Query 001337
Match_columns 1097
No_of_seqs 566 out of 2446
Neff 7.1
Searched_HMMs 46136
Date Thu Mar 28 22:11:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001337.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001337hhsearch_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-150 4E-155 1302.6 45.0 978 3-1096 216-1272(1567)
2 KOG0387 Transcription-coupled 100.0 4.3E-87 9.3E-92 775.0 22.9 447 554-1096 194-653 (923)
3 KOG0385 Chromatin remodeling c 100.0 1.1E-83 2.3E-88 742.2 29.2 433 558-1096 159-594 (971)
4 KOG1016 Predicted DNA helicase 100.0 4E-83 8.7E-88 729.6 29.6 548 542-1096 231-844 (1387)
5 KOG0389 SNF2 family DNA-depend 100.0 2.3E-77 5E-82 692.8 25.7 480 558-1096 390-883 (941)
6 KOG0392 SNF2 family DNA-depend 100.0 6.8E-77 1.5E-81 709.8 21.6 466 548-1096 958-1449(1549)
7 KOG0384 Chromodomain-helicase 100.0 2.9E-76 6.2E-81 709.1 22.2 431 564-1096 369-806 (1373)
8 PLN03142 Probable chromatin-re 100.0 1.3E-74 2.8E-79 722.2 23.0 433 556-1096 160-594 (1033)
9 KOG0388 SNF2 family DNA-depend 100.0 3.9E-74 8.4E-79 653.0 22.5 483 553-1096 555-1149(1185)
10 KOG0390 DNA repair protein, SN 100.0 2.7E-73 5.9E-78 680.3 25.5 464 554-1096 227-702 (776)
11 KOG0391 SNF2 family DNA-depend 100.0 4.1E-73 8.8E-78 667.8 22.6 492 554-1096 604-1382(1958)
12 KOG0386 Chromatin remodeling c 100.0 4.4E-71 9.5E-76 653.6 17.3 453 550-1096 378-833 (1157)
13 KOG4439 RNA polymerase II tran 100.0 4.7E-67 1E-71 599.5 19.2 487 554-1096 314-853 (901)
14 KOG1002 Nucleotide excision re 100.0 3.9E-65 8.4E-70 562.8 19.9 497 554-1096 173-744 (791)
15 COG0553 HepA Superfamily II DN 100.0 6E-56 1.3E-60 569.7 18.6 457 560-1096 333-817 (866)
16 KOG1000 Chromatin remodeling p 100.0 1.3E-51 2.9E-56 457.2 22.1 400 558-1096 191-598 (689)
17 PRK04914 ATP-dependent helicas 100.0 1.1E-49 2.5E-54 497.3 15.5 410 562-1096 149-600 (956)
18 KOG0383 Predicted helicase [Ge 100.0 7.8E-50 1.7E-54 475.3 5.9 390 557-1055 284-696 (696)
19 KOG1001 Helicase-like transcri 100.0 7.5E-48 1.6E-52 465.5 10.6 471 570-1096 135-645 (674)
20 PF00176 SNF2_N: SNF2 family N 100.0 8.2E-40 1.8E-44 368.2 11.5 296 569-890 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 5.3E-35 1.1E-39 354.8 17.0 343 557-1091 247-592 (732)
22 KOG0298 DEAD box-containing he 100.0 1.4E-30 3E-35 316.8 10.9 277 594-890 374-691 (1394)
23 PRK13766 Hef nuclease; Provisi 100.0 3.2E-28 7E-33 309.1 15.8 437 564-1094 14-475 (773)
24 COG1061 SSL2 DNA or RNA helica 99.9 7.9E-25 1.7E-29 259.3 18.2 347 560-1091 31-382 (442)
25 PHA02558 uvsW UvsW helicase; P 99.9 9.7E-25 2.1E-29 263.2 17.2 333 564-1095 113-449 (501)
26 COG1111 MPH1 ERCC4-like helica 99.9 7.3E-23 1.6E-27 232.2 17.8 410 595-1086 30-469 (542)
27 KOG1123 RNA polymerase II tran 99.9 1.5E-22 3.3E-27 226.2 12.3 341 554-1087 291-635 (776)
28 KOG0354 DEAD-box like helicase 99.8 1.2E-20 2.7E-25 225.6 18.3 445 564-1097 61-528 (746)
29 TIGR00614 recQ_fam ATP-depende 99.8 6E-20 1.3E-24 220.4 18.5 106 975-1096 225-330 (470)
30 PTZ00110 helicase; Provisional 99.8 2.6E-20 5.7E-25 226.5 14.6 119 961-1095 362-480 (545)
31 PLN00206 DEAD-box ATP-dependen 99.8 3.3E-20 7.3E-25 224.8 14.1 117 964-1095 355-471 (518)
32 PRK11776 ATP-dependent RNA hel 99.8 1.1E-19 2.4E-24 217.9 15.7 116 961-1094 229-344 (460)
33 PRK11192 ATP-dependent RNA hel 99.8 2.1E-19 4.6E-24 213.9 18.0 116 961-1094 232-347 (434)
34 PRK10590 ATP-dependent RNA hel 99.8 1.2E-19 2.6E-24 217.1 14.8 102 976-1093 245-346 (456)
35 PRK04837 ATP-dependent RNA hel 99.8 1.6E-19 3.4E-24 214.3 14.4 116 961-1094 242-357 (423)
36 PRK04537 ATP-dependent RNA hel 99.8 5.1E-19 1.1E-23 216.1 16.3 115 961-1093 244-358 (572)
37 PRK01297 ATP-dependent RNA hel 99.8 6.3E-19 1.4E-23 212.1 16.0 117 961-1095 322-438 (475)
38 TIGR01389 recQ ATP-dependent D 99.8 8.9E-19 1.9E-23 216.1 17.4 113 965-1095 215-327 (591)
39 PRK11057 ATP-dependent DNA hel 99.8 1.3E-18 2.9E-23 214.4 18.9 105 975-1095 235-339 (607)
40 PRK11448 hsdR type I restricti 99.8 3.2E-19 6.9E-24 229.2 13.4 105 976-1088 698-802 (1123)
41 PTZ00424 helicase 45; Provisio 99.8 6.1E-19 1.3E-23 207.8 14.0 104 976-1095 267-370 (401)
42 TIGR00643 recG ATP-dependent D 99.8 2.6E-18 5.6E-23 212.8 17.4 162 562-756 232-399 (630)
43 PRK11634 ATP-dependent RNA hel 99.8 2.6E-18 5.5E-23 211.3 15.1 116 961-1094 232-347 (629)
44 PRK10917 ATP-dependent DNA hel 99.8 8.8E-18 1.9E-22 209.4 17.0 314 562-1096 258-586 (681)
45 TIGR00580 mfd transcription-re 99.7 1.1E-17 2.3E-22 211.8 17.7 107 975-1095 659-766 (926)
46 PLN03137 ATP-dependent DNA hel 99.7 1.4E-17 3E-22 207.9 18.2 105 976-1096 680-784 (1195)
47 PRK10689 transcription-repair 99.7 3.6E-17 7.8E-22 211.1 17.5 106 976-1095 809-915 (1147)
48 TIGR03817 DECH_helic helicase/ 99.7 3.6E-17 7.7E-22 205.0 16.4 111 975-1093 270-380 (742)
49 PRK13767 ATP-dependent helicas 99.7 6.1E-17 1.3E-21 206.7 15.7 112 968-1089 276-388 (876)
50 KOG0331 ATP-dependent RNA heli 99.7 3.4E-16 7.4E-21 182.9 17.0 117 959-1091 323-440 (519)
51 TIGR00348 hsdR type I site-spe 99.6 2.1E-15 4.5E-20 187.5 19.1 167 563-756 236-405 (667)
52 PRK01172 ski2-like helicase; P 99.6 1.2E-15 2.5E-20 191.3 14.5 152 564-753 21-179 (674)
53 PRK02362 ski2-like helicase; P 99.6 9.5E-16 2E-20 193.7 12.6 154 564-754 22-182 (737)
54 KOG0330 ATP-dependent RNA heli 99.6 4.5E-15 9.8E-20 163.5 14.7 110 961-1088 287-396 (476)
55 TIGR03714 secA2 accessory Sec 99.6 3.8E-15 8.3E-20 182.3 15.0 115 958-1091 406-529 (762)
56 TIGR01587 cas3_core CRISPR-ass 99.6 1.8E-14 3.9E-19 167.3 17.0 117 962-1096 209-333 (358)
57 COG4096 HsdR Type I site-speci 99.6 4.4E-15 9.5E-20 177.8 11.6 357 553-1086 153-525 (875)
58 COG0513 SrmB Superfamily II DN 99.6 8.1E-15 1.8E-19 177.2 14.0 112 960-1089 259-370 (513)
59 PRK00254 ski2-like helicase; P 99.6 1.2E-14 2.6E-19 183.3 14.5 153 564-753 22-179 (720)
60 cd00079 HELICc Helicase superf 99.5 3.5E-15 7.5E-20 146.6 5.4 120 960-1095 12-131 (131)
61 PF04851 ResIII: Type III rest 99.5 3.9E-15 8.3E-20 155.0 3.3 171 564-754 2-183 (184)
62 TIGR02621 cas3_GSU0051 CRISPR- 99.5 1.2E-13 2.5E-18 171.0 16.6 98 975-1090 271-381 (844)
63 COG1200 RecG RecG-like helicas 99.5 1.3E-13 2.8E-18 163.7 16.2 300 593-1096 282-588 (677)
64 KOG0350 DEAD-box ATP-dependent 99.5 8.1E-14 1.8E-18 157.7 12.2 116 961-1091 416-532 (620)
65 KOG0328 Predicted ATP-dependen 99.5 4.5E-14 9.8E-19 149.6 7.9 112 961-1090 253-364 (400)
66 TIGR00963 secA preprotein tran 99.5 1.9E-13 4.1E-18 166.6 14.3 115 959-1091 388-509 (745)
67 COG0514 RecQ Superfamily II DN 99.5 5.4E-13 1.2E-17 159.0 16.8 310 564-1097 16-335 (590)
68 PRK09200 preprotein translocas 99.5 6.8E-13 1.5E-17 164.2 17.3 115 958-1090 410-532 (790)
69 COG4889 Predicted helicase [Ge 99.4 4.8E-13 1E-17 158.3 12.7 173 554-754 150-351 (1518)
70 KOG0345 ATP-dependent RNA heli 99.4 1.2E-12 2.7E-17 147.5 15.4 117 959-1091 240-356 (567)
71 COG1201 Lhr Lhr-like helicases 99.4 4.4E-13 9.6E-18 165.1 12.4 320 563-1089 20-352 (814)
72 PRK12898 secA preprotein trans 99.4 2.5E-12 5.4E-17 156.2 18.6 115 959-1091 456-578 (656)
73 PRK09751 putative ATP-dependen 99.4 1.8E-12 4E-17 168.9 18.3 108 975-1086 243-371 (1490)
74 PRK09401 reverse gyrase; Revie 99.4 4E-12 8.8E-17 165.2 20.1 103 960-1085 315-430 (1176)
75 PRK05580 primosome assembly pr 99.4 6.3E-12 1.4E-16 156.8 19.6 100 982-1095 432-545 (679)
76 KOG0342 ATP-dependent RNA heli 99.4 4.4E-12 9.4E-17 144.2 16.2 114 959-1089 314-427 (543)
77 COG1205 Distinct helicase fami 99.4 1.8E-12 3.9E-17 163.7 14.4 332 566-1092 71-415 (851)
78 KOG0333 U5 snRNP-like RNA heli 99.4 3E-12 6.6E-17 145.8 14.5 118 956-1091 499-616 (673)
79 KOG0348 ATP-dependent RNA heli 99.4 4.6E-12 1E-16 144.5 15.4 126 961-1090 408-545 (708)
80 TIGR03158 cas3_cyano CRISPR-as 99.4 1.4E-12 3E-17 151.3 11.5 87 975-1084 271-357 (357)
81 KOG0335 ATP-dependent RNA heli 99.4 5E-12 1.1E-16 146.0 15.5 117 959-1091 313-436 (482)
82 KOG0343 RNA Helicase [RNA proc 99.4 5.5E-12 1.2E-16 144.2 14.9 121 959-1095 298-418 (758)
83 COG1204 Superfamily II helicas 99.4 2.2E-12 4.8E-17 160.8 12.8 153 565-753 31-190 (766)
84 TIGR00595 priA primosomal prot 99.4 1.5E-11 3.3E-16 148.2 19.0 95 987-1095 269-377 (505)
85 PHA02653 RNA helicase NPH-II; 99.4 6.5E-12 1.4E-16 154.7 15.3 105 976-1095 395-511 (675)
86 cd00046 DEXDc DEAD-like helica 99.3 2E-12 4.3E-17 127.0 7.9 139 596-753 2-144 (144)
87 KOG4284 DEAD box protein [Tran 99.3 3.7E-12 8.1E-17 147.4 11.0 112 961-1090 259-370 (980)
88 smart00487 DEXDc DEAD-like hel 99.3 8.3E-13 1.8E-17 137.9 5.3 162 563-755 6-172 (201)
89 PF00271 Helicase_C: Helicase 99.3 4.9E-13 1.1E-17 120.1 2.9 74 1010-1087 5-78 (78)
90 KOG0336 ATP-dependent RNA heli 99.3 2.1E-11 4.6E-16 134.9 12.4 114 960-1090 450-563 (629)
91 KOG0340 ATP-dependent RNA heli 99.3 8.5E-11 1.8E-15 128.9 15.5 114 960-1089 237-351 (442)
92 TIGR01054 rgy reverse gyrase. 99.3 6.5E-11 1.4E-15 154.2 17.4 87 963-1071 316-409 (1171)
93 COG1197 Mfd Transcription-repa 99.2 1.2E-10 2.6E-15 145.7 17.6 105 973-1091 800-905 (1139)
94 KOG0332 ATP-dependent RNA heli 99.2 7.5E-11 1.6E-15 129.9 13.1 113 960-1090 316-434 (477)
95 PRK13104 secA preprotein trans 99.2 2.4E-10 5.2E-15 141.6 18.1 114 959-1090 427-578 (896)
96 KOG0338 ATP-dependent RNA heli 99.2 1.4E-10 3E-15 131.9 14.5 107 965-1089 417-523 (691)
97 TIGR01970 DEAH_box_HrpB ATP-de 99.2 2.6E-10 5.6E-15 143.9 18.6 107 976-1095 209-333 (819)
98 smart00490 HELICc helicase sup 99.2 1.6E-11 3.5E-16 110.1 5.0 73 1011-1087 10-82 (82)
99 PRK12906 secA preprotein trans 99.2 4.4E-10 9.6E-15 138.7 18.7 115 959-1091 423-545 (796)
100 PRK09694 helicase Cas3; Provis 99.2 2.1E-10 4.5E-15 144.8 15.3 112 966-1089 550-665 (878)
101 KOG0344 ATP-dependent RNA heli 99.2 1.3E-10 2.7E-15 135.4 12.1 121 959-1096 372-493 (593)
102 PRK14701 reverse gyrase; Provi 99.1 1.5E-09 3.3E-14 144.4 21.9 104 963-1089 320-446 (1638)
103 KOG0347 RNA helicase [RNA proc 99.1 5E-10 1.1E-14 128.5 14.4 98 976-1089 463-560 (731)
104 KOG0326 ATP-dependent RNA heli 99.1 6.9E-11 1.5E-15 127.6 6.0 111 960-1088 308-418 (459)
105 PRK11664 ATP-dependent RNA hel 99.1 9.1E-10 2E-14 139.2 15.4 107 976-1095 212-336 (812)
106 PRK13107 preprotein translocas 99.1 1.6E-09 3.4E-14 134.1 16.7 113 959-1089 432-581 (908)
107 KOG0339 ATP-dependent RNA heli 99.1 1.7E-09 3.7E-14 123.0 15.2 114 960-1090 453-566 (731)
108 PRK12904 preprotein translocas 99.0 1E-08 2.2E-13 127.4 20.6 115 959-1091 413-565 (830)
109 KOG0952 DNA/RNA helicase MER3/ 99.0 1E-08 2.3E-13 125.5 19.0 157 591-772 123-299 (1230)
110 COG4098 comFA Superfamily II D 99.0 8.7E-09 1.9E-13 113.0 15.0 107 964-1086 293-401 (441)
111 cd00268 DEADc DEAD-box helicas 99.0 1.2E-09 2.7E-14 116.3 8.1 160 565-754 21-185 (203)
112 KOG0351 ATP-dependent DNA heli 99.0 2.8E-09 6E-14 134.4 12.2 107 975-1097 484-590 (941)
113 PF00270 DEAD: DEAD/DEAH box h 98.9 1.1E-09 2.5E-14 112.6 6.3 149 594-760 14-168 (169)
114 PRK12900 secA preprotein trans 98.9 3.8E-08 8.2E-13 122.6 19.2 114 959-1090 581-702 (1025)
115 COG1202 Superfamily II helicas 98.8 4E-09 8.6E-14 121.8 6.9 97 977-1090 441-542 (830)
116 PF13872 AAA_34: P-loop contai 98.8 1.1E-08 2.3E-13 113.1 9.8 256 557-853 27-303 (303)
117 KOG0346 RNA helicase [RNA proc 98.8 2.7E-08 5.9E-13 112.1 12.8 100 976-1091 268-402 (569)
118 KOG0334 RNA helicase [RNA proc 98.8 1.8E-08 4E-13 124.4 12.5 115 959-1090 597-711 (997)
119 PRK11131 ATP-dependent RNA hel 98.8 4.1E-08 9E-13 126.9 15.0 105 976-1095 286-408 (1294)
120 PRK12899 secA preprotein trans 98.7 2.5E-07 5.5E-12 115.1 18.3 114 959-1090 551-672 (970)
121 COG1203 CRISPR-associated heli 98.7 1.4E-07 3E-12 119.3 15.3 108 971-1095 435-546 (733)
122 KOG0951 RNA helicase BRR2, DEA 98.7 2.4E-07 5.2E-12 115.1 16.5 151 594-763 325-492 (1674)
123 KOG0337 ATP-dependent RNA heli 98.7 1.4E-07 2.9E-12 106.1 12.0 113 960-1089 246-358 (529)
124 PRK12326 preprotein translocas 98.6 4.3E-07 9.3E-12 110.5 15.7 114 959-1090 410-538 (764)
125 TIGR01967 DEAH_box_HrpA ATP-de 98.6 2.4E-07 5.3E-12 120.3 14.6 105 976-1095 279-401 (1283)
126 KOG0352 ATP-dependent DNA heli 98.6 4.2E-07 9E-12 102.1 11.8 104 978-1097 257-360 (641)
127 COG0556 UvrB Helicase subunit 98.5 1.6E-06 3.4E-11 100.5 16.5 107 965-1087 435-546 (663)
128 KOG0341 DEAD-box protein abstr 98.5 6.3E-08 1.4E-12 107.2 5.0 112 959-1089 407-518 (610)
129 PRK13103 secA preprotein trans 98.5 1.3E-06 2.9E-11 108.8 16.9 115 958-1090 431-582 (913)
130 PF11496 HDA2-3: Class II hist 98.4 4.8E-07 1E-11 101.8 8.5 191 834-1083 4-228 (297)
131 KOG0353 ATP-dependent DNA heli 98.4 1.8E-06 3.9E-11 95.3 12.3 106 976-1097 317-465 (695)
132 TIGR00631 uvrb excinuclease AB 98.4 3.9E-07 8.5E-12 113.1 6.1 120 959-1095 425-549 (655)
133 COG0610 Type I site-specific r 98.3 9.3E-07 2E-11 114.1 8.7 174 565-759 244-419 (962)
134 PRK05298 excinuclease ABC subu 98.3 7.4E-07 1.6E-11 111.3 6.1 112 959-1086 429-545 (652)
135 PRK12903 secA preprotein trans 98.3 7.3E-06 1.6E-10 101.3 14.3 114 959-1090 409-530 (925)
136 TIGR01407 dinG_rel DnaQ family 98.2 5.4E-06 1.2E-10 107.0 13.1 113 965-1092 662-807 (850)
137 KOG0329 ATP-dependent RNA heli 98.1 1.6E-05 3.5E-10 84.3 9.4 44 1046-1089 302-345 (387)
138 KOG1513 Nuclear helicase MOP-3 98.0 8.1E-06 1.8E-10 97.6 7.6 269 557-855 256-539 (1300)
139 PRK15483 type III restriction- 98.0 8.6E-06 1.9E-10 102.8 7.2 187 595-789 60-278 (986)
140 KOG0327 Translation initiation 98.0 7.3E-06 1.6E-10 92.1 5.8 109 961-1089 252-360 (397)
141 PRK12901 secA preprotein trans 98.0 4.9E-05 1.1E-09 95.5 13.0 115 958-1090 610-732 (1112)
142 KOG4299 PHD Zn-finger protein 98.0 1.5E-06 3.2E-11 102.6 -0.1 50 376-429 253-305 (613)
143 KOG0947 Cytoplasmic exosomal R 97.9 8.9E-05 1.9E-09 91.0 14.2 146 563-753 295-444 (1248)
144 CHL00122 secA preprotein trans 97.9 0.00012 2.6E-09 91.4 15.8 83 959-1058 407-490 (870)
145 COG1198 PriA Primosomal protei 97.9 5E-05 1.1E-09 94.3 11.5 105 972-1092 478-596 (730)
146 KOG0349 Putative DEAD-box RNA 97.9 2.3E-05 5.1E-10 88.3 7.7 97 976-1085 505-601 (725)
147 PF07652 Flavi_DEAD: Flaviviru 97.9 3.9E-05 8.5E-10 76.4 7.9 128 596-754 6-137 (148)
148 COG4581 Superfamily II RNA hel 97.8 0.00011 2.4E-09 93.4 12.6 151 562-753 116-270 (1041)
149 KOG0948 Nuclear exosomal RNA h 97.7 2.7E-05 5.8E-10 93.2 3.6 145 564-753 128-276 (1041)
150 PRK12902 secA preprotein trans 97.6 0.00059 1.3E-08 85.3 14.6 84 959-1059 422-506 (939)
151 COG1110 Reverse gyrase [DNA re 97.6 0.0018 4E-08 80.9 18.2 115 594-727 97-215 (1187)
152 PF00628 PHD: PHD-finger; Int 97.6 1.6E-05 3.5E-10 65.4 0.5 47 378-428 1-50 (51)
153 KOG0949 Predicted helicase, DE 97.5 0.00076 1.7E-08 83.3 13.5 157 592-766 524-682 (1330)
154 KOG0953 Mitochondrial RNA heli 97.5 0.0001 2.3E-09 86.1 5.5 102 974-1091 356-466 (700)
155 KOG1244 Predicted transcriptio 97.4 4.3E-05 9.4E-10 81.3 0.6 45 378-428 283-330 (336)
156 PF13871 Helicase_C_4: Helicas 97.3 0.00014 3.1E-09 80.6 3.7 62 1029-1094 52-122 (278)
157 PF02399 Herpes_ori_bp: Origin 97.3 0.0047 1E-07 76.8 16.4 109 965-1096 271-385 (824)
158 COG0653 SecA Preprotein transl 97.2 0.0053 1.2E-07 76.7 15.4 113 958-1088 411-534 (822)
159 smart00249 PHD PHD zinc finger 97.1 0.00025 5.4E-09 56.6 1.8 44 378-426 1-47 (47)
160 TIGR00596 rad1 DNA repair prot 97.0 0.00066 1.4E-08 86.0 5.4 43 956-998 266-317 (814)
161 PF13086 AAA_11: AAA domain; P 96.9 0.0037 8E-08 67.4 9.4 69 565-647 1-75 (236)
162 KOG0920 ATP-dependent RNA heli 96.9 0.017 3.7E-07 73.3 16.1 120 961-1089 396-535 (924)
163 PF02562 PhoH: PhoH-like prote 96.9 0.00051 1.1E-08 73.3 2.4 136 596-758 21-160 (205)
164 KOG0926 DEAH-box RNA helicase 96.9 0.0097 2.1E-07 72.6 12.9 63 1032-1095 621-701 (1172)
165 KOG1473 Nucleosome remodeling 96.8 0.0004 8.7E-09 86.3 0.6 52 371-428 339-390 (1414)
166 KOG0950 DNA polymerase theta/e 96.8 0.017 3.6E-07 72.3 14.4 68 1015-1087 525-597 (1008)
167 PRK10536 hypothetical protein; 96.7 0.00097 2.1E-08 73.2 3.1 137 595-758 75-217 (262)
168 COG1643 HrpA HrpA-like helicas 96.7 0.017 3.7E-07 73.4 14.2 108 976-1095 259-384 (845)
169 smart00488 DEXDc2 DEAD-like he 96.7 0.0026 5.7E-08 72.0 6.3 73 566-648 9-84 (289)
170 smart00489 DEXDc3 DEAD-like he 96.7 0.0026 5.7E-08 72.0 6.3 73 566-648 9-84 (289)
171 TIGR03117 cas_csf4 CRISPR-asso 96.7 0.0029 6.4E-08 78.2 7.2 86 975-1074 469-564 (636)
172 COG3587 Restriction endonuclea 96.5 0.011 2.3E-07 73.1 9.8 153 594-753 74-242 (985)
173 KOG0922 DEAH-box RNA helicase 96.5 0.042 9.1E-07 66.6 14.6 109 978-1096 260-385 (674)
174 TIGR00604 rad3 DNA repair heli 96.2 0.007 1.5E-07 77.0 7.1 72 565-647 10-82 (705)
175 KOG1803 DNA helicase [Replicat 96.2 0.013 2.8E-07 70.1 8.1 69 560-645 180-249 (649)
176 KOG0924 mRNA splicing factor A 96.0 0.086 1.9E-06 63.7 13.5 50 1012-1065 597-646 (1042)
177 PF13401 AAA_22: AAA domain; P 95.9 0.026 5.7E-07 55.3 7.9 35 717-753 89-125 (131)
178 KOG0923 mRNA splicing factor A 95.9 0.042 9.1E-07 66.1 10.7 79 1013-1097 507-605 (902)
179 PF12340 DUF3638: Protein of u 95.7 0.01 2.2E-07 64.2 4.1 152 564-731 22-188 (229)
180 TIGR02562 cas3_yersinia CRISPR 95.6 0.83 1.8E-05 59.1 21.0 51 1042-1095 838-892 (1110)
181 KOG4323 Polycomb-like PHD Zn-f 95.6 0.0098 2.1E-07 69.7 3.8 101 328-430 96-225 (464)
182 PRK14873 primosome assembly pr 95.4 0.066 1.4E-06 67.2 10.5 126 603-755 169-305 (665)
183 KOG1512 PHD Zn-finger protein 95.4 0.0032 7E-08 67.7 -0.9 42 378-427 316-362 (381)
184 PF13307 Helicase_C_2: Helicas 95.2 0.031 6.8E-07 58.0 5.7 83 974-1072 7-93 (167)
185 PRK07246 bifunctional ATP-depe 94.8 0.057 1.2E-06 69.7 7.8 89 964-1071 635-725 (820)
186 KOG1802 RNA helicase nonsense 94.7 0.086 1.9E-06 63.6 8.0 49 596-647 427-476 (935)
187 PRK08074 bifunctional ATP-depe 94.7 0.047 1E-06 71.5 6.6 116 964-1093 739-887 (928)
188 COG0553 HepA Superfamily II DN 94.5 0.064 1.4E-06 69.9 7.2 74 562-649 81-156 (866)
189 PF07517 SecA_DEAD: SecA DEAD- 94.3 0.051 1.1E-06 60.6 4.9 114 595-727 91-209 (266)
190 KOG1973 Chromatin remodeling p 94.0 0.017 3.7E-07 64.7 0.6 43 378-429 223-268 (274)
191 PF13604 AAA_30: AAA domain; P 94.0 0.068 1.5E-06 57.0 5.0 57 566-638 2-58 (196)
192 KOG1131 RNA polymerase II tran 94.0 0.14 3.1E-06 60.2 7.7 42 592-634 33-74 (755)
193 PRK04296 thymidine kinase; Pro 93.7 0.14 2.9E-06 54.4 6.7 33 598-634 6-38 (190)
194 PF09848 DUF2075: Uncharacteri 93.6 0.13 2.8E-06 60.0 6.8 47 598-646 5-52 (352)
195 KOG1473 Nucleosome remodeling 93.5 0.041 8.8E-07 69.3 2.5 101 335-439 359-492 (1414)
196 KOG0825 PHD Zn-finger protein 93.4 0.039 8.4E-07 66.9 2.0 47 378-430 217-267 (1134)
197 TIGR00376 DNA helicase, putati 92.8 0.32 6.9E-06 61.2 8.9 67 564-647 156-223 (637)
198 COG1875 NYN ribonuclease and A 92.5 0.13 2.8E-06 58.7 4.2 38 717-756 353-390 (436)
199 PRK08074 bifunctional ATP-depe 91.9 0.34 7.4E-06 63.7 7.9 67 565-644 257-325 (928)
200 TIGR01448 recD_rel helicase, p 91.2 0.16 3.4E-06 64.8 3.6 136 563-757 321-456 (720)
201 TIGR02881 spore_V_K stage V sp 90.8 0.34 7.3E-06 54.1 5.4 25 594-618 42-66 (261)
202 KOG1132 Helicase of the DEAD s 90.8 0.37 8E-06 60.4 6.0 94 975-1076 560-661 (945)
203 PRK10875 recD exonuclease V su 90.6 0.26 5.5E-06 61.5 4.6 149 567-758 154-306 (615)
204 KOG0341 DEAD-box protein abstr 90.4 0.32 7E-06 55.3 4.7 158 567-753 194-367 (610)
205 KOG1805 DNA replication helica 90.3 0.91 2E-05 57.6 8.7 149 565-755 669-831 (1100)
206 COG1199 DinG Rad3-related DNA 90.1 0.6 1.3E-05 59.2 7.5 81 974-1072 477-560 (654)
207 COG5432 RAD18 RING-finger-cont 90.0 0.13 2.8E-06 56.0 1.1 45 378-432 27-71 (391)
208 KOG4150 Predicted ATP-dependen 90.0 0.12 2.6E-06 61.1 1.0 123 958-1088 507-629 (1034)
209 cd00009 AAA The AAA+ (ATPases 90.0 0.96 2.1E-05 44.1 7.3 26 593-618 18-43 (151)
210 smart00382 AAA ATPases associa 89.9 0.57 1.2E-05 45.1 5.6 44 595-642 3-46 (148)
211 TIGR01447 recD exodeoxyribonuc 89.5 0.32 6.9E-06 60.5 4.2 151 568-758 148-300 (586)
212 KOG4299 PHD Zn-finger protein 89.5 0.12 2.7E-06 62.2 0.5 47 376-427 47-93 (613)
213 KOG0957 PHD finger protein [Ge 89.4 0.13 2.8E-06 59.7 0.7 50 378-429 546-598 (707)
214 KOG4443 Putative transcription 89.2 0.13 2.8E-06 62.1 0.4 43 378-426 70-115 (694)
215 PRK07246 bifunctional ATP-depe 88.8 0.8 1.7E-05 59.3 7.2 67 565-646 245-313 (820)
216 TIGR02880 cbbX_cfxQ probable R 88.4 0.94 2E-05 51.3 6.7 29 593-621 57-85 (284)
217 TIGR00631 uvrb excinuclease AB 88.0 0.72 1.6E-05 58.1 5.9 47 598-651 33-80 (655)
218 PRK11747 dinG ATP-dependent DN 87.5 0.96 2.1E-05 57.6 6.7 90 964-1071 522-616 (697)
219 CHL00181 cbbX CbbX; Provisiona 87.2 0.68 1.5E-05 52.5 4.7 29 593-621 58-86 (287)
220 PRK12723 flagellar biosynthesi 87.2 1.9 4.1E-05 51.0 8.4 56 714-769 253-313 (388)
221 TIGR00604 rad3 DNA repair heli 86.8 0.98 2.1E-05 57.8 6.2 100 965-1073 510-618 (705)
222 PF10497 zf-4CXXC_R1: Zinc-fin 86.2 0.52 1.1E-05 45.1 2.5 48 380-428 22-69 (105)
223 TIGR03420 DnaA_homol_Hda DnaA 86.1 1.5 3.2E-05 47.4 6.4 28 592-619 36-63 (226)
224 KOG1245 Chromatin remodeling c 85.7 0.3 6.6E-06 65.6 0.9 54 371-430 1103-1159(1404)
225 PRK08116 hypothetical protein; 85.7 2 4.2E-05 48.3 7.2 45 594-642 114-158 (268)
226 PRK06526 transposase; Provisio 85.4 1 2.2E-05 50.1 4.8 29 593-621 97-125 (254)
227 KOG0954 PHD finger protein [Ge 85.3 0.43 9.3E-06 58.2 1.8 45 375-427 270-319 (893)
228 COG3421 Uncharacterized protei 85.3 0.37 8E-06 57.9 1.2 43 600-645 3-46 (812)
229 KOG0989 Replication factor C, 84.6 0.74 1.6E-05 51.7 3.0 44 569-620 40-83 (346)
230 cd04718 BAH_plant_2 BAH, or Br 83.8 0.34 7.4E-06 48.8 0.1 27 397-429 1-27 (148)
231 cd01124 KaiC KaiC is a circadi 83.6 3.6 7.7E-05 42.9 7.7 45 598-646 3-47 (187)
232 KOG0951 RNA helicase BRR2, DEA 83.5 2.6 5.7E-05 54.9 7.5 108 592-731 1157-1269(1674)
233 PF13245 AAA_19: Part of AAA d 83.4 1.2 2.6E-05 40.0 3.4 49 597-645 13-62 (76)
234 PF06733 DEAD_2: DEAD_2; Inte 83.0 1.1 2.5E-05 46.6 3.6 43 677-729 117-159 (174)
235 PRK09112 DNA polymerase III su 83.0 5.8 0.00013 46.4 9.8 29 593-621 44-72 (351)
236 smart00491 HELICc2 helicase su 82.0 2.5 5.5E-05 42.7 5.5 46 1025-1071 31-80 (142)
237 PF06745 KaiC: KaiC; InterPro 80.6 13 0.00028 40.3 10.9 51 594-648 19-70 (226)
238 PF00265 TK: Thymidine kinase; 80.4 3.2 6.9E-05 43.6 5.8 33 599-635 6-38 (176)
239 COG5034 TNG2 Chromatin remodel 79.8 0.95 2.1E-05 49.0 1.7 46 373-427 218-268 (271)
240 PRK14956 DNA polymerase III su 79.4 5.3 0.00011 48.3 7.9 27 594-620 40-66 (484)
241 PRK07003 DNA polymerase III su 79.2 3.5 7.5E-05 52.2 6.4 27 594-620 38-64 (830)
242 PLN03025 replication factor C 78.5 4 8.6E-05 47.0 6.4 26 594-619 34-59 (319)
243 PRK07471 DNA polymerase III su 78.2 8.4 0.00018 45.3 9.0 31 592-622 39-69 (365)
244 KOG0955 PHD finger protein BR1 77.9 1.1 2.3E-05 58.4 1.5 48 376-431 219-271 (1051)
245 PRK12402 replication factor C 77.6 5 0.00011 46.1 7.0 24 596-619 38-61 (337)
246 KOG0925 mRNA splicing factor A 77.6 4.9 0.00011 47.6 6.6 51 714-768 158-216 (699)
247 PRK14949 DNA polymerase III su 77.5 6 0.00013 51.1 7.9 26 595-620 39-64 (944)
248 PRK05707 DNA polymerase III su 77.3 3.5 7.6E-05 47.7 5.5 46 566-621 4-49 (328)
249 PRK05986 cob(I)alamin adenolsy 77.1 7.8 0.00017 41.2 7.5 58 712-769 112-173 (191)
250 PRK05298 excinuclease ABC subu 76.7 3.8 8.3E-05 51.9 6.0 72 564-651 11-83 (652)
251 TIGR00708 cobA cob(I)alamin ad 76.6 11 0.00024 39.5 8.3 58 712-769 94-155 (173)
252 PRK00149 dnaA chromosomal repl 76.5 5.4 0.00012 48.3 7.0 27 594-620 148-174 (450)
253 PF05876 Terminase_GpA: Phage 76.3 0.91 2E-05 56.3 0.3 174 558-765 9-191 (557)
254 PRK08084 DNA replication initi 76.2 5.8 0.00013 43.6 6.6 26 593-618 44-69 (235)
255 PF06862 DUF1253: Protein of u 76.0 9.8 0.00021 45.6 8.7 111 961-1086 282-396 (442)
256 KOG2807 RNA polymerase II tran 75.8 1.8 4E-05 48.4 2.4 47 374-430 328-377 (378)
257 PHA03368 DNA packaging termina 75.8 6.7 0.00014 48.8 7.4 55 714-770 351-418 (738)
258 PF00448 SRP54: SRP54-type pro 75.4 7.2 0.00016 41.7 6.9 56 713-768 81-140 (196)
259 PF05621 TniB: Bacterial TniB 75.4 9.6 0.00021 43.3 8.0 40 714-753 144-189 (302)
260 PHA02533 17 large terminase pr 75.2 4.6 9.9E-05 49.8 6.0 49 715-766 169-220 (534)
261 KOG1513 Nuclear helicase MOP-3 75.1 1.7 3.7E-05 53.8 2.2 61 1031-1095 850-919 (1300)
262 PTZ00112 origin recognition co 74.6 13 0.00028 48.0 9.4 25 595-619 781-806 (1164)
263 KOG1081 Transcription factor N 74.5 1.1 2.4E-05 54.0 0.4 61 372-432 85-163 (463)
264 PRK14087 dnaA chromosomal repl 74.5 8.4 0.00018 46.6 7.9 26 594-619 141-166 (450)
265 cd00561 CobA_CobO_BtuR ATP:cor 74.4 14 0.0003 38.2 8.3 56 713-768 93-152 (159)
266 KOG3612 PHD Zn-finger protein 74.4 1.3 2.9E-05 52.6 1.0 57 373-434 57-113 (588)
267 TIGR00362 DnaA chromosomal rep 73.9 6.8 0.00015 46.7 6.9 28 594-621 136-163 (405)
268 PRK14974 cell division protein 73.3 11 0.00025 43.6 8.3 44 596-643 142-189 (336)
269 PRK09111 DNA polymerase III su 72.9 3.7 8E-05 51.3 4.4 30 592-621 44-73 (598)
270 PRK08727 hypothetical protein; 72.5 6.6 0.00014 43.1 5.8 26 595-620 42-67 (233)
271 TIGR02928 orc1/cdc6 family rep 72.0 23 0.00051 41.2 10.7 55 556-619 11-65 (365)
272 cd01120 RecA-like_NTPases RecA 71.9 20 0.00044 35.6 9.0 33 598-634 3-35 (165)
273 PRK14960 DNA polymerase III su 71.9 8.1 0.00018 48.4 6.9 27 593-619 36-62 (702)
274 TIGR03015 pepcterm_ATPase puta 71.8 9.5 0.00021 42.3 7.1 22 596-617 45-66 (269)
275 PRK00411 cdc6 cell division co 71.5 26 0.00057 41.3 11.1 29 592-620 53-81 (394)
276 PRK06645 DNA polymerase III su 71.1 8.7 0.00019 47.1 7.0 29 592-620 41-69 (507)
277 PRK12323 DNA polymerase III su 71.0 7.4 0.00016 48.7 6.3 28 593-620 37-64 (700)
278 PF05970 PIF1: PIF1-like helic 71.0 4.1 8.9E-05 47.8 4.1 62 566-639 2-63 (364)
279 PRK05703 flhF flagellar biosyn 70.7 17 0.00036 43.7 9.1 55 715-770 299-359 (424)
280 PRK07994 DNA polymerase III su 70.6 8.7 0.00019 48.3 6.9 27 594-620 38-64 (647)
281 PRK07764 DNA polymerase III su 70.5 6.3 0.00014 51.1 5.8 28 593-620 36-63 (824)
282 PRK14961 DNA polymerase III su 70.2 7.5 0.00016 45.6 6.0 26 594-619 38-63 (363)
283 COG0552 FtsY Signal recognitio 70.1 22 0.00047 40.9 9.3 55 705-759 211-275 (340)
284 TIGR02768 TraA_Ti Ti-type conj 70.0 3.4 7.3E-05 53.2 3.3 59 564-639 351-409 (744)
285 PF05707 Zot: Zonular occluden 69.6 2.9 6.2E-05 44.5 2.1 19 715-733 79-97 (193)
286 PRK14962 DNA polymerase III su 69.4 7.9 0.00017 47.1 6.1 26 594-619 36-61 (472)
287 PRK14952 DNA polymerase III su 69.1 13 0.00028 46.4 7.9 27 594-620 35-61 (584)
288 PLN03208 E3 ubiquitin-protein 69.0 2.4 5.1E-05 44.8 1.3 56 374-429 16-77 (193)
289 PRK14088 dnaA chromosomal repl 69.0 9.5 0.00021 46.0 6.6 26 595-620 131-156 (440)
290 COG1702 PhoH Phosphate starvat 68.8 5.9 0.00013 45.4 4.5 40 717-758 245-284 (348)
291 KOG0957 PHD finger protein [Ge 68.5 8.5 0.00018 45.4 5.6 61 333-398 120-192 (707)
292 PRK14959 DNA polymerase III su 68.4 5.2 0.00011 49.9 4.3 27 594-620 38-64 (624)
293 PRK08451 DNA polymerase III su 67.4 6.6 0.00014 48.3 4.8 27 594-620 36-62 (535)
294 PHA03372 DNA packaging termina 66.9 10 0.00022 46.7 6.2 44 606-651 214-262 (668)
295 PRK06893 DNA replication initi 66.8 14 0.0003 40.4 6.9 25 596-620 41-65 (229)
296 PHA02544 44 clamp loader, smal 66.4 11 0.00024 43.0 6.3 39 715-753 100-140 (316)
297 PRK14958 DNA polymerase III su 66.1 9.7 0.00021 46.8 6.0 27 594-620 38-64 (509)
298 COG0254 RpmE Ribosomal protein 65.8 8.5 0.00018 34.4 3.9 46 329-374 11-58 (75)
299 PRK08181 transposase; Validate 65.4 12 0.00026 42.1 6.1 29 593-621 105-133 (269)
300 PRK07993 DNA polymerase III su 65.3 8.6 0.00019 44.6 5.1 50 565-621 2-51 (334)
301 KOG0740 AAA+-type ATPase [Post 65.3 7.6 0.00016 46.1 4.6 49 592-647 184-232 (428)
302 PF13831 PHD_2: PHD-finger; PD 65.0 2.1 4.6E-05 32.7 0.0 34 387-427 3-36 (36)
303 PRK07414 cob(I)yrinic acid a,c 65.0 26 0.00057 36.8 8.0 54 713-766 113-170 (178)
304 PRK13889 conjugal transfer rel 65.0 11 0.00024 49.7 6.5 52 715-768 433-485 (988)
305 PRK11889 flhF flagellar biosyn 65.0 20 0.00044 42.4 7.9 44 596-643 243-290 (436)
306 PF14835 zf-RING_6: zf-RING of 64.8 3.2 6.9E-05 35.9 1.0 38 379-428 10-48 (65)
307 PRK14964 DNA polymerase III su 64.7 13 0.00027 45.4 6.5 29 592-620 33-61 (491)
308 cd01121 Sms Sms (bacterial rad 64.5 24 0.00052 41.6 8.6 38 594-635 82-119 (372)
309 COG1199 DinG Rad3-related DNA 64.0 4.4 9.6E-05 51.4 2.6 72 564-648 14-86 (654)
310 PF00004 AAA: ATPase family as 64.0 8.4 0.00018 37.2 4.1 16 716-731 59-74 (132)
311 PF13639 zf-RING_2: Ring finge 63.8 2.6 5.6E-05 33.4 0.3 38 378-426 2-43 (44)
312 PF06564 YhjQ: YhjQ protein; 63.5 26 0.00056 38.8 8.1 32 604-639 12-45 (243)
313 KOG0738 AAA+-type ATPase [Post 63.5 10 0.00022 44.2 5.0 45 595-647 246-291 (491)
314 PRK08769 DNA polymerase III su 63.4 7.9 0.00017 44.6 4.2 51 564-621 3-53 (319)
315 PTZ00293 thymidine kinase; Pro 63.1 7 0.00015 42.2 3.5 34 598-635 8-41 (211)
316 PF13173 AAA_14: AAA domain 63.0 11 0.00024 37.0 4.7 38 715-756 61-101 (128)
317 PRK12422 chromosomal replicati 62.8 17 0.00036 44.0 7.0 26 595-620 142-167 (445)
318 PRK10865 protein disaggregatio 62.3 19 0.0004 47.3 7.8 27 592-618 197-223 (857)
319 PF00580 UvrD-helicase: UvrD/R 62.1 3.1 6.7E-05 46.9 0.7 43 595-637 14-56 (315)
320 COG5141 PHD zinc finger-contai 62.0 2.6 5.7E-05 49.4 0.0 48 373-428 190-242 (669)
321 PF13177 DNA_pol3_delta2: DNA 62.0 25 0.00053 36.3 7.3 32 592-623 17-48 (162)
322 PRK14722 flhF flagellar biosyn 61.8 20 0.00043 42.3 7.2 27 593-619 136-162 (374)
323 PF05496 RuvB_N: Holliday junc 61.6 8.4 0.00018 42.0 3.8 20 594-615 50-69 (233)
324 cd01122 GP4d_helicase GP4d_hel 61.5 35 0.00076 37.9 9.0 38 594-634 30-67 (271)
325 CHL00095 clpC Clp protease ATP 61.3 13 0.00029 48.4 6.3 26 593-618 199-224 (821)
326 smart00184 RING Ring finger. E 61.3 3.9 8.3E-05 30.3 0.9 29 379-407 1-29 (39)
327 PRK14963 DNA polymerase III su 61.3 17 0.00037 44.7 6.8 25 596-620 38-62 (504)
328 PHA02929 N1R/p28-like protein; 61.2 3.8 8.1E-05 45.0 1.1 45 374-428 172-224 (238)
329 PRK06835 DNA replication prote 61.1 9.7 0.00021 44.1 4.5 28 594-621 183-210 (329)
330 PF13832 zf-HC5HC2H_2: PHD-zin 61.0 4.2 9.1E-05 39.0 1.3 32 375-406 54-88 (110)
331 KOG1002 Nucleotide excision re 60.5 5 0.00011 47.5 2.0 69 347-429 516-584 (791)
332 COG0464 SpoVK ATPases of the A 60.4 15 0.00032 45.1 6.2 48 593-647 275-322 (494)
333 PRK14086 dnaA chromosomal repl 60.1 22 0.00049 44.4 7.5 25 595-619 315-339 (617)
334 TIGR03117 cas_csf4 CRISPR-asso 59.5 26 0.00056 44.2 8.0 54 594-649 16-70 (636)
335 PRK09183 transposase/IS protei 59.3 22 0.00047 39.7 6.8 27 593-619 101-127 (259)
336 PF01197 Ribosomal_L31: Riboso 59.1 8 0.00017 34.2 2.5 46 329-374 10-57 (69)
337 cd00162 RING RING-finger (Real 59.0 4.6 9.9E-05 31.1 1.0 41 379-428 2-43 (45)
338 PF12861 zf-Apc11: Anaphase-pr 58.8 4.2 9.1E-05 37.2 0.8 31 391-428 49-79 (85)
339 PRK11054 helD DNA helicase IV; 58.7 5.2 0.00011 50.8 1.9 82 564-663 195-277 (684)
340 PRK14969 DNA polymerase III su 58.7 12 0.00026 46.3 4.9 27 593-619 37-63 (527)
341 TIGR03689 pup_AAA proteasome A 58.7 15 0.00032 45.1 5.6 26 593-618 215-240 (512)
342 TIGR03346 chaperone_ClpB ATP-d 57.8 25 0.00055 46.1 8.0 26 593-618 193-218 (852)
343 TIGR00595 priA primosomal prot 57.7 17 0.00037 44.7 6.0 97 956-1068 5-101 (505)
344 PRK12377 putative replication 57.4 20 0.00044 39.8 6.0 28 594-621 101-128 (248)
345 KOG0298 DEAD box-containing he 57.2 2.6 5.7E-05 55.1 -1.1 118 959-1096 1202-1321(1394)
346 KOG0991 Replication factor C, 57.1 17 0.00037 39.6 5.1 28 592-619 46-73 (333)
347 KOG1512 PHD Zn-finger protein 56.9 4.3 9.4E-05 44.5 0.6 41 384-427 275-315 (381)
348 PRK14951 DNA polymerase III su 56.6 23 0.00049 44.6 6.9 27 594-620 38-64 (618)
349 cd02037 MRP-like MRP (Multiple 56.3 32 0.0007 35.4 7.0 53 714-770 66-118 (169)
350 COG0593 DnaA ATPase involved i 55.7 29 0.00062 41.3 7.2 41 715-755 175-221 (408)
351 PF03354 Terminase_1: Phage Te 55.2 25 0.00054 42.9 6.9 41 595-635 23-63 (477)
352 KOG0327 Translation initiation 54.8 13 0.00028 43.1 4.0 144 593-753 62-210 (397)
353 PRK01678 rpmE2 50S ribosomal p 54.6 17 0.00038 33.5 4.0 46 329-374 10-69 (87)
354 PRK03992 proteasome-activating 54.6 9.7 0.00021 45.2 3.1 25 593-617 164-188 (389)
