHHhhc-ccceEEEEecCCC
Q 000740 723 EAHMIKNTR--ADTTQALKQV-KCQRRIALTGSPL 754 (1321)
Q Consensus 723 EAH~IKN~~--S~~skal~~L-ka~~RllLTGTPl 754 (1321)
|+|.+-+.. ......+..+ .....+++||||-
T Consensus 151 E~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 151 EADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred ChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 999986543 2222233344 3577899999996
No 113
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.00 E-value=1.3e-08 Score=128.58 Aligned_cols=124 Identities=20% Similarity=0.233 Sum_probs=105.9
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~ 1037 (1321)
...|+..|.++|.+..+ ..++|||++...-++.|.+-|.+ .|+....++|..+..+|...|..|++.
T Consensus 596 e~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~------------ag~~~~slHGgv~q~dR~sti~dfK~~ 662 (997)
T KOG0334|consen 596 ENEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQK------------AGYNCDSLHGGVDQHDRSSTIEDFKNG 662 (997)
T ss_pred chHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHh------------cCcchhhhcCCCchHHHHhHHHHHhcc
Confidence 35799999999998877 77999999999999999999986 688888899999999999999999973
Q ss_pred CCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
.+ .+|+.|++.+.||+...-..||+||.+---..+..|.||..|-|-+- +-|.|+..
T Consensus 663 ---~~-~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 663 ---VV-NLLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred ---Cc-eEEEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 33 47999999999999999999999999766666777777777777665 56666666
No 114
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=98.98 E-value=1.9e-07 Score=118.99 Aligned_cols=116 Identities=16% Similarity=0.086 Sum_probs=100.2
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|+.+|++.+......|..||||+.+....+.|..+|.. .|+++..|++ ...+|+..|..|...+
T Consensus 581 ~eK~~Ali~~I~~~~~~grpVLIft~Sve~sE~Ls~~L~~------------~gI~h~vLna--kq~~REa~Iia~AG~~ 646 (1025)
T PRK12900 581 REKYNAIVLKVEELQKKGQPVLVGTASVEVSETLSRMLRA------------KRIAHNVLNA--KQHDREAEIVAEAGQK 646 (1025)
T ss_pred HHHHHHHHHHHHHHhhCCCCEEEEeCcHHHHHHHHHHHHH------------cCCCceeecC--CHHHhHHHHHHhcCCC
Confidence 4699999999998888899999999999999999999986 6899999997 5779999999998632
Q ss_pred CCCceEEEeeccccccccCcccCC--------EEEEEeCCCCcchhhhhhhhhhccCCCCcE
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSAN--------RVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1092 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An--------~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V 1092 (1321)
. -++|+|..+|.|+++.-.. +||.++.+-+...+.|++||++|.|..-..
T Consensus 647 ---g-~VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS 704 (1025)
T PRK12900 647 ---G-AVTIATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGES 704 (1025)
T ss_pred ---C-eEEEeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcce
Confidence 2 3699999999999988322 458889999999999999999999988444
No 115
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.98 E-value=2.6e-07 Score=104.28 Aligned_cols=125 Identities=16% Similarity=0.138 Sum_probs=91.9
Q ss_pred HHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCce
Q 000740 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1321)
Q Consensus 964 ~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~ 1043 (1321)
.|..+|+.....|..++||.....++..+...|+... .......++... ..|.+.+.+|++ +.+.
T Consensus 293 kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~----------~~~~i~~Vhs~d--~~R~EkV~~fR~---G~~~ 357 (441)
T COG4098 293 KLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKL----------PKETIASVHSED--QHRKEKVEAFRD---GKIT 357 (441)
T ss_pred HHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhC----------CccceeeeeccC--ccHHHHHHHHHc---CceE
Confidence 4567888888889999999999999999999996411 122233344433 479999999996 4444
Q ss_pred EEEeeccccccccCcccCCEEEEEeCC--CCcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1044 CTLISTRAGSLGINLHSANRVIIVDGS--WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1044 VfLISTkAGg~GLNLt~An~VIi~D~~--WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
+||+|.....|+.++..+..|+=.-. +..+...|.-||++|---.-.-.|+.|-.--|..
T Consensus 358 -lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~G~ska 419 (441)
T COG4098 358 -LLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHYGKSKA 419 (441)
T ss_pred -EEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEeccchHH
Confidence 79999999999999999988875544 8889999999999996543333444444333433
No 116
>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=98.97 E-value=6e-09 Score=109.46 Aligned_cols=161 Identities=17% Similarity=0.208 Sum_probs=106.0
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHHHH
Q 000740 568 AHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFM 646 (1321)
Q Consensus 568 phQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~~ 646 (1321)
|+|.+++.-+. .+...++...+|.|||..++..+...+.... ...+||++|.. ++.|-.+++.
T Consensus 2 ~~Q~~~~~~i~--------------~~~~~li~aptGsGKT~~~~~~~l~~~~~~~--~~~~lii~P~~~l~~q~~~~~~ 65 (169)
T PF00270_consen 2 PLQQEAIEAII--------------SGKNVLISAPTGSGKTLAYILPALNRLQEGK--DARVLIIVPTRALAEQQFERLR 65 (169)
T ss_dssp HHHHHHHHHHH--------------TTSEEEEECSTTSSHHHHHHHHHHHHHHTTS--SSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH--------------cCCCEEEECCCCCccHHHHHHHHHhhhccCC--CceEEEEeeccccccccccccc
Confidence 78999887663 2466999999999999998876665554432 34899999965 8888999999
Q ss_pred HHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcc
Q 000740 647 KWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHM 726 (1321)
Q Consensus 647 kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~ 726 (1321)
.++.. ..+++..+.+........ ........+++|+|++.|........ ......++||+||+|.
T Consensus 66 ~~~~~--~~~~~~~~~~~~~~~~~~-~~~~~~~~~ilv~T~~~l~~~~~~~~------------~~~~~~~~iViDE~h~ 130 (169)
T PF00270_consen 66 KFFSN--TNVRVVLLHGGQSISEDQ-REVLSNQADILVTTPEQLLDLISNGK------------INISRLSLIVIDEAHH 130 (169)
T ss_dssp HHTTT--TTSSEEEESTTSCHHHHH-HHHHHTTSSEEEEEHHHHHHHHHTTS------------STGTTESEEEEETHHH
T ss_pred ccccc--cccccccccccccccccc-cccccccccccccCcchhhccccccc------------cccccceeeccCcccc
Confidence 99865 235566655543322111 11113468999999999864321100 0112478999999999
Q ss_pred cCCc--chhHHHHHhhc---ccceEEEEecCCCCCchhh
Q 000740 727 IKNT--RADTTQALKQV---KCQRRIALTGSPLQNNLME 760 (1321)
Q Consensus 727 IKN~--~S~~skal~~L---ka~~RllLTGTPlqNnl~E 760 (1321)
+-.. .......+..+ ...+.+++||||- .++..
T Consensus 131 l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 131 LSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp HHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred cccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 8653 22333333444 3467999999997 55543
No 117
>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=98.96 E-value=1.1e-08 Score=117.82 Aligned_cols=219 Identities=20% Similarity=0.165 Sum_probs=123.9
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhcccc-----cccchHH--------HHhhHHHHHHHHHHHhcCcchhhhccccCCCC
Q 000740 834 TVFVITVKLSPLQRRLYKRFLDLHGFTN-----DRVSNEK--------IRKSFFAGYQALAQIWNHPGILQLTKDKGYPS 900 (1321)
Q Consensus 834 ~e~vv~v~LS~~Q~~lY~~~l~~~~~~~-----~~~~~~~--------~~~~~l~~l~~LrkicnhP~Ll~~~~~~~~~~ 900 (1321)
.++.+.++|+..|+++|+.++....... ....... ....+...+..|+.+|+||+|+.........
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~l- 82 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQL- 82 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCcccc-
Confidence 4788999999999999998876432111 0001111 1245666788999999999997422110000
Q ss_pred CccccCCCCcccccccccccCCCccchhhccCCCCCccchhhhhhhhhhhccccccccCchHHHHHHHHHHh-----hcC
Q 000740 901 REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-----SNM 975 (1321)
Q Consensus 901 ~e~~~d~~~d~~~d~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~-----~~~ 975 (1321)
++.+........|+|+..|-++|..+ ...
T Consensus 83 ----------------------------------------------l~~e~~~~~~~tS~KF~~L~~Li~~li~~~~~~~ 116 (297)
T PF11496_consen 83 ----------------------------------------------LLSEPAEWLAYTSGKFQFLNDLIDSLIDRDRREY 116 (297)
T ss_dssp -----------------------------------------------STTHHHHHHHT-HHHHHHHHHHHHH-----TTS
T ss_pred ----------------------------------------------ccchHHHHHHHcCchHHHHHHHHHHHHhhhcccC
Confidence 00011112235699999999999998 555
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHH------------HHHhCCCCCCce
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV------------ERFNEPLNKRVK 1043 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI------------~~Fn~~~n~~v~ 1043 (1321)
+-++||.++...++|+||.+|.- +++.|-|++|..-..+....- ..........+.
T Consensus 117 ~~~ilIv~~~~k~ldllE~~llG------------k~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (297)
T PF11496_consen 117 PLHILIVSRSGKELDLLEGLLLG------------KKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVW 184 (297)
T ss_dssp SEEEEEEE-STHHHHHHHHHHTT------------SSSEEEESSS--S--S---S----------------------SEE
T ss_pred CceEEEEecCccHHHHHHHHHcc------------CCeeEEecCCCCCcCccccCCcccccccccccccccccccccceE
Confidence 77999999999999999999974 689999999976544433222 222233345677
Q ss_pred EEEeecccccc----ccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHH
Q 000740 1044 CTLISTRAGSL----GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQV 1112 (1321)
Q Consensus 1044 VfLISTkAGg~----GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~ 1112 (1321)
|+|+++.-... .++-...+.||-||+.+++....-..-|..--.+ +.+-|+||+..+|+|--+.....
T Consensus 185 i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~PiirLv~~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 185 IHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLCPIIRLVPSNSIEHIELCFPK 256 (297)
T ss_dssp EEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S--EEEEEETTSHHHHHHHHTT
T ss_pred EEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCCcEEEEeeCCCHHHHHHHccC
Confidence 88888875544 2334467899999999999876544444433323 89999999999999998775544
No 118
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.94 E-value=2.7e-07 Score=116.01 Aligned_cols=161 Identities=17% Similarity=0.217 Sum_probs=98.0
Q ss_pred CCCCcceEEEcCCCCchHHHHHHHHHHHHHhcc------cCCCceEEEcchh-HHHHHHHHHHHHCCCCCCCeEEEEecC
Q 000740 591 GDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTPVN-VLHNWKQEFMKWRPSELKPLRVFMLED 663 (1321)
Q Consensus 591 ~~~g~GgILADeMGLGKTlQaIall~~ll~~~~------~~~k~vLIV~P~s-Ll~qW~~E~~kw~p~~~~~l~V~~~~~ 663 (1321)
+....++|++..+|.|||..|...|...+.... .+.-+++-|+|.- |...-.+-|.+-+.. ..+.|..+.|
T Consensus 123 Y~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~--~gi~v~ELTG 200 (1230)
T KOG0952|consen 123 YKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAP--LGISVRELTG 200 (1230)
T ss_pred hcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhccc--ccceEEEecC
Confidence 356689999999999999888766666555311 1234788889954 443322222222110 1377888887
Q ss_pred cchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcc-----hhHHHHH
Q 000740 664 VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR-----ADTTQAL 738 (1321)
Q Consensus 664 ~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~-----S~~skal 738 (1321)
.....+.++ ...+|+|||.+-+--++... ..+. .|.....+||+||.|.+.... +-.++.+
T Consensus 201 D~ql~~tei-----~~tqiiVTTPEKwDvvTRk~-~~d~--------~l~~~V~LviIDEVHlLhd~RGpvlEtiVaRtl 266 (1230)
T KOG0952|consen 201 DTQLTKTEI-----ADTQIIVTTPEKWDVVTRKS-VGDS--------ALFSLVRLVIIDEVHLLHDDRGPVLETIVARTL 266 (1230)
T ss_pred cchhhHHHH-----HhcCEEEecccceeeeeeee-ccch--------hhhhheeeEEeeeehhhcCcccchHHHHHHHHH
Confidence 765555543 34589999999875433211 1111 122356799999999998654 3445555
Q ss_pred hhc----ccceEEEEecCCCCCchhhHHhhhhhhccCC
Q 000740 739 KQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGF 772 (1321)
Q Consensus 739 ~~L----ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~ 772 (1321)
+.+ ..-|.++||||- .| |-.+-.||+.++
T Consensus 267 r~vessqs~IRivgLSATl-PN----~eDvA~fL~vn~ 299 (1230)
T KOG0952|consen 267 RLVESSQSMIRIVGLSATL-PN----YEDVARFLRVNP 299 (1230)
T ss_pred HHHHhhhhheEEEEeeccC-CC----HHHHHHHhcCCC
Confidence 433 456779999994 22 333455666543
No 119
>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=98.91 E-value=1.6e-07 Score=124.62 Aligned_cols=112 Identities=15% Similarity=0.154 Sum_probs=88.1
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
....+|||......++.+.+.|.... ..++.++.++|+++.++|++++..+ .. +-+|+||.+++.
T Consensus 278 ~~GdILVFLpg~~EI~~l~~~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~vf~~~----~~--rkIVLATNIAEt 342 (1283)
T TIGR01967 278 GPGDILIFLPGEREIRDAAEILRKRN---------LRHTEILPLYARLSNKEQQRVFQPH----SG--RRIVLATNVAET 342 (1283)
T ss_pred CCCCEEEeCCCHHHHHHHHHHHHhcC---------CCCcEEEeccCCCCHHHHHHHhCCC----CC--ceEEEeccHHHh
Confidence 34689999999999999999998621 1346788999999999999875433 11 237999999999
Q ss_pred ccCcccCCEEEEEeCC----C--------------CcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1055 GINLHSANRVIIVDGS----W--------------NPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1055 GLNLt~An~VIi~D~~----W--------------NP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
||++.+..+||-++.. + +.+...||.||++|.| +-..|||+++...+
T Consensus 343 SLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~ 407 (1283)
T TIGR01967 343 SLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFN 407 (1283)
T ss_pred ccccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHH
Confidence 9999999999987631 2 3357789999999997 77789999876544
No 120
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.89 E-value=3.9e-08 Score=111.50 Aligned_cols=256 Identities=18% Similarity=0.237 Sum_probs=153.2
Q ss_pred cccCcch--hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 556 VRIPSSI--SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 556 v~vP~~l--~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
..+|..+ ...|=.-|+++|-+......+.+ ......|.+|+|.+|.||..|+-++|......++ .+++-|-+
T Consensus 26 ~~lp~~~~~~g~LS~~QLEaV~yA~q~h~~~L----p~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr--~r~vwvS~ 99 (303)
T PF13872_consen 26 LHLPEEVIDSGLLSALQLEAVIYACQRHEQIL----PGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR--KRAVWVSV 99 (303)
T ss_pred cCCCHHHHhcccccHHHHHHHHHHHHHHHhhc----ccccCcEEEeccCCCcCccchhHHHHHHHHHcCC--CceEEEEC
Confidence 3566643 46788999999998866554332 3346789999999999999999999988766653 23555555
Q ss_pred chhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhc
Q 000740 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQ 713 (1321)
Q Consensus 634 P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~ 713 (1321)
...|...=.+.+..-... .+.+..+...+.... ..-..+|+++||.+++.-+.. ..+.....+.+..++.
T Consensus 100 s~dL~~Da~RDl~DIG~~---~i~v~~l~~~~~~~~------~~~~~GvlF~TYs~L~~~~~~-~~~~~sRl~ql~~W~g 169 (303)
T PF13872_consen 100 SNDLKYDAERDLRDIGAD---NIPVHPLNKFKYGDI------IRLKEGVLFSTYSTLISESQS-GGKYRSRLDQLVDWCG 169 (303)
T ss_pred ChhhhhHHHHHHHHhCCC---cccceechhhccCcC------CCCCCCccchhHHHHHhHHhc-cCCccchHHHHHHHHh
Confidence 666777666666544322 244444333221111 112568999999998764322 1222334455556665
Q ss_pred CCC-CEEEEcCCcccCCcch------hHHHHHhhc----ccceEEEEecCCCCCchhhHHhhhhhhccCC------CCCh
Q 000740 714 DGP-DILVCDEAHMIKNTRA------DTTQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGF------LGSS 776 (1321)
Q Consensus 714 ~~~-dlVIlDEAH~IKN~~S------~~skal~~L----ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~------lgs~ 776 (1321)
..| .+||+||||+.||..+ ++..++..| ..-+.+-.|||...+ +.. |.-+.+-++ |.+.
T Consensus 170 ~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~N---maYm~RLGLWG~gtpf~~~ 245 (303)
T PF13872_consen 170 EDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRN---MAYMSRLGLWGPGTPFPDF 245 (303)
T ss_pred cCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Cce---eeeeeeccccCCCCCCCCH
Confidence 544 4799999999999754 555666554 455789999999742 222 222223333 4455
Q ss_pred HHHHhhccCCcccCCCCCCChHHHHHHHHHHHHHHHH--HhHHhhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHH
Q 000740 777 HEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQ--LKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKR 852 (1321)
Q Consensus 777 ~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~--L~~fv~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~ 852 (1321)
.+|.+.+. .+... .| ..+-.. ..+..++|.. .+-.-...++.++|++.|.++|+.
T Consensus 246 ~~f~~a~~----~gGv~--------am----E~vA~dlKa~G~yiaR~L-----Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 246 DDFLEAME----KGGVG--------AM----EMVAMDLKARGMYIARQL-----SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HHHHHHHH----hcCch--------HH----HHHHHHHHhcchheeeec-----ccCCceEEEEEecCCHHHHHHhcC
Confidence 55555443 22211 00 001111 1223333333 244556778899999999999975
No 121
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.87 E-value=6.2e-08 Score=111.88 Aligned_cols=123 Identities=22% Similarity=0.313 Sum_probs=99.7
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
-.|+.++.-+|+.-. ...|.|||.+.++.--.|.-+|.. .|++.+.+.|.++...|.-+|++||.
T Consensus 252 ~DKflllyallKL~L-I~gKsliFVNtIdr~YrLkLfLeq------------FGiksciLNseLP~NSR~Hii~QFNk-- 316 (569)
T KOG0346|consen 252 EDKFLLLYALLKLRL-IRGKSLIFVNTIDRCYRLKLFLEQ------------FGIKSCILNSELPANSRCHIIEQFNK-- 316 (569)
T ss_pred chhHHHHHHHHHHHH-hcCceEEEEechhhhHHHHHHHHH------------hCcHhhhhcccccccchhhHHHHhhC--
Confidence 357777777776322 247999999999999999999986 69999999999999999999999997
Q ss_pred CCCceEEEeecc--------------------------c---------cccccCcccCCEEEEEeCCCCcchhhhhhhhh
Q 000740 1039 NKRVKCTLISTR--------------------------A---------GSLGINLHSANRVIIVDGSWNPTYDLQAIYRA 1083 (1321)
Q Consensus 1039 n~~v~VfLISTk--------------------------A---------Gg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa 1083 (1321)
+-+. +||.|+ + .+.||+++..+.||+||.|-++..+++|+||.
T Consensus 317 -G~Yd-ivIAtD~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRT 394 (569)
T KOG0346|consen 317 -GLYD-IVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRT 394 (569)
T ss_pred -ccee-EEEEccCccchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhcccc
Confidence 3444 455554 1 24799999999999999999999999999999
Q ss_pred hccCCCCcEEEEEEEeC
Q 000740 1084 WRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1084 ~RiGQkK~V~VYRLva~ 1100 (1321)
.|-|.+-.+. -|+..
T Consensus 395 aRg~n~Gtal--Sfv~P 409 (569)
T KOG0346|consen 395 ARGNNKGTAL--SFVSP 409 (569)
T ss_pred ccCCCCCceE--EEecc
Confidence 9988665543 44544
No 122
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.87 E-value=1.5e-07 Score=121.53 Aligned_cols=136 Identities=15% Similarity=0.152 Sum_probs=102.8
Q ss_pred HHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCC-CCCCceEEEe
Q 000740 969 LTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP-LNKRVKCTLI 1047 (1321)
Q Consensus 969 L~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~-~n~~v~VfLI 1047 (1321)
+......|.||+|-++.+..+..+...|+.. +.+++.+++......|.+.++...+- .... ..++|
T Consensus 433 ~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~------------~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~-~~IvV 499 (733)
T COG1203 433 ISEEVKEGKKVLVIVNTVDRAIELYEKLKEK------------GPKVLLLHSRFTLKDREEKERELKKLFKQNE-GFIVV 499 (733)
T ss_pred chhhhccCCcEEEEEecHHHHHHHHHHHHhc------------CCCEEEEecccchhhHHHHHHHHHHHHhccC-CeEEE
Confidence 3344566899999999999999999999862 33699999999999999998865431 0111 24799
Q ss_pred eccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccC--CCCcEEEEEEEeCCChHHHHHHHHHHHHHHHHH
Q 000740 1048 STRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG--QTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAAR 1120 (1321)
Q Consensus 1048 STkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiG--QkK~V~VYRLva~gTIEEkI~~rq~~K~~La~~ 1120 (1321)
+|.+...|+|+. .+.+|- |+. -....+||.||++|.| ....++||...-.+....+.++....+......
T Consensus 500 aTQVIEagvDid-fd~mIT-e~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~ 571 (733)
T COG1203 500 ATQVIEAGVDID-FDVLIT-ELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSLEE 571 (733)
T ss_pred EeeEEEEEeccc-cCeeee-cCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhhccccc
Confidence 999999999998 455543 331 2345789999999999 667788888888888888888777766544333
No 123
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.86 E-value=2.1e-07 Score=123.04 Aligned_cols=111 Identities=16% Similarity=0.123 Sum_probs=85.8
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
...++|||......++.+.+.|.... .....++-++|+++.++|.++++.+ +.. -+|++|.+++.
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~Vf~~~-----g~r-kIIVATNIAEt 349 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLN---------LRHTEILPLYARLSNSEQNRVFQSH-----SGR-RIVLATNVAET 349 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcC---------CCcceEeecccCCCHHHHHHHhccc-----CCe-eEEEeccHHhh
Confidence 35689999999999999999998621 1234467899999999999886642 223 37999999999
Q ss_pred ccCcccCCEEEEEe---------------CCCCc---chhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1055 GINLHSANRVIIVD---------------GSWNP---TYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1055 GLNLt~An~VIi~D---------------~~WNP---~~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
||++.+.++||.++ .+-.| +...||.||++|. .+-..|+|+++...
T Consensus 350 SITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~ 413 (1294)
T PRK11131 350 SLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDF 413 (1294)
T ss_pred ccccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHH
Confidence 99999999999874 22233 5678888888887 46778899986543
No 124
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.84 E-value=3e-06 Score=105.70 Aligned_cols=119 Identities=16% Similarity=0.191 Sum_probs=95.7
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++++-+....+.|..|||.+.++..-+.|..+|.+ .|++...+...... +-..+|.+=-
T Consensus 410 ~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~------------~gI~h~vLNAk~~~-~EA~IIa~AG--- 473 (764)
T PRK12326 410 AEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRA------------AGVPAVVLNAKNDA-EEARIIAEAG--- 473 (764)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHh------------CCCcceeeccCchH-hHHHHHHhcC---
Confidence 4689999999988889999999999999999999999997 68888888876442 2344454422
Q ss_pred CCCceEEEeeccccccccCcc---------------cCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1039 NKRVKCTLISTRAGSLGINLH---------------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt---------------~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
...-+-|+|..+|.|.++. +.=+||.-..+-|-..+.|..||++|.|..-....|
T Consensus 474 --~~gaVTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f~ 543 (764)
T PRK12326 474 --KYGAVTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVFF 543 (764)
T ss_pred --CCCcEEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeEE
Confidence 2223689999999998865 345899999999999999999999999988555444
No 125
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.80 E-value=1.6e-06 Score=110.57 Aligned_cols=118 Identities=13% Similarity=0.162 Sum_probs=94.2
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHH-HHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-KLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~-~lI~~Fn~~ 1037 (1321)
..|..++++-+......|..|||-+.++..-+.|..+|.. .|+.+..++.... +++ .+|.+=-
T Consensus 551 ~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~------------~gi~h~vLNak~~--~~Ea~iia~AG-- 614 (970)
T PRK12899 551 REKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQ------------NRIEHTVLNAKNH--AQEAEIIAGAG-- 614 (970)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHH------------cCCcceecccchh--hhHHHHHHhcC--
Confidence 4788999998888888999999999999999999999986 6888888887643 333 4444321
Q ss_pred CCCCceEEEeeccccccccCcc--------cCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt--------~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
....+-|+|..+|.|.++. +.=+||.-..+-|...+.|..||++|.|..-....|
T Consensus 615 ---~~g~VTIATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~f~ 677 (970)
T PRK12899 615 ---KLGAVTVATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAKFF 677 (970)
T ss_pred ---CCCcEEEeeccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCceeEE
Confidence 2223689999999998864 345899999999999999999999999988654444
No 126
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.78 E-value=1.4e-07 Score=108.23 Aligned_cols=119 Identities=22% Similarity=0.284 Sum_probs=102.5
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCC
Q 000740 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~ 1040 (1321)
|+..|.++.. .-...+||++...-++.|...|.. .|+....++|.+...+|..+...|+.+
T Consensus 252 k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~------------~~~~~s~~~~d~~q~~R~~~~~ef~~g--- 312 (397)
T KOG0327|consen 252 KLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRA------------HGFTVSAIHGDMEQNERDTLMREFRSG--- 312 (397)
T ss_pred cccHHHHHHH----hhhcceEEecchhhHHHHHHHHhh------------CCceEEEeecccchhhhhHHHHHhhcC---
Confidence 7777777777 235789999999999999999965 689999999999999999999999974
Q ss_pred CceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1041 ~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
..+ +||+|...+.|++++..+-||+||.|-|+.++..++||++|+|-+ -.+..++++.
T Consensus 313 ssr-vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~grk--g~~in~v~~~ 370 (397)
T KOG0327|consen 313 SSR-VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRK--GVAINFVTEE 370 (397)
T ss_pred Cce-EEeeccccccccchhhcceeeeeccccchhhhhhhcccccccCCC--ceeeeeehHh
Confidence 334 599999999999999999999999999999999999999999955 3344555554
No 127
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.76 E-value=2.4e-07 Score=106.77 Aligned_cols=124 Identities=20% Similarity=0.200 Sum_probs=106.0
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..+|+.++..... .+..+||......+.++...|.. .|+....+.|++....|..-+.+|+...
T Consensus 245 a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~------------~g~~~s~iysslD~~aRk~~~~~F~~~k 311 (529)
T KOG0337|consen 245 AEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRD------------FGGEGSDIYSSLDQEARKINGRDFRGRK 311 (529)
T ss_pred HHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHh------------cCCCccccccccChHhhhhccccccCCc
Confidence 4578888888876654 56899999999999999999986 6888888999999999999999999743
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
. -+|++|+++..|++.+.-+.||.||.+-.+.....++||+.|-|.+ -..|-||+..
T Consensus 312 ~----~~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt--g~aYs~V~~~ 368 (529)
T KOG0337|consen 312 T----SILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT--GRAYSLVAST 368 (529)
T ss_pred c----ceEEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc--ceEEEEEecc
Confidence 3 2799999999999999999999999999999999999999998855 3456666543
No 128
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.75 E-value=2.9e-07 Score=119.07 Aligned_cols=109 Identities=16% Similarity=0.106 Sum_probs=97.1
Q ss_pred cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccc
Q 000740 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGS 1053 (1321)
Q Consensus 974 ~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg 1053 (1321)
..+.-.||||.+..+.+.+...|.. .|+....++.+++..+|+.+-.+|..+ .++ +++.|=|-|
T Consensus 483 ~~~~s~IIYC~sr~~ce~vs~~L~~------------~~~~a~~YHAGl~~~~R~~Vq~~w~~~---~~~-VivATVAFG 546 (941)
T KOG0351|consen 483 HPDQSGIIYCLSRKECEQVSAVLRS------------LGKSAAFYHAGLPPKERETVQKAWMSD---KIR-VIVATVAFG 546 (941)
T ss_pred CCCCCeEEEeCCcchHHHHHHHHHH------------hchhhHhhhcCCCHHHHHHHHHHHhcC---CCe-EEEEEeecc
Confidence 3467899999999999999999997 578889999999999999999999973 455 577788999
Q ss_pred cccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEE
Q 000740 1054 LGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLM 1098 (1321)
Q Consensus 1054 ~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLv 1098 (1321)
.|||-....-||+|..|-+---+-|-.||++|-|+...|..|+=.
T Consensus 547 MGIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~ 591 (941)
T KOG0351|consen 547 MGIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGY 591 (941)
T ss_pred CCCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecch
Confidence 999999999999999999999999999999999999887776533
No 129
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.71 E-value=8.2e-06 Score=97.03 Aligned_cols=138 Identities=19% Similarity=0.191 Sum_probs=111.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
.+-+.-|+.-++...+.++|+||-+=...|+.-|.+||.. .|+++.+++.....-+|.++|...+.
T Consensus 429 ~~QvdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e------------~gikv~YlHSdidTlER~eIirdLR~-- 494 (663)
T COG0556 429 KGQVDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRL-- 494 (663)
T ss_pred CCcHHHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHh------------cCceEEeeeccchHHHHHHHHHHHhc--
Confidence 3456666666666677899999999999999999999997 69999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCC-----CcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHH
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-----NPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVT 1113 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-----NP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~ 1113 (1321)
+.+. +|+.....-+||+|+.+.-|-|+|.+- +-...+|-|||+-|--.- .|..|-=...++|.+-|-+...+
T Consensus 495 -G~~D-vLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~G-kvIlYAD~iT~sM~~Ai~ET~RR 571 (663)
T COG0556 495 -GEFD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNG-KVILYADKITDSMQKAIDETERR 571 (663)
T ss_pred -CCcc-EEEeehhhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCC-eEEEEchhhhHHHHHHHHHHHHH
Confidence 4443 588899999999999999999999974 778899999999994332 34444444455677766655443
No 130
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.64 E-value=6.2e-06 Score=105.24 Aligned_cols=119 Identities=20% Similarity=0.239 Sum_probs=94.3
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++++-+..+.+.|..|||-+.++..-+.|..+|.. .|+++-.+..... .+-..+|.+ .
T Consensus 432 ~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~------------~gi~h~VLNAk~~-~~EA~IIa~--A-- 494 (913)
T PRK13103 432 EEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKK------------EGIEHKVLNAKYH-EKEAEIIAQ--A-- 494 (913)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHH------------cCCcHHHhccccc-hhHHHHHHc--C--
Confidence 5799999999999999999999999999999999999997 5777777766543 222334442 2
Q ss_pred CCCceEEEeeccccccccCcc-------------------------------------cCCEEEEEeCCCCcchhhhhhh
Q 000740 1039 NKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAIY 1081 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt-------------------------------------~An~VIi~D~~WNP~~d~QAiG 1081 (1321)
+....+-|+|..+|.|.++. +.=+||.-..+=|--.|.|..|
T Consensus 495 -G~~GaVTIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrG 573 (913)
T PRK13103 495 -GRPGALTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRG 573 (913)
T ss_pred -CCCCcEEEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhcc
Confidence 22223689999999998874 3458999999999999999999
Q ss_pred hhhccCCCCcEEEE
Q 000740 1082 RAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1082 Ra~RiGQkK~V~VY 1095 (1321)
|++|.|..-....|
T Consensus 574 RaGRQGDPGsS~f~ 587 (913)
T PRK13103 574 RAGRQGDPGSSRFY 587 (913)
T ss_pred ccccCCCCCceEEE
Confidence 99999988555444
No 131
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.62 E-value=7.1e-08 Score=109.39 Aligned_cols=130 Identities=24% Similarity=0.311 Sum_probs=109.4
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
-+|+..|++.|++ ..-+||||+.-..-+|-|.+||-- +|+..+.|+|+-.+++|...|+.|+.+.
T Consensus 407 EaKiVylLeCLQK---T~PpVLIFaEkK~DVD~IhEYLLl------------KGVEavaIHGGKDQedR~~ai~afr~gk 471 (610)
T KOG0341|consen 407 EAKIVYLLECLQK---TSPPVLIFAEKKADVDDIHEYLLL------------KGVEAVAIHGGKDQEDRHYAIEAFRAGK 471 (610)
T ss_pred hhhhhhHHHHhcc---CCCceEEEeccccChHHHHHHHHH------------ccceeEEeecCcchhHHHHHHHHHhcCC
Confidence 5789888888863 457999999999999999999974 7999999999999999999999999743
Q ss_pred CCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHH
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1109 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~ 1109 (1321)
. -+|+.|++++-||++++..|||+||.|-.--++..+|||.+|-|.+- ....|+-+++-|.-+.+
T Consensus 472 K----DVLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~G--iATTfINK~~~esvLlD 536 (610)
T KOG0341|consen 472 K----DVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTG--IATTFINKNQEESVLLD 536 (610)
T ss_pred C----ceEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcc--eeeeeecccchHHHHHH
Confidence 2 26999999999999999999999999998889999999999988663 23345666665555443
No 132
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.48 E-value=1.3e-05 Score=105.68 Aligned_cols=93 Identities=20% Similarity=0.261 Sum_probs=61.8
Q ss_pred HHHHHHHHh-hcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCc
Q 000740 964 LLLDILTMC-SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRV 1042 (1321)
Q Consensus 964 ~L~eiL~~~-~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v 1042 (1321)
.+.+.|..+ ...+.++|||..+..+++.+...|..... ..++..+. .|. . ..|.+++++|....+
T Consensus 661 ~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~--------~~~~~~l~-q~~-~-~~r~~ll~~F~~~~~--- 726 (850)
T TIGR01407 661 EIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPE--------FEGYEVLA-QGI-N-GSRAKIKKRFNNGEK--- 726 (850)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc--------ccCceEEe-cCC-C-ccHHHHHHHHHhCCC---
Confidence 344444433 23456899999999999999999874110 12333222 222 2 478999999987432
Q ss_pred eEEEeeccccccccCcccCC--EEEEEeCCC
Q 000740 1043 KCTLISTRAGSLGINLHSAN--RVIIVDGSW 1071 (1321)
Q Consensus 1043 ~VfLISTkAGg~GLNLt~An--~VIi~D~~W 1071 (1321)
-+|++|....+||++.+-. .|||.-.|+
T Consensus 727 -~iLlgt~sf~EGVD~~g~~l~~viI~~LPf 756 (850)
T TIGR01407 727 -AILLGTSSFWEGVDFPGNGLVCLVIPRLPF 756 (850)
T ss_pred -eEEEEcceeecccccCCCceEEEEEeCCCC
Confidence 2677889999999999654 667776665
No 133
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.45 E-value=1.3e-05 Score=101.58 Aligned_cols=119 Identities=13% Similarity=0.100 Sum_probs=95.3
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
..|..++++-+..+...|..|||.+.++..-+.|..+|.+ .|+..-.++.... +++..|=. +.
T Consensus 409 ~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~------------~gi~h~vLNAk~~--e~EA~IIa-~A-- 471 (925)
T PRK12903 409 HAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLE------------ANIPHTVLNAKQN--AREAEIIA-KA-- 471 (925)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCceeecccch--hhHHHHHH-hC--
Confidence 5789999999998888999999999999999999999996 6888888887644 34433322 22
Q ss_pred CCCceEEEeeccccccccCcccC--------CEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSA--------NRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~A--------n~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
+...-+.|+|..+|.|.++.-. =+||..+.+=|-..+.|..||++|.|..-....|
T Consensus 472 -G~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f~ 535 (925)
T PRK12903 472 -GQKGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRFF 535 (925)
T ss_pred -CCCCeEEEecccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcceEE
Confidence 2223468999999999887633 3999999999999999999999999988555444
No 134
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.43 E-value=1.6e-05 Score=91.78 Aligned_cols=103 Identities=17% Similarity=0.155 Sum_probs=91.3
Q ss_pred eEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccC
Q 000740 978 KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGIN 1057 (1321)
Q Consensus 978 KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLN 1057 (1321)
=-||||......+.+.-.|.. .|+....++.+....+|..+-+.|.++ .+. +++.|-.-|.|++
T Consensus 257 CGIVYCRTR~~cEq~AI~l~~------------~Gi~A~AYHAGLK~~ERTeVQe~WM~~---~~P-vI~AT~SFGMGVD 320 (641)
T KOG0352|consen 257 CGIVYCRTRNECEQVAIMLEI------------AGIPAMAYHAGLKKKERTEVQEKWMNN---EIP-VIAATVSFGMGVD 320 (641)
T ss_pred ceEEEeccHHHHHHHHHHhhh------------cCcchHHHhcccccchhHHHHHHHhcC---CCC-EEEEEeccccccC
Confidence 358999999988888888875 789999999999999999999999974 343 5778889999999
Q ss_pred cccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEE
Q 000740 1058 LHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYR 1096 (1321)
Q Consensus 1058 Lt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYR 1096 (1321)
=....-||+.+++-|-+-+-|--||++|-|-..-|..|+
T Consensus 321 Kp~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYY 359 (641)
T KOG0352|consen 321 KPDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYY 359 (641)
T ss_pred CcceeEEEecCchhhhHHHHHhccccccCCCccceeeee
Confidence 999999999999999999999999999999888888875
No 135
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.41 E-value=1.1e-05 Score=102.98 Aligned_cols=161 Identities=15% Similarity=0.218 Sum_probs=94.4
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcc-------cCCCceEEEcc-hhHHHHHHHHHHHHCCCCCCCeEEEEecCcc
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN-------LGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVS 665 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~-------~~~k~vLIV~P-~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~ 665 (1321)
..+.+|+..+|.|||-.|+.-+..-+..+. .+.-++.-|+| ..|+..|...|.+|+.. ..+.|....+..
T Consensus 325 ~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~--~GI~V~ElTgD~ 402 (1674)
T KOG0951|consen 325 DENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAP--LGITVLELTGDS 402 (1674)
T ss_pred cCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccc--cCcEEEEecccc
Confidence 357899999999999887665554443321 11235666778 56899999999999854 124454444443
Q ss_pred hhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc---CCcc--hhHHHHHhh
Q 000740 666 RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI---KNTR--ADTTQALKQ 740 (1321)
Q Consensus 666 ~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~I---KN~~--S~~skal~~ 740 (1321)
...+.++ ....|+++|.+-+--+..... ++.+.+ -+.++|+||.|.+ |++. |-..+..++
T Consensus 403 ~l~~~qi-----eeTqVIV~TPEK~DiITRk~g--draY~q--------lvrLlIIDEIHLLhDdRGpvLESIVaRt~r~ 467 (1674)
T KOG0951|consen 403 QLGKEQI-----EETQVIVTTPEKWDIITRKSG--DRAYEQ--------LVRLLIIDEIHLLHDDRGPVLESIVARTFRR 467 (1674)
T ss_pred cchhhhh-----hcceeEEeccchhhhhhcccC--chhHHH--------HHHHHhhhhhhhcccccchHHHHHHHHHHHH
Confidence 2222222 345788888877643322111 111111 2457899999999 4442 333444444
Q ss_pred c----ccceEEEEecCCCCCchhhHHhhhhhhccCCC
Q 000740 741 V----KCQRRIALTGSPLQNNLMEYYCMVDFVREGFL 773 (1321)
Q Consensus 741 L----ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~l 773 (1321)
. ...+.++||||- -|.+|.-+.+..-.+++|
T Consensus 468 ses~~e~~RlVGLSATL--PNy~DV~~Fl~v~~~glf 502 (1674)
T KOG0951|consen 468 SESTEEGSRLVGLSATL--PNYEDVASFLRVDPEGLF 502 (1674)
T ss_pred hhhcccCceeeeecccC--CchhhhHHHhccCccccc
Confidence 4 356779999994 245555553332224444
No 136
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.38 E-value=3.7e-06 Score=108.34 Aligned_cols=75 Identities=23% Similarity=0.301 Sum_probs=54.1
Q ss_pred eeccccccccCccc----------------------C----------CEEEEEeCCCCcchhhhhhhhhhccCCCCcEEE
Q 000740 1047 ISTRAGSLGINLHS----------------------A----------NRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1094 (1321)
Q Consensus 1047 ISTkAGg~GLNLt~----------------------A----------n~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~V 1094 (1321)
++|..+.+|++... + +.||+|||.-.....+|. .|++|.|. ++.|
T Consensus 431 ~~~~~~~e~~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~L~e~~P~~VImYEP~~sfIR~IEv-yra~r~~r--~~rV 507 (814)
T TIGR00596 431 FEIIDEENDIDIYSGAEFDNLPQHITHFLWGERDEYVLRCSLEELMPRYVIMYEPDISFIRQLEV-YKASRPLR--PLRV 507 (814)
T ss_pred ccccccccccccchhhccccccceeeeecccccchhhHHHHHhhhCCCEEEEECCChHHHHHHHH-HHccCCCC--CcEE
Confidence 45667778888876 4 899999996666555552 34444443 5899
Q ss_pred EEEEeCCChHHHHHHHHHHHHHHH-HHHhcc
Q 000740 1095 YRLMAHGTMEEKIYKRQVTKEGLA-ARVVDR 1124 (1321)
Q Consensus 1095 YRLva~gTIEEkI~~rq~~K~~La-~~Vvd~ 1124 (1321)
|-|++.+|.||.-|-...+|.+-+ ..++..
T Consensus 508 yfL~y~~S~EEq~yl~sirrEK~AFe~LIre 538 (814)
T TIGR00596 508 YFLYYGGSIEEQRYLTSLRREKDAFTKLIRE 538 (814)
T ss_pred EEEEECCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999887777776544 445544
No 137
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.37 E-value=3.2e-06 Score=111.61 Aligned_cols=171 Identities=21% Similarity=0.221 Sum_probs=101.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQE 644 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E 644 (1321)
.|++|.....+.....+.++........+.||++.|..|.|||++++-+...+... ....+++||+=.. |-.|-.++
T Consensus 245 ~k~~~~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~--~~~~~v~fvvDR~dLd~Q~~~~ 322 (962)
T COG0610 245 KKKYQRYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLEL--PKNPKVLFVVDRKDLDDQTSDE 322 (962)
T ss_pred chhHHHHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHHhc--cCCCeEEEEechHHHHHHHHHH
Confidence 34444444433333222333223333567899999999999999998877776665 3345677777654 77799999
Q ss_pred HHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000740 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1321)
Q Consensus 645 ~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEA 724 (1321)
|..+..... ... ...+...-...+.. ..++|++||.+-|....... ....+....-+||+|||
T Consensus 323 f~~~~~~~~---~~~--~~~s~~~Lk~~l~~--~~~~ii~TTIQKf~~~~~~~----------~~~~~~~~~ivvI~DEa 385 (962)
T COG0610 323 FQSFGKVAF---NDP--KAESTSELKELLED--GKGKIIVTTIQKFNKAVKED----------ELELLKRKNVVVIIDEA 385 (962)
T ss_pred HHHHHHhhh---hcc--cccCHHHHHHHHhc--CCCcEEEEEecccchhhhcc----------cccccCCCcEEEEEech
Confidence 998865421 111 12222222222222 25699999999886532111 01113335667999999
Q ss_pred cccCCcchhHHHHHhh-cccceEEEEecCCCCCc
Q 000740 725 HMIKNTRADTTQALKQ-VKCQRRIALTGSPLQNN 757 (1321)
Q Consensus 725 H~IKN~~S~~skal~~-Lka~~RllLTGTPlqNn 757 (1321)
|+--. ....+.++. ++.-.-++.||||+.-.
T Consensus 386 HRSQ~--G~~~~~~~~~~~~a~~~gFTGTPi~~~ 417 (962)
T COG0610 386 HRSQY--GELAKLLKKALKKAIFIGFTGTPIFKE 417 (962)
T ss_pred hhccc--cHHHHHHHHHhccceEEEeeCCccccc
Confidence 97533 223333333 35577799999998643
No 138
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.14 E-value=2.7e-05 Score=100.60 Aligned_cols=185 Identities=18% Similarity=0.268 Sum_probs=113.4
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH-HHHH---------HHHHCCCCCCCeEEEEecCc
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN-WKQE---------FMKWRPSELKPLRVFMLEDV 664 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q-W~~E---------~~kw~p~~~~~l~V~~~~~~ 664 (1321)
.+..+..++|.|||.+++..|..+.... +...+|||||..-+.. ..+- |...++. .++.++++++.
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~--~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~--~~~~~~~~~S~ 135 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKY--GLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYEN--TRIELYVINAG 135 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHc--CCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCC--ceeEEEEEecC
Confidence 5788999999999999999998887664 4579999999864432 2222 2222322 24777777754
Q ss_pred c--hhHH---HHHHHHHhh-------cCCEEEEcccccccccccccccchhh---HHHHHhhhcCCCCEEEEcCCcccCC
Q 000740 665 S--RDRR---AELLAKWRA-------KGGVFLIGYTAFRNLSFGKHVKDRNM---AREICHALQDGPDILVCDEAHMIKN 729 (1321)
Q Consensus 665 ~--~~~r---~~~l~~~~~-------~~~VvI~tY~~~r~l~~~~~~kd~~~---~~~i~~ll~~~~dlVIlDEAH~IKN 729 (1321)
. +..| ...+..+.. .-.|+|++.++|..-.......+..+ .......+...--+||+||+|++..
T Consensus 136 k~~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~ 215 (986)
T PRK15483 136 DKKKSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR 215 (986)
T ss_pred cccccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc
Confidence 3 1111 122333332 23688999999864211011101100 0011123334456899999999965
Q ss_pred cchhHHHHHhhcccceEEEEecCCCC-------Cc--hhhHHhhhhhhccCCCCChHHHHhhccCCccc
Q 000740 730 TRADTTQALKQVKCQRRIALTGSPLQ-------NN--LMEYYCMVDFVREGFLGSSHEFRNRFQNPIEN 789 (1321)
Q Consensus 730 ~~S~~skal~~Lka~~RllLTGTPlq-------Nn--l~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~~ 789 (1321)
..+.+.++..++....+.-|||--. |. -.++|+|+-- |+..+.|.+..++-|.-
T Consensus 216 -~~k~~~~i~~lnpl~~lrysAT~~~~~~~~g~~~~~~~d~~NlvY~-----LdavdAyn~~LVK~I~V 278 (986)
T PRK15483 216 -DNKFYQAIEALKPQMIIRFGATFPDITEGKGKNKCTRKDYYNLQFD-----LNAVDSFNDGLVKGVDI 278 (986)
T ss_pred -chHHHHHHHhcCcccEEEEeeecCCccccccccccccccccCceee-----cCHHHHHHhCCcceEEE
Confidence 2446788999999999999999743 11 2246666653 44577888888776653
No 139
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.14 E-value=0.00019 Score=81.65 Aligned_cols=107 Identities=15% Similarity=0.109 Sum_probs=87.5
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
|..-||||-+..--..+...|+. .|+....++..+.+.+|..+-..|-. +.+.| ++.|-|.|.|
T Consensus 317 gqsgiiyc~sq~d~ekva~alkn------------~gi~a~~yha~lep~dks~~hq~w~a---~eiqv-ivatvafgmg 380 (695)
T KOG0353|consen 317 GQSGIIYCFSQKDCEKVAKALKN------------HGIHAGAYHANLEPEDKSGAHQGWIA---GEIQV-IVATVAFGMG 380 (695)
T ss_pred CCcceEEEeccccHHHHHHHHHh------------cCccccccccccCccccccccccccc---cceEE-EEEEeeeccc
Confidence 66778888888888888888886 57877788888888888777777764 56664 6677899999
Q ss_pred cCcccCCEEEEEeCCCCcchhhh-------------------------------------------hhhhhhccCCCCcE
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQ-------------------------------------------AIYRAWRYGQTKPV 1092 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~Q-------------------------------------------AiGRa~RiGQkK~V 1092 (1321)
|+-+...-||+-..+-+-..+-| --||++|-||+-.|
T Consensus 381 idkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~c 460 (695)
T KOG0353|consen 381 IDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADC 460 (695)
T ss_pred CCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccE
Confidence 99999999999999988888888 45889999999888
Q ss_pred EEEEEE
Q 000740 1093 FAYRLM 1098 (1321)
Q Consensus 1093 ~VYRLv 1098 (1321)
..|+=+
T Consensus 461 ilyy~~ 466 (695)
T KOG0353|consen 461 ILYYGF 466 (695)
T ss_pred EEEech
Confidence 776543
No 140
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.09 E-value=4.2e-05 Score=93.74 Aligned_cols=265 Identities=21% Similarity=0.268 Sum_probs=154.5
Q ss_pred cccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc-
Q 000740 556 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP- 634 (1321)
Q Consensus 556 v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P- 634 (1321)
+-+|..-...|-.-|+++|-|.....-. ........|.+|+|.-|.||-.++..+|...+.. +.++.|.+.-
T Consensus 255 lalP~i~sg~lSALQLEav~YAcQ~He~----llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLk---GRKrAlW~SVS 327 (1300)
T KOG1513|consen 255 LALPSIDSGHLSALQLEAVTYACQAHEV----LLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLK---GRKRALWFSVS 327 (1300)
T ss_pred EecccCcccchhHHHHHHHHHHHhhhhh----cCCCCccceeeeccCcccCCCceeEEEEehhhhc---ccceeEEEEec
Confidence 3456655678889999999987654322 2222455789999999999988777766554433 3456666654
Q ss_pred hhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcC
Q 000740 635 VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1321)
Q Consensus 635 ~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~ 714 (1321)
.-|-..-.+.+...... .+.|+.+...+-.+.... ..-..+.+|++.||..+-.-+.++.-+-+...+.+..++..
T Consensus 328 sDLKfDAERDL~DigA~---~I~V~alnK~KYakIss~-en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge 403 (1300)
T KOG1513|consen 328 SDLKFDAERDLRDIGAT---GIAVHALNKFKYAKISSK-ENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGE 403 (1300)
T ss_pred cccccchhhchhhcCCC---Cccceehhhccccccccc-ccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhh
Confidence 44666666666554332 255555443221100000 00113458999999998665555555555556666667766
Q ss_pred CC-CEEEEcCCcccCC-------cchhHHHHHhhc----ccceEEEEecCCCCCchhhHHhhhhhhccCCCCCh------
Q 000740 715 GP-DILVCDEAHMIKN-------TRADTTQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS------ 776 (1321)
Q Consensus 715 ~~-dlVIlDEAH~IKN-------~~S~~skal~~L----ka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~------ 776 (1321)
.| .+||+||+|+.|| ..+++-+++..| ...+++-.|||-- .|=-+|..+++-++||..
T Consensus 404 ~feGvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGA----sEPrNMaYM~RLGlWGegtaf~eF 479 (1300)
T KOG1513|consen 404 DFEGVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGA----SEPRNMAYMVRLGLWGEGTAFPEF 479 (1300)
T ss_pred ccceeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCC----CCcchhhhhhhhccccCCCcCccH
Confidence 66 5789999999999 335555655444 6677888888853 344556666666666544
Q ss_pred HHHHhhccCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHH-hhhhhhhhhhhcCCCceEEEEEecCCHHHHHHHHHHHH
Q 000740 777 HEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGF-VQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLD 855 (1321)
Q Consensus 777 ~eF~~~f~~pI~~g~~~~st~~dv~~~~~r~~~L~~~L~~f-v~Rr~k~~v~~~LP~K~e~vv~v~LS~~Q~~lY~~~l~ 855 (1321)
.+|.+...+ .|.. +...-.-.| .++++ +.|.. .+-.-...+-.|+|+++-+++|+....
T Consensus 480 ~eFi~AvEk---RGvG--AMEIVAMDM---------K~rGmYiARQL------SFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 480 EEFIHAVEK---RGVG--AMEIVAMDM---------KLRGMYIARQL------SFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred HHHHHHHHh---cCCc--eeeeeehhh---------hhhhhhhhhhc------cccCceEEEEecccCHHHHHHHHHHHH
Confidence 333333221 1111 111100111 12222 22211 233344567789999999999987654
No 141
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.04 E-value=0.0007 Score=86.27 Aligned_cols=110 Identities=24% Similarity=0.270 Sum_probs=80.3
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHH--HHHHHHHHhCCCCCCceEEEeeccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSE--RQKLVERFNEPLNKRVKCTLISTRAGS 1053 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~e--R~~lI~~Fn~~~n~~v~VfLISTkAGg 1053 (1321)
|...|++.- .-...|++.|..++ .+..++|+|+.++... -..+++.|.++ ... +||.|....
T Consensus 482 gs~~L~~~G--~GterieeeL~~~F----------P~~rv~r~d~Dtt~~k~~~~~~l~~~~~g---e~d-ILiGTQmia 545 (730)
T COG1198 482 GSEHLRAVG--PGTERIEEELKRLF----------PGARIIRIDSDTTRRKGALEDLLDQFANG---EAD-ILIGTQMIA 545 (730)
T ss_pred CCCeeEEec--ccHHHHHHHHHHHC----------CCCcEEEEccccccchhhHHHHHHHHhCC---CCC-eeecchhhh
Confidence 344555543 23467777777753 5789999999987533 45789999974 332 799999999
Q ss_pred cccCcccCCEEEEEeCCC---Cc---------chhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1054 LGINLHSANRVIIVDGSW---NP---------TYDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1054 ~GLNLt~An~VIi~D~~W---NP---------~~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
-|.|+....-|.++|.+= +| ....|.-||++|-+-.-.|.|=.+..+.
T Consensus 546 KG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~h 605 (730)
T COG1198 546 KGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDH 605 (730)
T ss_pred cCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCc
Confidence 999999999999888752 22 3457999999998777677765555444
No 142
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.02 E-value=0.00052 Score=89.09 Aligned_cols=72 Identities=21% Similarity=0.303 Sum_probs=53.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 643 (1321)
.+||.|++-+..+++.+ ..+..++|-..+|+|||+.+|+.......... ...+++..+.++ -+.|-.+
T Consensus 10 ~~y~~Q~~~m~~v~~~l----------~~~~~~llEsPTGtGKTlslL~~aL~~~~~~~-~~~kIiy~sRThsQl~q~i~ 78 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSL----------DRGDEAILEMPSGTGKTISLLSLILAYQQEKP-EVRKIIYASRTHSQLEQATE 78 (705)
T ss_pred CCCHHHHHHHHHHHHHh----------ccCCceEEeCCCCCCccHHHHHHHHHHHHhcc-ccccEEEEcccchHHHHHHH
Confidence 46899999998887765 35678999999999999988887766554322 123566666654 5778999
Q ss_pred HHHH
Q 000740 644 EFMK 647 (1321)
Q Consensus 644 E~~k 647 (1321)
|+++
T Consensus 79 Elk~ 82 (705)
T TIGR00604 79 ELRK 82 (705)
T ss_pred HHHh
Confidence 9988
No 143
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.00 E-value=0.00065 Score=86.97 Aligned_cols=84 Identities=17% Similarity=0.166 Sum_probs=64.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCC-HHHHHHHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE-SSERQKLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts-~~eR~~lI~~Fn~~ 1037 (1321)
..|..++++-+....+.|..|||-+.++..-+.|..+|.. .|+++..+..... ...-..+|.+=
T Consensus 407 ~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~------------~gi~h~vLNAk~~~~~~EA~IIA~A--- 471 (870)
T CHL00122 407 LSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKE------------YRLPHQLLNAKPENVRRESEIVAQA--- 471 (870)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHH------------cCCccceeeCCCccchhHHHHHHhc---
Confidence 4588888888888888999999999999999999999986 6888888888642 23334455542
Q ss_pred CCCCceEEEeeccccccccCcc
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH 1059 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt 1059 (1321)
+...-+-|+|..+|.|.++.
T Consensus 472 --G~~G~VTIATNMAGRGTDI~ 491 (870)
T CHL00122 472 --GRKGSITIATNMAGRGTDII 491 (870)
T ss_pred --CCCCcEEEeccccCCCcCee
Confidence 22223688999999996643
No 144
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.00 E-value=0.00096 Score=86.23 Aligned_cols=118 Identities=19% Similarity=0.188 Sum_probs=94.3
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHH-HHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-KLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~-~lI~~Fn~~ 1037 (1321)
..|..++++-+..+...|..|||-+.++..-.+|..+|.. .|+++-.|+.... +++ .+|.+=-.
T Consensus 611 ~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~------------~gI~H~VLNAK~h--~~EAeIVA~AG~- 675 (1112)
T PRK12901 611 REKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKM------------RKIPHNVLNAKLH--QKEAEIVAEAGQ- 675 (1112)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHH------------cCCcHHHhhccch--hhHHHHHHhcCC-
Confidence 4689999999999999999999999999999999999996 6788777776544 333 34433211
Q ss_pred CCCCceEEEeeccccccccCcc--------cCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEE
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt--------~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VY 1095 (1321)
.+ .+-|+|..+|.|.++. +.=+||.-..+-+...+.|..||++|.|..-....|
T Consensus 676 -~G---aVTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~f~ 737 (1112)
T PRK12901 676 -PG---TVTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQFY 737 (1112)
T ss_pred -CC---cEEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcceEE
Confidence 22 3688999999998866 557999999999999999999999999987554433
No 145
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.99 E-value=1.9e-06 Score=104.23 Aligned_cols=49 Identities=22% Similarity=0.651 Sum_probs=44.1
Q ss_pred ccccccCCCCce---eccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 377 CYCVWCGRSSDL---VSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 377 ~~C~~C~~gg~l---~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.||.-|+..|.. +|||+||++||+.||+|++.+..+ +.|.|+|..|..+
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eni----P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENI----PPGSWFCPECKIK 305 (613)
T ss_pred HHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccC----CCCccccCCCeee
Confidence 499999999988 999999999999999999888844 5789999999766
No 146
>PF13871 Helicase_C_4: Helicase_C-like
Probab=97.92 E-value=2.6e-05 Score=88.63 Aligned_cols=93 Identities=22% Similarity=0.247 Sum_probs=73.1
Q ss_pred HHHHHHhCCCCCCceEEEeeccccccccCcccC-------CEE-EEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1029 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSA-------NRV-IIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1029 ~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~A-------n~V-Ii~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
...+.|++ +...|++|| .|||.||.|++- -|| |+++++|+....+|.+||+||-||..+..+..+++.
T Consensus 52 ~e~~~F~~---g~k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~ 127 (278)
T PF13871_consen 52 AEKQAFMD---GEKDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTD 127 (278)
T ss_pred HHHHHHhC---CCceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecC
Confidence 46779996 455667776 899999999952 355 679999999999999999999999977444445566
Q ss_pred CChHHHHHHHHHHHHHHHHHHhccc
Q 000740 1101 GTMEEKIYKRQVTKEGLAARVVDRQ 1125 (1321)
Q Consensus 1101 gTIEEkI~~rq~~K~~La~~Vvd~~ 1125 (1321)
-..|.+......+|..-..+...++
T Consensus 128 ~~gE~Rfas~va~rL~sLgAlt~gd 152 (278)
T PF13871_consen 128 LPGERRFASTVARRLESLGALTRGD 152 (278)
T ss_pred CHHHHHHHHHHHHHHhhccccccCc
Confidence 6789999999988887766665543
No 147
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.91 E-value=0.00016 Score=79.04 Aligned_cols=45 Identities=24% Similarity=0.281 Sum_probs=42.7
Q ss_pred EeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCC
Q 000740 1046 LISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK 1090 (1321)
Q Consensus 1046 LISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK 1090 (1321)
|++|.+.|.|+++...|.||.||.+-.+..+..+++|++|+|.+-
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 788999999999999999999999999999999999999999763
No 148
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.83 E-value=0.0015 Score=85.26 Aligned_cols=151 Identities=13% Similarity=0.157 Sum_probs=98.8
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHH
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHN 640 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~q 640 (1321)
....|-|+|.+++.-+ ..+.+.+++..+|.|||+.+-.+++..+..+. +++-..|.- |..|
T Consensus 116 ~~F~LD~fQ~~a~~~L--------------er~esVlV~ApTssGKTvVaeyAi~~al~~~q----rviYTsPIKALsNQ 177 (1041)
T COG4581 116 YPFELDPFQQEAIAIL--------------ERGESVLVCAPTSSGKTVVAEYAIALALRDGQ----RVIYTSPIKALSNQ 177 (1041)
T ss_pred CCCCcCHHHHHHHHHH--------------hCCCcEEEEccCCCCcchHHHHHHHHHHHcCC----ceEeccchhhhhhh
Confidence 4577899999999766 46789999999999999999888887776643 588889965 5556
Q ss_pred HHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 641 W~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
=..+|..-+.... -.+-++.|.- .......++++|.+.+|++.+... ........||
T Consensus 178 Kyrdl~~~fgdv~--~~vGL~TGDv---------~IN~~A~clvMTTEILRnMlyrg~------------~~~~~i~~Vi 234 (1041)
T COG4581 178 KYRDLLAKFGDVA--DMVGLMTGDV---------SINPDAPCLVMTTEILRNMLYRGS------------ESLRDIEWVV 234 (1041)
T ss_pred HHHHHHHHhhhhh--hhccceecce---------eeCCCCceEEeeHHHHHHHhccCc------------ccccccceEE
Confidence 5566554333100 0111111211 012456788888899998654331 1112557899
Q ss_pred EcCCcccCCcc-hhHHHHH-hhc-ccceEEEEecCC
Q 000740 721 CDEAHMIKNTR-ADTTQAL-KQV-KCQRRIALTGSP 753 (1321)
Q Consensus 721 lDEAH~IKN~~-S~~skal-~~L-ka~~RllLTGTP 753 (1321)
+||.|.|.... .-.+..+ ..+ +.-+-++||||-
T Consensus 235 FDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv 270 (1041)
T COG4581 235 FDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATV 270 (1041)
T ss_pred EEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC
Confidence 99999997543 2333333 333 444889999994
No 149
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.80 E-value=0.00088 Score=85.73 Aligned_cols=84 Identities=17% Similarity=0.200 Sum_probs=62.4
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCC-CCHHHHHHHHHHHhCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR-TESSERQKLVERFNEP 1037 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGs-ts~~eR~~lI~~Fn~~ 1037 (1321)
..|..++++-+.+..+.|..|||-+.++..-..|..+|.. .|+++-.++.. ...+.-..+|.+=
T Consensus 422 ~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~------------~gi~h~vLNAk~~~~~~EA~IIa~A--- 486 (939)
T PRK12902 422 IAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQE------------QGIPHNLLNAKPENVEREAEIVAQA--- 486 (939)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHH------------cCCchheeeCCCcchHhHHHHHHhc---
Confidence 4789999998888888999999999999999999999997 67777777775 2323334455542
Q ss_pred CCCCceEEEeeccccccccCcc
Q 000740 1038 LNKRVKCTLISTRAGSLGINLH 1059 (1321)
Q Consensus 1038 ~n~~v~VfLISTkAGg~GLNLt 1059 (1321)
+...-+-|+|..+|.|.++.
T Consensus 487 --G~~GaVTIATNMAGRGTDIk 506 (939)
T PRK12902 487 --GRKGAVTIATNMAGRGTDII 506 (939)
T ss_pred --CCCCcEEEeccCCCCCcCEe
Confidence 12223577888888886643
No 150
>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=97.79 E-value=0.00012 Score=75.25 Aligned_cols=130 Identities=18% Similarity=0.261 Sum_probs=68.8
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELL 673 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l 673 (1321)
|.--+|-.-.|.|||-.++--+..-... ..+++||+.|+.++. +|+.+.+.+. ++++.. . -.. +
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~---~~~rvLvL~PTRvva---~em~~aL~~~--~~~~~t--~-~~~-~---- 67 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIK---RRLRVLVLAPTRVVA---EEMYEALKGL--PVRFHT--N-ARM-R---- 67 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHH---TT--EEEEESSHHHH---HHHHHHTTTS--SEEEES--T-TSS------
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHH---ccCeEEEecccHHHH---HHHHHHHhcC--CcccCc--e-eee-c----
Confidence 4445677779999999877644332211 235899999999875 4566655431 233331 1 110 0
Q ss_pred HHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchhHHHH-Hhhc---ccceEEEE
Q 000740 674 AKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQA-LKQV---KCQRRIAL 749 (1321)
Q Consensus 674 ~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~ska-l~~L---ka~~RllL 749 (1321)
.......|-+++|.+|-... +...-..+|++||+||||-. .+.|-..+. +..+ .....++|
T Consensus 68 -~~~g~~~i~vMc~at~~~~~-------------~~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~m 132 (148)
T PF07652_consen 68 -THFGSSIIDVMCHATYGHFL-------------LNPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFM 132 (148)
T ss_dssp ----SSSSEEEEEHHHHHHHH-------------HTSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred -cccCCCcccccccHHHHHHh-------------cCcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEE
Confidence 11245568889998875321 01111238999999999964 443333222 2222 22368999
Q ss_pred ecCCC
Q 000740 750 TGSPL 754 (1321)
Q Consensus 750 TGTPl 754 (1321)
||||-
T Consensus 133 TATPP 137 (148)
T PF07652_consen 133 TATPP 137 (148)
T ss_dssp ESS-T
T ss_pred eCCCC
Confidence 99993
No 151
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.75 E-value=7.1e-05 Score=86.56 Aligned_cols=98 Identities=24% Similarity=0.254 Sum_probs=85.1
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
-+|.||||....--|-|++++..-. ..-+..+-++|...+.+|.+-++.|.. ..++ |||.|++++.|
T Consensus 505 mdkaiifcrtk~dcDnLer~~~qkg---------g~~~scvclhgDrkP~Erk~nle~Fkk---~dvk-flictdvaarg 571 (725)
T KOG0349|consen 505 MDKAIIFCRTKQDCDNLERMMNQKG---------GKHYSCVCLHGDRKPDERKANLESFKK---FDVK-FLICTDVAARG 571 (725)
T ss_pred cCceEEEEeccccchHHHHHHHHcC---------CccceeEEEecCCChhHHHHHHHhhhh---cCeE-EEEEehhhhcc
Confidence 4799999999999999999998621 134677889999999999999999986 3454 89999999999
Q ss_pred cCcccCCEEEEEeCCCCcchhhhhhhhhhcc
Q 000740 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRY 1086 (1321)
Q Consensus 1056 LNLt~An~VIi~D~~WNP~~d~QAiGRa~Ri 1086 (1321)
|++++...+|....|-....+..+|||++|-
T Consensus 572 ldi~g~p~~invtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 572 LDITGLPFMINVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred ccccCCceEEEEecCcccchhhhhhhccchh
Confidence 9999999999999999888888888887763
No 152
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.71 E-value=0.0007 Score=83.42 Aligned_cols=146 Identities=14% Similarity=0.235 Sum_probs=91.5
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH-HH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-qW 641 (1321)
.-.|-|+|..+|.-+ +.+...+...-+-.|||+.|=..|+..++.. .+++.-.|--.+. |=
T Consensus 127 PF~LDpFQ~~aI~Ci--------------dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k----QRVIYTSPIKALSNQK 188 (1041)
T KOG0948|consen 127 PFTLDPFQSTAIKCI--------------DRGESVLVSAHTSAGKTVVAEYAIAMSLREK----QRVIYTSPIKALSNQK 188 (1041)
T ss_pred CcccCchHhhhhhhh--------------cCCceEEEEeecCCCcchHHHHHHHHHHHhc----CeEEeeChhhhhcchh
Confidence 356788898888654 4567888888899999999877777766653 3788888966555 55
Q ss_pred HHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000740 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1321)
Q Consensus 642 ~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIl 721 (1321)
.+|+..=+.+ |....|.-. .......+|+|.+.+|++.|.. ....+ ...+||+
T Consensus 189 YREl~~EF~D------VGLMTGDVT---------InP~ASCLVMTTEILRsMLYRG----SEvmr--------EVaWVIF 241 (1041)
T KOG0948|consen 189 YRELLEEFKD------VGLMTGDVT---------INPDASCLVMTTEILRSMLYRG----SEVMR--------EVAWVIF 241 (1041)
T ss_pred HHHHHHHhcc------cceeeccee---------eCCCCceeeeHHHHHHHHHhcc----chHhh--------eeeeEEe
Confidence 5666543322 111111100 1234578999999998764422 12222 3467999
Q ss_pred cCCcccCCcchh-HHH-HHhhc-ccceEEEEecCC
Q 000740 722 DEAHMIKNTRAD-TTQ-ALKQV-KCQRRIALTGSP 753 (1321)
Q Consensus 722 DEAH~IKN~~S~-~sk-al~~L-ka~~RllLTGTP 753 (1321)
||.|.+|...-. .+. .+..+ ..-+-++||||-
T Consensus 242 DEIHYMRDkERGVVWEETIIllP~~vr~VFLSATi 276 (1041)
T KOG0948|consen 242 DEIHYMRDKERGVVWEETIILLPDNVRFVFLSATI 276 (1041)
T ss_pred eeehhccccccceeeeeeEEeccccceEEEEeccC
Confidence 999999864321 111 11222 456678999994
No 153
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.65 E-value=0.00084 Score=83.21 Aligned_cols=65 Identities=22% Similarity=0.326 Sum_probs=50.9
Q ss_pred HHHhCCCCCCceEEEeeccccccccCcccCCEEE-----------------EEeCCC-CcchhhhhhhhhhccCCCCcEE
Q 000740 1032 ERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI-----------------IVDGSW-NPTYDLQAIYRAWRYGQTKPVF 1093 (1321)
Q Consensus 1032 ~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VI-----------------i~D~~W-NP~~d~QAiGRa~RiGQkK~V~ 1093 (1321)
.-|...+.+ .++.+++|.++...|.+++..+|| -|...| +-+.-.||-||++|+| +-+
T Consensus 621 RVF~~~p~g-~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtg---pGH 696 (1172)
T KOG0926|consen 621 RVFDEVPKG-ERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTG---PGH 696 (1172)
T ss_pred hhccCCCCC-ceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCC---CCc
Confidence 346665543 678999999999999999999988 345556 6677789999999988 567
Q ss_pred EEEEEeC
Q 000740 1094 AYRLMAH 1100 (1321)
Q Consensus 1094 VYRLva~ 1100 (1321)
-|||+..
T Consensus 697 cYRLYSS 703 (1172)
T KOG0926|consen 697 CYRLYSS 703 (1172)
T ss_pred eeehhhh
Confidence 8888754
No 154
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.62 E-value=0.015 Score=74.90 Aligned_cols=115 Identities=12% Similarity=0.172 Sum_probs=73.8
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHHHHHHCCCCC-CCeEEEEecCc-chhHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPSEL-KPLRVFMLEDV-SRDRRA 670 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~~kw~p~~~-~~l~V~~~~~~-~~~~r~ 670 (1321)
|...-+-..+|+|||.-.++....+... .++++||+|+. |+.|-.+-+.++..... ....+. ||+. +...+.
T Consensus 97 g~SFaiiAPTGvGKTTfg~~~sl~~a~k----gkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~-yh~~l~~~eke 171 (1187)
T COG1110 97 GKSFAIIAPTGVGKTTFGLLMSLYLAKK----GKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVV-YHSALPTKEKE 171 (1187)
T ss_pred CCceEEEcCCCCchhHHHHHHHHHHHhc----CCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeee-eccccchHHHH
Confidence 3444455589999996544433333222 26899999987 67788899999985533 223333 6665 344445
Q ss_pred HHHHHHhh-cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc
Q 000740 671 ELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 727 (1321)
Q Consensus 671 ~~l~~~~~-~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~I 727 (1321)
..+..... .++|+|+|-..+. ..+..+.+..||+|++|-...+
T Consensus 172 e~le~i~~gdfdIlitTs~FL~--------------k~~e~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 172 EALERIESGDFDILITTSQFLS--------------KRFEELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred HHHHHHhcCCccEEEEeHHHHH--------------hhHHHhcccCCCEEEEccHHHH
Confidence 55555543 5788888865543 2333444568999999998865
No 155
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.50 E-value=0.0082 Score=76.23 Aligned_cols=145 Identities=15% Similarity=0.245 Sum_probs=92.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH-HH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN-WK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q-W~ 642 (1321)
-.|-++|+++|-.| ..|...+.|..+-.|||+.|=..|+....+ ..+++--.|--.+.| =.
T Consensus 296 FelD~FQk~Ai~~l--------------erg~SVFVAAHTSAGKTvVAEYAialaq~h----~TR~iYTSPIKALSNQKf 357 (1248)
T KOG0947|consen 296 FELDTFQKEAIYHL--------------ERGDSVFVAAHTSAGKTVVAEYAIALAQKH----MTRTIYTSPIKALSNQKF 357 (1248)
T ss_pred CCccHHHHHHHHHH--------------HcCCeEEEEecCCCCcchHHHHHHHHHHhh----ccceEecchhhhhccchH
Confidence 45778999999766 357889999999999999986655544333 246778889776665 45
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
++|+.-+.+ .. .+.|.. .....+..+|+|.+.+|++.|... .+.+ ..+.||+|
T Consensus 358 RDFk~tF~D----vg--LlTGDv---------qinPeAsCLIMTTEILRsMLYrga----dliR--------DvE~VIFD 410 (1248)
T KOG0947|consen 358 RDFKETFGD----VG--LLTGDV---------QINPEASCLIMTTEILRSMLYRGA----DLIR--------DVEFVIFD 410 (1248)
T ss_pred HHHHHhccc----cc--eeecce---------eeCCCcceEeehHHHHHHHHhccc----chhh--------ccceEEEe
Confidence 666655443 22 222221 123567899999999998755322 1111 35789999
Q ss_pred CCcccCCcc-hhHHHHHhhc--ccceEEEEecCC
Q 000740 723 EAHMIKNTR-ADTTQALKQV--KCQRRIALTGSP 753 (1321)
Q Consensus 723 EAH~IKN~~-S~~skal~~L--ka~~RllLTGTP 753 (1321)
|.|.|.+.. .-.+.-+.-+ +--.-|+||||-
T Consensus 411 EVHYiND~eRGvVWEEViIMlP~HV~~IlLSATV 444 (1248)
T KOG0947|consen 411 EVHYINDVERGVVWEEVIIMLPRHVNFILLSATV 444 (1248)
T ss_pred eeeecccccccccceeeeeeccccceEEEEeccC
Confidence 999996532 2222222222 333458999994
No 156
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=97.45 E-value=2.5e-05 Score=66.22 Aligned_cols=47 Identities=30% Similarity=0.856 Sum_probs=37.8
Q ss_pred cccccCC---CCceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 378 YCVWCGR---SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 378 ~C~~C~~---gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
+|.+|+. ++++|.||.|.+.||..|+.++...... ..+.|.|+.|.+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~----~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEI----PSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSH----HSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccC----CCCcEECcCCcC
Confidence 5788877 8999999999999999998877654422 234899999965
No 157
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=97.42 E-value=0.018 Score=71.45 Aligned_cols=119 Identities=20% Similarity=0.211 Sum_probs=79.6
Q ss_pred CeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccccc
Q 000740 977 DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGI 1056 (1321)
Q Consensus 977 ~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GL 1056 (1321)
.-+|||=....-++...+.|.+....... +. ..-++-+.|+.+.++..++ |...+ +..+-+++||..+...|
T Consensus 259 GDILvFLtGqeEIe~~~~~l~e~~~~~~~---~~-~~~~lply~aL~~e~Q~rv---F~p~p-~g~RKvIlsTNIAETSl 330 (674)
T KOG0922|consen 259 GDILVFLTGQEEIEAACELLRERAKSLPE---DC-PELILPLYGALPSEEQSRV---FDPAP-PGKRKVILSTNIAETSL 330 (674)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHHhhhccc---cC-cceeeeecccCCHHHhhcc---ccCCC-CCcceEEEEcceeeeeE
Confidence 36788887777777666666653211000 00 0135778999998776544 65543 23566899999999999
Q ss_pred CcccCCEEEE----EeCCCCc-----------chhhhhhhhhhccCCCCcEEEEEEEeCCCh
Q 000740 1057 NLHSANRVII----VDGSWNP-----------TYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1103 (1321)
Q Consensus 1057 NLt~An~VIi----~D~~WNP-----------~~d~QAiGRa~RiGQkK~V~VYRLva~gTI 1103 (1321)
.+.+.-.||= ---.||| ..-.||.-|++|-|.+.+...|||.++.-.
T Consensus 331 TI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~ 392 (674)
T KOG0922|consen 331 TIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAY 392 (674)
T ss_pred EecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHH
Confidence 9999877761 1113454 344577777777777889999999998765
No 158
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.41 E-value=4.5e-05 Score=83.33 Aligned_cols=72 Identities=25% Similarity=0.660 Sum_probs=52.2
Q ss_pred eecccCCccccccc--cccccc------cccCCcchhhhhhcCcccCCCCCcccccccCCC---CceeccCCcccccccc
Q 000740 333 FYCTACNNVAIEVH--PHPILN------VIVCKDCKCLLEKKMHVKDADCSECYCVWCGRS---SDLVSCKSCKTLFCTT 401 (1321)
Q Consensus 333 ~~C~~Cg~~~~~~~--~HP~l~------~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~g---g~l~~Cd~C~~~Fc~~ 401 (1321)
+.|.-||+.-++.+ |-|.+- -..|-.|+ ||.+||.. -.|+-||-|.|.||..
T Consensus 247 vscsdcgrsghpsclqft~nm~~avk~yrwqcieck-----------------~csicgtsenddqllfcddcdrgyhmy 309 (336)
T KOG1244|consen 247 VSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECK-----------------YCSICGTSENDDQLLFCDDCDRGYHMY 309 (336)
T ss_pred cchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecc-----------------eeccccCcCCCceeEeecccCCceeeE
Confidence 77999998733221 111111 22566664 89999954 4799999999999999
Q ss_pred ccccCCCcccccccccCCCceeecCC
Q 000740 402 CVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 402 Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
||.|++.. .+.|.|+|.+|.
T Consensus 310 clsppm~e------ppegswsc~KOG 329 (336)
T KOG1244|consen 310 CLSPPMVE------PPEGSWSCHLCL 329 (336)
T ss_pred ecCCCcCC------CCCCchhHHHHH
Confidence 99877643 378999999994
No 159
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.40 E-value=0.0075 Score=76.65 Aligned_cols=154 Identities=13% Similarity=0.148 Sum_probs=97.7
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch-hHHHHHHHHHHHHCCCCCCCeEEEEecCcchhHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRA 670 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~-sLl~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~ 670 (1321)
+.+...++...+-.|||...--++-..++... .+-++-|+|. .++.|-..++..-+......-.+.. -.
T Consensus 524 Dr~eSavIVAPTSaGKTfisfY~iEKVLResD--~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~sl--------~g 593 (1330)
T KOG0949|consen 524 DRNESAVIVAPTSAGKTFISFYAIEKVLRESD--SDVVIYVAPTKALVNQVSANVYARFDTKTFLRGVSL--------LG 593 (1330)
T ss_pred hcccceEEEeeccCCceeccHHHHHHHHhhcC--CCEEEEecchHHHhhhhhHHHHHhhccCccccchhh--------Hh
Confidence 45677888889999999999888888888765 4578889996 4777777776543311000001111 11
Q ss_pred HHHHHHhh---cCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcc-hhHHHHHhhcccceE
Q 000740 671 ELLAKWRA---KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR-ADTTQALKQVKCQRR 746 (1321)
Q Consensus 671 ~~l~~~~~---~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~~-S~~skal~~Lka~~R 746 (1321)
...+++.- ...|+||..+-+..+.... ...........+||+||.|.|.|.. +.....+-.+-.-.-
T Consensus 594 ~ltqEYsinp~nCQVLITvPecleslLlsp---------p~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~ 664 (1330)
T KOG0949|consen 594 DLTQEYSINPWNCQVLITVPECLESLLLSP---------PHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPF 664 (1330)
T ss_pred hhhHHhcCCchhceEEEEchHHHHHHhcCc---------hhhhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCe
Confidence 11122211 4578999888876542211 0011122356899999999999864 555656666666667
Q ss_pred EEEecCCCCCchhhHHhhhh
Q 000740 747 IALTGSPLQNNLMEYYCMVD 766 (1321)
Q Consensus 747 llLTGTPlqNnl~EL~sLl~ 766 (1321)
++|+|| ++|+..++--++
T Consensus 665 L~LSAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 665 LVLSAT--IGNPNLFQKWLN 682 (1330)
T ss_pred eEEecc--cCCHHHHHHHHH
Confidence 999999 577777666555
No 160
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.40 E-value=0.035 Score=71.28 Aligned_cols=112 Identities=21% Similarity=0.201 Sum_probs=88.5
Q ss_pred CchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 959 S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
-.|+.++++-+......|..|||-+.+...-..+...|.+ .|++...++-.-. .|+.-|-.+.-
T Consensus 412 ~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~------------~~i~h~VLNAk~h--~~EA~Iia~AG-- 475 (822)
T COG0653 412 EEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRK------------AGIPHNVLNAKNH--AREAEIIAQAG-- 475 (822)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHh------------cCCCceeeccccH--HHHHHHHhhcC--
Confidence 4699999999999999999999999999999999999986 6788877777665 45444444432
Q ss_pred CCCceEEEeeccccccccCcc-cCC----------EEEEEeCCCCcchhhhhhhhhhccCC
Q 000740 1039 NKRVKCTLISTRAGSLGINLH-SAN----------RVIIVDGSWNPTYDLQAIYRAWRYGQ 1088 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt-~An----------~VIi~D~~WNP~~d~QAiGRa~RiGQ 1088 (1321)
....+-|+|.-+|.|-++. +.+ +||=-+-.=+--.+.|-.||++|.|-
T Consensus 476 --~~gaVTiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGD 534 (822)
T COG0653 476 --QPGAVTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGD 534 (822)
T ss_pred --CCCccccccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCCC
Confidence 2223578999999999987 454 56666667777788899999999994
No 161
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=97.31 E-value=0.0079 Score=76.60 Aligned_cols=108 Identities=17% Similarity=0.286 Sum_probs=74.8
Q ss_pred HHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceE
Q 000740 965 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1044 (1321)
Q Consensus 965 L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~V 1044 (1321)
...+|..-...|++|.|||......++++++... .+..+..++|..+..+ ++.+ ++++|
T Consensus 271 F~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~------------~~~~Vl~l~s~~~~~d----v~~W-----~~~~V 329 (824)
T PF02399_consen 271 FFSELLARLNAGKNICVFSSTVSFAEIVARFCAR------------FTKKVLVLNSTDKLED----VESW-----KKYDV 329 (824)
T ss_pred HHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHh------------cCCeEEEEcCCCCccc----cccc-----cceeE
Confidence 4455555566799999999999999999999986 3567888888776552 2333 34555
Q ss_pred EEeeccccccccCcc--cCCEEEEE--eCCCCcch--hhhhhhhhhccCCCCcEEEE
Q 000740 1045 TLISTRAGSLGINLH--SANRVIIV--DGSWNPTY--DLQAIYRAWRYGQTKPVFAY 1095 (1321)
Q Consensus 1045 fLISTkAGg~GLNLt--~An~VIi~--D~~WNP~~--d~QAiGRa~RiGQkK~V~VY 1095 (1321)
++- |.+.++|+++- .-+.|+.| .....|.. ..|.+||+-.++.. +++||
T Consensus 330 viY-T~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~~-ei~v~ 384 (824)
T PF02399_consen 330 VIY-TPVITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLDN-EIYVY 384 (824)
T ss_pred EEE-eceEEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhccC-eEEEE
Confidence 444 45788898886 34666655 33334443 58999999998754 55555
No 162
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.30 E-value=0.024 Score=73.77 Aligned_cols=114 Identities=19% Similarity=0.192 Sum_probs=78.5
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
..-+|||=.-..-++...+.|.+.. ....+.++-++|..+.++..+ -|+..+.+ .+-+++||..+..+
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~--------l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~-~RKVVlATNIAETS 326 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAE--------LGDDLEILPLYGALSAEEQVR---VFEPAPGG-KRKVVLATNIAETS 326 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhcc--------ccCCcEEeeccccCCHHHHHh---hcCCCCCC-cceEEEEccccccc
Confidence 3468888877777777777776410 113577899999999888776 56654444 23379999999999
Q ss_pred cCcccCCEEE--------EEeCCC----------CcchhhhhhhhhhccCCCCcEEEEEEEeCCChH
Q 000740 1056 INLHSANRVI--------IVDGSW----------NPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1104 (1321)
Q Consensus 1056 LNLt~An~VI--------i~D~~W----------NP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIE 1104 (1321)
|++.+...|| .||+-- +-+.-.||-||++| +.+-..|||++++..+
T Consensus 327 LTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR---~~pGicyRLyse~~~~ 390 (845)
T COG1643 327 LTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR---TGPGICYRLYSEEDFL 390 (845)
T ss_pred eeeCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhcccccc---CCCceEEEecCHHHHH
Confidence 9999988877 233221 22344566666666 5688899999986555
No 163
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=97.30 E-value=0.029 Score=72.91 Aligned_cols=130 Identities=19% Similarity=0.214 Sum_probs=88.2
Q ss_pred hHHHHHHHHHHhhcC--CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCC
Q 000740 961 KMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1321)
Q Consensus 961 Kl~~L~eiL~~~~~~--g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~ 1038 (1321)
...++..++..+.+. ..-||||-.-..-+..+.+.|........ ...+-...++++++..+.+.+ |+.++
T Consensus 396 d~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~-----~~~~~ilplHs~~~s~eQ~~V---F~~pp 467 (924)
T KOG0920|consen 396 DYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFAD-----SLKFAILPLHSSIPSEEQQAV---FKRPP 467 (924)
T ss_pred cHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhcccccc-----ccceEEEeccccCChHHHHHh---cCCCC
Confidence 444555555544333 45899999999888888887764211100 023667889999998766654 66665
Q ss_pred CCCceEEEeeccccccccCcccCCEEE--------EEeCC---------C-CcchhhhhhhhhhccCCCCcEEEEEEEeC
Q 000740 1039 NKRVKCTLISTRAGSLGINLHSANRVI--------IVDGS---------W-NPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1100 (1321)
Q Consensus 1039 n~~v~VfLISTkAGg~GLNLt~An~VI--------i~D~~---------W-NP~~d~QAiGRa~RiGQkK~V~VYRLva~ 1100 (1321)
.+ ++-++++|..+...|.+...-+|| .|||. | .-+.-.||.||++|. ++-..|+|++.
T Consensus 468 ~g-~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv---~~G~cy~L~~~ 543 (924)
T KOG0920|consen 468 KG-TRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRV---RPGICYHLYTR 543 (924)
T ss_pred CC-cchhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCc---cCCeeEEeech
Confidence 44 445799999999999998877776 34443 2 345567888888885 66788888876
Q ss_pred CC
Q 000740 1101 GT 1102 (1321)
Q Consensus 1101 gT 1102 (1321)
.-
T Consensus 544 ~~ 545 (924)
T KOG0920|consen 544 SR 545 (924)
T ss_pred hh
Confidence 53
No 164
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.16 E-value=0.011 Score=64.98 Aligned_cols=69 Identities=22% Similarity=0.280 Sum_probs=45.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcc-eEEEcCCCCchHHHHHHHHHHHHHh----cccCCCceEEEcchh-HH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLG-CILAHTMGLGKTFQVIAFLYTAMRS----VNLGLRTALIVTPVN-VL 638 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~G-gILADeMGLGKTlQaIall~~ll~~----~~~~~k~vLIV~P~s-Ll 638 (1321)
+|-+.|..+|..++. ..+ .++.-..|.|||-++.+++..+... .....+++||++|.+ .+
T Consensus 1 ~ln~~Q~~Ai~~~~~--------------~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~av 66 (236)
T PF13086_consen 1 KLNESQREAIQSALS--------------SNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAV 66 (236)
T ss_dssp ---HHHHHHHHHHCT--------------SSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHHc--------------CCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhH
Confidence 477899999986632 244 7888899999998887777776321 123357999999977 56
Q ss_pred HHHHHHHHH
Q 000740 639 HNWKQEFMK 647 (1321)
Q Consensus 639 ~qW~~E~~k 647 (1321)
.+-...+.+
T Consensus 67 d~~~~~l~~ 75 (236)
T PF13086_consen 67 DNILERLKK 75 (236)
T ss_dssp HHHHHHHHC
T ss_pred HHHHHHHHh
Confidence 776666666
No 165
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.16 E-value=0.031 Score=71.64 Aligned_cols=69 Identities=28% Similarity=0.219 Sum_probs=49.8
Q ss_pred EEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeCCC-----CcchhhhhhhhhhccCC
Q 000740 1015 WYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-----NPTYDLQAIYRAWRYGQ 1088 (1321)
Q Consensus 1015 y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~W-----NP~~d~QAiGRa~RiGQ 1088 (1321)
+...+.+.+.++|.-+=..|.+ +.++ +|..|....-|+||++ .|||+=-|.. .-..+.|.+||++|.|=
T Consensus 525 vAyHhaGLT~eER~~iE~afr~---g~i~-vl~aTSTlaaGVNLPA-rRVIiraP~~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 525 VAYHHAGLTSEEREIIEAAFRE---GNIF-VLVATSTLAAGVNLPA-RRVIIRAPYVGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred ceecccccccchHHHHHHHHHh---cCeE-EEEecchhhccCcCCc-ceeEEeCCccccchhhhhhHHhhhhhhhhccc
Confidence 3455666777889877778986 4454 4666667999999985 6777655543 33567899999999983
No 166
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.04 E-value=0.002 Score=77.51 Aligned_cols=109 Identities=22% Similarity=0.223 Sum_probs=79.4
Q ss_pred hcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccc
Q 000740 973 SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAG 1052 (1321)
Q Consensus 973 ~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAG 1052 (1321)
...|+=|+-||.-.- --+...+.+ ..+.....|.|+.+++.|.+--..||++.| .+. +|+.++|.