355 PRK05642 DNA replication initi 54.6 20 0.00043 39.4 5.3 38 715-752 97-138 (234)
356 PF11793 FANCL_C: FANCL C-term 54.5 4.5 9.8E-05 35.7 0.3 41 388-428 20-63 (70)
357 PHA02926 zinc finger-like prot 54.2 5.3 0.00011 42.9 0.7 50 376-429 170-228 (242)
358 PF13771 zf-HC5HC2H: PHD-like 54.1 6 0.00013 36.4 1.0 33 373-405 33-68 (90)
359 KOG4443 Putative transcription 54.0 4.7 0.0001 49.3 0.3 46 378-428 20-70 (694)
360 KOG0956 PHD finger protein AF1 53.2 5 0.00011 49.0 0.4 55 373-429 114-180 (900)
361 PRK05580 primosome assembly pr 53.2 24 0.00053 45.0 6.5 97 957-1069 171-267 (679)
362 PRK14955 DNA polymerase III su 53.1 21 0.00046 42.4 5.7 28 593-620 37-64 (397)
363 PHA00350 putative assembly pro 53.0 16 0.00034 43.4 4.4 15 717-731 83-97 (399)
364 PRK14957 DNA polymerase III su 52.9 25 0.00054 43.6 6.3 27 594-620 38-64 (546)
365 PF15446 zf-PHD-like: PHD/FYVE 52.7 6.9 0.00015 40.2 1.2 32 379-410 2-39 (175)
366 PHA00012 I assembly protein 52.4 25 0.00054 40.5 5.6 23 600-622 7-29 (361)
367 TIGR01075 uvrD DNA helicase II 52.3 7.3 0.00016 50.0 1.7 82 565-662 4-86 (715)
368 PRK11034 clpA ATP-dependent Cl 52.0 39 0.00084 43.7 8.0 25 593-617 206-230 (758)
369 KOG0317 Predicted E3 ubiquitin 51.9 6.3 0.00014 43.8 0.9 41 378-428 241-281 (293)
370 KOG0956 PHD finger protein AF1 51.6 6.5 0.00014 48.1 1.0 44 378-429 7-57 (900)
371 PRK07133 DNA polymerase III su 51.4 24 0.00053 44.9 6.0 28 593-620 39-66 (725)
372 PTZ00454 26S protease regulato 51.4 11 0.00024 44.9 2.8 25 593-617 178-202 (398)
373 COG0470 HolB ATPase involved i 51.4 19 0.00041 40.9 4.8 27 596-622 26-52 (325)
374 COG3267 ExeA Type II secretory 51.3 46 0.001 37.0 7.3 46 597-647 54-105 (269)
375 PRK06067 flagellar accessory p 51.0 52 0.0011 35.8 8.0 37 594-634 25-61 (234)
376 PF01695 IstB_IS21: IstB-like 51.0 10 0.00022 39.8 2.3 43 592-638 45-87 (178)
377 PRK08533 flagellar accessory p 50.9 72 0.0016 34.9 9.0 37 594-634 24-60 (230)
378 TIGR03345 VI_ClpV1 type VI sec 50.6 27 0.00058 45.8 6.4 26 592-617 206-231 (852)
379 KOG1244 Predicted transcriptio 50.5 7.8 0.00017 42.5 1.3 48 378-428 226-283 (336)
380 PRK10917 ATP-dependent DNA hel 50.4 18 0.00039 46.3 4.7 103 956-1069 290-392 (681)
381 PRK13342 recombination factor 50.2 21 0.00045 42.7 5.0 24 593-616 35-58 (413)
382 KOG3970 Predicted E3 ubiquitin 50.0 2.7 5.8E-05 44.6 -2.2 74 352-428 20-102 (299)
383 COG3972 Superfamily I DNA and 50.0 50 0.0011 39.8 7.7 38 715-755 295-333 (660)
384 KOG4628 Predicted E3 ubiquitin 50.0 9.4 0.0002 44.1 1.9 43 377-428 230-275 (348)
385 PF13923 zf-C3HC4_2: Zinc fing 49.9 5.6 0.00012 30.6 0.1 38 379-426 1-39 (39)
386 COG1435 Tdk Thymidine kinase [ 49.4 68 0.0015 34.3 7.9 33 716-751 83-117 (201)
387 PRK07940 DNA polymerase III su 49.3 12 0.00027 44.3 2.9 27 594-620 36-62 (394)
388 COG2109 BtuR ATP:corrinoid ade 49.3 1.3E+02 0.0029 32.0 9.9 57 713-769 120-180 (198)
389 TIGR01243 CDC48 AAA family ATP 49.2 17 0.00037 46.8 4.4 42 593-641 486-527 (733)
390 TIGR01242 26Sp45 26S proteasom 49.2 12 0.00026 43.9 2.8 25 593-617 155-179 (364)
391 KOG1701 Focal adhesion adaptor 49.0 4.1 8.8E-05 47.4 -1.1 27 347-375 356-382 (468)
392 smart00492 HELICc3 helicase su 48.7 56 0.0012 33.0 7.1 45 1024-1071 33-79 (141)
393 PRK08691 DNA polymerase III su 48.6 30 0.00065 43.9 6.1 28 592-619 36-63 (709)
394 KOG0952 DNA/RNA helicase MER3/ 48.5 25 0.00055 45.7 5.4 115 593-730 942-1061(1230)
395 PRK05563 DNA polymerase III su 48.4 28 0.0006 43.5 5.8 27 593-619 37-63 (559)
396 PF07015 VirC1: VirC1 protein; 48.4 1.5E+02 0.0033 32.6 10.7 39 604-646 12-52 (231)
397 KOG0383 Predicted helicase [Ge 48.3 4.4 9.6E-05 50.8 -1.1 55 371-430 501-555 (696)
398 PRK00019 rpmE 50S ribosomal pr 48.2 26 0.00056 31.3 3.9 44 330-374 11-56 (72)
399 TIGR03877 thermo_KaiC_1 KaiC d 48.1 67 0.0015 35.2 8.3 37 593-633 20-56 (237)
400 COG5141 PHD zinc finger-contai 48.1 17 0.00038 42.9 3.7 27 379-405 306-335 (669)
401 CHL00206 ycf2 Ycf2; Provisiona 47.9 29 0.00063 48.3 6.1 44 593-643 1629-1672(2281)
402 cd03115 SRP The signal recogni 47.7 91 0.002 32.0 8.8 24 598-621 4-27 (173)
403 CHL00136 rpl31 ribosomal prote 47.5 23 0.0005 31.2 3.5 42 332-374 15-56 (68)
404 PRK06871 DNA polymerase III su 47.1 56 0.0012 37.8 7.7 30 592-621 22-51 (325)
405 PRK11823 DNA repair protein Ra 46.8 67 0.0015 38.9 8.6 43 595-641 81-123 (446)
406 PRK00528 rpmE 50S ribosomal pr 46.7 29 0.00062 30.9 4.0 33 332-365 13-49 (71)
407 PRK13709 conjugal transfer nic 45.9 32 0.00069 48.2 6.2 69 559-639 961-1029(1747)
408 PF02572 CobA_CobO_BtuR: ATP:c 45.7 56 0.0012 34.2 6.7 56 713-768 94-153 (172)
409 PRK14965 DNA polymerase III su 45.5 24 0.00053 44.1 4.7 28 593-620 37-64 (576)
410 PRK13341 recombination factor 45.4 21 0.00045 45.8 4.2 24 592-615 50-73 (725)
411 PRK13826 Dtr system oriT relax 45.4 34 0.00074 45.7 6.2 52 715-768 468-520 (1102)
412 TIGR00570 cdk7 CDK-activating 45.1 7.9 0.00017 43.9 0.3 27 393-428 25-51 (309)
413 PRK11773 uvrD DNA-dependent he 45.0 12 0.00025 48.2 1.9 70 565-650 9-79 (721)
414 PRK00440 rfc replication facto 45.0 47 0.001 37.6 6.7 23 596-618 40-62 (319)
415 PRK10919 ATP-dependent DNA hel 44.9 11 0.00025 47.9 1.8 54 596-649 17-71 (672)
416 PRK14712 conjugal transfer nic 44.8 35 0.00077 47.2 6.3 151 561-768 831-982 (1623)
417 PF01443 Viral_helicase1: Vira 44.7 22 0.00048 38.3 3.8 41 715-758 62-102 (234)
418 PF15227 zf-C3HC4_4: zinc fing 44.7 5.2 0.00011 31.6 -0.8 28 393-426 15-42 (42)
419 COG2256 MGS1 ATPase related to 44.5 52 0.0011 38.8 6.7 19 592-610 46-64 (436)
420 KOG1734 Predicted RING-contain 44.0 7 0.00015 42.8 -0.3 54 373-434 221-285 (328)
421 CHL00176 ftsH cell division pr 43.8 36 0.00078 43.1 5.9 24 593-616 215-238 (638)
422 PF07649 C1_3: C1-like domain; 43.2 10 0.00022 27.5 0.6 26 378-403 2-30 (30)
423 TIGR02639 ClpA ATP-dependent C 43.2 66 0.0014 41.6 8.3 26 593-618 202-227 (731)
424 COG1198 PriA Primosomal protei 42.9 34 0.00074 43.7 5.4 85 952-1051 221-305 (730)
425 TIGR01074 rep ATP-dependent DN 42.8 14 0.0003 47.1 2.0 69 595-663 15-85 (664)
426 KOG0739 AAA+-type ATPase [Post 42.8 19 0.00041 40.6 2.8 48 594-648 166-213 (439)
427 TIGR02760 TraI_TIGR conjugativ 42.4 40 0.00087 48.2 6.6 63 564-638 1018-1080(1960)
428 COG1484 DnaC DNA replication p 42.4 21 0.00045 39.8 3.1 50 593-646 104-153 (254)
429 PF14446 Prok-RING_1: Prokaryo 42.4 14 0.00031 30.9 1.3 29 378-406 7-39 (54)
430 KOG0320 Predicted E3 ubiquitin 41.9 9.2 0.0002 39.6 0.2 32 388-429 145-176 (187)
431 TIGR00643 recG ATP-dependent D 41.8 28 0.00061 44.1 4.6 101 957-1068 265-365 (630)
432 TIGR00105 L31 ribosomal protei 41.7 37 0.00079 30.0 3.9 43 331-374 12-56 (68)
433 KOG0978 E3 ubiquitin ligase in 41.5 7.2 0.00016 48.8 -0.7 43 378-429 645-687 (698)
434 KOG2164 Predicted E3 ubiquitin 41.2 12 0.00025 44.9 1.0 49 376-429 186-234 (513)
435 KOG2231 Predicted E3 ubiquitin 41.2 12 0.00026 46.7 1.0 90 333-428 100-214 (669)
436 KOG3362 Predicted BBOX Zn-fing 41.2 8.2 0.00018 38.4 -0.2 29 377-406 119-148 (156)
437 PRK06731 flhF flagellar biosyn 40.9 1.1E+02 0.0024 34.5 8.5 54 715-769 154-212 (270)
438 KOG0827 Predicted E3 ubiquitin 40.7 14 0.0003 42.6 1.4 43 378-429 6-54 (465)
439 PF00308 Bac_DnaA: Bacterial d 40.3 63 0.0014 35.1 6.4 37 715-751 97-137 (219)
440 COG5151 SSL1 RNA polymerase II 39.9 22 0.00048 39.7 2.7 93 321-430 297-420 (421)
441 COG2812 DnaX DNA polymerase II 39.6 32 0.00069 42.1 4.3 27 592-618 36-62 (515)
442 PRK08939 primosomal protein Dn 39.4 36 0.00077 39.1 4.5 29 593-621 155-183 (306)
443 KOG1952 Transcription factor N 39.0 11 0.00025 47.4 0.4 53 373-428 188-244 (950)
444 PRK04328 hypothetical protein; 39.0 1.1E+02 0.0023 34.0 8.1 36 594-633 23-58 (249)
445 cd01125 repA Hexameric Replica 38.7 1.8E+02 0.0039 31.8 9.8 23 597-619 4-26 (239)
446 PRK06964 DNA polymerase III su 38.6 53 0.0011 38.3 5.8 30 592-621 19-48 (342)
447 COG0630 VirB11 Type IV secreto 38.5 55 0.0012 37.6 5.9 51 706-763 208-258 (312)
448 PHA03333 putative ATPase subun 38.1 50 0.0011 41.7 5.6 34 599-635 192-225 (752)
449 TIGR01243 CDC48 AAA family ATP 37.9 29 0.00063 44.8 3.9 24 593-616 211-234 (733)
450 TIGR00678 holB DNA polymerase 37.9 41 0.00089 35.2 4.4 29 593-621 13-41 (188)
451 PF12678 zf-rbx1: RING-H2 zinc 37.5 14 0.00031 32.9 0.7 26 392-427 48-73 (73)
452 COG2888 Predicted Zn-ribbon RN 37.2 26 0.00056 29.9 2.1 47 332-395 9-57 (61)
453 PRK05973 replicative DNA helic 36.9 1.3E+02 0.0029 33.1 8.3 37 593-633 63-99 (237)
454 PRK14970 DNA polymerase III su 36.9 56 0.0012 38.2 5.8 27 592-618 37-63 (367)
455 KOG0734 AAA+-type ATPase conta 36.6 60 0.0013 39.6 5.7 24 592-615 335-358 (752)
456 PRK14873 primosome assembly pr 36.5 52 0.0011 41.9 5.7 80 958-1052 170-250 (665)
457 COG0541 Ffh Signal recognition 36.3 56 0.0012 38.9 5.4 33 597-633 103-135 (451)
458 PRK06090 DNA polymerase III su 36.2 79 0.0017 36.5 6.6 50 565-621 3-52 (319)
459 KOG1705 Uncharacterized conser 36.1 21 0.00046 32.7 1.5 32 345-387 35-66 (110)
460 cd00984 DnaB_C DnaB helicase C 35.8 1.5E+02 0.0032 32.2 8.6 48 594-644 13-64 (242)
461 PRK14559 putative protein seri 35.5 19 0.00041 45.4 1.5 23 372-395 12-34 (645)
462 PRK12724 flagellar biosynthesi 35.2 1.3E+02 0.0029 36.0 8.4 56 714-770 298-361 (432)
463 PRK06647 DNA polymerase III su 35.2 63 0.0014 40.3 6.0 28 593-620 37-64 (563)
464 COG1419 FlhF Flagellar GTP-bin 35.0 1E+02 0.0022 36.6 7.3 56 715-771 281-341 (407)
465 TIGR01241 FtsH_fam ATP-depende 34.8 27 0.00059 42.8 2.8 25 592-616 86-110 (495)
466 COG5222 Uncharacterized conser 34.7 21 0.00046 39.6 1.6 56 378-443 276-341 (427)
467 PRK14953 DNA polymerase III su 34.7 63 0.0014 39.6 5.8 26 594-619 38-63 (486)
468 TIGR02688 conserved hypothetic 34.5 19 0.00042 42.8 1.4 25 593-617 208-232 (449)
469 PRK08760 replicative DNA helic 34.3 1.7E+02 0.0037 35.8 9.4 50 594-646 229-278 (476)
470 COG1107 Archaea-specific RecJ- 34.3 29 0.00062 42.3 2.7 21 378-398 70-90 (715)
471 PRK12727 flagellar biosynthesi 34.3 1.7E+02 0.0038 36.2 9.3 27 594-620 350-376 (559)
472 PF02318 FYVE_2: FYVE-type zin 34.2 14 0.00031 36.1 0.2 44 377-429 55-103 (118)
473 PF00437 T2SE: Type II/IV secr 33.8 1.3E+02 0.0028 33.4 7.9 54 704-763 186-239 (270)
474 PF02702 KdpD: Osmosensitive K 33.7 52 0.0011 35.3 4.2 26 596-621 7-32 (211)
475 PRK14950 DNA polymerase III su 33.6 47 0.001 41.7 4.7 26 594-619 38-63 (585)
476 PF05127 Helicase_RecD: Helica 33.4 18 0.00039 38.0 0.8 33 715-753 90-123 (177)
477 PF00097 zf-C3HC4: Zinc finger 33.3 17 0.00038 28.0 0.5 30 379-408 1-31 (41)
478 PRK04023 DNA polymerase II lar 33.2 22 0.00049 46.0 1.7 53 325-396 619-671 (1121)
479 COG0143 MetG Methionyl-tRNA sy 33.1 24 0.00053 43.6 2.0 47 352-404 125-171 (558)
480 COG1474 CDC6 Cdc6-related prot 33.0 1.3E+02 0.0028 35.5 7.9 57 556-621 13-69 (366)
481 PRK06305 DNA polymerase III su 32.8 74 0.0016 38.6 6.0 28 593-620 38-65 (451)
482 TIGR00416 sms DNA repair prote 32.4 1.3E+02 0.0028 36.6 7.9 46 594-643 94-139 (454)
483 PRK07952 DNA replication prote 32.4 35 0.00076 37.8 2.9 34 595-632 100-133 (244)
484 PRK10416 signal recognition pa 32.3 3E+02 0.0066 31.8 10.6 32 598-633 118-149 (318)
485 PF00539 Tat: Transactivating 32.2 17 0.00036 31.9 0.3 17 394-427 27-43 (68)
486 PF15446 zf-PHD-like: PHD/FYVE 32.2 80 0.0017 32.7 5.1 52 352-406 50-142 (175)
487 TIGR01073 pcrA ATP-dependent D 32.1 23 0.0005 45.6 1.7 82 565-662 4-86 (726)
488 PRK06904 replicative DNA helic 32.0 2.1E+02 0.0046 34.9 9.7 49 594-645 221-269 (472)
489 COG3598 RepA RecA-family ATPas 31.9 59 0.0013 37.3 4.5 26 593-618 88-113 (402)
490 PF13481 AAA_25: AAA domain; P 31.7 1.5E+02 0.0034 30.7 7.6 54 595-648 33-92 (193)
491 PRK14721 flhF flagellar biosyn 31.7 1.7E+02 0.0037 35.1 8.7 54 715-769 269-327 (420)
492 TIGR01547 phage_term_2 phage t 31.5 84 0.0018 37.2 6.1 39 715-755 101-142 (396)
493 PRK05917 DNA polymerase III su 31.4 88 0.0019 35.6 5.9 30 592-621 17-46 (290)
494 TIGR00580 mfd transcription-re 31.4 52 0.0011 43.5 4.6 101 957-1068 481-581 (926)
495 COG5574 PEX10 RING-finger-cont 31.3 25 0.00055 38.8 1.5 46 376-429 215-260 (271)
496 COG0003 ArsA Predicted ATPase 30.8 83 0.0018 36.4 5.6 19 604-622 12-30 (322)
497 PRK14971 DNA polymerase III su 30.8 76 0.0016 40.1 5.8 27 593-619 38-64 (614)
498 PTZ00396 Casein kinase II subu 30.4 16 0.00035 40.4 -0.1 34 393-427 122-155 (251)
499 TIGR01425 SRP54_euk signal rec 30.4 3.9E+02 0.0084 32.3 11.3 34 597-634 103-136 (429)
500 PF07227 DUF1423: Protein of u 29.9 41 0.00089 40.0 3.0 56 378-442 143-203 (446)
No 1
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=1.7e-150 Score=1302.59 Aligned_cols=978 Identities=34% Similarity=0.477 Sum_probs=803.6
Q ss_pred eeeeecccccchhccchhhhhhhhccCCCCCCCccccccccccccccccCCchhhhhhcccccceeeeeccCHHHHHHcc
Q 001337 3 MHCVFRRHGKLLEEGASGFLQKKIANDGSENGGKEVSDINWNSVNKIFSGDVSEKCAAFGSKHWASVYLASTPQQAAAMG 82 (1097)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (1097)
++|+++||||+++||+++|++|++........-...++.+|.+.|+-|.+.+ ++...|+++.|+++||||||.++++||
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 5789999999999999999999998765433334678899999999999988 678999999999999999999999999
Q ss_pred CCCCCCccccccCCCCCCcccccceeeeeeccccCccceeecccCCCCCchhHHhhcchhhhcccHHHHhhccccccccc
Q 001337 83 LKFPGVDEVTDFSSNCPNMWKFRSIITYRLCKVSGSVEEIEDVDGNSDDPFVADAIANEKELALSEEQRKKFRKVKEEDD 162 (1097)
Q Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (1097)
+.||||.| ++|++|++...++||.+++|.+|+|..+.++|...|..++||||
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 hhhhhhhhhhhhhhhhcccccccccccccccccccceecchhhhhhhcccCCCCCCCCCCCCCchhhccccccccccccc
Q 001337 163 ANMDRKLQLHLKRRRHRKISKQKEIGSVDWTIEDSAVETRPLVDASKSLSNKKTDDGDMPGNNNEVALQNLETGVLESSV 242 (1097)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (1097)
...++-+|+.||++++.|+.||...++. ..+.+.++... ..-+.+|.++...++.
T Consensus 347 e~es~~~~~~lkkk~kqk~~kq~sskss-ees~dd~~~r~-----------------------~kk~t~n~aKa~~ss~- 401 (1567)
T KOG1015|consen 347 EQESIGEGSSLKKKIKQKSGKQASSKSS-EESVDDPENRI-----------------------AKKMTLNEAKANLSSD- 401 (1567)
T ss_pred hhhhhhhcccchHhhhhccchhhhhhcc-hhccccHHHHh-----------------------hhhcchHHHHhhhcCC-
Confidence 9999999999999999999999999888 55555554442 1114444554444333
Q ss_pred ccccccCCCccccCCCCCCccccccccCCCCCCCCCccccceeEEEecCCCCccccccccccccccccCcccccccccCC
Q 001337 243 KERSLSNGISSVSDSALPDSSELRGIKRSNESEEPNSEKKRSRTIIIGSDEADVVKDECSTKLEDHSVSPENINDAATDN 322 (1097)
Q Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 322 (1097)
. .+.++.+| | .++|+.....+-........+-+. +++ .
T Consensus 402 e-Ts~~s~es-----------E-~~sk~sgk~~es~~~~e~~s~~~n-~~s----------------------------~ 439 (1567)
T KOG1015|consen 402 E-TSSSSDES-----------E-EGSKRSGKQNESNPGDEEASNQVN-SES----------------------------D 439 (1567)
T ss_pred C-cccccccc-----------c-cchhhhcccccCCCCccccccccc-ccc----------------------------c
Confidence 1 11111111 1 233322221111111111111110 000 0
Q ss_pred cccccccCcceeeccccceEEEeeccceeEEEEecCcccchhhcccccCCCCCcceeeeccCCCCeeeccccccchhhhh
Q 001337 323 SLHSQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTC 402 (1097)
Q Consensus 323 ~~~~~~~~~~~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~C 402 (1097)
+.+.+.--..|.||.|.+.....+.||..+++.|+.|..... ..-...++..+..|.||+..-.+.-|..|++.||..|
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 112233344578999999988899999999999999876554 3444556667779999999999999999999999999
Q ss_pred hhccchhhhhhhhhhcccceeeecChhhHHHHHHHHhhhcCCccceecCCCCCcCCCccccceeecccchhhhhHHhhcc
Q 001337 403 VKRNISEACLSDEVQASCWQCCCCSPSLLKRLTSELGRAMGSENLIVSSSESDSENSDADNNLKIGGKRKQKKKIRRILD 482 (1097)
Q Consensus 403 l~~~~~~~~~~~~~~~~~W~C~~C~~~~~~~l~~~~~~~~~~~~~~~~~s~~d~~~sd~~~~~~~~~~~~~~k~ir~il~ 482 (1097)
+.++.+...++ ......|.|.+|++.+.+ .++.++.+.+...+..+++..++.+.+..|+..++|+|++|+||+||+
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 99999999988 555567999999999988 677788888777766666665554444477778899999999999999
Q ss_pred ccccchhhhhhhhhhHHHHHhhhcc---eEEeccccccccccccCCCCCCCcceEEecccccceEEeeeecccccceecC
Q 001337 483 DAELGEETKRKIAIEKERQERLKSL---QVQFSSKSKLMNSVTLDGDLSAGASIEVLGDAITGYIVNVVREKGEEAVRIP 559 (1097)
Q Consensus 483 d~~l~e~~~~~~~~eker~~rl~~~---~~~~~~~~~~~~~~~~~~~l~~~~~~e~~~~~~~~~i~~~~~~~~~~~v~vP 559 (1097)
|++|+.+|+.++++|++|++||+.. ++.+... .+.....++++. ...+++++..+..++++.||
T Consensus 596 d~kL~keT~~a~k~EkeRrkRie~~~~rqK~~n~i-----~ied~s~~~e~i--------t~~lVld~deet~e~~VqV~ 662 (1567)
T KOG1015|consen 596 DDKLRKETQNALKEEKERRKRIEEERERQKLRNVI-----EIEDASPTKEPI--------TTKLVLDEDEETKEPLVQVH 662 (1567)
T ss_pred hhhhchhHHHHHHHHHHHHHHHHHHHHHhhhhcee-----eeccCCCCcccc--------ceeEEecchhhhccchhhcc
Confidence 9999999999999999999999884 2222211 111112222221 23788999999999999999
Q ss_pred ccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh
Q 001337 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1097)
Q Consensus 560 ~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~ 639 (1097)
..|...|+|||..||+|||+++++++++. ....|.||||||+||||||+|+|+|+++++.+...+.+++|||||.+++.
T Consensus 663 rslv~kLKpHQv~GvqFMwd~~~eSlkr~-~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt~~ 741 (1567)
T KOG1015|consen 663 RSLVIKLKPHQVDGVQFMWDCCCESLKRT-KKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNTAL 741 (1567)
T ss_pred HhHHhhcCcccccchhHHHHHHHHHHHhh-cCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHHHH
Confidence 99999999999999999999999999987 55889999999999999999999999999999999999999999999999
Q ss_pred hhHHhhcccccC--CCcccEEEeecccch-hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHH-HHHHhccC
Q 001337 640 NWKQEFMKWRPS--ELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMARE-ICHALQDG 715 (1097)
Q Consensus 640 qW~~Ei~k~~p~--~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~-~~~ll~~~ 715 (1097)
||.+||.+|.++ ...++.|+.+...++ ..|...+..|+..++|+|++|++||++..+..++.++.... .+.++.++
T Consensus 742 NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdpG 821 (1567)
T KOG1015|consen 742 NWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDPG 821 (1567)
T ss_pred HHHHHHHHhcccccccccceeehhhhccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHHHhccCCC
Confidence 999999999985 344789999888877 78899999999999999999999999999999988875444 44556669
Q ss_pred CCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCC
Q 001337 716 PDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNS 795 (1097)
Q Consensus 716 ~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s 795 (1097)
||+|||||||.|||..|.+++|+.++++++||+|||||+|||+.|||||++|+.|++||+..+|+++|.+||++|++.++
T Consensus 822 PD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvNpI~nGq~~dS 901 (1567)
T KOG1015|consen 822 PDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVNPIQNGQCADS 901 (1567)
T ss_pred CCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcCccccCccCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCccc--ccchHHHHHhh
Q 001337 796 TSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTND--RVSNEKIRKSF 873 (1097)
Q Consensus 796 ~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~--~~~~~~~~~~~ 873 (1097)
+..++++|++|+|+|+.+|++||+|+++.++.+.||||++|||.|.||+.|..||+.|+. +.+... .....+....+
T Consensus 902 T~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~-h~~~~G~d~eg~~g~~arl 980 (1567)
T KOG1015|consen 902 TMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLD-HLTGVGNDSEGGRGAGARL 980 (1567)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHh-hccccCCccccccchhhhH
Confidence 999999999999999999999999999999999999999999999999999999999998 332222 12223466789
Q ss_pred hhhHHHHHHHhcCcceeeecccC----CCCCccc---cccCCC------------------------CCCCccceeec--
Q 001337 874 FAGYQALAQIWNHPGILQLTKDK----GYPSRED---AEDSSS------------------------DENMDYNVVIG-- 920 (1097)
Q Consensus 874 l~~l~~Lrqi~~hP~Ll~~~~~~----~~~~~e~---~~d~~~------------------------~~~~~~~~~~~-- 920 (1097)
|+.|+.|++||+||+.+++.... .+....+ ...+.+ ++.+......+
T Consensus 981 f~dfqmlsrIwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss~~~~~g~~ 1060 (1567)
T KOG1015|consen 981 FQDFQMLSRIWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSSGSGSDGDV 1060 (1567)
T ss_pred HHHHHHHHHHhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccccccccccccccccccCCch
Confidence 99999999999999999875431 1111111 000000 11122211111
Q ss_pred ----cCcCCccccccc----------------------cCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhhcc
Q 001337 921 ----EKPRNMNDFLQG----------------------KNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSN 974 (1097)
Q Consensus 921 ----~~~~~~~d~~~~----------------------~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~ 974 (1097)
.+.+....+..+ .......+..||.+++.+..+..+.+|+||.+|++||+.+.+
T Consensus 1061 ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mcee 1140 (1567)
T KOG1015|consen 1061 EVIKVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEE 1140 (1567)
T ss_pred hhhhhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHH
Confidence 111111111111 111122345799999999999999999999999999999999
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCC-----------CCcccccCCceeeccCCccchHHHHHHHhhcccccceee
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGK-----------QGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~-----------~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~ 1043 (1097)
.|+|+|||||+..+|++|+.+|....+.+. +|. |..|.+|++|||++...+|+++.++||++.|-+++
T Consensus 1141 IGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGk-W~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaR 1219 (1567)
T KOG1015|consen 1141 IGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGK-WLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRAR 1219 (1567)
T ss_pred hcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccc-eecCCceEEecCcccHHHHHHHHHHhcCcccceeE
Confidence 999999999999999999999998766554 555 99999999999999999999999999999999999
Q ss_pred EEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1044 CTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1044 VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
+|||||+|||.||||.+||||||||..|||+++.|+|+|||||||+|||||||
T Consensus 1220 l~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYR 1272 (1567)
T KOG1015|consen 1220 LFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYR 1272 (1567)
T ss_pred EEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehh
Confidence 99999999999999999999999999999999999999999999999999997
No 2
>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=4.3e-87 Score=775.04 Aligned_cols=447 Identities=36% Similarity=0.603 Sum_probs=390.5
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
..+.||..+...|+|||.+||+|||+.. .++.||||+||||||||+|+|+|++.+...+.. .+|+||||
T Consensus 194 ~~~~vPg~I~~~Lf~yQreGV~WL~~L~----------~q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~-~~paLIVC 262 (923)
T KOG0387|consen 194 GGFKVPGFIWSKLFPYQREGVQWLWELY----------CQRAGGILGDEMGLGKTIQIISFLAALHHSGKL-TKPALIVC 262 (923)
T ss_pred ccccccHHHHHHhhHHHHHHHHHHHHHH----------hccCCCeecccccCccchhHHHHHHHHhhcccc-cCceEEEc
Confidence 4589999999999999999999999865 467899999999999999999999998877544 38999999
Q ss_pred chhhhhhhHHhhcccccCCCcccEEEeecccchhHHHH-----------HHHHHHhcCcEEEEeeccccccccCcCCcch
Q 001337 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAE-----------LLAKWRAKGGVFLIGYTAFRNLSFGKHVKDR 702 (1097)
Q Consensus 634 P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~-----------~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~ 702 (1097)
|++++.||.+||.+|+|. ++|.++|+.....|.. +...-...++|+||||+.|+...
T Consensus 263 P~Tii~qW~~E~~~w~p~----~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~-------- 330 (923)
T KOG0387|consen 263 PATIIHQWMKEFQTWWPP----FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG-------- 330 (923)
T ss_pred cHHHHHHHHHHHHHhCcc----eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC--------
Confidence 999999999999999998 8999998876632211 11122345689999999998532
Q ss_pred hhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhh
Q 001337 703 NMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNR 782 (1097)
Q Consensus 703 ~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~ 782 (1097)
..++...|+++|+||+|+|||++|+++.+++++++.+||+||||||||++.|||+||+|+.|+.||+...|.+.
T Consensus 331 ------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~ 404 (923)
T KOG0387|consen 331 ------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQN 404 (923)
T ss_pred ------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhh
Confidence 12345589999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhcc-CCCCceEEEEEEecChHHHHHHHHhhhhcCCcc
Q 001337 783 FQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTN 861 (1097)
Q Consensus 783 f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~-~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~ 861 (1097)
|..||..|.+.+++...+....+++..|+.+++||++||+++++.. .||.|.+.|++|.||+.|+.+|+.+++......
T Consensus 405 f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v~~ 484 (923)
T KOG0387|consen 405 FEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEVNK 484 (923)
T ss_pred hhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHHHH
Confidence 9999999999999999999999999999999999999999999998 999999999999999999999999987432100
Q ss_pred cccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccch
Q 001337 862 DRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQK 941 (1097)
Q Consensus 862 ~~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~ 941 (1097)
--....+.+..+..||++||||.++....+..
T Consensus 485 ----i~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~-------------------------------------------- 516 (923)
T KOG0387|consen 485 ----ILNGKRNCLSGIDILRKICNHPDLLDRRDEDE-------------------------------------------- 516 (923)
T ss_pred ----HHcCCccceechHHHHhhcCCcccccCccccc--------------------------------------------
Confidence 00112356888999999999999875321000
Q ss_pred hhhhhhhhcccc-cccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccC
Q 001337 942 DWWNDLLHEHTY-KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDG 1020 (1097)
Q Consensus 942 ~~~~~ll~~~~~-~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridG 1020 (1097)
.....+ ..+..|+|+.+|..+|..+...|+|||+|||...||++|+.+|.. ..|+.|+++||
T Consensus 517 ------~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~-----------~~~ysylRmDG 579 (923)
T KOG0387|consen 517 ------KQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRR-----------AKGYSYLRMDG 579 (923)
T ss_pred ------ccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHh-----------cCCceEEEecC
Confidence 000011 234679999999999999999999999999999999999999984 26999999999
Q ss_pred CccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1021 RTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1021 sts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
.|+...|+.+|++||+ +..+.|||++|++||.|||||+||+||||||.|||+++.||..|||||||+|.|.|||
T Consensus 580 tT~~~~R~~lVd~Fne--~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYR 653 (923)
T KOG0387|consen 580 TTPAALRQKLVDRFNE--DESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYR 653 (923)
T ss_pred CCccchhhHHHHhhcC--CCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEE
Confidence 9999999999999998 4667889999999999999999999999999999999999999999999999999997
No 3
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=1.1e-83 Score=742.25 Aligned_cols=433 Identities=32% Similarity=0.470 Sum_probs=368.6
Q ss_pred cCcccc-ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh
Q 001337 558 IPSSIS-AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1097)
Q Consensus 558 vP~~l~-~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s 636 (1097)
.|..+. +.|||||++|+.||...+ ..+.+|||||+||||||+|+||++.++....+. .+|.||+||.|
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 577777 999999999999997654 467899999999999999999999988664432 47999999999
Q ss_pred hhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHh--cCcEEEEeeccccccccCcCCcchhhHHHHHHHhcc
Q 001337 637 VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA--KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1097)
Q Consensus 637 Lv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~--~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~ 714 (1097)
++.||.+||.+|+|. ++++.++|.. ..|....+.... ..+|+||||++.-+ ....+...
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-EERAALRRDIMLPGRFDVCITSYEIAIK--------------DKSFLKKF 288 (971)
T ss_pred hHHHHHHHHHHhCCC----cceEEEeCCH-HHHHHHHHHhhccCCCceEeehHHHHHh--------------hHHHHhcC
Confidence 999999999999998 8899998865 455555555433 56999999998532 22233445
Q ss_pred CCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccC
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 794 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~ 794 (1097)
.|.++||||||+|||.+|.+++.++.+.+.+|++|||||+|||+.|||+|++|+.|+.|++...|..||......+.
T Consensus 289 ~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~--- 365 (971)
T KOG0385|consen 289 NWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGD--- 365 (971)
T ss_pred CceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccC---
Confidence 99999999999999999999999999999999999999999999999999999999999999999999976422211
Q ss_pred CcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhh
Q 001337 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 874 (1097)
Q Consensus 795 s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l 874 (1097)
. .....|+..|+||++||.+.+|...||||.+.+++|.||..|++.|..++...-........ .....+.
T Consensus 366 -----~----e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n~~~~-~~k~kL~ 435 (971)
T KOG0385|consen 366 -----Q----ELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNGEGK-GEKTKLQ 435 (971)
T ss_pred -----H----HHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhccccc-chhhHHH
Confidence 1 13456999999999999999999999999999999999999999999988753222222111 1245788
Q ss_pred hhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhccccc
Q 001337 875 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 954 (1097)
Q Consensus 875 ~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 954 (1097)
..++.||++||||+|+...+. +.+- .....
T Consensus 436 NI~mQLRKccnHPYLF~g~eP-g~py-------------------------------------------------ttdeh 465 (971)
T KOG0385|consen 436 NIMMQLRKCCNHPYLFDGAEP-GPPY-------------------------------------------------TTDEH 465 (971)
T ss_pred HHHHHHHHhcCCccccCCCCC-CCCC-------------------------------------------------CcchH
Confidence 999999999999999864221 1100 00112
Q ss_pred ccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhh
Q 001337 955 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1034 (1097)
Q Consensus 955 ~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~F 1034 (1097)
.+..||||.+|..+|..+.+.|+|||||||++.+||+|+.|+.- .|+.|.||||+|+.++|..+|+.|
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 35679999999999999999999999999999999999999973 799999999999999999999999
Q ss_pred cccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1035 n~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|.+++ ...|||+||+|||.||||++|++||+||.+|||..+.||++|+|||||+|+|.|||
T Consensus 534 n~~~s-~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~R 594 (971)
T KOG0385|consen 534 NAPPS-EKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYR 594 (971)
T ss_pred CCCCc-ceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEE
Confidence 99754 46799999999999999999999999999999999999999999999999999997
No 4
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=4e-83 Score=729.56 Aligned_cols=548 Identities=40% Similarity=0.679 Sum_probs=446.9
Q ss_pred ceEEeeeecccccceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 542 GYIVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 542 ~~i~~~~~~~~~~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
++++|..+..+++.+.+-+.|...|+|||+-||+|||+++++++++.+. ..|+||||||.||||||+|+|+|+..+++.