T Consensus 355 lk~GDCvV~FSkk~I--~~~k~kIE~-----------~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~-e~d-vlVAsDAI 419 (700)
T KOG0953|consen 355 LKPGDCVVAFSKKDI--FTVKKKIEK-----------AGNHKCAVIYGSLPPETRLAQAALFNDPSN-ECD-VLVASDAI 419 (700)
T ss_pred CCCCCeEEEeehhhH--HHHHHHHHH-----------hcCcceEEEecCCCCchhHHHHHHhCCCCC-ccc-eEEeeccc
Confidence 346899999997532 122223332 124458999999999999999999998754 465 57788999
Q ss_pred ccccCcccCCEEEEEeCC-C--------CcchhhhhhhhhhccCCCC-cEEEEEE
Q 000740 1053 SLGINLHSANRVIIVDGS-W--------NPTYDLQAIYRAWRYGQTK-PVFAYRL 1097 (1321)
Q Consensus 1053 g~GLNLt~An~VIi~D~~-W--------NP~~d~QAiGRa~RiGQkK-~V~VYRL 1097 (1321)
|.||||. ..||||++.. + .-+...|.-||++|+|.+- .-.|..|
T Consensus 420 GMGLNL~-IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl 473 (700)
T KOG0953|consen 420 GMGLNLN-IRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTL 473 (700)
T ss_pred ccccccc-eeEEEEeecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEe
Confidence 9999995 6899999874 2 2345679999999999873 3444444
No 168
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.02 E-value=0.0076 Score=69.98 Aligned_cols=73 Identities=18% Similarity=0.114 Sum_probs=49.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhccc--CCCceEEEcchh-HHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~--~~k~vLIV~P~s-Ll~qW~ 642 (1321)
.||.|++-++.+++.+. .+..+|+-..+|.|||+.++..+......... ...++++++++. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~~----------~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00489 9 PYPIQYEFMEELKRVLD----------RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHHH----------cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 39999998888877652 45678888999999999988777554443221 112677777765 444555
Q ss_pred HHHHHH
Q 000740 643 QEFMKW 648 (1321)
Q Consensus 643 ~E~~kw 648 (1321)
.++++.
T Consensus 79 ~~l~~~ 84 (289)
T smart00489 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 666654
No 169
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.02 E-value=0.0076 Score=69.98 Aligned_cols=73 Identities=18% Similarity=0.114 Sum_probs=49.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhccc--CCCceEEEcchh-HHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~--~~k~vLIV~P~s-Ll~qW~ 642 (1321)
.||.|++-++.+++.+. .+..+|+-..+|.|||+.++..+......... ...++++++++. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~~----------~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00488 9 PYPIQYEFMEELKRVLD----------RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHHH----------cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 39999998888877652 45678888999999999988777554443221 112677777765 444555
Q ss_pred HHHHHH
Q 000740 643 QEFMKW 648 (1321)
Q Consensus 643 ~E~~kw 648 (1321)
.++++.
T Consensus 79 ~~l~~~ 84 (289)
T smart00488 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 666654
No 170
>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=96.95 E-value=0.0084 Score=76.04 Aligned_cols=93 Identities=12% Similarity=0.070 Sum_probs=58.1
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~G 1055 (1321)
|.-.+.||.+ ..+..+...|..- -.+ .+.+.|..+ .|..++++|....+....-+|+.|....+|
T Consensus 471 G~~lvLfTS~-~~~~~~~~~l~~~-----------l~~-~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweG 535 (636)
T TIGR03117 471 GGTLVLTTAF-SHISAIGQLVELG-----------IPA-EIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTG 535 (636)
T ss_pred CCEEEEechH-HHHHHHHHHHHhh-----------cCC-CEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCccccc
Confidence 4445555555 4555566666531 011 244556543 567899999974111112269999999999
Q ss_pred cCc--------c--cCCEEEEEeCCCCcchhhhhhhhhhcc
Q 000740 1056 INL--------H--SANRVIIVDGSWNPTYDLQAIYRAWRY 1086 (1321)
Q Consensus 1056 LNL--------t--~An~VIi~D~~WNP~~d~QAiGRa~Ri 1086 (1321)
+|+ . ....|||.-.|+-|. +-. .|+.|+
T Consensus 536 vDv~~~~~~p~~G~~Ls~ViI~kLPF~~~-dp~--a~~~~~ 573 (636)
T TIGR03117 536 IDLTHKPVSPDKDNLLTDLIITCAPFGLN-RSL--SMLKRI 573 (636)
T ss_pred cccCCccCCCCCCCcccEEEEEeCCCCcC-ChH--HHHHHH
Confidence 999 3 478999999998874 332 455554
No 171
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.81 E-value=0.00048 Score=87.54 Aligned_cols=52 Identities=21% Similarity=0.553 Sum_probs=43.6
Q ss_pred CCCCCcccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 371 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 371 d~d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
.+--++++|++|.++|.++||.+|||++|..|+.++.... +.+.|.|-+|..
T Consensus 339 ~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~~~------~s~~~e~evc~~ 390 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRFAV------PSAFWECEVCNI 390 (1414)
T ss_pred cceeecccccccCcccceeecccCCceEEeeecCCccccC------CCccchhhhhhh
Confidence 4455677999999999999999999999999987765443 566899999963
No 172
>PRK10536 hypothetical protein; Provisional
Probab=96.81 E-value=0.0025 Score=71.90 Aligned_cols=151 Identities=15% Similarity=0.175 Sum_probs=85.4
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 645 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 645 (1321)
+-..|...+.++.+ ..-.++--+.|.|||+.++++....+.... ..+++|+=|.--. .|.
T Consensus 60 ~n~~Q~~~l~al~~--------------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~----ge~ 119 (262)
T PRK10536 60 RNEAQAHYLKAIES--------------KQLIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQA----DED 119 (262)
T ss_pred CCHHHHHHHHHHhc--------------CCeEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCc----hhh
Confidence 45567777766632 246777789999999999999886553322 3455555555433 455
Q ss_pred HHHCCCCCCC-eEEE---EecCcchhHHHHHHHHH--hhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000740 646 MKWRPSELKP-LRVF---MLEDVSRDRRAELLAKW--RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 719 (1321)
Q Consensus 646 ~kw~p~~~~~-l~V~---~~~~~~~~~r~~~l~~~--~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlV 719 (1321)
..|+|+.... +..| +++....--....+..+ ...+.|-|.....+|..+ ..-++|
T Consensus 120 LGfLPG~~~eK~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrt-------------------l~~~~v 180 (262)
T PRK10536 120 LGFLPGDIAEKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRT-------------------FENAVV 180 (262)
T ss_pred hCcCCCCHHHHHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCc-------------------ccCCEE
Confidence 5666653210 0000 00000000000011111 123445555555544321 134789
Q ss_pred EEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCc
Q 000740 720 VCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNN 757 (1321)
Q Consensus 720 IlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNn 757 (1321)
|+||||++.- .+....+.++....+++++|-|-|..
T Consensus 181 IvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 181 ILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCD 216 (262)
T ss_pred EEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhcc
Confidence 9999999854 45566778888999999999997754
No 173
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.79 E-value=0.0011 Score=72.76 Aligned_cols=151 Identities=19% Similarity=0.242 Sum_probs=73.3
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 645 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 645 (1321)
+-++|...+..|++. .-.++--..|.|||+.|++....++..+. .++++|+-|..-+.. +
T Consensus 5 ~~~~Q~~~~~al~~~--------------~~v~~~G~AGTGKT~LA~a~Al~~v~~g~--~~kiii~Rp~v~~~~---~- 64 (205)
T PF02562_consen 5 KNEEQKFALDALLNN--------------DLVIVNGPAGTGKTFLALAAALELVKEGE--YDKIIITRPPVEAGE---D- 64 (205)
T ss_dssp -SHHHHHHHHHHHH---------------SEEEEE--TTSSTTHHHHHHHHHHHHTTS---SEEEEEE-S--TT------
T ss_pred CCHHHHHHHHHHHhC--------------CeEEEECCCCCcHHHHHHHHHHHHHHhCC--CcEEEEEecCCCCcc---c-
Confidence 446899998877632 45677789999999999999888776643 457777767653321 1
Q ss_pred HHHCCCCCCCeEEEEecCc-----chhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 646 MKWRPSELKPLRVFMLEDV-----SRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 646 ~kw~p~~~~~l~V~~~~~~-----~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
--|+|+.... ++..+-.. ..--....+......+.+-+.....+|..++ ...+||
T Consensus 65 lGflpG~~~e-K~~p~~~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~-------------------~~~~iI 124 (205)
T PF02562_consen 65 LGFLPGDLEE-KMEPYLRPIYDALEELFGKEKLEELIQNGKIEIEPLAFIRGRTF-------------------DNAFII 124 (205)
T ss_dssp --SS----------TTTHHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT--B--------------------SEEEE
T ss_pred cccCCCCHHH-HHHHHHHHHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcCccc-------------------cceEEE
Confidence 2244432100 00000000 0000000112223456677777666654221 346899
Q ss_pred EcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCch
Q 000740 721 CDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 758 (1321)
Q Consensus 721 lDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl 758 (1321)
+|||+++.. .+.-..+.++-...+++++|-|-|...
T Consensus 125 vDEaQN~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 125 VDEAQNLTP--EELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp E-SGGG--H--HHHHHHHTTB-TT-EEEEEE-------
T ss_pred EecccCCCH--HHHHHHHcccCCCcEEEEecCceeecC
Confidence 999998743 345556777888899999999987543
No 174
>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=96.35 E-value=2 Score=57.03 Aligned_cols=87 Identities=17% Similarity=0.104 Sum_probs=50.1
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 567 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 567 rphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
+-+|-.++..+... + .+....|.-|+--..+|.|||+.=.=+++.+. ....+.+-++-+-=-+|-.|--+++.
T Consensus 410 F~WQdkA~d~a~~~-----r-~~~~~~GfF~vNMASTGcGKT~aNARImyaLs-d~~~g~RfsiALGLRTLTLQTGda~r 482 (1110)
T TIGR02562 410 FRWQNKAFNLAQKL-----R-QKSPEQGAFGVNMASTGCGKTLANARAMYALR-DDKQGARFAIALGLRSLTLQTGHALK 482 (1110)
T ss_pred cchHHHHHHHHHHH-----H-hhcccCCeEEEEecCCCcchHHHHHHHHHHhC-CCCCCceEEEEccccceeccchHHHH
Confidence 66888888766432 1 23345666677778999999997766665543 32333333333334455556666666
Q ss_pred HHCCCCCCCeEEEE
Q 000740 647 KWRPSELKPLRVFM 660 (1321)
Q Consensus 647 kw~p~~~~~l~V~~ 660 (1321)
+-+.-+-..+-|.+
T Consensus 483 ~rL~L~~ddLAVlI 496 (1110)
T TIGR02562 483 TRLNLSDDDLAVLI 496 (1110)
T ss_pred HhcCCCccceEEEE
Confidence 65533223344443
No 175
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.28 E-value=0.084 Score=65.28 Aligned_cols=93 Identities=19% Similarity=0.243 Sum_probs=63.4
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEe----CCCCc-----------chh
Q 000740 1012 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVD----GSWNP-----------TYD 1076 (1321)
Q Consensus 1012 Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D----~~WNP-----------~~d 1076 (1321)
++.++-|....+..-..+ -|+..+ +.++-.+++|..+...|.+.+...||=-- -.+|| ..-
T Consensus 597 ~L~vlpiYSQLp~dlQ~k---iFq~a~-~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~ 672 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQAK---IFQKAE-GGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQ 672 (1042)
T ss_pred ceEEEeehhhCchhhhhh---hcccCC-CCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechh
Confidence 566777777777655443 365433 34667899999999999999988887211 12333 333
Q ss_pred hhhhhhhhccCCCCcEEEEEEEeCCChHHHHH
Q 000740 1077 LQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIY 1108 (1321)
Q Consensus 1077 ~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~ 1108 (1321)
.||--|++|-|.+.|-.-|||+++.+...-++
T Consensus 673 AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml 704 (1042)
T KOG0924|consen 673 ANADQRAGRAGRTGPGTCYRLYTEDAYKNEML 704 (1042)
T ss_pred ccchhhccccCCCCCcceeeehhhhHHHhhcc
Confidence 45555666666677899999999988777665
No 176
>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=96.15 E-value=0.029 Score=62.39 Aligned_cols=152 Identities=18% Similarity=0.203 Sum_probs=93.8
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
-.|||-|.+-++.|.+ +..+.+.++-.-||-|||-.++=+++..+..+ .+=+-+|||+.++.|-.+
T Consensus 22 iliR~~Q~~ia~~mi~-----------~~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg---~~LvrviVpk~Ll~q~~~ 87 (229)
T PF12340_consen 22 ILIRPVQVEIAREMIS-----------PPSGKNSVMQLNMGEGKTSVIVPMLALALADG---SRLVRVIVPKALLEQMRQ 87 (229)
T ss_pred ceeeHHHHHHHHHHhC-----------CCCCCCeEeeecccCCccchHHHHHHHHHcCC---CcEEEEEcCHHHHHHHHH
Confidence 4689999998888853 24678899999999999998887777776543 346788999999999888
Q ss_pred HHHHHCCCCCCCeEEEEec--Ccch--hHHH----HHHHHHhhcCCEEEEcccccccccccc-------cccchhhHHHH
Q 000740 644 EFMKWRPSELKPLRVFMLE--DVSR--DRRA----ELLAKWRAKGGVFLIGYTAFRNLSFGK-------HVKDRNMAREI 708 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~--~~~~--~~r~----~~l~~~~~~~~VvI~tY~~~r~l~~~~-------~~kd~~~~~~i 708 (1321)
-+..-+..- ..-+|+.+. .... .... ..+..-...++|++++.+.+-++.... ..........+
T Consensus 88 ~L~~~lg~l-~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~ 166 (229)
T PF12340_consen 88 MLRSRLGGL-LNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKI 166 (229)
T ss_pred HHHHHHHHH-hCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 877665432 222444332 2211 1111 223344568899999998765432110 00001111122
Q ss_pred HhhhcCCCCEEEEcCCcccCCcc
Q 000740 709 CHALQDGPDILVCDEAHMIKNTR 731 (1321)
Q Consensus 709 ~~ll~~~~dlVIlDEAH~IKN~~ 731 (1321)
..++. ....-|+||++.+-+.+
T Consensus 167 q~~l~-~~~rdilDEsDe~L~~k 188 (229)
T PF12340_consen 167 QKWLD-EHSRDILDESDEILSVK 188 (229)
T ss_pred HHHHH-hcCCeEeECchhccCcc
Confidence 23333 34456999999875543
No 177
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.92 E-value=0.005 Score=73.87 Aligned_cols=100 Identities=19% Similarity=0.365 Sum_probs=68.8
Q ss_pred CCCceecccCCcccccc---ccccccccccCCcchhhhhh--cC-------------cc---cCCC---CCcccccccCC
Q 000740 329 LSEKFYCTACNNVAIEV---HPHPILNVIVCKDCKCLLEK--KM-------------HV---KDAD---CSECYCVWCGR 384 (1321)
Q Consensus 329 ~~~~~~C~~Cg~~~~~~---~~HP~l~~~~C~~C~~~~~~--~~-------------~~---~d~d---~~~~~C~~C~~ 384 (1321)
.+++.+|-.|+..+.+- -.-|-+...-|..|..-... +. |. .|-| -.+..|.+|..
T Consensus 97 ~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~wD~~~~~n~qc~vC~~ 176 (464)
T KOG4323|consen 97 ENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDWDSGHKVNLQCSVCYC 176 (464)
T ss_pred chhhhhhhhhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCcccccccCccccccceeeeeec
Confidence 45778899998776543 24455567777776432211 10 00 1101 11235888875
Q ss_pred CC-----ceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 385 SS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 385 gg-----~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
|| .++-|+.|-.-||..|+.+++.+..+.+ ....|+|..|.-.+
T Consensus 177 g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D--~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 177 GGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGD--PFYEWFCDVCNRGP 225 (464)
T ss_pred CCcCccceeeeecccccHHHHHhccCCCCHhhccC--ccceEeehhhccch
Confidence 55 8999999999999999999999987764 67789999998665
No 178
>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=95.87 E-value=0.088 Score=60.28 Aligned_cols=164 Identities=18% Similarity=0.188 Sum_probs=85.7
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH--
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-- 639 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-- 639 (1321)
+...+++-|+-|+-.|. .|-|.=..+|=|||+++....+...- ..+++-||+.+..+.
T Consensus 74 ~g~~p~~vQll~~l~L~----------------~G~laEm~TGEGKTli~~l~a~~~AL----~G~~V~vvT~NdyLA~R 133 (266)
T PF07517_consen 74 LGLRPYDVQLLGALALH----------------KGRLAEMKTGEGKTLIAALPAALNAL----QGKGVHVVTSNDYLAKR 133 (266)
T ss_dssp TS----HHHHHHHHHHH----------------TTSEEEESTTSHHHHHHHHHHHHHHT----TSS-EEEEESSHHHHHH
T ss_pred cCCcccHHHHhhhhhcc----------------cceeEEecCCCCcHHHHHHHHHHHHH----hcCCcEEEeccHHHhhc
Confidence 34455666777774441 47788899999999988544433322 235788888877554
Q ss_pred --HHHHHHHHHCCCCCCCeEEEEecCc-chhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCC
Q 000740 640 --NWKQEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 716 (1321)
Q Consensus 640 --qW~~E~~kw~p~~~~~l~V~~~~~~-~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~ 716 (1321)
+|...|-+++. +.+...... ....|.... ..+|+-.+-..|.... +++ .+...-......++
T Consensus 134 D~~~~~~~y~~LG-----lsv~~~~~~~~~~~r~~~Y-----~~dI~Y~t~~~~~fD~----Lrd-~~~~~~~~~~~r~~ 198 (266)
T PF07517_consen 134 DAEEMRPFYEFLG-----LSVGIITSDMSSEERREAY-----AADIVYGTNSEFGFDY----LRD-NLALSKNEQVQRGF 198 (266)
T ss_dssp HHHHHHHHHHHTT-------EEEEETTTEHHHHHHHH-----HSSEEEEEHHHHHHHH----HHH-TT-SSGGG--SSSS
T ss_pred cHHHHHHHHHHhh-----hccccCccccCHHHHHHHH-----hCcccccccchhhHHH----HHH-HHhhccchhccCCC
Confidence 48888888885 555554443 333333322 2255444433332100 011 00000111234589
Q ss_pred CEEEEcCCcccCCc------------------------chhHHHHHhhcccceEEEEecCCCCCchhhHH
Q 000740 717 DILVCDEAHMIKNT------------------------RADTTQALKQVKCQRRIALTGSPLQNNLMEYY 762 (1321)
Q Consensus 717 dlVIlDEAH~IKN~------------------------~S~~skal~~Lka~~RllLTGTPlqNnl~EL~ 762 (1321)
+++|+||+..+-=. .+-.++.+.+. -.+..+|||| ....-.|+|
T Consensus 199 ~~~ivDEvDs~LiDea~~pl~is~~Ke~~~i~~~~~t~a~is~q~~f~~-Y~~l~GmTGT-a~~~~~e~~ 266 (266)
T PF07517_consen 199 DFAIVDEVDSILIDEARTPLIISGAKEGLKITPESLTLASISYQNFFRL-YPKLSGMTGT-AKTEAKEFW 266 (266)
T ss_dssp SEEEECTHHHHTTTGCCSEEEEEEHHTTS----SEEEEEEEEHHHHHTT-SSEEEEEESS-TGGGHHHHH
T ss_pred CEEEEeccceEEEecCcccccccccccCCccCCCCeEEEEeehHHHHHh-cchheeeCCC-ChhhHhhcC
Confidence 99999998765210 11122222222 3347899999 666666665
No 179
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.86 E-value=0.043 Score=55.11 Aligned_cols=115 Identities=18% Similarity=0.230 Sum_probs=61.7
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhccc--CCCceEEEcchhH-HHHHHHHHHHHCCCCCCCeEEEEecCcchhHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAE 671 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~--~~k~vLIV~P~sL-l~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~ 671 (1321)
.-+++.-+.|.|||..+-.++..+...... ...-+.|-+|... ...+..++..-+...... ......
T Consensus 5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~--- 74 (131)
T PF13401_consen 5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS-------RQTSDE--- 74 (131)
T ss_dssp --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-------TS-HHH---
T ss_pred cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-------cCCHHH---
Confidence 456777899999999988888776542110 1123455556554 445555554433221110 000000
Q ss_pred HHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcC-CCCEEEEcCCcccCCcchhHHHHHhhc--ccceEEE
Q 000740 672 LLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GPDILVCDEAHMIKNTRADTTQALKQV--KCQRRIA 748 (1321)
Q Consensus 672 ~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~-~~dlVIlDEAH~IKN~~S~~skal~~L--ka~~Rll 748 (1321)
+...+...+.. ...+||+||+|++. .......++.+ ...-.++
T Consensus 75 --------------------------------l~~~~~~~l~~~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vv 120 (131)
T PF13401_consen 75 --------------------------------LRSLLIDALDRRRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKVV 120 (131)
T ss_dssp --------------------------------HHHHHHHHHHHCTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEEE
T ss_pred --------------------------------HHHHHHHHHHhcCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEE
Confidence 11111122222 22479999999984 24455555555 6777899
Q ss_pred EecCC
Q 000740 749 LTGSP 753 (1321)
Q Consensus 749 LTGTP 753 (1321)
|.|||
T Consensus 121 l~G~~ 125 (131)
T PF13401_consen 121 LVGTP 125 (131)
T ss_dssp EEESS
T ss_pred EEECh
Confidence 99999
No 180
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=95.72 E-value=0.083 Score=65.13 Aligned_cols=69 Identities=22% Similarity=0.337 Sum_probs=53.2
Q ss_pred cchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-H
Q 000740 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-L 638 (1321)
Q Consensus 560 ~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l 638 (1321)
..+...|-+-|+.++.+...+ + .=.++--..|+|||.+.+-+|..++..+ +++||.+|.++ +
T Consensus 180 ~~~~~~ln~SQk~Av~~~~~~------------k-~l~~I~GPPGTGKT~TlvEiI~qlvk~~----k~VLVcaPSn~AV 242 (649)
T KOG1803|consen 180 TFFNKNLNSSQKAAVSFAINN------------K-DLLIIHGPPGTGKTRTLVEIISQLVKQK----KRVLVCAPSNVAV 242 (649)
T ss_pred ccCCccccHHHHHHHHHHhcc------------C-CceEeeCCCCCCceeeHHHHHHHHHHcC----CeEEEEcCchHHH
Confidence 445567888999999988532 2 3456667899999999999998887764 58999999985 7
Q ss_pred HHHHHHH
Q 000740 639 HNWKQEF 645 (1321)
Q Consensus 639 ~qW~~E~ 645 (1321)
.|-.+-+
T Consensus 243 dNiverl 249 (649)
T KOG1803|consen 243 DNIVERL 249 (649)
T ss_pred HHHHHHh
Confidence 7776654
No 181
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=95.70 E-value=0.069 Score=67.84 Aligned_cols=180 Identities=22% Similarity=0.253 Sum_probs=102.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH----HHHHHHHHC-CCCC--CCeEEEEecCcc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN----WKQEFMKWR-PSEL--KPLRVFMLEDVS 665 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q----W~~E~~kw~-p~~~--~~l~V~~~~~~~ 665 (1321)
...++=+-.|+|+|||.+-+-.|..+++.. |.-+++||||..-+.- --.++..++ .... .++..++++...
T Consensus 73 ~~lNiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~~ 150 (985)
T COG3587 73 DKLNIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDEDI 150 (985)
T ss_pred CcceeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechHH
Confidence 345666778999999999999998887764 4569999999764432 222333333 1111 235666665221
Q ss_pred hhHHHHHHHHHhhcCCEEEEcccccccccccc-cccch-----h---hHHHHHhhhcCCCCEEEEcCCcccCCcchhHHH
Q 000740 666 RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK-HVKDR-----N---MAREICHALQDGPDILVCDEAHMIKNTRADTTQ 736 (1321)
Q Consensus 666 ~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~-~~kd~-----~---~~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~sk 736 (1321)
.+.. -.-.....|++++...+..-.... .+... . .+......+...-.+||+||-|++... .+.+.
T Consensus 151 --~~~~--~~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~~ 225 (985)
T COG3587 151 --EKFK--FKSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTYG 225 (985)
T ss_pred --HHHh--hccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHHH
Confidence 1111 111234467888888776431100 00000 0 001111222333458999999999765 78899
Q ss_pred HHhhcccceEEEEecCCCCCchhhHHhhhhhhccCCCCChHHHHhhccCCcc
Q 000740 737 ALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIE 788 (1321)
Q Consensus 737 al~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P~~lgs~~eF~~~f~~pI~ 788 (1321)
++.+++....+=..||- ..++++++- .+.+...|.+...+-|.
T Consensus 226 ~i~~l~pl~ilRfgATf----kd~y~~l~y-----rLDsi~Af~~~LVK~I~ 268 (985)
T COG3587 226 AIKQLNPLLILRFGATF----KDEYNNLVY-----RLDSIDAFNQKLVKQIR 268 (985)
T ss_pred HHHhhCceEEEEecccc----hhhhcCeeE-----EeeHHhhhhhhhhhhee
Confidence 99999888877777874 233333322 23455566665555443
No 182
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.68 E-value=0.12 Score=68.46 Aligned_cols=90 Identities=12% Similarity=0.072 Sum_probs=61.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCc
Q 000740 963 VLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRV 1042 (1321)
Q Consensus 963 ~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v 1042 (1321)
..+.+.|..+...+.++||+-.+..++..+...|... .+. ....|... .|.+++++|+..++.
T Consensus 634 ~~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~------------~~~-~l~Qg~~~--~~~~l~~~F~~~~~~-- 696 (820)
T PRK07246 634 EEIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQW------------QVS-HLAQEKNG--TAYNIKKRFDRGEQQ-- 696 (820)
T ss_pred HHHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhc------------CCc-EEEeCCCc--cHHHHHHHHHcCCCe--
Confidence 3455555544556778999888889999888888641 222 34445333 366799999974332
Q ss_pred eEEEeeccccccccCccc--CCEEEEEeCCC
Q 000740 1043 KCTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1321)
Q Consensus 1043 ~VfLISTkAGg~GLNLt~--An~VIi~D~~W 1071 (1321)
+|+.|....+|+++++ +..|||.-.|+
T Consensus 697 --vLlG~~sFwEGVD~p~~~~~~viI~kLPF 725 (820)
T PRK07246 697 --ILLGLGSFWEGVDFVQADRMIEVITRLPF 725 (820)
T ss_pred --EEEecchhhCCCCCCCCCeEEEEEecCCC
Confidence 6888899999999973 56667777564
No 183
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.49 E-value=0.18 Score=62.51 Aligned_cols=68 Identities=21% Similarity=0.322 Sum_probs=54.3
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-HHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 642 (1321)
.+|-.-|..||+..+.+ .=.||--..|.|||++.-++++.+.+.. .+|+||++|.++ +.|-.
T Consensus 409 pkLN~SQ~~AV~~VL~r--------------plsLIQGPPGTGKTvtsa~IVyhl~~~~---~~~VLvcApSNiAVDqLa 471 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVLQR--------------PLSLIQGPPGTGKTVTSATIVYHLARQH---AGPVLVCAPSNIAVDQLA 471 (935)
T ss_pred hhhchHHHHHHHHHHcC--------------CceeeecCCCCCceehhHHHHHHHHHhc---CCceEEEcccchhHHHHH
Confidence 45677899999877532 3458888999999999999998887763 469999999986 67777
Q ss_pred HHHHHH
Q 000740 643 QEFMKW 648 (1321)
Q Consensus 643 ~E~~kw 648 (1321)
.-|++-
T Consensus 472 eKIh~t 477 (935)
T KOG1802|consen 472 EKIHKT 477 (935)
T ss_pred HHHHhc
Confidence 777764
No 184
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=95.42 E-value=0.17 Score=55.35 Aligned_cols=59 Identities=19% Similarity=0.168 Sum_probs=38.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
+|-+-|.+++..++. +...-.+|.-.-|.|||...-.+...+... ..++++++|++-..
T Consensus 1 ~L~~~Q~~a~~~~l~------------~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~----g~~v~~~apT~~Aa 59 (196)
T PF13604_consen 1 TLNEEQREAVRAILT------------SGDRVSVLQGPAGTGKTTLLKALAEALEAA----GKRVIGLAPTNKAA 59 (196)
T ss_dssp -S-HHHHHHHHHHHH------------CTCSEEEEEESTTSTHHHHHHHHHHHHHHT----T--EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHHh------------cCCeEEEEEECCCCCHHHHHHHHHHHHHhC----CCeEEEECCcHHHH
Confidence 367899999998853 233457777889999998665554444332 25899999987543
No 185
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.14 E-value=0.23 Score=66.80 Aligned_cols=98 Identities=18% Similarity=0.207 Sum_probs=64.5
Q ss_pred HHHHHHHHHhh-cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCC
Q 000740 963 VLLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKR 1041 (1321)
Q Consensus 963 ~~L~eiL~~~~-~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~ 1041 (1321)
..+.+.|..+. ..+.++|||..+..++..+...|..... ..++.. ...|. +...|.+++++|+...+
T Consensus 738 ~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~--------~~~~~l-l~Qg~-~~~~r~~l~~~F~~~~~-- 805 (928)
T PRK08074 738 EEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEE--------LEGYVL-LAQGV-SSGSRARLTKQFQQFDK-- 805 (928)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhccc--------ccCceE-EecCC-CCCCHHHHHHHHHhcCC--
Confidence 44555555444 3456888888888999989888874210 012222 22232 22358899999997432
Q ss_pred ceEEEeeccccccccCcccC--CEEEEEeCCC-Ccc
Q 000740 1042 VKCTLISTRAGSLGINLHSA--NRVIIVDGSW-NPT 1074 (1321)
Q Consensus 1042 v~VfLISTkAGg~GLNLt~A--n~VIi~D~~W-NP~ 1074 (1321)
-+|+.+....+|+|+++. ..|||.-.|+ +|.
T Consensus 806 --~iLlG~~sFwEGVD~pg~~l~~viI~kLPF~~p~ 839 (928)
T PRK08074 806 --AILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPD 839 (928)
T ss_pred --eEEEecCcccCccccCCCceEEEEEecCCCCCCC
Confidence 257778889999999964 7888988887 554
No 186
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.07 E-value=0.061 Score=57.33 Aligned_cols=83 Identities=28% Similarity=0.299 Sum_probs=54.6
Q ss_pred hcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecc--
Q 000740 973 SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTR-- 1050 (1321)
Q Consensus 973 ~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTk-- 1050 (1321)
...+.++|||..+-..++.+...+.... -..++.++.- + ...+..++++|....+ .+|+++.
T Consensus 6 ~~~~g~~lv~f~Sy~~l~~~~~~~~~~~--------~~~~~~v~~q-~---~~~~~~~l~~~~~~~~----~il~~v~~g 69 (167)
T PF13307_consen 6 SAVPGGVLVFFPSYRRLEKVYERLKERL--------EEKGIPVFVQ-G---SKSRDELLEEFKRGEG----AILLAVAGG 69 (167)
T ss_dssp HCCSSEEEEEESSHHHHHHHHTT-TSS---------E-ETSCEEES-T---CCHHHHHHHHHCCSSS----EEEEEETTS
T ss_pred hcCCCCEEEEeCCHHHHHHHHHHHHhhc--------ccccceeeec-C---cchHHHHHHHHHhccC----eEEEEEecc
Confidence 3456899999999999999999887521 0113333333 2 3478899999998422 2677776
Q ss_pred ccccccCccc--CCEEEEEeCCC
Q 000740 1051 AGSLGINLHS--ANRVIIVDGSW 1071 (1321)
Q Consensus 1051 AGg~GLNLt~--An~VIi~D~~W 1071 (1321)
..++|||+.+ +..||+.-.|+
T Consensus 70 ~~~EGiD~~~~~~r~vii~glPf 92 (167)
T PF13307_consen 70 SFSEGIDFPGDLLRAVIIVGLPF 92 (167)
T ss_dssp CCGSSS--ECESEEEEEEES---
T ss_pred cEEEeecCCCchhheeeecCCCC
Confidence 8899999994 77889988887
No 187
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=94.89 E-value=0.038 Score=73.35 Aligned_cols=183 Identities=21% Similarity=0.257 Sum_probs=98.8
Q ss_pred chhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCc--hHHHHHHHHHHHHHhcccCCCceEEEcchhHH
Q 000740 561 SISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLG--KTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1321)
Q Consensus 561 ~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLG--KTlQaIall~~ll~~~~~~~k~vLIV~P~sLl 638 (1321)
.....+.+||.....-.... ......+++..|+| ||+.+.++......... ..++++++|..+.
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 145 (866)
T COG0553 80 GSRFILIPHQLDIALEVLNE------------LALRVLIADEVGLGDLKTIEAGAILKELLLRGE--IKRVLILVPKTLR 145 (866)
T ss_pred hcccccCcchhhhhhhhhhh------------hhhchhhcccccccccccccccccchHhhhhhh--hccceeccchHHH
Confidence 33455677777665432221 11337889999999 89998877766554433 4589999999999
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhh-----cCCEEEEcccccccccccccccchhhHHHHHhhhc
Q 000740 639 HNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA-----KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQ 713 (1321)
Q Consensus 639 ~qW~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~-----~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~ 713 (1321)
.+|..|...++... ......... ......|.. ....++..++..+ ............
T Consensus 146 ~~~~~e~~~~~~~~-----~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~ 207 (866)
T COG0553 146 AQWVVELLEKFNIR-----LAVLDKEGL---RYLLKQYDAYNPFSTEDLVLISLDLAK----------RSDSKRREALLE 207 (866)
T ss_pred HHHHHHhhhhcccc-----chhhhhhhh---hhhhhhhcccccccchhhhhhhhhhhh----------hhhhhhhhhhhc
Confidence 99999987764321 111100000 000011100 0000111111110 000111112223
Q ss_pred CCC---CEEEEcCCcccCCcc---------hhHHHHHhhccc--------ceEEEEecCCCCCchhhHHhhhhhhccCCC
Q 000740 714 DGP---DILVCDEAHMIKNTR---------ADTTQALKQVKC--------QRRIALTGSPLQNNLMEYYCMVDFVREGFL 773 (1321)
Q Consensus 714 ~~~---dlVIlDEAH~IKN~~---------S~~skal~~Lka--------~~RllLTGTPlqNnl~EL~sLl~FL~P~~l 773 (1321)
..| +++++||+|.+.+.. ...+..+..+.. -....+++||......+++....++.+..+
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (866)
T COG0553 208 AEWGERDLLVIDEAHNLGSSEGTRKLAPLETLEYELLKQLAEKIPSKLLDLKVLLLSATPEQLKEEDLFARLRLLDPLRL 287 (866)
T ss_pred ccccchhhhhcchHhhcccccccccccchhhhHHHHHHHHhhcccccccccchhhhccchhhccccccchhhhhccccch
Confidence 345 899999999987742 333344443311 123488999999888887776666666555
Q ss_pred CC
Q 000740 774 GS 775 (1321)
Q Consensus 774 gs 775 (1321)
..
T Consensus 288 ~~ 289 (866)
T COG0553 288 AD 289 (866)
T ss_pred hh
Confidence 44
No 188
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.78 E-value=0.05 Score=65.70 Aligned_cols=124 Identities=19% Similarity=0.197 Sum_probs=92.9
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
+.+.|+.-...++.++...|-++|-||.....-+++-...+.+...... .+ --.+..+.|+..+++|.++-...-.
T Consensus 506 ~~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~-~L---V~~i~SYRGGY~A~DRRKIE~~~F~ 581 (1034)
T KOG4150|consen 506 EKSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAP-HL---VEAITSYRGGYIAEDRRKIESDLFG 581 (1034)
T ss_pred hhhhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhH-HH---HHHHHhhcCccchhhHHHHHHHhhC
Confidence 4577888888999999999999999999998766655544432211000 00 0123346688888888887655442
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCC
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ 1088 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQ 1088 (1321)
++. .-+|+|.|..+||++-+-+.|++...|.+-++..|-.||++|-..
T Consensus 582 ---G~L-~giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk 629 (1034)
T KOG4150|consen 582 ---GKL-CGIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNK 629 (1034)
T ss_pred ---Cee-eEEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCC
Confidence 333 358999999999999999999999999999999999999999653
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=94.53 E-value=0.58 Score=60.33 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=51.5
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-HHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 642 (1321)
..|-+.|..+|.+.+. .....++--..|.|||.++++++..+...+ .++||++|.+. +.+..
T Consensus 156 ~~ln~~Q~~Av~~~l~-------------~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g----~~VLv~a~sn~Avd~l~ 218 (637)
T TIGR00376 156 PNLNESQKEAVSFALS-------------SKDLFLIHGPPGTGKTRTLVELIRQLVKRG----LRVLVTAPSNIAVDNLL 218 (637)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCeEEEEcCCCCCHHHHHHHHHHHHHHcC----CCEEEEcCcHHHHHHHH
Confidence 5789999999987642 224567778899999999999888876543 38999999885 56676
Q ss_pred HHHHH
Q 000740 643 QEFMK 647 (1321)
Q Consensus 643 ~E~~k 647 (1321)
+.+..
T Consensus 219 e~l~~ 223 (637)
T TIGR00376 219 ERLAL 223 (637)
T ss_pred HHHHh
Confidence 66665
No 190
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.49 E-value=0.29 Score=63.09 Aligned_cols=124 Identities=13% Similarity=-0.002 Sum_probs=80.3
Q ss_pred CCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHHHHHHCCCCCCCeEEEEecC-cchhHHHHHHHHHhh-c
Q 000740 603 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPSELKPLRVFMLED-VSRDRRAELLAKWRA-K 679 (1321)
Q Consensus 603 MGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~~kw~p~~~~~l~V~~~~~-~~~~~r~~~l~~~~~-~ 679 (1321)
.|.|||-.-+.++...+..+ +.+||++|.. +..|+..-|...++. -.|.++|+ .+...|...+..... .
T Consensus 169 ~GSGKTevyl~~i~~~l~~G----k~vLvLvPEi~lt~q~~~rl~~~f~~----~~v~~lhS~l~~~~R~~~w~~~~~G~ 240 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAG----RGALVVVPDQRDVDRLEAALRALLGA----GDVAVLSAGLGPADRYRRWLAVLRGQ 240 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcC----CeEEEEecchhhHHHHHHHHHHHcCC----CcEEEECCCCCHHHHHHHHHHHhCCC
Confidence 49999999999888887753 4799999965 889999999998873 24555665 455566555544433 2
Q ss_pred CCEEEEcccccccccccccccchhhHHHHHhhhcC-CCCEEEEcCCccc--CCcchhHHHH--Hh----hcccceEEEEe
Q 000740 680 GGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GPDILVCDEAHMI--KNTRADTTQA--LK----QVKCQRRIALT 750 (1321)
Q Consensus 680 ~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~-~~dlVIlDEAH~I--KN~~S~~ska--l~----~Lka~~RllLT 750 (1321)
..|+|-|...+- ... +.++||+||=|.- |...+..+.+ +- +...-..++-|
T Consensus 241 ~~IViGtRSAvF--------------------aP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgS 300 (665)
T PRK14873 241 ARVVVGTRSAVF--------------------APVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGG 300 (665)
T ss_pred CcEEEEcceeEE--------------------eccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEEC
Confidence 456666655431 111 6789999999853 4333222211 11 12344567779
Q ss_pred cCCC
Q 000740 751 GSPL 754 (1321)
Q Consensus 751 GTPl 754 (1321)
+||-
T Consensus 301 aTPS 304 (665)
T PRK14873 301 HART 304 (665)
T ss_pred CCCC
Confidence 9993
No 191
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.37 E-value=0.02 Score=63.59 Aligned_cols=43 Identities=26% Similarity=0.578 Sum_probs=34.5
Q ss_pred cccccCCC---CceeccCCccccccccccccCCCcccccccccCCCceee--cCCc
Q 000740 378 YCVWCGRS---SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCC--CCSP 428 (1321)
Q Consensus 378 ~C~~C~~g---g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~--~C~p 428 (1321)
-|++|++. -+.+-||-|.|.||..|+ |-+ ..+.|.|.|- +|..
T Consensus 316 lC~IC~~P~~E~E~~FCD~CDRG~HT~CV----GL~----~lP~G~WICD~~C~~~ 363 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFCDVCDRGPHTLCV----GLQ----DLPRGEWICDMRCREA 363 (381)
T ss_pred hhhccCCcccchheeccccccCCCCcccc----ccc----cccCccchhhhHHHHh
Confidence 69999865 489999999999999994 555 3467999998 6643
No 192
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.24 E-value=1 Score=56.24 Aligned_cols=82 Identities=22% Similarity=0.231 Sum_probs=54.8
Q ss_pred CCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccCCEEEEEeC------CCCc------------
Q 000740 1012 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG------SWNP------------ 1073 (1321)
Q Consensus 1012 Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~------~WNP------------ 1073 (1321)
.+-++-|..+.+.+...++ |...+. ..+-+++.|..+...|.+.+.+.|| || .+||
T Consensus 506 eliv~PiYaNLPselQakI---FePtP~-gaRKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~pi 579 (902)
T KOG0923|consen 506 ELIVLPIYANLPSELQAKI---FEPTPP-GARKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPI 579 (902)
T ss_pred eEEEeeccccCChHHHHhh---cCCCCC-CceeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeee
Confidence 4556677788886665544 554333 3445688889999999998887776 44 3444
Q ss_pred --chhhhhhhhhhccCCCCcEEEEEEEeCCC
Q 000740 1074 --TYDLQAIYRAWRYGQTKPVFAYRLMAHGT 1102 (1321)
Q Consensus 1074 --~~d~QAiGRa~RiGQkK~V~VYRLva~gT 1102 (1321)
+.-.||-||++|.| |-.-|||++.-+
T Consensus 580 SKAsA~QRaGRAGRtg---PGKCfRLYt~~a 607 (902)
T KOG0923|consen 580 SKASANQRAGRAGRTG---PGKCFRLYTAWA 607 (902)
T ss_pred chhhhhhhccccCCCC---CCceEEeechhh
Confidence 44568888888877 445677777433
No 193
>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=93.85 E-value=0.38 Score=62.80 Aligned_cols=135 Identities=21% Similarity=0.153 Sum_probs=81.6
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~ 642 (1321)
...|-+-|+++++.+.. ..-.+|--..|.|||..+-+++..+...+ +..++++++|+.......
T Consensus 321 ~~~l~~~Q~~Ai~~~~~--------------~~~~iitGgpGTGKTt~l~~i~~~~~~~~--~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ--------------HKVVILTGGPGTGKTTITRAIIELAEELG--GLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred CCCCCHHHHHHHHHHHh--------------CCeEEEECCCCCCHHHHHHHHHHHHHHcC--CCceEEEEeCchHHHHHH
Confidence 34688999999986631 24688889999999988777766554332 124788899998777655
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlD 722 (1321)
.|.. .. ... .-..++ .|.... .. . ... -.....++||+|
T Consensus 385 ~e~~---g~-----~a~--------Tih~lL-~~~~~~---------~~---------~----~~~--~~~~~~~llIvD 423 (720)
T TIGR01448 385 GEVT---GL-----TAS--------TIHRLL-GYGPDT---------FR---------H----NHL--EDPIDCDLLIVD 423 (720)
T ss_pred HHhc---CC-----ccc--------cHHHHh-hccCCc---------cc---------h----hhh--hccccCCEEEEe
Confidence 5431 10 000 000111 010000 00 0 000 001257899999
Q ss_pred CCcccCCcchhHHHHHhhcccceEEEEecCCCCC
Q 000740 723 EAHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 756 (1321)
Q Consensus 723 EAH~IKN~~S~~skal~~Lka~~RllLTGTPlqN 756 (1321)
||+.+-.. .....+..+...-+++|-|=|-|-
T Consensus 424 EaSMvd~~--~~~~Ll~~~~~~~rlilvGD~~QL 455 (720)
T TIGR01448 424 ESSMMDTW--LALSLLAALPDHARLLLVGDTDQL 455 (720)
T ss_pred ccccCCHH--HHHHHHHhCCCCCEEEEECccccc
Confidence 99998433 345666677778899999998773
No 194
>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=93.76 E-value=0.31 Score=58.22 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=31.2
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHH
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE 644 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E 644 (1321)
.|+--..|.|||+.++.++..+.... ....++++|+...+.+...+
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~~--~~~~~~~l~~n~~l~~~l~~ 49 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNSE--EGKKVLYLCGNHPLRNKLRE 49 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhccc--cCCceEEEEecchHHHHHHH
Confidence 35556689999999999988872221 13477888887766654443
No 195
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=93.59 E-value=1.1 Score=54.53 Aligned_cols=61 Identities=21% Similarity=0.243 Sum_probs=41.0
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
...+|-|.. +|.+. +| +-+.++.|+|-...|.|||+.-++++..+..+.+.. -.-||-|..
T Consensus 15 ~~iYPEQ~~---YM~el-----Kr--sLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~-~~KliYCSR 75 (755)
T KOG1131|consen 15 DYIYPEQYE---YMREL-----KR--SLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDE-HRKLIYCSR 75 (755)
T ss_pred cccCHHHHH---HHHHH-----HH--hhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcc-cceEEEecC
Confidence 356788865 45431 11 125667899999999999999999988877655422 234666643
No 196
>PRK04296 thymidine kinase; Provisional
Probab=93.57 E-value=0.19 Score=54.66 Aligned_cols=34 Identities=18% Similarity=0.242 Sum_probs=25.5
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
.++.-+||.|||..++.++..+... .++++|+.|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~----g~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEER----GMKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHc----CCeEEEEec
Confidence 4667789999999998888776544 247777755
No 197
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=93.38 E-value=0.56 Score=59.97 Aligned_cols=148 Identities=16% Similarity=0.105 Sum_probs=81.7
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 567 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 567 rphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
-+.|+.++.-.. ...-.+|.-..|.|||.++..++..+.........++++++|+.-...=..|--
T Consensus 154 ~d~Qk~Av~~a~--------------~~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 154 VDWQKVAAAVAL--------------TRRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred CHHHHHHHHHHh--------------cCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 489999997553 235678889999999999988888776543222246888899886554333322
Q ss_pred -HHCCCCCCCeEEEEecCcc--hhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000740 647 -KWRPSELKPLRVFMLEDVS--RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 723 (1321)
Q Consensus 647 -kw~p~~~~~l~V~~~~~~~--~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDE 723 (1321)
.-... +.+. .... .......+..+... ... ...+. ........+|+|||||
T Consensus 220 ~~~~~~----~~~~--~~~~~~~~~~a~TiHrlLg~------~~~------------~~~~~--~~~~~~l~~dvlIvDE 273 (615)
T PRK10875 220 GKALRQ----LPLT--DEQKKRIPEEASTLHRLLGA------QPG------------SQRLR--YHAGNPLHLDVLVVDE 273 (615)
T ss_pred Hhhhhc----cccc--hhhhhcCCCchHHHHHHhCc------CCC------------ccchh--hccccCCCCCeEEECh
Confidence 11110 1000 0000 00001111111000 000 00000 0001112679999999
Q ss_pred CcccCCcchhHHHHHhhcccceEEEEecCCCCC
Q 000740 724 AHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 756 (1321)
Q Consensus 724 AH~IKN~~S~~skal~~Lka~~RllLTGTPlqN 756 (1321)
|-.+- ....++.+..+...-|++|-|-|-|-
T Consensus 274 aSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL 304 (615)
T PRK10875 274 ASMVD--LPMMARLIDALPPHARVIFLGDRDQL 304 (615)
T ss_pred Hhccc--HHHHHHHHHhcccCCEEEEecchhhc
Confidence 99984 34556677788888899999998763
No 198
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=93.38 E-value=0.033 Score=64.14 Aligned_cols=43 Identities=23% Similarity=0.585 Sum_probs=35.3
Q ss_pred cccccCCCCceeccCC--cc-ccccccccccCCCcccccccccCCCceeecCCch
Q 000740 378 YCVWCGRSSDLVSCKS--CK-TLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~gg~l~~Cd~--C~-~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
+|- |...|+.+-||+ || .=||..|+... ..+.|.|+|+-|...
T Consensus 223 ~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVGL~--------~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 223 ICN-QVSYGKMIGCDNPGCPIEWFHFTCVGLK--------TKPKGKWYCPRCKAE 268 (274)
T ss_pred Eec-ccccccccccCCCCCCcceEEEeccccc--------cCCCCcccchhhhhh
Confidence 556 779999999999 99 89999996443 345688999999754
No 199
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=92.76 E-value=0.97 Score=58.62 Aligned_cols=114 Identities=21% Similarity=0.177 Sum_probs=79.1
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCC-cEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGK-DWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGS 1053 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi-~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg 1053 (1321)
.+.++|||..+-.++..+...+... .. ..+...|..+ +..++++|....+. .|++.+...+
T Consensus 478 ~~~~~lvlF~Sy~~l~~~~~~~~~~------------~~~~~v~~q~~~~---~~~~l~~f~~~~~~---~~lv~~gsf~ 539 (654)
T COG1199 478 SPGGVLVLFPSYEYLKRVAERLKDE------------RSTLPVLTQGEDE---REELLEKFKASGEG---LILVGGGSFW 539 (654)
T ss_pred cCCCEEEEeccHHHHHHHHHHHhhc------------CccceeeecCCCc---HHHHHHHHHHhcCC---eEEEeecccc
Confidence 4558999999988889888888752 11 2445556555 45899999985443 5899999999
Q ss_pred cccCccc--CCEEEEEeCCCC-cc-----------------------------hhhhhhhhhhccCCCCcEEEEEEEeCC
Q 000740 1054 LGINLHS--ANRVIIVDGSWN-PT-----------------------------YDLQAIYRAWRYGQTKPVFAYRLMAHG 1101 (1321)
Q Consensus 1054 ~GLNLt~--An~VIi~D~~WN-P~-----------------------------~d~QAiGRa~RiGQkK~V~VYRLva~g 1101 (1321)
+|+|+.+ ...|||.-.|+= |. ...||+||+.|--+.+.|.| +..+
T Consensus 540 EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv---llD~ 616 (654)
T COG1199 540 EGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV---LLDK 616 (654)
T ss_pred CcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE---Eecc
Confidence 9999995 478888888874 31 23589999999555555444 4444
Q ss_pred ChHHHHHH
Q 000740 1102 TMEEKIYK 1109 (1321)
Q Consensus 1102 TIEEkI~~ 1109 (1321)
-+..+-|.
T Consensus 617 R~~~~~y~ 624 (654)
T COG1199 617 RYATKRYG 624 (654)
T ss_pred cchhhhHH
Confidence 44444443
No 200
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=92.67 E-value=1.3 Score=57.74 Aligned_cols=150 Identities=17% Similarity=0.157 Sum_probs=86.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~ 642 (1321)
..|-.-|++|+...+.. .....|++. .|.|||-+..+++..++..+ +.+|+.+=++ .|.|-.
T Consensus 668 ~~LN~dQr~A~~k~L~a------------edy~LI~GM-PGTGKTTtI~~LIkiL~~~g----kkVLLtsyThsAVDNIL 730 (1100)
T KOG1805|consen 668 LRLNNDQRQALLKALAA------------EDYALILGM-PGTGKTTTISLLIKILVALG----KKVLLTSYTHSAVDNIL 730 (1100)
T ss_pred hhcCHHHHHHHHHHHhc------------cchheeecC-CCCCchhhHHHHHHHHHHcC----CeEEEEehhhHHHHHHH
Confidence 38889999998765431 223455554 69999998888887776543 5888888654 677766
Q ss_pred HHHHHHCCCCCCCeEEEEecCcchh------------HHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHh
Q 000740 643 QEFMKWRPSELKPLRVFMLEDVSRD------------RRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICH 710 (1321)
Q Consensus 643 ~E~~kw~p~~~~~l~V~~~~~~~~~------------~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ 710 (1321)
--+..+.-. -+++..-+...+. +-...+........|+.+|--.+. + .
T Consensus 731 iKL~~~~i~---~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~---------~--------p 790 (1100)
T KOG1805|consen 731 IKLKGFGIY---ILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGIN---------H--------P 790 (1100)
T ss_pred HHHhccCcc---eeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCC---------c--------h
Confidence 665544211 1222111111111 111122233333344444332211 0 1
Q ss_pred hh-cCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCC
Q 000740 711 AL-QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 755 (1321)
Q Consensus 711 ll-~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlq 755 (1321)
++ ...||++|+|||-.|--+ -++--|....+++|-|-+.|
T Consensus 791 lf~~R~FD~cIiDEASQI~lP-----~~LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 791 LFVNRQFDYCIIDEASQILLP-----LCLGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred hhhccccCEEEEccccccccc-----hhhhhhhhcceEEEeccccc
Confidence 12 237999999999877443 23445577788899898866
No 201
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=92.35 E-value=0.082 Score=65.78 Aligned_cols=48 Identities=27% Similarity=0.642 Sum_probs=37.7
Q ss_pred ccccccCCCC---ceeccCCcccc-ccccccccCCCcccccccccCCCceeecCCchh
Q 000740 377 CYCVWCGRSS---DLVSCKSCKTL-FCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 377 ~~C~~C~~gg---~l~~Cd~C~~~-Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
.-|.+|+-.- -||.||.|..+ ||..||++.+.... .++|+|.-|.-..
T Consensus 216 ~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP------~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 216 VKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESP------VNEWYCTNCSLLE 267 (1134)
T ss_pred ccceeeccCChHHhheeecccccceeeccccCccccccc------ccceecCcchhhh
Confidence 3499998443 47899999999 99999998875553 4589999996443
No 202
>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=92.27 E-value=0.89 Score=58.00 Aligned_cols=149 Identities=17% Similarity=0.137 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhccc-CCCceEEEcchhHHHH-HHHHH
Q 000740 568 AHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHN-WKQEF 645 (1321)
Q Consensus 568 phQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~-~~k~vLIV~P~sLl~q-W~~E~ 645 (1321)
+.|+.++...+. ..-.+|.-..|.|||.++..++..+...... +..++++++|+.-... ..+-+
T Consensus 148 ~~Qk~A~~~al~--------------~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~ 213 (586)
T TIGR01447 148 NWQKVAVALALK--------------SNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESL 213 (586)
T ss_pred HHHHHHHHHHhh--------------CCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHH
Confidence 799999876643 2567888999999999988888777654321 1136899999875543 33333
Q ss_pred HHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCc
Q 000740 646 MKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAH 725 (1321)
Q Consensus 646 ~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH 725 (1321)
..-... +... .... . .-.+-..|...+ +.... ....+.. ..--...+|+||||||-
T Consensus 214 ~~~~~~----l~~~------~~~~----~----~~~~~a~TiHrl--Lg~~~--~~~~~~~--~~~~~l~~dvlIiDEaS 269 (586)
T TIGR01447 214 RKAVKN----LAAA------EALI----A----ALPSEAVTIHRL--LGIKP--DTKRFRH--HERNPLPLDVLVVDEAS 269 (586)
T ss_pred Hhhhcc----cccc------hhhh----h----ccccccchhhhh--hcccC--Ccchhhh--cccCCCcccEEEEcccc
Confidence 222111 1000 0000 0 000000111111 00000 0000000 00011268999999999
Q ss_pred ccCCcchhHHHHHhhcccceEEEEecCCCCC
Q 000740 726 MIKNTRADTTQALKQVKCQRRIALTGSPLQN 756 (1321)
Q Consensus 726 ~IKN~~S~~skal~~Lka~~RllLTGTPlqN 756 (1321)
.+-. ....+.+..+...-|++|.|=|-|=
T Consensus 270 Mvd~--~l~~~ll~al~~~~rlIlvGD~~QL 298 (586)
T TIGR01447 270 MVDL--PLMAKLLKALPPNTKLILLGDKNQL 298 (586)
T ss_pred cCCH--HHHHHHHHhcCCCCEEEEECChhhC
Confidence 8843 3456667777888899999998763
No 203
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=92.04 E-value=0.64 Score=62.61 Aligned_cols=83 Identities=13% Similarity=0.163 Sum_probs=50.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH--HH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN--WK 642 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q--W~ 642 (1321)
..||-|.+-+..+.+.+. .+.-+++=..+|+|||+--+.-+...... ..++++|-+++..+.+ +.
T Consensus 257 e~R~~Q~~m~~~v~~~l~----------~~~~~~iEA~TGtGKTlaYLlpa~~~a~~---~~~~vvIsT~T~~LQ~Ql~~ 323 (928)
T PRK08074 257 EKREGQQEMMKEVYTALR----------DSEHALIEAGTGTGKSLAYLLPAAYFAKK---KEEPVVISTYTIQLQQQLLE 323 (928)
T ss_pred cCCHHHHHHHHHHHHHHh----------cCCCEEEECCCCCchhHHHHHHHHHHhhc---cCCeEEEEcCCHHHHHHHHH
Confidence 678899998877776552 23445566799999998665444322221 2368888888776654 34
Q ss_pred HH---HHHHCCCCCCCeEEEEecC
Q 000740 643 QE---FMKWRPSELKPLRVFMLED 663 (1321)
Q Consensus 643 ~E---~~kw~p~~~~~l~V~~~~~ 663 (1321)
.+ +.+-++. ++++.++.|
T Consensus 324 kDiP~L~~~~~~---~~~~~~lKG 344 (928)
T PRK08074 324 KDIPLLQKIFPF---PVEAALLKG 344 (928)
T ss_pred hhHHHHHHHcCC---CceEEEEEc
Confidence 44 3444543 355555544
No 204
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=91.88 E-value=1.1 Score=58.53 Aligned_cols=95 Identities=18% Similarity=0.206 Sum_probs=62.0
Q ss_pred HHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCC
Q 000740 962 MVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKR 1041 (1321)
Q Consensus 962 l~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~ 1041 (1321)
...+.+.|..+...+.++|||..+-.++..+...|... .+.. +.+.|.. .|.++++.|.+.-+..
T Consensus 520 ~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~-----------~~~~-ll~Q~~~---~~~~ll~~f~~~~~~~ 584 (697)
T PRK11747 520 TAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRD-----------LRLM-LLVQGDQ---PRQRLLEKHKKRVDEG 584 (697)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHh-----------cCCc-EEEeCCc---hHHHHHHHHHHHhccC
Confidence 44555555555445566888888888888888888641 1222 3345542 5778998776421001
Q ss_pred ceEEEeeccccccccCccc--CCEEEEEeCCC
Q 000740 1042 VKCTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1321)
Q Consensus 1042 v~VfLISTkAGg~GLNLt~--An~VIi~D~~W 1071 (1321)
-.-+|+.+....+|||+.+ +..|||.-.|+
T Consensus 585 ~~~VL~g~~sf~EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 585 EGSVLFGLQSFAEGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred CCeEEEEeccccccccCCCCceEEEEEEcCCC
Confidence 1125777788999999985 68888888776
No 205
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=91.87 E-value=1.6 Score=43.54 Aligned_cols=26 Identities=23% Similarity=0.085 Sum_probs=20.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
.+...++.-+.|.|||..+-.++..+
T Consensus 18 ~~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 45678899999999997666665554
No 206
>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=91.76 E-value=1.7 Score=49.72 Aligned_cols=28 Identities=21% Similarity=0.049 Sum_probs=21.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
...+.+|.-+.|.|||..|-++...+..
T Consensus 41 ~~~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 41 QVLHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred CcceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 3456789999999999988777665543
No 207
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=91.45 E-value=3.6 Score=49.89 Aligned_cols=76 Identities=8% Similarity=0.125 Sum_probs=49.8
Q ss_pred CCCCEEEEcCCcccCCcch---hHHHHHhhcc--cceEEEEecCCCCCchhhHHhhhhhhccC-----------CCCChH
Q 000740 714 DGPDILVCDEAHMIKNTRA---DTTQALKQVK--CQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSH 777 (1321)
Q Consensus 714 ~~~dlVIlDEAH~IKN~~S---~~skal~~Lk--a~~RllLTGTPlqNnl~EL~sLl~FL~P~-----------~lgs~~ 777 (1321)
.++|+||+|++.+...... .....+..+. ....++|+||-=+|.+.+++.-+..+.+. .+|..-
T Consensus 253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TKlDet~~~G~~l 332 (388)
T PRK12723 253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTKLDETTCVGNLI 332 (388)
T ss_pred CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeccCCCcchHHH
Confidence 3789999999998753322 2222233232 24679999999889999888877666544 234445
Q ss_pred HHHhhccCCccc
Q 000740 778 EFRNRFQNPIEN 789 (1321)
Q Consensus 778 eF~~~f~~pI~~ 789 (1321)
.+......|+..
T Consensus 333 ~~~~~~~~Pi~y 344 (388)
T PRK12723 333 SLIYEMRKEVSY 344 (388)
T ss_pred HHHHHHCCCEEE
Confidence 566666777653
No 208
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=91.23 E-value=0.11 Score=61.83 Aligned_cols=50 Identities=22% Similarity=0.630 Sum_probs=39.3
Q ss_pred cccccCCCC---ceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 378 YCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.|.+|...- -|+.||+|...||.-||.|++-+- +.-...-.|+|--|+-.
T Consensus 546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~--Pkk~kn~gWqCsECdk~ 598 (707)
T KOG0957|consen 546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRL--PKKNKNFGWQCSECDKN 598 (707)
T ss_pred eeeeeccchhhHHHhhcchhhceeeccccCCccccC--cccccCcceeecccccc
Confidence 499998665 589999999999999999988665 22334567999999544
No 209
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=91.16 E-value=0.49 Score=55.63 Aligned_cols=37 Identities=27% Similarity=0.436 Sum_probs=26.5
Q ss_pred CEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCC
Q 000740 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 755 (1321)
Q Consensus 717 dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlq 755 (1321)
.+||+|||+++-.+ +.--.+.+.-...+|+|||-|-|
T Consensus 353 ~FiIIDEaQNLTph--eikTiltR~G~GsKIVl~gd~aQ 389 (436)
T COG1875 353 SFIIIDEAQNLTPH--ELKTILTRAGEGSKIVLTGDPAQ 389 (436)
T ss_pred ceEEEehhhccCHH--HHHHHHHhccCCCEEEEcCCHHH
Confidence 46999999988432 23334455567789999999966
No 210
>PRK08116 hypothetical protein; Validated
Probab=91.01 E-value=5.3 Score=46.05 Aligned_cols=48 Identities=19% Similarity=0.286 Sum_probs=33.2
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE 644 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E 644 (1321)
.+.|.+|.-..|.|||..+.+++..+...+ .+++++.-..++......
T Consensus 113 ~~~gl~l~G~~GtGKThLa~aia~~l~~~~----~~v~~~~~~~ll~~i~~~ 160 (268)
T PRK08116 113 ENVGLLLWGSVGTGKTYLAACIANELIEKG----VPVIFVNFPQLLNRIKST 160 (268)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHHcC----CeEEEEEHHHHHHHHHHH
Confidence 345799999999999999999888876542 356555544444444333
No 211
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=90.74 E-value=1 Score=44.24 Aligned_cols=44 Identities=14% Similarity=0.032 Sum_probs=29.8
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~ 642 (1321)
...+|.-.+|.|||..+..++..+.... ..++++.+......|.
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~----~~~~~~~~~~~~~~~~ 46 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGEDILEEVL 46 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCC----CCEEEECCEEccccCH
Confidence 5678889999999998888776652221 2567777665554433
No 212
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=90.45 E-value=2.4 Score=55.44 Aligned_cols=67 Identities=18% Similarity=0.109 Sum_probs=37.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
.-||-|.+-+..+.+.+.+. . ...+.-+++=..+|+|||+--+.-....... ..++++|-+.+..++
T Consensus 25 e~R~~Q~~M~~~V~~al~~~----~-~~~~~~lviEAgTGtGKTlaYLlPai~~A~~---~~k~vVIST~T~~LQ 91 (697)
T PRK11747 25 IPRAGQRQMIAEVAKTLAGE----Y-LKDGRILVIEAGTGVGKTLSYLLAGIPIARA---EKKKLVISTATVALQ 91 (697)
T ss_pred CcCHHHHHHHHHHHHHHhcc----c-ccccceEEEECCCCcchhHHHHHHHHHHHHH---cCCeEEEEcCCHHHH
Confidence 46888999887777655310 0 0012334455689999998655443332221 124666666655554
No 213
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.27 E-value=1.6 Score=57.90 Aligned_cols=69 Identities=17% Similarity=0.311 Sum_probs=45.0
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH--H
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN--W 641 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q--W 641 (1321)
-..||-|.+-...+.+.+. .+.-.++-..+|.|||+.-+.-+.. .. ...+++|.+|+..+.+ +
T Consensus 244 ~e~R~~Q~~ma~~V~~~l~----------~~~~~~~eA~tGtGKT~ayllp~l~---~~--~~~~vvI~t~T~~Lq~Ql~ 308 (820)
T PRK07246 244 LEERPKQESFAKLVGEDFH----------DGPASFIEAQTGIGKTYGYLLPLLA---QS--DQRQIIVSVPTKILQDQIM 308 (820)
T ss_pred CccCHHHHHHHHHHHHHHh----------CCCcEEEECCCCCcHHHHHHHHHHH---hc--CCCcEEEEeCcHHHHHHHH
Confidence 3678899998877776542 2344666679999999765444322 21 1358999999886654 3
Q ss_pred HHHHHH
Q 000740 642 KQEFMK 647 (1321)
Q Consensus 642 ~~E~~k 647 (1321)
..++..
T Consensus 309 ~~~i~~ 314 (820)
T PRK07246 309 AEEVKA 314 (820)
T ss_pred HHHHHH
Confidence 344443
No 214
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=89.72 E-value=0.11 Score=67.23 Aligned_cols=58 Identities=22% Similarity=0.273 Sum_probs=45.0
Q ss_pred cccccCCCCceeccCC-ccccccc-cccccCCCcccccccccCCCceeecCCch---hHHHHHHHHH
Q 000740 378 YCVWCGRSSDLVSCKS-CKTLFCT-TCVKRNISEACLSDEVQASCWQCCCCSPS---LLKRLTSELG 439 (1321)
Q Consensus 378 ~C~~C~~gg~l~~Cd~-C~~~Fc~-~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~---~l~~l~~~~~ 439 (1321)
.|++|+.-|.++||+. ||..||. .||++ .++..-..++.|.|.-|-.. +...|..+++
T Consensus 430 rl~Ie~~det~l~yysT~pqly~ll~cLd~----~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R 492 (1414)
T KOG1473|consen 430 RLRIEGMDETLLWYYSTCPQLYHLLRCLDR----TYVEMYLCDGIWERREEIIRQMGLTEELTNELR 492 (1414)
T ss_pred eeEEecCCCcEEEEecCcHHHHHHHHHhch----HHHHHhhccchhhhHHHHHHhccchhhhhhhhh
Confidence 3999999999999999 9999998 99754 44444456889999999533 4456666655
No 215
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.61 E-value=0.16 Score=62.86 Aligned_cols=45 Identities=27% Similarity=0.610 Sum_probs=36.9
Q ss_pred ccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecC
Q 000740 377 CYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1321)
Q Consensus 377 ~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1321)
.-|.+|..||.++||+.||-+||..|.+..+.+.. .-..|.|-.|
T Consensus 48 ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~-----~~~~~~~~~~ 92 (613)
T KOG4299|consen 48 TSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDL-----KGSEINCSRC 92 (613)
T ss_pred hhcchhhhcCCccccccCccccchhccCcccCccc-----ccccccccCC
Confidence 47999999999999999999999999988887442 2355766666
No 216
>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=89.61 E-value=1.9 Score=50.01 Aligned_cols=42 Identities=19% Similarity=0.069 Sum_probs=28.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
.+.+.+|.-+.|.|||..|-++...+...+....++++.|.+
T Consensus 57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~ 98 (284)
T TIGR02880 57 PTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR 98 (284)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH
Confidence 455788999999999999988777765543322234444443
No 217
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=89.58 E-value=2 Score=55.46 Aligned_cols=95 Identities=20% Similarity=0.328 Sum_probs=53.6
Q ss_pred CCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccC--CCcEEecCCCCCHHHHHHHHHHHh----CCCCCCceEEEeec
Q 000740 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKK--GKDWYRLDGRTESSERQKLVERFN----EPLNKRVKCTLIST 1049 (1321)
Q Consensus 976 g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~--Gi~y~rldGsts~~eR~~lI~~Fn----~~~n~~v~VfLIST 1049 (1321)
...+|||-.+-.+++-+..+... ..+|.. +..-+.+--. +..+=.+++.+|- ++....+-.|-+.-
T Consensus 561 p~G~L~FfPSY~vmdk~~tfw~~-------~~~we~~~~vk~l~vEPr-~k~~f~e~m~~y~~~i~~pes~ga~~~aVcR 632 (945)
T KOG1132|consen 561 PYGLLIFFPSYPVMDKLITFWQN-------RGLWERMEKVKKLVVEPR-SKSEFTEVMSRYYNAIADPESSGAVFFAVCR 632 (945)
T ss_pred ccceEEeccchHHHHHHHHHHHc-------chHHHHhhcccCceeccC-CccchHHHHHHHHHHhhCccccceEEEEEec
Confidence 45599999988888888666553 122321 1111111111 2223334455553 22222232456666
Q ss_pred cccccccCcc--cCCEEEEEeCCCCcchhhh
Q 000740 1050 RAGSLGINLH--SANRVIIVDGSWNPTYDLQ 1078 (1321)
Q Consensus 1050 kAGg~GLNLt--~An~VIi~D~~WNP~~d~Q 1078 (1321)
...++||++. .+.-||+.-.++=|..|.|
T Consensus 633 GKVSEGlDFsD~~~RaVI~tGlPyP~~~D~~ 663 (945)
T KOG1132|consen 633 GKVSEGLDFSDDNGRAVIITGLPYPPVMDPR 663 (945)
T ss_pred ccccCCCCccccCCceeEEecCCCCCCCCHH
Confidence 6788999998 4667788888887766643
No 218
>PRK06526 transposase; Provisional
Probab=89.56 E-value=1.4 Score=50.44 Aligned_cols=29 Identities=21% Similarity=0.196 Sum_probs=24.3
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.+.+.+|.-..|.|||..+.++...+...
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 45789999999999999999988776543
No 219
>CHL00181 cbbX CbbX; Provisional
Probab=88.95 E-value=3 Score=48.58 Aligned_cols=46 Identities=20% Similarity=0.165 Sum_probs=30.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl 638 (1321)
.+...+|.-..|.|||..|-++...+...+....++++.|-...++
T Consensus 58 ~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~ 103 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLV 103 (287)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHH
Confidence 3445789999999999999888776654433333444444444343
No 220
>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=88.51 E-value=3.1 Score=46.05 Aligned_cols=27 Identities=22% Similarity=-0.018 Sum_probs=21.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+...+|--+.|.|||..+.++.....
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 456788889999999998888776554
No 221
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=87.79 E-value=3.9 Score=43.63 Aligned_cols=48 Identities=23% Similarity=0.254 Sum_probs=34.8
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHHH
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 648 (1321)
.+++-+.|.|||..++.|++.....+ .++++|.......+..+.+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~g----~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLARG----EPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHCC----CcEEEEECCCCHHHHHHHHHHc
Confidence 36788999999999999988876542 4788888665555555555443
No 222
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=87.28 E-value=1.2 Score=53.87 Aligned_cols=33 Identities=33% Similarity=0.451 Sum_probs=27.1
Q ss_pred cchhhhhhhhhhccCCCCcEEEEEEEeCCChHH
Q 000740 1073 PTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEE 1105 (1321)
Q Consensus 1073 P~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEE 1105 (1321)
|..-.||.-|++|.|.+++-.-+||+++...+.
T Consensus 359 PISkasA~qR~gragrt~pGkcfrLYte~~~~~ 391 (699)
T KOG0925|consen 359 PISKASAQQRAGRAGRTRPGKCFRLYTEEAFEK 391 (699)
T ss_pred cchHhHHHHHhhhccCCCCCceEEeecHHhhhh
Confidence 566778888899999999999999998765544
No 223
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=86.81 E-value=1.2 Score=52.31 Aligned_cols=144 Identities=16% Similarity=0.188 Sum_probs=68.7
Q ss_pred cceEEEcCCCCchHHHHHH-HHHHHHHhc-----ccCCCc-eEEEcchh-HHHHHHHHHHHHCC----CCCCCeEEE-Ee
Q 000740 595 LGCILAHTMGLGKTFQVIA-FLYTAMRSV-----NLGLRT-ALIVTPVN-VLHNWKQEFMKWRP----SELKPLRVF-ML 661 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIa-ll~~ll~~~-----~~~~k~-vLIV~P~s-Ll~qW~~E~~kw~p----~~~~~l~V~-~~ 661 (1321)
+-.|=-.-+|.|||++-+. ++...++.. ..+-+| -|||||.. |..|-.+-+..++. .+.+.++-. .+
T Consensus 208 RDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~Lci 287 (610)
T KOG0341|consen 208 RDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCI 287 (610)
T ss_pred CceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhh
Confidence 3444445689999986322 111111111 112234 59999987 44454443443321 111223322 22
Q ss_pred cCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCC--cchhHHHHHh
Q 000740 662 EDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKN--TRADTTQALK 739 (1321)
Q Consensus 662 ~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN--~~S~~skal~ 739 (1321)
.|.........+ ...-++++.|...+..+.. .+.+.- +--.|+.+|||.++-. ..-.+-..+.
T Consensus 288 GG~~v~eql~~v---~~GvHivVATPGRL~DmL~-----KK~~sL-------d~CRyL~lDEADRmiDmGFEddir~iF~ 352 (610)
T KOG0341|consen 288 GGVPVREQLDVV---RRGVHIVVATPGRLMDMLA-----KKIMSL-------DACRYLTLDEADRMIDMGFEDDIRTIFS 352 (610)
T ss_pred cCccHHHHHHHH---hcCeeEEEcCcchHHHHHH-----HhhccH-------HHHHHhhhhhHHHHhhccchhhHHHHHH
Confidence 333333333332 2344677777776643211 111111 1234689999999854 2333333344
Q ss_pred hcccc-eEEEEecCC
Q 000740 740 QVKCQ-RRIALTGSP 753 (1321)
Q Consensus 740 ~Lka~-~RllLTGTP 753 (1321)
-+++. ..++.|||-
T Consensus 353 ~FK~QRQTLLFSATM 367 (610)
T KOG0341|consen 353 FFKGQRQTLLFSATM 367 (610)
T ss_pred HHhhhhheeeeeccc
Confidence 44443 468889984
No 224
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=86.08 E-value=0.37 Score=59.76 Aligned_cols=43 Identities=28% Similarity=0.722 Sum_probs=34.0
Q ss_pred cccccC---CCCceeccCCccccccccccccCCCcccccccccCCCceeecC
Q 000740 378 YCVWCG---RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1321)
Q Consensus 378 ~C~~C~---~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1321)
.|-.|+ +.+.++.|+.|-=+||-.|++|.... ...++|.|.-|
T Consensus 70 vCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~------v~sg~~~ckk~ 115 (694)
T KOG4443|consen 70 VCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDK------VPSGPWLCKKC 115 (694)
T ss_pred eeeeccccCCcccccccccccccccccccCCcccc------ccCcccccHHH
Confidence 566776 44578999999999999999877543 46789998766
No 225
>PHA02533 17 large terminase protein; Provisional
Probab=85.96 E-value=6.3 Score=49.89 Aligned_cols=56 Identities=18% Similarity=0.077 Sum_probs=36.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
-.|.|+|+.-+..|+. ++-.++.-.=..|||..+.+++........ ...+++++|.
T Consensus 58 f~L~p~Q~~i~~~~~~--------------~R~~ii~~aRq~GKStl~a~~al~~a~~~~--~~~v~i~A~~ 113 (534)
T PHA02533 58 VQMRDYQKDMLKIMHK--------------NRFNACNLSRQLGKTTVVAIFLLHYVCFNK--DKNVGILAHK 113 (534)
T ss_pred cCCcHHHHHHHHHHhc--------------CeEEEEEEcCcCChHHHHHHHHHHHHHhCC--CCEEEEEeCC
Confidence 5688999998877631 122355556789999988766544433222 2478888884
No 226
>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=85.93 E-value=1.2 Score=56.63 Aligned_cols=174 Identities=16% Similarity=0.146 Sum_probs=101.6
Q ss_pred ccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 557 ~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
..|........|||++-+..|-+ ..-....+.-..-+|||..++.++.+.+... ..|+|+|.|.-
T Consensus 8 ~~pG~w~~~~~Py~~eimd~~~~------------~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~---P~~~l~v~Pt~ 72 (557)
T PF05876_consen 8 AEPGPWRTDRTPYLREIMDALSD------------PSVREVVVMKSAQVGKTELLLNWIGYSIDQD---PGPMLYVQPTD 72 (557)
T ss_pred CCCCCCCCCCChhHHHHHHhcCC------------cCccEEEEEEcchhhHhHHHHhhceEEEEeC---CCCEEEEEEcH
Confidence 34556677889999998776622 2245678888889999998877776654432 36999999986
Q ss_pred -HHHHHHHH-HHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcC
Q 000740 637 -VLHNWKQE-FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1321)
Q Consensus 637 -Ll~qW~~E-~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~ 714 (1321)
....|..+ |...+... ..++-.+.....+........+....+.+.+.+..+-.++ -..
T Consensus 73 ~~a~~~~~~rl~Pmi~~s-p~l~~~~~~~~~~~~~~t~~~k~f~gg~l~~~ga~S~~~l------------------~s~ 133 (557)
T PF05876_consen 73 DAAKDFSKERLDPMIRAS-PVLRRKLSPSKSRDSGNTILYKRFPGGFLYLVGANSPSNL------------------RSR 133 (557)
T ss_pred HHHHHHHHHHHHHHHHhC-HHHHHHhCchhhcccCCchhheecCCCEEEEEeCCCCccc------------------ccC
Confidence 56667644 33322110 0111111110011111112222223444555555443322 122
Q ss_pred CCCEEEEcCCccc----CCcchhHHHHHhhc---ccceEEEEecCCCCCchhhHHhh
Q 000740 715 GPDILVCDEAHMI----KNTRADTTQALKQV---KCQRRIALTGSPLQNNLMEYYCM 764 (1321)
Q Consensus 715 ~~dlVIlDEAH~I----KN~~S~~skal~~L---ka~~RllLTGTPlqNnl~EL~sL 764 (1321)
..++|++||...+ ++.......+..+. ...+++++..||......-++.+
T Consensus 134 ~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~ 190 (557)
T PF05876_consen 134 PARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERL 190 (557)
T ss_pred CcCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHH
Confidence 6789999999887 44556666666655 35689999999987754444443
No 227
>PF13245 AAA_19: Part of AAA domain
Probab=85.68 E-value=2.5 Score=39.12 Aligned_cols=45 Identities=16% Similarity=0.165 Sum_probs=34.3
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q 640 (1321)
-.++--..|.|||.+++..+..+......+.+++|||+|.....+
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~ 56 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAAD 56 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHH
Confidence 355588999999999999998887542222568999999986554
No 228
>PRK07952 DNA replication protein DnaC; Validated
Probab=85.65 E-value=7.7 Score=44.15 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=31.4
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
.|.+|.-..|.|||..+.+++..+...+ .+++++. +..|...+.
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l~~~g----~~v~~it----~~~l~~~l~ 143 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNELLLRG----KSVLIIT----VADIMSAMK 143 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcC----CeEEEEE----HHHHHHHHH
Confidence 4789999999999999999988876542 3565552 344555443
No 229
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=84.76 E-value=11 Score=49.57 Aligned_cols=54 Identities=15% Similarity=0.199 Sum_probs=32.8
Q ss_pred ccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceE-EEcCCCCchHHHHHHHHHHHH
Q 000740 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCI-LAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 557 ~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgI-LADeMGLGKTlQaIall~~ll 619 (1321)
++|..|. =|.-|+..|...+...+. +....++| +.-..|.|||.++-.++..+.
T Consensus 752 YVPD~LP--hREeEIeeLasfL~paIk-------gsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 752 VVPKYLP--CREKEIKEVHGFLESGIK-------QSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred cCCCcCC--ChHHHHHHHHHHHHHHHh-------cCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 4454433 255566666555443321 12233454 899999999999988876653
No 230
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=84.33 E-value=12 Score=41.55 Aligned_cols=52 Identities=21% Similarity=0.331 Sum_probs=37.3
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh-cccCCCceEEEcchhHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS-VNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~-~~~~~k~vLIV~P~sLl~qW~~E~~kw 648 (1321)
.|.-.+++-+.|.|||+-++-|++..+.. +. +++.|.-.....++.+.+..+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge----~vlyvs~ee~~~~l~~~~~s~ 70 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGE----KVLYVSFEEPPEELIENMKSF 70 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT------EEEEESSS-HHHHHHHHHTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC----cEEEEEecCCHHHHHHHHHHc
Confidence 34557888999999999999999887766 43 778888555556666666654
No 231
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=83.16 E-value=8 Score=45.95 Aligned_cols=46 Identities=13% Similarity=0.074 Sum_probs=34.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
++|+|....+-+... +..+...++.-.-|.|||..|.+|...++..
T Consensus 4 ~yPWl~~~~~~~~~~----------~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 4 IYPWQQSLWQQLAGR----------GRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred CCCCcHHHHHHHHHC----------CCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 578888876655421 2345667889999999999999999888754
No 232
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=83.12 E-value=22 Score=42.43 Aligned_cols=56 Identities=16% Similarity=0.200 Sum_probs=37.3
Q ss_pred cccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 556 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 556 v~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
-++|..+.. |..|++.+...+..... +..+.+.++.-..|.|||..+-+++..+..
T Consensus 11 ~~~p~~l~g--Re~e~~~l~~~l~~~~~-------~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 11 DYVPDRIVH--RDEQIEELAKALRPILR-------GSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CCCCCCCCC--cHHHHHHHHHHHHHHHc-------CCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 456665533 67777777555443321 234467888899999999988888776643
No 233
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=83.05 E-value=19 Score=40.81 Aligned_cols=22 Identities=23% Similarity=0.274 Sum_probs=16.8
Q ss_pred ceEEEcCCCCchHHHHHHHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ 617 (1321)
-.+|.-+.|.|||..+-.++..
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHh
Confidence 3678899999999777665443
No 234
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=83.04 E-value=0.57 Score=48.62 Aligned_cols=27 Identities=26% Similarity=0.625 Sum_probs=22.0
Q ss_pred cccccccccCCCcccccccccCCCceeecCCch
Q 000740 397 LFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 397 ~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.||..||+|++. ..+.+.|+|+.|...
T Consensus 1 g~H~~CL~Ppl~------~~P~g~W~Cp~C~~~ 27 (148)
T cd04718 1 GFHLCCLRPPLK------EVPEGDWICPFCEVE 27 (148)
T ss_pred CcccccCCCCCC------CCCCCCcCCCCCcCC
Confidence 489999999883 346789999999755
No 235
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=83.04 E-value=6.4 Score=48.90 Aligned_cols=27 Identities=22% Similarity=0.148 Sum_probs=21.6
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
+...|+.-+.|.|||..|..++..+..
T Consensus 40 ~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 40 GHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 344799999999999988888776643
No 236
>PRK08727 hypothetical protein; Validated
Probab=82.48 E-value=12 Score=42.25 Aligned_cols=26 Identities=27% Similarity=0.193 Sum_probs=21.1
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
...+|.-..|+|||--+.++......
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~ 67 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQ 67 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 45899999999999888887776544
No 237
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=82.08 E-value=0.74 Score=45.43 Aligned_cols=48 Identities=23% Similarity=0.694 Sum_probs=34.1
Q ss_pred cccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 380 VWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 380 ~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
++|..-...--|..|...||-.||..-.|.. +.++.++..|.||.|.-
T Consensus 22 ~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~-~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 22 TICTGHWKNSSCRGCRGKFCGGCLRNRYGEN-VEEVLEDPNWKCPKCRG 69 (105)
T ss_pred eEcCCCCCCCCCccCcceehHhHHHHHHhhh-HHHHhcCCceECCCCCC
Confidence 4443333444455569999999999888865 44466788999999854
No 238
>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=82.07 E-value=14 Score=45.45 Aligned_cols=127 Identities=15% Similarity=0.139 Sum_probs=92.3
Q ss_pred CchHHHHHH-HHHHhh--cCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 959 SGKMVLLLD-ILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 959 S~Kl~~L~e-iL~~~~--~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
..++..+.+ +|..+. ....++|||..+=--.-.|..+|.+ .++.|..++=-++..+-.++-..|.
T Consensus 280 d~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~------------~~~sF~~i~EYts~~~isRAR~~F~ 347 (442)
T PF06862_consen 280 DARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKK------------ENISFVQISEYTSNSDISRARSQFF 347 (442)
T ss_pred hHHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHh------------cCCeEEEecccCCHHHHHHHHHHHH
Confidence 346666665 444444 3456899998877666678888885 6899999999999999999999999
Q ss_pred CCCCCCceEEEeeccccc-cccCcccCCEEEEEeCCCCcchhhhhhhhhhccCC----CCcEEEEEEEeC
Q 000740 1036 EPLNKRVKCTLISTRAGS-LGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ----TKPVFAYRLMAH 1100 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg-~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQ----kK~V~VYRLva~ 1100 (1321)
. ++..++|.|-++-= .=..+-++.+||+|.||-+|.-+...+.-+..-.+ ...+.|.-|.++
T Consensus 348 ~---G~~~iLL~TER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk 414 (442)
T PF06862_consen 348 H---GRKPILLYTERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSK 414 (442)
T ss_pred c---CCceEEEEEhHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecH
Confidence 6 56778888877532 23567789999999999999988877755544333 234444444443
No 239
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=82.04 E-value=15 Score=48.07 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
....||.-.-|.|||..+..|...+..
T Consensus 38 ~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 38 HHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455689999999999998888877653
No 240
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=82.03 E-value=6.6 Score=46.44 Aligned_cols=52 Identities=19% Similarity=0.241 Sum_probs=39.3
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
...++|+|....+.+...+. .+.-....++.-.-|+||+..|.+|+..++..
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~-------~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALD-------AGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred CccccccHHHHHHHHHHHHH-------cCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 45789999998776654432 22344578899999999999999999888764
No 241
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=81.83 E-value=40 Score=41.19 Aligned_cols=75 Identities=15% Similarity=0.088 Sum_probs=41.5
Q ss_pred CCCEEEEcCCcccCCcchhHHH---HHhhcc-cceEEEEecCCCCCchhhHHhhhhhhccC-----------CCCChHHH
Q 000740 715 GPDILVCDEAHMIKNTRADTTQ---ALKQVK-CQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSHEF 779 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~sk---al~~Lk-a~~RllLTGTPlqNnl~EL~sLl~FL~P~-----------~lgs~~eF 779 (1321)
++|+||+|-+=+.-+....... .+.... ....++|+||--.+.+.++...++.+.+. .+|..-..