T Consensus 231 rv~VN~~HPeeee~iflapqla~v~kPHQiGGiRFlYDN~iESl~rykk-SsGFGCILAHSMGLGKTlQVisF~diflRh 309 (1387)
T KOG1016|consen 231 RVLVNAGHPEEEEDIFLAPQLAHVLKPHQIGGIRFLYDNTIESLGRYKK-SSGFGCILAHSMGLGKTLQVISFSDIFLRH 309 (1387)
T ss_pred cEEEecCCCCCCcceeehhhhHhhcCccccCcEEEehhhHHHHHhhccc-cCCcceeeeeccccCceeEEeehhHHHhhc
Confidence 4567777778888999999999999999999999999999999999876 689999999999999999999999999887
Q ss_pred ccccceeeEeecchhhhhhhHHhhcccccCC-------CcccEEEeecccch--hHHHHHHHHHHhcCcEEEEeeccccc
Q 001337 622 VNLGLRTALIVTPVNVLHNWKQEFMKWRPSE-------LKPLRVFMLEDVSR--DRRAELLAKWRAKGGVFLIGYTAFRN 692 (1097)
Q Consensus 622 ~~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~-------~~~l~V~~~~~~~~--~~r~~~l~~~~~~~~VvIitY~~~r~ 692 (1097)
.. .+++|+|+|-+++.||..||.+|+|.- ...+.|+++.+..+ ..|...+..|...++|++++|++||.
T Consensus 310 T~--AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRL 387 (1387)
T KOG1016|consen 310 TK--AKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRL 387 (1387)
T ss_pred Cc--cceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHHhccCCEEEehHHHHHH
Confidence 54 579999999999999999999999862 23466777776554 67889999999999999999999997
Q ss_pred cccCcCC-----------------cc------hhhHHHH-HHHhccCCCEEEecccchhcccchhHHHHHhhhccceeee
Q 001337 693 LSFGKHV-----------------KD------RNMAREI-CHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIA 748 (1097)
Q Consensus 693 l~~~~~~-----------------~~------~~~~~~~-~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~Rll 748 (1097)
+...... ++ ..+...+ ..++..++|+|||||+|+|||-.+.++.|++.|++++||+
T Consensus 388 L~lk~~~~~grpkkt~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiV 467 (1387)
T KOG1016|consen 388 LILKTLPKKGRPKKTLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIV 467 (1387)
T ss_pred HHHhcccccCCccccccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEE
Confidence 6543110 00 1112222 3455679999999999999999999999999999999999
Q ss_pred eccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhcc
Q 001337 749 LTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK 828 (1097)
Q Consensus 749 LTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~ 828 (1097)
|||-|+|||+.|||||++|++|++||+..+|.++|.+||.+|++.++++.++++|..|+|+|+.+|.+||+||+...+..
T Consensus 468 LTGYPLQNNLlEYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk~ 547 (1387)
T KOG1016|consen 468 LTGYPLQNNLLEYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLKK 547 (1387)
T ss_pred EeccccccchHHHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEEEecChHHHHHHHHhhh-hcCCcccccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCcccc---
Q 001337 829 DLPPKTVFVITVKLSPLQRRLYKRFLD-LHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDA--- 904 (1097)
Q Consensus 829 ~LP~k~e~vv~v~Ls~~Q~~lY~~il~-~~~~~~~~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~--- 904 (1097)
.||.+.|+++.|.+|..||+||+.++. ..+... ......-+.+.+|....+|||||.++....++.....++.
T Consensus 548 ~LP~k~EyViLvr~s~iQR~LY~~Fm~d~~r~~~---~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl~v 624 (1387)
T KOG1016|consen 548 ILPEKKEYVILVRKSQIQRQLYRNFMLDAKREIA---ANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDLRV 624 (1387)
T ss_pred hcccccceEEEEeHHHHHHHHHHHHHHHHHHhhc---cccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhhH
Confidence 999999999999999999999999873 221111 1111122567888999999999998764433211100000
Q ss_pred ---------------ccCCCCCCCccceeeccCcCCccccccccC-------CCCccc-hhhhhhhhhcccccccccCcc
Q 001337 905 ---------------EDSSSDENMDYNVVIGEKPRNMNDFLQGKN-------DDGFFQ-KDWWNDLLHEHTYKELDYSGK 961 (1097)
Q Consensus 905 ---------------~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~-------~~~~~~-~~~~~~ll~~~~~~~~~~S~K 961 (1097)
.....+.........++......+...... +..... .+|..+++.......++.++|
T Consensus 625 ee~~~ag~~~~~~P~~~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~pk 704 (1387)
T KOG1016|consen 625 EEMKFAGLQQQQSPFNSIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENGPK 704 (1387)
T ss_pred HHHhhhcccccCCCCCCCCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCCCc
Confidence 000000000000000110000011111111 111222 278788888877778899999
Q ss_pred eehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCC------CCcccccCCceeeccCCccchHHHHHHHhhc
Q 001337 962 MVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGK------QGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1097)
Q Consensus 962 l~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~------~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn 1035 (1097)
+..+++++.+....|+|+|||||....|++|+.+|.++..+.. .+..|..+..|++++|.++..+|.++|++||
T Consensus 705 ~V~~~~~~des~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN 784 (1387)
T KOG1016|consen 705 IVISLEILDESTQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFN 784 (1387)
T ss_pred eEEEEeeeccccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhcc
Confidence 9999999999999999999999999999999999998765433 3356999999999999999999999999999
Q ss_pred ccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1036 ~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
++.+-. ..||+||++|..||||.+||++|+||..|||.++.||+.|+||+||+|||||||
T Consensus 785 ~e~~ls-Wlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYR 844 (1387)
T KOG1016|consen 785 SEPGLS-WLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYR 844 (1387)
T ss_pred CCCCce-eeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEe
Confidence 987665 589999999999999999999999999999999999999999999999999998
No 5
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=2.3e-77 Score=692.85 Aligned_cols=480 Identities=32% Similarity=0.409 Sum_probs=365.5
Q ss_pred cCcccc--ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 558 IPSSIS--AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 558 vP~~l~--~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
.|+.+. .+|+|||+.||.||.-.. ..+-.||||||||||||+|+|||++++++.+.. +|.|||||+
T Consensus 390 qp~~l~s~i~LkdYQlvGvNWL~Lly----------k~~l~gILADEMGLGKTiQvIaFlayLkq~g~~--gpHLVVvPs 457 (941)
T KOG0389|consen 390 QPKLLSSGIQLKDYQLVGVNWLLLLY----------KKKLNGILADEMGLGKTIQVIAFLAYLKQIGNP--GPHLVVVPS 457 (941)
T ss_pred CccccCCCCcccchhhhhHHHHHHHH----------HccccceehhhccCcchhHHHHHHHHHHHcCCC--CCcEEEecc
Confidence 455553 459999999999996432 466788999999999999999999999988774 699999999
Q ss_pred hhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHH---hcCcEEEEeeccccccccCcCCcchhhHHHHHHHh
Q 001337 636 NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR---AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 712 (1097)
Q Consensus 636 sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~---~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll 712 (1097)
|++.||.+||.+|+|. ++|..|+|.... |.++..... ..++|++|||..+.. ...++. .+-
T Consensus 458 STleNWlrEf~kwCPs----l~Ve~YyGSq~E-R~~lR~~i~~~~~~ydVllTTY~la~~-----~kdDRs------flk 521 (941)
T KOG0389|consen 458 STLENWLREFAKWCPS----LKVEPYYGSQDE-RRELRERIKKNKDDYDVLLTTYNLAAS-----SKDDRS------FLK 521 (941)
T ss_pred hhHHHHHHHHHHhCCc----eEEEeccCcHHH-HHHHHHHHhccCCCccEEEEEeecccC-----ChHHHH------HHH
Confidence 9999999999999999 999999997744 333333332 357999999998763 111222 233
Q ss_pred ccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCc-hhhhhhccCCCCCCc
Q 001337 713 QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-HEFRNRFQNPIENGQ 791 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~-~~F~~~f~~pi~~g~ 791 (1097)
...|++||.||||.+||..|.+++.+..+++.+|++|||||+|||+.||++|+.|+.|..|.+. .++...|...-..
T Consensus 522 ~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~-- 599 (941)
T KOG0389|consen 522 NQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTS-- 599 (941)
T ss_pred hccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCc--
Confidence 4499999999999999999999999999999999999999999999999999999999999765 5666666432111
Q ss_pred ccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHH
Q 001337 792 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 871 (1097)
Q Consensus 792 ~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~ 871 (1097)
+...+...+...|......+++||++||.+.+|.++||||..++.+|.|+..|+.+|..+++................
T Consensus 600 --d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~ 677 (941)
T KOG0389|consen 600 --DGDIENALLSQERISRAKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELK 677 (941)
T ss_pred --cchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccc
Confidence 223333344455777788999999999999999999999999999999999999999999876532211111111111
Q ss_pred hhhhhHHHHHHHhcCcceeeecccCCCCC----ccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhh
Q 001337 872 SFFAGYQALAQIWNHPGILQLTKDKGYPS----REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDL 947 (1097)
Q Consensus 872 ~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~----~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~l 947 (1097)
+ -..+++||++++||-|+.......... .-..+....+.+ ...+.+.+..+.||.-.. .+..+
T Consensus 678 ~-~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~il~e~ay~~~n---~qyIfEDm~~msDfelHq---------Lc~~f 744 (941)
T KOG0389|consen 678 S-GNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRILNEPAYKKAN---EQYIFEDMEVMSDFELHQ---------LCCQF 744 (941)
T ss_pred c-chHHHHHHHHhcChhHHHHhccHHHHHHHHHHHhCchhhhhcC---HHHHHHHHHhhhHHHHHH---------HHHhc
Confidence 1 457899999999998875321100000 000000000000 001111122222221100 00000
Q ss_pred hhcc----cccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCcc
Q 001337 948 LHEH----TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE 1023 (1097)
Q Consensus 948 l~~~----~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts 1023 (1097)
-.-. .-..+-.|+|+..|..+|.++...|+||||||||+.+||+|+.+|.. .|+.|.|+||+|.
T Consensus 745 ~~~~~f~L~d~~~mdSgK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~------------l~~~ylRLDGsTq 812 (941)
T KOG0389|consen 745 RHLSKFQLKDDLWMDSGKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDT------------LGYKYLRLDGSTQ 812 (941)
T ss_pred CCCcccccCCchhhhhhhHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHh------------cCceEEeecCCcc
Confidence 0000 01223459999999999999999999999999999999999999996 5899999999999
Q ss_pred chHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1024 SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1024 ~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
...|+.+|+.||.+ ..+.|||+||+|||.||||++||+||++|.++||..+.||.+|+||+||+|||+|||
T Consensus 813 V~~RQ~lId~Fn~d--~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~r 883 (941)
T KOG0389|consen 813 VNDRQDLIDEFNTD--KDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYR 883 (941)
T ss_pred chHHHHHHHhhccC--CceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEE
Confidence 99999999999994 567889999999999999999999999999999999999999999999999999997
No 6
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=6.8e-77 Score=709.79 Aligned_cols=466 Identities=31% Similarity=0.487 Sum_probs=386.9
Q ss_pred eecccccceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhc-----
Q 001337 548 VREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV----- 622 (1097)
Q Consensus 548 ~~~~~~~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~----- 622 (1097)
.....-+.+.+|..|+..||.||.+||.|+ +++ + ..+-.|||||+||||||+|+|++++.-.-..
T Consensus 958 ldpski~~y~Ip~pI~a~LRkYQqEGVnWL--aFL---n-----ky~LHGILcDDMGLGKTLQticilAsd~y~r~s~~~ 1027 (1549)
T KOG0392|consen 958 LDPSKIPEYKIPVPISAKLRKYQQEGVNWL--AFL---N-----KYKLHGILCDDMGLGKTLQTICILASDHYKRRSESS 1027 (1549)
T ss_pred cCcccCCccccccchhHHHHHHHHhccHHH--HHH---H-----HhcccceeeccccccHHHHHHHHHHHHHHhhcccch
Confidence 334455678999999999999999999998 333 2 3456899999999999999999987543221
Q ss_pred cccceeeEeecchhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcch
Q 001337 623 NLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDR 702 (1097)
Q Consensus 623 ~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~ 702 (1097)
.....|.|||||.+|..+|+.|+.+|+|. ++|..|-|....++ . ++.-..+++|+|++|+.+|+
T Consensus 1028 e~~~~PSLIVCPsTLtGHW~~E~~kf~pf----L~v~~yvg~p~~r~-~-lR~q~~~~~iiVtSYDv~Rn---------- 1091 (1549)
T KOG0392|consen 1028 EFNRLPSLIVCPSTLTGHWKSEVKKFFPF----LKVLQYVGPPAERR-E-LRDQYKNANIIVTSYDVVRN---------- 1091 (1549)
T ss_pred hhccCCeEEECCchhhhHHHHHHHHhcch----hhhhhhcCChHHHH-H-HHhhccccceEEeeHHHHHH----------
Confidence 12345899999999999999999999997 67777766554432 2 23334667999999999985
Q ss_pred hhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhh
Q 001337 703 NMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNR 782 (1097)
Q Consensus 703 ~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~ 782 (1097)
.+..+....|.++|+||+|-|||..+++++|+++|++.+|++|||||+|||+.|+|++|+||+|+++|+.+.|..+
T Consensus 1092 ----D~d~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsr 1167 (1549)
T KOG0392|consen 1092 ----DVDYLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSR 1167 (1549)
T ss_pred ----HHHHHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHH
Confidence 4455667799999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcc-
Q 001337 783 FQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTN- 861 (1097)
Q Consensus 783 f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~- 861 (1097)
|.+||.......++..+.+.+-.+...||+.+-||++||.+.+|.++||||..+.++|+|+|.|+++|+.+........
T Consensus 1168 f~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~ 1247 (1549)
T KOG0392|consen 1168 FGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVS 1247 (1549)
T ss_pred hcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccc
Confidence 9999999999999999999888899999999999999999999999999999999999999999999999987621110
Q ss_pred ----cccchHH-HHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCC
Q 001337 862 ----DRVSNEK-IRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDD 936 (1097)
Q Consensus 862 ----~~~~~~~-~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~ 936 (1097)
......+ ....+|++++.+|+.|+||.+...... +...
T Consensus 1248 ~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~h---p~la---------------------------------- 1290 (1549)
T KOG0392|consen 1248 SQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVH---PDLA---------------------------------- 1290 (1549)
T ss_pred cccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCc---chHH----------------------------------
Confidence 0001111 245799999999999999998743210 0000
Q ss_pred Cccchhhhhh-hhhcccccccccCcceehhhHHHhhhcc--------------CCCceeEEecCCCchhHHHHHHhcCCC
Q 001337 937 GFFQKDWWND-LLHEHTYKELDYSGKMVLLLDILTMCSN--------------MGDKSLVFSQSIPTLDLIEFYLSKLPR 1001 (1097)
Q Consensus 937 ~~~~~~~~~~-ll~~~~~~~~~~S~Kl~~L~eiL~~~~~--------------~geKVLIFSq~~~~ld~L~~~L~~l~~ 1001 (1097)
..... .........+.+|+|+.+|.++|.++-- .++|+|||+|+.+++|+++.-|-+-
T Consensus 1291 -----~i~~~l~~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~-- 1363 (1549)
T KOG0392|consen 1291 -----AIVSHLAHFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKK-- 1363 (1549)
T ss_pred -----HHHHHHHHhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhh--
Confidence 00000 0011223456789999999999988721 3579999999999999999988652
Q ss_pred CCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHH
Q 001337 1002 PGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIY 1081 (1097)
Q Consensus 1002 ~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiG 1081 (1097)
....+.|+|+||++++.+|++++.+||++ +.+.|+|++|.+||.|||||+|++|||++-+|||..+.||++
T Consensus 1364 -------~mpsVtymRLDGSVpp~~R~kiV~~FN~D--ptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMD 1434 (1549)
T KOG0392|consen 1364 -------YMPSVTYMRLDGSVPPGDRQKIVERFNED--PTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMD 1434 (1549)
T ss_pred -------hcCceeEEEecCCCCcHHHHHHHHHhcCC--CceeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHH
Confidence 24578899999999999999999999994 667889999999999999999999999999999999999999
Q ss_pred HHhhhcccccccccc
Q 001337 1082 RAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1082 Ra~RiGQkK~V~VYr 1096 (1097)
||||+||+|.|.|||
T Consensus 1435 RAHRIGQKrvVNVyR 1449 (1549)
T KOG0392|consen 1435 RAHRIGQKRVVNVYR 1449 (1549)
T ss_pred HHHhhcCceeeeeee
Confidence 999999999999997
No 7
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=2.9e-76 Score=709.07 Aligned_cols=431 Identities=32% Similarity=0.476 Sum_probs=359.5
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~ 643 (1097)
..||.||++|+.||+..+. .+.+||||||||||||+|+|+|+.+++..... .+|+|||||.+++.+|+.
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 5799999999999987764 57899999999999999999999999877654 589999999999999999
Q ss_pred hhcccccCCCcccEEEeecccchhHHHHHHHHHH--h-----cCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCC
Q 001337 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--A-----KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 716 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~--~-----~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~ 716 (1097)
||..|+ . +++++|+|....+.....-.|. . +.+++||||+++-. + ...+-...|
T Consensus 438 ef~~w~-~----mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~Lk--------D------k~~L~~i~w 498 (1373)
T KOG0384|consen 438 EFETWT-D----MNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLK--------D------KAELSKIPW 498 (1373)
T ss_pred HHHHHh-h----hceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhc--------c------HhhhccCCc
Confidence 999999 4 7888888765433221111221 1 46789999998632 2 223344599
Q ss_pred CEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCc
Q 001337 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 796 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~ 796 (1097)
.++++||||+|||..|.++..+..++..+|+++||||+||++.|||+|++||+|+.|.++.+|...|...-
T Consensus 499 ~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~~~--------- 569 (1373)
T KOG0384|consen 499 RYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDEET--------- 569 (1373)
T ss_pred ceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcchh---------
Confidence 99999999999999999999999999999999999999999999999999999999999999998883211
Q ss_pred ccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhhhh
Q 001337 797 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 876 (1097)
Q Consensus 797 ~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~~ 876 (1097)
....+.|+..|+||++||.+.+|.+.||+|.|.++.|+||+.|++.|+.++...-........ +...+++..
T Consensus 570 -------e~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~-g~~~~lLNi 641 (1373)
T KOG0384|consen 570 -------EEQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAK-GSTPSLLNI 641 (1373)
T ss_pred -------HHHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCC-CCCchHHHH
Confidence 123456999999999999999999999999999999999999999999999754222222111 122579999
Q ss_pred HHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhccccccc
Q 001337 877 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 956 (1097)
Q Consensus 877 l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~ 956 (1097)
++.|+++||||+|+....+.-.. ++.. . ...+.....+
T Consensus 642 mmELkKccNHpyLi~gaee~~~~----------------------------~~~~-----~---------~~d~~L~~lI 679 (1373)
T KOG0384|consen 642 MMELKKCCNHPYLIKGAEEKILG----------------------------DFRD-----K---------MRDEALQALI 679 (1373)
T ss_pred HHHHHHhcCCccccCcHHHHHHH----------------------------hhhh-----c---------chHHHHHHHH
Confidence 99999999999998643321100 0000 0 0012223345
Q ss_pred ccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
..||||.+|..+|..+.+.|+|||||||.+.+||+|++||.. .+++|-||||++..+-|+.+|++||.
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 679999999999999999999999999999999999999995 68999999999999999999999999
Q ss_pred cccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
+.+.. .|||+||+|||.||||+.|++|||||.+|||..+.||.+|+|||||+|.|.|||
T Consensus 748 p~Sdd-FvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYR 806 (1373)
T KOG0384|consen 748 PDSDD-FVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYR 806 (1373)
T ss_pred CCCCc-eEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEE
Confidence 86655 599999999999999999999999999999999999999999999999999997
No 8
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=1.3e-74 Score=722.23 Aligned_cols=433 Identities=31% Similarity=0.445 Sum_probs=358.9
Q ss_pred eecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 556 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 556 v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
...|..+.+.|+|||++|++||+... ..+.||||||+||||||+|+|+++.++..... ..+|+|||||+
T Consensus 160 ~~qP~~i~~~Lr~YQleGlnWLi~l~----------~~g~gGILADEMGLGKTlQaIalL~~L~~~~~-~~gp~LIVvP~ 228 (1033)
T PLN03142 160 LVQPSCIKGKMRDYQLAGLNWLIRLY----------ENGINGILADEMGLGKTLQTISLLGYLHEYRG-ITGPHMVVAPK 228 (1033)
T ss_pred ccCChHhccchHHHHHHHHHHHHHHH----------hcCCCEEEEeCCCccHHHHHHHHHHHHHHhcC-CCCCEEEEeCh
Confidence 35688899999999999999998653 35789999999999999999999988754322 24799999999
Q ss_pred hhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHH--HhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhc
Q 001337 636 NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQ 713 (1097)
Q Consensus 636 sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~--~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~ 713 (1097)
+++.||.+||.+|+|. +.++.+++....+. .....+ ....+|+||||+++.. ....+..
T Consensus 229 SlL~nW~~Ei~kw~p~----l~v~~~~G~~~eR~-~~~~~~~~~~~~dVvITSYe~l~~--------------e~~~L~k 289 (1033)
T PLN03142 229 STLGNWMNEIRRFCPV----LRAVKFHGNPEERA-HQREELLVAGKFDVCVTSFEMAIK--------------EKTALKR 289 (1033)
T ss_pred HHHHHHHHHHHHHCCC----CceEEEeCCHHHHH-HHHHHHhcccCCCcceecHHHHHH--------------HHHHhcc
Confidence 9999999999999987 77888877654332 222222 2357899999998753 2233445
Q ss_pred cCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCccc
Q 001337 714 DGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 793 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~ 793 (1097)
..|++|||||||+|||..|+++++++.+++.+||+|||||++|++.|||+|++||.|+.|++...|..+|..+.....
T Consensus 290 ~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~-- 367 (1033)
T PLN03142 290 FSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQ-- 367 (1033)
T ss_pred CCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccch--
Confidence 589999999999999999999999999999999999999999999999999999999999999999999976322111
Q ss_pred CCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhh
Q 001337 794 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1097)
Q Consensus 794 ~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~ 873 (1097)
......|+.+|++|++||++.++...|||+.+.+++|.||+.|+.+|+.++........ .......+
T Consensus 368 ----------~e~i~~L~~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~---~g~~~~~L 434 (1033)
T PLN03142 368 ----------QEVVQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVN---AGGERKRL 434 (1033)
T ss_pred ----------HHHHHHHHHHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHh---ccccHHHH
Confidence 12356789999999999999999999999999999999999999999998764211111 11123457
Q ss_pred hhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccc
Q 001337 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1097)
Q Consensus 874 l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1097)
+..++.||++|+||+++....... + +. ...
T Consensus 435 lnilmqLRk~cnHP~L~~~~ep~~-~-----------------------------~~--------------------~~e 464 (1033)
T PLN03142 435 LNIAMQLRKCCNHPYLFQGAEPGP-P-----------------------------YT--------------------TGE 464 (1033)
T ss_pred HHHHHHHHHHhCCHHhhhcccccC-c-----------------------------cc--------------------chh
Confidence 888999999999999864221000 0 00 000
Q ss_pred cccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHh
Q 001337 954 KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVER 1033 (1097)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~ 1033 (1097)
..+..|+|+.+|..+|..+...|+||||||||+.++++|+.+|.. .|+.|++|+|+++..+|+.+++.
T Consensus 465 ~lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~------------~g~~y~rIdGsts~~eRq~~Id~ 532 (1033)
T PLN03142 465 HLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMY------------RGYQYCRIDGNTGGEDRDASIDA 532 (1033)
T ss_pred HHhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHH------------cCCcEEEECCCCCHHHHHHHHHH
Confidence 123468999999999999999999999999999999999999985 68999999999999999999999
Q ss_pred hcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1034 Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
||++++. ..|||+||+|||+||||+.||+||+||++|||+.+.||+||+||+||+++|+|||
T Consensus 533 Fn~~~s~-~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyR 594 (1033)
T PLN03142 533 FNKPGSE-KFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFR 594 (1033)
T ss_pred hccccCC-ceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEE
Confidence 9986443 4579999999999999999999999999999999999999999999999999997
No 9
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-74 Score=653.03 Aligned_cols=483 Identities=30% Similarity=0.444 Sum_probs=379.2
Q ss_pred ccceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEee
Q 001337 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1097)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV 632 (1097)
.-.|+.|.-+.++|+.||+.|++||...+ ++|-+||||||||||||+|+|++++++.+..+. ++|+|||
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 34678999999999999999999997654 678999999999999999999999999887665 7999999
Q ss_pred cchhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHH--------HhcCcEEEEeeccccccccCcCCcchhh
Q 001337 633 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--------RAKGGVFLIGYTAFRNLSFGKHVKDRNM 704 (1097)
Q Consensus 633 ~P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~--------~~~~~VvIitY~~~r~l~~~~~~~~~~~ 704 (1097)
+|+++++||++||.+|+|. ++++-|-|...+ |..+.+-| .....|+||+|+++.. +.++
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 9999999999999999998 788888776543 33333333 2346899999998642 3333
Q ss_pred HHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhcc
Q 001337 705 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQ 784 (1097)
Q Consensus 705 ~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~ 784 (1097)
.+ ...|.++|+|||+.||...|.+++.+..++++.|++||||||||+..|||+|++|++|.+|.+..+|.+||.
T Consensus 691 ~q------kvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFS 764 (1185)
T KOG0388|consen 691 LQ------KVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFS 764 (1185)
T ss_pred HH------hhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHh
Confidence 33 348999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCccccc
Q 001337 785 NPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRV 864 (1097)
Q Consensus 785 ~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~ 864 (1097)
+.|+.....+.+..+ +....||.+|+|||+||.+.+|..+|..|++..|+|+||..|+.+|+.+-....
T Consensus 765 KdIEshAe~~~tlne-----qqL~RLH~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS------ 833 (1185)
T KOG0388|consen 765 KDIESHAEMNTTLNE-----QQLQRLHAILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSIS------ 833 (1185)
T ss_pred hhhHhHHHhcCCcCH-----HHHHHHHHHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhh------
Confidence 998876655544433 456779999999999999999999999999999999999999999998755321
Q ss_pred chHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCC-----CCCCccc-----------------------
Q 001337 865 SNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSS-----DENMDYN----------------------- 916 (1097)
Q Consensus 865 ~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~-----~~~~~~~----------------------- 916 (1097)
...++.+++.||++||||.||...+.......+-.+.-++ ...+++.
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 1223458899999999999987655433322211100000 0000000
Q ss_pred ------eeeccCcCCcc-----ccccccC-----------------CCCccchhhhhhhhh-------------------
Q 001337 917 ------VVIGEKPRNMN-----DFLQGKN-----------------DDGFFQKDWWNDLLH------------------- 949 (1097)
Q Consensus 917 ------~~~~~~~~~~~-----d~~~~~~-----------------~~~~~~~~~~~~ll~------------------- 949 (1097)
.+.++...... ++..+.. ............++.
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 00000000000 0000000 000000000000000
Q ss_pred -------c----------------------ccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCC
Q 001337 950 -------E----------------------HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLP 1000 (1097)
Q Consensus 950 -------~----------------------~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~ 1000 (1097)
+ .....+..|+|+..|.++|..+.+.|++||+|.|.+.|+++|+++|..
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 0 000124569999999999999999999999999999999999999985
Q ss_pred CCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHH
Q 001337 1001 RPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAI 1080 (1097)
Q Consensus 1001 ~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAi 1080 (1097)
.|+.|+|+||+.+..+|..++..|+. ..+.|||+||+|||.|||||+|++|||||.+|||+.+.||+
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 79999999999999999999999998 45788999999999999999999999999999999999999
Q ss_pred HHHhhhcccccccccc
Q 001337 1081 YRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1081 GRa~RiGQkK~V~VYr 1096 (1097)
+|+||.||+++|.|||
T Consensus 1134 DRAHRLGQTrdvtvyr 1149 (1185)
T KOG0388|consen 1134 DRAHRLGQTRDVTVYR 1149 (1185)
T ss_pred HHHHhccCccceeeee
Confidence 9999999999999997
No 10
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=2.7e-73 Score=680.33 Aligned_cols=464 Identities=33% Similarity=0.552 Sum_probs=369.0
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhcccc---ceeeE
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLG---LRTAL 630 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~---~k~~L 630 (1097)
..+.++|.+...|||||.+|+.|||++++..+.. ....|||+||+||+|||+|+|+||+++++..+.. ..+.|
T Consensus 227 v~v~~dP~l~~~LrPHQ~EG~~FL~knl~g~~~~----~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~l 302 (776)
T KOG0390|consen 227 VHVVIDPLLKKILRPHQREGFEFLYKNLAGLIRP----KNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPL 302 (776)
T ss_pred ceEEecccHhhhcCchHHHHHHHHHhhhhccccc----CCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccE
Confidence 3568899999999999999999999998764321 3678999999999999999999999999886541 25789
Q ss_pred eecchhhhhhhHHhhcccccC-CCcccEEEeecccchhHHHHHHHHHH------hcCcEEEEeeccccccccCcCCcchh
Q 001337 631 IVTPVNVLHNWKQEFMKWRPS-ELKPLRVFMLEDVSRDRRAELLAKWR------AKGGVFLIGYTAFRNLSFGKHVKDRN 703 (1097)
Q Consensus 631 IV~P~sLv~qW~~Ei~k~~p~-~~~~l~V~~~~~~~~~~r~~~l~~~~------~~~~VvIitY~~~r~l~~~~~~~~~~ 703 (1097)
||||++||.||++||.+|... .+.++.++ +.... .......|. -..-|.+++|++++
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 999999999999999999974 44444444 33332 111111111 12246667777654
Q ss_pred hHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhc
Q 001337 704 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRF 783 (1097)
Q Consensus 704 ~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f 783 (1097)
.....++...++++||||||++||..|.++++|..+++++|++|||||+||++.|||++++|++|+++|+...|.+.|
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 344566677999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccc
Q 001337 784 QNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 863 (1097)
Q Consensus 784 ~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~ 863 (1097)
..|+..+...+.+..+... ..|...|..++..|++||+...+.+.||++.+++|.|.+|+.|..+|..++... .
T Consensus 445 ~~~i~~~~~~~~s~e~~~~-~~rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~---- 518 (776)
T KOG0390|consen 445 EIPILRGRDADASEEDRER-EERLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-K---- 518 (776)
T ss_pred hcccccccCCCcchhhhhh-HHHHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH-H----
Confidence 9999998888877766665 566889999999999999999999999999999999999999999999998752 1
Q ss_pred cchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhh
Q 001337 864 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 943 (1097)
Q Consensus 864 ~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~ 943 (1097)
........+.....|.++|+||.|+......... .... ....
T Consensus 519 --~~~~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~e----------~~~~--------------------------~~~~ 560 (776)
T KOG0390|consen 519 --MRTLKGYALELITKLKKLCNHPSLLLLCEKTEKE----------KAFK--------------------------NPAL 560 (776)
T ss_pred --hhhhhcchhhHHHHHHHHhcCHHhhccccccccc----------cccc--------------------------ChHh
Confidence 1111123677788899999999997522111000 0000 0000
Q ss_pred hhhh-hhcccccccccCcceehhhHHHhhhccC-CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCC
Q 001337 944 WNDL-LHEHTYKELDYSGKMVLLLDILTMCSNM-GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR 1021 (1097)
Q Consensus 944 ~~~l-l~~~~~~~~~~S~Kl~~L~eiL~~~~~~-geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGs 1021 (1097)
..+. ...........|+|+..|+.++..+.+. -.++++.++++.++++++.++. |. |+.++++||+
T Consensus 561 ~~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~-----------~~-g~~~~rLdG~ 628 (776)
T KOG0390|consen 561 LLDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCR-----------WR-GYEVLRLDGK 628 (776)
T ss_pred hhcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHh-----------hc-CceEEEEcCC
Confidence 0000 0001112234588999999998555432 3566666777788888888887 55 9999999999
Q ss_pred ccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1022 TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1022 ts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|+..+|+.+++.||++++.. +|||+|++|||+||||++|+|||+|||+|||+++.|||+||||.||+|+|||||
T Consensus 629 ~~~~qRq~~vd~FN~p~~~~-~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYr 702 (776)
T KOG0390|consen 629 TSIKQRQKLVDTFNDPESPS-FVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYR 702 (776)
T ss_pred CchHHHHHHHHhccCCCCCc-eEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEE
Confidence 99999999999999987654 789999999999999999999999999999999999999999999999999997
No 11
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=4.1e-73 Score=667.83 Aligned_cols=492 Identities=30% Similarity=0.456 Sum_probs=377.7
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
..+.||..|.+.||.||+.|+.||...+ .+..+||||||||||||+|+|+|++++... ..+++|.||||
T Consensus 604 VktpvPsLLrGqLReYQkiGLdWLatLY----------eknlNGILADEmGLGKTIQtISllAhLACe-egnWGPHLIVV 672 (1958)
T KOG0391|consen 604 VKTPVPSLLRGQLREYQKIGLDWLATLY----------EKNLNGILADEMGLGKTIQTISLLAHLACE-EGNWGPHLIVV 672 (1958)
T ss_pred eccCchHHHHHHHHHHHHhhHHHHHHHH----------HhcccceehhhhcccchhHHHHHHHHHHhc-ccCCCCceEEe
Confidence 3567899999999999999999996543 467899999999999999999999887654 44589999999
Q ss_pred chhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhc--CcEEEEeeccccccccCcCCcchhhHHHHHHH
Q 001337 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAK--GGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1097)
Q Consensus 634 P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~--~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~l 711 (1097)
|++++.||.-||++|+|. ++|..|.|..+. |....+.|... +.|-|++|..+- +.+..+
T Consensus 673 pTsviLnWEMElKRwcPg----lKILTYyGs~kE-rkeKRqgW~kPnaFHVCItSYklv~--------------qd~~AF 733 (1958)
T KOG0391|consen 673 PTSVILNWEMELKRWCPG----LKILTYYGSHKE-RKEKRQGWAKPNAFHVCITSYKLVF--------------QDLTAF 733 (1958)
T ss_pred echhhhhhhHHHhhhCCc----ceEeeecCCHHH-HHHHhhcccCCCeeEEeehhhHHHH--------------hHHHHH
Confidence 999999999999999998 888888886654 44556677543 568899998753 344455
Q ss_pred hccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCc
Q 001337 712 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQ 791 (1097)
Q Consensus 712 l~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~ 791 (1097)
-..+|.++|+||||+|||..|++|+|+..+++.+|++|||||+||++.|||+|++||+|..|.+...|+.||.+|+..--
T Consensus 734 krkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmi 813 (1958)
T KOG0391|consen 734 KRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMI 813 (1958)
T ss_pred HhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhc
Confidence 55699999999999999999999999999999999999999999999999999999999999999999999999975422
Q ss_pred ccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHH
Q 001337 792 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 871 (1097)
Q Consensus 792 ~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~ 871 (1097)
... ......-...||+.|+||++||.+.+|.+.||.|.|++|+|.||..|+.||+.++........ ...+...
T Consensus 814 Egs-----qeyn~klV~RLHkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKet--LkSGhfm 886 (1958)
T KOG0391|consen 814 EGS-----QEYNHKLVIRLHKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKET--LKSGHFM 886 (1958)
T ss_pred ccc-----hhhchHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhhH--hhcCchh
Confidence 211 112234456799999999999999999999999999999999999999999999876432221 1223334
Q ss_pred hhhhhHHHHHHHhcCcceeeeccc--------CCCCCccc-----c----------ccCCCCCCCccc------------
Q 001337 872 SFFAGYQALAQIWNHPGILQLTKD--------KGYPSRED-----A----------EDSSSDENMDYN------------ 916 (1097)
Q Consensus 872 ~~l~~l~~Lrqi~~hP~Ll~~~~~--------~~~~~~e~-----~----------~d~~~~~~~~~~------------ 916 (1097)
+++..+++||++||||.||....- ..+..... . ..+.........
T Consensus 887 sVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sAs 966 (1958)
T KOG0391|consen 887 SVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSAS 966 (1958)
T ss_pred HHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhccc
Confidence 788999999999999999843211 00000000 0 000000000000
Q ss_pred -----eeeccC------------c-------------CC--------------------------------cc-------
Q 001337 917 -----VVIGEK------------P-------------RN--------------------------------MN------- 927 (1097)
Q Consensus 917 -----~~~~~~------------~-------------~~--------------------------------~~------- 927 (1097)
+..... . .. .+
T Consensus 967 pl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~h 1046 (1958)
T KOG0391|consen 967 PLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQH 1046 (1958)
T ss_pred ccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeeee
Confidence 000000 0 00 00
Q ss_pred ----------------------ccccccC------------------CC--Ccc---------------------c----
Q 001337 928 ----------------------DFLQGKN------------------DD--GFF---------------------Q---- 940 (1097)
Q Consensus 928 ----------------------d~~~~~~------------------~~--~~~---------------------~---- 940 (1097)
.+..... ++ .+. .
T Consensus 1047 tt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~k 1126 (1958)
T KOG0391|consen 1047 TTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGGK 1126 (1958)
T ss_pred ecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCccccccc
Confidence 0000000 00 000 0
Q ss_pred -----h----------------------------------hhh------------------hhhhhcccc----------
Q 001337 941 -----K----------------------------------DWW------------------NDLLHEHTY---------- 953 (1097)
Q Consensus 941 -----~----------------------------------~~~------------------~~ll~~~~~---------- 953 (1097)
+ .|- .++++-..+
T Consensus 1127 lee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~pp 1206 (1958)
T KOG0391|consen 1127 LEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAPP 1206 (1958)
T ss_pred hhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCCh
Confidence 0 000 000000000
Q ss_pred ----------------------------------------------c-ccccCcceehhhHHHhhhccCCCceeEEecCC
Q 001337 954 ----------------------------------------------K-ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSI 986 (1097)
Q Consensus 954 ----------------------------------------------~-~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~ 986 (1097)
. .-..+|||+.|.=+|+++...|++||||+|.+
T Consensus 1207 slra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQMt 1286 (1958)
T KOG0391|consen 1207 SLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQMT 1286 (1958)
T ss_pred hhcCCCCCcccchHHHHHHHHHHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHHH
Confidence 0 00127899999999999999999999999999
Q ss_pred CchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEE
Q 001337 987 PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVII 1066 (1097)
Q Consensus 987 ~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi 1066 (1097)
.|||+|+.+|.. .|+-|+||||.++.++|+.+.++||. +.++.+||+||+.||+||||++|++|||
T Consensus 1287 kmLDVLeqFLny------------HgylY~RLDg~t~vEqRQaLmerFNa--D~RIfcfILSTrSggvGiNLtgADTVvF 1352 (1958)
T KOG0391|consen 1287 KMLDVLEQFLNY------------HGYLYVRLDGNTSVEQRQALMERFNA--DRRIFCFILSTRSGGVGINLTGADTVVF 1352 (1958)
T ss_pred HHHHHHHHHHhh------------cceEEEEecCCccHHHHHHHHHHhcC--CCceEEEEEeccCCccccccccCceEEE
Confidence 999999999995 69999999999999999999999999 5889999999999999999999999999
Q ss_pred EcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1067 VDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1067 ~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
||.+|||+.+.||-+|+|||||+++|+|||
T Consensus 1353 YDsDwNPtMDaQAQDrChRIGqtRDVHIYR 1382 (1958)
T KOG0391|consen 1353 YDSDWNPTMDAQAQDRCHRIGQTRDVHIYR 1382 (1958)
T ss_pred ecCCCCchhhhHHHHHHHhhcCccceEEEE
Confidence 999999999999999999999999999998
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=4.4e-71 Score=653.56 Aligned_cols=453 Identities=32% Similarity=0.476 Sum_probs=383.4
Q ss_pred cccccceecCccc-cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhcccccee
Q 001337 550 EKGEEAVRIPSSI-SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRT 628 (1097)
Q Consensus 550 ~~~~~~v~vP~~l-~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~ 628 (1097)
...+.....|..+ .++|++||+.|++||... ++...+||||||||||||+|+|++|.++++.... .+|
T Consensus 378 ~I~E~v~~Qps~l~GG~Lk~YQl~GLqWmVSL----------yNNnLNGILADEMGLGKTIQtIsLitYLmE~K~~-~GP 446 (1157)
T KOG0386|consen 378 PIKENVAKQPSSLQGGELKEYQLHGLQWMVSL----------YNNNLNGILADEMGLGKTIQTISLITYLMEHKQM-QGP 446 (1157)
T ss_pred hhhhccccCcchhcCCCCchhhhhhhHHHhhc----------cCCCcccccchhcccchHHHHHHHHHHHHHHccc-CCC
Confidence 3344556677777 578999999999999653 4678899999999999999999999999988665 589
Q ss_pred eEeecchhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHH
Q 001337 629 ALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREI 708 (1097)
Q Consensus 629 ~LIV~P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~ 708 (1097)
.|||||.+++.||..||.+|.|+ +..+.|.|....++.-.-.....+++|++|||+.+-. ++.+
T Consensus 447 ~LvivPlstL~NW~~Ef~kWaPS----v~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyiik--------dk~l---- 510 (1157)
T KOG0386|consen 447 FLIIVPLSTLVNWSSEFPKWAPS----VQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYIIK--------DKAL---- 510 (1157)
T ss_pred eEEeccccccCCchhhccccccc----eeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhcC--------CHHH----
Confidence 99999999999999999999998 7888888866555443333344678999999987532 3222
Q ss_pred HHHhccCCCEEEecccchhcccchhHHHHHh-hhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCC
Q 001337 709 CHALQDGPDILVCDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPI 787 (1097)
Q Consensus 709 ~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~-~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi 787 (1097)
+-...|.++||||+|+|||..++++..+. ...+.+|++|||||+||++.|+|+||+|+-|.+|.+...|..||..|+
T Consensus 511 --LsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PF 588 (1157)
T KOG0386|consen 511 --LSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPF 588 (1157)
T ss_pred --HhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhh
Confidence 23349999999999999999999999998 669999999999999999999999999999999999999999999999
Q ss_pred CCCcc-cCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccch
Q 001337 788 ENGQH-TNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSN 866 (1097)
Q Consensus 788 ~~g~~-~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~ 866 (1097)
.+... ...+..+.-+ ..+.||+.|+||++||.+.+|...||.|+++++.|.||..|+.+|..+.+.-....+....
T Consensus 589 antGek~eLteEEtlL---IIrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~~~g 665 (1157)
T KOG0386|consen 589 ANTGEKVELTEEETLL---IIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDTAKG 665 (1157)
T ss_pred hhcCCcccccchHHHH---HHHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCchhc
Confidence 87653 3334444333 3456889999999999999999999999999999999999999999998765444343445
Q ss_pred HHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhh
Q 001337 867 EKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWND 946 (1097)
Q Consensus 867 ~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ 946 (1097)
.+..+.++...+.||++||||+++......-.+ .|.
T Consensus 666 ~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~------------------------------------------~~~-- 701 (1157)
T KOG0386|consen 666 KKGYKPLFNTIMQLRKLCNHPYLFANVENSYTL------------------------------------------HYD-- 701 (1157)
T ss_pred cccchhhhhHhHHHHHhcCCchhhhhhcccccc------------------------------------------ccC--
Confidence 566678999999999999999997433211100 000
Q ss_pred hhhcccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchH
Q 001337 947 LLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSE 1026 (1097)
Q Consensus 947 ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~e 1026 (1097)
....+..|||+.+|..+|.++.+.|++||.|+|.+..+++++.+|.- .++.|.|+||+|+.++
T Consensus 702 -----~~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~------------~~~kYlRLDG~TK~~e 764 (1157)
T KOG0386|consen 702 -----IKDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQI------------REYKYLRLDGQTKVEE 764 (1157)
T ss_pred -----hhHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhh------------hhhheeeecCCcchhh
Confidence 01234569999999999999999999999999999999999999983 7899999999999999
Q ss_pred HHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1027 RQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1027 R~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|..+++.||.++ ..+++||+||+|||.|+|||.|++||+||+.|||..+.||.+|+||+||+++|.|+|
T Consensus 765 Rg~ll~~FN~Pd-s~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~r 833 (1157)
T KOG0386|consen 765 RGDLLEIFNAPD-SPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLR 833 (1157)
T ss_pred HHHHHHHhcCCC-CceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeee
Confidence 999999999974 567899999999999999999999999999999999999999999999999999986
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=4.7e-67 Score=599.48 Aligned_cols=487 Identities=23% Similarity=0.366 Sum_probs=365.5
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhcc------ccce
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLR 627 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~------~~~k 627 (1097)
...+-|.++...|.|||+.|++||.... ...+.||||||+||||||+++|++|.+...... ....
T Consensus 314 ~lte~P~g~~v~LmpHQkaal~Wl~wRE---------~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~ 384 (901)
T KOG4439|consen 314 DLTETPDGLKVELMPHQKAALRWLLWRE---------SQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESAS 384 (901)
T ss_pred cccCCCCcceeecchhhhhhhhhhcccc---------cCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccC
Confidence 3457799999999999999999997643 367899999999999999999999987653221 1123
Q ss_pred eeEeecchhhhhhhHHhhcccccCCCcccEEEeecccch-hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHH
Q 001337 628 TALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAR 706 (1097)
Q Consensus 628 ~~LIV~P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~ 706 (1097)
++|||||.+|++||..|+.+-+.. ..+.||.|||..+ ..... ....++||||||..+.+......- ...
T Consensus 385 ~TLII~PaSli~qW~~Ev~~rl~~--n~LsV~~~HG~n~r~i~~~----~L~~YDvViTTY~lva~~~~~e~~----~~~ 454 (901)
T KOG4439|consen 385 KTLIICPASLIHQWEAEVARRLEQ--NALSVYLYHGPNKREISAK----ELRKYDVVITTYNLVANKPDDELE----EGK 454 (901)
T ss_pred CeEEeCcHHHHHHHHHHHHHHHhh--cceEEEEecCCccccCCHH----HHhhcceEEEeeeccccCCchhhh----ccc
Confidence 699999999999999999988765 4599999999873 32323 346789999999988763221111 111
Q ss_pred HHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCC
Q 001337 707 EICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNP 786 (1097)
Q Consensus 707 ~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~p 786 (1097)
....++...|.+||+||||+|||+.|+.+.|++.|.+..||+|||||+||++.|+|+|+.||+..+|++...|..++.++
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 22345566899999999999999999999999999999999999999999999999999999999999999999888655
Q ss_pred CCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhcc-----CCCCceEEEEEEecChHHHHHHHHhhhhcCCc-
Q 001337 787 IENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-----DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFT- 860 (1097)
Q Consensus 787 i~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~-----~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~- 860 (1097)
-..+. ..|.-+.+++++||++..+.. .||.+...++.++|+..+.+.|+-+.......
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----------------NRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLF 598 (901)
T ss_pred cccch----------------hhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHH
Confidence 33322 224455788999999988776 69999999999999999999997654321100
Q ss_pred -------------cc--------------------------ccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCc
Q 001337 861 -------------ND--------------------------RVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSR 901 (1097)
Q Consensus 861 -------------~~--------------------------~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~ 901 (1097)
.. ...+......++..+.+|||+|+||.++....+.....-
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 000111222468899999999999987764433111100
Q ss_pred cccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhh-ccCCCcee
Q 001337 902 EDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-SNMGDKSL 980 (1097)
Q Consensus 902 e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~-~~~geKVL 980 (1097)
...++++++ ..+.............+. ..+.. .-...++....+.....|.|+..+++++..+ ....+|+|
T Consensus 679 ~g~~~sde~-~~e~~~l~el~k~~~T~~---~~D~~----ed~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~v 750 (901)
T KOG4439|consen 679 NGGDDSDEE-QLEEDNLAELEKNDETDC---SDDNC----EDLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVV 750 (901)
T ss_pred cCcchhhhh-hhhhhHHHhhhhcccccc---ccccc----ccccccchhhhcccccchhHHHHHHHHHHHHhhcccceee
Confidence 111111111 111000000000000000 00000 0000112223356677899999999999988 56689999
Q ss_pred EEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecc
Q 001337 981 VFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHS 1060 (1097)
Q Consensus 981 IFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~ 1060 (1097)
|.|||+.+|+++...|.+ .|..|..++|.....+|+.+++.||.. ++..+|+|+|..|||+||||++
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 999999999999999996 689999999999999999999999986 4557899999999999999999
Q ss_pred cceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1061 ANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1061 An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|||+|++|.+|||+.+.||-+|+||+||+|+|+|||
T Consensus 818 aNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR 853 (901)
T KOG4439|consen 818 ANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHR 853 (901)
T ss_pred cceEEEEecccCHHHHHHHHHHHHHhcccCceEEEE
Confidence 999999999999999999999999999999999997
No 14
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=3.9e-65 Score=562.76 Aligned_cols=497 Identities=24% Similarity=0.345 Sum_probs=358.8
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
+..++|..+...|.|||++|+.|+..+.. +...|||||||||+|||+|+||+++.- ....|+||||
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 34678999999999999999999977654 245799999999999999999998773 2346899999
Q ss_pred chhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCc--CCcchh-hHHHHHH
Q 001337 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK--HVKDRN-MAREICH 710 (1097)
Q Consensus 634 P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~--~~~~~~-~~~~~~~ 710 (1097)
|.--+.||.+||.++... .++++.|+|.++......+ ..+++++|||..+.+..... ..+.++ ...+...
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 999999999999999874 4899999998876655444 56799999999876532211 001111 1112222
Q ss_pred HhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCc-----------hh-
Q 001337 711 ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-----------HE- 778 (1097)
Q Consensus 711 ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~-----------~~- 778 (1097)
+-+..|.+||+||||.||+..|.+++|+..|.+.+||+|||||+||.+.|+|+|+.||+..+|..+ ..
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 334599999999999999999999999999999999999999999999999999999987765321 01
Q ss_pred -------------------hhhhccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccC--CCCceEEE
Q 001337 779 -------------------FRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKD--LPPKTVFV 837 (1097)
Q Consensus 779 -------------------F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~--LP~k~e~v 837 (1097)
|......||........ ++......+..|+.+|+||++-.-..+ |||....+
T Consensus 392 tdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGp-------Gk~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~v 464 (791)
T KOG1002|consen 392 TDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGP-------GKEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTV 464 (791)
T ss_pred cccccCCcccchhhhhhhhhcccccccchhhcccCc-------hHHHHHHHHHHHHHHHHHHhhcccccccCCCccceee
Confidence 11112233333222111 111223467778999999998765543 89999888
Q ss_pred EEEecChHHHHHHHHhhhhcCCcccccchH----HHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccc------cC
Q 001337 838 ITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAE------DS 907 (1097)
Q Consensus 838 v~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~----~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~------d~ 907 (1097)
..--++.++..+|+.+..........+-.+ ..+.++|..+.++||+..||+|+........+.....+ .+
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 888899999999998875433222222222 23557899999999999999998664332222111100 00
Q ss_pred CCCCCCccc---------------------eee---ccCcCCcc---ccccccCCCCccchhhhhhhhhcccccccccCc
Q 001337 908 SSDENMDYN---------------------VVI---GEKPRNMN---DFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSG 960 (1097)
Q Consensus 908 ~~~~~~~~~---------------------~~~---~~~~~~~~---d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~ 960 (1097)
...+.+... .+. ....-+.. ..+....-.++... .++..........|.
T Consensus 545 ~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk~s----SIlnRinm~~~qsST 620 (791)
T KOG1002|consen 545 PAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFKAS----SILNRINMDDWQSST 620 (791)
T ss_pred hhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhhhH----HHhhhcchhhhcchh
Confidence 000000000 000 00000000 00000000111111 112223344567899
Q ss_pred ceehhhHHHhhhccCC--CceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 961 KMVLLLDILTMCSNMG--DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~g--eKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
|+++|.+-|..+.+++ -|.||||||+++||+|...|.+ .|+..+.+.|+|++..|...|+.|.++
T Consensus 621 KIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~k------------aGfscVkL~GsMs~~ardatik~F~nd- 687 (791)
T KOG1002|consen 621 KIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGK------------AGFSCVKLVGSMSPAARDATIKYFKND- 687 (791)
T ss_pred HHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhc------------cCceEEEeccCCChHHHHHHHHHhccC-
Confidence 9999999998776654 4999999999999999999985 799999999999999999999999994
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
..++|||+|.+|||+.|||+.|++|+++||||||+++.||.+|+|||||.+||.|.|
T Consensus 688 -~~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvr 744 (791)
T KOG1002|consen 688 -IDCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVR 744 (791)
T ss_pred -CCeEEEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEE
Confidence 667889999999999999999999999999999999999999999999999999865
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=6e-56 Score=569.74 Aligned_cols=457 Identities=34% Similarity=0.479 Sum_probs=362.2
Q ss_pred ccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh
Q 001337 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1097)
Q Consensus 560 ~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~ 639 (1097)
..+...|+|||.+|+.||.+.+. ..+.||||||+||||||+|+|+++.+.+.......+|+|||||.+++.
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 67778999999999999974221 467899999999999999999999886555444357999999999999
Q ss_pred hhHHhhcccccCCCcccE-EEeecccch--hHHHHHHHHHHhc-----CcEEEEeeccccccccCcCCcchhhHHHHHHH
Q 001337 640 NWKQEFMKWRPSELKPLR-VFMLEDVSR--DRRAELLAKWRAK-----GGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1097)
Q Consensus 640 qW~~Ei~k~~p~~~~~l~-V~~~~~~~~--~~r~~~l~~~~~~-----~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~l 711 (1097)
||.+|+.+|.|. ++ +..++|... ..+...+..+... .+++++||+.++... .....+
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 999999999998 55 777777653 2223333333332 789999999987411 122334
Q ss_pred hccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhh-hhhhccCC-CchhhhhhccCCCCC
Q 001337 712 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD-FVREGFLG-SSHEFRNRFQNPIEN 789 (1097)
Q Consensus 712 l~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~-fL~p~~lg-s~~~F~~~f~~pi~~ 789 (1097)
....|+++|+||||+|||..|..++++..+++.++++|||||++|++.|||++++ |+.|++++ +...|..+|..|+..
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 4559999999999999999999999999999999999999999999999999999 99999999 559999999999887
Q ss_pred CcccCCcccchhhcccchhHHHHHHhhHHhhhchhh--hccCCCCceEEEEEEecChHHHHHHHHhhhhc---CCccccc
Q 001337 790 GQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNV--VKKDLPPKTVFVITVKLSPLQRRLYKRFLDLH---GFTNDRV 864 (1097)
Q Consensus 790 g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~--v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~---~~~~~~~ 864 (1097)
...... ........+.|+..+++|++||.+.+ +..+||++.+.++.|.|++.|+.+|..+.... .......
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 665443 11122233448899999999999999 88899999999999999999999999988721 1111110
Q ss_pred chHH--------HHHhhhhhHHHHHHHhcCcceeeecc-cCCCCCccccccCCCCCCCccceeeccCcCCccccccccCC
Q 001337 865 SNEK--------IRKSFFAGYQALAQIWNHPGILQLTK-DKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKND 935 (1097)
Q Consensus 865 ~~~~--------~~~~~l~~l~~Lrqi~~hP~Ll~~~~-~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~ 935 (1097)
.... ....++..+..|+++|+||.++.... ........... .
T Consensus 625 ~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~~~~~~~~~-----------------------------~ 675 (866)
T COG0553 625 EKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEATFDRIVLLLR-----------------------------E 675 (866)
T ss_pred HhhccccccccchhhHHHHHHHHHHHhccCccccccccccccchhhhhhh-----------------------------c
Confidence 0010 14468899999999999999875331 10000000000 0
Q ss_pred CCccchhhhhhhhhcccccccccC-cceehhhHHH-hhhccCCC--ceeEEecCCCchhHHHHHHhcCCCCCCCCccccc
Q 001337 936 DGFFQKDWWNDLLHEHTYKELDYS-GKMVLLLDIL-TMCSNMGD--KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKK 1011 (1097)
Q Consensus 936 ~~~~~~~~~~~ll~~~~~~~~~~S-~Kl~~L~eiL-~~~~~~ge--KVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~ 1011 (1097)
. ..........+..| +|+..+.++| ......|+ |+|||+||+.++++|+.+|.. .
T Consensus 676 ~---------~~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~------------~ 734 (866)
T COG0553 676 D---------KDFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKA------------L 734 (866)
T ss_pred c---------cccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHh------------c
Confidence 0 00000011123446 8999999999 78888898 999999999999999999996 3
Q ss_pred CCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1012 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1012 Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
++.|++++|+++...|+.+++.|+++ ....|||+|++|||.||||+.|++||+||++|||+.+.||++|+||+||+++
T Consensus 735 ~~~~~~ldG~~~~~~r~~~i~~f~~~--~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~ 812 (866)
T COG0553 735 GIKYVRLDGSTPAKRRQELIDRFNAD--EEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRP 812 (866)
T ss_pred CCcEEEEeCCCChhhHHHHHHHhhcC--CCCceEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCcce
Confidence 58899999999999999999999996 4567899999999999999999999999999999999999999999999999
Q ss_pred ccccc
Q 001337 1092 QFLLT 1096 (1097)
Q Consensus 1092 V~VYr 1096 (1097)
|.|||
T Consensus 813 v~v~r 817 (866)
T COG0553 813 VKVYR 817 (866)
T ss_pred eEEEE
Confidence 99996
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=1.3e-51 Score=457.15 Aligned_cols=400 Identities=24% Similarity=0.311 Sum_probs=308.7
Q ss_pred cCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh
Q 001337 558 IPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV 637 (1097)
Q Consensus 558 vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL 637 (1097)
.|+.|...|.|||++||.|.++ .|+.+|||||||||||+|||+++.++... .|.|||||++|
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 3889999999999999999974 57889999999999999999998877543 59999999999
Q ss_pred hhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhcc-CC
Q 001337 638 LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GP 716 (1097)
Q Consensus 638 v~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~-~~ 716 (1097)
...|.+++.+|+|... + +++..+.+. .+......+.|.|++|+++.. +...+.. .|
T Consensus 253 rftWa~al~r~lps~~-p--i~vv~~~~D-----~~~~~~t~~~v~ivSye~ls~---------------l~~~l~~~~~ 309 (689)
T KOG1000|consen 253 RFTWAKALNRFLPSIH-P--IFVVDKSSD-----PLPDVCTSNTVAIVSYEQLSL---------------LHDILKKEKY 309 (689)
T ss_pred hHHHHHHHHHhccccc-c--eEEEecccC-----CccccccCCeEEEEEHHHHHH---------------HHHHHhcccc
Confidence 9999999999999743 3 333322211 011112335789999998753 2233333 59
Q ss_pred CEEEecccchhcccchhHHHHHhhh--ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccC
Q 001337 717 DILVCDEAHMIKNTRADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 794 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~S~~~kal~~l--~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~ 794 (1097)
.+||+||+|++|+..+++.+++..+ .+.+.|+|||||-...+.|+|.++..+++.+|....+|..+|++.-.-+...+
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 9999999999999999999999888 78999999999999999999999999999999999999999987544433332
Q ss_pred CcccchhhcccchhHHHHHHh-hHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhh
Q 001337 795 STSEDVKIMNQRSHILYEQLK-GFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1097)
Q Consensus 795 s~~~d~~~~~~r~~~L~~~L~-~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~ 873 (1097)
... -.+...|+-+|. ..|+||.+.++..+||||...+ .+..++.+-+.-+.++..... ....+...++-
T Consensus 390 ykg------~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKrr~V-v~~~~gr~da~~~~lv~~a~~---~t~~~~~e~~~ 459 (689)
T KOG1000|consen 390 YKG------CTNLEELAALLFKRLMIRRLKADVLKQLPPKRREV-VYVSGGRIDARMDDLVKAAAD---YTKVNSMERKH 459 (689)
T ss_pred cCC------CCCHHHHHHHHHHHHHHHHHHHHHHhhCCccceEE-EEEcCCccchHHHHHHHHhhh---cchhhhhhhhh
Confidence 211 234555666664 4688999999999999995444 444555555555544432211 00000000000
Q ss_pred hhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccc
Q 001337 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1097)
Q Consensus 874 l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1097)
...+...+
T Consensus 460 ~~l~l~y~------------------------------------------------------------------------ 467 (689)
T KOG1000|consen 460 ESLLLFYS------------------------------------------------------------------------ 467 (689)
T ss_pred HHHHHHHH------------------------------------------------------------------------
Confidence 00000000
Q ss_pred cccccCcceehhhHHHhh----hccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHH
Q 001337 954 KELDYSGKMVLLLDILTM----CSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQK 1029 (1097)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~----~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~ 1029 (1097)
...-.|+..+.+.|.. ....+.|+|||+.+..++|-|+.++.+ .++.++||||+|++.+|+.
T Consensus 468 --~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~------------r~vg~IRIDGst~s~~R~l 533 (689)
T KOG1000|consen 468 --LTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNK------------RKVGSIRIDGSTPSHRRTL 533 (689)
T ss_pred --HhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHH------------cCCCeEEecCCCCchhHHH
Confidence 0113477777776665 345678999999999999999999985 7899999999999999999
Q ss_pred HHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1030 LVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1030 ~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
+++.|+. +.+++|-++|..|+|+||+|++|+.|+|.+.+|||....||.+|+||+||+..|.||+
T Consensus 534 l~qsFQ~--seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~y 598 (689)
T KOG1000|consen 534 LCQSFQT--SEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQY 598 (689)
T ss_pred HHHHhcc--ccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEE
Confidence 9999999 5678889999999999999999999999999999999999999999999999999985
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=1.1e-49 Score=497.26 Aligned_cols=410 Identities=20% Similarity=0.248 Sum_probs=288.4
Q ss_pred ccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhh
Q 001337 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1097)
Q Consensus 562 l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW 641 (1097)
....|.|||+..+..+.. ....++|||||||||||++|++++..++..+. .+|+|||||.+|+.||
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 346799999998876542 24568899999999999999999988776543 4699999999999999
Q ss_pred HHhhcccccCCCcccEEEeecccchhHHH-HHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRA-ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 642 ~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~-~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
..|+.+|+.- .+.++.+....... .....| ...+++|+||+.++.- ......++...||+||
T Consensus 215 ~~El~~kF~l-----~~~i~~~~~~~~~~~~~~~pf-~~~~~vI~S~~~l~~~-----------~~~~~~l~~~~wdlvI 277 (956)
T PRK04914 215 LVEMLRRFNL-----RFSLFDEERYAEAQHDADNPF-ETEQLVICSLDFLRRN-----------KQRLEQALAAEWDLLV 277 (956)
T ss_pred HHHHHHHhCC-----CeEEEcCcchhhhcccccCcc-ccCcEEEEEHHHhhhC-----------HHHHHHHhhcCCCEEE
Confidence 9999877642 23333322111000 000112 3467999999987631 1122345566999999
Q ss_pred ecccchhccc---chhHHHHHhhh--ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccC--CC------
Q 001337 721 CDEAHMIKNT---RADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQN--PI------ 787 (1097)
Q Consensus 721 iDEAH~iKN~---~S~~~kal~~l--~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~--pi------ 787 (1097)
+||||+++|. .|+.++++..+ +++++++|||||++|++.|+|++++||+|+.|++...|...... |+
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 9999999964 46678888888 67899999999999999999999999999999999999875432 21
Q ss_pred -CCCcccCC-cc---------cchhh------------cccchhHHHHHH-----hhHHhhhchhhhccCCCCceEEEEE
Q 001337 788 -ENGQHTNS-TS---------EDVKI------------MNQRSHILYEQL-----KGFVQRMDMNVVKKDLPPKTVFVIT 839 (1097)
Q Consensus 788 -~~g~~~~s-~~---------~d~~~------------~~~r~~~L~~~L-----~~fvlRr~~~~v~~~LP~k~e~vv~ 839 (1097)
..+..... .. .+... ...+...+..++ ..++.|+++..+. .+|++....+.
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 00 00000 000111222222 1456678887775 58999999999
Q ss_pred EecChHHHHHHHHhhhhcCCcccccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceee
Q 001337 840 VKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVI 919 (1097)
Q Consensus 840 v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~ 919 (1097)
+++++.-+..+.... ...+++ +.+|.-+..
T Consensus 437 l~~~~~y~~~~~~~~----------------------~~~~~~-~l~pe~~~~--------------------------- 466 (956)
T PRK04914 437 LPLPEQYQTAIKVSL----------------------EARARD-MLYPEQIYQ--------------------------- 466 (956)
T ss_pred cCCCHHHHHHHHHhH----------------------HHHHHh-hcCHHHHHH---------------------------
Confidence 998764333332100 000111 111210000
Q ss_pred ccCcCCccccccccCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcC
Q 001337 920 GEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKL 999 (1097)
Q Consensus 920 ~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l 999 (1097)
.+. ....| ...++|+.+|.++|+... ++|+|||+++..+++.|...|..
T Consensus 467 --------~~~--------~~~~~------------~~~d~Ki~~L~~~L~~~~--~~KvLVF~~~~~t~~~L~~~L~~- 515 (956)
T PRK04914 467 --------EFE--------DNATW------------WNFDPRVEWLIDFLKSHR--SEKVLVICAKAATALQLEQALRE- 515 (956)
T ss_pred --------HHh--------hhhhc------------cccCHHHHHHHHHHHhcC--CCeEEEEeCcHHHHHHHHHHHhh-
Confidence 000 00001 124689999999998754 78999999999999999999964
Q ss_pred CCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHH
Q 001337 1000 PRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQA 1079 (1097)
Q Consensus 1000 ~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QA 1079 (1097)
..|+++..++|+++..+|.++++.|+++++ .++ +||+|.+||+|+||+.|++||+||+||||..++||
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 368999999999999999999999998432 233 47888999999999999999999999999999999
Q ss_pred HHHHhhhcccccccccc
Q 001337 1080 IYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1080 iGRa~RiGQkK~V~VYr 1096 (1097)
|||++|+||+++|.||.
T Consensus 584 IGR~~RiGQ~~~V~i~~ 600 (956)
T PRK04914 584 IGRLDRIGQKHDIQIHV 600 (956)
T ss_pred hcccccCCCCceEEEEE
Confidence 99999999999999884
No 18
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=7.8e-50 Score=475.32 Aligned_cols=390 Identities=31% Similarity=0.449 Sum_probs=304.4
Q ss_pred ecCcccc---ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 557 RIPSSIS---AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 557 ~vP~~l~---~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
..|..+. +.|.|||.+|++|+...+ ..+.-+|||||||||||+|+|+|+..++..... .+|.||++
T Consensus 284 ~qP~~l~~~~g~L~~~qleGln~L~~~w----------s~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~-~~P~Lv~a 352 (696)
T KOG0383|consen 284 DQPQFLTEPGGTLHPYQLEGLNWLRISW----------SPGVDAILADEMGLGKTVQSIVFLYSLPKEIHS-PGPPLVVA 352 (696)
T ss_pred cCCccccCCCccccccchhhhhhhhccc----------ccCCCcccchhhcCCceeeEEEEEeecccccCC-CCCceeec
Confidence 4555555 789999999999996433 467889999999999999999999888766543 36999999
Q ss_pred chhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhc--------------------CcEEEEeecccccc
Q 001337 634 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAK--------------------GGVFLIGYTAFRNL 693 (1097)
Q Consensus 634 P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~--------------------~~VvIitY~~~r~l 693 (1097)
|.+.+.||..|+..|+|. +.+..+.|....+.......+... ..+.+++|++..+
T Consensus 353 p~sT~~nwe~e~~~wap~----~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~- 427 (696)
T KOG0383|consen 353 PLSTIVNWEREFELWAPS----FYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEI- 427 (696)
T ss_pred cCccccCCCCchhccCCC----cccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhccc-
Confidence 999999999999999998 556666665443222211112111 2233333333211
Q ss_pred ccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccC
Q 001337 694 SFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFL 773 (1097)
Q Consensus 694 ~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~l 773 (1097)
...-+....|..+|+||+|+++|..|...+.+......++++|||||++|++.+++++|+|+.|+.|
T Consensus 428 -------------~~~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~ 494 (696)
T KOG0383|consen 428 -------------DQSILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRF 494 (696)
T ss_pred -------------CHHHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccc
Confidence 1122334489999999999999999999999999999999999999999999999999999999999
Q ss_pred CCchhhhhhccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHh
Q 001337 774 GSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRF 853 (1097)
Q Consensus 774 gs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~i 853 (1097)
.+...|.+.|..-... .....|+.++.++++||.+.++.+.+|+|++.++.+.|++.|++.|+.+
T Consensus 495 ~~~~~f~e~~~d~~~~---------------~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~ 559 (696)
T KOG0383|consen 495 NSLEWFLEEFHDISCE---------------EQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKI 559 (696)
T ss_pred cchhhhhhhcchhhHH---------------HHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHH
Confidence 9999998888643221 2345588899999999999999999999999999999999999999999
Q ss_pred hhhcCCcccccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCcccccccc
Q 001337 854 LDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGK 933 (1097)
Q Consensus 854 l~~~~~~~~~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~ 933 (1097)
+...-... ......-.++..++.|++.|+||+++.........
T Consensus 560 ~t~n~~~l---~~~~~~~s~~n~~mel~K~~~hpy~~~~~e~~~~~---------------------------------- 602 (696)
T KOG0383|consen 560 LTRNWQGL---LAGVHQYSLLNIVMELRKQCNHPYLSPLEEPLEEN---------------------------------- 602 (696)
T ss_pred HcCChHHH---hhcchhHHHHHHHHHHHHhhcCcccCccccccccc----------------------------------
Confidence 87532111 11222236788999999999999997541110000
Q ss_pred CCCCccchhhhhhhhhcccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCC
Q 001337 934 NDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGK 1013 (1097)
Q Consensus 934 ~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi 1013 (1097)
. .+ .....+..|+|+..|..+++++...|+||+||+|++.++|+++.++.. .+
T Consensus 603 ---~----~~-------~~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~------------~~- 655 (696)
T KOG0383|consen 603 ---G----EY-------LGSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTY------------EG- 655 (696)
T ss_pred ---h----HH-------HHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhc------------cC-
Confidence 0 00 001123568999999999999999999999999999999999999985 56
Q ss_pred ceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 1014 DWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 1014 ~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
.|.|+||..+...|+.++++||.++.. -.+||+||+|||+|
T Consensus 656 ~~~r~dG~~~~~~rq~ai~~~n~~~~~-~~cfllstra~g~g 696 (696)
T KOG0383|consen 656 KYERIDGPITGPERQAAIDRFNAPGSN-QFCFLLSTRAGGLG 696 (696)
T ss_pred cceeccCCccchhhhhhccccCCCCcc-ceEEEeecccccCC
Confidence 899999999999999999999987544 45899999999988
No 19
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=7.5e-48 Score=465.48 Aligned_cols=471 Identities=27% Similarity=0.318 Sum_probs=339.1
Q ss_pred eeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhcc-----ccceeeEeecchhhhhhhHHh
Q 001337 570 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN-----LGLRTALIVTPVNVLHNWKQE 644 (1097)
Q Consensus 570 Q~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~-----~~~k~~LIV~P~sLv~qW~~E 644 (1097)
|.....|+|..- .......|||+||+||+|||+++|+++........ ...+.+|||||.+++.||..|
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 455566665421 23356789999999999999999999977643332 346789999999999999999
Q ss_pred hcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEeccc
Q 001337 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1097)
Q Consensus 645 i~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEA 724 (1097)
+.+..+. ..+.+++++| +..- ..-...++||+|||.++.+ ..+....|-+||+|||
T Consensus 208 lek~~~~--~~l~v~v~~g--r~kd----~~el~~~dVVltTy~il~~----------------~~l~~i~w~Riildea 263 (674)
T KOG1001|consen 208 LEKVTEE--DKLSIYVYHG--RTKD----KSELNSYDVVLTTYDILKN----------------SPLVKIKWLRIVLDEA 263 (674)
T ss_pred HhccCCc--cceEEEEecc--cccc----cchhcCCceEEeeHHHhhc----------------ccccceeEEEEEeccc
Confidence 9665543 4578888887 1111 1112567899999999874 1233458999999999
Q ss_pred chhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccchhhcc
Q 001337 725 HMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMN 804 (1097)
Q Consensus 725 H~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~ 804 (1097)
|.++|.+++.++++..+.+.+||+|||||+||++.|+|+++.|+.-.++..+..|...+..|+..+.+ .
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 99999999999999999999999999999999999999999999999999999999999999887653 1
Q ss_pred cchhHHHHHHhhHHhhhchhhh-----ccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchH----HHHHhhhh
Q 001337 805 QRSHILYEQLKGFVQRMDMNVV-----KKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFA 875 (1097)
Q Consensus 805 ~r~~~L~~~L~~fvlRr~~~~v-----~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~----~~~~~~l~ 875 (1097)
+-...++-.|+.+++||++... ...|||+...++.+.++..++.+|..+.............. ..+..++.
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 2233467778999999988632 23699999999999999999999998876543332222222 23446788
Q ss_pred hHHHHHHHhcCcceeeecccCCC-CCcccc---c---cC--CCCCC----CccceeeccCcCCc----cccccccCCCCc
Q 001337 876 GYQALAQIWNHPGILQLTKDKGY-PSREDA---E---DS--SSDEN----MDYNVVIGEKPRNM----NDFLQGKNDDGF 938 (1097)
Q Consensus 876 ~l~~Lrqi~~hP~Ll~~~~~~~~-~~~e~~---~---d~--~~~~~----~~~~~~~~~~~~~~----~d~~~~~~~~~~ 938 (1097)
.+.+|||+|+||.++........ ...... . .. ..... .+............ ............
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 88999999999988653221110 000000 0 00 00000 00000000000000 000000000000
Q ss_pred -cchhh--hhhhhhccc-----ccccccCcceehhhHHHhhhccCCC-ceeEEecCCCchhHHHHHHhcCCCCCCCCccc
Q 001337 939 -FQKDW--WNDLLHEHT-----YKELDYSGKMVLLLDILTMCSNMGD-KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLW 1009 (1097)
Q Consensus 939 -~~~~~--~~~ll~~~~-----~~~~~~S~Kl~~L~eiL~~~~~~ge-KVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~ 1009 (1097)
..... ...++.... ......|.|+..+..+|........ |+||||||+.+++++...|..
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 00000 000111000 0012258899999999985544344 999999999999999998873
Q ss_pred ccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1010 KKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1010 ~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
.++.+.+++|.++...|.+.+..|+. ++.++|+|+|.+|||.||||+.|+||+++||||||+.+.|||+|+||+||+
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 78999999999999999999999996 566778999999999999999999999999999999999999999999999
Q ss_pred ccccccc
Q 001337 1090 QSQFLLT 1096 (1097)
Q Consensus 1090 K~V~VYr 1096 (1097)
|+|+|+|
T Consensus 639 k~v~v~r 645 (674)
T KOG1001|consen 639 KPVKVSR 645 (674)
T ss_pred ceeeeee
Confidence 9999986
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=8.2e-40 Score=368.19 Aligned_cols=296 Identities=30% Similarity=0.458 Sum_probs=219.5
Q ss_pred eeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccc-cceeeEeecchhhhhhhHHhhcc
Q 001337 569 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHNWKQEFMK 647 (1097)
Q Consensus 569 hQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~-~~k~~LIV~P~sLv~qW~~Ei~k 647 (1097)
||++||.||++....... ........||||||+||+|||+++|+++..+...... +.+++|||||.+++.||..||.+
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 1122567899999999999999999999876654332 23479999999999999999999
Q ss_pred cccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchh
Q 001337 648 WRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 727 (1097)
Q Consensus 648 ~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~i 727 (1097)
|++.. .++++.+.+... .......+...++++|+||+++.... ... ....+...+|++||+||||.+
T Consensus 80 ~~~~~--~~~v~~~~~~~~--~~~~~~~~~~~~~vvi~ty~~~~~~~------~~~---~~~~l~~~~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 80 WFDPD--SLRVIIYDGDSE--RRRLSKNQLPKYDVVITTYETLRKAR------KKK---DKEDLKQIKWDRVIVDEAHRL 146 (299)
T ss_dssp HSGT---TS-EEEESSSCH--HHHTTSSSCCCSSEEEEEHHHHH--T------STH---TTHHHHTSEEEEEEETTGGGG
T ss_pred ccccc--cccccccccccc--cccccccccccceeeecccccccccc------ccc---cccccccccceeEEEeccccc
Confidence 99531 257787777651 11222333466899999999987111 001 112233347999999999999
Q ss_pred cccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccchhhcccch
Q 001337 728 KNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRS 807 (1097)
Q Consensus 728 KN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~ 807 (1097)
||..+..++++..+++.++|+|||||++|++.|+|.+++||.|..++....|.+.|..+ .........
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 99999999999999999999999999999999999999999999999999999988654 112223456
Q ss_pred hHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccc--hHHHHHhhhhhHHHHHHHhc
Q 001337 808 HILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVS--NEKIRKSFFAGYQALAQIWN 885 (1097)
Q Consensus 808 ~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~--~~~~~~~~l~~l~~Lrqi~~ 885 (1097)
..|...+++++.|++..++...||+..+.++.++|++.|+.+|+.+............ .......++..+.+||++|+
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 6799999999999999999888999999999999999999999988775543333222 33455678999999999999
Q ss_pred Cccee
Q 001337 886 HPGIL 890 (1097)
Q Consensus 886 hP~Ll 890 (1097)
||.|+
T Consensus 295 hp~l~ 299 (299)
T PF00176_consen 295 HPYLV 299 (299)
T ss_dssp -THHC
T ss_pred CcccC
Confidence 99863
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=5.3e-35 Score=354.80 Aligned_cols=343 Identities=17% Similarity=0.278 Sum_probs=236.1
Q ss_pred ecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh
Q 001337 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 636 (1097)
Q Consensus 557 ~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s 636 (1097)
.+.-.....|||||.+++.+|+.+ ...++|||..+||+|||+++|+++... .+++|||||..
T Consensus 247 ~i~L~~~~~LRpYQ~eAl~~~~~~-----------gr~r~GIIvLPtGaGKTlvai~aa~~l-------~k~tLILvps~ 308 (732)
T TIGR00603 247 NIDLKPTTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKSLVGVTAACTV-------KKSCLVLCTSA 308 (732)
T ss_pred CcccccCCCcCHHHHHHHHHHHhc-----------CCCCCcEEEeCCCCChHHHHHHHHHHh-------CCCEEEEeCcH
Confidence 333334578999999999988632 223589999999999999999887664 25899999977
Q ss_pred -hhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccC
Q 001337 637 -VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDG 715 (1097)
Q Consensus 637 -Lv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~ 715 (1097)
++.||.+||.+|+.- .+..+..+.+..+.. +....+|+|+||+++.+.... .......+..+....
T Consensus 309 ~Lv~QW~~ef~~~~~l--~~~~I~~~tg~~k~~-------~~~~~~VvVtTYq~l~~~~~r----~~~~~~~l~~l~~~~ 375 (732)
T TIGR00603 309 VSVEQWKQQFKMWSTI--DDSQICRFTSDAKER-------FHGEAGVVVSTYSMVAHTGKR----SYESEKVMEWLTNRE 375 (732)
T ss_pred HHHHHHHHHHHHhcCC--CCceEEEEecCcccc-------cccCCcEEEEEHHHhhccccc----chhhhHHHHHhcccc
Confidence 589999999999742 224555555533221 123468999999998642111 111112222333458
Q ss_pred CCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhh-hhhccCCCchhhhhhccCCCCCCcccC
Q 001337 716 PDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDF-VREGFLGSSHEFRNRFQNPIENGQHTN 794 (1097)
Q Consensus 716 ~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~f-L~p~~lgs~~~F~~~f~~pi~~g~~~~ 794 (1097)
|++||+||||++.+ ....+++..+++.+||+|||||++++ +.+..+.+ +.|..+...
T Consensus 376 ~gLII~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye~~------------------ 433 (732)
T TIGR00603 376 WGLILLDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEAN------------------ 433 (732)
T ss_pred CCEEEEEccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeeecC------------------
Confidence 99999999999953 34555777789999999999999876 23333333 233222100
Q ss_pred CcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhh
Q 001337 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 874 (1097)
Q Consensus 795 s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l 874 (1097)
+..++ -...|.+.....++|+|++.....| +.... .. +..
T Consensus 434 ---------------~~eLi-----------~~G~LA~~~~~ev~v~~t~~~~~~y---l~~~~-------~~---k~~- 473 (732)
T TIGR00603 434 ---------------WMELQ-----------KKGFIANVQCAEVWCPMTPEFYREY---LRENS-------RK---RML- 473 (732)
T ss_pred ---------------HHHHH-----------hCCccccceEEEEEecCCHHHHHHH---HHhcc-------hh---hhH-
Confidence 00111 0124666677789999998654443 32110 00 000
Q ss_pred hhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhccccc
Q 001337 875 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 954 (1097)
Q Consensus 875 ~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 954 (1097)
| ..
T Consensus 474 -----l--~~---------------------------------------------------------------------- 476 (732)
T TIGR00603 474 -----L--YV---------------------------------------------------------------------- 476 (732)
T ss_pred -----H--hh----------------------------------------------------------------------
Confidence 0 00
Q ss_pred ccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhh
Q 001337 955 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1034 (1097)
Q Consensus 955 ~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~F 1034 (1097)
....|+.++..++..+...++|+|||++++..+..+...|. ...|+|+|+..+|.+++++|
T Consensus 477 --~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----------------~~~I~G~ts~~ER~~il~~F 537 (732)
T TIGR00603 477 --MNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----------------KPFIYGPTSQQERMQILQNF 537 (732)
T ss_pred --hChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----------------CceEECCCCHHHHHHHHHHH
Confidence 01357888888888776679999999999877777666553 23589999999999999999
Q ss_pred cccccceeeEEEeeeccccccceecccceEEEEcCCc-CCcccHHHHHHHhhhccccc
Q 001337 1035 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1035 n~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~W-NP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+. ++.+++ |+++++|++||||+.|++||++++++ ++..+.|++||+.|.+..+.
T Consensus 538 r~--~~~i~v-Lv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~ 592 (732)
T TIGR00603 538 QH--NPKVNT-IFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSD 592 (732)
T ss_pred Hh--CCCccE-EEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCc
Confidence 86 334554 55569999999999999999999986 99999999999999987654
No 22
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.96 E-value=1.4e-30 Score=316.83 Aligned_cols=277 Identities=18% Similarity=0.246 Sum_probs=197.5
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhc--------------cccceeeEeecchhhhhhhHHhhcccccCCCcccEEE
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSV--------------NLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVF 659 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~--------------~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~~~~l~V~ 659 (1097)
|..+++|||||+|||...+++....+... ....|+||||||.+++.||-.||.++++.. ++|+
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 34469999999999999888776543111 123579999999999999999999999874 5788
Q ss_pred eecccchhHHHHHHHHHHhcCcEEEEeeccccccccCc-CCcc-hhhH------HHHHHHhccCCCEEEecccchhcccc
Q 001337 660 MLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK-HVKD-RNMA------REICHALQDGPDILVCDEAHMIKNTR 731 (1097)
Q Consensus 660 ~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~-~~~~-~~~~------~~~~~ll~~~~dlVIiDEAH~iKN~~ 731 (1097)
.|.|..+.....- .-...+||++|||+.+++-.... ...+ +.+. .--.+++...|.+|++||||.+...+
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 8877654322111 12357899999999998754322 1111 1110 00123444589999999999999999
Q ss_pred hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccchhhcccchhHHH
Q 001337 732 ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILY 811 (1097)
Q Consensus 732 S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~ 811 (1097)
|+.++.+.+|.+.++|+.||||+|+ +.|++.+++||+-.+|+....|.+....++... .....+.
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 999999999999999999999987776554432 1222355
Q ss_pred HHHhhHHhhhchhhhcc--CCCCceEEEEEEecChHHHHHHHHhhh----hcC------------Ccc-cccchHHHHHh
Q 001337 812 EQLKGFVQRMDMNVVKK--DLPPKTVFVITVKLSPLQRRLYKRFLD----LHG------------FTN-DRVSNEKIRKS 872 (1097)
Q Consensus 812 ~~L~~fvlRr~~~~v~~--~LP~k~e~vv~v~Ls~~Q~~lY~~il~----~~~------------~~~-~~~~~~~~~~~ 872 (1097)
..++..+-|+.+..+.. .+||..+.+....+++.+..+|+..-. ..+ ... ...........
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 66777777877776655 489998888888888888777754211 000 000 01111223346
Q ss_pred hhhhHHHHHHHhcCccee
Q 001337 873 FFAGYQALAQIWNHPGIL 890 (1097)
Q Consensus 873 ~l~~l~~Lrqi~~hP~Ll 890 (1097)
+...+.+|||+|+||-..
T Consensus 674 i~~~l~rLRq~Cchplv~ 691 (1394)
T KOG0298|consen 674 ILKWLLRLRQACCHPLVG 691 (1394)
T ss_pred HHHHHHHHHHhhcccccc
Confidence 788899999999999653
No 23
>PRK13766 Hef nuclease; Provisional
Probab=99.95 E-value=3.2e-28 Score=309.06 Aligned_cols=437 Identities=16% Similarity=0.135 Sum_probs=249.7
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch-hhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~-sLv~qW~ 642 (1097)
.++|+||.+.+...++ .++|++.++|+|||++++.++...+.. ..+++|||||+ .|+.||.