T Consensus 320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~~idglI~TKLDET~k~G~iLni 399 (436)
T PRK11889 320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVFTKFDETASSGELLKI 399 (436)
T ss_pred CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCCCCCEEEEEcccCCCCccHHHHH
Confidence 5789999988654433222222 222222 22346677776666767776666655433 23444455
Q ss_pred HhhccCCccc
Q 000740 780 RNRFQNPIEN 789 (1321)
Q Consensus 780 ~~~f~~pI~~ 789 (1321)
...+..||..
T Consensus 400 ~~~~~lPIsy 409 (436)
T PRK11889 400 PAVSSAPIVL 409 (436)
T ss_pred HHHHCcCEEE
Confidence 6666677654
No 242
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=81.67 E-value=4.5 Score=42.13 Aligned_cols=45 Identities=27% Similarity=0.431 Sum_probs=31.0
Q ss_pred HHHHHHHHHhCCCCCCceEEEeeccc--cccccCccc--CCEEEEEeCCC
Q 000740 1026 ERQKLVERFNEPLNKRVKCTLISTRA--GSLGINLHS--ANRVIIVDGSW 1071 (1321)
Q Consensus 1026 eR~~lI~~Fn~~~n~~v~VfLISTkA--Gg~GLNLt~--An~VIi~D~~W 1071 (1321)
+...++++|+...+.. ..+|+++.. .++||||++ +..||+.-.|+
T Consensus 32 ~~~~~l~~f~~~~~~~-g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 32 ETEELLEKYSAACEAR-GALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred hHHHHHHHHHHhcCCC-CEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence 4578999998743311 124555544 799999995 67888888776
No 243
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=81.63 E-value=12 Score=46.47 Aligned_cols=50 Identities=10% Similarity=-0.079 Sum_probs=30.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 645 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 645 (1321)
..+.+|.-+.|+|||..+-|+...+..... ...++.|.+..++......+
T Consensus 141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~--~~~v~yv~~~~f~~~~~~~l 190 (450)
T PRK14087 141 YNPLFIYGESGMGKTHLLKAAKNYIESNFS--DLKVSYMSGDEFARKAVDIL 190 (450)
T ss_pred cCceEEECCCCCcHHHHHHHHHHHHHHhCC--CCeEEEEEHHHHHHHHHHHH
Confidence 356889999999999888777665544321 23555555554444443333
No 244
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=81.38 E-value=13 Score=45.78 Aligned_cols=55 Identities=15% Similarity=0.195 Sum_probs=36.8
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc------ccceEEEEecCCCCCchhhHHhhhhhhcc
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV------KCQRRIALTGSPLQNNLMEYYCMVDFVRE 770 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L------ka~~RllLTGTPlqNnl~EL~sLl~FL~P 770 (1321)
++|+||||.+-+...... ....+..+ .....++|++|+=++.+.+++..+..+.+
T Consensus 299 ~~DlVlIDt~G~~~~d~~-~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKR-LIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCCHH-HHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 689999999876543222 22222222 23557999999988888888887776664
No 245
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=81.24 E-value=8 Score=45.48 Aligned_cols=24 Identities=25% Similarity=0.182 Sum_probs=21.0
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll 619 (1321)
..+|.-+.|.|||..+.++...+.
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 688999999999999999887764
No 246
>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=80.98 E-value=8.6 Score=50.72 Aligned_cols=60 Identities=13% Similarity=0.016 Sum_probs=42.8
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q 640 (1321)
..|-+-|+.++..+.. ...-.+|-...|.|||..+-+++..+... ..++++++|+.....
T Consensus 351 ~~Ls~~Q~~Av~~i~~-------------s~~~~il~G~aGTGKTtll~~i~~~~~~~----g~~V~~~ApTg~Aa~ 410 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTG-------------SGDIAVVVGRAGTGKSTMLKAAREAWEAA----GYRVIGAALSGKAAE 410 (744)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCEEEEEecCCCCHHHHHHHHHHHHHhC----CCeEEEEeCcHHHHH
Confidence 4578999999987641 12357888999999998877766554332 247888999886543
No 247
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=80.81 E-value=16 Score=47.19 Aligned_cols=28 Identities=18% Similarity=0.089 Sum_probs=22.5
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
....|+.-..|.|||..|-.|...+...
T Consensus 38 ~hAyLf~Gp~GvGKTTlAr~lAk~L~c~ 65 (647)
T PRK07994 38 HHAYLFSGTRGVGKTTIARLLAKGLNCE 65 (647)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhhhhc
Confidence 3446899999999999998888777553
No 248
>PRK08084 DNA replication initiation factor; Provisional
Probab=80.71 E-value=12 Score=42.10 Aligned_cols=26 Identities=15% Similarity=-0.049 Sum_probs=20.3
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
+...+|.-..|.|||--+.++...+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~ 70 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELS 70 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 45788999999999987777665543
No 249
>PLN03025 replication factor C subunit; Provisional
Probab=80.52 E-value=16 Score=43.14 Aligned_cols=25 Identities=28% Similarity=0.348 Sum_probs=21.2
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll 619 (1321)
...||.-..|.|||..+.+++..+.
T Consensus 35 ~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHh
Confidence 4589999999999999988877764
No 250
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=80.48 E-value=7.7 Score=46.76 Aligned_cols=63 Identities=22% Similarity=0.312 Sum_probs=46.2
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
+|-+-|...+.++++.+.. ..+...+|--.-|.|||...=+++..+.. ..+.+++++|+.+..
T Consensus 1 ~Ln~eQ~~~~~~v~~~~~~--------~~~~~~fv~G~~GtGKs~l~~~i~~~~~~----~~~~~~~~a~tg~AA 63 (364)
T PF05970_consen 1 KLNEEQRRVFDTVIEAIEN--------EEGLNFFVTGPAGTGKSFLIKAIIDYLRS----RGKKVLVTAPTGIAA 63 (364)
T ss_pred CCCHHHHHHHHHHHHHHHc--------cCCcEEEEEcCCCCChhHHHHHHHHHhcc----ccceEEEecchHHHH
Confidence 3667799998888765532 35667788889999999887776665532 235899999998765
No 251
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=80.37 E-value=9.5 Score=45.79 Aligned_cols=29 Identities=10% Similarity=0.141 Sum_probs=23.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.+...++.-+.|+|||..+..++..++..
T Consensus 44 l~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 44 LHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred CCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 34568889999999999999888877653
No 252
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=80.15 E-value=10 Score=47.03 Aligned_cols=27 Identities=22% Similarity=0.170 Sum_probs=22.0
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
...+|.-..|+|||..+-++...+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~ 175 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEK 175 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 557899999999999888887776543
No 253
>PRK14974 cell division protein FtsY; Provisional
Probab=80.09 E-value=32 Score=41.10 Aligned_cols=47 Identities=13% Similarity=0.177 Sum_probs=29.1
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch----hHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV----NVLHNWKQEF 645 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~----sLl~qW~~E~ 645 (1321)
.-.++.-..|.|||.++..++..+... ..+++++... ..+.||..-.
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~----g~~V~li~~Dt~R~~a~eqL~~~a 191 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKN----GFSVVIAAGDTFRAGAIEQLEEHA 191 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHc----CCeEEEecCCcCcHHHHHHHHHHH
Confidence 446677899999998877776655432 1356666542 3455664433
No 254
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=79.72 E-value=6.9 Score=40.71 Aligned_cols=52 Identities=25% Similarity=0.377 Sum_probs=35.9
Q ss_pred EecCCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccc--CCEEEEEeCCC
Q 000740 1016 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1321)
Q Consensus 1016 ~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~GLNLt~--An~VIi~D~~W 1071 (1321)
+.+-|. ...+...+++.|...... .+|+++...++|||+.+ +..||+.-.|+
T Consensus 26 i~~e~~-~~~~~~~~l~~f~~~~~~---~iL~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 26 LLVQGE-DGKETGKLLEKYVEACEN---AILLATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred EEEeCC-ChhHHHHHHHHHHHcCCC---EEEEEccceecceecCCCCeeEEEEEecCC
Confidence 334443 334578899999864221 35777766999999995 57788888776
No 255
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.47 E-value=11 Score=48.65 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=21.5
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
....||.-.-|.|||..|.+++..+.
T Consensus 37 ~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 37 HHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 45679999999999988888877664
No 256
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=79.29 E-value=9.1 Score=49.14 Aligned_cols=29 Identities=17% Similarity=0.123 Sum_probs=23.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.....||.-.-|+|||..|..+...+...
T Consensus 45 i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 45 IAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 44678899999999999999988877543
No 257
>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=79.14 E-value=1.9 Score=46.17 Aligned_cols=43 Identities=14% Similarity=0.370 Sum_probs=25.5
Q ss_pred hhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCC
Q 000740 677 RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKN 729 (1321)
Q Consensus 677 ~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN 729 (1321)
....+|+|++|..+-.. .....+. .+...-.+||+||||+|-+
T Consensus 117 ~~~adivi~~y~yl~~~---------~~~~~~~-~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 117 AKNADIVICNYNYLFDP---------SIRKSLF-GIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp GGG-SEEEEETHHHHSH---------HHHHHHC-T--CCCEEEEETTGGGCGG
T ss_pred cccCCEEEeCHHHHhhH---------HHHhhhc-cccccCcEEEEecccchHH
Confidence 35679999999876421 1111111 1233567899999999843
No 258
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=78.90 E-value=8 Score=41.80 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=23.9
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 598 ILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
+..-.|+.|||...|..+..+... .++++++-|.
T Consensus 5 ~i~GpM~sGKS~eLi~~~~~~~~~----~~~v~~~kp~ 38 (176)
T PF00265_consen 5 FITGPMFSGKSTELIRRIHRYEIA----GKKVLVFKPA 38 (176)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT----T-EEEEEEES
T ss_pred EEECCcCChhHHHHHHHHHHHHhC----CCeEEEEEec
Confidence 345689999999888877665433 3577877775
No 259
>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=78.61 E-value=23 Score=37.55 Aligned_cols=32 Identities=19% Similarity=0.142 Sum_probs=23.6
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcc
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN 623 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~ 623 (1321)
.-+...|+.-.-|.||+-.|.+|+..++....
T Consensus 17 ~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~ 48 (162)
T PF13177_consen 17 RLPHALLFHGPSGSGKKTLALAFARALLCSNP 48 (162)
T ss_dssp C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-
T ss_pred CcceeEEEECCCCCCHHHHHHHHHHHHcCCCC
Confidence 34456788899999999999999988866543
No 260
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=78.55 E-value=13 Score=49.43 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=22.4
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.+..||.-.-|.|||..+..|...++.
T Consensus 37 ~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 37 NHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 455789999999999999888877754
No 261
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=78.38 E-value=1 Score=55.67 Aligned_cols=60 Identities=30% Similarity=0.574 Sum_probs=40.8
Q ss_pred CCCcccccccCCCCceeccCC--------ccccccccccccCCCccc----------ccccccCCCceeecCCchhHH
Q 000740 373 DCSECYCVWCGRSSDLVSCKS--------CKTLFCTTCVKRNISEAC----------LSDEVQASCWQCCCCSPSLLK 432 (1321)
Q Consensus 373 d~~~~~C~~C~~gg~l~~Cd~--------C~~~Fc~~Cl~~~~~~~~----------~~~~~~~~~W~C~~C~p~~l~ 432 (1321)
.-..++|.+|.+||.+++|+. |+.++|..|+.+...... ...+...-.|-|++|.+..+.
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~~~d~~~~~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~ 163 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQLEKCSKRCTDCRAFKKREVGDLVWSKVGEYPWWPCMVCHDPLLP 163 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcCccCcccccCCcceeeeccccceeEEeEEcCcccccccceecCcccc
Confidence 344469999999999999993 788888888776222222 222223445779999876544
No 262
>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=78.04 E-value=13 Score=45.51 Aligned_cols=28 Identities=21% Similarity=0.147 Sum_probs=22.2
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
....+|--..|+|||..+-++...+...
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 3457899999999999988887776543
No 263
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=77.96 E-value=0.82 Score=63.10 Aligned_cols=51 Identities=22% Similarity=0.625 Sum_probs=40.0
Q ss_pred CCcccccccCCCC---ceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 374 CSECYCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 374 ~~~~~C~~C~~gg---~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
-..-.|.+|...+ .++.||.|-.+||..|+.+-+... +.+.|.|+-|.+..
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~------~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSV------PPGDWMCPSCRKEH 1159 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccC------CcCCccCCccchhh
Confidence 3334699997555 579999999999999997765443 44679999999885
No 264
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=77.87 E-value=25 Score=42.45 Aligned_cols=31 Identities=10% Similarity=0.104 Sum_probs=26.0
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhc
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~ 622 (1321)
.-+...|+.-.-|+|||..|.+|...++...
T Consensus 39 rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 39 RLHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 3456788999999999999999999988654
No 265
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=77.80 E-value=8 Score=51.97 Aligned_cols=107 Identities=21% Similarity=0.287 Sum_probs=71.0
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH-----HHHHHHHHHCCCCCCCeEEEEecCcch
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-----NWKQEFMKWRPSELKPLRVFMLEDVSR 666 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-----qW~~E~~kw~p~~~~~l~V~~~~~~~~ 666 (1321)
..+...+++...|.|||+.| -++.+. +....++.-++|...+. -|..-|.+-.. +.+..+.|...
T Consensus 1157 ~~nd~v~vga~~gsgkt~~a--e~a~l~---~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G-----~~~~~l~ge~s 1226 (1674)
T KOG0951|consen 1157 NTNDNVLVGAPNGSGKTACA--ELALLR---PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLG-----LRIVKLTGETS 1226 (1674)
T ss_pred cccceEEEecCCCCchhHHH--HHHhcC---CccceEEEEecchHHHHHHHHHHHHHhhccccC-----ceEEecCCccc
Confidence 45678999999999999654 333332 33456889999987654 47777766522 55555555432
Q ss_pred hHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCc
Q 000740 667 DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNT 730 (1321)
Q Consensus 667 ~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEAH~IKN~ 730 (1321)
.. .. ....++|+|.+.+.+..+. .....++.|+||.|.|...
T Consensus 1227 ~~-lk----l~~~~~vii~tpe~~d~lq-----------------~iQ~v~l~i~d~lh~igg~ 1268 (1674)
T KOG0951|consen 1227 LD-LK----LLQKGQVIISTPEQWDLLQ-----------------SIQQVDLFIVDELHLIGGV 1268 (1674)
T ss_pred cc-hH----HhhhcceEEechhHHHHHh-----------------hhhhcceEeeehhhhhccc
Confidence 21 11 2256789999998876531 1125688999999999754
No 266
>PRK08181 transposase; Validated
Probab=77.76 E-value=20 Score=41.46 Aligned_cols=29 Identities=24% Similarity=0.250 Sum_probs=24.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.+.+.+|.-..|.|||.-+.++...+...
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred cCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 45789999999999999999988776553
No 267
>PRK06835 DNA replication protein DnaC; Validated
Probab=77.19 E-value=30 Score=41.22 Aligned_cols=29 Identities=17% Similarity=0.195 Sum_probs=24.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.+.+.+|.-.+|+|||..+.|++..++..
T Consensus 182 ~~~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 182 NNENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 34788999999999999999988887654
No 268
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.87 E-value=17 Score=46.46 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=21.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.+..|+.-.-|.|||..|.+|+..+..
T Consensus 35 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 35 NHAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 344689999999999999988877653
No 269
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=76.86 E-value=7.4 Score=50.55 Aligned_cols=72 Identities=17% Similarity=0.171 Sum_probs=51.2
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-HHHH
Q 000740 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNW 641 (1321)
Q Consensus 563 ~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l~qW 641 (1321)
....||+|.+.+..+.+.+ ..+.++++=..+|+|||+-.|+.......... ++++|.+++.. ..|-
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~----------~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~---~~viist~t~~lq~q~ 79 (654)
T COG1199 13 GFEPRPEQREMAEAVAEAL----------KGGEGLLIEAPTGTGKTLAYLLPALAYAREEG---KKVIISTRTKALQEQL 79 (654)
T ss_pred CCCCCHHHHHHHHHHHHHH----------cCCCcEEEECCCCccHHHHHHHHHHHHHHHcC---CcEEEECCCHHHHHHH
Confidence 3467999999988776433 34566889999999999998888777655432 57888888774 4454
Q ss_pred HHHHHH
Q 000740 642 KQEFMK 647 (1321)
Q Consensus 642 ~~E~~k 647 (1321)
..+...
T Consensus 80 ~~~~~~ 85 (654)
T COG1199 80 LEEDLP 85 (654)
T ss_pred HHhhcc
Confidence 455433
No 270
>PRK12377 putative replication protein; Provisional
Probab=76.48 E-value=1.1e+02 Score=35.16 Aligned_cols=43 Identities=19% Similarity=0.236 Sum_probs=30.0
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q 640 (1321)
..+.+|.-..|.|||..+.|+...+...+ .+++++.-..++..
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g----~~v~~i~~~~l~~~ 143 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKG----RSVIVVTVPDVMSR 143 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcC----CCeEEEEHHHHHHH
Confidence 35788999999999999999988876532 34555443444443
No 271
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=76.37 E-value=7.7 Score=46.21 Aligned_cols=50 Identities=12% Similarity=0.038 Sum_probs=36.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.++|+|...-+.+...+. .+.-+..-+++-.-|+||+..|.+|...++..
T Consensus 2 ~~yPWl~~~~~~l~~~~~-------~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~ 51 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQ-------AGRGHHALLIQALPGMGDDALIYALSRWLMCQ 51 (334)
T ss_pred CCCCCChHHHHHHHHHHH-------cCCcceEEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 367888877665544322 22345677899999999999999999888764
No 272
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=75.87 E-value=1.3 Score=49.48 Aligned_cols=46 Identities=33% Similarity=0.792 Sum_probs=34.0
Q ss_pred CCCcccccccC--CCCceeccCC--ccc-cccccccccCCCcccccccccCCCceeecCC
Q 000740 373 DCSECYCVWCG--RSSDLVSCKS--CKT-LFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 373 d~~~~~C~~C~--~gg~l~~Cd~--C~~-~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
.|..-||- |. .=|+.+-||+ |+| =||..|+. -. ..+.|.|+|.-|.
T Consensus 218 e~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVG----Lk----~pPKG~WYC~eCk 268 (271)
T COG5034 218 EGEELYCF-CQQVSYGQMVACDNANCKREWFHLECVG----LK----EPPKGKWYCPECK 268 (271)
T ss_pred cCceeEEE-ecccccccceecCCCCCchhheeccccc----cC----CCCCCcEeCHHhH
Confidence 44555663 44 4489999999 997 79999963 33 4567999999884
No 273
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=75.64 E-value=20 Score=45.02 Aligned_cols=76 Identities=21% Similarity=0.154 Sum_probs=49.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
...+....+.+.|.+...-. +.+. .-....|.||+-..|.|||+.|-++.... ..+++-|-...++..|.-
T Consensus 248 ~~~k~~l~e~v~~~~~~~e~-~~~~-~~~~~~giLl~GpPGtGKT~lAkava~~~-------~~~fi~v~~~~l~sk~vG 318 (494)
T COG0464 248 EEAKEELKEAIETPLKRPEL-FRKL-GLRPPKGVLLYGPPGTGKTLLAKAVALES-------RSRFISVKGSELLSKWVG 318 (494)
T ss_pred HHHHHHHHHHHHhHhhChHH-HHhc-CCCCCCeeEEECCCCCCHHHHHHHHHhhC-------CCeEEEeeCHHHhccccc
Confidence 34566677777777653221 1110 11345699999999999999988876532 235555555588888887
Q ss_pred HHHHH
Q 000740 644 EFMKW 648 (1321)
Q Consensus 644 E~~kw 648 (1321)
|..+-
T Consensus 319 esek~ 323 (494)
T COG0464 319 ESEKN 323 (494)
T ss_pred hHHHH
Confidence 77653
No 274
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=75.62 E-value=4.4 Score=51.64 Aligned_cols=80 Identities=28% Similarity=0.347 Sum_probs=53.7
Q ss_pred HHHHhCCCCCCceEEEeeccccccccCcccCC-------EE-EEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCC
Q 000740 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSAN-------RV-IIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGT 1102 (1321)
Q Consensus 1031 I~~Fn~~~n~~v~VfLISTkAGg~GLNLt~An-------~V-Ii~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gT 1102 (1321)
..+|-++ .-.|-+|| .|++.||.||.-. || |-++.||+...-+|-+||.||-.|-..-....||++=-
T Consensus 850 KqrFM~G---eK~vAIIS-EAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlIseLA 925 (1300)
T KOG1513|consen 850 KQRFMDG---EKLVAIIS-EAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLISELA 925 (1300)
T ss_pred Hhhhccc---cceeeeee-hhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEehhhc
Confidence 4578763 33355666 6889999999654 44 45999999999999999999999985433333444433
Q ss_pred hHHHHHHHHHHHH
Q 000740 1103 MEEKIYKRQVTKE 1115 (1321)
Q Consensus 1103 IEEkI~~rq~~K~ 1115 (1321)
=|.+ +.-.+.|+
T Consensus 926 GErR-FAS~VAKR 937 (1300)
T KOG1513|consen 926 GERR-FASIVAKR 937 (1300)
T ss_pred cchH-HHHHHHHH
Confidence 3333 44444443
No 275
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=75.21 E-value=3.5 Score=49.68 Aligned_cols=46 Identities=20% Similarity=0.426 Sum_probs=34.0
Q ss_pred cccCCcchhhhhhcCcccC-----CCCCc------ccccccCCCCceeccCCccccc
Q 000740 353 VIVCKDCKCLLEKKMHVKD-----ADCSE------CYCVWCGRSSDLVSCKSCKTLF 398 (1321)
Q Consensus 353 ~~~C~~C~~~~~~~~~~~d-----~d~~~------~~C~~C~~gg~l~~Cd~C~~~F 398 (1321)
.+-|..|--..++|-|..+ ..|+. .||.-|--|-.|--|..||.-|
T Consensus 136 i~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~ 192 (707)
T KOG0957|consen 136 ILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRF 192 (707)
T ss_pred eeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcC
Confidence 4567777766777766665 22222 4899999999999999999876
No 276
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=75.03 E-value=1.1 Score=54.76 Aligned_cols=59 Identities=12% Similarity=0.207 Sum_probs=45.3
Q ss_pred CCCCcccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCchhHHHHH
Q 000740 372 ADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLLKRLT 435 (1321)
Q Consensus 372 ~d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~l~~l~ 435 (1321)
..+.+.||.-|.-.|..+.|+.|-|+||..|+.+-.-... ...+|.|+.|.+-+-+.+.
T Consensus 56 ~~N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~-----~s~p~~~p~p~s~k~~~~~ 114 (588)
T KOG3612|consen 56 SSNIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRN-----YSVPSDKPQPYSFKVNELD 114 (588)
T ss_pred ccCCCcccccccCCcceeeeehhhccccccccCcchhhcc-----ccccccCCcccccCCCccc
Confidence 3466779999999999999999999999999865433222 4578999999766544433
No 277
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=74.94 E-value=21 Score=41.80 Aligned_cols=40 Identities=13% Similarity=0.156 Sum_probs=24.3
Q ss_pred CCCEEEEcCCcccCCcch--hHHHHHhhcccceEEEEecCCC
Q 000740 715 GPDILVCDEAHMIKNTRA--DTTQALKQVKCQRRIALTGSPL 754 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S--~~skal~~Lka~~RllLTGTPl 754 (1321)
.+++||+||+|.+..... .....+.......++++|++..
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence 567899999998833221 1222233335566788888653
No 278
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.84 E-value=26 Score=42.18 Aligned_cols=26 Identities=23% Similarity=0.174 Sum_probs=21.2
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+..+|.-+.|.|||..|-+++..+.
T Consensus 38 ~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 38 HHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 34568999999999998888877664
No 279
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=74.58 E-value=24 Score=47.82 Aligned_cols=133 Identities=16% Similarity=0.131 Sum_probs=74.3
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE 644 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E 644 (1321)
.|-+-|.++|..+.. ...-.+|--.-|.|||.+.-+++ ..+... ...+++++|+.....=..+
T Consensus 346 ~Ls~eQr~Av~~il~-------------s~~v~vv~G~AGTGKTT~l~~~~-~~~e~~---G~~V~~~ApTGkAA~~L~e 408 (988)
T PRK13889 346 VLSGEQADALAHVTD-------------GRDLGVVVGYAGTGKSAMLGVAR-EAWEAA---GYEVRGAALSGIAAENLEG 408 (988)
T ss_pred CCCHHHHHHHHHHhc-------------CCCeEEEEeCCCCCHHHHHHHHH-HHHHHc---CCeEEEecCcHHHHHHHhh
Confidence 488899999886641 12246788889999998654433 333321 2468888998765432211
Q ss_pred HHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000740 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1321)
Q Consensus 645 ~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDEA 724 (1321)
- . + + . ...+..|... + .. . .......++||||||
T Consensus 409 ~---t--G---i--------~----a~TI~sll~~-------~---~~--------~--------~~~l~~~~vlIVDEA 442 (988)
T PRK13889 409 G---S--G---I--------A----SRTIASLEHG-------W---GQ--------G--------RDLLTSRDVLVIDEA 442 (988)
T ss_pred c---c--C---c--------c----hhhHHHHHhh-------h---cc--------c--------ccccccCcEEEEECc
Confidence 0 0 0 0 0 0111111100 0 00 0 001125689999999
Q ss_pred cccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHH
Q 000740 725 HMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYY 762 (1321)
Q Consensus 725 H~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~ 762 (1321)
-.+... ...+.+... ...-+++|.|=|-|-...+--
T Consensus 443 SMv~~~--~m~~LL~~a~~~garvVLVGD~~QLpsV~aG 479 (988)
T PRK13889 443 GMVGTR--QLERVLSHAADAGAKVVLVGDPQQLQAIEAG 479 (988)
T ss_pred ccCCHH--HHHHHHHhhhhCCCEEEEECCHHHcCCCCCC
Confidence 988543 344444433 567899999999876554433
No 280
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=74.53 E-value=20 Score=44.45 Aligned_cols=27 Identities=19% Similarity=0.177 Sum_probs=21.7
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
...+|.-..|+|||.-+-++...+...
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~ 157 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQN 157 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHh
Confidence 468899999999999888877766543
No 281
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.35 E-value=11 Score=48.43 Aligned_cols=27 Identities=22% Similarity=0.196 Sum_probs=22.5
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
....||.-.-|.|||..|..|...+..
T Consensus 38 ~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 38 APAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhccc
Confidence 456788999999999999988877653
No 282
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.32 E-value=2.2 Score=52.95 Aligned_cols=40 Identities=23% Similarity=0.334 Sum_probs=29.0
Q ss_pred cCCCCchHHHHHHHHHHHHHhcccCCCceEEEc-chhHHHHHHH
Q 000740 601 HTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT-PVNVLHNWKQ 643 (1321)
Q Consensus 601 DeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~-P~sLl~qW~~ 643 (1321)
..+|.|||+++.++|...+..+ .+.+|..| -++++..-..
T Consensus 4 matgsgkt~~ma~lil~~y~kg---yr~flffvnq~nilekt~~ 44 (812)
T COG3421 4 MATGSGKTLVMAGLILECYKKG---YRNFLFFVNQANILEKTKL 44 (812)
T ss_pred cccCCChhhHHHHHHHHHHHhc---hhhEEEEecchhHHHHHHh
Confidence 4589999999999998887654 45677766 4566654433
No 283
>PRK11054 helD DNA helicase IV; Provisional
Probab=74.27 E-value=8.6 Score=50.18 Aligned_cols=83 Identities=11% Similarity=0.010 Sum_probs=57.1
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
..|-|-|..+|..- .+ ..++-..-|.|||.++++-+.+++.........+|+++...-..+...
T Consensus 195 ~~L~~~Q~~av~~~---------------~~-~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~ 258 (684)
T PRK11054 195 SPLNPSQARAVVNG---------------ED-SLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMD 258 (684)
T ss_pred CCCCHHHHHHHhCC---------------CC-CeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHH
Confidence 46888999988521 23 344555699999999999999888765444568999999988877666
Q ss_pred H-HHHHCCCCCCCeEEEEecCc
Q 000740 644 E-FMKWRPSELKPLRVFMLEDV 664 (1321)
Q Consensus 644 E-~~kw~p~~~~~l~V~~~~~~ 664 (1321)
| +...++. ..+.+.++|+.
T Consensus 259 eRL~~~lg~--~~v~v~TFHSl 278 (684)
T PRK11054 259 ERIRERLGT--EDITARTFHAL 278 (684)
T ss_pred HHHHHhcCC--CCcEEEeHHHH
Confidence 6 5555441 23455555543
No 284
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=74.06 E-value=19 Score=44.72 Aligned_cols=37 Identities=24% Similarity=0.054 Sum_probs=26.0
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
.+.+|.-+.|+|||.-+-++...+... ..+++.+...
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~~----~~~v~yi~~~ 178 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRES----GGKILYVRSE 178 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHHc----CCCEEEeeHH
Confidence 567888999999999888887776543 1345555433
No 285
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.83 E-value=28 Score=44.98 Aligned_cols=27 Identities=19% Similarity=0.111 Sum_probs=22.4
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.+..||.-.-|+|||..+..|...+..
T Consensus 38 pHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 38 HHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455688999999999999888887754
No 286
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=73.77 E-value=12 Score=42.79 Aligned_cols=50 Identities=26% Similarity=0.351 Sum_probs=40.1
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
.+.|.+|--..|.|||..++|+...+... ..+++++.-+.++.+++..+.
T Consensus 104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~----g~sv~f~~~~el~~~Lk~~~~ 153 (254)
T COG1484 104 RGENLVLLGPPGVGKTHLAIAIGNELLKA----GISVLFITAPDLLSKLKAAFD 153 (254)
T ss_pred cCCcEEEECCCCCcHHHHHHHHHHHHHHc----CCeEEEEEHHHHHHHHHHHHh
Confidence 56899999999999999999999888743 247788777777777776664
No 287
>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=73.65 E-value=6.5 Score=45.30 Aligned_cols=57 Identities=19% Similarity=0.099 Sum_probs=40.5
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl 638 (1321)
|-+-|...|++. .+..++-..-|.|||.+++.-+..++.........+|+|+++...
T Consensus 1 l~~eQ~~~i~~~----------------~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 1 LTDEQRRIIRST----------------EGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp S-HHHHHHHHS-----------------SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHH
T ss_pred CCHHHHHHHhCC----------------CCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHH
Confidence 345677777652 234555566999999999999888887765556789999998754
No 288
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.61 E-value=23 Score=47.16 Aligned_cols=26 Identities=23% Similarity=0.165 Sum_probs=21.1
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
...||.-+.|.|||..+-.|+..+..
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhccC
Confidence 34589999999999999888877643
No 289
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=73.55 E-value=2.6 Score=56.29 Aligned_cols=48 Identities=21% Similarity=0.510 Sum_probs=37.4
Q ss_pred CcccccccCCC-----CceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 375 SECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 375 ~~~~C~~C~~g-----g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
.|..|.+|-+| ...+-||.|.-+.|..|-... ..+++.|.|..|.-+|
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~--------~ipeg~WlCr~Cl~s~ 270 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP--------FIPEGQWLCRRCLQSP 270 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcchhhhhccCCC--------CCCCCcEeehhhccCc
Confidence 34578888766 467999999999999996522 3356899999998776
No 290
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=73.48 E-value=35 Score=34.79 Aligned_cols=33 Identities=15% Similarity=0.128 Sum_probs=23.0
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 598 ILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
++.-..|.|||..+..++...... .++++++..
T Consensus 3 ~i~G~~G~GKT~l~~~i~~~~~~~----~~~v~~~~~ 35 (165)
T cd01120 3 LVFGPTGSGKTTLALQLALNIATK----GGKVVYVDI 35 (165)
T ss_pred eEeCCCCCCHHHHHHHHHHHHHhc----CCEEEEEEC
Confidence 456678999999998887766442 246666654
No 291
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=73.42 E-value=12 Score=41.01 Aligned_cols=59 Identities=14% Similarity=0.180 Sum_probs=33.7
Q ss_pred cCCCCEEEEcCCcccCCcch---hHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhhhhccC
Q 000740 713 QDGPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREG 771 (1321)
Q Consensus 713 ~~~~dlVIlDEAH~IKN~~S---~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~FL~P~ 771 (1321)
..++|+|++|-+.+.-+... ...+.+..+ ....-++|++|=-+..+..+......+.+.
T Consensus 81 ~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~ 143 (196)
T PF00448_consen 81 KKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGID 143 (196)
T ss_dssp HTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTC
T ss_pred hcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCc
Confidence 34789999999876543322 122222222 455678888887766666555555555433
No 292
>PRK06921 hypothetical protein; Provisional
Probab=73.24 E-value=27 Score=40.23 Aligned_cols=29 Identities=28% Similarity=0.205 Sum_probs=24.2
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.+.+.+|.-..|+|||..+.|++..+...
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 35788999999999999999988877543
No 293
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=73.16 E-value=30 Score=41.97 Aligned_cols=45 Identities=16% Similarity=0.153 Sum_probs=30.8
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~ 642 (1321)
|.-.+|+-++|.|||..++.++..+... .+++|.|.-.-...|..
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~----g~~VlYvs~EEs~~qi~ 126 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKR----GGKVLYVSGEESPEQIK 126 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhc----CCeEEEEECCcCHHHHH
Confidence 4457888999999999888887766443 24777776443334443
No 294
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=72.97 E-value=36 Score=39.89 Aligned_cols=39 Identities=26% Similarity=0.316 Sum_probs=24.9
Q ss_pred CCCEEEEcCCccc-CCcchhHHHH---Hhhc--ccceEEEEecCC
Q 000740 715 GPDILVCDEAHMI-KNTRADTTQA---LKQV--KCQRRIALTGSP 753 (1321)
Q Consensus 715 ~~dlVIlDEAH~I-KN~~S~~ska---l~~L--ka~~RllLTGTP 753 (1321)
+..++|+||.|++ .+...+.-.. ++.| .-+--+++.||+
T Consensus 145 ~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 145 GVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred CCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 8899999999996 4444443333 3334 223346778887
No 295
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=72.78 E-value=32 Score=40.91 Aligned_cols=49 Identities=14% Similarity=0.040 Sum_probs=35.2
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
++|+|...-+-+...+. .+.-+.+.++.-.-|+||+..|.+|...++..
T Consensus 3 ~yPW~~~~~~~l~~~~~-------~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~ 51 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQ-------QGLGHHALLFKADSGLGTEQLIRALAQWLMCQ 51 (325)
T ss_pred CCcchHHHHHHHHHHHH-------cCCcceeEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 47887776655544322 22345677789999999999999999888764
No 296
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=72.76 E-value=30 Score=41.76 Aligned_cols=29 Identities=21% Similarity=0.214 Sum_probs=23.1
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
..+.+.++.-..|+|||..+-.++..+..
T Consensus 53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~ 81 (394)
T PRK00411 53 SRPLNVLIYGPPGTGKTTTVKKVFEELEE 81 (394)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34567899999999999998888776543
No 297
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=72.67 E-value=9.7 Score=48.11 Aligned_cols=48 Identities=17% Similarity=0.129 Sum_probs=30.2
Q ss_pred CCCchHHHHHHHHHHHHHhcccCCCceEEEcch-----hHHHHHHHHHHHHCCCC
Q 000740 603 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-----NVLHNWKQEFMKWRPSE 652 (1321)
Q Consensus 603 MGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~-----sLl~qW~~E~~kw~p~~ 652 (1321)
=-=|||..++++|..++..-. .=.+..|+=- .+...-...+.+|+|..
T Consensus 211 RRHGKTWf~VpiIsllL~s~~--gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~ 263 (668)
T PHA03372 211 RRHGKTWFIIPIISFLLKNII--GISIGYVAHQKHVSQFVLKEVEFRCRRMFPRK 263 (668)
T ss_pred ccCCceehHHHHHHHHHHhhc--CceEEEEeeHHHHHHHHHHHHHHHHhhhcCcc
Confidence 345999999999888876432 1245555532 23334555677898863
No 298
>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.
Probab=71.92 E-value=33 Score=36.51 Aligned_cols=54 Identities=20% Similarity=0.227 Sum_probs=33.9
Q ss_pred cCCCCEEEEcCCcccCCc----chhHHHHHhhcccceEEEEecCCCCCchhhHHhhhh
Q 000740 713 QDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD 766 (1321)
Q Consensus 713 ~~~~dlVIlDEAH~IKN~----~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~ 766 (1321)
...+|+||+||.=..-+. .......+.+-...--++|||-=.+..+.|+..++.
T Consensus 93 ~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD~VT 150 (159)
T cd00561 93 SGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAADLVT 150 (159)
T ss_pred cCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCceee
Confidence 348999999998665332 234444444444555799999766655555544443
No 299
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=71.76 E-value=13 Score=43.29 Aligned_cols=43 Identities=16% Similarity=0.118 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 569 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 569 hQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
+|-..|+-|.+.+.. ......++--..|.|||-++.+|...+.
T Consensus 40 gQe~vV~~L~~a~~~--------~~lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLR--------RILPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred chHHHHHHHHHHHhh--------cCCceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 577777766654431 2345678889999999999999988774
No 300
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=71.45 E-value=25 Score=38.62 Aligned_cols=58 Identities=21% Similarity=0.245 Sum_probs=35.1
Q ss_pred hcCCCCEEEEcCCcccCCc----chhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhc
Q 000740 712 LQDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1321)
Q Consensus 712 l~~~~dlVIlDEAH~IKN~----~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~ 769 (1321)
....||+||+||.=..-+. ...+...+..-...--++|||-=....+.|+..++.-+.
T Consensus 112 ~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p~~Lie~ADlVTEm~ 173 (191)
T PRK05986 112 ADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAPRELIEAADLVTEMR 173 (191)
T ss_pred hCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCchheecc
Confidence 3458999999998655442 234444444434445799999855555555544444333
No 301
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=71.03 E-value=1.3 Score=49.86 Aligned_cols=48 Identities=21% Similarity=0.528 Sum_probs=36.7
Q ss_pred CCCcccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCchhH
Q 000740 373 DCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLL 431 (1321)
Q Consensus 373 d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~l 431 (1321)
|... .|++|..-=..-|=-.|...||..||.+.+|.. =+|++|...|.
T Consensus 23 Ds~l-rC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~q----------p~CP~Cr~~~~ 70 (391)
T COG5432 23 DSML-RCRICDCRISIPCETTCGHTFCSLCIRRHLGTQ----------PFCPVCREDPC 70 (391)
T ss_pred hhHH-HhhhhhheeecceecccccchhHHHHHHHhcCC----------CCCccccccHH
Confidence 4444 688887666655556699999999999999877 35999987763
No 302
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=70.95 E-value=25 Score=41.64 Aligned_cols=55 Identities=24% Similarity=0.311 Sum_probs=35.4
Q ss_pred HHHHhhhcCCCCEEEEcCCcccCCcc------hhHHHHHhhc--ccceEEEEe--cCCCCCchhh
Q 000740 706 REICHALQDGPDILVCDEAHMIKNTR------ADTTQALKQV--KCQRRIALT--GSPLQNNLME 760 (1321)
Q Consensus 706 ~~i~~ll~~~~dlVIlDEAH~IKN~~------S~~skal~~L--ka~~RllLT--GTPlqNnl~E 760 (1321)
+.+.+....++|+|++|=|-|+-|.. .++.+.++.. .+++.++|+ ||-=||.+..
T Consensus 212 DAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~Q 276 (340)
T COG0552 212 DAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQ 276 (340)
T ss_pred HHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHH
Confidence 34555566799999999999997753 2333333332 355665555 8877877654
No 303
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=70.87 E-value=38 Score=42.69 Aligned_cols=28 Identities=21% Similarity=0.162 Sum_probs=23.2
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.....||.-+.|.|||..|-+|...+..
T Consensus 42 i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 42 LAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3467899999999999999888877654
No 304
>PRK06893 DNA replication initiation factor; Validated
Probab=70.76 E-value=29 Score=38.89 Aligned_cols=25 Identities=12% Similarity=-0.087 Sum_probs=20.0
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
..+|.-..|+|||.-+.++...+..
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~~ 65 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYLL 65 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4588999999999888887766544
No 305
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=70.28 E-value=2.5 Score=48.72 Aligned_cols=47 Identities=32% Similarity=0.644 Sum_probs=32.6
Q ss_pred CCcccccccC---CCCceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 374 CSECYCVWCG---RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 374 ~~~~~C~~C~---~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
....+|..|+ .++.-+-|..|...||..|- ..+. +.--.|+-|..+|
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCD-v~iH---------esLh~CpgCeh~~ 377 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDCD-VFIH---------ESLHNCPGCEHKP 377 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccch-HHHH---------hhhhcCCCcCCCC
Confidence 3445799993 45677889999999999993 1111 1224699997654
No 306
>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=70.25 E-value=25 Score=44.38 Aligned_cols=97 Identities=16% Similarity=0.183 Sum_probs=69.7
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
...|||-.+.+.++......|.++||.+........+.+.|.+. .|..+..++|.++..+|.+...+-.
T Consensus 5 ~TGsGKT~v~l~~i~~~l~~g~~vLvlvP~i~L~~Q~~~~l~~~-----------f~~~v~vlhs~~~~~er~~~~~~~~ 73 (505)
T TIGR00595 5 VTGSGKTEVYLQAIEKVLALGKSVLVLVPEIALTPQMIQRFKYR-----------FGSQVAVLHSGLSDSEKLQAWRKVK 73 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH-----------hCCcEEEEECCCCHHHHHHHHHHHH
Confidence 46799999999999888888999999999998888888888752 3567888999999988887776665
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEe
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1068 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D 1068 (1321)
+ +...| ++.|+..- =+-+.....||+-+
T Consensus 74 ~---g~~~I-VVGTrsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 74 N---GEILV-VIGTRSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred c---CCCCE-EECChHHH-cCcccCCCEEEEEC
Confidence 4 33443 55555422 12344555555444
No 307
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.51 E-value=35 Score=43.10 Aligned_cols=27 Identities=19% Similarity=0.083 Sum_probs=21.7
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
+...|+.-..|.|||..|-.|...+..
T Consensus 38 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~c 64 (509)
T PRK14958 38 HHAYLFTGTRGVGKTTISRILAKCLNC 64 (509)
T ss_pred CeeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345689999999999988888877653
No 308
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=68.94 E-value=51 Score=39.98 Aligned_cols=27 Identities=22% Similarity=0.239 Sum_probs=21.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+.-.+|.-..|.|||.++..++..+.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~ 162 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCV 162 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 355677889999999999888877654
No 309
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.57 E-value=37 Score=42.49 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.2
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
+...||.-+.|.|||..|-+++..+.
T Consensus 36 ~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 36 SHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34579999999999998888877654
No 310
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=68.45 E-value=20 Score=46.03 Aligned_cols=53 Identities=11% Similarity=0.144 Sum_probs=32.0
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHHH----HHHCCC
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEF----MKWRPS 651 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~----~kw~p~ 651 (1321)
-+..-.==-|||..+.++|..++.... ...+++++|-. +...-.+|+ ++|+|.
T Consensus 257 tVflVPRR~GKTwivv~iI~~ll~s~~--Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~ 314 (738)
T PHA03368 257 TVFLVPRRHGKTWFLVPLIALALATFR--GIKIGYTAHIRKATEPVFEEIGARLRQWFGA 314 (738)
T ss_pred eEEEecccCCchhhHHHHHHHHHHhCC--CCEEEEEcCcHHHHHHHHHHHHHHHhhhcch
Confidence 344444557999988877766654422 24788899854 444444444 456654
No 311
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=68.14 E-value=2.4 Score=53.37 Aligned_cols=45 Identities=24% Similarity=0.669 Sum_probs=34.5
Q ss_pred CcccccccCC-----CCceeccCCccccccccccccCCCcccccccccCCCceeecCC
Q 000740 375 SECYCVWCGR-----SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 375 ~~~~C~~C~~-----gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
++-.|-+|.- +.+++-||.|.-|-|+.|-..+ ..++++|.|--|.
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIl--------e~p~gpWlCr~Ca 319 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGIL--------EVPEGPWLCRTCA 319 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhcee--------ecCCCCeeehhcc
Confidence 3346777764 5799999999999999995332 2356999999994
No 312
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.09 E-value=33 Score=43.57 Aligned_cols=27 Identities=19% Similarity=0.126 Sum_probs=21.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+...|+.-..|.|||..|-.|...+.
T Consensus 37 ~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 37 LHHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 345568999999999998888877764
No 313
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=68.05 E-value=33 Score=44.08 Aligned_cols=46 Identities=20% Similarity=0.065 Sum_probs=28.6
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~ 642 (1321)
...+|.-..|+|||.-+.|+...+..... ...++.|....++..+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~--g~~V~Yitaeef~~el~ 360 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYP--GTRVRYVSSEEFTNEFI 360 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCC--CCeEEEeeHHHHHHHHH
Confidence 45788899999999988887776644211 12444444444444333
No 314
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=67.96 E-value=13 Score=48.98 Aligned_cols=70 Identities=14% Similarity=0.032 Sum_probs=50.0
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 643 (1321)
.|-|-|.++|.+ ....+++-..-|.|||.+.+.-+++++.........+|+|+.++ ....-.+
T Consensus 4 ~Ln~~Q~~av~~----------------~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~ 67 (715)
T TIGR01075 4 GLNDKQREAVAA----------------PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRH 67 (715)
T ss_pred ccCHHHHHHHcC----------------CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHH
Confidence 578899998852 22346666779999999999999998875444456789999866 4444555
Q ss_pred HHHHHCC
Q 000740 644 EFMKWRP 650 (1321)
Q Consensus 644 E~~kw~p 650 (1321)
-+.+.++
T Consensus 68 Rl~~~~~ 74 (715)
T TIGR01075 68 RIGALLG 74 (715)
T ss_pred HHHHHhc
Confidence 5655554
No 315
>PRK05642 DNA replication initiation factor; Validated
Probab=67.58 E-value=30 Score=38.99 Aligned_cols=38 Identities=16% Similarity=0.313 Sum_probs=24.8
Q ss_pred CCCEEEEcCCcccCCcch---hHHHHHhhcc-cceEEEEecC
Q 000740 715 GPDILVCDEAHMIKNTRA---DTTQALKQVK-CQRRIALTGS 752 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S---~~skal~~Lk-a~~RllLTGT 752 (1321)
..|+||+|+.|.+.+... ..+..+..+. ..+++++|+|
T Consensus 97 ~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 97 QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 457899999998865432 2344444443 4567888887
No 316
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=67.36 E-value=10 Score=41.00 Aligned_cols=43 Identities=30% Similarity=0.406 Sum_probs=29.9
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl 638 (1321)
..+.|.+|.-.+|.|||..|.|++..+...+ .+++.+.-..++
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g----~~v~f~~~~~L~ 87 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKG----YSVLFITASDLL 87 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT------EEEEEHHHHH
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCC----cceeEeecCcee
Confidence 3567899999999999999999998877643 366666544333
No 317
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=67.18 E-value=29 Score=37.45 Aligned_cols=55 Identities=18% Similarity=0.266 Sum_probs=33.6
Q ss_pred hcCCCCEEEEcCCcccCCc----chhHHHHHhhcccceEEEEecCCCCCchhhHHhhhh
Q 000740 712 LQDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD 766 (1321)
Q Consensus 712 l~~~~dlVIlDEAH~IKN~----~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~ 766 (1321)
....||+||+||.=..-+. .......+..-...--++|||.=....+.|+..++.
T Consensus 94 ~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~VT 152 (173)
T TIGR00708 94 ADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLVT 152 (173)
T ss_pred hcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCceee
Confidence 3458999999998754332 233444444444555799999855544444444443
No 318
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=67.08 E-value=46 Score=41.77 Aligned_cols=28 Identities=18% Similarity=0.056 Sum_probs=22.3
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
-....||.-..|.|||..|..+...+..
T Consensus 34 i~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 34 IPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred CCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 4467899999999999888877766543
No 319
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=66.58 E-value=50 Score=37.65 Aligned_cols=39 Identities=21% Similarity=0.146 Sum_probs=28.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
.|.-.+|+-..|.|||..++.++..+.... ..+++++.-
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~---g~~vl~iS~ 67 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQH---GVRVGTISL 67 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhc---CceEEEEEc
Confidence 445678899999999999998887765431 236777764
No 320
>PRK05580 primosome assembly protein PriA; Validated
Probab=66.48 E-value=35 Score=44.70 Aligned_cols=97 Identities=18% Similarity=0.183 Sum_probs=71.0
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
...|||-.+.+.++......|.++||.+........+.+.|... .|.....++|+++..+|.+...+..
T Consensus 170 ~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~-----------fg~~v~~~~s~~s~~~r~~~~~~~~ 238 (679)
T PRK05580 170 VTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR-----------FGAPVAVLHSGLSDGERLDEWRKAK 238 (679)
T ss_pred CCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH-----------hCCCEEEEECCCCHHHHHHHHHHHH
Confidence 45689999998888877778999999999999888888888752 3677899999999998888777776
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEEe
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1068 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D 1068 (1321)
.+ .+. ++++|+.. .=+.+.....||+-+
T Consensus 239 ~g---~~~-IVVgTrsa-l~~p~~~l~liVvDE 266 (679)
T PRK05580 239 RG---EAK-VVIGARSA-LFLPFKNLGLIIVDE 266 (679)
T ss_pred cC---CCC-EEEeccHH-hcccccCCCEEEEEC
Confidence 52 344 46666532 224455555555544
No 321
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=66.23 E-value=2.9 Score=50.31 Aligned_cols=83 Identities=17% Similarity=0.428 Sum_probs=52.8
Q ss_pred ccccccCCCCceecccCCcccccc-cccccc-c-cccCCcch---hh--------hhhcCcccCCCCCcc----------
Q 000740 322 NSLHSQSLSEKFYCTACNNVAIEV-HPHPIL-N-VIVCKDCK---CL--------LEKKMHVKDADCSEC---------- 377 (1321)
Q Consensus 322 ~~~~~~~~~~~~~C~~Cg~~~~~~-~~HP~l-~-~~~C~~C~---~~--------~~~~~~~~d~d~~~~---------- 377 (1321)
++...++++-.++|..|.-.+++- .--|++ + ..+|+.|- .. =.+|.|....||...
T Consensus 200 ~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFkqT~dgrW~H~iCA~~~pe 279 (669)
T COG5141 200 TSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFKQTSDGRWGHVICAMFNPE 279 (669)
T ss_pred cccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccccceeEEEeccCCCCceeeccCCchHhHhHHHhcch
Confidence 455667888999999998654431 122333 2 34677661 00 123344444555432
Q ss_pred -------------------------cccccC-CCCceeccCC--ccccccccccc
Q 000740 378 -------------------------YCVWCG-RSSDLVSCKS--CKTLFCTTCVK 404 (1321)
Q Consensus 378 -------------------------~C~~C~-~gg~l~~Cd~--C~~~Fc~~Cl~ 404 (1321)
-|-+|. .||.-+-|.. |.++||..|-.
T Consensus 280 lsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 280 LSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred hccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 288997 7889998965 99999999954
No 322
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=66.05 E-value=30 Score=43.79 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=22.0
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
+...|+.-+.|.|||-.|-+|+..+..
T Consensus 36 ~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 36 AHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred CeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 344589999999999999888877754
No 323
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=65.49 E-value=51 Score=37.11 Aligned_cols=37 Identities=19% Similarity=0.286 Sum_probs=29.2
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
.|.-.+++-+.|.|||..++-|++..+..+ .++|.|.
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~g----e~~lyvs 56 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMG----EPGIYVA 56 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC----CcEEEEE
Confidence 456678899999999999999888766442 3778886
No 324
>PRK09183 transposase/IS protein; Provisional
Probab=65.15 E-value=48 Score=38.08 Aligned_cols=27 Identities=33% Similarity=0.465 Sum_probs=22.1
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+.+.+|.-+.|.|||..+.++.....
T Consensus 101 ~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 101 RNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 467888999999999999988865544
No 325
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.17 E-value=65 Score=39.34 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=22.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
-....|+.-+.|.|||..|.+|...+..
T Consensus 37 ~~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 37 VGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred cceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3456889999999999999988877654
No 326
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=63.94 E-value=29 Score=45.42 Aligned_cols=101 Identities=18% Similarity=0.099 Sum_probs=71.3
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
...|||-.+..-.+......|.+++|.+.....+..+...+..+.. ..|+.+..++|+++..+|...+....
T Consensus 290 ~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~~--------~~~i~v~ll~G~~~~~~r~~~~~~l~ 361 (681)
T PRK10917 290 DVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLLE--------PLGIRVALLTGSLKGKERREILEAIA 361 (681)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHHh--------hcCcEEEEEcCCCCHHHHHHHHHHHh
Confidence 4679998876655544556788999999998877777666665321 13688999999999999999999987
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEE
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIV 1067 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~ 1067 (1321)
+ +.+.|++.+.......+.+.....||+=
T Consensus 362 ~---g~~~IvVgT~~ll~~~v~~~~l~lvVID 390 (681)
T PRK10917 362 S---GEADIVIGTHALIQDDVEFHNLGLVIID 390 (681)
T ss_pred C---CCCCEEEchHHHhcccchhcccceEEEe
Confidence 5 3344444444444455667776666653
No 327
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=63.87 E-value=27 Score=34.55 Aligned_cols=21 Identities=29% Similarity=0.195 Sum_probs=16.0
Q ss_pred EEEcCCCCchHHHHHHHHHHH
Q 000740 598 ILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 598 ILADeMGLGKTlQaIall~~l 618 (1321)
+|--..|.|||..+-.++..+
T Consensus 2 ll~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT
T ss_pred EEECcCCCCeeHHHHHHHhhc
Confidence 566789999998877766553
No 328
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.76 E-value=59 Score=41.44 Aligned_cols=26 Identities=19% Similarity=0.073 Sum_probs=21.5
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
...|+.-+.|.|||..|-.|+..+..
T Consensus 39 ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 39 HAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 45789999999999999888877653
No 329
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=63.63 E-value=1e+02 Score=40.26 Aligned_cols=27 Identities=22% Similarity=0.146 Sum_probs=22.1
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.+.+.||.-.-|+|||..|.+|...+.
T Consensus 37 l~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 37 LHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 345679999999999999888877764
No 330
>PF13173 AAA_14: AAA domain
Probab=63.22 E-value=15 Score=37.17 Aligned_cols=37 Identities=30% Similarity=0.365 Sum_probs=26.5
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc---ccceEEEEecCCCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQ 755 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L---ka~~RllLTGTPlq 755 (1321)
+..+||+||+|++.+. ...++.+ ....++++||+-..
T Consensus 61 ~~~~i~iDEiq~~~~~----~~~lk~l~d~~~~~~ii~tgS~~~ 100 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDW----EDALKFLVDNGPNIKIILTGSSSS 100 (128)
T ss_pred CCcEEEEehhhhhccH----HHHHHHHHHhccCceEEEEccchH
Confidence 6789999999999753 3444444 23569999998643
No 331
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=63.06 E-value=3.4 Score=55.32 Aligned_cols=122 Identities=32% Similarity=0.395 Sum_probs=107.3
Q ss_pred CCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000740 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1321)
Q Consensus 975 ~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~~~n~~v~VfLISTkAGg~ 1054 (1321)
...|||||||+...+|.++..+.. .++...+..+ +. +-...+..|.. +.|||+-++.|+-
T Consensus 1220 ~qekvIvfsqws~~ldV~e~~~~~------------N~I~~~~~~~-t~--d~~dc~~~fk~-----I~clll~~~~~~~ 1279 (1394)
T KOG0298|consen 1220 EQEKVIVFSQWSVVLDVKELRYLM------------NLIKKQLDGE-TE--DFDDCIICFKS-----IDCLLLFVSKGSK 1279 (1394)
T ss_pred cCceEEEEEehHHHHHHHHHHHHh------------hhhHhhhccC-Cc--chhhhhhhccc-----ceEEEEEeccCcc
Confidence 346999999999999999999874 5676655544 33 55677888874 7889999999999
Q ss_pred ccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHHHHHHHHHHHHH
Q 000740 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEG 1116 (1321)
Q Consensus 1055 GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEEkI~~rq~~K~~ 1116 (1321)
|+||..|.||++.+|--||+.+.||+||+|||||++|+.||+|+..+|+|+.|+.....|..
T Consensus 1280 GLNL~eA~Hvfl~ePiLN~~~E~QAigRvhRiGQ~~pT~V~~fiv~~TvEe~Il~l~~~~ee 1341 (1394)
T KOG0298|consen 1280 GLNLIEATHVFLVEPILNPGDEAQAIGRVHRIGQKRPTFVHRFIVNETVEENILSLITSKEE 1341 (1394)
T ss_pred cccHHhhhhhheeccccCchHHHhhhhhhhhcccccchhhhhhhhccchHHHHHHHhhhhHH
Confidence 99999999999999999999999999999999999999999999999999999988777743
No 332
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=63.00 E-value=72 Score=37.90 Aligned_cols=51 Identities=16% Similarity=-0.019 Sum_probs=37.1
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhc
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~ 622 (1321)
.++|+|...-+.+...+. .+.-....++.-..|+||+..|.+|...++...
T Consensus 3 ~~yPWl~~~~~~l~~~~~-------~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~~ 53 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLD-------AGRIPGALLLQSDEGLGVESLVELFSRALLCQN 53 (319)
T ss_pred cCcccHHHHHHHHHHHHH-------cCCcceeEeeECCCCCCHHHHHHHHHHHHcCCC
Confidence 467888877665544321 223456788999999999999999998887543
No 333
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=62.97 E-value=4.6 Score=36.14 Aligned_cols=39 Identities=26% Similarity=0.796 Sum_probs=17.1
Q ss_pred ccccCCCCceecc-CCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 379 CVWCGRSSDLVSC-KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 379 C~~C~~gg~l~~C-d~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
|..|.+--.---| ..|...||..|+..-+|.+ |++|..+
T Consensus 10 Cs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~------------CPvC~~P 49 (65)
T PF14835_consen 10 CSICFDILKEPVCLGGCEHIFCSSCIRDCIGSE------------CPVCHTP 49 (65)
T ss_dssp -SSS-S--SS-B---SSS--B-TTTGGGGTTTB-------------SSS--B
T ss_pred CcHHHHHhcCCceeccCccHHHHHHhHHhcCCC------------CCCcCCh
Confidence 4444433322233 5699999999997765532 9999733
No 334
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=62.43 E-value=23 Score=46.80 Aligned_cols=71 Identities=15% Similarity=0.046 Sum_probs=48.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-HHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 642 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 642 (1321)
..|-|-|.++|.+- ....++-..-|.|||.+.+.-+++++.........+|+|+-++- ...-.
T Consensus 8 ~~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~ 71 (721)
T PRK11773 8 DSLNDKQREAVAAP----------------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMR 71 (721)
T ss_pred HhcCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHH
Confidence 45889999998532 23455556799999999999999888654444567899998664 33444
Q ss_pred HHHHHHCC
Q 000740 643 QEFMKWRP 650 (1321)
Q Consensus 643 ~E~~kw~p 650 (1321)
+-+.+.++
T Consensus 72 ~Rl~~~~~ 79 (721)
T PRK11773 72 HRIEQLLG 79 (721)
T ss_pred HHHHHHhc
Confidence 44555443
No 335
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=62.32 E-value=18 Score=44.09 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=22.7
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
..+.|+.-..|.|||..|.+|...++.
T Consensus 36 ~ha~Lf~Gp~G~GKt~lA~~lA~~l~c 62 (394)
T PRK07940 36 THAWLFTGPPGSGRSVAARAFAAALQC 62 (394)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhCC
Confidence 466889999999999999998877654
No 336
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=62.29 E-value=27 Score=41.94 Aligned_cols=25 Identities=28% Similarity=0.244 Sum_probs=20.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
...|.+|.-+.|.|||..|-++...
T Consensus 155 ~p~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 155 PPKGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHh
Confidence 4678999999999999888777554
No 337
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=62.22 E-value=24 Score=42.97 Aligned_cols=26 Identities=27% Similarity=0.269 Sum_probs=21.4
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
....|.+|.-+.|.|||..|-++...
T Consensus 163 ~~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 163 EPPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CCCCceEEECCCCCChHHHHHHHHHH
Confidence 34678999999999999988877654
No 338
>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=62.16 E-value=40 Score=43.62 Aligned_cols=68 Identities=16% Similarity=0.143 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh-HHHHHHHHHHHH
Q 000740 570 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKW 648 (1321)
Q Consensus 570 Q~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~~kw 648 (1321)
|.+-+.++++.+. .+...++-..+|.|||+..+.-+....... ..+++||++|+. |..|+.+++...
T Consensus 2 Q~~~~~~i~~al~----------~~~~lliEA~TGtGKTlAYLlpal~~~~~~--~~~rvlIstpT~~Lq~Ql~~~l~~l 69 (636)
T TIGR03117 2 QALFYLNCLTSLR----------QKRIGMLEASTGVGKTLAMIMAALTMLKER--PDQKIAIAVPTLALMGQLWSELERL 69 (636)
T ss_pred HHHHHHHHHHHHh----------cCCeEEEEcCCCCcHHHHHHHHHHHHHHhc--cCceEEEECCcHHHHHHHHHHHHHH
Confidence 6666666666542 335566668999999988776654443321 136899999976 667888887765
Q ss_pred C
Q 000740 649 R 649 (1321)
Q Consensus 649 ~ 649 (1321)
.
T Consensus 70 ~ 70 (636)
T TIGR03117 70 T 70 (636)
T ss_pred H
Confidence 4
No 339
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=61.93 E-value=98 Score=35.94 Aligned_cols=24 Identities=25% Similarity=0.231 Sum_probs=19.5
Q ss_pred cceEEEcCCCCchHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~l 618 (1321)
...+|.-+.|.|||..+-++...+
T Consensus 39 ~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 39 PHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 357999999999998887776554
No 340
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=61.89 E-value=3.2 Score=45.16 Aligned_cols=56 Identities=16% Similarity=0.335 Sum_probs=35.9
Q ss_pred CCcccccccCCCCceeccCCccccccccccccCCCccc--ccc----cccCCCceeecCCch
Q 000740 374 CSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEAC--LSD----EVQASCWQCCCCSPS 429 (1321)
Q Consensus 374 ~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~--~~~----~~~~~~W~C~~C~p~ 429 (1321)
+.+..|.+|.+.-.--.--.|...||..||...+.... ... ........|++|...
T Consensus 16 ~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~ 77 (193)
T PLN03208 16 GGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSD 77 (193)
T ss_pred CCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCc
Confidence 34568999987655444456999999999976532110 000 012356799999754
No 341
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.83 E-value=45 Score=42.07 Aligned_cols=26 Identities=15% Similarity=0.155 Sum_probs=21.4
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
...++.-..|.|||..|.+|+..+..
T Consensus 37 ha~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 37 HAYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHHhc
Confidence 33489999999999999988877654
No 342
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=61.01 E-value=68 Score=36.11 Aligned_cols=39 Identities=13% Similarity=0.128 Sum_probs=28.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
.+.-.++.-+.|.|||..++.+++.+...+ .+++.|+..
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g----~~~~yi~~e 61 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNG----YSVSYVSTQ 61 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCC----CcEEEEeCC
Confidence 345678889999999999888888765442 366777643
No 343
>PRK11823 DNA repair protein RadA; Provisional
Probab=60.99 E-value=77 Score=39.43 Aligned_cols=49 Identities=14% Similarity=0.101 Sum_probs=32.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
+.-.+|.-++|.|||..++.++...... ..++|.|.-.....|......
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~----g~~vlYvs~Ees~~qi~~ra~ 128 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAA----GGKVLYVSGEESASQIKLRAE 128 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhc----CCeEEEEEccccHHHHHHHHH
Confidence 3446789999999999998888766532 247777775444444443333
No 344
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=60.88 E-value=23 Score=46.32 Aligned_cols=69 Identities=20% Similarity=0.214 Sum_probs=47.0
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH-HHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~-qW~~ 643 (1321)
.|-|-|.++|.+- ...+++-...|.|||.+.+.-+++++.........+|+|+.+.-.. .-..
T Consensus 2 ~Ln~~Q~~av~~~----------------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~ 65 (672)
T PRK10919 2 RLNPGQQQAVEFV----------------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKE 65 (672)
T ss_pred CCCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHH
Confidence 3678899888532 2345555679999999999999998865333346799999876443 3444
Q ss_pred HHHHHC
Q 000740 644 EFMKWR 649 (1321)
Q Consensus 644 E~~kw~ 649 (1321)
-+.+.+
T Consensus 66 Rl~~~l 71 (672)
T PRK10919 66 RVAQTL 71 (672)
T ss_pred HHHHHh
Confidence 454444
No 345
>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins. In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].
Probab=60.84 E-value=1.2e+02 Score=34.43 Aligned_cols=40 Identities=20% Similarity=0.345 Sum_probs=28.6
Q ss_pred CCchHHHHHHHHHHHHHhcccCCCceEEEc--chhHHHHHHHHHHH
Q 000740 604 GLGKTFQVIAFLYTAMRSVNLGLRTALIVT--PVNVLHNWKQEFMK 647 (1321)
Q Consensus 604 GLGKTlQaIall~~ll~~~~~~~k~vLIV~--P~sLl~qW~~E~~k 647 (1321)
|.|||-.++++...+...+ +++.||= |..-+..|.+-..+
T Consensus 12 GaGKTT~~~~LAs~la~~G----~~V~lIDaDpn~pl~~W~~~a~~ 53 (231)
T PF07015_consen 12 GAGKTTAAMALASELAARG----ARVALIDADPNQPLAKWAENAQR 53 (231)
T ss_pred CCcHHHHHHHHHHHHHHCC----CeEEEEeCCCCCcHHHHHHhccc
Confidence 8899998888877775553 3566653 88788899665433
No 346
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=60.42 E-value=57 Score=43.96 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...+.||.-+.|.|||..+-+++..+
T Consensus 193 ~~~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 193 TKNNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred CCCceEEEcCCCCCHHHHHHHHHHHH
Confidence 44678899999999998888776654
No 347
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=60.08 E-value=66 Score=45.80 Aligned_cols=149 Identities=17% Similarity=0.107 Sum_probs=80.7
Q ss_pred chhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH
Q 000740 561 SISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1321)
Q Consensus 561 ~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q 640 (1321)
.+...|-+-|++++..++. +...-.+|--.-|.|||.++-+++..+..........++.++|.+-...
T Consensus 831 ~~~~~Lt~~Qr~Av~~iLt------------s~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~ 898 (1623)
T PRK14712 831 ELMEKLTSGQRAATRMILE------------TSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVG 898 (1623)
T ss_pred hhhcccCHHHHHHHHHHHh------------CCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHH
Confidence 4445789999999987653 2334577778899999988655554432211111235778899875543
Q ss_pred HHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 641 W~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
=..+. + +. ...+..|..... .+.. .........++||
T Consensus 899 ~L~e~------G---i~------------A~TIasfL~~~~-------~~~~---------------~~~~~~~~~~llI 935 (1623)
T PRK14712 899 EMRSA------G---VD------------AQTLASFLHDTQ-------LQQR---------------SGETPDFSNTLFL 935 (1623)
T ss_pred HHHHh------C---ch------------HhhHHHHhcccc-------chhh---------------cccCCCCCCcEEE
Confidence 22221 0 00 111222211000 0000 0000001458999
Q ss_pred EcCCcccCCcchhHHHHHhhcc-cceEEEEecCCCCCchhhHHhhhh
Q 000740 721 CDEAHMIKNTRADTTQALKQVK-CQRRIALTGSPLQNNLMEYYCMVD 766 (1321)
Q Consensus 721 lDEAH~IKN~~S~~skal~~Lk-a~~RllLTGTPlqNnl~EL~sLl~ 766 (1321)
||||-.+-+. ...+.+..+. ..-|++|.|=|-|....+--..|.
T Consensus 936 VDEASMV~~~--~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~~F~ 980 (1623)
T PRK14712 936 LDESSMVGNT--DMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFR 980 (1623)
T ss_pred EEccccccHH--HHHHHHHhhhhCCCEEEEEcchhhcCCCCCCHHHH
Confidence 9999998553 3344444443 357899999998765554444333
No 348
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=59.59 E-value=6.3 Score=38.90 Aligned_cols=32 Identities=28% Similarity=0.789 Sum_probs=27.3
Q ss_pred CcccccccCC-CCceeccCC--ccccccccccccC
Q 000740 375 SECYCVWCGR-SSDLVSCKS--CKTLFCTTCVKRN 406 (1321)
Q Consensus 375 ~~~~C~~C~~-gg~l~~Cd~--C~~~Fc~~Cl~~~ 406 (1321)
....|.+|+. +|-++-|.. |.+.||..|....
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHHC
Confidence 4458999997 688999988 9999999997654
No 349
>PRK13342 recombination factor protein RarA; Reviewed
Probab=59.56 E-value=35 Score=41.86 Aligned_cols=24 Identities=25% Similarity=0.043 Sum_probs=18.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~ 616 (1321)
.....||.-+.|+|||..|-++..
T Consensus 35 ~~~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 35 RLSSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 345789999999999977766544
No 350
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=59.52 E-value=66 Score=35.98 Aligned_cols=51 Identities=16% Similarity=0.260 Sum_probs=34.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 647 (1321)
.+.-.+++-+.|.|||.-+..|++..... ..+++.|.=.....+....+..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~----g~~~~y~~~e~~~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ----GKKVYVITTENTSKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhC----CCEEEEEEcCCCHHHHHHHHHH
Confidence 34557888999999999999998776543 2477777643333444444443
No 351
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=59.49 E-value=58 Score=46.87 Aligned_cols=69 Identities=17% Similarity=0.153 Sum_probs=45.0
Q ss_pred CcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHH
Q 000740 559 PSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1321)
Q Consensus 559 P~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl 638 (1321)
+..+...|-+-|++++..++. +...-.+|----|.|||.+.-+++..+..........++.++|++-.
T Consensus 961 ~~~~~~~Lt~~Q~~Av~~il~------------s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrA 1028 (1747)
T PRK13709 961 PGELMEGLTSGQRAATRMILE------------STDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRA 1028 (1747)
T ss_pred HHHhcCCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHH
Confidence 334445688999999987752 23356777788999999877666555432211112357788998754
Q ss_pred H
Q 000740 639 H 639 (1321)
Q Consensus 639 ~ 639 (1321)
.
T Consensus 1029 A 1029 (1747)
T PRK13709 1029 V 1029 (1747)
T ss_pred H
Confidence 4
No 352
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=59.47 E-value=77 Score=38.04 Aligned_cols=48 Identities=13% Similarity=-0.013 Sum_probs=33.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhc
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~ 622 (1321)
++|+|...-+-+.. . .+.-+.+.++.-..|.|||..|.+|...++...
T Consensus 2 ~yPW~~~~~~~l~~----~-----~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~~ 49 (342)
T PRK06964 2 LYPWQTDDWNRLQA----L-----RARLPHALLLHGQAGIGKLDFAQHLAQGLLCET 49 (342)
T ss_pred CCcccHHHHHHHHH----h-----cCCcceEEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 47777776444322 1 123456788899999999999999998887643
No 353
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=59.27 E-value=1.8e+02 Score=37.10 Aligned_cols=27 Identities=22% Similarity=0.149 Sum_probs=18.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
+.-.+|.-..|.|||..+..+...+..
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 344455577999999888777765543
No 354
>PF06564 YhjQ: YhjQ protein; InterPro: IPR017746 The YhjQ protein is encoded immediately upstream of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae, and in several species is clearly part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm [], based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=59.11 E-value=48 Score=37.81 Aligned_cols=32 Identities=28% Similarity=0.452 Sum_probs=25.0
Q ss_pred CCchHHHHHHHHHHHHHhcccCCCceEEE--cchhHHH
Q 000740 604 GLGKTFQVIAFLYTAMRSVNLGLRTALIV--TPVNVLH 639 (1321)
Q Consensus 604 GLGKTlQaIall~~ll~~~~~~~k~vLIV--~P~sLl~ 639 (1321)
|.|||-.+.++...+.+.+ +++|+| +|.+++.
T Consensus 12 GvG~TTltAnLA~aL~~~G----~~VlaID~dpqN~Lr 45 (243)
T PF06564_consen 12 GVGKTTLTANLAWALARLG----ESVLAIDLDPQNLLR 45 (243)
T ss_pred CCCHHHHHHHHHHHHHHCC----CcEEEEeCCcHHHHH
Confidence 8999999999888876653 477777 6888764
No 355
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=58.93 E-value=29 Score=45.25 Aligned_cols=69 Identities=17% Similarity=0.160 Sum_probs=47.5
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc-hhHHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQE 644 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E 644 (1321)
|-|-|..+|.+ ....+++--..|.|||.+.+.-+..++.......+.+|+|+. .....+-...
T Consensus 2 Ln~~Q~~av~~----------------~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~R 65 (664)
T TIGR01074 2 LNPQQQEAVEY----------------VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKER 65 (664)
T ss_pred CCHHHHHHHhC----------------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHH
Confidence 56788888753 223456666799999999999999888653333456788875 4456666666
Q ss_pred HHHHCC
Q 000740 645 FMKWRP 650 (1321)
Q Consensus 645 ~~kw~p 650 (1321)
+.+.++
T Consensus 66 l~~~l~ 71 (664)
T TIGR01074 66 VAKTLG 71 (664)
T ss_pred HHHHhC
Confidence 766554
No 356
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=58.69 E-value=32 Score=42.06 Aligned_cols=43 Identities=23% Similarity=0.243 Sum_probs=29.0
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW 641 (1321)
..+.|.+|.-..|.|||+.+=++.... ..+++.+.+..++..|
T Consensus 177 ~~pkgvLL~GppGTGKT~LAkalA~~l-------~~~fi~i~~s~l~~k~ 219 (398)
T PTZ00454 177 DPPRGVLLYGPPGTGKTMLAKAVAHHT-------TATFIRVVGSEFVQKY 219 (398)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHhc-------CCCEEEEehHHHHHHh
Confidence 356899999999999999887765432 1245555555444433
No 357
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=58.63 E-value=65 Score=44.26 Aligned_cols=138 Identities=19% Similarity=0.155 Sum_probs=77.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 643 (1321)
..|-+-|.++|..+. ....-++|--.-|.|||...-++...+... ..+++.++|+.-...=
T Consensus 380 ~~Ls~eQ~~Av~~i~-------------~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~----G~~V~g~ApTgkAA~~-- 440 (1102)
T PRK13826 380 ARLSDEQKTAIEHVA-------------GPARIAAVVGRAGAGKTTMMKAAREAWEAA----GYRVVGGALAGKAAEG-- 440 (1102)
T ss_pred CCCCHHHHHHHHHHh-------------ccCCeEEEEeCCCCCHHHHHHHHHHHHHHc----CCeEEEEcCcHHHHHH--
Confidence 358889999987652 122346777789999998776655443222 2478888898755432
Q ss_pred HHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000740 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 723 (1321)
Q Consensus 644 E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVIlDE 723 (1321)
+..-.. +....++ .++..|.. + + .....-++|||||
T Consensus 441 -L~e~~G-----i~a~TIa--------s~ll~~~~-~----------~-------------------~~l~~~~vlVIDE 476 (1102)
T PRK13826 441 -LEKEAG-----IQSRTLS--------SWELRWNQ-G----------R-------------------DQLDNKTVFVLDE 476 (1102)
T ss_pred -HHHhhC-----CCeeeHH--------HHHhhhcc-C----------c-------------------cCCCCCcEEEEEC
Confidence 221111 1111100 00111100 0 0 0011457899999
Q ss_pred CcccCCcchhHHHHHhhc-ccceEEEEecCCCCCchhhHHhhhh
Q 000740 724 AHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVD 766 (1321)
Q Consensus 724 AH~IKN~~S~~skal~~L-ka~~RllLTGTPlqNnl~EL~sLl~ 766 (1321)
|..+-.. .....+..+ ...-+++|.|=|-|-.+.+--..|.
T Consensus 477 AsMv~~~--~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~ 518 (1102)
T PRK13826 477 AGMVASR--QMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFR 518 (1102)
T ss_pred cccCCHH--HHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHH
Confidence 9988432 344455555 4678999999998865554443333
No 358
>CHL00206 ycf2 Ycf2; Provisional
Probab=58.24 E-value=43 Score=47.90 Aligned_cols=43 Identities=16% Similarity=0.230 Sum_probs=31.9
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW 641 (1321)
....|.+|.-.+|+|||+.|=|++... .-|++-|....++..|
T Consensus 1628 ~pPKGILLiGPPGTGKTlLAKALA~es-------~VPFIsISgs~fl~~~ 1670 (2281)
T CHL00206 1628 SPSRGILVIGSIGTGRSYLVKYLATNS-------YVPFITVFLNKFLDNK 1670 (2281)
T ss_pred CCCCceEEECCCCCCHHHHHHHHHHhc-------CCceEEEEHHHHhhcc
Confidence 346799999999999999888776542 1266666666677666
No 359
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=58.02 E-value=38 Score=41.37 Aligned_cols=41 Identities=17% Similarity=0.397 Sum_probs=28.3
Q ss_pred CCCEEEEcCCcccCCcc---hhHHHHHhhc-ccceEEEEec--CCCC
Q 000740 715 GPDILVCDEAHMIKNTR---ADTTQALKQV-KCQRRIALTG--SPLQ 755 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~---S~~skal~~L-ka~~RllLTG--TPlq 755 (1321)
..|+|++|-.|.+.+.. -..+..+..+ .....|+||+ +|-+
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~ 221 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKE 221 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchh
Confidence 56889999999987763 3344444555 3444899999 7754
No 360
>PF01197 Ribosomal_L31: Ribosomal protein L31; InterPro: IPR002150 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L31 is one of the proteins from the large ribosomal subunit. L31 is a protein of 66 to 97 amino-acid residues which has only been found so far in bacteria and in some plant and algal chloroplasts.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3D5D_4 3PYO_1 3D5B_4 3PYV_1 3PYT_1 3MRZ_1 3MS1_1 3PYR_1 3F1F_4 3F1H_4 ....
Probab=57.75 E-value=7.5 Score=35.50 Aligned_cols=44 Identities=25% Similarity=0.535 Sum_probs=31.3
Q ss_pred CceecccCCcccc--ccccccccccccCCcchhhhhhcCcccCCCC
Q 000740 331 EKFYCTACNNVAI--EVHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1321)
Q Consensus 331 ~~~~C~~Cg~~~~--~~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1321)
-.|.|++||.... -...-|++.+-+|..|+.+|.-..-..|..|
T Consensus 12 v~v~c~s~g~~~~~~St~~~~~~~vdi~s~~HPfytG~~~~~~~~G 57 (69)
T PF01197_consen 12 VKVTCSSCGNTFETRSTKEYPVIKVDICSNCHPFYTGKQKVVDTAG 57 (69)
T ss_dssp EEEEES-SSSCECECSSSSES-EEECSCSSSSCTTCSCSSCSCCCC
T ss_pred EEEEEcCCCCEEEEEECCcceEEEEeecCCCCEEEcCcEEEEcccc
Confidence 4689999997643 2335566899999999999988665555554
No 361
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=57.58 E-value=25 Score=43.07 Aligned_cols=50 Identities=20% Similarity=0.151 Sum_probs=37.9
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 648 (1321)
....|.+|+-.-|.|||+.+.|+.... .-++.=|.|.+|..-|.-|-++.
T Consensus 184 ~p~rglLLfGPpgtGKtmL~~aiAsE~-------~atff~iSassLtsK~~Ge~eK~ 233 (428)
T KOG0740|consen 184 EPVRGLLLFGPPGTGKTMLAKAIATES-------GATFFNISASSLTSKYVGESEKL 233 (428)
T ss_pred cccchhheecCCCCchHHHHHHHHhhh-------cceEeeccHHHhhhhccChHHHH
Confidence 355789999999999999888876543 22566778888988887666543
No 362
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=57.53 E-value=25 Score=44.43 Aligned_cols=69 Identities=20% Similarity=0.250 Sum_probs=46.2
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhc--ccCCCceEEEcchhHHH
Q 000740 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV--NLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 562 l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~--~~~~k~vLIV~P~sLl~ 639 (1321)
+..++.+-|-+.+++ .++.-.|+--.-|.|||-.|+-=+++++-.. ....+++||+.|+.+..
T Consensus 209 IV~TIQkEQneIIR~---------------ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFl 273 (747)
T COG3973 209 IVETIQKEQNEIIRF---------------EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFL 273 (747)
T ss_pred HHHHhhHhHHHHHhc---------------cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHH
Confidence 445566666666653 2344566668899999988876666665432 23457899999999887
Q ss_pred HHHHHH
Q 000740 640 NWKQEF 645 (1321)
Q Consensus 640 qW~~E~ 645 (1321)
....-+
T Consensus 274 eYis~V 279 (747)
T COG3973 274 EYISRV 279 (747)
T ss_pred HHHHHh
Confidence 665443
No 363
>PRK04328 hypothetical protein; Provisional
Probab=57.09 E-value=84 Score=35.78 Aligned_cols=36 Identities=19% Similarity=0.274 Sum_probs=27.6
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
|.-.+++-+.|.|||..++-|++..+..+ .++++|.
T Consensus 23 gs~ili~G~pGsGKT~l~~~fl~~~~~~g----e~~lyis 58 (249)
T PRK04328 23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMG----EPGVYVA 58 (249)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhcC----CcEEEEE
Confidence 45567899999999999999988765543 3667775
No 364
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=57.08 E-value=4 Score=48.75 Aligned_cols=28 Identities=21% Similarity=0.351 Sum_probs=16.0
Q ss_pred cccccccccCCcchhhhhhcCcccCCCCCc
Q 000740 347 PHPILNVIVCKDCKCLLEKKMHVKDADCSE 376 (1321)
Q Consensus 347 ~HP~l~~~~C~~C~~~~~~~~~~~d~d~~~ 376 (1321)
.|| .--.|-.|+.-+..-.|..|.+++-
T Consensus 356 yHp--~CF~Cv~C~r~ldgipFtvd~~n~v 383 (468)
T KOG1701|consen 356 YHP--GCFTCVVCARCLDGIPFTVDSQNNV 383 (468)
T ss_pred cCC--CceEEEEeccccCCccccccCCCce
Confidence 466 3334455544455557777777664
No 365
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=56.73 E-value=76 Score=41.71 Aligned_cols=28 Identities=18% Similarity=0.112 Sum_probs=22.6
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.....|+.-+.|.|||..|-+|+..+..
T Consensus 39 l~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 39 ISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 3455689999999999999888877654
No 366
>PRK13531 regulatory ATPase RavA; Provisional
Probab=56.59 E-value=46 Score=41.59 Aligned_cols=26 Identities=15% Similarity=0.252 Sum_probs=21.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
.+...+|-.+.|+|||..|-++....
T Consensus 38 ag~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 38 SGESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred cCCCEEEECCCChhHHHHHHHHHHHh
Confidence 46789999999999999988876554
No 367
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=56.50 E-value=73 Score=46.78 Aligned_cols=64 Identities=14% Similarity=0.118 Sum_probs=42.1
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 564 ~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
..|-+-|+.++..++. +...-.++--.-|.|||.+..+++..+..........++.++|.+-..
T Consensus 1018 ~~Lt~~Q~~Ai~~il~------------~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa 1081 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIIS------------TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAV 1081 (1960)
T ss_pred CCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHH
Confidence 4689999999987643 233456667789999998886554444332222234678888987544
No 368
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=56.47 E-value=38 Score=44.81 Aligned_cols=42 Identities=24% Similarity=0.297 Sum_probs=29.6
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW 641 (1321)
...|.+|.-..|.|||..|-++.... ..+++.|-+..++..|
T Consensus 486 ~~~giLL~GppGtGKT~lakalA~e~-------~~~fi~v~~~~l~~~~ 527 (733)
T TIGR01243 486 PPKGVLLFGPPGTGKTLLAKAVATES-------GANFIAVRGPEILSKW 527 (733)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHhc-------CCCEEEEehHHHhhcc
Confidence 45788999999999998887766542 1356666666555544
No 369
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=56.47 E-value=1.5e+02 Score=34.36 Aligned_cols=48 Identities=15% Similarity=0.171 Sum_probs=29.7
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc----hhHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP----VNVLHNWKQEF 645 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P----~sLl~qW~~E~ 645 (1321)
+.-..+.-..|.|||..+..+...+... ..++.+|.- ...+.||....
T Consensus 75 ~~~i~~~G~~g~GKTtl~~~l~~~l~~~----~~~v~~i~~D~~ri~~~~ql~~~~ 126 (270)
T PRK06731 75 VQTIALIGPTGVGKTTTLAKMAWQFHGK----KKTVGFITTDHSRIGTVQQLQDYV 126 (270)
T ss_pred CCEEEEECCCCCcHHHHHHHHHHHHHHc----CCeEEEEecCCCCHHHHHHHHHHh
Confidence 3556777789999998776665554322 235555553 34666776443
No 370
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=56.27 E-value=31 Score=43.51 Aligned_cols=26 Identities=27% Similarity=0.244 Sum_probs=21.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...|.+|.-..|.|||..+-++...+
T Consensus 215 ~p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 215 PPKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CCcceEEECCCCCcHHHHHHHHHHhh
Confidence 45789999999999999888776654
No 371
>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=55.80 E-value=82 Score=39.49 Aligned_cols=41 Identities=10% Similarity=-0.120 Sum_probs=25.6
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
-++|.-.=|=|||..+.++..+.+-........++++++..
T Consensus 24 ~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~ 64 (477)
T PF03354_consen 24 EVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTR 64 (477)
T ss_pred EEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCH
Confidence 46777788999999887776555432222223466666653
No 372
>PRK10865 protein disaggregation chaperone; Provisional
Probab=55.79 E-value=50 Score=44.51 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...+.||.-+.|.|||..+-++...+
T Consensus 198 ~~~n~lL~G~pGvGKT~l~~~la~~i 223 (857)
T PRK10865 198 TKNNPVLIGEPGVGKTAIVEGLAQRI 223 (857)
T ss_pred CcCceEEECCCCCCHHHHHHHHHHHh
Confidence 45689999999999998887776654
No 373
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=55.56 E-value=45 Score=43.28 Aligned_cols=101 Identities=15% Similarity=0.079 Sum_probs=69.3
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHh
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn 1035 (1321)
...|||-.+..-.+......|.+++|-+.....+..+.+.+.++.. ..|+.+..++|+++..+|..+++...
T Consensus 264 ~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~--------~~gi~v~lltg~~~~~~r~~~~~~i~ 335 (630)
T TIGR00643 264 DVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLA--------PLGIEVALLTGSLKGKRRKELLETIA 335 (630)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhc--------ccCcEEEEEecCCCHHHHHHHHHHHh
Confidence 4679998765544444455688999999988877777766665321 13789999999999999999998887
Q ss_pred CCCCCCceEEEeeccccccccCcccCCEEEEE
Q 000740 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIV 1067 (1321)
Q Consensus 1036 ~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~ 1067 (1321)
+ +.+.|++.+....-..+.+.....||+=
T Consensus 336 ~---g~~~IiVgT~~ll~~~~~~~~l~lvVID 364 (630)
T TIGR00643 336 S---GQIHLVVGTHALIQEKVEFKRLALVIID 364 (630)
T ss_pred C---CCCCEEEecHHHHhccccccccceEEEe
Confidence 5 3444455444444445666666655553
No 374
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=55.49 E-value=18 Score=42.72 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=26.0
Q ss_pred CEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCC
Q 000740 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 756 (1321)
Q Consensus 717 dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqN 756 (1321)
.+||+||||+ ..-.+.-..+.+|-...+..+||.+.|=
T Consensus 245 AfVIlDEaQN--tT~~QmKMfLTRiGf~skmvItGD~tQi 282 (348)
T COG1702 245 AFVILDEAQN--TTVGQMKMFLTRIGFESKMVITGDITQI 282 (348)
T ss_pred eEEEEecccc--cchhhhceeeeeecCCceEEEEcCcccc
Confidence 4699999996 1112222234566778889999999873
No 375
>CHL00176 ftsH cell division protein; Validated
Probab=55.49 E-value=77 Score=41.27 Aligned_cols=25 Identities=28% Similarity=0.243 Sum_probs=20.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
...|.+|.-+.|.|||..|=++...
T Consensus 215 ~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 215 IPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999999988777543
No 376
>TIGR02688 conserved hypothetical protein TIGR02688. Members of this family are uncharacterized proteins sporadically distributed in bacteria and archaea, about 470 amino acids in length. Several members of this family appear in public databases with annotation as ATP-dependent protease La, despite the lack of similarity to families TIGR00763 (ATP-dependent protease La) or pfam02190 (ATP-dependent protease La (LON) domain). This protein is repeatedly found downstream of another uncharacterized protein of about 880 amino acids in length, described by model TIGR02687.