T Consensus 14 ~~~r~yQ~~~~~~~l~---------------~n~lv~~ptG~GKT~~a~~~i~~~l~~---~~~~vLvl~Pt~~L~~Q~~ 75 (773)
T PRK13766 14 IEARLYQQLLAATALK---------------KNTLVVLPTGLGKTAIALLVIAERLHK---KGGKVLILAPTKPLVEQHA 75 (773)
T ss_pred CCccHHHHHHHHHHhc---------------CCeEEEcCCCccHHHHHHHHHHHHHHh---CCCeEEEEeCcHHHHHHHH
Confidence 3679999987665531 378999999999999998888776632 23699999997 6899999
Q ss_pred HhhcccccCCCcccEEEeecccch-hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEe
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIi 721 (1097)
.++.+++.. ....+..+.|... ..|.. .| ..++|+++|++.+.+..... .+....|++||+
T Consensus 76 ~~~~~~~~~--~~~~v~~~~g~~~~~~r~~---~~-~~~~iiv~T~~~l~~~l~~~------------~~~~~~~~liVv 137 (773)
T PRK13766 76 EFFRKFLNI--PEEKIVVFTGEVSPEKRAE---LW-EKAKVIVATPQVIENDLIAG------------RISLEDVSLLIF 137 (773)
T ss_pred HHHHHHhCC--CCceEEEEeCCCCHHHHHH---HH-hCCCEEEECHHHHHHHHHcC------------CCChhhCcEEEE
Confidence 999988643 1235555555432 22322 23 46789999998875421110 011237999999
Q ss_pred cccchhcccchhHHHHHhhh---ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCccc
Q 001337 722 DEAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 798 (1097)
Q Consensus 722 DEAH~iKN~~S~~~kal~~l---~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~ 798 (1097)
||||++.+..+..+.+-... +..++++|||||..+ ...+..++.-|....+..+..|...+...+... ....
T Consensus 138 DEaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~----~v~~ 212 (773)
T PRK13766 138 DEAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKV----KIEW 212 (773)
T ss_pred ECCccccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccc----eeEE
Confidence 99999987654433222222 345689999999765 445555555443322222222221111100000 0000
Q ss_pred chhhcccchhHHHHHHhhHHhhhchhhhcc-CCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhhhhH
Q 001337 799 DVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGY 877 (1097)
Q Consensus 799 d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~-~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~~l 877 (1097)
....+......++..|..++.++....... .+++....+....+...+..++..+.... ........+.+.+
T Consensus 213 ~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~-------~~~~~~~~~~~~~ 285 (773)
T PRK13766 213 VRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDD-------SEGYEAISILAEA 285 (773)
T ss_pred EEeCCcHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCc-------hHHHHHHHHHHHH
Confidence 000112233456666777766554432211 12222221222223333444433322110 0000011222222
Q ss_pred HHHHHHhcCc------ce---eeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhh
Q 001337 878 QALAQIWNHP------GI---LQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLL 948 (1097)
Q Consensus 878 ~~Lrqi~~hP------~L---l~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll 948 (1097)
..+++....- .+ +......... . +. ......+. ........+
T Consensus 286 ~~l~~~~~~l~~~~~~~~~~y~~~l~~~~~~-~-----~~--------------~~~~~~l~---------~~~~~~~~~ 336 (773)
T PRK13766 286 MKLRHAVELLETQGVEALRRYLERLREEARS-S-----GG--------------SKASKRLV---------EDPRFRKAV 336 (773)
T ss_pred HHHHHHHHHHHHhCHHHHHHHHHHHHhhccc-c-----CC--------------cHHHHHHH---------hCHHHHHHH
Confidence 2222211100 00 0000000000 0 00 00000000 000000000
Q ss_pred hcccccccccCcceehhhHHHhhhc--cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCC-----
Q 001337 949 HEHTYKELDYSGKMVLLLDILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR----- 1021 (1097)
Q Consensus 949 ~~~~~~~~~~S~Kl~~L~eiL~~~~--~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGs----- 1021 (1097)
. .........+|+..|.++|.+.. ..+.|+|||+++..+++.|..+|.. .|+.+..++|.
T Consensus 337 ~-~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~------------~~~~~~~~~g~~~~~~ 403 (773)
T PRK13766 337 R-KAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEK------------EGIKAVRFVGQASKDG 403 (773)
T ss_pred H-HHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHh------------CCCceEEEEccccccc
Confidence 0 00011234689999999998876 5678999999999999999999974 57778888886
Q ss_pred ---ccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccc
Q 001337 1022 ---TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFL 1094 (1097)
Q Consensus 1022 ---ts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~V 1094 (1097)
++..+|.+++++|+++ .++ +|++|.++++|+|++.+++||+|||+|||....|++||++|.|+.+-+++
T Consensus 404 ~~~~~~~~r~~~~~~F~~g---~~~-vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~~~~~v~~l 475 (773)
T PRK13766 404 DKGMSQKEQIEILDKFRAG---EFN-VLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQEEGRVVVL 475 (773)
T ss_pred cCCCCHHHHHHHHHHHHcC---CCC-EEEECChhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcCCCCEEEEE
Confidence 7788999999999973 344 47888999999999999999999999999999999999999888655443
No 24
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.92 E-value=7.9e-25 Score=259.30 Aligned_cols=347 Identities=16% Similarity=0.207 Sum_probs=241.2
Q ss_pred ccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hh
Q 001337 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VL 638 (1097)
Q Consensus 560 ~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv 638 (1097)
......|+|||.+++.-++.+.. . ...|++.-.+|.|||+.++.++..+. .++|||||.. |+
T Consensus 31 ~~~~~~lr~yQ~~al~a~~~~~~---------~-~~~gvivlpTGaGKT~va~~~~~~~~-------~~~Lvlv~~~~L~ 93 (442)
T COG1061 31 VAFEFELRPYQEEALDALVKNRR---------T-ERRGVIVLPTGAGKTVVAAEAIAELK-------RSTLVLVPTKELL 93 (442)
T ss_pred cccCCCCcHHHHHHHHHHHhhcc---------c-CCceEEEeCCCCCHHHHHHHHHHHhc-------CCEEEEECcHHHH
Confidence 45567799999999987765421 2 67889999999999999998887762 3499999966 78
Q ss_pred hhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCE
Q 001337 639 HNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 718 (1097)
Q Consensus 639 ~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dl 718 (1097)
.||.+.+.+++... -.+..+.+..... .. ..|.++||+++.... .+..+....|++
T Consensus 94 ~Qw~~~~~~~~~~~---~~~g~~~~~~~~~--------~~-~~i~vat~qtl~~~~------------~l~~~~~~~~~l 149 (442)
T COG1061 94 DQWAEALKKFLLLN---DEIGIYGGGEKEL--------EP-AKVTVATVQTLARRQ------------LLDEFLGNEFGL 149 (442)
T ss_pred HHHHHHHHHhcCCc---cccceecCceecc--------CC-CcEEEEEhHHHhhhh------------hhhhhcccccCE
Confidence 89998888887542 1233333322211 11 469999999976410 223344458999
Q ss_pred EEecccchhcccchhHHHHHhhhccce-eeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcc
Q 001337 719 LVCDEAHMIKNTRADTTQALKQVKCQR-RIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTS 797 (1097)
Q Consensus 719 VIiDEAH~iKN~~S~~~kal~~l~a~~-RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~ 797 (1097)
||+||+|++-.+.. .+.+..+...+ +++|||||...+......++.++.|-.+
T Consensus 150 iI~DE~Hh~~a~~~--~~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy------------------------ 203 (442)
T COG1061 150 IIFDEVHHLPAPSY--RRILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPIVY------------------------ 203 (442)
T ss_pred EEEEccccCCcHHH--HHHHHhhhcccceeeeccCceeecCCchhHHHHhcCCeEe------------------------
Confidence 99999999954432 33444556666 9999999986554444444444432211
Q ss_pred cchhhcccchhHHHHHHhhHHhhhchhh-hc-cCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhhh
Q 001337 798 EDVKIMNQRSHILYEQLKGFVQRMDMNV-VK-KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 875 (1097)
Q Consensus 798 ~d~~~~~~r~~~L~~~L~~fvlRr~~~~-v~-~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~ 875 (1097)
.....+ +. ..|.|.....+.+.++..+...|............. . ....
T Consensus 204 ----------------------~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~---~----~~~~ 254 (442)
T COG1061 204 ----------------------EVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRA---R----GTLR 254 (442)
T ss_pred ----------------------ecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhh---h----hhhh
Confidence 111111 11 358888999999999999988887655432100000 0 0000
Q ss_pred hHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccc
Q 001337 876 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 955 (1097)
Q Consensus 876 ~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 955 (1097)
..... ....
T Consensus 255 ~~~~~-----------------------------------------------------------------------~~~~ 263 (442)
T COG1061 255 AENEA-----------------------------------------------------------------------RRIA 263 (442)
T ss_pred HHHHH-----------------------------------------------------------------------HHHh
Confidence 00000 0001
Q ss_pred cccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhc
Q 001337 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn 1035 (1097)
.....|+..+..++.... .+.+++||+.+...+..|...+.. .|+ ...++|.++..+|.++++.|.
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 122356777777777666 789999999999999999999975 455 889999999999999999999
Q ss_pred ccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhh-hccccc
Q 001337 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWR-CMDKQS 1091 (1097)
Q Consensus 1036 ~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~R-iGQkK~ 1091 (1097)
... + ..|++++++.+|+|++.|+.+|++.|.=++....|++||+.| ..+++.
T Consensus 330 ~g~---~-~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~ 382 (442)
T COG1061 330 TGG---I-KVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKED 382 (442)
T ss_pred cCC---C-CEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCc
Confidence 843 3 358999999999999999999999999999999999999999 455554
No 25
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.92 E-value=9.7e-25 Score=263.21 Aligned_cols=333 Identities=14% Similarity=0.154 Sum_probs=214.3
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch-hhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~-sLv~qW~ 642 (1097)
..|+|||.+++.-++. +..+||..++|.|||+.+++++...... ...++|||||+ .|+.||.
T Consensus 113 ~~~r~~Q~~av~~~l~--------------~~~~il~apTGsGKT~i~~~l~~~~~~~---~~~~vLilvpt~eL~~Q~~ 175 (501)
T PHA02558 113 IEPHWYQYDAVYEGLK--------------NNRRLLNLPTSAGKSLIQYLLSRYYLEN---YEGKVLIIVPTTSLVTQMI 175 (501)
T ss_pred CCCCHHHHHHHHHHHh--------------cCceEEEeCCCCCHHHHHHHHHHHHHhc---CCCeEEEEECcHHHHHHHH
Confidence 5799999999875532 3457999999999999876655443332 12389999996 5899999
Q ss_pred HhhcccccCCCcccEE-EeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEe
Q 001337 643 QEFMKWRPSELKPLRV-FMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V-~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIi 721 (1097)
++|.+|.... ...+ ..+.|.... ..+.|+|+|++++.... ... ...+++||+
T Consensus 176 ~~l~~~~~~~--~~~~~~i~~g~~~~----------~~~~I~VaT~qsl~~~~--------------~~~-~~~~~~iIv 228 (501)
T PHA02558 176 DDFVDYRLFP--REAMHKIYSGTAKD----------TDAPIVVSTWQSAVKQP--------------KEW-FDQFGMVIV 228 (501)
T ss_pred HHHHHhcccc--ccceeEEecCcccC----------CCCCEEEeeHHHHhhch--------------hhh-ccccCEEEE
Confidence 9999876321 1222 223332211 34689999998864311 011 237899999
Q ss_pred cccchhcccchhHHHHHhhh-ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccch
Q 001337 722 DEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 800 (1097)
Q Consensus 722 DEAH~iKN~~S~~~kal~~l-~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~ 800 (1097)
||||++... .....+..+ +++++++|||||...... ...+..+..| +.... +
T Consensus 229 DEaH~~~~~--~~~~il~~~~~~~~~lGLTATp~~~~~~-~~~~~~~fG~----------------i~~~v----~---- 281 (501)
T PHA02558 229 DECHLFTGK--SLTSIITKLDNCKFKFGLTGSLRDGKAN-ILQYVGLFGD----------------IFKPV----T---- 281 (501)
T ss_pred Echhcccch--hHHHHHHhhhccceEEEEeccCCCcccc-HHHHHHhhCC----------------ceEEe----c----
Confidence 999999653 345566666 678899999999532211 1111111111 00000 0
Q ss_pred hhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhhhhHHHH
Q 001337 801 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQAL 880 (1097)
Q Consensus 801 ~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~~l~~L 880 (1097)
..+++. ...+.+.....+.+..++.....+. ... +-. .+
T Consensus 282 ---------~~~li~-----------~g~l~~~~~~~v~~~~~~~~~~~~~---------~~~---------~~~---~~ 320 (501)
T PHA02558 282 ---------TSQLME-----------EGQVTDLKINSIFLRYPDEDRVKLK---------GED---------YQE---EI 320 (501)
T ss_pred ---------HHHHHh-----------CCCcCCceEEEEeccCCHHHhhhhc---------ccc---------hHH---HH
Confidence 000000 0112222223333433332111000 000 000 00
Q ss_pred HHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccccccCc
Q 001337 881 AQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSG 960 (1097)
Q Consensus 881 rqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~ 960 (1097)
..+. ....
T Consensus 321 ~~l~------------------------------------------------------------------------~~~~ 328 (501)
T PHA02558 321 KYIT------------------------------------------------------------------------SHTK 328 (501)
T ss_pred HHHh------------------------------------------------------------------------ccHH
Confidence 0000 1123
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|..++.+++..+...+.++|||+..+.+++.|.+.|.. .|+++..++|+++.++|..+++.|++ +
T Consensus 329 Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~------------~g~~v~~i~G~~~~~eR~~i~~~~~~---~ 393 (501)
T PHA02558 329 RNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKK------------VYDKVYYVSGEVDTEDRNEMKKIAEG---G 393 (501)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHhC---C
Confidence 44556666666666788999999999999999999985 57899999999999999999999986 3
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc-cccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS-QFLL 1095 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~-V~VY 1095 (1097)
...|+|.|++..++|+|++.+++||+++|+-+.....|++||++|.|..|. +.||
T Consensus 394 ~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~ 449 (501)
T PHA02558 394 KGIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVW 449 (501)
T ss_pred CCeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEE
Confidence 445566677999999999999999999999999999999999999988774 6666
No 26
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.89 E-value=7.3e-23 Score=232.21 Aligned_cols=410 Identities=18% Similarity=0.184 Sum_probs=221.5
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhcccccCCCcccEEEeecccchhH-HHHH
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDR-RAEL 672 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~-r~~~ 672 (1097)
.+++++-++|||||+.|+.+++..++... +++|+++|+- |+.|-..-+.+++.- .+-.+..+.|..+.. |..
T Consensus 30 ~NtLvvlPTGLGKT~IA~~V~~~~l~~~~---~kvlfLAPTKPLV~Qh~~~~~~v~~i--p~~~i~~ltGev~p~~R~~- 103 (542)
T COG1111 30 KNTLVVLPTGLGKTFIAAMVIANRLRWFG---GKVLFLAPTKPLVLQHAEFCRKVTGI--PEDEIAALTGEVRPEEREE- 103 (542)
T ss_pred cCeEEEecCCccHHHHHHHHHHHHHHhcC---CeEEEecCCchHHHHHHHHHHHHhCC--ChhheeeecCCCChHHHHH-
Confidence 48899999999999999998887776532 3899999954 899998888887642 234566666654433 433
Q ss_pred HHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhh---ccceeeee
Q 001337 673 LAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQV---KCQRRIAL 749 (1097)
Q Consensus 673 l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l---~a~~RllL 749 (1097)
.| ....|++.|.+++.|-..... +-...+.++|+||||+.-+..+-++-+-.-+ +..+.++|
T Consensus 104 --~w-~~~kVfvaTPQvveNDl~~Gr------------id~~dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgL 168 (542)
T COG1111 104 --LW-AKKKVFVATPQVVENDLKAGR------------IDLDDVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGL 168 (542)
T ss_pred --HH-hhCCEEEeccHHHHhHHhcCc------------cChHHceEEEechhhhccCcchHHHHHHHHHHhccCceEEEE
Confidence 34 567899999999875221110 0112678999999999876655443332222 45578999
Q ss_pred ccCccccchhhhhhhhhhhhhccCCCchhh---hhhccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhh
Q 001337 750 TGSPLQNNLMEYYCMVDFVREGFLGSSHEF---RNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVV 826 (1097)
Q Consensus 750 TGTPiqNnl~El~~Ll~fL~p~~lgs~~~F---~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v 826 (1097)
|||| .++...+...++-|..+..--..+- ...|...++-....-.-+ ..+......|..++++....-...-+
T Consensus 169 TASP-Gs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp---~e~~~ir~~l~~~l~~~Lk~L~~~g~ 244 (542)
T COG1111 169 TASP-GSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLP---EEIKEIRDLLRDALKPRLKPLKELGV 244 (542)
T ss_pred ecCC-CCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCc---HHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence 9999 4455556555555443221100000 001111111000000000 01111112233333332221100000
Q ss_pred ccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHH-HHhhhhhHHHHHHHhc----Cc------ceeeeccc
Q 001337 827 KKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKI-RKSFFAGYQALAQIWN----HP------GILQLTKD 895 (1097)
Q Consensus 827 ~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~-~~~~l~~l~~Lrqi~~----hP------~Ll~~~~~ 895 (1097)
++. ..+. .++++........... ........ .-++++....+.++.. |- ++.. ..+
T Consensus 245 ---~~~------~~~~--~~kdl~~~~~~~~~~a-~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~-l~e 311 (542)
T COG1111 245 ---IES------SSPV--SKKDLLELRQIRLIMA-KNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEK-LEE 311 (542)
T ss_pred ---eec------cCcc--cHhHHHHHHHHHHHhc-cCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHH-HHH
Confidence 010 0111 1222222220100000 00011100 0122333333222211 00 0000 000
Q ss_pred CCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhhc--
Q 001337 896 KGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCS-- 973 (1097)
Q Consensus 896 ~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~-- 973 (1097)
.. .... ......+. .+..+... ...... .... --.-|||..+.++|++..
T Consensus 312 ~~-------~~~~--------------sk~a~~l~----~d~~~~~a-l~~~~~-~~~~-~v~HPKl~~l~eilke~~~k 363 (542)
T COG1111 312 EA-------TKGG--------------SKAAKSLL----ADPYFKRA-LRLLIR-ADES-GVEHPKLEKLREILKEQLEK 363 (542)
T ss_pred Hh-------cccc--------------hHHHHHHh----cChhhHHH-HHHHHH-hccc-cCCCccHHHHHHHHHHHHhc
Confidence 00 0000 00000000 00000000 000000 0111 123589999999999887
Q ss_pred cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCce-eeccC--------CccchHHHHHHHhhcccccceeeE
Q 001337 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDW-YRLDG--------RTESSERQKLVERFNEPLNKRVKC 1044 (1097)
Q Consensus 974 ~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~-~ridG--------sts~~eR~~~i~~Fn~~~n~~v~V 1044 (1097)
..+.+||||++|.++++.|..+|.+.+ +.. .++-| +|++.+..++|++|+. +.+.
T Consensus 364 ~~~~RvIVFT~yRdTae~i~~~L~~~~------------~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~---Ge~n- 427 (542)
T COG1111 364 NGDSRVIVFTEYRDTAEEIVNFLKKIG------------IKARVRFIGQASREGDKGMSQKEQKEIIDQFRK---GEYN- 427 (542)
T ss_pred CCCceEEEEehhHhHHHHHHHHHHhcC------------CcceeEEeeccccccccccCHHHHHHHHHHHhc---CCce-
Confidence 456799999999999999999999743 222 23333 5889999999999998 3444
Q ss_pred EEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhh
Q 001337 1045 TLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1045 lLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~Ri 1086 (1097)
.|++|.+|.+||+++..+.||+|||.-+|....||.||.+|.
T Consensus 428 VLVaTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR~ 469 (542)
T COG1111 428 VLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK 469 (542)
T ss_pred EEEEcccccccCCCCcccEEEEecCCcHHHHHHHhhCccccC
Confidence 388999999999999999999999999999999999999997
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=99.88 E-value=1.5e-22 Score=226.15 Aligned_cols=341 Identities=20% Similarity=0.333 Sum_probs=232.0
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
+.+.+.-.-.+.|||||...+..|..+ ...+.||+.-++|.|||+..++.+.+. .+.+||+|
T Consensus 291 pdl~idLKPst~iRpYQEksL~KMFGN-----------gRARSGiIVLPCGAGKtLVGvTAa~ti-------kK~clvLc 352 (776)
T KOG1123|consen 291 PDLDIDLKPSTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKTLVGVTAACTI-------KKSCLVLC 352 (776)
T ss_pred CCCCcCcCcccccCchHHHHHHHHhCC-----------CcccCceEEEecCCCCceeeeeeeeee-------cccEEEEe
Confidence 445555566788999999999999643 345788999999999999988877664 36899999
Q ss_pred chhh-hhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHh
Q 001337 634 PVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 712 (1097)
Q Consensus 634 P~sL-v~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll 712 (1097)
-.++ |.||+.+|..|..- .+-.+..+....++. +....+|+|+||.|+.... .++. -.+.+..++
T Consensus 353 ts~VSVeQWkqQfk~wsti--~d~~i~rFTsd~Ke~-------~~~~~gvvvsTYsMva~t~----kRS~-eaek~m~~l 418 (776)
T KOG1123|consen 353 TSAVSVEQWKQQFKQWSTI--QDDQICRFTSDAKER-------FPSGAGVVVTTYSMVAYTG----KRSH-EAEKIMDFL 418 (776)
T ss_pred cCccCHHHHHHHHHhhccc--CccceEEeecccccc-------CCCCCcEEEEeeehhhhcc----cccH-HHHHHHHHH
Confidence 9886 88999999999743 334455544333221 2346789999999986422 1122 223333344
Q ss_pred -ccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhh-hhccCCCchhhhhhccCCCCCC
Q 001337 713 -QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV-REGFLGSSHEFRNRFQNPIENG 790 (1097)
Q Consensus 713 -~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL-~p~~lgs~~~F~~~f~~pi~~g 790 (1097)
...|.++|+||.|.+ +.....+.+.-+++.-+++||||-+..+ |-..=++|| .|.++... |. .
T Consensus 419 ~~~EWGllllDEVHvv--PA~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYEAn-----Wm-d----- 483 (776)
T KOG1123|consen 419 RGREWGLLLLDEVHVV--PAKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEAN-----WM-D----- 483 (776)
T ss_pred hcCeeeeEEeehhccc--hHHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhhhcc-----HH-H-----
Confidence 459999999999988 3333334444558888999999998753 333334443 34433210 00 0
Q ss_pred cccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHH
Q 001337 791 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 870 (1097)
Q Consensus 791 ~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~ 870 (1097)
| .-...+..-....|+|+||+ ++|+.++.... +
T Consensus 484 -------------------L--------------~~kGhIA~VqCaEVWCpMt~---eFy~eYL~~~t-----------~ 516 (776)
T KOG1123|consen 484 -------------------L--------------QKKGHIAKVQCAEVWCPMTP---EFYREYLRENT-----------R 516 (776)
T ss_pred -------------------H--------------HhCCceeEEeeeeeecCCCH---HHHHHHHhhhh-----------h
Confidence 0 00112333455678999997 56776664310 0
Q ss_pred HhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhc
Q 001337 871 KSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHE 950 (1097)
Q Consensus 871 ~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~ 950 (1097)
+.+ |+.
T Consensus 517 kr~---------------lLy----------------------------------------------------------- 522 (776)
T KOG1123|consen 517 KRM---------------LLY----------------------------------------------------------- 522 (776)
T ss_pred hhh---------------eee-----------------------------------------------------------
Confidence 000 000
Q ss_pred ccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHH
Q 001337 951 HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1030 (1097)
Q Consensus 951 ~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~ 1030 (1097)
+-...|+++..=+|+-+..+|+|+||||..+-.|....-.|.+ ..|.|.|++.+|.++
T Consensus 523 -----vMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----------------pfIYG~Tsq~ERm~I 580 (776)
T KOG1123|consen 523 -----VMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----------------PFIYGPTSQNERMKI 580 (776)
T ss_pred -----ecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----------------ceEECCCchhHHHHH
Confidence 0113577777778888888999999999987665554444432 257899999999999
Q ss_pred HHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcC-CcccHHHHHHHhhhc
Q 001337 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWN-PTYDLQAIYRAWRCM 1087 (1097)
Q Consensus 1031 i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WN-P~~~~QAiGRa~RiG 1087 (1097)
++.|+. |+.+..+.+ +++|...|+|+.||.+|-...+.- -..+.|+.||+.|--
T Consensus 581 LqnFq~--n~~vNTIFl-SKVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAK 635 (776)
T KOG1123|consen 581 LQNFQT--NPKVNTIFL-SKVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAK 635 (776)
T ss_pred HHhccc--CCccceEEE-eeccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHh
Confidence 999999 455654444 579999999999999999998864 466899999999953
No 28
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.85 E-value=1.2e-20 Score=225.58 Aligned_cols=445 Identities=15% Similarity=0.151 Sum_probs=242.0
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~ 642 (1097)
..||+||.+-++-.+ +.+.|+|-+||+|||+.|+.++..+++.... +++++.+|+. |+.|-.
T Consensus 61 ~~lR~YQ~eivq~AL---------------gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~--~KiVF~aP~~pLv~QQ~ 123 (746)
T KOG0354|consen 61 LELRNYQEELVQPAL---------------GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK--GKVVFLAPTRPLVNQQI 123 (746)
T ss_pred ccccHHHHHHhHHhh---------------cCCeEEEeecCCCccchHHHHHHHHHhcCCc--ceEEEeeCCchHHHHHH
Confidence 468999998776542 6799999999999999999999888887554 6999999976 777777
Q ss_pred HhhcccccCCCcccEEEeecc--cchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 643 QEFMKWRPSELKPLRVFMLED--VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~--~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
..+..++-+ ..+....+ ..+..|.. -| ...+|+++|.+.+.+......... ...|.++|
T Consensus 124 a~~~~~~~~----~~~T~~l~~~~~~~~r~~---i~-~s~~vff~TpQil~ndL~~~~~~~-----------ls~fs~iv 184 (746)
T KOG0354|consen 124 ACFSIYLIP----YSVTGQLGDTVPRSNRGE---IV-ASKRVFFRTPQILENDLKSGLHDE-----------LSDFSLIV 184 (746)
T ss_pred HHHhhccCc----ccceeeccCccCCCchhh---hh-cccceEEeChHhhhhhcccccccc-----------cceEEEEE
Confidence 888777633 23333322 23334432 22 567899999999876321111100 12588999
Q ss_pred ecccchhcccc--hhHHHHHhhh--ccceeeeeccCccccchhhhhhhhhhhhhccCCCch--hhhhhccCCCCCCcccC
Q 001337 721 CDEAHMIKNTR--ADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH--EFRNRFQNPIENGQHTN 794 (1097)
Q Consensus 721 iDEAH~iKN~~--S~~~kal~~l--~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~--~F~~~f~~pi~~g~~~~ 794 (1097)
+||||+-.... +.+.+.+..+ ...+.|+|||||= ++.......+.=|... +.-.. .-...| ...+...
T Consensus 185 ~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~as-ldvr~~ssi~~~y----~~lr~~~ 258 (746)
T KOG0354|consen 185 FDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLCAS-LDVRTESSIKSNY----EELREHV 258 (746)
T ss_pred EcccccccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhhee-cccchhhhhhhhH----HHHhccC
Confidence 99999875433 2333333333 3347899999996 5666555555444433 21110 001111 1000011
Q ss_pred Ccccchh-hcccchhHHHHHHhhHHhhhchhhhccCCCCceEEE--EEEecChHHHHHHHHhhhhcCCcccccchHHHHH
Q 001337 795 STSEDVK-IMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFV--ITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 871 (1097)
Q Consensus 795 s~~~d~~-~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~v--v~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~ 871 (1097)
..+.+.. ........|...+++++.+..... |++..... ........+.+.+..... ...
T Consensus 259 ~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~~----l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~q~--- 321 (746)
T KOG0354|consen 259 QIPVDLSLCERDIEDPFGMIIEPLLQQLQEEG----LIEISDKSTSYEQWVVQAEKAAAPNGPE----------NQR--- 321 (746)
T ss_pred cccCcHHHhhhhhhhhHHHHHHHHHHHHHhcC----ccccccccccccchhhhhhhhhccCCCc----------cch---
Confidence 1111111 112233446666777766544222 22211111 000011111111111110 000
Q ss_pred hhhhhHHHHH----HHhcCc-ceeeecc-cCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhh
Q 001337 872 SFFAGYQALA----QIWNHP-GILQLTK-DKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWN 945 (1097)
Q Consensus 872 ~~l~~l~~Lr----qi~~hP-~Ll~~~~-~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~ 945 (1097)
..|.++..+. .+.+|- ..+.... ...... +.... .+.... .+......+.
T Consensus 322 ~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~-e~~~~-------k~~~~~----------------~e~~~~~~~~ 377 (746)
T KOG0354|consen 322 NCFYALHLRKYNLALLISDGIRFVDALDYLEDFYE-EVALK-------KYLKLE----------------LEARLIRNFT 377 (746)
T ss_pred hhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhcc-ccchh-------HHHHHH----------------hcchhhHHHH
Confidence 0011111110 111110 0000000 000000 00000 000000 0000000001
Q ss_pred hhhh---cccccccccCcceehhhHHHhhhccC--CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccC
Q 001337 946 DLLH---EHTYKELDYSGKMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDG 1020 (1097)
Q Consensus 946 ~ll~---~~~~~~~~~S~Kl~~L~eiL~~~~~~--geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridG 1020 (1097)
.... ..........+|++.|.++|.+.... ..++|||+.+...+..|..+|......+..+. |.-|..-..-.-
T Consensus 378 ~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~-~fiGq~~s~~~~ 456 (746)
T KOG0354|consen 378 ENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAE-IFIGQGKSTQST 456 (746)
T ss_pred HHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccc-eeeecccccccc
Confidence 1111 01111123578999999999877553 46999999999999999999985332221111 111111111113
Q ss_pred CccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccccC
Q 001337 1021 RTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLTG 1097 (1097)
Q Consensus 1021 sts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr~ 1097 (1097)
+|++.+.++.++.|++ |.++ +|++|.+|.+||+...+|-||-||..-||....||+|| +|--+-+-|.+++|
T Consensus 457 gmtqk~Q~evl~~Fr~---G~~N-vLVATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR-gRa~ns~~vll~t~ 528 (746)
T KOG0354|consen 457 GMTQKEQKEVLDKFRD---GEIN-VLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GRARNSKCVLLTTG 528 (746)
T ss_pred ccCHHHHHHHHHHHhC---CCcc-EEEEecchhccCCcccccEEEEecCCccHHHHHHHhcc-ccccCCeEEEEEcc
Confidence 5788899999999998 5555 48888899999999999999999999999999999999 89988888888764
No 29
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.83 E-value=6e-20 Score=220.37 Aligned_cols=106 Identities=19% Similarity=0.129 Sum_probs=95.2
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.++|||+......+.+...|.. .|+.+..++|+++.++|..+++.|.+ +.++ +|++|.+.|.
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 356779999999999999999985 58889999999999999999999996 4454 4788899999
Q ss_pred cceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|||++..+.||++++|.++....|++||++|.|+...+++|.
T Consensus 289 GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~~ 330 (470)
T TIGR00614 289 GINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLFY 330 (470)
T ss_pred cCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEEe
Confidence 999999999999999999999999999999999987766653
No 30
>PTZ00110 helicase; Provisional
Probab=99.83 E-value=2.6e-20 Score=226.53 Aligned_cols=119 Identities=22% Similarity=0.229 Sum_probs=103.8
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|...|.++|..+...+.++|||++....++.|...|.. .|+....++|+++..+|..+++.|++ +
T Consensus 362 k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~------------~g~~~~~ihg~~~~~eR~~il~~F~~---G 426 (545)
T PTZ00110 362 KRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRL------------DGWPALCIHGDKKQEERTWVLNEFKT---G 426 (545)
T ss_pred HHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHH------------cCCcEEEEECCCcHHHHHHHHHHHhc---C
Confidence 55566677776665678999999999999999999984 57888999999999999999999997 3
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
.++ +|++|.+++.|||++.+++||+||+++++....|++||+.|.|.+-.++.+
T Consensus 427 ~~~-ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~ai~~ 480 (545)
T PTZ00110 427 KSP-IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTF 480 (545)
T ss_pred CCc-EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCceEEEE
Confidence 444 589999999999999999999999999999999999999999987665443
No 31
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.82 E-value=3.3e-20 Score=224.80 Aligned_cols=117 Identities=23% Similarity=0.278 Sum_probs=98.9
Q ss_pred hhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceee
Q 001337 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1097)
Q Consensus 964 ~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~ 1043 (1097)
.|.++|........++|||+.....++.+...|.. ..|+.+..++|+++..+|..+++.|.+ +.++
T Consensus 355 ~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~-----------~~g~~~~~~Hg~~~~~eR~~il~~Fr~---G~~~ 420 (518)
T PLN00206 355 KLFDILKSKQHFKPPAVVFVSSRLGADLLANAITV-----------VTGLKALSIHGEKSMKERREVMKSFLV---GEVP 420 (518)
T ss_pred HHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhh-----------ccCcceEEeeCCCCHHHHHHHHHHHHC---CCCC
Confidence 45555554433356899999999999999999974 257889999999999999999999997 4444
Q ss_pred EEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1044 CTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1044 VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
+|++|.+++.|||++.+++||+||+|.++..+.|++||++|.|+.-.++++
T Consensus 421 -ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~G~ai~f 471 (518)
T PLN00206 421 -VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVF 471 (518)
T ss_pred -EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCCeEEEEE
Confidence 589999999999999999999999999999999999999999986555443
No 32
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.81 E-value=1.1e-19 Score=217.90 Aligned_cols=116 Identities=19% Similarity=0.285 Sum_probs=99.6
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|..++... .+.++|||+.....++.+...|.. .|+.+..++|++++.+|+.+++.|.+ +
T Consensus 229 k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~------------~~~~v~~~hg~~~~~eR~~~l~~F~~---g 291 (460)
T PRK11776 229 RLPALQRLLLHH--QPESCVVFCNTKKECQEVADALNA------------QGFSALALHGDLEQRDRDQVLVRFAN---R 291 (460)
T ss_pred HHHHHHHHHHhc--CCCceEEEECCHHHHHHHHHHHHh------------CCCcEEEEeCCCCHHHHHHHHHHHHc---C
Confidence 455566666533 346899999999999999999985 57889999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFL 1094 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~V 1094 (1097)
.++ +|++|.+++.|||++++++||+||++.++..+.|++||+.|.|+.-.++.
T Consensus 292 ~~~-vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G~ai~ 344 (460)
T PRK11776 292 SCS-VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALS 344 (460)
T ss_pred CCc-EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcceEEE
Confidence 444 58889999999999999999999999999999999999999998755443
No 33
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.81 E-value=2.1e-19 Score=213.93 Aligned_cols=116 Identities=24% Similarity=0.339 Sum_probs=99.1
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|..++.. ....++|||+.....++.|...|.. .|+....++|.++..+|..+++.|++ +
T Consensus 232 k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~------------~~~~~~~l~g~~~~~~R~~~l~~f~~---G 294 (434)
T PRK11192 232 KTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRK------------AGINCCYLEGEMVQAKRNEAIKRLTD---G 294 (434)
T ss_pred HHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHh------------CCCCEEEecCCCCHHHHHHHHHHHhC---C
Confidence 44455555542 2357899999999999999999985 57889999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFL 1094 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~V 1094 (1097)
.++ +|++|.+++.|||++.+++||+||+++++..+.|++||+.|.|..-.+++
T Consensus 295 ~~~-vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 295 RVN-VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred CCc-EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEE
Confidence 454 58888999999999999999999999999999999999999998765443
No 34
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.81 E-value=1.2e-19 Score=217.10 Aligned_cols=102 Identities=17% Similarity=0.247 Sum_probs=92.3
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
..++|||+......+.|...|.. .|+....++|.++..+|..+++.|.+ +.++ +|++|.+++.|
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 46899999999999999999985 57889999999999999999999997 4454 57899999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhhhccccccc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQF 1093 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~ 1093 (1097)
||++..++||+||++.++..+.|++||+.|.|++-.++
T Consensus 309 iDip~v~~VI~~~~P~~~~~yvqR~GRaGR~g~~G~ai 346 (456)
T PRK10590 309 LDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEAL 346 (456)
T ss_pred CCcccCCEEEEeCCCCCHHHhhhhccccccCCCCeeEE
Confidence 99999999999999999999999999999999876544
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.80 E-value=1.6e-19 Score=214.30 Aligned_cols=116 Identities=19% Similarity=0.222 Sum_probs=99.9
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|..++... ...++|||+.....++.|...|.. .|+.+..++|.++..+|..+++.|++ +
T Consensus 242 k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~------------~g~~v~~lhg~~~~~~R~~~l~~F~~---g 304 (423)
T PRK04837 242 KMRLLQTLIEEE--WPDRAIIFANTKHRCEEIWGHLAA------------DGHRVGLLTGDVAQKKRLRILEEFTR---G 304 (423)
T ss_pred HHHHHHHHHHhc--CCCeEEEEECCHHHHHHHHHHHHh------------CCCcEEEecCCCChhHHHHHHHHHHc---C
Confidence 555566666542 357999999999999999999985 58899999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFL 1094 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~V 1094 (1097)
.++ +|++|.+++.|||++.+++||+||+|+++..+.|++||+.|.|+.-.++.
T Consensus 305 ~~~-vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~ai~ 357 (423)
T PRK04837 305 DLD-ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSIS 357 (423)
T ss_pred CCc-EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCeeEEE
Confidence 444 58899999999999999999999999999999999999999998755443
No 36
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.79 E-value=5.1e-19 Score=216.10 Aligned_cols=115 Identities=21% Similarity=0.339 Sum_probs=98.7
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|..++.. ..+.++|||+.....++.|...|.. .|+.+..++|.++..+|..+++.|.+ +
T Consensus 244 k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~------------~g~~v~~lhg~l~~~eR~~il~~Fr~---G 306 (572)
T PRK04537 244 KQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLER------------HGYRVGVLSGDVPQKKRESLLNRFQK---G 306 (572)
T ss_pred HHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHHc---C
Confidence 44445555543 2367999999999999999999985 57899999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQF 1093 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~ 1093 (1097)
.++ +|++|.+++.|||+...++||+||.++++..+.|++||+.|.|..-.++
T Consensus 307 ~~~-VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~ai 358 (572)
T PRK04537 307 QLE-ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAI 358 (572)
T ss_pred CCe-EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceEE
Confidence 444 5889999999999999999999999999999999999999999875543
No 37
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.79 E-value=6.3e-19 Score=212.12 Aligned_cols=117 Identities=25% Similarity=0.317 Sum_probs=98.4
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|...|..++.. ....++|||++....++.|...|.. .|+.+..++|.++.++|.++++.|++ +
T Consensus 322 k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~------------~~~~~~~~~g~~~~~~R~~~~~~Fr~---G 384 (475)
T PRK01297 322 KYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVK------------DGINAAQLSGDVPQHKRIKTLEGFRE---G 384 (475)
T ss_pred HHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEECCCCHHHHHHHHHHHhC---C
Confidence 33344444443 2246899999999999999999975 57889999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
.++ +|++|.++++|||+.++++||+|++++++....|++||++|.|+.-.++++
T Consensus 385 ~~~-vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~~i~~ 438 (475)
T PRK01297 385 KIR-VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISF 438 (475)
T ss_pred CCc-EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCceEEEE
Confidence 444 588899999999999999999999999999999999999999987654443
No 38
>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=99.79 E-value=8.9e-19 Score=216.13 Aligned_cols=113 Identities=24% Similarity=0.199 Sum_probs=97.3
Q ss_pred hhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeE
Q 001337 965 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1044 (1097)
Q Consensus 965 L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~V 1044 (1097)
|.+.|.... +.+.|||+......+.+...|.. .|+.+..++|+++.++|..+++.|..+ .++
T Consensus 215 l~~~l~~~~--~~~~IIf~~sr~~~e~la~~L~~------------~g~~~~~~H~~l~~~~R~~i~~~F~~g---~~~- 276 (591)
T TIGR01389 215 LLDYLKKHR--GQSGIIYASSRKKVEELAERLES------------QGISALAYHAGLSNKVRAENQEDFLYD---DVK- 276 (591)
T ss_pred HHHHHHhcC--CCCEEEEECcHHHHHHHHHHHHh------------CCCCEEEEECCCCHHHHHHHHHHHHcC---CCc-
Confidence 444444322 67899999999999999999985 588899999999999999999999873 343
Q ss_pred EEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1045 TLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1045 lLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
+|++|.+.|.|||++.++.||++++|.|+....|++||++|.|+...+++|
T Consensus 277 vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il~ 327 (591)
T TIGR01389 277 VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAILL 327 (591)
T ss_pred EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEEe
Confidence 588999999999999999999999999999999999999999987665554
No 39
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.79 E-value=1.3e-18 Score=214.43 Aligned_cols=105 Identities=19% Similarity=0.184 Sum_probs=94.4
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.++|||+......+.+...|.. .|+.+..++|+++.++|.++++.|.. +.++ +|++|.+.|.
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 467899999999999999999985 58899999999999999999999987 3444 4788899999
Q ss_pred cceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|||+++.+.||+||+|.++....|++||++|.|....+++|
T Consensus 299 GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~ill 339 (607)
T PRK11057 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLF 339 (607)
T ss_pred cCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEEEE
Confidence 99999999999999999999999999999999987665554
No 40
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.79 E-value=3.2e-19 Score=229.20 Aligned_cols=105 Identities=15% Similarity=0.197 Sum_probs=82.9
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+.|+|||+....+++.+.+.|...+.....+ ..+..+..++|+++ ++.+++++|.++..+ .+|++++..++|
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~---~~~~~v~~itg~~~--~~~~li~~Fk~~~~p---~IlVsvdmL~TG 769 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQ---VEDDAVIKITGSID--KPDQLIRRFKNERLP---NIVVTVDLLTTG 769 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCC---cCccceEEEeCCcc--chHHHHHHHhCCCCC---eEEEEecccccC
Confidence 4799999999999998888887532110000 11234567999886 688999999874332 468999999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhhhcc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRCMD 1088 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQ 1088 (1097)
+|.+....||++.|+-++....|++||+-|.--
T Consensus 770 ~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~~ 802 (1123)
T PRK11448 770 IDVPSICNLVFLRRVRSRILYEQMLGRATRLCP 802 (1123)
T ss_pred CCcccccEEEEecCCCCHHHHHHHHhhhccCCc
Confidence 999999999999999999999999999999754
No 41
>PTZ00424 helicase 45; Provisional
Probab=99.78 E-value=6.1e-19 Score=207.75 Aligned_cols=104 Identities=16% Similarity=0.232 Sum_probs=92.2
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
..++|||+.....++.+...|.. .++.+..++|+++..+|..+++.|++ +.++ +|++|.++++|
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 35789999999999999999985 47889999999999999999999997 4454 58899999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
||++.++.||++|++.++....|++||++|.|..-.++++
T Consensus 331 iDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~G~~i~l 370 (401)
T PTZ00424 331 IDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINF 370 (401)
T ss_pred cCcccCCEEEEECCCCCHHHEeecccccccCCCCceEEEE
Confidence 9999999999999999999999999999999976555443
No 42
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.77 E-value=2.6e-18 Score=212.78 Aligned_cols=162 Identities=14% Similarity=0.192 Sum_probs=104.8
Q ss_pred ccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhh
Q 001337 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHN 640 (1097)
Q Consensus 562 l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~q 640 (1097)
+...|.++|.+++..++.... .......+|.-++|.|||+.++..+...+.. ...+||++|+. |..|
T Consensus 232 lpf~lt~~Q~~ai~~I~~~~~--------~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~----g~qvlilaPT~~LA~Q 299 (630)
T TIGR00643 232 LPFKLTRAQKRVVKEILQDLK--------SDVPMNRLLQGDVGSGKTLVAALAMLAAIEA----GYQVALMAPTEILAEQ 299 (630)
T ss_pred CCCCCCHHHHHHHHHHHHHhc--------cCCCccEEEECCCCCcHHHHHHHHHHHHHHc----CCcEEEECCHHHHHHH
Confidence 445789999999987764321 1223456888999999998776555444432 24799999976 6789
Q ss_pred hHHhhcccccCCCcccEEEeecccch-hHHHHHHHHHH-hcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCE
Q 001337 641 WKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 718 (1097)
Q Consensus 641 W~~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~-~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dl 718 (1097)
|.+++.++++. ..+++..+.|... ..+...+.... ...+++|.|+..+... ..-...++
T Consensus 300 ~~~~~~~l~~~--~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~-----------------~~~~~l~l 360 (630)
T TIGR00643 300 HYNSLRNLLAP--LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEK-----------------VEFKRLAL 360 (630)
T ss_pred HHHHHHHHhcc--cCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcc-----------------ccccccce
Confidence 99999999864 2366777666543 33333333332 2358999988765420 00126789
Q ss_pred EEecccchhcccchhHHHHHhhhc---cceeeeeccCcccc
Q 001337 719 LVCDEAHMIKNTRADTTQALKQVK---CQRRIALTGSPLQN 756 (1097)
Q Consensus 719 VIiDEAH~iKN~~S~~~kal~~l~---a~~RllLTGTPiqN 756 (1097)
||+||+|++.- .++........ ..+.++|||||+..
T Consensus 361 vVIDEaH~fg~--~qr~~l~~~~~~~~~~~~l~~SATp~pr 399 (630)
T TIGR00643 361 VIIDEQHRFGV--EQRKKLREKGQGGFTPHVLVMSATPIPR 399 (630)
T ss_pred EEEechhhccH--HHHHHHHHhcccCCCCCEEEEeCCCCcH
Confidence 99999998732 12222222223 57789999999764
No 43
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.76 E-value=2.6e-18 Score=211.34 Aligned_cols=116 Identities=20% Similarity=0.237 Sum_probs=99.6
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+.+|..+|... ...++|||+......+.|...|.. .|+....++|.+++.+|..+++.|.+ +
T Consensus 232 k~~~L~~~L~~~--~~~~~IVF~~tk~~a~~l~~~L~~------------~g~~~~~lhgd~~q~~R~~il~~Fr~---G 294 (629)
T PRK11634 232 KNEALVRFLEAE--DFDAAIIFVRTKNATLEVAEALER------------NGYNSAALNGDMNQALREQTLERLKD---G 294 (629)
T ss_pred HHHHHHHHHHhc--CCCCEEEEeccHHHHHHHHHHHHh------------CCCCEEEeeCCCCHHHHHHHHHHHhC---C
Confidence 555666666532 246899999999999999999985 57889999999999999999999997 4
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFL 1094 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~V 1094 (1097)
.++ +|++|.+++.|||++.+++||+||+|.++..+.|++||+.|.|..-.+++
T Consensus 295 ~~~-ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ai~ 347 (629)
T PRK11634 295 RLD-ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALL 347 (629)
T ss_pred CCC-EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceEEE
Confidence 444 58999999999999999999999999999999999999999998655443
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.75 E-value=8.8e-18 Score=209.43 Aligned_cols=314 Identities=17% Similarity=0.208 Sum_probs=198.2
Q ss_pred ccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhh
Q 001337 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHN 640 (1097)
Q Consensus 562 l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~q 640 (1097)
+...|.++|.+++.-+..... .......+|.-++|.|||+.++..+...... ...+||++|+. |..|
T Consensus 258 l~f~lt~~Q~~ai~~I~~d~~--------~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~----g~q~lilaPT~~LA~Q 325 (681)
T PRK10917 258 LPFELTGAQKRVVAEILADLA--------SPKPMNRLLQGDVGSGKTVVAALAALAAIEA----GYQAALMAPTEILAEQ 325 (681)
T ss_pred CCCCCCHHHHHHHHHHHHhhh--------ccCCceEEEECCCCCcHHHHHHHHHHHHHHc----CCeEEEEeccHHHHHH
Confidence 445689999999886654321 1223467888999999998776655544432 24799999966 6779
Q ss_pred hHHhhcccccCCCcccEEEeecccch-hHHHHHHHHHHh-cCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCE
Q 001337 641 WKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 718 (1097)
Q Consensus 641 W~~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~-~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dl 718 (1097)
+.+.+.++++. ..+++..+.|... ..+...+..+.. ..+|+|.|+..+... ..-.+.++
T Consensus 326 ~~~~l~~l~~~--~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~-----------------v~~~~l~l 386 (681)
T PRK10917 326 HYENLKKLLEP--LGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDD-----------------VEFHNLGL 386 (681)
T ss_pred HHHHHHHHHhh--cCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhccc-----------------chhcccce
Confidence 99999998865 2366777666543 344455555443 478999888766421 00126789
Q ss_pred EEecccchhcccchhHHHHHhhh-ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcc
Q 001337 719 LVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTS 797 (1097)
Q Consensus 719 VIiDEAH~iKN~~S~~~kal~~l-~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~ 797 (1097)
||+||+|++. ......+... ...+.++|||||+...+. +. .++..
T Consensus 387 vVIDE~Hrfg---~~qr~~l~~~~~~~~iL~~SATp~prtl~----~~------~~g~~--------------------- 432 (681)
T PRK10917 387 VIIDEQHRFG---VEQRLALREKGENPHVLVMTATPIPRTLA----MT------AYGDL--------------------- 432 (681)
T ss_pred EEEechhhhh---HHHHHHHHhcCCCCCEEEEeCCCCHHHHH----HH------HcCCC---------------------
Confidence 9999999973 2233333333 346789999999753321 00 00000
Q ss_pred cchhhcccchhHHHHHHhhHHhhhchhhhccCCCCce--EEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhhhh
Q 001337 798 EDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKT--VFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 875 (1097)
Q Consensus 798 ~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~--e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~ 875 (1097)
+ . .....+|+.. .....+..
T Consensus 433 -~-----------------------~-s~i~~~p~~r~~i~~~~~~~--------------------------------- 454 (681)
T PRK10917 433 -D-----------------------V-SVIDELPPGRKPITTVVIPD--------------------------------- 454 (681)
T ss_pred -c-----------------------e-EEEecCCCCCCCcEEEEeCc---------------------------------
Confidence 0 0 0000122110 00000000
Q ss_pred hHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccc
Q 001337 876 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 955 (1097)
Q Consensus 876 ~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 955 (1097)
T Consensus 455 -------------------------------------------------------------------------------- 454 (681)
T PRK10917 455 -------------------------------------------------------------------------------- 454 (681)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccCcceehhhHHHhhhccCCCceeEEecCCC--------chhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHH
Q 001337 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIP--------TLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER 1027 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~--------~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR 1027 (1097)
.+...+.+.+......+++++||+..+. .+..+.+.|... ..++++..++|+++..+|
T Consensus 455 ----~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~----------~~~~~v~~lHG~m~~~eR 520 (681)
T PRK10917 455 ----SRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEA----------FPELRVGLLHGRMKPAEK 520 (681)
T ss_pred ----ccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHH----------CCCCcEEEEeCCCCHHHH
Confidence 0001122333333345677777776432 233445555542 135789999999999999
Q ss_pred HHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCc-CCcccHHHHHHHhhhcccccccccc
Q 001337 1028 QKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1028 ~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~W-NP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
.+++++|.+ +.++ +|++|.+.++|+|++.++.||+++++. ..+...|++||++|.|.+-.|+++.
T Consensus 521 ~~i~~~F~~---g~~~-ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~ill~ 586 (681)
T PRK10917 521 DAVMAAFKA---GEID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCVLLY 586 (681)
T ss_pred HHHHHHHHc---CCCC-EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEEEEEE
Confidence 999999997 3443 588999999999999999999999874 4678899999999999877776653
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=99.75 E-value=1.1e-17 Score=211.77 Aligned_cols=107 Identities=20% Similarity=0.246 Sum_probs=91.5
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.+++||++....++.+...|.++ ..++++..++|.|+..+|.+++.+|.+ +.++ +|++|.+.+.
T Consensus 659 ~g~qv~if~n~i~~~e~l~~~L~~~----------~p~~~v~~lHG~m~~~eRe~im~~F~~---Gk~~-ILVaT~iie~ 724 (926)
T TIGR00580 659 RGGQVFYVHNRIESIEKLATQLREL----------VPEARIAIAHGQMTENELEEVMLEFYK---GEFQ-VLVCTTIIET 724 (926)
T ss_pred cCCeEEEEECCcHHHHHHHHHHHHh----------CCCCeEEEecCCCCHHHHHHHHHHHHc---CCCC-EEEECChhhc
Confidence 4678999999999999999999863 246889999999999999999999997 3444 5888999999
Q ss_pred cceecccceEEEEcCC-cCCcccHHHHHHHhhhccccccccc
Q 001337 1055 GINLHSANRVIIVDGS-WNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~-WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|||++.+++||+++++ +..+...|++||++|.|..-.|++.
T Consensus 725 GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~g~aill 766 (926)
T TIGR00580 725 GIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKKAYAYLL 766 (926)
T ss_pred ccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCCeEEEEE
Confidence 9999999999999985 4556788999999999987665543
No 46
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.75 E-value=1.4e-17 Score=207.93 Aligned_cols=105 Identities=17% Similarity=0.109 Sum_probs=95.1
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+...|||+.+....+.+...|.. .|+....++|+++..+|..+++.|.. +.++ +|++|.|.|.|
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 45789999999999999999985 68999999999999999999999997 4454 47888999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
||++..+.||+|++|-++..+.|++||++|.|+.-.+++|+
T Consensus 744 IDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 744 INKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred CCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 99999999999999999999999999999999987777664
No 47
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.73 E-value=3.6e-17 Score=211.12 Aligned_cols=106 Identities=19% Similarity=0.239 Sum_probs=90.8
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+.+++||++....++.+.+.|.+. ..++.+..++|+++..+|.+++.+|.+ +.++ +|++|.+.+.|
T Consensus 809 ~gqv~vf~n~i~~ie~la~~L~~~----------~p~~~v~~lHG~m~q~eRe~im~~Fr~---Gk~~-VLVaTdIierG 874 (1147)
T PRK10689 809 GGQVYYLYNDVENIQKAAERLAEL----------VPEARIAIGHGQMRERELERVMNDFHH---QRFN-VLVCTTIIETG 874 (1147)
T ss_pred CCeEEEEECCHHHHHHHHHHHHHh----------CCCCcEEEEeCCCCHHHHHHHHHHHHh---cCCC-EEEECchhhcc
Confidence 678999999988888899999863 246788999999999999999999997 4454 48888999999
Q ss_pred ceecccceEEEEcCC-cCCcccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGS-WNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~-WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
||++.+++||+.+++ |..+...|++||++|.|++--++++
T Consensus 875 IDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g~a~ll 915 (1147)
T PRK10689 875 IDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAWLL 915 (1147)
T ss_pred cccccCCEEEEecCCCCCHHHHHHHhhccCCCCCceEEEEE
Confidence 999999999988774 6777899999999999988766554
No 48
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.72 E-value=3.6e-17 Score=204.98 Aligned_cols=111 Identities=16% Similarity=0.096 Sum_probs=92.1
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.++|||++.....+.|..+|....... ....+..+..++|++++++|.++.++|.+ +.++ +|++|.+++.
T Consensus 270 ~~~~~IVF~~sr~~ae~l~~~l~~~l~~~----~~~l~~~v~~~hgg~~~~eR~~ie~~f~~---G~i~-vLVaTd~ler 341 (742)
T TIGR03817 270 EGARTLTFVRSRRGAELVAAIARRLLGEV----DPDLAERVAAYRAGYLPEDRRELERALRD---GELL-GVATTNALEL 341 (742)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHHHHHhh----ccccccchhheecCCCHHHHHHHHHHHHc---CCce-EEEECchHhc
Confidence 46899999999999999999887521000 00124567788999999999999999997 5554 5899999999
Q ss_pred cceecccceEEEEcCCcCCcccHHHHHHHhhhccccccc
Q 001337 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQF 1093 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~ 1093 (1097)
|||+...++||+++.|-+.....|++||++|.|+.--++
T Consensus 342 GIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~ai 380 (742)
T TIGR03817 342 GVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGALVV 380 (742)
T ss_pred cCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcEEE
Confidence 999999999999999999999999999999999865433
No 49
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.71 E-value=6.1e-17 Score=206.66 Aligned_cols=112 Identities=16% Similarity=0.141 Sum_probs=91.5
Q ss_pred HHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEe
Q 001337 968 ILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLI 1047 (1097)
Q Consensus 968 iL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLi 1047 (1097)
.|......+.++|||++.....+.+...|...... +..+..+..++|+++.++|..+.+.|++ +.++ +|+
T Consensus 276 ~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~------~~~~~~i~~hHg~ls~~~R~~ve~~fk~---G~i~-vLV 345 (876)
T PRK13767 276 TLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPE------EYDEDNIGAHHSSLSREVRLEVEEKLKR---GELK-VVV 345 (876)
T ss_pred HHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchh------hccccceeeeeCCCCHHHHHHHHHHHHc---CCCe-EEE
Confidence 33333344689999999999999999988753210 0134678889999999999999999997 4454 588
Q ss_pred eeccccccceecccceEEEEcCCcCCcccHHHHHHHhhh-ccc
Q 001337 1048 STRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRC-MDK 1089 (1097)
Q Consensus 1048 Stkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~Ri-GQk 1089 (1097)
+|.+.+.|||+...+.||++++|.++....|++||++|. |+.
T Consensus 346 aTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~ 388 (876)
T PRK13767 346 SSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEV 388 (876)
T ss_pred ECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCC
Confidence 899999999999999999999999999999999999986 443
No 50
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.69 E-value=3.4e-16 Score=182.86 Aligned_cols=117 Identities=24% Similarity=0.266 Sum_probs=104.1
Q ss_pred CcceehhhHHHhhhc-cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 959 SGKMVLLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~-~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
..|...|.++|.... ..+.|+|||++.....+.|+..|.. .+++..-|||..++.+|...++.|.++
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 457778888888776 4567999999999999999999984 578999999999999999999999984
Q ss_pred ccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+.. +|++|++++.||++...++||+||+|-|...+.+|+||..|.|++=.
T Consensus 391 ---~~~-vLVATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 391 ---KSP-VLVATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred ---Ccc-eEEEcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCce
Confidence 332 69999999999999999999999999999999999999999877644
No 51
>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=99.65 E-value=2.1e-15 Score=187.47 Aligned_cols=167 Identities=20% Similarity=0.233 Sum_probs=106.7
Q ss_pred cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhh
Q 001337 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 641 (1097)
Q Consensus 563 ~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW 641 (1097)
+...++||..+|.-+.+.+... ..+....+|++.|.+|.|||++++.++..++... ...++|||||.. |..||
T Consensus 236 k~~~r~~Q~~av~~~~~~~~~~----~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--~~~~vl~lvdR~~L~~Q~ 309 (667)
T TIGR00348 236 KPYQRYMQYRAVKKIVESITRK----TWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--KNPKVFFVVDRRELDYQL 309 (667)
T ss_pred eeehHHHHHHHHHHHHHHHHhc----ccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc--CCCeEEEEECcHHHHHHH
Confidence 4447999999999887765421 1112346899999999999999999888776432 345899999955 89999
Q ss_pred HHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCC-CEEE
Q 001337 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP-DILV 720 (1097)
Q Consensus 642 ~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~-dlVI 720 (1097)
.++|..+.+... ... .+.......+. ....+|+|+|+++|.... ............ .+||
T Consensus 310 ~~~f~~~~~~~~-----~~~--~s~~~L~~~l~--~~~~~iivtTiQk~~~~~----------~~~~~~~~~~~~~~lvI 370 (667)
T TIGR00348 310 MKEFQSLQKDCA-----ERI--ESIAELKRLLE--KDDGGIIITTIQKFDKKL----------KEEEEKFPVDRKEVVVI 370 (667)
T ss_pred HHHHHhhCCCCC-----ccc--CCHHHHHHHHh--CCCCCEEEEEhHHhhhhH----------hhhhhccCCCCCCEEEE
Confidence 999999875311 000 11111111111 124689999999986411 000111111122 3799
Q ss_pred ecccchhcccchhHHHHHh-hhccceeeeeccCcccc
Q 001337 721 CDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQN 756 (1097)
Q Consensus 721 iDEAH~iKN~~S~~~kal~-~l~a~~RllLTGTPiqN 756 (1097)
+||||+.- .....+.++ .+...++++|||||+..
T Consensus 371 vDEaHrs~--~~~~~~~l~~~~p~a~~lGfTaTP~~~ 405 (667)
T TIGR00348 371 FDEAHRSQ--YGELAKNLKKALKNASFFGFTGTPIFK 405 (667)
T ss_pred EEcCcccc--chHHHHHHHhhCCCCcEEEEeCCCccc
Confidence 99999763 223344553 45678999999999864
No 52
>PRK01172 ski2-like helicase; Provisional
Probab=99.63 E-value=1.2e-15 Score=191.33 Aligned_cols=152 Identities=18% Similarity=0.233 Sum_probs=97.2
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~ 642 (1097)
..|+|+|.+++..+. .+...+++.++|.|||+.+...+...+.. .+++|+|+| .+|+.|+.
T Consensus 21 ~~l~~~Q~~ai~~l~--------------~~~nvlv~apTGSGKTl~a~lail~~l~~----~~k~v~i~P~raLa~q~~ 82 (674)
T PRK01172 21 FELYDHQRMAIEQLR--------------KGENVIVSVPTAAGKTLIAYSAIYETFLA----GLKSIYIVPLRSLAMEKY 82 (674)
T ss_pred CCCCHHHHHHHHHHh--------------cCCcEEEECCCCchHHHHHHHHHHHHHHh----CCcEEEEechHHHHHHHH
Confidence 358999999987542 35678999999999999876555544432 247899999 55888999
Q ss_pred HhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
+++.++... ..++....|...... .+....+++|+|++.+..+.... . ..-..+++||+|
T Consensus 83 ~~~~~l~~~---g~~v~~~~G~~~~~~-----~~~~~~dIiv~Tpek~~~l~~~~----~--------~~l~~v~lvViD 142 (674)
T PRK01172 83 EELSRLRSL---GMRVKISIGDYDDPP-----DFIKRYDVVILTSEKADSLIHHD----P--------YIINDVGLIVAD 142 (674)
T ss_pred HHHHHHhhc---CCeEEEEeCCCCCCh-----hhhccCCEEEECHHHHHHHHhCC----h--------hHHhhcCEEEEe
Confidence 999876432 244544444322211 12245789999998765432110 0 111267899999
Q ss_pred ccchhcccc--hhHHHHHhhh----ccceeeeeccCc
Q 001337 723 EAHMIKNTR--ADTTQALKQV----KCQRRIALTGSP 753 (1097)
Q Consensus 723 EAH~iKN~~--S~~~kal~~l----~a~~RllLTGTP 753 (1097)
|+|.+.... ...-..+..+ ...+.++||||+
T Consensus 143 EaH~l~d~~rg~~le~ll~~~~~~~~~~riI~lSATl 179 (674)
T PRK01172 143 EIHIIGDEDRGPTLETVLSSARYVNPDARILALSATV 179 (674)
T ss_pred cchhccCCCccHHHHHHHHHHHhcCcCCcEEEEeCcc
Confidence 999986432 1122222222 235679999997
No 53
>PRK02362 ski2-like helicase; Provisional
Probab=99.63 E-value=9.5e-16 Score=193.67 Aligned_cols=154 Identities=18% Similarity=0.176 Sum_probs=100.5
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~ 642 (1097)
..|+|+|.+++.-++ ..+.+++++-++|.|||+.+...+...+.. .+++|+|+| .+|+.|+.
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 358899999986532 246789999999999998775544443322 358999999 56899999
Q ss_pred HhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
.+|.++.+. .+++..+.|...... .+....+|+|+|++.+..+.... . . .....++||+|
T Consensus 85 ~~~~~~~~~---g~~v~~~tGd~~~~~-----~~l~~~~IiV~Tpek~~~llr~~----~-------~-~l~~v~lvViD 144 (737)
T PRK02362 85 EEFERFEEL---GVRVGISTGDYDSRD-----EWLGDNDIIVATSEKVDSLLRNG----A-------P-WLDDITCVVVD 144 (737)
T ss_pred HHHHHhhcC---CCEEEEEeCCcCccc-----cccCCCCEEEECHHHHHHHHhcC----h-------h-hhhhcCEEEEE
Confidence 999876532 256666655432211 23356789999998875433210 0 0 11267999999
Q ss_pred ccchhcccc--hhHHHHHhhh----ccceeeeeccCcc
Q 001337 723 EAHMIKNTR--ADTTQALKQV----KCQRRIALTGSPL 754 (1097)
Q Consensus 723 EAH~iKN~~--S~~~kal~~l----~a~~RllLTGTPi 754 (1097)
|+|.+.+.. ...-..+.++ ...+.++||||+-
T Consensus 145 E~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl~ 182 (737)
T PRK02362 145 EVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATIG 182 (737)
T ss_pred CccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccCC
Confidence 999996532 2222223333 3456799999973
No 54
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.61 E-value=4.5e-15 Score=163.53 Aligned_cols=110 Identities=20% Similarity=0.270 Sum_probs=99.6
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|-..|+.||++.. |..+|||+....+.+.+.-+|.. .|+....++|.|++..|..+++.|++.
T Consensus 287 K~~yLV~ll~e~~--g~s~iVF~~t~~tt~~la~~L~~------------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~--- 349 (476)
T KOG0330|consen 287 KDTYLVYLLNELA--GNSVIVFCNTCNTTRFLALLLRN------------LGFQAIPLHGQMSQSKRLGALNKFKAG--- 349 (476)
T ss_pred cchhHHHHHHhhc--CCcEEEEEeccchHHHHHHHHHh------------cCcceecccchhhHHHHHHHHHHHhcc---
Confidence 6667888998654 58999999999999999999986 589999999999999999999999983
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMD 1088 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQ 1088 (1097)
.. -+|++|++++.||+.+.++.||+||.|-+-..+++|.||+.|.|-
T Consensus 350 ~r-~iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaGr 396 (476)
T KOG0330|consen 350 AR-SILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAGR 396 (476)
T ss_pred CC-cEEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccCC
Confidence 22 269999999999999999999999999999999999999999993
No 55
>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=99.61 E-value=3.8e-15 Score=182.27 Aligned_cols=115 Identities=17% Similarity=0.154 Sum_probs=98.9
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
...|+.++++.+.+....+.+||||+.+....+.+...|.. .|+++..++|.+...+|..+..+|+.
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 35689999999988878899999999999999999999985 68999999999998787777666665
Q ss_pred ccceeeEEEeeeccccccceec---------ccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLH---------SANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~---------~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+. ++|+|..+|.|+++. +.++|+.++++-+. .+.|++||+.|.|..=.
T Consensus 473 --g~---VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r-id~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 473 --GA---VTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSR-VDLQLRGRSGRQGDPGS 529 (762)
T ss_pred --Ce---EEEEccccccccCCCCCccccccCCeEEEEecCCCCcH-HHHHhhhcccCCCCcee
Confidence 33 489999999999999 88999999999665 45999999999997643
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=99.59 E-value=1.8e-14 Score=167.34 Aligned_cols=117 Identities=16% Similarity=0.193 Sum_probs=89.7
Q ss_pred eehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHH----HHhhccc
Q 001337 962 MVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL----VERFNEP 1037 (1097)
Q Consensus 962 l~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~----i~~Fn~~ 1037 (1097)
...+.+++... ..+.++|||++....+..+...|.+.. ....+..++|.++..+|.+. ++.|.+
T Consensus 209 ~~~l~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~----------~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~- 276 (358)
T TIGR01587 209 ISSLERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENA----------PEEEIMLLHSRFTEKDRAKKEAELLEEMKK- 276 (358)
T ss_pred HHHHHHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhc----------CCCeEEEEECCCCHHHHHHHHHHHHHHhcC-
Confidence 33444454333 347899999999999999999997521 22358899999999999764 888987
Q ss_pred ccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc----cccccc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ----SQFLLT 1096 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK----~V~VYr 1096 (1097)
+..+ +|++|.+.+.|||+ .++.||.++.+ +....|++||++|.|.+. .|+||.
T Consensus 277 --~~~~-ilvaT~~~~~GiDi-~~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~ 333 (358)
T TIGR01587 277 --NEKF-VIVATQVIEASLDI-SADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIIT 333 (358)
T ss_pred --CCCe-EEEECcchhceecc-CCCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEe
Confidence 3333 58899999999999 48888887765 678899999999999764 466663
No 57
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.58 E-value=4.4e-15 Score=177.82 Aligned_cols=357 Identities=18% Similarity=0.170 Sum_probs=216.6
Q ss_pred ccceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEee
Q 001337 553 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1097)
Q Consensus 553 ~~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV 632 (1097)
......|......+|+||..+|+.+.+.+. +....++|+..+|.|||.+||++|..+++++. .+++|.+
T Consensus 153 ~~~~~~~~~s~i~~RyyQ~~AI~rv~Eaf~---------~g~~raLlvMATGTGKTrTAiaii~rL~r~~~--~KRVLFL 221 (875)
T COG4096 153 QQLAYIDIDSAIGPRYYQIIAIRRVIEAFS---------KGQNRALLVMATGTGKTRTAIAIIDRLIKSGW--VKRVLFL 221 (875)
T ss_pred cccccCcccccccchHHHHHHHHHHHHHHh---------cCCceEEEEEecCCCcceeHHHHHHHHHhcch--hheeeEE
Confidence 456677777888899999999998877764 23445999999999999999999999998866 4799999
Q ss_pred cc-hhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHH
Q 001337 633 TP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1097)
Q Consensus 633 ~P-~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~l 711 (1097)
+- ++|+.|=..+|..|.|.+-. .... .+.... ....|++.||+++.....+.... ...+
T Consensus 222 aDR~~Lv~QA~~af~~~~P~~~~-~n~i--~~~~~~----------~s~~i~lsTyqt~~~~~~~~~~~-------~~~f 281 (875)
T COG4096 222 ADRNALVDQAYGAFEDFLPFGTK-MNKI--EDKKGD----------TSSEIYLSTYQTMTGRIEQKEDE-------YRRF 281 (875)
T ss_pred echHHHHHHHHHHHHHhCCCccc-eeee--ecccCC----------cceeEEEeehHHHHhhhhccccc-------cccC
Confidence 96 77999999999999997422 1111 111111 13579999999987543332111 1112
Q ss_pred hccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCc
Q 001337 712 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQ 791 (1097)
Q Consensus 712 l~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~ 791 (1097)
-...||+||+||||+= ....++.+...-...+++|||||-..--.+-|.+|+ ..|+....
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 2236999999999962 223344555555556777799996632222222222 22222211
Q ss_pred ccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEE---------EEEEecChHHHHHHHHhhhhcCCccc
Q 001337 792 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVF---------VITVKLSPLQRRLYKRFLDLHGFTND 862 (1097)
Q Consensus 792 ~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~---------vv~v~Ls~~Q~~lY~~il~~~~~~~~ 862 (1097)
....-. .+|. .|++... +.+-.++ ++.+++-..+..-.....
T Consensus 342 leeAV~-----------------DGfL-----------vpy~vi~i~~~~~~~G~~~~~~s-erek~~g~~i~~dd~~~~ 392 (875)
T COG4096 342 LEEAVE-----------------DGFL-----------VPYKVIRIDTDFDLDGWKPDAGS-EREKLQGEAIDEDDQNFE 392 (875)
T ss_pred HHHHhh-----------------cccc-----------CCCCceEEeeeccccCcCcCccc-hhhhhhccccCccccccc
Confidence 111000 0000 1111100 0111222 233333332211000000
Q ss_pred ccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchh
Q 001337 863 RVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKD 942 (1097)
Q Consensus 863 ~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~ 942 (1097)
... .+....
T Consensus 393 ~~d-----------------------------------------------~dr~~v------------------------ 401 (875)
T COG4096 393 ARD-----------------------------------------------FDRTLV------------------------ 401 (875)
T ss_pred ccc-----------------------------------------------cchhcc------------------------
Confidence 000 000000
Q ss_pred hhhhhhhcccccccccCcceehhhHHHhhhcc---CC---CceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCcee
Q 001337 943 WWNDLLHEHTYKELDYSGKMVLLLDILTMCSN---MG---DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWY 1016 (1097)
Q Consensus 943 ~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~---~g---eKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ 1016 (1097)
.-...+.+...|.+... .| .|.|||+....+++.|...|.... +. ..|-=..
T Consensus 402 ---------------~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~y-pe------~~~~~a~ 459 (875)
T COG4096 402 ---------------IPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEY-PE------YNGRYAM 459 (875)
T ss_pred ---------------ccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhC-cc------ccCceEE
Confidence 00011122222222211 22 599999999999999999998743 21 2334456
Q ss_pred eccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhh
Q 001337 1017 RLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1017 ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~Ri 1086 (1097)
.|+|... +-+..|+.|-. +.+...+.+|.+.+.+|++.+.+-.++|+-.--+-....|.+||.-|+
T Consensus 460 ~IT~d~~--~~q~~Id~f~~--ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl 525 (875)
T COG4096 460 KITGDAE--QAQALIDNFID--KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRL 525 (875)
T ss_pred EEeccch--hhHHHHHHHHh--cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCcccc
Confidence 7888765 66778899877 233445699999999999999999999999999999999999999994
No 58
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.58 E-value=8.1e-15 Score=177.18 Aligned_cols=112 Identities=24% Similarity=0.362 Sum_probs=99.3
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+.+|..++..... .++|||+.....++.|...|.. .|+.+..|+|++++.+|.+.++.|++
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 377777777775433 3799999999999999999986 68999999999999999999999996
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
+.++ +|+.|++++.||++...++||+||+|.++..+.+++||..|.|.+
T Consensus 322 g~~~-vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~~ 370 (513)
T COG0513 322 GELR-VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRK 370 (513)
T ss_pred CCCC-EEEEechhhccCCccccceeEEccCCCCHHHheeccCccccCCCC
Confidence 4444 589999999999999999999999999999999999999999954
No 59
>PRK00254 ski2-like helicase; Provisional
Probab=99.57 E-value=1.2e-14 Score=183.33 Aligned_cols=153 Identities=20% Similarity=0.231 Sum_probs=100.9
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHH-HHHHHhhhccccceeeEeecc-hhhhhhh
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIA-FLYTAMRSVNLGLRTALIVTP-VNVLHNW 641 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIa-li~~~l~~~~~~~k~~LIV~P-~sLv~qW 641 (1097)
..|.|+|.+++.-.+ ..+...|++..+|.|||+.+.. ++..+... .+++|+|+| ..|+.|+
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 458899999886321 2467899999999999988744 33333322 358999999 5588899
Q ss_pred HHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEe
Q 001337 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1097)
Q Consensus 642 ~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIi 721 (1097)
.++|.+|... .+++..+.|..... ..|....+|+|+|++.+..+..... . + ..+.++||+
T Consensus 85 ~~~~~~~~~~---g~~v~~~~Gd~~~~-----~~~~~~~~IiV~Tpe~~~~ll~~~~----~-------~-l~~l~lvVi 144 (720)
T PRK00254 85 YREFKDWEKL---GLRVAMTTGDYDST-----DEWLGKYDIIIATAEKFDSLLRHGS----S-------W-IKDVKLVVA 144 (720)
T ss_pred HHHHHHHhhc---CCEEEEEeCCCCCc-----hhhhccCCEEEEcHHHHHHHHhCCc----h-------h-hhcCCEEEE
Confidence 9998876432 35666666543322 1234567899999988754332110 0 1 136789999
Q ss_pred cccchhccc--chhHHHHHhhh-ccceeeeeccCc
Q 001337 722 DEAHMIKNT--RADTTQALKQV-KCQRRIALTGSP 753 (1097)
Q Consensus 722 DEAH~iKN~--~S~~~kal~~l-~a~~RllLTGTP 753 (1097)
||+|.+... .......+..+ ...+.++||||+
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 999998543 23344444444 346779999997
No 60
>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=99.55 E-value=3.5e-15 Score=146.58 Aligned_cols=120 Identities=33% Similarity=0.404 Sum_probs=109.3
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+..+.+++......+.++|||+.+...+..+...|.. .+..+..++|+++..+|..+++.|+++.
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~------------~~~~~~~~~~~~~~~~~~~~~~~f~~~~- 78 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK------------PGIKVAALHGDGSQEEREEVLKDFREGE- 78 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh------------cCCcEEEEECCCCHHHHHHHHHHHHcCC-
Confidence 688899999988776789999999999999999999985 4778999999999999999999999842
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
..+|++|.++++|+|++.+++||+++++|++....|++||++|.||+..|++|
T Consensus 79 ---~~ili~t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 79 ---IVVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred ---CcEEEEcChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 24688999999999999999999999999999999999999999999988876
No 61
>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=99.52 E-value=3.9e-15 Score=154.98 Aligned_cols=171 Identities=20% Similarity=0.300 Sum_probs=106.1
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch-hhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~-sLv~qW~ 642 (1097)
..|+|||.+++.-+++.+... .....++|..+||.|||+.+++++..+.. ++|||||. +|+.||.
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 369999999998887654310 13578899999999999999988877643 89999996 6899999
Q ss_pred HhhcccccCCCcccE----------EEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHh
Q 001337 643 QEFMKWRPSELKPLR----------VFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 712 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~----------V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll 712 (1097)
++|..+.+....... ............ ...-....++++++|+.+........... ..........
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~~~~~~l~~~~~~~~~~~-~~~~~~~~~~ 143 (184)
T PF04851_consen 68 DEFDDFGSEKYNFFEKSIKPAYDSKEFISIQDDISDK---SESDNNDKDIILTTYQSLQSDIKEEKKID-ESARRSYKLL 143 (184)
T ss_dssp HHHHHHSTTSEEEEE--GGGCCE-SEEETTTTEEEHH---HHHCBSS-SEEEEEHHHHHHHHHH----------GCHHGG
T ss_pred HHHHHhhhhhhhhcccccccccccccccccccccccc---cccccccccchhhHHHHHHhhcccccccc-cchhhhhhhc
Confidence 999766554211000 000000000111 11123456899999998864321110000 0000112234
Q ss_pred ccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCcc
Q 001337 713 QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPL 754 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPi 754 (1097)
...+++||+||||++.+... ++.+....+.++++|||||.
T Consensus 144 ~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 144 KNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp GGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred cccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 45889999999999965443 66666688899999999995
No 62
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.52 E-value=1.2e-13 Score=171.01 Aligned_cols=98 Identities=22% Similarity=0.290 Sum_probs=81.1
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHH-----HHHHhhcc----cc----cce
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-----KLVERFNE----PL----NKR 1041 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~-----~~i~~Fn~----~~----n~~ 1041 (1097)
.+.++|||++.+..++.|...|.. .++ ..++|.+++.+|. .++++|.. .. +..
T Consensus 271 ~g~~vLVF~NTv~~Aq~L~~~L~~------------~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g 336 (844)
T TIGR02621 271 SGGAILVFCRTVKHVRKVFAKLPK------------EKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQG 336 (844)
T ss_pred CCCcEEEEECCHHHHHHHHHHHHh------------cCC--eEeeCCCCHHHHhhHHHHHHHHHHhcccccccccccccc
Confidence 467899999999999999999985 243 8999999999999 78899976 21 111
Q ss_pred eeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1042 VKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1042 v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
. .+|++|++++.|||+.. ++||+...++ ..+.|++||++|.|...
T Consensus 337 ~-~ILVATdVaerGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~ 381 (844)
T TIGR02621 337 T-VYLVCTSAGEVGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQ 381 (844)
T ss_pred c-eEEeccchhhhcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCC
Confidence 2 46999999999999975 8999877664 67899999999999853
No 63
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.52 E-value=1.3e-13 Score=163.72 Aligned_cols=300 Identities=18% Similarity=0.239 Sum_probs=188.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh-hhhHHhhcccccCCCcccEEEeecccch-hHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL-HNWKQEFMKWRPSELKPLRVFMLEDVSR-DRRA 670 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv-~qW~~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~ 670 (1097)
..-.-+|--++|.|||+.|+..+......+ ..+.+.+|+.++ .|-...+.+|++. ..++|..+.|.-+ ..|.
T Consensus 282 ~~M~RLlQGDVGSGKTvVA~laml~ai~~G----~Q~ALMAPTEILA~QH~~~~~~~l~~--~~i~V~lLtG~~kgk~r~ 355 (677)
T COG1200 282 VPMNRLLQGDVGSGKTVVALLAMLAAIEAG----YQAALMAPTEILAEQHYESLRKWLEP--LGIRVALLTGSLKGKARK 355 (677)
T ss_pred hhhHHHhccCcCCCHHHHHHHHHHHHHHcC----CeeEEeccHHHHHHHHHHHHHHHhhh--cCCeEEEeecccchhHHH
Confidence 445568888999999988766665555442 467899998865 5899999999975 2377877776543 4455
Q ss_pred HHHHHHHhc-CcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhh-c-cceee
Q 001337 671 ELLAKWRAK-GGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQV-K-CQRRI 747 (1097)
Q Consensus 671 ~~l~~~~~~-~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l-~-a~~Rl 747 (1097)
..+...... .+++|=|+..|..- + .-.+..+||+||=|++. ...-..++.- . .++.+
T Consensus 356 ~~l~~l~~G~~~ivVGTHALiQd~-----V------------~F~~LgLVIiDEQHRFG---V~QR~~L~~KG~~~Ph~L 415 (677)
T COG1200 356 EILEQLASGEIDIVVGTHALIQDK-----V------------EFHNLGLVIIDEQHRFG---VHQRLALREKGEQNPHVL 415 (677)
T ss_pred HHHHHHhCCCCCEEEEcchhhhcc-----e------------eecceeEEEEecccccc---HHHHHHHHHhCCCCCcEE
Confidence 555554433 57888887776421 0 01156789999999984 2233333333 4 58999
Q ss_pred eeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhc
Q 001337 748 ALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVK 827 (1097)
Q Consensus 748 lLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~ 827 (1097)
.||||||...+. -..||+.+ -.+.
T Consensus 416 vMTATPIPRTLA----------lt~fgDld----------------------------------------------vS~I 439 (677)
T COG1200 416 VMTATPIPRTLA----------LTAFGDLD----------------------------------------------VSII 439 (677)
T ss_pred EEeCCCchHHHH----------HHHhcccc----------------------------------------------chhh
Confidence 999999987643 01111110 0123
Q ss_pred cCCCCceEEEEEEecC-hHHHHHHHHhhhhcCCcccccchHHHHHhhhhhHHHHHHHhcCcceeeecccCCCCCcccccc
Q 001337 828 KDLPPKTVFVITVKLS-PLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAED 906 (1097)
Q Consensus 828 ~~LP~k~e~vv~v~Ls-~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d 906 (1097)
.++|+..--+...-+. +.-.++|+.+..... .=||+
T Consensus 440 dElP~GRkpI~T~~i~~~~~~~v~e~i~~ei~--------------------~GrQa----------------------- 476 (677)
T COG1200 440 DELPPGRKPITTVVIPHERRPEVYERIREEIA--------------------KGRQA----------------------- 476 (677)
T ss_pred ccCCCCCCceEEEEeccccHHHHHHHHHHHHH--------------------cCCEE-----------------------
Confidence 4688864332222222 222345554332210 00000
Q ss_pred CCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhhccCCCceeEEecCC
Q 001337 907 SSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSI 986 (1097)
Q Consensus 907 ~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~ 986 (1097)
.| ....++.|.|+. +
T Consensus 477 -----------------------------------Y~--------VcPLIeESE~l~-l--------------------- 491 (677)
T COG1200 477 -----------------------------------YV--------VCPLIEESEKLE-L--------------------- 491 (677)
T ss_pred -----------------------------------EE--------Eeccccccccch-h---------------------
Confidence 00 001122233433 0
Q ss_pred CchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEE
Q 001337 987 PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVII 1066 (1097)
Q Consensus 987 ~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi 1066 (1097)
..+..+...|.. +..++.+..++|.|+.+++++++.+|++ +.+. +|+||.+..+|+|+++|+.+||
T Consensus 492 ~~a~~~~~~L~~----------~~~~~~vgL~HGrm~~~eKd~vM~~Fk~---~e~~-ILVaTTVIEVGVdVPnATvMVI 557 (677)
T COG1200 492 QAAEELYEELKS----------FLPELKVGLVHGRMKPAEKDAVMEAFKE---GEID-ILVATTVIEVGVDVPNATVMVI 557 (677)
T ss_pred hhHHHHHHHHHH----------HcccceeEEEecCCChHHHHHHHHHHHc---CCCc-EEEEeeEEEecccCCCCeEEEE
Confidence 112233344442 2357788999999999999999999998 3444 5888889999999999999999
Q ss_pred EcCC-cCCcccHHHHHHHhhhcccccccccc
Q 001337 1067 VDGS-WNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1067 ~D~~-WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
.++. +--+...|--||++|=+..--|+.++
T Consensus 558 e~AERFGLaQLHQLRGRVGRG~~qSyC~Ll~ 588 (677)
T COG1200 558 ENAERFGLAQLHQLRGRVGRGDLQSYCVLLY 588 (677)
T ss_pred echhhhhHHHHHHhccccCCCCcceEEEEEe
Confidence 9986 66788999999999988776666543
No 64
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.50 E-value=8.1e-14 Score=157.73 Aligned_cols=116 Identities=18% Similarity=0.249 Sum_probs=95.6
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHh-cCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLS-KLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~-~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
|-.++..+|... ...++|+|+.+.+....+...|. .+. .....+-.++|+.+.+.|.+++.+|+.+
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 334555666543 46899999999999888888887 321 2345566799999999999999999984
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
.++ +||++++++.||++...+.||.||||-.-..+.+|+||..|-||.--
T Consensus 483 -~i~-vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G~ 532 (620)
T KOG0350|consen 483 -DIN-VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDGY 532 (620)
T ss_pred -Cce-EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCce
Confidence 343 58899999999999999999999999999999999999999998754
No 65
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.48 E-value=4.5e-14 Score=149.60 Aligned_cols=112 Identities=21% Similarity=0.263 Sum_probs=95.7
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|.++-..+. =...|||++.....++|.+.|.. .++.+..++|.+++++|.++++.|+..