Probab=55.42 E-value=37 Score=41.70 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=21.3
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
.+.+.|+--..|+|||-.+.++...
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHH
Confidence 5679999999999999888886655
No 377
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.37 E-value=1.1e+02 Score=39.86 Aligned_cols=27 Identities=15% Similarity=0.090 Sum_probs=23.0
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
....||.-+.|+|||..|.+|+..+..
T Consensus 38 ~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 38 APAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred CceEEEECCCCCChHHHHHHHHHHhcC
Confidence 356789999999999999999888754
No 378
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=55.12 E-value=70 Score=41.41 Aligned_cols=27 Identities=19% Similarity=0.112 Sum_probs=21.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
....||.-.-|.|||..+.+|...+..
T Consensus 38 ~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 38 HHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345688999999999999888877754
No 379
>PHA02929 N1R/p28-like protein; Provisional
Probab=55.04 E-value=5.2 Score=45.15 Aligned_cols=46 Identities=20% Similarity=0.442 Sum_probs=30.7
Q ss_pred CCcccccccCCCCce--------eccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 374 CSECYCVWCGRSSDL--------VSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 374 ~~~~~C~~C~~gg~l--------~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
..+..|.+|.+.-.- ..=..|..+||..||.+.+... =.||+|.-.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~----------~tCPlCR~~ 225 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----------NTCPVCRTP 225 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC----------CCCCCCCCE
Confidence 345689999886321 1123689999999997655322 159999643
No 380
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=54.89 E-value=67 Score=33.93 Aligned_cols=53 Identities=17% Similarity=0.129 Sum_probs=35.2
Q ss_pred CCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhcc
Q 000740 714 DGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVRE 770 (1321)
Q Consensus 714 ~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~P 770 (1321)
..+|+||+|=...+-+ ....+..+..-..+++..+|-.-++.+...++.++..
T Consensus 66 ~~yD~VIiD~pp~~~~----~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~ 118 (169)
T cd02037 66 GELDYLVIDMPPGTGD----EHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKK 118 (169)
T ss_pred CCCCEEEEeCCCCCcH----HHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHh
Confidence 4899999998876521 1111222234456666668888888888888888764
No 381
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=54.03 E-value=58 Score=42.95 Aligned_cols=24 Identities=25% Similarity=0.116 Sum_probs=18.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~ 616 (1321)
.....||.-+.|+|||..|-++..
T Consensus 51 ~~~slLL~GPpGtGKTTLA~aIA~ 74 (725)
T PRK13341 51 RVGSLILYGPPGVGKTTLARIIAN 74 (725)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 445789999999999977766553
No 382
>PRK14873 primosome assembly protein PriA; Provisional
Probab=54.01 E-value=53 Score=42.92 Aligned_cols=80 Identities=18% Similarity=0.123 Sum_probs=66.4
Q ss_pred cCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCC-CcEEecCCCCCHHHHHHHHHHHhC
Q 000740 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG-KDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~G-i~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
.|+|-+++++++......|..+||...-......+...|... .| ..+..+++..+..+|.+.-.+..+
T Consensus 170 GSGKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~-----------f~~~~v~~lhS~l~~~~R~~~w~~~~~ 238 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRAL-----------LGAGDVAVLSAGLGPADRYRRWLAVLR 238 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHH-----------cCCCcEEEECCCCCHHHHHHHHHHHhC
Confidence 589999999999999999999999999999989888888863 23 668899999999999988888775
Q ss_pred CCCCCceEEEeecccc
Q 000740 1037 PLNKRVKCTLISTRAG 1052 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAG 1052 (1321)
+.++ ++|.|+++
T Consensus 239 ---G~~~-IViGtRSA 250 (665)
T PRK14873 239 ---GQAR-VVVGTRSA 250 (665)
T ss_pred ---CCCc-EEEEccee
Confidence 4444 46676654
No 383
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=53.92 E-value=9.2 Score=36.19 Aligned_cols=52 Identities=13% Similarity=0.329 Sum_probs=35.9
Q ss_pred CCCcccccccCCC-CceeccCC--ccccccccccccCCCcccccccccCCCceeecCC
Q 000740 373 DCSECYCVWCGRS-SDLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 373 d~~~~~C~~C~~g-g~l~~Cd~--C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
.+....|.+|... |-.+-|.. |.+.||..|-...-..-.. .....|...+|.
T Consensus 33 ~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~---~~~~~~~~~~C~ 87 (90)
T PF13771_consen 33 RRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEF---DEDNGKFRIFCP 87 (90)
T ss_pred HHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEE---ccCCCceEEECh
Confidence 3444579999998 99999977 9999999997543222211 123457777773
No 384
>CHL00095 clpC Clp protease ATP binding subunit
Probab=53.91 E-value=34 Score=45.84 Aligned_cols=26 Identities=23% Similarity=0.119 Sum_probs=21.3
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...+.||.-+.|.|||..+-++...+
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHH
Confidence 44688999999999998887776654
No 385
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.88 E-value=3.4 Score=45.11 Aligned_cols=85 Identities=26% Similarity=0.477 Sum_probs=46.2
Q ss_pred ccccCCcchhhhhhc-------CcccCCCCCcccccccCCCCceeccC--CccccccccccccCCCcccccccccCCCce
Q 000740 352 NVIVCKDCKCLLEKK-------MHVKDADCSECYCVWCGRSSDLVSCK--SCKTLFCTTCVKRNISEACLSDEVQASCWQ 422 (1321)
Q Consensus 352 ~~~~C~~C~~~~~~~-------~~~~d~d~~~~~C~~C~~gg~l~~Cd--~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~ 422 (1321)
+|-+|..|----+.+ .+..|.| |+..|+.|+-.=.---|- .|-..||-+|++-- ...++....-...+
T Consensus 20 RVNVCEhClV~nHpkCiVQSYLqWL~DsD-Y~pNC~LC~t~La~gdt~RLvCyhlfHW~Clner--aA~lPanTAPaGyq 96 (299)
T KOG3970|consen 20 RVNVCEHCLVANHPKCIVQSYLQWLQDSD-YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNER--AANLPANTAPAGYQ 96 (299)
T ss_pred hhhHHHHHHhccCchhhHHHHHHHHhhcC-CCCCCceeCCccccCcceeehhhhhHHHHHhhHH--HhhCCCcCCCCccc
Confidence 467777773221111 2344555 555899997432222222 28899999998721 12222222234699
Q ss_pred eecCCch--hHHHHHHHHH
Q 000740 423 CCCCSPS--LLKRLTSELG 439 (1321)
Q Consensus 423 C~~C~p~--~l~~l~~~~~ 439 (1321)
|++|.-. |.-.|++-.-
T Consensus 97 CP~Cs~eiFPp~NlvsPva 115 (299)
T KOG3970|consen 97 CPCCSQEIFPPINLVSPVA 115 (299)
T ss_pred CCCCCCccCCCccccchhH
Confidence 9999733 4444444333
No 386
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=53.75 E-value=5.8 Score=49.76 Aligned_cols=43 Identities=26% Similarity=0.689 Sum_probs=33.3
Q ss_pred ccccCCCC-----ceeccCC--ccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 379 CVWCGRSS-----DLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 379 C~~C~~gg-----~l~~Cd~--C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
|-||.|-. -|+-||. |.-+-|+.|- |.. .++.++|+|--|...
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaCY----GIv----qVPtGpWfCrKCesq 57 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQACY----GIV----QVPTGPWFCRKCESQ 57 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhcc----eeE----ecCCCchhhhhhhhh
Confidence 67776543 6999998 9999999994 333 447899999999654
No 387
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=53.42 E-value=1.4e+02 Score=31.60 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=19.2
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.++.-..|.|||..+..++..+...
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 3566789999999988887766543
No 388
>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.
Probab=52.93 E-value=1.1e+02 Score=34.13 Aligned_cols=37 Identities=14% Similarity=0.416 Sum_probs=24.6
Q ss_pred CCCEEEEcCCcccCCcch---hHHHHHhhc-ccceEEEEec
Q 000740 715 GPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTG 751 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S---~~skal~~L-ka~~RllLTG 751 (1321)
..|++|+|..|.+.+... ..+..+..+ ....++++|+
T Consensus 97 ~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 97 SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEe
Confidence 689999999999987542 223333333 3455777776
No 389
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.82 E-value=1.1e+02 Score=38.47 Aligned_cols=25 Identities=24% Similarity=0.125 Sum_probs=20.0
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll 619 (1321)
...++.-+-|.|||..|-.+...+.
T Consensus 39 hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 39 HAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 4457899999999988888776654
No 390
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=52.71 E-value=82 Score=34.95 Aligned_cols=26 Identities=19% Similarity=0.116 Sum_probs=20.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
.+...+|.-+.|.|||..+.++....
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai~~~~ 66 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQALVADA 66 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 34678999999999998887776554
No 391
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=52.60 E-value=1.2e+02 Score=37.57 Aligned_cols=36 Identities=19% Similarity=0.134 Sum_probs=25.4
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
+.-.++.-..|.|||.++..++..+... + .++++|+
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L~~~---g-~kV~lV~ 130 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYFKKK---G-LKVGLVA 130 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHHc---C-CeEEEec
Confidence 4457788899999999988887666433 2 3555554
No 392
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.86 E-value=1.1e+02 Score=39.51 Aligned_cols=28 Identities=14% Similarity=0.097 Sum_probs=22.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.....|+.-+-|.|||..+.+|...+..
T Consensus 37 ~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 37 VAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 3455689999999999999888877653
No 393
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.17 E-value=75 Score=40.96 Aligned_cols=25 Identities=16% Similarity=0.169 Sum_probs=20.8
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll 619 (1321)
...||.-..|+|||..+.+|+..+.
T Consensus 39 ~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 39 HAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3458999999999999998887764
No 394
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=51.13 E-value=3.4e+02 Score=33.58 Aligned_cols=74 Identities=12% Similarity=0.090 Sum_probs=44.6
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc-----ccceEEEEecCCCCCchhhHHhhhhhhccC-----------CCCChHH
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSHE 778 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L-----ka~~RllLTGTPlqNnl~EL~sLl~FL~P~-----------~lgs~~e 778 (1321)
++++|++|.+=+..+ .......+..+ .....++|++|=-.+.+.+++..+..+.+. .+|..-.
T Consensus 269 ~~d~VLIDTaGrsqr-d~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~~~~~I~TKlDEt~~~G~~l~ 347 (420)
T PRK14721 269 GKHMVLIDTVGMSQR-DQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHGIHGCIITKVDEAASLGIALD 347 (420)
T ss_pred CCCEEEecCCCCCcc-hHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeeeCCCCccHHHH
Confidence 668888888643322 12233333333 235568899998788888877776665543 2455555
Q ss_pred HHhhccCCccc
Q 000740 779 FRNRFQNPIEN 789 (1321)
Q Consensus 779 F~~~f~~pI~~ 789 (1321)
+...+..|+..
T Consensus 348 ~~~~~~lPi~y 358 (420)
T PRK14721 348 AVIRRKLVLHY 358 (420)
T ss_pred HHHHhCCCEEE
Confidence 66666667654
No 395
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=51.09 E-value=1.2e+02 Score=32.53 Aligned_cols=56 Identities=13% Similarity=0.039 Sum_probs=35.6
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcc------cCCCceEEEcchhHHHHHHHHHHHHC
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTPVNVLHNWKQEFMKWR 649 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~------~~~k~vLIV~P~sLl~qW~~E~~kw~ 649 (1321)
|.=++++-..|.|||.-++.++..+..... ....++|+|..-.-..++..-+....
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 344788889999999999998887764211 12357888877666656666665554
No 396
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=50.82 E-value=9.2 Score=40.52 Aligned_cols=49 Identities=27% Similarity=0.607 Sum_probs=34.1
Q ss_pred ccccC------CCCceeccCCccccccccccccCCCcccccccccCCC--ceeecCC
Q 000740 379 CVWCG------RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASC--WQCCCCS 427 (1321)
Q Consensus 379 C~~C~------~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~--W~C~~C~ 427 (1321)
|.+|+ .-|-||-|-.|..+||+.||..--.++-+-.-+..+. -+|-+|-
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Ci 58 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCI 58 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhc
Confidence 66664 4579999999999999999976665554443333343 3577773
No 397
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=50.79 E-value=85 Score=42.35 Aligned_cols=118 Identities=20% Similarity=0.195 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhccc---CCCceE------EEcchhHHHH
Q 000740 570 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL---GLRTAL------IVTPVNVLHN 640 (1321)
Q Consensus 570 Q~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~---~~k~vL------IV~P~sLl~q 640 (1321)
|..-++.|+..+.. ....+.||.-+.|.|||..+=++...+...... ...+++ ++++......
T Consensus 192 r~~ei~~~i~~l~r--------~~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~ge 263 (852)
T TIGR03345 192 RDDEIRQMIDILLR--------RRQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVKGE 263 (852)
T ss_pred CHHHHHHHHHHHhc--------CCcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccchH
Q ss_pred HHHHHHHHCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEcccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000740 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1321)
Q Consensus 641 W~~E~~kw~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvI~tY~~~r~l~~~~~~kd~~~~~~i~~ll~~~~dlVI 720 (1321)
|...++.. +......+ ...+++
T Consensus 264 ~e~~lk~i------------------------i~e~~~~~----------------------------------~~~ILf 285 (852)
T TIGR03345 264 FENRLKSV------------------------IDEVKASP----------------------------------QPIILF 285 (852)
T ss_pred HHHHHHHH------------------------HHHHHhcC----------------------------------CCeEEE
Q ss_pred EcCCcccCC-----cchhHHHHHhhc--ccceEEEEecCC
Q 000740 721 CDEAHMIKN-----TRADTTQALKQV--KCQRRIALTGSP 753 (1321)
Q Consensus 721 lDEAH~IKN-----~~S~~skal~~L--ka~~RllLTGTP 753 (1321)
+||+|.+-. .....+..++.. +..-+++.+-||
T Consensus 286 IDEih~l~~~g~~~~~~d~~n~Lkp~l~~G~l~~IgaTT~ 325 (852)
T TIGR03345 286 IDEAHTLIGAGGQAGQGDAANLLKPALARGELRTIAATTW 325 (852)
T ss_pred EeChHHhccCCCccccccHHHHhhHHhhCCCeEEEEecCH
No 398
>PRK08939 primosomal protein DnaI; Reviewed
Probab=50.76 E-value=50 Score=38.91 Aligned_cols=43 Identities=16% Similarity=0.227 Sum_probs=31.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~ 639 (1321)
.+.|.+|.-..|.|||..+.|+...+...+ .++++|.-+.++.
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g----~~v~~~~~~~l~~ 197 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANELAKKG----VSSTLLHFPEFIR 197 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcC----CCEEEEEHHHHHH
Confidence 457888999999999999999988876442 3555554444443
No 399
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=50.50 E-value=97 Score=39.73 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=21.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.++..|+.-.-|+|||..|-.|...+.
T Consensus 37 ~~hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 37 ISHAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 345678899999999999888877664
No 400
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=50.14 E-value=78 Score=42.02 Aligned_cols=26 Identities=19% Similarity=0.235 Sum_probs=20.7
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
...+.||.-+.|.|||..+-++....
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence 34688999999999998877766543
No 401
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=50.03 E-value=57 Score=35.14 Aligned_cols=29 Identities=17% Similarity=0.267 Sum_probs=23.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.....+|.-+-|.|||-.+..++..++..
T Consensus 13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 13 LAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 34568889999999999999888877643
No 402
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=49.68 E-value=1.7e+02 Score=33.74 Aligned_cols=41 Identities=27% Similarity=0.424 Sum_probs=26.1
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc----ccceEEEEecCCCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV----KCQRRIALTGSPLQ 755 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L----ka~~RllLTGTPlq 755 (1321)
.+-++++||||.+..+.=..-+.+.++ ...-+++|-|-|=-
T Consensus 131 r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L 175 (269)
T COG3267 131 RPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKL 175 (269)
T ss_pred CCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCccc
Confidence 446799999999865433333333333 33456889898843
No 403
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=49.29 E-value=92 Score=33.06 Aligned_cols=43 Identities=12% Similarity=0.120 Sum_probs=39.0
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhc
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK 998 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~ 998 (1321)
+..+++...+..++.+....|.||+|++.....+..|-++|=.
T Consensus 9 L~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWt 51 (154)
T PRK06646 9 TSDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWT 51 (154)
T ss_pred eCCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcC
Confidence 4678999999999999999999999999999999999988854
No 404
>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=48.98 E-value=3.9 Score=33.45 Aligned_cols=38 Identities=24% Similarity=0.614 Sum_probs=24.8
Q ss_pred cccccCC----CCceeccCCccccccccccccCCCcccccccccCCCceeecC
Q 000740 378 YCVWCGR----SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1321)
Q Consensus 378 ~C~~C~~----gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1321)
.|.+|.+ +..++... |...||..|+...+... -.|++|
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~~----------~~CP~C 43 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKRN----------NSCPVC 43 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHHS----------SB-TTT
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHhC----------CcCCcc
Confidence 4666653 33455554 99999999997665332 278888
No 405
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=48.68 E-value=6.2 Score=50.32 Aligned_cols=91 Identities=15% Similarity=0.334 Sum_probs=61.4
Q ss_pred eecccCCccccccccccccccccCCcchhhhhhcCcccC---CCCCcccccccCCCCceeccC---------------Cc
Q 000740 333 FYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKD---ADCSECYCVWCGRSSDLVSCK---------------SC 394 (1321)
Q Consensus 333 ~~C~~Cg~~~~~~~~HP~l~~~~C~~C~~~~~~~~~~~d---~d~~~~~C~~C~~gg~l~~Cd---------------~C 394 (1321)
-+|..|+.... -++...-|..| ..|.+-++.++ .-....+|..|-++-.++.|. +|
T Consensus 100 ~~C~~C~~~~~-----~~~~~~~~~~c-~~~~s~~~Lk~H~~~~H~~~~c~lC~~~~kif~~e~k~Yt~~el~~h~~~gd 173 (669)
T KOG2231|consen 100 HSCHICDRRFR-----ALYNKKECLHC-TEFKSVENLKNHMRDQHKLHLCSLCLQNLKIFINERKLYTRAELNLHLMFGD 173 (669)
T ss_pred hhcCccccchh-----hhcccCCCccc-cchhHHHHHHHHHHHhhhhhccccccccceeeeeeeehehHHHHHHHHhcCC
Confidence 56999987632 22344457777 44444333332 223334899998888887772 24
Q ss_pred c-------ccccccccccCCCcccccccccCCCceeecCCch
Q 000740 395 K-------TLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 395 ~-------~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
| .--|..|..+.++...+-.-..-+.|.|.+|+-.
T Consensus 174 ~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~ 215 (669)
T KOG2231|consen 174 PDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYK 215 (669)
T ss_pred CccccccCCccchhhhhhhccHHHHHHhhccceeheeecCcc
Confidence 4 3458889999999999988888899999999743
No 406
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=48.57 E-value=45 Score=44.08 Aligned_cols=69 Identities=17% Similarity=0.114 Sum_probs=45.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhH-HHHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWKQ 643 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sL-l~qW~~ 643 (1321)
.|-|-|..+|.+. ....++-..-|.|||.+.+.-+.+++.........+|+|+-++- ...-..
T Consensus 4 ~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~ 67 (726)
T TIGR01073 4 HLNPEQREAVKTT----------------EGPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKE 67 (726)
T ss_pred ccCHHHHHHHhCC----------------CCCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHH
Confidence 5889999998632 23456666789999999999999888654333356888887642 333334
Q ss_pred HHHHHC
Q 000740 644 EFMKWR 649 (1321)
Q Consensus 644 E~~kw~ 649 (1321)
-+.+.+
T Consensus 68 Rl~~~~ 73 (726)
T TIGR01073 68 RVEKLL 73 (726)
T ss_pred HHHHHh
Confidence 444443
No 407
>PHA02926 zinc finger-like protein; Provisional
Probab=48.41 E-value=6.1 Score=43.63 Aligned_cols=50 Identities=24% Similarity=0.450 Sum_probs=31.9
Q ss_pred cccccccCCCC---ceec------cCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 376 ECYCVWCGRSS---DLVS------CKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 376 ~~~C~~C~~gg---~l~~------Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
+..|.+|.+.- .+.- =+.|..+||..||........ .......||+|.-.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~----~~~~~rsCPiCR~~ 228 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRR----ETGASDNCPICRTR 228 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhcc----ccCcCCcCCCCcce
Confidence 35788888642 1111 135899999999987655321 12346789999644
No 408
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=48.26 E-value=1e+02 Score=34.08 Aligned_cols=34 Identities=18% Similarity=0.235 Sum_probs=23.2
Q ss_pred CCEEEEcCCcccCCcchhHHHHHhhccc--ceEEEEecC
Q 000740 716 PDILVCDEAHMIKNTRADTTQALKQVKC--QRRIALTGS 752 (1321)
Q Consensus 716 ~dlVIlDEAH~IKN~~S~~skal~~Lka--~~RllLTGT 752 (1321)
.+.|.+||||-+.. .+...+..|.. ..++++.|.
T Consensus 83 ~~~v~IDEaQF~~~---~~v~~l~~lad~lgi~Vi~~GL 118 (201)
T COG1435 83 VDCVLIDEAQFFDE---ELVYVLNELADRLGIPVICYGL 118 (201)
T ss_pred cCEEEEehhHhCCH---HHHHHHHHHHhhcCCEEEEecc
Confidence 68999999998844 45556666633 566666663
No 409
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=48.16 E-value=6.9 Score=49.11 Aligned_cols=54 Identities=24% Similarity=0.535 Sum_probs=35.3
Q ss_pred CCCcccccccCCC--------CceeccCC--ccccccccccccC--CCcccccccccCCCceeecCCc
Q 000740 373 DCSECYCVWCGRS--------SDLVSCKS--CKTLFCTTCVKRN--ISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 373 d~~~~~C~~C~~g--------g~l~~Cd~--C~~~Fc~~Cl~~~--~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
|-+.-.|-+|.+- |-.+-|.. |.+.||+.|-.+. +.++.- ...+..=+|-+|.-
T Consensus 114 dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~g--n~~dNVKYCGYCk~ 179 (900)
T KOG0956|consen 114 DRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEG--NISDNVKYCGYCKY 179 (900)
T ss_pred hhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccc--cccccceechhHHH
Confidence 3444469999766 45677865 9999999997642 333321 12345578999953
No 410
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=48.00 E-value=1.3e+02 Score=36.43 Aligned_cols=56 Identities=18% Similarity=0.219 Sum_probs=37.8
Q ss_pred ccCcchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 557 ~vP~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
++|.. ..-|.-|+.-+...+...+ .+..+.+.++.-..|.|||.++--++..+...
T Consensus 14 ~iP~~--l~~Re~ei~~l~~~l~~~~-------~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 14 YIPEE--LPHREEEINQLASFLAPAL-------RGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred CCccc--ccccHHHHHHHHHHHHHHh-------cCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 45555 3456678877766554433 23455669999999999999887777666443
No 411
>COG0254 RpmE Ribosomal protein L31 [Translation, ribosomal structure and biogenesis]
Probab=47.51 E-value=11 Score=35.00 Aligned_cols=46 Identities=22% Similarity=0.444 Sum_probs=33.9
Q ss_pred CCCceecccCCcccc--ccccccccccccCCcchhhhhhcCcccCCCC
Q 000740 329 LSEKFYCTACNNVAI--EVHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1321)
Q Consensus 329 ~~~~~~C~~Cg~~~~--~~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1321)
..-.|.|.+||.... -...++.+.+-+|..|+.||.-..-..|..|
T Consensus 11 ~~v~~~~~s~g~~f~~~ST~~~~~i~vdV~s~~HPFyTG~qk~~d~~G 58 (75)
T COG0254 11 RPVVFVCSSCGNEFTTRSTKGTDEINLDVCSKCHPFYTGKQKIVDTEG 58 (75)
T ss_pred ceEEEEeCCCCCEEEEEeccCCceEEEEeCCCCCCcCcCceeEeeccc
Confidence 456799999997633 2445578899999999999986555555544
No 412
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=47.46 E-value=6 Score=48.07 Aligned_cols=55 Identities=22% Similarity=0.472 Sum_probs=40.9
Q ss_pred cCCCCCcccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 370 KDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 370 ~d~d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.|++-+.-.|..|.+..+-..=..|...||..|+.-- .........-.|+.|...
T Consensus 530 ~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~ey-----v~~f~~~~nvtCP~C~i~ 584 (791)
T KOG1002|consen 530 PDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEY-----VESFMENNNVTCPVCHIG 584 (791)
T ss_pred CccccCceeecccCChhhhhHhhhhhHHHHHHHHHHH-----HHhhhcccCCCCcccccc
Confidence 4555555689999999998888899999999998532 222334445889999754
No 413
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=47.36 E-value=2.6e+02 Score=33.20 Aligned_cols=53 Identities=21% Similarity=0.238 Sum_probs=31.1
Q ss_pred hcCCCCEEEEcCCcccCCcchh---HHHH---Hhhc----ccceEEEEecCCCCCchhhHHhh
Q 000740 712 LQDGPDILVCDEAHMIKNTRAD---TTQA---LKQV----KCQRRIALTGSPLQNNLMEYYCM 764 (1321)
Q Consensus 712 l~~~~dlVIlDEAH~IKN~~S~---~ska---l~~L----ka~~RllLTGTPlqNnl~EL~sL 764 (1321)
...++|+||+|=+-+.-+.... ..+. +..+ .....++|.+|--+|.+......
T Consensus 193 ~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f 255 (318)
T PRK10416 193 KARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAF 255 (318)
T ss_pred HhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHH
Confidence 4458999999999877554431 1111 1111 23345888999666666654333
No 414
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=47.26 E-value=1.4e+02 Score=37.36 Aligned_cols=50 Identities=16% Similarity=0.227 Sum_probs=34.6
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 647 (1321)
|.-.+|+-+.|.|||..++.++..+... .+++|.|..-....|......+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~----g~kvlYvs~EEs~~qi~~ra~r 143 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKN----QMKVLYVSGEESLQQIKMRAIR 143 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhc----CCcEEEEECcCCHHHHHHHHHH
Confidence 4456889999999999988887766443 2478888765555555444433
No 415
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=46.63 E-value=1.8e+02 Score=32.37 Aligned_cols=49 Identities=16% Similarity=0.143 Sum_probs=35.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc----chhHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT----PVNVLHNWKQE 644 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~----P~sLl~qW~~E 644 (1321)
+|.=.+|+-..|.|||.-++.++....... ..++|++. |..++..+...
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~---g~~vly~s~E~~~~~~~~r~~~~ 64 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQ---GKPVLFFSLEMSKEQLLQRLLAS 64 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhC---CCceEEEeCCCCHHHHHHHHHHH
Confidence 344578899999999999998887776552 24788887 44456555443
No 416
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=46.53 E-value=39 Score=38.13 Aligned_cols=18 Identities=28% Similarity=0.139 Sum_probs=13.7
Q ss_pred CcceEEEcCCCCchHHHH
Q 000740 594 GLGCILAHTMGLGKTFQV 611 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQa 611 (1321)
-...||.-..|+|||--|
T Consensus 50 l~h~lf~GPPG~GKTTLA 67 (233)
T PF05496_consen 50 LDHMLFYGPPGLGKTTLA 67 (233)
T ss_dssp --EEEEESSTTSSHHHHH
T ss_pred cceEEEECCCccchhHHH
Confidence 357899999999999443
No 417
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=46.32 E-value=7.6 Score=46.92 Aligned_cols=50 Identities=20% Similarity=0.519 Sum_probs=37.2
Q ss_pred CCCcccccccCCC-----CceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 373 DCSECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 373 d~~~~~C~~C~~g-----g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
|..+..|++|..- ..++-||+|.-+-|++|-...+ .++|.|.|--|--.+
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f--------~peG~WlCrkCi~~~ 244 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQF--------LPEGFWLCRKCIYGE 244 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecCcchhhhhhccccee--------cCcchhhhhhhcccc
Confidence 4456678888643 5699999999999999954332 356899998885544
No 418
>PRK05973 replicative DNA helicase; Provisional
Probab=46.31 E-value=1.8e+02 Score=33.19 Aligned_cols=37 Identities=32% Similarity=0.356 Sum_probs=29.2
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
+|.-.+++-..|.|||+-++-|+......+ .+++++.
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~G----e~vlyfS 99 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAMKSG----RTGVFFT 99 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHHhcC----CeEEEEE
Confidence 455678999999999999999888776542 4778877
No 419
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=45.98 E-value=1.6e+02 Score=37.77 Aligned_cols=28 Identities=25% Similarity=0.188 Sum_probs=22.8
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
.+...|+.-+.|.|||..|-+++..+..
T Consensus 37 i~hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 37 IANAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 3445789999999999999998877754
No 420
>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=45.63 E-value=5.9 Score=31.41 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=27.8
Q ss_pred ccccCCCC-ceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 379 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 379 C~~C~~gg-~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
|.+|.+.- +.+.-..|...||..|+...+.. +...|+.|..
T Consensus 2 C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~---------~~~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEFREPVVLLPCGHVFCRSCIDKWLKS---------GKNTCPLCRT 43 (45)
T ss_pred CCcCchhhhCceEecCCCChhcHHHHHHHHHh---------CcCCCCCCCC
Confidence 66676554 44555569999999998755432 3567988853
No 421
>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=45.50 E-value=5 Score=30.59 Aligned_cols=29 Identities=21% Similarity=0.613 Sum_probs=21.3
Q ss_pred ccccCCCCceeccCCccccccccccccCC
Q 000740 379 CVWCGRSSDLVSCKSCKTLFCTTCVKRNI 407 (1321)
Q Consensus 379 C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~ 407 (1321)
|.+|.+......--.|...||..|+...+
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~ 29 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWL 29 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHH
Confidence 66777765555555699999999987554
No 422
>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=45.11 E-value=86 Score=42.59 Aligned_cols=99 Identities=8% Similarity=-0.015 Sum_probs=69.6
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
..|||-.+.+..+-.....|.+++|.+..+..+..+...+.++.. ..++.+..++|.++..++.++++.+..
T Consensus 481 TGsGKT~val~a~l~al~~g~qvlvLvPT~~LA~Q~~~~f~~~~~--------~~~i~v~~Lsg~~~~~e~~~~~~~l~~ 552 (926)
T TIGR00580 481 VGFGKTEVAMRAAFKAVLDGKQVAVLVPTTLLAQQHFETFKERFA--------NFPVTIELLSRFRSAKEQNEILKELAS 552 (926)
T ss_pred CCccHHHHHHHHHHHHHHhCCeEEEEeCcHHHHHHHHHHHHHHhc--------cCCcEEEEEeccccHHHHHHHHHHHHc
Confidence 458898776655444455688999999999888888777775321 135678889999999999999998885
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEEE
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVII 1066 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VIi 1066 (1321)
+.+.|++.+.......+.+.....||+
T Consensus 553 ---g~~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 553 ---GKIDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred ---CCceEEEchHHHhhCCCCcccCCEEEe
Confidence 345555544444444566666666555
No 423
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=44.99 E-value=1.1e+02 Score=35.66 Aligned_cols=27 Identities=19% Similarity=0.218 Sum_probs=22.8
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhc
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~ 622 (1321)
-.+|.-..|.|||..|.++...++...
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 478888899999999999998886543
No 424
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=44.97 E-value=7.1 Score=49.07 Aligned_cols=47 Identities=28% Similarity=0.733 Sum_probs=33.4
Q ss_pred cccccCCCC-----ceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 378 YCVWCGRSS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~gg-----~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
-|.+|+.+| .++-|..|...||..|+....-... -...|.|+-|..-
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~-----l~~gWrC~~crvC 71 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAV-----LSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHH-----hcCCcccCCceee
Confidence 466666554 6899999999999999875433332 2355999988643
No 425
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=44.37 E-value=95 Score=36.74 Aligned_cols=54 Identities=9% Similarity=0.079 Sum_probs=33.6
Q ss_pred HHHHHhhhcCCCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCchhhHHhhh
Q 000740 705 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMV 765 (1321)
Q Consensus 705 ~~~i~~ll~~~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl 765 (1321)
...+...+..+||++|++|.+- -...-++..+.+-| .-=+|....++..++.-+
T Consensus 207 ~dll~aalR~rPd~IivgEvrg-----~e~~~~~~a~~tGh--~~isT~ha~s~~~~~~rl 260 (312)
T COG0630 207 EDLLRAALRQRPDYIIVGELRG-----REAFVLFQAMQTGH--GTISTIHADSPELVLDRL 260 (312)
T ss_pred HHHHHHHHhcCCCeEEEeeeec-----HHHHHHHHHHhcCC--CceeEEecCCHHHHHHHH
Confidence 3445566778999999999873 23345555666666 333466666666554433
No 426
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=44.25 E-value=1.7e+02 Score=33.26 Aligned_cols=46 Identities=30% Similarity=0.506 Sum_probs=34.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc----chhHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT----PVNVLHNWK 642 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~----P~sLl~qW~ 642 (1321)
.+.-.++.-.+|.|||+-++-|++...+.+ .|+|.|. |..++.++.
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~g----e~vlyvs~~e~~~~l~~~~~ 71 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREG----EPVLYVSTEESPEELLENAR 71 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcC----CcEEEEEecCCHHHHHHHHH
Confidence 456678889999999999999999887763 3788887 344444443
No 427
>PHA00350 putative assembly protein
Probab=44.24 E-value=37 Score=41.43 Aligned_cols=15 Identities=47% Similarity=0.569 Sum_probs=12.5
Q ss_pred CEEEEcCCcccCCcc
Q 000740 717 DILVCDEAHMIKNTR 731 (1321)
Q Consensus 717 dlVIlDEAH~IKN~~ 731 (1321)
.+|||||||++-+..
T Consensus 83 aLIViDEaq~~~p~r 97 (399)
T PHA00350 83 ALYVIDEAQMIFPKR 97 (399)
T ss_pred CEEEEECchhhcCCC
Confidence 689999999987653
No 428
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=43.96 E-value=1.1e+02 Score=38.25 Aligned_cols=27 Identities=19% Similarity=0.128 Sum_probs=22.5
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
....|+.-+.|.|||..|.+++..+..
T Consensus 39 ~ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 39 AHAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 456788999999999999998887754
No 429
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=43.95 E-value=5e+02 Score=30.12 Aligned_cols=34 Identities=15% Similarity=0.242 Sum_probs=23.6
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
-.++.-..|.|||-++.-+...+... .+++++|.
T Consensus 74 vi~l~G~~G~GKTTt~akLA~~l~~~----g~~V~li~ 107 (272)
T TIGR00064 74 VILFVGVNGVGKTTTIAKLANKLKKQ----GKSVLLAA 107 (272)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHhc----CCEEEEEe
Confidence 34556799999999888877665432 24666665
No 430
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=43.86 E-value=64 Score=42.38 Aligned_cols=84 Identities=19% Similarity=0.202 Sum_probs=69.8
Q ss_pred cccccccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHH
Q 000740 952 TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV 1031 (1321)
Q Consensus 952 ~~~~~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI 1031 (1321)
....+..|||.++.++++......|+.+||-..-......+...|... .|.++..++++.+..+|...-
T Consensus 221 Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~r-----------Fg~~v~vlHS~Ls~~er~~~W 289 (730)
T COG1198 221 LLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKAR-----------FGAKVAVLHSGLSPGERYRVW 289 (730)
T ss_pred eEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHH-----------hCCChhhhcccCChHHHHHHH
Confidence 345578899999999999999999999999999998888888888763 478899999999999999888
Q ss_pred HHHhCCCCCCceEEEeecc
Q 000740 1032 ERFNEPLNKRVKCTLISTR 1050 (1321)
Q Consensus 1032 ~~Fn~~~n~~v~VfLISTk 1050 (1321)
.+..+ +.++| +|.|+
T Consensus 290 ~~~~~---G~~~v-VIGtR 304 (730)
T COG1198 290 RRARR---GEARV-VIGTR 304 (730)
T ss_pred HHHhc---CCceE-EEEec
Confidence 88875 55654 44444
No 431
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=43.69 E-value=69 Score=42.44 Aligned_cols=25 Identities=28% Similarity=0.292 Sum_probs=19.8
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLY 616 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~ 616 (1321)
..+.|.+|.-..|.|||..+-++..
T Consensus 210 ~~~~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 210 EPPKGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred CCCceEEEECCCCCChHHHHHHHHH
Confidence 3567899999999999977666543
No 432
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=43.46 E-value=5.1e+02 Score=32.18 Aligned_cols=34 Identities=24% Similarity=0.296 Sum_probs=23.7
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
..|+--.|.|||-++.-+...+... + +++++|+-
T Consensus 103 i~lvG~~GvGKTTtaaKLA~~l~~~---G-~kV~lV~~ 136 (429)
T TIGR01425 103 IMFVGLQGSGKTTTCTKLAYYYQRK---G-FKPCLVCA 136 (429)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC---C-CCEEEEcC
Confidence 4577789999998888777665432 2 36666654
No 433
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=43.41 E-value=1.9e+02 Score=34.31 Aligned_cols=29 Identities=14% Similarity=0.353 Sum_probs=24.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
-...-++.-+-|.||+..|.+|+..++..
T Consensus 25 l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 25 IAPAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 45788999999999999999999888654
No 434
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=43.09 E-value=3.5e+02 Score=33.51 Aligned_cols=75 Identities=13% Similarity=0.277 Sum_probs=46.0
Q ss_pred CCCCEEEEcCCcccCCcchhHHHHHhhc--------ccceEEEEecCCCCCchhhHHhhhhhhccC-----------CCC
Q 000740 714 DGPDILVCDEAHMIKNTRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLG 774 (1321)
Q Consensus 714 ~~~dlVIlDEAH~IKN~~S~~skal~~L--------ka~~RllLTGTPlqNnl~EL~sLl~FL~P~-----------~lg 774 (1321)
.++|+||+|=+-+.-+.. .....+..+ .....++|+||==++.+.+.+..+..+.+. .+|
T Consensus 298 ~~~D~VLIDTaGr~~rd~-~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTKLDEt~~~G 376 (432)
T PRK12724 298 DGSELILIDTAGYSHRNL-EQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEADFLG 376 (432)
T ss_pred CCCCEEEEeCCCCCccCH-HHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEcccCCCCcc
Confidence 478999999876553222 222233222 224678899998887888877777666544 234
Q ss_pred ChHHHHhhccCCccc
Q 000740 775 SSHEFRNRFQNPIEN 789 (1321)
Q Consensus 775 s~~eF~~~f~~pI~~ 789 (1321)
..-.....+..|+..
T Consensus 377 ~il~i~~~~~lPI~y 391 (432)
T PRK12724 377 SFLELADTYSKSFTY 391 (432)
T ss_pred HHHHHHHHHCCCEEE
Confidence 444555666777653
No 435
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=43.08 E-value=3.5e+02 Score=31.93 Aligned_cols=25 Identities=24% Similarity=0.064 Sum_probs=19.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
.....+|.-..|+|||..+-++...
T Consensus 50 ~~~~~ll~GppG~GKT~la~~ia~~ 74 (328)
T PRK00080 50 ALDHVLLYGPPGLGKTTLANIIANE 74 (328)
T ss_pred CCCcEEEECCCCccHHHHHHHHHHH
Confidence 3467899999999999887766544
No 436
>PRK10867 signal recognition particle protein; Provisional
Probab=42.45 E-value=1.7e+02 Score=36.23 Aligned_cols=36 Identities=17% Similarity=0.128 Sum_probs=25.7
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
.-.++.-..|.|||.++.-++..+.... .+++++|+
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~---G~kV~lV~ 136 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKK---KKKVLLVA 136 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhc---CCcEEEEE
Confidence 3467788999999999988887765441 23566665
No 437
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=41.90 E-value=1.3e+02 Score=39.80 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
...+.||.-+.|.|||..+-++...+.
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~~ 228 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRIA 228 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence 456899999999999998877766553
No 438
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=41.69 E-value=8.4 Score=30.59 Aligned_cols=35 Identities=20% Similarity=0.557 Sum_probs=17.2
Q ss_pred CceeccCCccccccccccccCCCcccccccccCCCceeecCC
Q 000740 386 SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 386 g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
..|+.|++|.-++|..|-.... ....+.|.|-.|.
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~-------~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSE-------VPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS---------SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCccc-------CCCCCcEECCcCC
Confidence 3689999999999999953222 2233359998873
No 439
>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=41.37 E-value=8.1 Score=35.53 Aligned_cols=26 Identities=19% Similarity=0.602 Sum_probs=19.0
Q ss_pred CCccccccccccccCCCcccccccccCCCceeecCC
Q 000740 392 KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 392 d~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
..|...||..||...+... ..||+|.
T Consensus 48 ~~C~H~FH~~Ci~~Wl~~~----------~~CP~CR 73 (73)
T PF12678_consen 48 GPCGHIFHFHCISQWLKQN----------NTCPLCR 73 (73)
T ss_dssp ETTSEEEEHHHHHHHHTTS----------SB-TTSS
T ss_pred cccCCCEEHHHHHHHHhcC----------CcCCCCC
Confidence 4599999999997666443 3799984
No 440
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=41.31 E-value=6.9 Score=35.74 Aligned_cols=52 Identities=23% Similarity=0.378 Sum_probs=19.6
Q ss_pred cccccCC----CCc--eeccC--CccccccccccccCCCcccccc-cccCCCceeecCCch
Q 000740 378 YCVWCGR----SSD--LVSCK--SCKTLFCTTCVKRNISEACLSD-EVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~----gg~--l~~Cd--~C~~~Fc~~Cl~~~~~~~~~~~-~~~~~~W~C~~C~p~ 429 (1321)
.|.+|-. .++ .+.|+ .|...||..||...+-...-.+ ...--.+.|+.|...
T Consensus 4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCe
Confidence 4666642 232 37898 5999999999986543221111 011223789999643
No 441
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=41.31 E-value=6.1 Score=50.85 Aligned_cols=55 Identities=9% Similarity=0.046 Sum_probs=45.8
Q ss_pred CCCCCcccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCchh
Q 000740 371 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1321)
Q Consensus 371 d~d~~~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~~ 430 (1321)
-++.++..|+.|.+++.++.|+.|.|.++.+|+.+ .+.. ....+.|.|.-|+-+-
T Consensus 501 ~e~~~d~~~~~~~~~l~~l~~p~~lrr~k~d~l~~-~P~K----te~i~~~~~~~~Q~~~ 555 (696)
T KOG0383|consen 501 LEEFHDISCEEQIKKLHLLLCPHMLRRLKLDVLKP-MPLK----TELIGRVELSPCQKKY 555 (696)
T ss_pred hhhcchhhHHHHHHhhccccCchhhhhhhhhhccC-CCcc----ceeEEEEecCHHHHHH
Confidence 46788889999999999999999999999999987 4444 3345789999997653
No 442
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=41.23 E-value=8.1 Score=44.20 Aligned_cols=42 Identities=26% Similarity=0.618 Sum_probs=33.8
Q ss_pred cccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.|..|-+...--.|--|...||-.||.-..+... .|+.|.-+
T Consensus 241 kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~----------eCPlCR~~ 282 (293)
T KOG0317|consen 241 KCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA----------ECPLCREK 282 (293)
T ss_pred ceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc----------CCCccccc
Confidence 7999999998889999999999999976554441 19999643
No 443
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=41.23 E-value=1.1e+02 Score=37.98 Aligned_cols=39 Identities=23% Similarity=0.249 Sum_probs=25.9
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc-ccceEEEEecCCCCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQN 756 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L-ka~~RllLTGTPlqN 756 (1321)
-+|+|.+||++-+ +. ..+..+..+ +.+.|++--+--+||
T Consensus 295 ~yD~ilIDE~QDF--P~-~F~~Lcf~~tkd~KrlvyAyDelQn 334 (660)
T COG3972 295 AYDYILIDESQDF--PQ-SFIDLCFMVTKDKKRLVYAYDELQN 334 (660)
T ss_pred cccEEEecccccC--CH-HHHHHHHHHhcCcceEEEehHhhhc
Confidence 7899999999976 33 344444444 556777776654444
No 444
>PRK08760 replicative DNA helicase; Provisional
Probab=40.77 E-value=2.6e+02 Score=35.14 Aligned_cols=53 Identities=13% Similarity=-0.014 Sum_probs=38.6
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 648 (1321)
+|.=.|||--.|.|||.-++.++....... ..+++++..---..+|...+...