T Consensus 253 KfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~------------~nftVssmHGDm~qkERd~im~dFRsg--- 315 (400)
T KOG0328|consen 253 KFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMRE------------ANFTVSSMHGDMEQKERDKIMNDFRSG--- 315 (400)
T ss_pred hHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHh------------hCceeeeccCCcchhHHHHHHHHhhcC---
Confidence 4444444444332 14679999999999999999985 678899999999999999999999984
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
..+ +||+|++-+.|++.+..+.||+||.|-|+..+.++|||.+|+|-+-
T Consensus 316 ~Sr-vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRkG 364 (400)
T KOG0328|consen 316 KSR-VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRKG 364 (400)
T ss_pred Cce-EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCcc
Confidence 333 4999999999999999999999999999999999999999999764
No 66
>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=99.48 E-value=1.9e-13 Score=166.56 Aligned_cols=115 Identities=20% Similarity=0.140 Sum_probs=100.8
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+.++++.+.+....|..||||+.+....+.|...|.+ .|+++..++|. ..+|...+-.|...+
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 3578888888888888899999999999999999999985 68999999998 669999999997632
Q ss_pred cceeeEEEeeeccccccceecc-------cceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHS-------ANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~-------An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+. ++|+|..+|.|+++.. .-+||.+++|-|+..+.|++||+.|.|+.=.
T Consensus 454 -g~---VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~ 509 (745)
T TIGR00963 454 -GA---VTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGS 509 (745)
T ss_pred -ce---EEEEeccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcc
Confidence 22 5899999999999987 6699999999999999999999999998643
No 67
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.47 E-value=5.4e-13 Score=159.05 Aligned_cols=310 Identities=17% Similarity=0.199 Sum_probs=207.4
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~ 642 (1097)
...||-|.++|..++ .+..+|.-..+|-||++ +..|-+++. .+.+|||.| -+|+..-.
T Consensus 16 ~~FR~gQ~evI~~~l--------------~g~d~lvvmPTGgGKSl--CyQiPAll~-----~G~TLVVSPLiSLM~DQV 74 (590)
T COG0514 16 ASFRPGQQEIIDALL--------------SGKDTLVVMPTGGGKSL--CYQIPALLL-----EGLTLVVSPLISLMKDQV 74 (590)
T ss_pred cccCCCHHHHHHHHH--------------cCCcEEEEccCCCCcch--HhhhHHHhc-----CCCEEEECchHHHHHHHH
Confidence 346888888887764 35788999999999995 344444443 258999999 67888888
Q ss_pred HhhcccccCCCcccEEEeeccc-chhHHHHHHHHHHh-cCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 643 QEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~-~~~~r~~~l~~~~~-~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
+.+.... +.+..++.. +...+...+..... ..+++.++.+.+.+- .+.+ .+......+++
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---------RFLE---LLKRLPISLVA 136 (590)
T ss_pred HHHHHcC------ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcCh---------HHHH---HHHhCCCceEE
Confidence 8776543 444444443 55566655555433 247888888887641 1222 22245889999
Q ss_pred ecccchhccc-------chhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCCccc
Q 001337 721 CDEAHMIKNT-------RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 793 (1097)
Q Consensus 721 iDEAH~iKN~-------~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g~~~ 793 (1097)
|||||.+-.. ...+......+....+++||||--.--..|+..++..-.+.. |...|..|
T Consensus 137 IDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~------~~~sfdRp------- 203 (590)
T COG0514 137 IDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANI------FRGSFDRP------- 203 (590)
T ss_pred echHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcce------EEecCCCc-------
Confidence 9999987533 234444445556668899988865545555555544322211 11111111
Q ss_pred CCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhh
Q 001337 794 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1097)
Q Consensus 794 ~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~ 873 (1097)
.....++... ++.
T Consensus 204 --------------------------------------Ni~~~v~~~~-~~~---------------------------- 216 (590)
T COG0514 204 --------------------------------------NLALKVVEKG-EPS---------------------------- 216 (590)
T ss_pred --------------------------------------hhhhhhhhcc-cHH----------------------------
Confidence 0000000000 000
Q ss_pred hhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccc
Q 001337 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1097)
Q Consensus 874 l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1097)
T Consensus 217 -------------------------------------------------------------------------------- 216 (590)
T COG0514 217 -------------------------------------------------------------------------------- 216 (590)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHh
Q 001337 954 KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVER 1033 (1097)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~ 1033 (1097)
.++..|.+ .....+...|||+.+....+.|.++|.. .|+....++|+++.++|....++
T Consensus 217 ------~q~~fi~~---~~~~~~~~GIIYc~sRk~~E~ia~~L~~------------~g~~a~~YHaGl~~~eR~~~q~~ 275 (590)
T COG0514 217 ------DQLAFLAT---VLPQLSKSGIIYCLTRKKVEELAEWLRK------------NGISAGAYHAGLSNEERERVQQA 275 (590)
T ss_pred ------HHHHHHHh---hccccCCCeEEEEeeHHhHHHHHHHHHH------------CCCceEEecCCCCHHHHHHHHHH
Confidence 00111111 0112234579999999999999999995 58999999999999999999999
Q ss_pred hcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccccC
Q 001337 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLTG 1097 (1097)
Q Consensus 1034 Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr~ 1097 (1097)
|.++ .++ ++++|.|.|.|||=++...||+||+|-+...+.|=+|||+|-|....+++.++
T Consensus 276 f~~~---~~~-iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~aill~~ 335 (590)
T COG0514 276 FLND---EIK-VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAILLYS 335 (590)
T ss_pred HhcC---CCc-EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEEEeec
Confidence 9974 232 58889999999999999999999999999999999999999999888776543
No 68
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.46 E-value=6.8e-13 Score=164.21 Aligned_cols=115 Identities=18% Similarity=0.158 Sum_probs=100.4
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
...|+.+|++.+......+.++|||+.+....+.|...|.+ .|+++..++|.+...++..+..+|+.
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 34688899999987767799999999999999999999985 68999999999887777777777664
Q ss_pred ccceeeEEEeeecccccccee---cccc-----eEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1038 LNKRVKCTLISTRAGSLGINL---HSAN-----RVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL---~~An-----~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+. ++|+|..+|.|+++ .... +||.+|.|-|+..+.|++||+.|.|+.=
T Consensus 477 --g~---VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G 532 (790)
T PRK09200 477 --GA---VTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPG 532 (790)
T ss_pred --Ce---EEEEccchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCe
Confidence 33 58999999999999 4677 9999999999999999999999999764
No 69
>COG4889 Predicted helicase [General function prediction only]
Probab=99.44 E-value=4.8e-13 Score=158.34 Aligned_cols=173 Identities=21% Similarity=0.279 Sum_probs=105.0
Q ss_pred cceecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 554 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 554 ~~v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
-.+.+|..-..++||||..++....+.+. ....|=|-..+|+|||++++-+...+.. .++|.+|
T Consensus 150 ~~~nl~l~~~kk~R~hQq~Aid~a~~~F~----------~n~RGkLIMAcGTGKTfTsLkisEala~------~~iL~Lv 213 (1518)
T COG4889 150 LQDNLPLKKPKKPRPHQQTAIDAAKEGFS----------DNDRGKLIMACGTGKTFTSLKISEALAA------ARILFLV 213 (1518)
T ss_pred cccccccCCCCCCChhHHHHHHHHHhhcc----------cccCCcEEEecCCCccchHHHHHHHHhh------hheEeec
Confidence 34567777788999999999987766542 2345567778999999999988776643 4899999
Q ss_pred ch-hhhhhhHHhhcccccCCCcccEEEeecccc---------------hhHHHHHHHHHHh-----cCcEEEEeeccccc
Q 001337 634 PV-NVLHNWKQEFMKWRPSELKPLRVFMLEDVS---------------RDRRAELLAKWRA-----KGGVFLIGYTAFRN 692 (1097)
Q Consensus 634 P~-sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~---------------~~~r~~~l~~~~~-----~~~VvIitY~~~r~ 692 (1097)
|. +|+.|-.+|+..-....+...-|+.-...+ .......+..|.. .--|++.||+++-.
T Consensus 214 PSIsLLsQTlrew~~~~~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~ 293 (1518)
T COG4889 214 PSISLLSQTLREWTAQKELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPR 293 (1518)
T ss_pred chHHHHHHHHHHHhhccCccceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHH
Confidence 95 577775555432211111222222221111 1222233444422 22478889988643
Q ss_pred cccCcCCcchhhHHHHHHHhccCCCEEEecccchhccc------chhHHHH--HhhhccceeeeeccCcc
Q 001337 693 LSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNT------RADTTQA--LKQVKCQRRIALTGSPL 754 (1097)
Q Consensus 693 l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~------~S~~~ka--l~~l~a~~RllLTGTPi 754 (1097)
+ .+....-..+||+|||||||+--+. .|..++. -..+++.+|+-|||||-
T Consensus 294 i------------~eAQe~G~~~fDliicDEAHRTtGa~~a~dd~saFt~vHs~~niKa~kRlYmTATPk 351 (1518)
T COG4889 294 I------------KEAQEAGLDEFDLIICDEAHRTTGATLAGDDKSAFTRVHSDQNIKAAKRLYMTATPK 351 (1518)
T ss_pred H------------HHHHHcCCCCccEEEecchhccccceecccCcccceeecCcchhHHHHhhhcccCch
Confidence 1 1222223348999999999975321 1222221 23557889999999993
No 70
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.44 E-value=1.2e-12 Score=147.49 Aligned_cols=117 Identities=20% Similarity=0.322 Sum_probs=103.3
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
.-|+..|+++|... ..+|+|||-..-...++...+|..+ ...+.++-++|.++...|.+.+..|.+..
T Consensus 240 ~eK~~~lv~~L~~~--~~kK~iVFF~TCasVeYf~~~~~~~----------l~~~~i~~iHGK~~q~~R~k~~~~F~~~~ 307 (567)
T KOG0345|consen 240 DEKLSQLVHLLNNN--KDKKCIVFFPTCASVEYFGKLFSRL----------LKKREIFSIHGKMSQKARAKVLEAFRKLS 307 (567)
T ss_pred HHHHHHHHHHHhcc--ccccEEEEecCcchHHHHHHHHHHH----------hCCCcEEEecchhcchhHHHHHHHHHhcc
Confidence 45888899999873 4589999999999999999999864 36788999999999999999999999843
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
++ +|++|++++.||++++.+.||.||||-+|....++.||..|.|..-.
T Consensus 308 ~~----vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~ 356 (567)
T KOG0345|consen 308 NG----VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGN 356 (567)
T ss_pred Cc----eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccc
Confidence 32 59999999999999999999999999999999999999999996543
No 71
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.43 E-value=4.4e-13 Score=165.07 Aligned_cols=320 Identities=16% Similarity=0.155 Sum_probs=202.7
Q ss_pred cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhcc-c---cceeeEeecchh-h
Q 001337 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN-L---GLRTALIVTPVN-V 637 (1097)
Q Consensus 563 ~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~-~---~~k~~LIV~P~s-L 637 (1097)
...+.|+|..++... ..|.+.++..++|.|||..|+.-+...+.... . ..-.+|-|.|.- |
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 356889999887655 36889999999999999988766555443331 1 113589999944 4
Q ss_pred hhhhHHhhcccccCCCcccEEEeecccch-hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCC
Q 001337 638 LHNWKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 716 (1097)
Q Consensus 638 v~qW~~Ei~k~~p~~~~~l~V~~~~~~~~-~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~ 716 (1097)
-..-..-+..|... ..+.+.+-+|... ..|.... .+.++|+|||.+++..+..... + ...+ .+-
T Consensus 86 n~Di~~rL~~~~~~--~G~~v~vRhGDT~~~er~r~~---~~PPdILiTTPEsL~lll~~~~-----~----r~~l-~~v 150 (814)
T COG1201 86 NNDIRRRLEEPLRE--LGIEVAVRHGDTPQSEKQKML---KNPPHILITTPESLAILLNSPK-----F----RELL-RDV 150 (814)
T ss_pred HHHHHHHHHHHHHH--cCCccceecCCCChHHhhhcc---CCCCcEEEeChhHHHHHhcCHH-----H----HHHh-cCC
Confidence 44444455544432 2245555454433 3333222 3578999999999976544321 1 1111 166
Q ss_pred CEEEecccchhcccc--hhHHHHHhhh---c-cceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCCCCCC
Q 001337 717 DILVCDEAHMIKNTR--ADTTQALKQV---K-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENG 790 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~--S~~~kal~~l---~-a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~g 790 (1097)
.+||+||.|.+.+.+ ++++-.+.++ . ...||+||||=- ++. -...||.+.--
T Consensus 151 r~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSATV~--~~~---~varfL~g~~~----------------- 208 (814)
T COG1201 151 RYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSATVG--PPE---EVAKFLVGFGD----------------- 208 (814)
T ss_pred cEEEeehhhhhhccccchhhhhhHHHHHhhCcccEEEeehhccC--CHH---HHHHHhcCCCC-----------------
Confidence 789999999998654 5666666665 2 367999999942 222 22333321100
Q ss_pred cccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHH
Q 001337 791 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 870 (1097)
Q Consensus 791 ~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~ 870 (1097)
....+......+....+.++-..... +
T Consensus 209 -------------------------------~~~Iv~~~~~k~~~i~v~~p~~~~~~--~-------------------- 235 (814)
T COG1201 209 -------------------------------PCEIVDVSAAKKLEIKVISPVEDLIY--D-------------------- 235 (814)
T ss_pred -------------------------------ceEEEEcccCCcceEEEEecCCcccc--c--------------------
Confidence 00000000111111111000000000 0
Q ss_pred HhhhhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhc
Q 001337 871 KSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHE 950 (1097)
Q Consensus 871 ~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~ 950 (1097)
T Consensus 236 -------------------------------------------------------------------------------- 235 (814)
T COG1201 236 -------------------------------------------------------------------------------- 235 (814)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHH
Q 001337 951 HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1030 (1097)
Q Consensus 951 ~~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~ 1030 (1097)
..=...+.+.|.++.+....+|||++...+...+...|.++ .+..+..-|||.+.++|...
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 00001233333344444568999999999999999999873 34788899999999999999
Q ss_pred HHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHH-hhhccc
Q 001337 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRA-WRCMDK 1089 (1097)
Q Consensus 1031 i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa-~RiGQk 1089 (1097)
-++|.+ +..++ +++|.....||+.-..+.||.+.+|-.-+...|++||+ ||+|..
T Consensus 297 E~~lk~---G~lra-vV~TSSLELGIDiG~vdlVIq~~SP~sV~r~lQRiGRsgHr~~~~ 352 (814)
T COG1201 297 EERLKE---GELKA-VVATSSLELGIDIGDIDLVIQLGSPKSVNRFLQRIGRAGHRLGEV 352 (814)
T ss_pred HHHHhc---CCceE-EEEccchhhccccCCceEEEEeCCcHHHHHHhHhccccccccCCc
Confidence 999998 44553 77888999999999999999999999999999999998 456654
No 72
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.43 E-value=2.5e-12 Score=156.20 Aligned_cols=115 Identities=17% Similarity=0.156 Sum_probs=96.5
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|..+|.+++......+..+|||+.+....+.|...|.+ .|+++..|+|.+. +|++.+..|....
T Consensus 456 ~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~------------~gi~~~~Lhg~~~--~rE~~ii~~ag~~ 521 (656)
T PRK12898 456 AAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLRE------------AGLPHQVLNAKQD--AEEAAIVARAGQR 521 (656)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCEEEeeCCcH--HHHHHHHHHcCCC
Confidence 4588899999988776778999999999999999999985 6899999999865 5666666665421
Q ss_pred cceeeEEEeeeccccccceec---ccc-----eEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~---~An-----~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+. ++|+|..+|.|+++. ... +||.+|.|-|+..+.|++||+.|.|..=.
T Consensus 522 -g~---VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~ 578 (656)
T PRK12898 522 -GR---ITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGS 578 (656)
T ss_pred -Cc---EEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeE
Confidence 22 589999999999998 444 99999999999999999999999997643
No 73
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.43 E-value=1.8e-12 Score=168.94 Aligned_cols=108 Identities=19% Similarity=0.154 Sum_probs=85.0
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCC----------------CCcc-----cccCCceeeccCCccchHHHHHHHh
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGK----------------QGKL-----WKKGKDWYRLDGRTESSERQKLVER 1033 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~----------------~~~~-----~~~Gi~~~ridGsts~~eR~~~i~~ 1033 (1097)
.+.++|||+++....+.+...|.+...... .+.. -........++|+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 367899999999999999998876421000 0000 0001124568899999999999999
Q ss_pred hcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhh
Q 001337 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1034 Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~Ri 1086 (1097)
|++ +.++ +|++|.+.+.|||+...+.||+++.|.+.+...|++||++|.
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 997 4555 588999999999999999999999999999999999999985
No 74
>PRK09401 reverse gyrase; Reviewed
Probab=99.41 E-value=4e-12 Score=165.16 Aligned_cols=103 Identities=17% Similarity=0.135 Sum_probs=81.9
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCc---hhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~---ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
.|...|.+++... +..+|||++.... ++.|..+|.. .|+++..++|++ .+.+++|.+
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 3556677777644 4689999999888 9999999985 689999999998 234699997
Q ss_pred cccceeeEEEee---eccccccceecc-cceEEEEcCCc------CCcccHHHHHHHhh
Q 001337 1037 PLNKRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW------NPTYDLQAIYRAWR 1085 (1097)
Q Consensus 1037 ~~n~~v~VlLiS---tkagg~GLNL~~-An~VIi~D~~W------NP~~~~QAiGRa~R 1085 (1097)
+.++||+.+ |.+++.|||++. ..+||||+.|- .......++||.-.
T Consensus 375 ---G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~ 430 (1176)
T PRK09401 375 ---GEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLS 430 (1176)
T ss_pred ---CCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHHHHHHHh
Confidence 566766665 789999999998 89999999996 45556777888754
No 75
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.40 E-value=6.3e-12 Score=156.77 Aligned_cols=100 Identities=20% Similarity=0.225 Sum_probs=78.5
Q ss_pred EecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCcc--chHHHHHHHhhcccccceeeEEEeeeccccccceec
Q 001337 982 FSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE--SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLH 1059 (1097)
Q Consensus 982 FSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts--~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~ 1059 (1097)
|..+....+.+++.|.++ ..+.++.++||.+. ..+++++++.|.+ +.+. +|++|...+.|+|++
T Consensus 432 l~~~g~G~e~~~e~l~~~----------fp~~~v~~~~~d~~~~~~~~~~~l~~f~~---g~~~-ILVgT~~iakG~d~p 497 (679)
T PRK05580 432 LVPVGPGTERLEEELAEL----------FPEARILRIDRDTTRRKGALEQLLAQFAR---GEAD-ILIGTQMLAKGHDFP 497 (679)
T ss_pred eEEeeccHHHHHHHHHHh----------CCCCcEEEEeccccccchhHHHHHHHHhc---CCCC-EEEEChhhccCCCCC
Confidence 445556678888888874 35788999999986 4578999999997 3333 478899999999999
Q ss_pred ccceEEEEcCC---cCC---------cccHHHHHHHhhhccccccccc
Q 001337 1060 SANRVIIVDGS---WNP---------TYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1060 ~An~VIi~D~~---WNP---------~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
..+.|+++|.+ ..| ....|+.||+.|.|..-.|++.
T Consensus 498 ~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~viiq 545 (679)
T PRK05580 498 NVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGEVLIQ 545 (679)
T ss_pred CcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCEEEEE
Confidence 99999988865 333 4579999999998776666653
No 76
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.39 E-value=4.4e-12 Score=144.18 Aligned_cols=114 Identities=16% Similarity=0.203 Sum_probs=101.3
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..++.+|..+|++.... .|||||.....+..+....|.. -.+++..|+|+.++..|.....+|...+
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 34567788888876653 8999999999999999999986 4788999999999999999999999853
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
. .+|++|++++.|+|++..+-||-||||-+|..+++|+||..|-|-+
T Consensus 381 s----gIL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~ 427 (543)
T KOG0342|consen 381 S----GILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE 427 (543)
T ss_pred c----ceEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC
Confidence 3 2799999999999999999999999999999999999999997754
No 77
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.39 E-value=1.8e-12 Score=163.69 Aligned_cols=332 Identities=17% Similarity=0.159 Sum_probs=211.9
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHh
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQE 644 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~E 644 (1097)
|++||.++++.++ .|...|+.-.||.|||..-+..|...+.... ..+.|+|-|.+ |...-.+.
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 9999999998883 5689999999999999876555544443322 24889999955 77788888
Q ss_pred hcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEeccc
Q 001337 645 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 724 (1097)
Q Consensus 645 i~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEA 724 (1097)
|.+|.......+.+..|+|.....+... -.....+|++|+|+|+..+....+.. ..++..++.+||+||+
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~~--~~~~pp~IllTNpdMLh~~llr~~~~--------~~~~~~~Lk~lVvDEl 204 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERRA--IIRNPPDILLTNPDMLHYLLLRNHDA--------WLWLLRNLKYLVVDEL 204 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHHH--HHhCCCCEEEeCHHHHHHHhccCcch--------HHHHHhcCcEEEEecc
Confidence 9888765444578888888766554422 23467899999999986422221111 1112225889999999
Q ss_pred chhccc-chhHHHHHhhhc--------cceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhhhccCC-CCCCcccC
Q 001337 725 HMIKNT-RADTTQALKQVK--------CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNP-IENGQHTN 794 (1097)
Q Consensus 725 H~iKN~-~S~~~kal~~l~--------a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~~f~~p-i~~g~~~~ 794 (1097)
|..++. .|.++-.+++|. ....++.|||- ++..+|...+..- +..-
T Consensus 205 HtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~--------------------~np~e~~~~l~~~~f~~~---- 260 (851)
T COG1205 205 HTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATL--------------------ANPGEFAEELFGRDFEVP---- 260 (851)
T ss_pred eeccccchhHHHHHHHHHHHHHhccCCCceEEEEeccc--------------------cChHHHHHHhcCCcceee----
Confidence 998864 466666666662 23458888883 2223333222110 0000
Q ss_pred CcccchhhcccchhHHHHHHhhHHhhhchhhhcc-CCCCceEEEEEEecChHHHHHHHHhhhhcCCcccccchHHHHHhh
Q 001337 795 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 873 (1097)
Q Consensus 795 s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~-~LP~k~e~vv~v~Ls~~Q~~lY~~il~~~~~~~~~~~~~~~~~~~ 873 (1097)
+.. ..|....+++.- ..+....-+.
T Consensus 261 -------------------------------v~~~g~~~~~~~~~~~-~p~~~~~~~~---------------------- 286 (851)
T COG1205 261 -------------------------------VDEDGSPRGLRYFVRR-EPPIRELAES---------------------- 286 (851)
T ss_pred -------------------------------ccCCCCCCCceEEEEe-CCcchhhhhh----------------------
Confidence 000 011111111110 0000000000
Q ss_pred hhhHHHHHHHhcCcceeeecccCCCCCccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccc
Q 001337 874 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 953 (1097)
Q Consensus 874 l~~l~~Lrqi~~hP~Ll~~~~~~~~~~~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 953 (1097)
T Consensus 287 -------------------------------------------------------------------------------- 286 (851)
T COG1205 287 -------------------------------------------------------------------------------- 286 (851)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHh
Q 001337 954 KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVER 1033 (1097)
Q Consensus 954 ~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~ 1033 (1097)
..-++...+..++......+-|.|+|+.+...+..+.......-.. .+ ......+....|++...+|.++...
T Consensus 287 ---~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~--~~--~~l~~~v~~~~~~~~~~er~~ie~~ 359 (851)
T COG1205 287 ---IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVR--EG--GKLLDAVSTYRAGLHREERRRIEAE 359 (851)
T ss_pred ---cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhh--cc--hhhhhheeeccccCCHHHHHHHHHH
Confidence 0012333445556666677899999999999988886222211000 00 0123557788899999999999999
Q ss_pred hcccccceeeEEEeeeccccccceecccceEEEEcCCc-CCcccHHHHHHHhhhcccccc
Q 001337 1034 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRCMDKQSQ 1092 (1097)
Q Consensus 1034 Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~W-NP~~~~QAiGRa~RiGQkK~V 1092 (1097)
|+. +++. ++++|.|.-.|+++-..+.||..-.|- .-....|+.||++|-||.-.+
T Consensus 360 ~~~---g~~~-~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~ 415 (851)
T COG1205 360 FKE---GELL-GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLV 415 (851)
T ss_pred Hhc---CCcc-EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCceE
Confidence 998 3442 589999999999999999999998887 567889999999999976553
No 78
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.39 E-value=3e-12 Score=145.78 Aligned_cols=118 Identities=20% Similarity=0.213 Sum_probs=105.8
Q ss_pred cccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhc
Q 001337 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn 1035 (1097)
+..+.|...|+++|... ....+|||.+....++.|.+.|.+ .|+.+++++|+-++++|..++..|.
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 34567888999999876 458999999999999999999996 5899999999999999999999999
Q ss_pred ccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1036 ~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+.. .. +|+.|+++|.||+++..++||.||..-+-..+.++|||.+|-||.-.
T Consensus 565 ~~t---~d-IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gt 616 (673)
T KOG0333|consen 565 EGT---GD-ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGT 616 (673)
T ss_pred hcC---CC-EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCce
Confidence 842 22 58999999999999999999999999999999999999999998754
No 79
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.38 E-value=4.6e-12 Score=144.48 Aligned_cols=126 Identities=21% Similarity=0.306 Sum_probs=95.3
Q ss_pred ceehhhHHHhhhccC--CCceeEEecCCCchhHHHHHHhcCCCC---------CCCC-cccccCCceeeccCCccchHHH
Q 001337 961 KMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRP---------GKQG-KLWKKGKDWYRLDGRTESSERQ 1028 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~--geKVLIFSq~~~~ld~L~~~L~~l~~~---------~~~~-~~~~~Gi~~~ridGsts~~eR~ 1028 (1097)
++..|..+|...... ..|+|||-...++++.=..+|.....+ ...| ..-.-+..+++++|+|++++|.
T Consensus 408 RLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRt 487 (708)
T KOG0348|consen 408 RLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERT 487 (708)
T ss_pred hHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHH
Confidence 445566666655332 358899988888777666655432111 0011 1112356699999999999999
Q ss_pred HHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1029 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1029 ~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
..+..|.... + .+|++|++++.||+|+...-||-||||..++.+..+|||.-|+|-+-
T Consensus 488 s~f~~Fs~~~--~--~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG 545 (708)
T KOG0348|consen 488 SVFQEFSHSR--R--AVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKG 545 (708)
T ss_pred HHHHhhcccc--c--eEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCC
Confidence 9999999842 2 27999999999999999999999999999999999999999999653
No 80
>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=99.38 E-value=1.4e-12 Score=151.29 Aligned_cols=87 Identities=16% Similarity=0.261 Sum_probs=68.0
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.|+|||+.....++.+...|... ..++.+..++|.++..+|.+.. .. .+|++|.+.+.
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 4689999999999999999999852 1246778999999988887543 11 26899999999
Q ss_pred cceecccceEEEEcCCcCCcccHHHHHHHh
Q 001337 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAW 1084 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~WNP~~~~QAiGRa~ 1084 (1097)
|||+... .|| ++ +-++....|++||++
T Consensus 331 GiDi~~~-~vi-~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 331 GVDFKRD-WLI-FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred ccCCCCc-eEE-EC-CCCHHHHhhhcccCC
Confidence 9999864 665 56 456778888888863
No 81
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.38 E-value=5e-12 Score=146.01 Aligned_cols=117 Identities=22% Similarity=0.268 Sum_probs=100.4
Q ss_pred CcceehhhHHHhhhccC-------CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHH
Q 001337 959 SGKMVLLLDILTMCSNM-------GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV 1031 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~-------geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i 1031 (1097)
..|...|+++|...... .++++||...+..++.+..+|.. .++++..|+|..+..+|.+.+
T Consensus 313 ~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~------------~~~~~~sIhg~~tq~er~~al 380 (482)
T KOG0335|consen 313 MEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSS------------NGYPAKSIHGDRTQIEREQAL 380 (482)
T ss_pred hhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhc------------CCCCceeecchhhhhHHHHHH
Confidence 44556666666644311 25999999999999999999985 689999999999999999999
Q ss_pred HhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1032 ERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1032 ~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+.|.+ ++.. +|+.|.+++.|||.....|||+||.|-+-..+..+|||.+|.|+.-.
T Consensus 381 ~~Fr~---g~~p-vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~ 436 (482)
T KOG0335|consen 381 NDFRN---GKAP-VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGR 436 (482)
T ss_pred HHhhc---CCcc-eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCce
Confidence 99998 4444 58899999999999999999999999999999999999999998644
No 82
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.37 E-value=5.5e-12 Score=144.24 Aligned_cols=121 Identities=19% Similarity=0.309 Sum_probs=106.4
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
.-|+.+|...|..+.. .|.|||-.+-..+.++.+.+..+ +.|++.+-++|.+++..|.++.++|...
T Consensus 298 ~~Ki~~L~sFI~shlk--~K~iVF~SscKqvkf~~e~F~rl----------rpg~~l~~L~G~~~Q~~R~ev~~~F~~~- 364 (758)
T KOG0343|consen 298 EDKIDMLWSFIKSHLK--KKSIVFLSSCKQVKFLYEAFCRL----------RPGIPLLALHGTMSQKKRIEVYKKFVRK- 364 (758)
T ss_pred hhHHHHHHHHHHhccc--cceEEEEehhhHHHHHHHHHHhc----------CCCCceeeeccchhHHHHHHHHHHHHHh-
Confidence 3588888888887664 89999999999999999999876 5899999999999999999999999873
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
. .++|++|++++.||++++.|.||-+|-|-+-..+++++||.-|++-.-..++|
T Consensus 365 -~--~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~ 418 (758)
T KOG0343|consen 365 -R--AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLM 418 (758)
T ss_pred -c--ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEE
Confidence 2 35799999999999999999999999999999999999999999866554443
No 83
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.37 E-value=2.2e-12 Score=160.81 Aligned_cols=153 Identities=14% Similarity=0.138 Sum_probs=107.5
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~ 643 (1097)
+|+|+|..+|.-.+ ..+.++|++-++|.|||+.|...|...+..+ .++++-||| ++|..+=..
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 89999998886442 1268999999999999988877766655443 358999999 678888888
Q ss_pred hhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecc
Q 001337 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 723 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDE 723 (1097)
||.+|-.- .++|....|...... .+....+|+|+||+.+-++...... +....++||+||
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 99855433 378888877654332 3446789999999998654322111 223678999999
Q ss_pred cchhccc-c-----hhHHHHHhhhccceeeeeccCc
Q 001337 724 AHMIKNT-R-----ADTTQALKQVKCQRRIALTGSP 753 (1097)
Q Consensus 724 AH~iKN~-~-----S~~~kal~~l~a~~RllLTGTP 753 (1097)
+|.+... . +-+++....-..-+.++||||-
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 2223322222335789999994
No 84
>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=99.36 E-value=1.5e-11 Score=148.25 Aligned_cols=95 Identities=24% Similarity=0.252 Sum_probs=74.5
Q ss_pred CchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHH--HHHHHhhcccccceeeEEEeeeccccccceecccceE
Q 001337 987 PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER--QKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRV 1064 (1097)
Q Consensus 987 ~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR--~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~V 1064 (1097)
...+.+++.|.+. ..+.++.++|+.++..++ .++++.|.+ +.+. +|++|...+.|+|+...+.|
T Consensus 269 ~Gte~~~e~l~~~----------fp~~~v~~~d~d~~~~~~~~~~~l~~f~~---g~~~-ILVgT~~i~kG~d~~~v~lV 334 (505)
T TIGR00595 269 YGTEQVEEELAKL----------FPGARIARIDSDTTSRKGAHEALLNQFAN---GKAD-ILIGTQMIAKGHHFPNVTLV 334 (505)
T ss_pred ccHHHHHHHHHhh----------CCCCcEEEEecccccCccHHHHHHHHHhc---CCCC-EEEeCcccccCCCCCcccEE
Confidence 3467888888864 257889999999887665 899999997 3333 58889999999999999999
Q ss_pred EEEcCCc---CC---------cccHHHHHHHhhhccccccccc
Q 001337 1065 IIVDGSW---NP---------TYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1065 Ii~D~~W---NP---------~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
+++|.+- .| ....|+.||+.|.+..-.|+|.
T Consensus 335 ~vl~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiq 377 (505)
T TIGR00595 335 GVLDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQ 377 (505)
T ss_pred EEEcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEE
Confidence 8887652 23 4579999999998776666643
No 85
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.35 E-value=6.5e-12 Score=154.71 Aligned_cols=105 Identities=19% Similarity=0.255 Sum_probs=80.4
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+.++|||......++.+.+.|... ..++.+..++|++++ +++.+++|.. +++.+ +|++|..++.|
T Consensus 395 ~g~iLVFlpg~~ei~~l~~~L~~~----------~~~~~v~~LHG~Lsq--~eq~l~~ff~--~gk~k-ILVATdIAERG 459 (675)
T PHA02653 395 GSSGIVFVASVSQCEEYKKYLEKR----------LPIYDFYIIHGKVPN--IDEILEKVYS--SKNPS-IIISTPYLESS 459 (675)
T ss_pred CCcEEEEECcHHHHHHHHHHHHhh----------cCCceEEeccCCcCH--HHHHHHHHhc--cCcee-EEeccChhhcc
Confidence 568999999999999999999852 136889999999984 4677788742 24444 68999999999
Q ss_pred ceecccceEEEEcCCc------------CCcccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGSW------------NPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~W------------NP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+.++||.++... +.+...||.||++|.+.-.-+..|
T Consensus 460 IDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~~~G~c~rLy 511 (675)
T PHA02653 460 VTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRVSPGTYVYFY 511 (675)
T ss_pred ccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCCCCCeEEEEE
Confidence 9999999999997222 445678999999998443444444
No 86
>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=99.34 E-value=2e-12 Score=127.05 Aligned_cols=139 Identities=17% Similarity=0.139 Sum_probs=94.8
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh-hhhhHHhhcccccCCCcccEEEeecccchhHHHHHHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLA 674 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL-v~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~ 674 (1097)
++++.+++|.|||.+++.++....... ..+++||++|... +.+|...+.++... ...+..+.+...... ...
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~--~~~~~lv~~p~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~--~~~ 74 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSL--KGGQVLVLAPTRELANQVAERLKELFGE---GIKVGYLIGGTSIKQ--QEK 74 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcc--cCCCEEEEcCcHHHHHHHHHHHHHHhhC---CcEEEEEecCcchhH--HHH
Confidence 578999999999999999998876652 2469999999775 55667777777753 244444444332211 112
Q ss_pred HHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHH---HHHhhhccceeeeecc
Q 001337 675 KWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTT---QALKQVKCQRRIALTG 751 (1097)
Q Consensus 675 ~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~---kal~~l~a~~RllLTG 751 (1097)
.+....++++++|+++....... ......+++||+||+|.+.+...... .........++++|||
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 33456789999999875321110 01233799999999999988765443 3334457788999999
Q ss_pred Cc
Q 001337 752 SP 753 (1097)
Q Consensus 752 TP 753 (1097)
||
T Consensus 143 Tp 144 (144)
T cd00046 143 TP 144 (144)
T ss_pred cC
Confidence 98
No 87
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.33 E-value=3.7e-12 Score=147.42 Aligned_cols=112 Identities=24% Similarity=0.272 Sum_probs=97.5
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|++.|-+++..+. -...|||+....-.+-|..+|.. .|+++..|.|.|++.+|..+++.+++ -
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 4445555555442 25679999999999999999985 79999999999999999999999986 5
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+++ +|+||+..+.||+-..+|-||++|++-+...+.++|||++|+|..-
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 5899999999999999999999999999999999999999999753
No 88
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.33 E-value=8.3e-13 Score=137.88 Aligned_cols=162 Identities=22% Similarity=0.235 Sum_probs=108.9
Q ss_pred cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhh
Q 001337 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNW 641 (1097)
Q Consensus 563 ~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW 641 (1097)
...++|||.+++..++. ....+++..++|+|||..++.++........ .+++||++| ..+..||
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 35689999999887742 1168899999999999987777776655432 358999999 6688899
Q ss_pred HHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcC-cEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKG-GVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 642 ~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~-~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
..++.++++... ......+++... ...+..+.... ++++++|+.+........ .....++++|
T Consensus 71 ~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~------------~~~~~~~~iI 134 (201)
T smart00487 71 AEELKKLGPSLG-LKVVGLYGGDSK---REQLRKLESGKTDILVTTPGRLLDLLENDL------------LELSNVDLVI 134 (201)
T ss_pred HHHHHHHhccCC-eEEEEEeCCcch---HHHHHHHhcCCCCEEEeChHHHHHHHHcCC------------cCHhHCCEEE
Confidence 999998876421 133444444332 22233344444 899999988764221111 1223788999
Q ss_pred ecccchhcc-cchhHH-HHHhhh-ccceeeeeccCccc
Q 001337 721 CDEAHMIKN-TRADTT-QALKQV-KCQRRIALTGSPLQ 755 (1097)
Q Consensus 721 iDEAH~iKN-~~S~~~-kal~~l-~a~~RllLTGTPiq 755 (1097)
+||+|++.+ ...... ..+..+ ...+++++||||..
T Consensus 135 iDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~ 172 (201)
T smart00487 135 LDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172 (201)
T ss_pred EECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCch
Confidence 999999986 333333 333444 57889999999953
No 89
>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=99.33 E-value=4.9e-13 Score=120.14 Aligned_cols=74 Identities=35% Similarity=0.432 Sum_probs=68.8
Q ss_pred ccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhc
Q 001337 1010 KKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCM 1087 (1097)
Q Consensus 1010 ~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiG 1087 (1097)
..|+.+..++|+++..+|+.+++.|+.... .+|++|.++++|||++.+++||+++++||+..+.|++||++|.|
T Consensus 5 ~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~----~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 5 KKGIKVAIIHGDMSQKERQEILKKFNSGEI----RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp HTTSSEEEESTTSHHHHHHHHHHHHHTTSS----SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred HCCCcEEEEECCCCHHHHHHHHHHhhccCc----eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 368999999999999999999999998533 36888999999999999999999999999999999999999998
No 90
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.28 E-value=2.1e-11 Score=134.94 Aligned_cols=114 Identities=21% Similarity=0.232 Sum_probs=97.2
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+..+..++..+ ...+|||||+....++|-|..-|. ..|+..--++|.-.+.+|+.+++.|..
T Consensus 450 ~k~~~~~~f~~~m-s~ndKvIiFv~~K~~AD~LSSd~~------------l~gi~~q~lHG~r~Q~DrE~al~~~ks--- 513 (629)
T KOG0336|consen 450 EKLEIVQFFVANM-SSNDKVIIFVSRKVMADHLSSDFC------------LKGISSQSLHGNREQSDREMALEDFKS--- 513 (629)
T ss_pred HHHHHHHHHHHhc-CCCceEEEEEechhhhhhccchhh------------hcccchhhccCChhhhhHHHHHHhhhc---
Confidence 3554444444443 457999999999999888877665 479999999999999999999999997
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+.++ +|+.|+.++.||++....||+.||.|-|-..+.+++||.+|-|-+-
T Consensus 514 G~vr-ILvaTDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G 563 (629)
T KOG0336|consen 514 GEVR-ILVATDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTG 563 (629)
T ss_pred CceE-EEEEechhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCc
Confidence 6676 5889999999999999999999999999999999999999998664
No 91
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.25 E-value=8.5e-11 Score=128.88 Aligned_cols=114 Identities=20% Similarity=0.259 Sum_probs=98.6
Q ss_pred cceehhhHHHhhhcc-CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 960 GKMVLLLDILTMCSN-MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~-~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
.|-.+|..+|..... ....++||.|.+.+..+|...|.. -++++..+++.+++.+|-.++.+|..
T Consensus 237 vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~------------le~r~~~lHs~m~Q~eR~~aLsrFrs-- 302 (442)
T KOG0340|consen 237 VKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKN------------LEVRVVSLHSQMPQKERLAALSRFRS-- 302 (442)
T ss_pred hhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhh------------hceeeeehhhcchHHHHHHHHHHHhh--
Confidence 455567777776655 356799999999999999999986 47889999999999999999999998
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
..++ +||.|++++.||+++...-||++|.|-.|..+.+++||.-|-|-.
T Consensus 303 -~~~~-iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~ 351 (442)
T KOG0340|consen 303 -NAAR-ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRK 351 (442)
T ss_pred -cCcc-EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCC
Confidence 3344 589999999999999999999999999999999999998887743
No 92
>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=99.25 E-value=6.5e-11 Score=154.24 Aligned_cols=87 Identities=15% Similarity=0.182 Sum_probs=71.5
Q ss_pred ehhhHHHhhhccCCCceeEEecCC---CchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 963 VLLLDILTMCSNMGDKSLVFSQSI---PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 963 ~~L~eiL~~~~~~geKVLIFSq~~---~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
..|.++|+.. +.++|||++.. ..++.|...|.. .|+++..++|.++ +..++.|.+
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 3566666543 57899999998 889999999985 5889999999986 378999997
Q ss_pred ceeeEEEee---eccccccceecc-cceEEEEcCCc
Q 001337 1040 KRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW 1071 (1097)
Q Consensus 1040 ~~v~VlLiS---tkagg~GLNL~~-An~VIi~D~~W 1071 (1097)
+.++||+.+ |.+++.|||++. .++||+||+|-
T Consensus 374 G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 374 GEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred CCCCEEEEeccccCcccccCCCCccccEEEEECCCC
Confidence 666766665 689999999998 79999999873
No 93
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.24 E-value=1.2e-10 Score=145.74 Aligned_cols=105 Identities=16% Similarity=0.151 Sum_probs=88.0
Q ss_pred ccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccc
Q 001337 973 SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAG 1052 (1097)
Q Consensus 973 ~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkag 1052 (1097)
..+|.+|....+.+..+..+...|+.+ ....++...||.|+..+-++++..|.+ +++.| |++|...
T Consensus 800 l~RgGQvfYv~NrV~~Ie~~~~~L~~L----------VPEarI~vaHGQM~e~eLE~vM~~F~~---g~~dV-Lv~TTII 865 (1139)
T COG1197 800 LLRGGQVFYVHNRVESIEKKAERLREL----------VPEARIAVAHGQMRERELEEVMLDFYN---GEYDV-LVCTTII 865 (1139)
T ss_pred HhcCCEEEEEecchhhHHHHHHHHHHh----------CCceEEEEeecCCCHHHHHHHHHHHHc---CCCCE-EEEeeee
Confidence 345788888888889999999999876 356778999999999999999999997 55554 6677799
Q ss_pred cccceecccceEEEEcCC-cCCcccHHHHHHHhhhccccc
Q 001337 1053 SLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1053 g~GLNL~~An~VIi~D~~-WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
..||+++.||++|+-+.+ +--+..-|--|||+|-.++--
T Consensus 866 EtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS~~~AY 905 (1139)
T COG1197 866 ETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSNKQAY 905 (1139)
T ss_pred ecCcCCCCCceEEEeccccccHHHHHHhccccCCccceEE
Confidence 999999999999999876 566888999999999776543
No 94
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.22 E-value=7.5e-11 Score=129.92 Aligned_cols=113 Identities=22% Similarity=0.268 Sum_probs=94.4
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+++|.++.. .... ...|||++...++.+|...|.. .|+.+..++|.+..++|.+++++|+..