T Consensus 228 ~G~LivIaarPg~GKTafal~iA~~~a~~~---g~~V~~fSlEMs~~ql~~Rl~a~ 280 (476)
T PRK08760 228 PTDLIILAARPAMGKTTFALNIAEYAAIKS---KKGVAVFSMEMSASQLAMRLISS 280 (476)
T ss_pred CCceEEEEeCCCCChhHHHHHHHHHHHHhc---CCceEEEeccCCHHHHHHHHHHh
Confidence 344578999999999999988887654321 24889998777777777766543
No 445
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=40.75 E-value=1.5e+02 Score=37.24 Aligned_cols=51 Identities=20% Similarity=0.154 Sum_probs=35.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 647 (1321)
+|.-.++.-+.|.|||.-++-|++.....+ .++|+|.---...|-...+..
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~g----e~~~y~s~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANK----ERAILFAYEESRAQLLRNAYS 312 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCC----CeEEEEEeeCCHHHHHHHHHH
Confidence 345578999999999999999988876543 367777744444444444443
No 446
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.57 E-value=2.6e+02 Score=36.46 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=22.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~ 620 (1321)
-....|+.-.-|.|||..|..|...+..
T Consensus 37 i~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 37 VGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred CCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 4456889999999999999888877643
No 447
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=40.36 E-value=1.9e+02 Score=37.84 Aligned_cols=36 Identities=11% Similarity=0.033 Sum_probs=24.1
Q ss_pred EEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 598 ILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
++.-+=|-|||..+..++..+.... + ..++|.+|..
T Consensus 191 V~taPRqrGKS~iVgi~l~~La~f~--G-i~IlvTAH~~ 226 (752)
T PHA03333 191 AATVPRRCGKTTIMAIILAAMISFL--E-IDIVVQAQRK 226 (752)
T ss_pred EEEeccCCCcHHHHHHHHHHHHHhc--C-CeEEEECCCh
Confidence 3444589999998876666554322 2 4789999943
No 448
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=40.13 E-value=1.3e+02 Score=35.68 Aligned_cols=26 Identities=31% Similarity=0.361 Sum_probs=20.5
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~l 618 (1321)
.+.+.||+-+-|+|||...|-+...+
T Consensus 88 ~g~~~~~~gdsg~GKttllL~l~Ial 113 (402)
T COG3598 88 KGYVSILYGDSGVGKTTLLLYLCIAL 113 (402)
T ss_pred cCeeEEEecCCcccHhHHHHHHHHHH
Confidence 56789999999999998776655443
No 449
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=40.02 E-value=4.9e+02 Score=29.15 Aligned_cols=53 Identities=11% Similarity=0.142 Sum_probs=33.2
Q ss_pred ceEEEcCCCCchHHHHHHHHHHHHHhc--------ccCCCceEEEc---chhHHHHHHHHHHHH
Q 000740 596 GCILAHTMGLGKTFQVIAFLYTAMRSV--------NLGLRTALIVT---PVNVLHNWKQEFMKW 648 (1321)
Q Consensus 596 GgILADeMGLGKTlQaIall~~ll~~~--------~~~~k~vLIV~---P~sLl~qW~~E~~kw 648 (1321)
=++|+-.-|.|||.-++.+++.+.... ....+++|+++ |...+.+-...+...
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~ 66 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQH 66 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhh
Confidence 368889999999999988877653211 11234677777 555555444444433
No 450
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=39.53 E-value=2.1e+02 Score=31.32 Aligned_cols=22 Identities=18% Similarity=0.292 Sum_probs=17.5
Q ss_pred eEEEcCCCCchHHHHHHHHHHH
Q 000740 597 CILAHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~l 618 (1321)
.+++-.+|.|||...-+++..+
T Consensus 4 ilI~GptGSGKTTll~~ll~~~ 25 (198)
T cd01131 4 VLVTGPTGSGKSTTLAAMIDYI 25 (198)
T ss_pred EEEECCCCCCHHHHHHHHHHHh
Confidence 5778899999998877766554
No 451
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=39.53 E-value=57 Score=36.07 Aligned_cols=40 Identities=28% Similarity=0.342 Sum_probs=26.1
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhcccceEEEEecCCCCCc
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNN 757 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~Lka~~RllLTGTPlqNn 757 (1321)
.++++|+||++.+-.. .. ..+..+.....++|-|=|.|-.
T Consensus 62 ~~~~liiDE~~~~~~g--~l-~~l~~~~~~~~~~l~GDp~Q~~ 101 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPG--YL-LLLLSLSPAKNVILFGDPLQIP 101 (234)
T ss_pred cCCEEEEeccccCChH--HH-HHHHhhccCcceEEEECchhcc
Confidence 4789999999987321 12 2234444445688889998853
No 452
>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=39.43 E-value=5.8 Score=31.62 Aligned_cols=38 Identities=26% Similarity=0.706 Sum_probs=23.0
Q ss_pred ccccCCCC-ceeccCCccccccccccccCCCcccccccccCCCceeecC
Q 000740 379 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1321)
Q Consensus 379 C~~C~~gg-~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1321)
|.+|.+.- +.+....|..+||..|+...+.. ...|++|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~----------~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK----------NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC----------TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC----------cCCCcCC
Confidence 44554332 33356779999999998654322 2678877
No 453
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=39.22 E-value=2.7e+02 Score=33.15 Aligned_cols=29 Identities=10% Similarity=0.088 Sum_probs=23.6
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
-....|+.-+-|.|||..|.+|+..++..
T Consensus 27 l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 27 LSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 44566999999999999999988877643
No 454
>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=39.18 E-value=13 Score=43.37 Aligned_cols=27 Identities=22% Similarity=0.588 Sum_probs=20.9
Q ss_pred CccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 393 ~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
.|...||..|+.+.+..+ +=.|+.|.-
T Consensus 25 ~CGH~~C~sCv~~l~~~~---------~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRG---------SGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCC---------CCCCCCCCC
Confidence 799999999998876433 237999963
No 455
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=38.43 E-value=75 Score=40.01 Aligned_cols=26 Identities=27% Similarity=0.229 Sum_probs=21.0
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYT 617 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ 617 (1321)
....|.+|.-..|.|||..+=++...
T Consensus 86 ~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 86 KIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred CCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 34578999999999999988776543
No 456
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=38.35 E-value=17 Score=32.06 Aligned_cols=48 Identities=19% Similarity=0.492 Sum_probs=30.7
Q ss_pred eecccCCccccccccccccccccCCcchhhhhhcCcccCCCCCcccccccCCCCceeccCCcc
Q 000740 333 FYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCK 395 (1321)
Q Consensus 333 ~~C~~Cg~~~~~~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~ 395 (1321)
-.||+||..+... . ....-.|+.| ..-.--.|.-|..-|...-|.+|.
T Consensus 10 ~~CtSCg~~i~p~-e--~~v~F~CPnC------------Ge~~I~Rc~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 10 PVCTSCGREIAPG-E--TAVKFPCPNC------------GEVEIYRCAKCRKLGNPYRCPKCG 57 (61)
T ss_pred ceeccCCCEeccC-C--ceeEeeCCCC------------CceeeehhhhHHHcCCceECCCcC
Confidence 4699999874221 0 0123358888 111122688999999999998885
No 457
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=38.30 E-value=1.1e+02 Score=37.16 Aligned_cols=22 Identities=27% Similarity=0.076 Sum_probs=17.4
Q ss_pred CCCcceEEEcCCCCchHHHHHH
Q 000740 592 DKGLGCILAHTMGLGKTFQVIA 613 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIa 613 (1321)
..-...||.-..|.|||-.|-.
T Consensus 46 ~~l~SmIl~GPPG~GKTTlA~l 67 (436)
T COG2256 46 GHLHSMILWGPPGTGKTTLARL 67 (436)
T ss_pred CCCceeEEECCCCCCHHHHHHH
Confidence 4557899999999999955433
No 458
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=38.24 E-value=1.5e+02 Score=34.82 Aligned_cols=30 Identities=7% Similarity=-0.089 Sum_probs=24.5
Q ss_pred CCCcceEEEcCCCCchHHHHHHHHHHHHHh
Q 000740 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1321)
Q Consensus 592 ~~g~GgILADeMGLGKTlQaIall~~ll~~ 621 (1321)
.-....++..+-|.||+..|.+|...++..
T Consensus 17 rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~ 46 (290)
T PRK05917 17 KVPSAIILHGQDLSNLSARAYELASLILKE 46 (290)
T ss_pred CcCeeEeeECCCCCcHHHHHHHHHHHHhCC
Confidence 345677888999999999999999887653
No 459
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=38.23 E-value=3.4e+02 Score=36.14 Aligned_cols=35 Identities=20% Similarity=0.229 Sum_probs=21.4
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
..|.-..|.|||.++.-+...+... .+.+++.+|.
T Consensus 188 i~lVGpnGvGKTTTiaKLA~~~~~~--~G~kkV~lit 222 (767)
T PRK14723 188 LALVGPTGVGKTTTTAKLAARCVAR--EGADQLALLT 222 (767)
T ss_pred EEEECCCCCcHHHHHHHHHhhHHHH--cCCCeEEEec
Confidence 4577999999998766655544222 1223555554
No 460
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=37.82 E-value=36 Score=41.61 Aligned_cols=58 Identities=16% Similarity=0.430 Sum_probs=39.5
Q ss_pred cccccCCCCceeccCCccccccccccccCC--Cccc--cccc-ccCCCceeecCCchhHHHHHHHHHhhhcC
Q 000740 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNI--SEAC--LSDE-VQASCWQCCCCSPSLLKRLTSELGRAMGS 444 (1321)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~--~~~~--~~~~-~~~~~W~C~~C~p~~l~~l~~~~~~~~~~ 444 (1321)
-|.| +-||.|...=|..|-.+.- |+|. ...+ ..+...+|..|+-.. .|+...++++..
T Consensus 143 ~~~W-------i~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~s--eLlG~vk~vf~~ 205 (446)
T PF07227_consen 143 TCSW-------IGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTS--ELLGFVKKVFQT 205 (446)
T ss_pred CeeE-------EeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChh--hHHHHHHHHHHH
Confidence 6777 6689999999999987643 3332 2212 245679999998653 566666666654
No 461
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=37.77 E-value=4.4 Score=48.41 Aligned_cols=67 Identities=18% Similarity=0.403 Sum_probs=33.7
Q ss_pred ecccCCccccc---------cccccccccccCCcchhhhhhc-CcccCCC-----CCcc---cccccCCCCceeccCCcc
Q 000740 334 YCTACNNVAIE---------VHPHPILNVIVCKDCKCLLEKK-MHVKDAD-----CSEC---YCVWCGRSSDLVSCKSCK 395 (1321)
Q Consensus 334 ~C~~Cg~~~~~---------~~~HP~l~~~~C~~C~~~~~~~-~~~~d~d-----~~~~---~C~~C~~gg~l~~Cd~C~ 395 (1321)
.|..||+-+.. -.+|= .--.|..|...+.-. +|.+|.. ++++ .|.+|+.--.-..=-.|.
T Consensus 276 iC~~C~K~V~g~~~ac~Am~~~fHv--~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~d~iLrA~G 353 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEAMDQLFHV--QCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIMDRILRALG 353 (468)
T ss_pred hhhhcCCcccCcchHHHHhhhhhcc--cceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHHHHHHHhcc
Confidence 68889876431 11333 334677775444332 3344432 3321 356665322111112388
Q ss_pred ccccccc
Q 000740 396 TLFCTTC 402 (1321)
Q Consensus 396 ~~Fc~~C 402 (1321)
++||..|
T Consensus 354 kayHp~C 360 (468)
T KOG1701|consen 354 KAYHPGC 360 (468)
T ss_pred cccCCCc
Confidence 9999999
No 462
>PRK06904 replicative DNA helicase; Validated
Probab=37.15 E-value=3.3e+02 Score=34.26 Aligned_cols=51 Identities=14% Similarity=0.052 Sum_probs=36.0
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 646 (1321)
+|.=.|||--.|.|||.-++.++....... ..+++++..---..++...+-
T Consensus 220 ~G~LiiIaarPg~GKTafalnia~~~a~~~---g~~Vl~fSlEMs~~ql~~Rll 270 (472)
T PRK06904 220 PSDLIIVAARPSMGKTTFAMNLCENAAMAS---EKPVLVFSLEMPAEQIMMRML 270 (472)
T ss_pred CCcEEEEEeCCCCChHHHHHHHHHHHHHhc---CCeEEEEeccCCHHHHHHHHH
Confidence 345579999999999988877766553221 358999987766666665543
No 463
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=37.13 E-value=2e+02 Score=35.64 Aligned_cols=36 Identities=22% Similarity=0.295 Sum_probs=25.3
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
.-.+++-..|.|||.++.-++..+.... + +++++|.
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~--g-~kV~lV~ 135 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQ--G-KKVLLVA 135 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhC--C-CeEEEEe
Confidence 4578889999999999888877754221 1 3555555
No 464
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=37.04 E-value=1.2e+02 Score=32.93 Aligned_cols=52 Identities=15% Similarity=0.213 Sum_probs=31.3
Q ss_pred cCCCCEEEEcCCcccCCcc----hhHHHHHhhcccceEEEEecCCCCCchhhHHhh
Q 000740 713 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCM 764 (1321)
Q Consensus 713 ~~~~dlVIlDEAH~IKN~~----S~~skal~~Lka~~RllLTGTPlqNnl~EL~sL 764 (1321)
...||+||+||.=..-+.. ......+..-...--++|||-=....+.|+..+
T Consensus 113 ~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~AD~ 168 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAIADQ 168 (178)
T ss_pred CCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCCe
Confidence 4589999999986554332 333444444344557999997544444443333
No 465
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=36.93 E-value=8.9 Score=31.40 Aligned_cols=28 Identities=32% Similarity=0.812 Sum_probs=17.2
Q ss_pred CccccccccccccCCCcccccccccCCCceeecC
Q 000740 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1321)
Q Consensus 393 ~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1321)
.|..+||..||....... ....+.|+.|
T Consensus 15 ~CGH~FC~~Cl~~~~~~~------~~~~~~CP~C 42 (42)
T PF15227_consen 15 PCGHSFCRSCLERLWKEP------SGSGFSCPEC 42 (42)
T ss_dssp SSSSEEEHHHHHHHHCCS------SSST---SSS
T ss_pred CCcCHHHHHHHHHHHHcc------CCcCCCCcCC
Confidence 388999999997665433 1223889887
No 466
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.90 E-value=8.5 Score=45.46 Aligned_cols=48 Identities=25% Similarity=0.474 Sum_probs=33.5
Q ss_pred cccccCCCC----ceeccCCccccccccccccCCCcccccccccCCCc--eeecCCchhHHHH
Q 000740 378 YCVWCGRSS----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCW--QCCCCSPSLLKRL 434 (1321)
Q Consensus 378 ~C~~C~~gg----~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W--~C~~C~p~~l~~l 434 (1321)
.|.+|-+|. +|-.=.+|..+||..|+... .+-+|| .|+.|..+.-.++
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qw---------fe~~Ps~R~cpic~ik~~~r~ 59 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQW---------FEGDPSNRGCPICQIKLQERH 59 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHHH---------HccCCccCCCCceeeccccee
Confidence 588886665 44455669999999997433 356789 6999985533333
No 467
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=36.88 E-value=1.8e+02 Score=36.81 Aligned_cols=50 Identities=18% Similarity=0.144 Sum_probs=32.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 647 (1321)
|.-.++.-+.|.|||.-+..|+......+ .++++|.-.....+-.+.+..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g----~~~~yis~e~~~~~i~~~~~~ 322 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRG----ERCLLFAFEESRAQLIRNARS 322 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCC----CcEEEEEecCCHHHHHHHHHH
Confidence 33457789999999999999987765543 377777644333333333333
No 468
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.73 E-value=2.1e+02 Score=37.27 Aligned_cols=27 Identities=22% Similarity=0.187 Sum_probs=20.9
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll 619 (1321)
.....||.-+-|.|||..|..+...+.
T Consensus 38 l~hayLf~Gp~G~GKtt~A~~lAk~l~ 64 (614)
T PRK14971 38 LAHAYLFCGPRGVGKTTCARIFAKTIN 64 (614)
T ss_pred CCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence 345578999999999997777766654
No 469
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=36.70 E-value=17 Score=41.47 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=25.3
Q ss_pred CccccccccccccCCCcccccccccCCCceeecCC
Q 000740 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1321)
Q Consensus 393 ~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1321)
.|||++|..|.-.++|...... ...-.++|+.|.
T Consensus 122 ~CPRv~C~~q~~LPvGlSd~~g-~~~VKlyCP~C~ 155 (251)
T PTZ00396 122 HCPRVLCEGQNVLPIGLSDVLK-TSRVKVYCPRCQ 155 (251)
T ss_pred CCCCccCCCCcccccccCCCcC-cCceeEeCCCch
Confidence 4999999999888888764442 244458999995
No 470
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=36.38 E-value=5.1e+02 Score=32.70 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=30.3
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc-----ccceEEEEecCCCCCchhhHHhhhhhh
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L-----ka~~RllLTGTPlqNnl~EL~sLl~FL 768 (1321)
+++++++|.+=+..+.. .....+..+ .....++|.+|.-++.+.+....++.+
T Consensus 334 d~d~VLIDTaGr~~~d~-~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~~i~~~f~~~ 391 (484)
T PRK06995 334 NKHIVLIDTIGMSQRDR-MVSEQIAMLHGAGAPVKRLLLLNATSHGDTLNEVVQAYRGP 391 (484)
T ss_pred CCCeEEeCCCCcChhhH-HHHHHHHHHhccCCCCeeEEEEeCCCcHHHHHHHHHHhccC
Confidence 56788888865443321 222333322 233568888888777777665554443
No 471
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.22 E-value=10 Score=42.78 Aligned_cols=49 Identities=22% Similarity=0.488 Sum_probs=30.8
Q ss_pred CCCcccccccCCCCceecc-----C-----CccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 373 DCSECYCVWCGRSSDLVSC-----K-----SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 373 d~~~~~C~~C~~gg~l~~C-----d-----~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
..+|+-|.+||+.=+.-.= + +|..+||..||+-..--+.. =.||.|..+
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKk--------qtCPYCKek 279 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKK--------QTCPYCKEK 279 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCC--------CCCchHHHH
Confidence 4566789999865433221 1 29999999999744222211 249999765
No 472
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=35.86 E-value=2.3e+02 Score=35.86 Aligned_cols=39 Identities=28% Similarity=0.422 Sum_probs=29.4
Q ss_pred CCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcc
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P 634 (1321)
.|.-.+|+-+.|.|||+-++.|++..+... ..++|.|.=
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~---ge~~lyis~ 68 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRF---DEPGVFVTF 68 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhc---CCCEEEEEc
Confidence 355678899999999999999987766541 237788873
No 473
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=35.62 E-value=2.9e+02 Score=35.07 Aligned_cols=73 Identities=12% Similarity=0.012 Sum_probs=43.6
Q ss_pred cchhhhccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchh
Q 000740 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1321)
Q Consensus 560 ~~l~~~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s 636 (1321)
++....|-|||...+.-++-- ..+......-.-+++--.=|=|||-.+.+++.+..--.......++|++|.-
T Consensus 56 ~~~p~~l~PwQkFiia~l~G~----~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~ 128 (546)
T COG4626 56 PGFPESLEPWQKFIVAALFGF----YDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSV 128 (546)
T ss_pred CCCccccchHHHHHHHHHhce----eecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccH
Confidence 556678999999888655421 1100000011235777788999998776666554432223446788888864
No 474
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=35.60 E-value=7.2 Score=50.02 Aligned_cols=42 Identities=21% Similarity=0.556 Sum_probs=28.3
Q ss_pred cccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
+|.+|...-.=..=-.|..+||..|+.+-.+... =.||-|..
T Consensus 645 kCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRq---------RKCP~Cn~ 686 (698)
T KOG0978|consen 645 KCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQ---------RKCPKCNA 686 (698)
T ss_pred eCCCccCchhhHHHHhcchHHHHHHHHHHHHHhc---------CCCCCCCC
Confidence 5777764333233346999999999987665552 34999964
No 475
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=35.57 E-value=8.7 Score=41.04 Aligned_cols=41 Identities=24% Similarity=0.707 Sum_probs=27.1
Q ss_pred ccccCCC--CceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 379 CVWCGRS--SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 379 C~~C~~g--g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
|.+|.+. -.+..--+|..+||..||+..+... =.|+.|.-+
T Consensus 134 CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~----------~~CP~C~kk 176 (187)
T KOG0320|consen 134 CPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT----------NKCPTCRKK 176 (187)
T ss_pred CCceecchhhccccccccchhHHHHHHHHHHHhC----------CCCCCcccc
Confidence 5555432 2333455699999999998665444 459999753
No 476
>PRK10689 transcription-repair coupling factor; Provisional
Probab=34.93 E-value=1.5e+02 Score=41.22 Aligned_cols=98 Identities=7% Similarity=-0.043 Sum_probs=64.3
Q ss_pred ccCchHHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHHhC
Q 000740 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1321)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~Fn~ 1036 (1321)
..+||-.+.+..+-.....|.+++|-+..+..+..+...+..... ..++.+..+.|..+..++..++....+
T Consensus 630 TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~--------~~~v~i~~l~g~~s~~e~~~il~~l~~ 701 (1147)
T PRK10689 630 VGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFA--------NWPVRIEMLSRFRSAKEQTQILAEAAE 701 (1147)
T ss_pred CCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhc--------cCCceEEEEECCCCHHHHHHHHHHHHh
Confidence 458898766554444455688999999999887777776664210 125667788999999999988888874
Q ss_pred CCCCCceEEEeeccccccccCcccCCEEE
Q 000740 1037 PLNKRVKCTLISTRAGSLGINLHSANRVI 1065 (1321)
Q Consensus 1037 ~~n~~v~VfLISTkAGg~GLNLt~An~VI 1065 (1321)
+.+.|++.+.......+++.....||
T Consensus 702 ---g~~dIVVgTp~lL~~~v~~~~L~lLV 727 (1147)
T PRK10689 702 ---GKIDILIGTHKLLQSDVKWKDLGLLI 727 (1147)
T ss_pred ---CCCCEEEECHHHHhCCCCHhhCCEEE
Confidence 33455555544444445554444443
No 477
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=34.67 E-value=1.6e+02 Score=36.90 Aligned_cols=40 Identities=25% Similarity=0.304 Sum_probs=28.6
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEE-EcCCCCchHHHHHHHHHHH
Q 000740 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCIL-AHTMGLGKTFQVIAFLYTA 618 (1321)
Q Consensus 566 LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgIL-ADeMGLGKTlQaIall~~l 618 (1321)
+.|+|...+.-++ ....|.|| .-.+|.|||.+.-+++..+
T Consensus 242 ~~~~~~~~~~~~~-------------~~p~GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 242 MSPFQLARLLRLL-------------NRPQGLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred CCHHHHHHHHHHH-------------hCCCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence 4677777766554 24567555 5899999999888887665
No 478
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=34.53 E-value=15 Score=37.87 Aligned_cols=29 Identities=34% Similarity=0.952 Sum_probs=23.7
Q ss_pred ccccccCCCCceeccCCcccccc-ccccccC
Q 000740 377 CYCVWCGRSSDLVSCKSCKTLFC-TTCVKRN 406 (1321)
Q Consensus 377 ~~C~~C~~gg~l~~Cd~C~~~Fc-~~Cl~~~ 406 (1321)
-+|.||| --...+|-+|...|| +.|+..+
T Consensus 119 ~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~H 148 (156)
T KOG3362|consen 119 KFCAVCG-YDSKYSCVNCGTKYCSVRCLKTH 148 (156)
T ss_pred hhhhhcC-CCchhHHHhcCCceeechhhhhc
Confidence 4899999 556899999999999 7887544
No 479
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=33.79 E-value=18 Score=27.32 Aligned_cols=26 Identities=23% Similarity=0.613 Sum_probs=12.3
Q ss_pred cccccCCCC---ceeccCCcccccccccc
Q 000740 378 YCVWCGRSS---DLVSCKSCKTLFCTTCV 403 (1321)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~Fc~~Cl 403 (1321)
.|.+|+..+ -...|..|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 588888555 58999999999999984
No 480
>CHL00136 rpl31 ribosomal protein L31; Validated
Probab=33.45 E-value=21 Score=32.62 Aligned_cols=42 Identities=21% Similarity=0.265 Sum_probs=28.5
Q ss_pred ceecccCCccccccccccccccccCCcchhhhhhcCcccCCCC
Q 000740 332 KFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1321)
Q Consensus 332 ~~~C~~Cg~~~~~~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1321)
.+.| +||....--..-|.+.+-+|..|..||.-..-..|..|
T Consensus 15 ~v~c-~~~~~~~~~ST~~~i~vdv~s~~HPfyTG~~~~~~~~G 56 (68)
T CHL00136 15 KVYC-DGQLVMTVGSTKPELNVDIWSGNHPFYTGSQKIIDTEG 56 (68)
T ss_pred EEEE-cCCCEEEEeecCCCEEEEeCCCCCccCcCCeeEecccc
Confidence 5678 69875333223466889999999999986544444443
No 481
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=33.35 E-value=1.4e+02 Score=30.88 Aligned_cols=37 Identities=11% Similarity=0.106 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhhcCCCeEEEEeCchhhHHHHHHHHhc
Q 000740 962 MVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK 998 (1321)
Q Consensus 962 l~~L~eiL~~~~~~g~KVLVFSQ~~~tLdlLe~~L~~ 998 (1321)
...+..++.+....|.|++|+++....+..|.+.|=.
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~ 51 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWT 51 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHC
Confidence 5888899999999999999999999999999988843
No 482
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=33.30 E-value=1.3e+02 Score=36.80 Aligned_cols=108 Identities=19% Similarity=0.203 Sum_probs=70.8
Q ss_pred cccCchHHHHHHHHHHhhcCCCeEEEEeC-chhhHHHHHHHHhcCCCCCCCcccccCCCcEEecCCCCCHHHHHHHHHHH
Q 000740 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQ-SIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1034 (1321)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~g~KVLVFSQ-~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rldGsts~~eR~~lI~~F 1034 (1321)
+..++-|.++.-.+..+.+.|++||+... |-.+..+++.+|++ .|+.+..+|..........++.
T Consensus 82 ~afsSGmaAI~~~~l~ll~~GD~vl~~~~~YG~t~~~~~~~l~~------------~gi~~~~~d~~~~~~~~~~~~~-- 147 (396)
T COG0626 82 FAFSSGMAAISTALLALLKAGDHVLLPDDLYGGTYRLFEKILQK------------FGVEVTFVDPGDDEALEAAIKE-- 147 (396)
T ss_pred EEecCcHHHHHHHHHHhcCCCCEEEecCCccchHHHHHHHHHHh------------cCeEEEEECCCChHHHHHHhcc--
Confidence 34577888888877777888999888877 77888888888886 5788888887665433322221
Q ss_pred hCCCCCCceEEEeeccccccccCcccCCEEEEEeCCCCcchhhhhhhhhhccCCCCcEEEEEEEeCCChHH
Q 000740 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEE 1105 (1321)
Q Consensus 1035 n~~~n~~v~VfLISTkAGg~GLNLt~An~VIi~D~~WNP~~d~QAiGRa~RiGQkK~V~VYRLva~gTIEE 1105 (1321)
++ ..+|+++.|-||....+=|.++-|+--... ..++..||+=-
T Consensus 148 ---~~----------------------tk~v~lEtPsNP~l~v~DI~~i~~~A~~~g---~~vvVDNTfat 190 (396)
T COG0626 148 ---PN----------------------TKLVFLETPSNPLLEVPDIPAIARLAKAYG---ALVVVDNTFAT 190 (396)
T ss_pred ---cC----------------------ceEEEEeCCCCcccccccHHHHHHHHHhcC---CEEEEECCccc
Confidence 11 346777788888777666666655543332 22344455433
No 483
>PHA02542 41 41 helicase; Provisional
Probab=33.15 E-value=3.4e+02 Score=34.13 Aligned_cols=35 Identities=11% Similarity=0.170 Sum_probs=27.3
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~ 633 (1321)
.=.|+|--.|.|||.-++.++...... .+++|++.
T Consensus 191 ~LiiIaarPgmGKTtfalniA~~~a~~----g~~Vl~fS 225 (473)
T PHA02542 191 TLNVLLAGVNVGKSLGLCSLAADYLQQ----GYNVLYIS 225 (473)
T ss_pred cEEEEEcCCCccHHHHHHHHHHHHHhc----CCcEEEEe
Confidence 347899999999999999888776532 35788886
No 484
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=32.83 E-value=22 Score=35.86 Aligned_cols=43 Identities=26% Similarity=0.722 Sum_probs=28.3
Q ss_pred cccccCCC-----CceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 378 YCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 378 ~C~~C~~g-----g~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
.|..|+.. +.-..|-.|.+.+|..|-.. ......|.|.+|.-.
T Consensus 56 ~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---------~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 56 HCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---------SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp B-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---------TSSSCCEEEHHHHHH
T ss_pred chhhhCCcccccCCCCCcCCcCCccccCccCCc---------CCCCCCEEChhhHHH
Confidence 56666542 22357888999999999533 224567999999543
No 485
>PRK06620 hypothetical protein; Validated
Probab=32.72 E-value=1.8e+02 Score=32.38 Aligned_cols=37 Identities=11% Similarity=0.163 Sum_probs=24.0
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhhc-ccceEEEEecCC
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSP 753 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~L-ka~~RllLTGTP 753 (1321)
..+++++||.|.+. .......+..+ ...+.+++|||-
T Consensus 85 ~~d~lliDdi~~~~--~~~lf~l~N~~~e~g~~ilits~~ 122 (214)
T PRK06620 85 KYNAFIIEDIENWQ--EPALLHIFNIINEKQKYLLLTSSD 122 (214)
T ss_pred cCCEEEEeccccch--HHHHHHHHHHHHhcCCEEEEEcCC
Confidence 45899999999652 12333333333 456689999984
No 486
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=32.27 E-value=3.4e+02 Score=33.34 Aligned_cols=56 Identities=14% Similarity=0.157 Sum_probs=35.5
Q ss_pred CCCEEEEcCCcc-cCCcchhHH--HHHhhc--ccceEEEEecCCCCCchhhHHhhhhhhccC
Q 000740 715 GPDILVCDEAHM-IKNTRADTT--QALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREG 771 (1321)
Q Consensus 715 ~~dlVIlDEAH~-IKN~~S~~s--kal~~L--ka~~RllLTGTPlqNnl~EL~sLl~FL~P~ 771 (1321)
..|+|.+|=+-+ -++. ..+. +++... ....-++|++|-=.+.+.+++..+.++...
T Consensus 281 ~~d~ILVDTaGrs~~D~-~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~ 341 (407)
T COG1419 281 DCDVILVDTAGRSQYDK-EKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPID 341 (407)
T ss_pred cCCEEEEeCCCCCccCH-HHHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcc
Confidence 558888886543 2222 1111 111111 455679999999888999999988888755
No 487
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.23 E-value=16 Score=44.98 Aligned_cols=49 Identities=16% Similarity=0.511 Sum_probs=35.6
Q ss_pred cccccccCCCCceeccCCccccccccccccCCCcccccccccCCCceeecCCch
Q 000740 376 ECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1321)
Q Consensus 376 ~~~C~~C~~gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~ 429 (1321)
+.+|.+|-..-..-+--.|...||..||..-+..+.. ...=.|++|-..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~-----~~~~~CPiC~s~ 234 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAI-----KGPCSCPICRST 234 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcc-----cCCccCCchhhh
Confidence 5579999888877777779999999999865544411 233459999543
No 488
>PRK01678 rpmE2 50S ribosomal protein L31 type B; Reviewed
Probab=32.20 E-value=21 Score=34.18 Aligned_cols=44 Identities=14% Similarity=0.113 Sum_probs=31.1
Q ss_pred CceecccCCccccc--------------cccccccccccCCcchhhhhhcCcccCCCC
Q 000740 331 EKFYCTACNNVAIE--------------VHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1321)
Q Consensus 331 ~~~~C~~Cg~~~~~--------------~~~HP~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1321)
-.|.|.+||....- -...|++.+-+|..|+.||.-..-..|..|
T Consensus 12 v~~~~~t~g~~f~~~ST~~~~~t~~~~dg~~yp~i~vdi~S~~HPFyTGkq~~vdt~G 69 (87)
T PRK01678 12 VVFHDTSTGFKFLTGSTITTDETIEWEDGKTYPLVKVEISSASHPFYTGKQKFVDTEG 69 (87)
T ss_pred EEEEECCCCCEEEEeeeccccceeeecCCcccceEEEEeCCCCCCcCcCCeeEeccCC
Confidence 45889999965221 124588999999999999986655555443
No 489
>PRK04132 replication factor C small subunit; Provisional
Probab=32.01 E-value=2.1e+02 Score=38.53 Aligned_cols=40 Identities=23% Similarity=0.276 Sum_probs=26.2
Q ss_pred CCCEEEEcCCcccCCcchhHHHHHhh-c---ccceEEEEecCCCCCc
Q 000740 715 GPDILVCDEAHMIKNTRADTTQALKQ-V---KCQRRIALTGSPLQNN 757 (1321)
Q Consensus 715 ~~dlVIlDEAH~IKN~~S~~skal~~-L---ka~~RllLTGTPlqNn 757 (1321)
++.+||+||||++-. + ...++.. + ...-+++|+.++...-
T Consensus 630 ~~KVvIIDEaD~Lt~--~-AQnALLk~lEep~~~~~FILi~N~~~kI 673 (846)
T PRK04132 630 SFKIIFLDEADALTQ--D-AQQALRRTMEMFSSNVRFILSCNYSSKI 673 (846)
T ss_pred CCEEEEEECcccCCH--H-HHHHHHHHhhCCCCCeEEEEEeCChhhC
Confidence 467899999999942 2 2233333 3 3567889988876543
No 490
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=31.70 E-value=6.7e+02 Score=27.77 Aligned_cols=57 Identities=19% Similarity=0.222 Sum_probs=35.1
Q ss_pred cCCCCEEEEcCCcccCCc----chhHHHHHhhcccceEEEEecCCCCCchhhHHhhhhhhc
Q 000740 713 QDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1321)
Q Consensus 713 ~~~~dlVIlDEAH~IKN~----~S~~skal~~Lka~~RllLTGTPlqNnl~EL~sLl~FL~ 769 (1321)
...||+||+||--..-.. -...-.++..-...--+++||.-.+..+.|+..++.=++
T Consensus 120 ~~~ydlviLDEl~~al~~g~l~~eeV~~~l~~kP~~~~vIiTGr~ap~~lie~ADlVTEm~ 180 (198)
T COG2109 120 DGKYDLVILDELNYALRYGLLPLEEVVALLKARPEHTHVIITGRGAPPELIELADLVTEMR 180 (198)
T ss_pred CCCCCEEEEehhhHHHHcCCCCHHHHHHHHhcCCCCcEEEEECCCCCHHHHHHHHHHhhcc
Confidence 348999999997543322 233333444334566799999766666666666554443
No 491
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=31.60 E-value=1.2e+02 Score=34.67 Aligned_cols=24 Identities=25% Similarity=0.238 Sum_probs=20.1
Q ss_pred CCcceEEEcCCCCchHHHHHHHHH
Q 000740 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1321)
Q Consensus 593 ~g~GgILADeMGLGKTlQaIall~ 616 (1321)
.+...+|-.+.|.|||..|-++..
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHH
Confidence 456789999999999998887764
No 492
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.15 E-value=99 Score=37.40 Aligned_cols=35 Identities=20% Similarity=0.268 Sum_probs=21.9
Q ss_pred eEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcch
Q 000740 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1321)
Q Consensus 597 gILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~ 635 (1321)
.+++-=-|.|||-+..-+++++.+. +. ++.+||-.
T Consensus 104 imfVGLqG~GKTTtc~KlA~y~kkk---G~-K~~LvcaD 138 (483)
T KOG0780|consen 104 IMFVGLQGSGKTTTCTKLAYYYKKK---GY-KVALVCAD 138 (483)
T ss_pred EEEEeccCCCcceeHHHHHHHHHhc---CC-ceeEEeec
Confidence 4556678999998776666655433 33 44555543
No 493
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=31.15 E-value=27 Score=27.57 Aligned_cols=29 Identities=17% Similarity=0.445 Sum_probs=17.2
Q ss_pred eecccCCccccccccccccccccCCcchh
Q 000740 333 FYCTACNNVAIEVHPHPILNVIVCKDCKC 361 (1321)
Q Consensus 333 ~~C~~Cg~~~~~~~~HP~l~~~~C~~C~~ 361 (1321)
-.|.-||+........-.|...+|..|++
T Consensus 4 ~~C~eC~~~f~dSyL~~~F~~~VCD~CRD 32 (34)
T PF01286_consen 4 PKCDECGKPFMDSYLLNNFDLPVCDKCRD 32 (34)
T ss_dssp EE-TTT--EES-SSCCCCTS-S--TTT-S
T ss_pred chHhHhCCHHHHHHHHHhCCccccccccC
Confidence 46999999877777788889999999964
No 494
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=31.06 E-value=49 Score=39.91 Aligned_cols=46 Identities=22% Similarity=0.302 Sum_probs=32.8
Q ss_pred cceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEc-chhHHHHHHHHHHHH
Q 000740 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT-PVNVLHNWKQEFMKW 648 (1321)
Q Consensus 595 ~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~-P~sLl~qW~~E~~kw 648 (1321)
.|.+|+-..|.|||+.|=|+.-. ++++.+=+ -..|...|.-|=+|.
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATE--------c~tTFFNVSsstltSKwRGeSEKl 292 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATE--------CGTTFFNVSSSTLTSKWRGESEKL 292 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHh--------hcCeEEEechhhhhhhhccchHHH
Confidence 58999999999999988776533 34555555 455677787776553
No 495
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=30.84 E-value=25 Score=40.19 Aligned_cols=41 Identities=32% Similarity=0.696 Sum_probs=26.1
Q ss_pred ccccccccccccCCCcccccccccCCCceeecCCch--hHHHH------HHHHHhhhc
Q 000740 394 CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS--LLKRL------TSELGRAMG 443 (1321)
Q Consensus 394 C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p~--~l~~l------~~~~~~~~~ 443 (1321)
|...||..||..-+ -+....|+.|.-+ .|.+| -.+.|++|.
T Consensus 293 C~~~fc~eci~~al---------~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lk 341 (427)
T COG5222 293 CGHTFCDECIGTAL---------LDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALK 341 (427)
T ss_pred ccchHHHHHHhhhh---------hhccccCCCcccccchhhccCccHHHHHHHHHHHH
Confidence 67899999974322 2245899999864 33444 345555555
No 496
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=30.71 E-value=3.9e+02 Score=39.70 Aligned_cols=60 Identities=15% Similarity=0.036 Sum_probs=42.2
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhccCCCCcceEEEcCCCCchHHHHHHHHHHHHHhcccCCCceEEEcchhHHHH
Q 000740 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1321)
Q Consensus 565 ~LrphQ~egV~~m~~~~~~sl~r~k~~~~g~GgILADeMGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~sLl~q 640 (1321)
.|-+-|.++|.-++. +...-.||--.-|.|||-.+-+++..+... ..++++++|..-..+
T Consensus 429 ~Ls~~Q~~Av~~il~------------s~~~v~ii~G~aGTGKTt~l~~l~~~~~~~----G~~V~~lAPTgrAA~ 488 (1960)
T TIGR02760 429 ALSPSNKDAVSTLFT------------STKRFIIINGFGGTGSTEIAQLLLHLASEQ----GYEIQIITAGSLSAQ 488 (1960)
T ss_pred CCCHHHHHHHHHHHh------------CCCCeEEEEECCCCCHHHHHHHHHHHHHhc----CCeEEEEeCCHHHHH
Confidence 678899999987643 233456777788999997766666544332 258999999886543
No 497
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.61 E-value=24 Score=41.98 Aligned_cols=43 Identities=19% Similarity=0.447 Sum_probs=30.6
Q ss_pred ccccccCC---CCceeccCCccccccccccccCCCcccccccccCCCceeecCCc
Q 000740 377 CYCVWCGR---SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1321)
Q Consensus 377 ~~C~~C~~---gg~l~~Cd~C~~~Fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~p 428 (1321)
+-|.+|-+ -|+.+-==.|...||..||++.+.+- -=.|++|.-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~---------r~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT---------RTFCPVCKR 275 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc---------CccCCCCCC
Confidence 58999964 35444445589999999998776543 114999965
No 498
>PF02223 Thymidylate_kin: Thymidylate kinase; InterPro: IPR018094 Thymidylate kinase (2.7.4.9 from EC; dTMP kinase) catalyzes the phosphorylation of thymidine 5'-monophosphate (dTMP) to form thymidine 5'-diphosphate (dTDP) in the presence of ATP and magnesium: ATP + thymidine 5'-phosphate = ADP + thymidine 5'-diphosphate Thymidylate kinase is an ubiquitous enzyme of about 25 Kd and is important in the dTTP synthesis pathway for DNA synthesis. The function of dTMP kinase in eukaryotes comes from the study of a cell cycle mutant, cdc8, in Saccharomyces cerevisiae. Structural and functional analyses suggest that the cDNA codes for authentic human dTMP kinase. The mRNA levels and enzyme activities corresponded to cell cycle progression and cell growth stages[]. ; GO: 0004798 thymidylate kinase activity, 0005524 ATP binding, 0006233 dTDP biosynthetic process; PDB: 2PLR_B 1NMX_A 1NN0_A 2XX3_A 1NN3_A 1E9F_A 1E2Q_A 1E2D_A 1E9A_A 1E99_A ....
Probab=30.46 E-value=71 Score=34.21 Aligned_cols=41 Identities=20% Similarity=0.233 Sum_probs=25.0
Q ss_pred CCCchHHHHHHHHHHHHHhcccCCCceEEEcchh--HHHHHHHHHHH
Q 000740 603 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN--VLHNWKQEFMK 647 (1321)
Q Consensus 603 MGLGKTlQaIall~~ll~~~~~~~k~vLIV~P~s--Ll~qW~~E~~k 647 (1321)
-|.|||-|+=.+...+...+ . ++++..|+. .+.....++..
T Consensus 5 DGsGKtT~~~~L~~~l~~~~---~-~~~~~~~~~~~~~g~~ir~~l~ 47 (186)
T PF02223_consen 5 DGSGKTTQIRLLAEALKEKG---Y-KVIITFPPGSTPIGELIRELLR 47 (186)
T ss_dssp TTSSHHHHHHHHHHHHHHTT---E-EEEEEESSTSSHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHcC---C-cccccCCCCCChHHHHHHHHHh
Confidence 39999999877766654432 1 366666654 44455555444
No 499
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.43 E-value=28 Score=45.01 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=12.7
Q ss_pred CCCCcccccccCCCCceeccCCcc
Q 000740 372 ADCSECYCVWCGRSSDLVSCKSCK 395 (1321)
Q Consensus 372 ~d~~~~~C~~C~~gg~l~~Cd~C~ 395 (1321)
+++.. ||.-||..-.-..|-.|.
T Consensus 12 ~~~ak-FC~~CG~~l~~~~Cp~CG 34 (645)
T PRK14559 12 PNNNR-FCQKCGTSLTHKPCPQCG 34 (645)
T ss_pred CCCCc-cccccCCCCCCCcCCCCC
Confidence 34444 888887654433344443
No 500
>PRK09165 replicative DNA helicase; Provisional
Probab=30.38 E-value=4.9e+02 Score=32.91 Aligned_cols=52 Identities=13% Similarity=0.042 Sum_probs=33.9
Q ss_pred CcceEEEcCCCCchHHHHHHHHHHHHHhcc-----------cCCCceEEEcchhHHHHHHHHH
Q 000740 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN-----------LGLRTALIVTPVNVLHNWKQEF 645 (1321)
Q Consensus 594 g~GgILADeMGLGKTlQaIall~~ll~~~~-----------~~~k~vLIV~P~sLl~qW~~E~ 645 (1321)
|.=.|||--.|.|||.-++.++........ ....++|++..---..++..-+
T Consensus 217 g~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~ 279 (497)
T PRK09165 217 SDLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRI 279 (497)
T ss_pred CceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHH
Confidence 334799999999999998888766643311 0135788887655445544443
Done!