T Consensus 316 ~K~~~l~~lyg-~~ti-gqsiIFc~tk~ta~~l~~~m~~------------~Gh~V~~l~G~l~~~~R~~ii~~Fr~g-- 379 (477)
T KOG0332|consen 316 DKYQALVNLYG-LLTI-GQSIIFCHTKATAMWLYEEMRA------------EGHQVSLLHGDLTVEQRAAIIDRFREG-- 379 (477)
T ss_pred hHHHHHHHHHh-hhhh-hheEEEEeehhhHHHHHHHHHh------------cCceeEEeeccchhHHHHHHHHHHhcC--
Confidence 36666666332 2221 4679999999999999999985 699999999999999999999999983
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCc------CCcccHHHHHHHhhhcccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSW------NPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~W------NP~~~~QAiGRa~RiGQkK 1090 (1097)
..+ +||+|.+.+.||+.+..+.||+||.|- .+..+.+||||.+|+|-+-
T Consensus 380 -~~k-VLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG 434 (477)
T KOG0332|consen 380 -KEK-VLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKG 434 (477)
T ss_pred -cce-EEEEechhhcccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccc
Confidence 334 489999999999999999999999874 4577899999999999653
No 95
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.21 E-value=2.4e-10 Score=141.65 Aligned_cols=114 Identities=20% Similarity=0.160 Sum_probs=102.2
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|..++++.+.++...|..||||+.++...+.|..+|.+ .|+++..++|.....+|+.+.++|+.
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 4688899999998889999999999999999999999995 69999999999999999999999997
Q ss_pred cceeeEEEeeeccccccceec--------------------------------------ccceEEEEcCCcCCcccHHHH
Q 001337 1039 NKRVKCTLISTRAGSLGINLH--------------------------------------SANRVIIVDGSWNPTYDLQAI 1080 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~--------------------------------------~An~VIi~D~~WNP~~~~QAi 1080 (1097)
+. ++|+|..+|.|+++. +.=+||.-+.+-|--.+.|..
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 599999999999976 223788889999999999999
Q ss_pred HHHhhhcccc
Q 001337 1081 YRAWRCMDKQ 1090 (1097)
Q Consensus 1081 GRa~RiGQkK 1090 (1097)
||++|.|..=
T Consensus 569 GRaGRQGDPG 578 (896)
T PRK13104 569 GRAGRQGDPG 578 (896)
T ss_pred cccccCCCCC
Confidence 9999999753
No 96
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.21 E-value=1.4e-10 Score=131.94 Aligned_cols=107 Identities=21% Similarity=0.268 Sum_probs=91.6
Q ss_pred hhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeE
Q 001337 965 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1044 (1097)
Q Consensus 965 L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~V 1044 (1097)
|..++.... .+++|||.+.......+.-.|-- -|+.+..++|+.++.+|-+.+..|.+ ..+.
T Consensus 417 l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGL------------lgl~agElHGsLtQ~QRlesL~kFk~---~eid- 478 (691)
T KOG0338|consen 417 LASLITRTF--QDRTIVFVRTKKQAHRLRILLGL------------LGLKAGELHGSLTQEQRLESLEKFKK---EEID- 478 (691)
T ss_pred HHHHHHHhc--ccceEEEEehHHHHHHHHHHHHH------------hhchhhhhcccccHHHHHHHHHHHHh---ccCC-
Confidence 444454444 37899999999998888877763 58899999999999999999999997 4443
Q ss_pred EEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1045 TLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1045 lLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
+||+|++++.||++.+..+||+|+.|-.--++.+++||.-|-|-.
T Consensus 479 vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRa 523 (691)
T KOG0338|consen 479 VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRA 523 (691)
T ss_pred EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccC
Confidence 599999999999999999999999999999999999999888753
No 97
>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=99.20 E-value=2.6e-10 Score=143.85 Aligned_cols=107 Identities=16% Similarity=0.108 Sum_probs=86.1
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+.++|||......++.+...|.... ..++.++.++|+++.++|.++++.|.+ +..+ +|++|.++..|
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 4679999999999999999987521 136889999999999999999999986 3344 58899999999
Q ss_pred ceecccceEEEEcCC----cCCcc--------------cHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGS----WNPTY--------------DLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~----WNP~~--------------~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+.++||.++.+ |||.. ..||.||++|.+.-.-+..|
T Consensus 276 ItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~~~G~cyrL~ 333 (819)
T TIGR01970 276 LTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRLEPGVCYRLW 333 (819)
T ss_pred ccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCCCCCEEEEeC
Confidence 999999999999865 56654 57999999998544434444
No 98
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.19 E-value=1.6e-11 Score=110.11 Aligned_cols=73 Identities=33% Similarity=0.457 Sum_probs=67.7
Q ss_pred cCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhc
Q 001337 1011 KGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCM 1087 (1097)
Q Consensus 1011 ~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiG 1087 (1097)
.++.+..++|+++..+|..+++.|+++.. .+|++|.++++|+|++.+++||+++++||+....|++||++|.|
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 47889999999999999999999998432 47899999999999999999999999999999999999999987
No 99
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.18 E-value=4.4e-10 Score=138.67 Aligned_cols=115 Identities=17% Similarity=0.152 Sum_probs=99.9
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|..+|++.+......+..||||+.+....+.|...|.+ .|+++..++|.....++..+..+++.
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 3588899999988878899999999999999999999985 68999999999886666666666665
Q ss_pred cceeeEEEeeeccccccceec---ccc-----eEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~---~An-----~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
+. ++|+|..+|.|+++. ... +||.++.|-|.-.+.|++||++|.|..=.
T Consensus 489 -g~---VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~ 545 (796)
T PRK12906 489 -GA---VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGS 545 (796)
T ss_pred -ce---EEEEeccccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcc
Confidence 33 589999999999994 667 99999999999999999999999997643
No 100
>PRK09694 helicase Cas3; Provisional
Probab=99.17 E-value=2.1e-10 Score=144.77 Aligned_cols=112 Identities=17% Similarity=0.186 Sum_probs=82.6
Q ss_pred hHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHH----HHHHHhhcccccce
Q 001337 966 LDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER----QKLVERFNEPLNKR 1041 (1097)
Q Consensus 966 ~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR----~~~i~~Fn~~~n~~ 1041 (1097)
++.|.+....|.++|||++.+..+..+.+.|.+.. ....++..++|.++..+| +++++.|.......
T Consensus 550 l~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~---------~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~ 620 (878)
T PRK09694 550 LQRMIAAANAGAQVCLICNLVDDAQKLYQRLKELN---------NTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRN 620 (878)
T ss_pred HHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhC---------CCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcC
Confidence 33333333568899999999999999999998521 123578999999999888 46788894321111
Q ss_pred eeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1042 VKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1042 v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
-..+|++|.+...|||+ .++.+|....| .....|++||++|.|.+
T Consensus 621 ~~~ILVaTQViE~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 621 QGRILVATQVVEQSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred CCeEEEECcchhheeec-CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 12469999999999999 56877775444 45789999999999864
No 101
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.17 E-value=1.3e-10 Score=135.35 Aligned_cols=121 Identities=21% Similarity=0.182 Sum_probs=105.5
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
-+|+.++.+++.... ...+|||.|+......|...|.. ..++++..|+|..++.+|.+.+++|..
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 468888888888664 47899999999999888888852 368999999999999999999999998
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc-ccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS-QFLLT 1096 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~-V~VYr 1096 (1097)
+.+. +|++|...+.||+|.++|.||+||.+-.-..+..+|||.+|-|+.-. +..|+
T Consensus 437 -g~Iw-vLicTdll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~Aitfyt 493 (593)
T KOG0344|consen 437 -GKIW-VLICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAITFYT 493 (593)
T ss_pred -cCee-EEEehhhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcceEEEec
Confidence 5666 48999999999999999999999999999999999999999998754 55554
No 102
>PRK14701 reverse gyrase; Provisional
Probab=99.14 E-value=1.5e-09 Score=144.44 Aligned_cols=104 Identities=14% Similarity=0.102 Sum_probs=80.2
Q ss_pred ehhhHHHhhhccCCCceeEEecCCCc---hhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 963 VLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 963 ~~L~eiL~~~~~~geKVLIFSq~~~~---ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
..|.++|... +..+|||++.... ++.|..+|.. .|+++..++|. |.+.+++|.+
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 3566777653 5789999998765 4788899985 68999999984 8999999998
Q ss_pred ceeeEEEeee---ccccccceecc-cceEEEEcCCc---CCcccH-------------HHHHHHhhhccc
Q 001337 1040 KRVKCTLIST---RAGSLGINLHS-ANRVIIVDGSW---NPTYDL-------------QAIYRAWRCMDK 1089 (1097)
Q Consensus 1040 ~~v~VlLiSt---kagg~GLNL~~-An~VIi~D~~W---NP~~~~-------------QAiGRa~RiGQk 1089 (1097)
+.+.||+.+. .+++.|||++. ..+|||+++|- +...+. |.+||+.|-|..
T Consensus 377 G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 377 GEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred CCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 5565544443 57889999998 89999999987 444444 455999998865
No 103
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.13 E-value=5e-10 Score=128.52 Aligned_cols=98 Identities=19% Similarity=0.231 Sum_probs=89.2
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
..+.|||+++++.+..|.-+|.. -+++.+.++.+|.+.+|-+.+++|.+.++ . +||.|++++.|
T Consensus 463 PGrTlVF~NsId~vKRLt~~L~~------------L~i~p~~LHA~M~QKqRLknLEkF~~~~~--~--VLiaTDVAARG 526 (731)
T KOG0347|consen 463 PGRTLVFCNSIDCVKRLTVLLNN------------LDIPPLPLHASMIQKQRLKNLEKFKQSPS--G--VLIATDVAARG 526 (731)
T ss_pred CCceEEEechHHHHHHHHHHHhh------------cCCCCchhhHHHHHHHHHHhHHHHhcCCC--e--EEEeehhhhcc
Confidence 46899999999999999999986 47889999999999999999999998543 2 79999999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
|++++..|||+|..|-....+.+|-||.-|-+..
T Consensus 527 LDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~~ 560 (731)
T KOG0347|consen 527 LDIPGVQHVIHYQVPRTSEIYVHRSGRTARANSE 560 (731)
T ss_pred CCCCCcceEEEeecCCccceeEecccccccccCC
Confidence 9999999999999999999999999999997643
No 104
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.11 E-value=6.9e-11 Score=127.56 Aligned_cols=111 Identities=22% Similarity=0.318 Sum_probs=94.9
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+.-|-.+..++. =...|||++++..+++|+..+.++ |+..+.++.+|.++.|.+....|.+
T Consensus 308 qKvhCLntLfskLq--INQsIIFCNS~~rVELLAkKITel------------GyscyyiHakM~Q~hRNrVFHdFr~--- 370 (459)
T KOG0326|consen 308 QKVHCLNTLFSKLQ--INQSIIFCNSTNRVELLAKKITEL------------GYSCYYIHAKMAQEHRNRVFHDFRN--- 370 (459)
T ss_pred hhhhhHHHHHHHhc--ccceEEEeccchHhHHHHHHHHhc------------cchhhHHHHHHHHhhhhhhhhhhhc---
Confidence 34444444444332 256899999999999999999874 7889999999999999999999997
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMD 1088 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQ 1088 (1097)
+.++ .|++|+..-.||+.|+.|.||.||.+-|+..+..+|||.+|+|-
T Consensus 371 G~cr-nLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGh 418 (459)
T KOG0326|consen 371 GKCR-NLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGH 418 (459)
T ss_pred cccc-eeeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCC
Confidence 5665 47888999999999999999999999999999999999999994
No 105
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.08 E-value=9.1e-10 Score=139.21 Aligned_cols=107 Identities=17% Similarity=0.119 Sum_probs=84.3
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
+..+|||......++.+...|.... ..++.+..++|+++.++|.+++..|.+ +..+ +|++|..+..|
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 4789999999999999999998511 136788899999999999999999975 3443 69999999999
Q ss_pred ceecccceEEEEcCC----cCCc--------------ccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGS----WNPT--------------YDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~----WNP~--------------~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+.++||.++.+ |+|. ...||.||++|.+.-.-+..|
T Consensus 279 LtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~~~G~cyrL~ 336 (812)
T PRK11664 279 LTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRLEPGICLHLY 336 (812)
T ss_pred ccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCCCCcEEEEec
Confidence 999999999996654 4433 468999999998543333344
No 106
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.08 E-value=1.6e-09 Score=134.08 Aligned_cols=113 Identities=18% Similarity=0.140 Sum_probs=101.4
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|..++++-+.++.+.|..||||+.+....+.|..+|.. .|+++..+++.....+|..+...|+.
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 4688899999998889999999999999999999999985 68999999999999999999999997
Q ss_pred cceeeEEEeeeccccccceec-------------------------------------ccceEEEEcCCcCCcccHHHHH
Q 001337 1039 NKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAIY 1081 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~-------------------------------------~An~VIi~D~~WNP~~~~QAiG 1081 (1097)
+. ++|+|..+|.|+++. +.=+||.-+.+-|--.+.|..|
T Consensus 498 -G~---VtIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrG 573 (908)
T PRK13107 498 -GA---VTIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRG 573 (908)
T ss_pred -Cc---EEEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhc
Confidence 44 499999999999976 2248899999999999999999
Q ss_pred HHhhhccc
Q 001337 1082 RAWRCMDK 1089 (1097)
Q Consensus 1082 Ra~RiGQk 1089 (1097)
|++|.|..
T Consensus 574 RaGRQGDP 581 (908)
T PRK13107 574 RAGRQGDA 581 (908)
T ss_pred ccccCCCC
Confidence 99999975
No 107
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.07 E-value=1.7e-09 Score=122.99 Aligned_cols=114 Identities=25% Similarity=0.300 Sum_probs=98.7
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|+.+|++-|..... ..|||||..-....+-|...|. .+|+.+..++|++.+.+|.+.+..|+..
T Consensus 453 ~Kl~wl~~~L~~f~S-~gkvlifVTKk~~~e~i~a~Lk------------lk~~~v~llhgdkdqa~rn~~ls~fKkk-- 517 (731)
T KOG0339|consen 453 KKLNWLLRHLVEFSS-EGKVLIFVTKKADAEEIAANLK------------LKGFNVSLLHGDKDQAERNEVLSKFKKK-- 517 (731)
T ss_pred HHHHHHHHHhhhhcc-CCcEEEEEeccCCHHHHHHHhc------------cccceeeeecCchhhHHHHHHHHHHhhc--
Confidence 477777777765544 4689999999999999999987 4799999999999999999999999973
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+.. +|+.|++...||++....+||+||.--.-....|+|||..|-|-+-
T Consensus 518 -~~~-VlvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~kG 566 (731)
T KOG0339|consen 518 -RKP-VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEKG 566 (731)
T ss_pred -CCc-eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhcccccccc
Confidence 222 5888999999999999999999999988889999999999999774
No 108
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.02 E-value=1e-08 Score=127.36 Aligned_cols=115 Identities=21% Similarity=0.139 Sum_probs=98.9
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+.+|.+.+.++...|..||||+.+....+.|...|.. .|+++..++|. ..+|.+.+..|...+
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 4588999999988878899999999999999999999985 68999999996 569999999998732
Q ss_pred cceeeEEEeeeccccccceecc--------------------------------------cceEEEEcCCcCCcccHHHH
Q 001337 1039 NKRVKCTLISTRAGSLGINLHS--------------------------------------ANRVIIVDGSWNPTYDLQAI 1080 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~--------------------------------------An~VIi~D~~WNP~~~~QAi 1080 (1097)
+. ++|+|..+|.|+++.= .=|||.-+.+-|--.+.|..
T Consensus 479 -g~---VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~Qlr 554 (830)
T PRK12904 479 -GA---VTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLR 554 (830)
T ss_pred -ce---EEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhh
Confidence 22 5899999999998753 34888888999999999999
Q ss_pred HHHhhhccccc
Q 001337 1081 YRAWRCMDKQS 1091 (1097)
Q Consensus 1081 GRa~RiGQkK~ 1091 (1097)
||++|.|+.=.
T Consensus 555 GRagRQGdpGs 565 (830)
T PRK12904 555 GRSGRQGDPGS 565 (830)
T ss_pred cccccCCCCCc
Confidence 99999997643
No 109
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.00 E-value=1e-08 Score=125.47 Aligned_cols=157 Identities=16% Similarity=0.226 Sum_probs=97.8
Q ss_pred CCCccchhhhhhcCCCcchhhHHHHHHHhhhcc------ccceeeEeecc-hhhhh----hhHHhhcccccCCCcccEEE
Q 001337 591 GDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTP-VNVLH----NWKQEFMKWRPSELKPLRVF 659 (1097)
Q Consensus 591 ~~~~~GgILADeMGLGKTlqaIali~~~l~~~~------~~~k~~LIV~P-~sLv~----qW~~Ei~k~~p~~~~~l~V~ 659 (1097)
+....++|++.++|.|||..|...|......+. .+.-+++-|+| ++|.. +|..-|.-| .+.|.
T Consensus 123 Y~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~------gi~v~ 196 (1230)
T KOG0952|consen 123 YKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPL------GISVR 196 (1230)
T ss_pred hcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccc------cceEE
Confidence 456789999999999999877666665555311 12347888999 55654 444443322 27788
Q ss_pred eecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchh-----H
Q 001337 660 MLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRAD-----T 734 (1097)
Q Consensus 660 ~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~-----~ 734 (1097)
.+.|.....+.+. ...+++|+|.+.+--.+... ..+. .+.....+|||||.|.|...... +
T Consensus 197 ELTGD~ql~~tei-----~~tqiiVTTPEKwDvvTRk~-~~d~--------~l~~~V~LviIDEVHlLhd~RGpvlEtiV 262 (1230)
T KOG0952|consen 197 ELTGDTQLTKTEI-----ADTQIIVTTPEKWDVVTRKS-VGDS--------ALFSLVRLVIIDEVHLLHDDRGPVLETIV 262 (1230)
T ss_pred EecCcchhhHHHH-----HhcCEEEecccceeeeeeee-ccch--------hhhhheeeEEeeeehhhcCcccchHHHHH
Confidence 8877665444442 45689999999875433211 1111 12225678999999999876643 3
Q ss_pred HHHHhhh----ccceeeeeccCccccchhhhhhhhhhhhhcc
Q 001337 735 TQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGF 772 (1097)
Q Consensus 735 ~kal~~l----~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~ 772 (1097)
++.++.. ..-|.++||||-- | |..+-.||+.++
T Consensus 263 aRtlr~vessqs~IRivgLSATlP--N---~eDvA~fL~vn~ 299 (1230)
T KOG0952|consen 263 ARTLRLVESSQSMIRIVGLSATLP--N---YEDVARFLRVNP 299 (1230)
T ss_pred HHHHHHHHhhhhheEEEEeeccCC--C---HHHHHHHhcCCC
Confidence 4444333 4567789999952 2 334455665443
No 110
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.97 E-value=8.7e-09 Score=113.01 Aligned_cols=107 Identities=19% Similarity=0.225 Sum_probs=84.9
Q ss_pred hhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceee
Q 001337 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1097)
Q Consensus 964 ~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~ 1043 (1097)
.|...|+.....|..++||...+.++..+...|+.. ........++.. ...|.+.+.+|++ +.+.
T Consensus 293 kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~----------~~~~~i~~Vhs~--d~~R~EkV~~fR~---G~~~ 357 (441)
T COG4098 293 KLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKK----------LPKETIASVHSE--DQHRKEKVEAFRD---GKIT 357 (441)
T ss_pred HHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhh----------CCccceeeeecc--CccHHHHHHHHHc---CceE
Confidence 567788888888999999999999999999999641 112222334333 3489999999997 4443
Q ss_pred EEEeeeccccccceecccceEEEEcCC--cCCcccHHHHHHHhhh
Q 001337 1044 CTLISTRAGSLGINLHSANRVIIVDGS--WNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1044 VlLiStkagg~GLNL~~An~VIi~D~~--WNP~~~~QAiGRa~Ri 1086 (1097)
+||+|.....|++++..+..++=.-. ++.+...|.-||++|-
T Consensus 358 -lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs 401 (441)
T COG4098 358 -LLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRS 401 (441)
T ss_pred -EEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCC
Confidence 68899999999999999988877655 8888999999999995
No 111
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=98.96 E-value=1.2e-09 Score=116.29 Aligned_cols=160 Identities=17% Similarity=0.125 Sum_probs=102.2
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhc-cccceeeEeecchh-hhhhhH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV-NLGLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~-~~~~k~~LIV~P~s-Lv~qW~ 642 (1097)
.+++||.+++..+. .+.+.++..++|.|||+..+..+...+... .....++|||+|.. ++.||.
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 47889999887663 267889999999999988544444433332 11235799999954 888999
Q ss_pred HhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
..+..+... ..+.+..+.+...... ....+....+++|+|.+.+........ .....++++|+|
T Consensus 87 ~~~~~~~~~--~~~~~~~~~~~~~~~~--~~~~~~~~~~iiv~T~~~l~~~l~~~~------------~~~~~l~~lIvD 150 (203)
T cd00268 87 EVARKLGKH--TNLKVVVIYGGTSIDK--QIRKLKRGPHIVVATPGRLLDLLERGK------------LDLSKVKYLVLD 150 (203)
T ss_pred HHHHHHhcc--CCceEEEEECCCCHHH--HHHHhcCCCCEEEEChHHHHHHHHcCC------------CChhhCCEEEEe
Confidence 999887653 2356665555433221 122333467899999877643221111 111267899999
Q ss_pred ccchhcccc-hh-HHHHHhhh-ccceeeeeccCcc
Q 001337 723 EAHMIKNTR-AD-TTQALKQV-KCQRRIALTGSPL 754 (1097)
Q Consensus 723 EAH~iKN~~-S~-~~kal~~l-~a~~RllLTGTPi 754 (1097)
|+|.+.+.. .. ....+..+ .....+++||||-
T Consensus 151 E~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 151 EADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred ChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 999986543 11 22223333 3567899999996
No 112
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.95 E-value=2.8e-09 Score=134.44 Aligned_cols=107 Identities=19% Similarity=0.124 Sum_probs=97.1
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.-.||||.+..+.+.+...|.. .|+....++++++..+|+.+...|..+ .++| ++.|=|.|.
T Consensus 484 ~~~s~IIYC~sr~~ce~vs~~L~~------------~~~~a~~YHAGl~~~~R~~Vq~~w~~~---~~~V-ivATVAFGM 547 (941)
T KOG0351|consen 484 PDQSGIIYCLSRKECEQVSAVLRS------------LGKSAAFYHAGLPPKERETVQKAWMSD---KIRV-IVATVAFGM 547 (941)
T ss_pred CCCCeEEEeCCcchHHHHHHHHHH------------hchhhHhhhcCCCHHHHHHHHHHHhcC---CCeE-EEEEeeccC
Confidence 357889999999999999999996 578899999999999999999999983 3554 666779999
Q ss_pred cceecccceEEEEcCCcCCcccHHHHHHHhhhccccccccccC
Q 001337 1055 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLTG 1097 (1097)
Q Consensus 1055 GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr~ 1097 (1097)
|||-....-||+|..|-+---+.|-+|||+|-|+...|+.|++
T Consensus 548 GIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~ 590 (941)
T KOG0351|consen 548 GIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYG 590 (941)
T ss_pred CCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecc
Confidence 9999999999999999999999999999999999999999875
No 113
>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=98.93 E-value=1.1e-09 Score=112.59 Aligned_cols=149 Identities=16% Similarity=0.217 Sum_probs=95.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAEL 672 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~ 672 (1097)
+...++..++|.|||..++..+...+.... ...+||++| ..++.|-..++.+++.. ..+++..+.+...... ..
T Consensus 14 ~~~~li~aptGsGKT~~~~~~~l~~~~~~~--~~~~lii~P~~~l~~q~~~~~~~~~~~--~~~~~~~~~~~~~~~~-~~ 88 (169)
T PF00270_consen 14 GKNVLISAPTGSGKTLAYILPALNRLQEGK--DARVLIIVPTRALAEQQFERLRKFFSN--TNVRVVLLHGGQSISE-DQ 88 (169)
T ss_dssp TSEEEEECSTTSSHHHHHHHHHHHHHHTTS--SSEEEEEESSHHHHHHHHHHHHHHTTT--TTSSEEEESTTSCHHH-HH
T ss_pred CCCEEEECCCCCccHHHHHHHHHhhhccCC--CceEEEEeecccccccccccccccccc--cccccccccccccccc-cc
Confidence 456899999999999988766655444432 248999999 45888888888888764 2355555554333221 11
Q ss_pred HHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhccc-ch-hHHHHHhhh---ccceee
Q 001337 673 LAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNT-RA-DTTQALKQV---KCQRRI 747 (1097)
Q Consensus 673 l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~-~S-~~~kal~~l---~a~~Rl 747 (1097)
........+++|+|++.|......... .+ ...++||+||+|.+-.. .. .....+..+ ...+.+
T Consensus 89 ~~~~~~~~~ilv~T~~~l~~~~~~~~~-----------~~-~~~~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i 156 (169)
T PF00270_consen 89 REVLSNQADILVTTPEQLLDLISNGKI-----------NI-SRLSLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQII 156 (169)
T ss_dssp HHHHHTTSSEEEEEHHHHHHHHHTTSS-----------TG-TTESEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEE
T ss_pred cccccccccccccCcchhhcccccccc-----------cc-ccceeeccCcccccccccHHHHHHHHHHHhcCCCCCcEE
Confidence 111234689999999998643322100 01 24789999999999763 12 233333333 346789
Q ss_pred eeccCccccchhh
Q 001337 748 ALTGSPLQNNLME 760 (1097)
Q Consensus 748 lLTGTPiqNnl~E 760 (1097)
++||||- .++.+
T Consensus 157 ~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 157 LLSATLP-SNVEK 168 (169)
T ss_dssp EEESSST-HHHHH
T ss_pred EEeeCCC-hhHhh
Confidence 9999997 55443
No 114
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=98.90 E-value=3.8e-08 Score=122.57 Aligned_cols=114 Identities=16% Similarity=0.077 Sum_probs=97.8
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+.+|++.|......|..||||+.++...+.|...|.. .|+++..|++ ...+|++.+..|...+
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 4599999999998888899999999999999999999985 6899999997 4669999999998632
Q ss_pred cceeeEEEeeeccccccceec---ccc-----eEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~---~An-----~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+. ++|+|..+|.|+++. .+. +||..+.+-+.-.+.|++||++|.|..=
T Consensus 647 -g~---VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpG 702 (1025)
T PRK12900 647 -GA---VTIATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPG 702 (1025)
T ss_pred -Ce---EEEeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCc
Confidence 22 599999999999998 333 4488888889999999999999999763
No 115
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=98.83 E-value=4e-09 Score=121.75 Aligned_cols=97 Identities=19% Similarity=0.156 Sum_probs=81.5
Q ss_pred CceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccc
Q 001337 977 DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGI 1056 (1097)
Q Consensus 977 eKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GL 1056 (1097)
...|||+.+..-...|..+|.. .|++..-++++++-.+|..+-..|.+ ..+. .+++|.|.+.|+
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 5789999999999999999985 69999999999999999999999997 3333 488999999999
Q ss_pred eecccceEEE----EcC-CcCCcccHHHHHHHhhhcccc
Q 001337 1057 NLHSANRVII----VDG-SWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1057 NL~~An~VIi----~D~-~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
++++ +.||| |-. |-+|...+|..||++|.|=..
T Consensus 505 DFPA-SQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHd 542 (830)
T COG1202 505 DFPA-SQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHD 542 (830)
T ss_pred CCch-HHHHHHHHHcccccCCHHHHHHHhcccCCCCccc
Confidence 9986 45554 333 558999999999999987543
No 116
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.83 E-value=1.1e-08 Score=113.14 Aligned_cols=256 Identities=18% Similarity=0.245 Sum_probs=148.5
Q ss_pred ecCccc--cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 557 RIPSSI--SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 557 ~vP~~l--~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
.+|..+ .+.|=.-|+++|.+.-+.....+ ......|.+|+|.+|.||..|+.++|......++. +++-|-+.
T Consensus 27 ~lp~~~~~~g~LS~~QLEaV~yA~q~h~~~L----p~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~--r~vwvS~s 100 (303)
T PF13872_consen 27 HLPEEVIDSGLLSALQLEAVIYACQRHEQIL----PGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRK--RAVWVSVS 100 (303)
T ss_pred CCCHHHHhcccccHHHHHHHHHHHHHHHhhc----ccccCcEEEeccCCCcCccchhHHHHHHHHHcCCC--ceEEEECC
Confidence 455533 45688899999998866543322 23467899999999999999999999887766542 34444445
Q ss_pred hhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhcc
Q 001337 635 VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 714 (1097)
Q Consensus 635 ~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~ 714 (1097)
..|..--.+.+...... .+.+..+........ .....+|+++||.+++.-.... .......+.+..++..
T Consensus 101 ~dL~~Da~RDl~DIG~~---~i~v~~l~~~~~~~~------~~~~~GvlF~TYs~L~~~~~~~-~~~~sRl~ql~~W~g~ 170 (303)
T PF13872_consen 101 NDLKYDAERDLRDIGAD---NIPVHPLNKFKYGDI------IRLKEGVLFSTYSTLISESQSG-GKYRSRLDQLVDWCGE 170 (303)
T ss_pred hhhhhHHHHHHHHhCCC---cccceechhhccCcC------CCCCCCccchhHHHHHhHHhcc-CCccchHHHHHHHHhc
Confidence 66776655555433221 233333332221110 1135689999999997643321 1222334445455544
Q ss_pred CC-CEEEecccchhcccch------hHHHHHhhh----ccceeeeeccCccccchhhhhhhhhhhhhccCC------Cch
Q 001337 715 GP-DILVCDEAHMIKNTRA------DTTQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLG------SSH 777 (1097)
Q Consensus 715 ~~-dlVIiDEAH~iKN~~S------~~~kal~~l----~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lg------s~~ 777 (1097)
.| .+||+||||+.+|..+ ++..++..| ..-+.+-.|||...+ +. +|..+.+-+++| +..
T Consensus 171 dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~---NmaYm~RLGLWG~gtpf~~~~ 246 (303)
T PF13872_consen 171 DFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PR---NMAYMSRLGLWGPGTPFPDFD 246 (303)
T ss_pred CCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Cc---eeeeeeeccccCCCCCCCCHH
Confidence 44 4789999999999765 566666655 334688899999742 22 232223334443 444
Q ss_pred hhhhhccCCCCCCcccCCcccchhhcccchhHHHHHH--hhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHh
Q 001337 778 EFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQL--KGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRF 853 (1097)
Q Consensus 778 ~F~~~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L--~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~i 853 (1097)
+|.+.+. .+... ....+...| .+..++|..+ +-.-...++.++|+++|.++|+.+
T Consensus 247 ~f~~a~~----~gGv~------------amE~vA~dlKa~G~yiaR~LS-----f~gvef~~~e~~l~~~~~~~Yd~~ 303 (303)
T PF13872_consen 247 DFLEAME----KGGVG------------AMEMVAMDLKARGMYIARQLS-----FEGVEFEIEEVPLTPEQIKMYDAY 303 (303)
T ss_pred HHHHHHH----hcCch------------HHHHHHHHHHhcchheeeecc-----cCCceEEEEEecCCHHHHHHhcCC
Confidence 4444332 22110 011111111 2233344332 445567788999999999999753
No 117
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.82 E-value=2.7e-08 Score=112.05 Aligned_cols=100 Identities=24% Similarity=0.308 Sum_probs=86.3
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeec-----
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTR----- 1050 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStk----- 1050 (1097)
..|.|||.+.++..-.|.-+|+. .|++.+.++|.++...|.-+|++||. +-+.+ ||.|+
T Consensus 268 ~gKsliFVNtIdr~YrLkLfLeq------------FGiksciLNseLP~NSR~Hii~QFNk---G~Ydi-vIAtD~s~~~ 331 (569)
T KOG0346|consen 268 RGKSLIFVNTIDRCYRLKLFLEQ------------FGIKSCILNSELPANSRCHIIEQFNK---GLYDI-VIATDDSADG 331 (569)
T ss_pred cCceEEEEechhhhHHHHHHHHH------------hCcHhhhhcccccccchhhHHHHhhC---cceeE-EEEccCccch
Confidence 47999999999999999999985 79999999999999999999999998 44554 44444
Q ss_pred ---------------------c---------ccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc
Q 001337 1051 ---------------------A---------GSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1051 ---------------------a---------gg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~ 1091 (1097)
. .+.||+++..+.||+||.|-++..+++|+||..|-|.+-.
T Consensus 332 ~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~Gt 402 (569)
T KOG0346|consen 332 DKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGT 402 (569)
T ss_pred hhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCc
Confidence 1 2469999999999999999999999999999999876543
No 118
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.82 E-value=1.8e-08 Score=124.40 Aligned_cols=115 Identities=21% Similarity=0.234 Sum_probs=97.9
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+..|+++|.+... ..++|||++...-++.|.+-|.+ .|+....++|..+..+|...+..|++.
T Consensus 597 ~eKf~kL~eLl~e~~e-~~~tiiFv~~qe~~d~l~~~L~~------------ag~~~~slHGgv~q~dR~sti~dfK~~- 662 (997)
T KOG0334|consen 597 NEKFLKLLELLGERYE-DGKTIIFVDKQEKADALLRDLQK------------AGYNCDSLHGGVDQHDRSSTIEDFKNG- 662 (997)
T ss_pred hHHHHHHHHHHHHHhh-cCCEEEEEcCchHHHHHHHHHHh------------cCcchhhhcCCCchHHHHhHHHHHhcc-
Confidence 4688889999988766 78999999999999999999985 688888899999999999999999983
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
.+ .||+.|...+.||+...-..||+||.+---..+..|.||..|-|-+-
T Consensus 663 --~~-~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg 711 (997)
T KOG0334|consen 663 --VV-NLLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG 711 (997)
T ss_pred --Cc-eEEEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc
Confidence 33 37889999999999999999999998855566777777777766554
No 119
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.79 E-value=4.1e-08 Score=126.88 Aligned_cols=105 Identities=16% Similarity=0.108 Sum_probs=80.3
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
..++|||......++.+...|...+ .....++-++|+++.++|.++++.+ +.. -+|++|.+++.|
T Consensus 286 ~GdILVFLpg~~EIe~lae~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~Vf~~~-----g~r-kIIVATNIAEtS 350 (1294)
T PRK11131 286 PGDILIFMSGEREIRDTADALNKLN---------LRHTEILPLYARLSNSEQNRVFQSH-----SGR-RIVLATNVAETS 350 (1294)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHhcC---------CCcceEeecccCCCHHHHHHHhccc-----CCe-eEEEeccHHhhc
Confidence 4689999999999999999998632 1234467899999999999887653 222 368999999999
Q ss_pred ceecccceEEEEc---------------CCcCC---cccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVD---------------GSWNP---TYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D---------------~~WNP---~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+..+||.++ .+-.| +...|+.||++|.+.-.-+.+|
T Consensus 351 ITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~~~G~c~rLy 408 (1294)
T PRK11131 351 LTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVSEGICIRLY 408 (1294)
T ss_pred cccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCCCCCcEEEEeC
Confidence 9999999999874 22233 4678999999998654445455
No 120
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.73 E-value=2.5e-07 Score=115.10 Aligned_cols=114 Identities=13% Similarity=0.122 Sum_probs=90.9
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|..++++-+....+.|..|||-+.++..-+.|...|.. .|+++..++.... ..-..+|..=-.
T Consensus 551 ~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~------------~gi~h~vLNak~~-~~Ea~iia~AG~-- 615 (970)
T PRK12899 551 REKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQ------------NRIEHTVLNAKNH-AQEAEIIAGAGK-- 615 (970)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHH------------cCCcceecccchh-hhHHHHHHhcCC--
Confidence 4688888888888888899999999999999999999985 6888888888644 222345544332
Q ss_pred cceeeEEEeeeccccccceec--------ccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~--------~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
.+. +-|+|..+|.|.++. +.=+||.-..+-|...+.|..||+.|.|..=
T Consensus 616 ~g~---VTIATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpG 672 (970)
T PRK12899 616 LGA---VTVATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPG 672 (970)
T ss_pred CCc---EEEeeccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCC
Confidence 233 488999999998864 2348899999999999999999999999764
No 121
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.70 E-value=1.4e-07 Score=119.28 Aligned_cols=108 Identities=16% Similarity=0.152 Sum_probs=81.4
Q ss_pred hhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc--ccceeeEEEee
Q 001337 971 MCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP--LNKRVKCTLIS 1048 (1097)
Q Consensus 971 ~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~--~n~~v~VlLiS 1048 (1097)
.....+.||+|-.+.+..+..+...|+.. +.+++.+++......|.+.++....- .+. ..++++
T Consensus 435 ~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~------------~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~--~~IvVa 500 (733)
T COG1203 435 EEVKEGKKVLVIVNTVDRAIELYEKLKEK------------GPKVLLLHSRFTLKDREEKERELKKLFKQNE--GFIVVA 500 (733)
T ss_pred hhhccCCcEEEEEecHHHHHHHHHHHHhc------------CCCEEEEecccchhhHHHHHHHHHHHHhccC--CeEEEE
Confidence 33456899999999999999999999862 22699999999999999999865431 112 126999
Q ss_pred eccccccceecccceEEEEcCCcCCcccHHHHHHHhhhc--cccccccc
Q 001337 1049 TRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCM--DKQSQFLL 1095 (1097)
Q Consensus 1049 tkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiG--QkK~V~VY 1095 (1097)
|.+...|+|+. .+ +++-|+. -.....||.||++|.| ....++||
T Consensus 501 TQVIEagvDid-fd-~mITe~a-PidSLIQR~GRv~R~g~~~~~~~~v~ 546 (733)
T COG1203 501 TQVIEAGVDID-FD-VLITELA-PIDSLIQRAGRVNRHGKKENGKIYVY 546 (733)
T ss_pred eeEEEEEeccc-cC-eeeecCC-CHHHHHHHHHHHhhcccccCCceeEe
Confidence 99999999997 33 3444443 3355789999999999 55667766
No 122
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.69 E-value=2.4e-07 Score=115.10 Aligned_cols=151 Identities=13% Similarity=0.178 Sum_probs=90.7
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhcc-------ccceeeEeecc-hhhhhhhHHhhcccccCCCcccEEEeecccc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN-------LGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVS 665 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~-------~~~k~~LIV~P-~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~ 665 (1097)
..+.+|+.++|.|||-.|+.-+..-+..+. .+..++.-|+| ++|+..|...|.+|+.. ..+.|....|..
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 456788999999999876655544433321 12235677888 78999999999998754 235555555544
Q ss_pred hhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchh---cccc--hhHHHHHhh
Q 001337 666 RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI---KNTR--ADTTQALKQ 740 (1097)
Q Consensus 666 ~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~i---KN~~--S~~~kal~~ 740 (1097)
...+.+. ....|+++|.+.+-.++.....++ +.+ -+.++|+||.|.+ |++. |-..+..++
T Consensus 403 ~l~~~qi-----eeTqVIV~TPEK~DiITRk~gdra--Y~q--------lvrLlIIDEIHLLhDdRGpvLESIVaRt~r~ 467 (1674)
T KOG0951|consen 403 QLGKEQI-----EETQVIVTTPEKWDIITRKSGDRA--YEQ--------LVRLLIIDEIHLLHDDRGPVLESIVARTFRR 467 (1674)
T ss_pred cchhhhh-----hcceeEEeccchhhhhhcccCchh--HHH--------HHHHHhhhhhhhcccccchHHHHHHHHHHHH
Confidence 3222222 345788888877643332221111 111 2456899999999 3332 333344444
Q ss_pred h----ccceeeeeccCccccchhhhhh
Q 001337 741 V----KCQRRIALTGSPLQNNLMEYYC 763 (1097)
Q Consensus 741 l----~a~~RllLTGTPiqNnl~El~~ 763 (1097)
. ...+.++||||-- |..|...
T Consensus 468 ses~~e~~RlVGLSATLP--Ny~DV~~ 492 (1674)
T KOG0951|consen 468 SESTEEGSRLVGLSATLP--NYEDVAS 492 (1674)
T ss_pred hhhcccCceeeeecccCC--chhhhHH
Confidence 4 3456799999953 3444444
No 123
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.66 E-value=1.4e-07 Score=106.12 Aligned_cols=113 Identities=17% Similarity=0.152 Sum_probs=98.1
Q ss_pred cceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccc
Q 001337 960 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1039 (1097)
Q Consensus 960 ~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n 1039 (1097)
.|..+|+.++..... .+..+||......+.++...|.. .|+....+.|++.+..|..-+..|+....
T Consensus 246 ~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~------------~g~~~s~iysslD~~aRk~~~~~F~~~k~ 312 (529)
T KOG0337|consen 246 EKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRD------------FGGEGSDIYSSLDQEARKINGRDFRGRKT 312 (529)
T ss_pred HHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHh------------cCCCccccccccChHhhhhccccccCCcc
Confidence 466777777776544 56899999999999999999985 67888889999999999999999997422
Q ss_pred ceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1040 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1040 ~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
-+|++|+.+..|++.+..+.||.||.|-.+.....++||+.|-|.+
T Consensus 313 ----~~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt 358 (529)
T KOG0337|consen 313 ----SILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT 358 (529)
T ss_pred ----ceEEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc
Confidence 2699999999999999999999999999999999999999988855
No 124
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.62 E-value=4.3e-07 Score=110.52 Aligned_cols=114 Identities=17% Similarity=0.162 Sum_probs=92.3
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+.++++-+....+.|..|||.+.++...+.|...|.+ .|+++..++.... ++-..+|++=-.
T Consensus 410 ~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~------------~gI~h~vLNAk~~-~~EA~IIa~AG~-- 474 (764)
T PRK12326 410 AEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRA------------AGVPAVVLNAKND-AEEARIIAEAGK-- 474 (764)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHh------------CCCcceeeccCch-HhHHHHHHhcCC--
Confidence 4588889998888888999999999999999999999985 6889999988744 333455554433
Q ss_pred cceeeEEEeeeccccccceec---------------ccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLH---------------SANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~---------------~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
.+. +-|+|..+|.|.++. +.=+||.-+.+-|--.+.|..||+.|.|+.=
T Consensus 475 ~ga---VTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpG 538 (764)
T PRK12326 475 YGA---VTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPG 538 (764)
T ss_pred CCc---EEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCC
Confidence 233 488999999998875 2348899999999999999999999999753
No 125
>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=98.62 E-value=2.4e-07 Score=120.29 Aligned_cols=105 Identities=14% Similarity=0.107 Sum_probs=80.6
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
...+|||......++.+...|.... ..++.++-++|+++.++|+++++.+. . +-+|++|.++..|
T Consensus 279 ~GdILVFLpg~~EI~~l~~~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~vf~~~~----~--rkIVLATNIAEtS 343 (1283)
T TIGR01967 279 PGDILIFLPGEREIRDAAEILRKRN---------LRHTEILPLYARLSNKEQQRVFQPHS----G--RRIVLATNVAETS 343 (1283)
T ss_pred CCCEEEeCCCHHHHHHHHHHHHhcC---------CCCcEEEeccCCCCHHHHHHHhCCCC----C--ceEEEeccHHHhc
Confidence 4689999999999999999998531 13466888999999999998855442 1 2368999999999
Q ss_pred ceecccceEEEEcCC----cC--------------CcccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVIIVDGS----WN--------------PTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~----WN--------------P~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+..+||-++.. +| .+...||.||++|.|.-.-+..|
T Consensus 344 LTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~~G~cyRLy 401 (1283)
T TIGR01967 344 LTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVAPGICIRLY 401 (1283)
T ss_pred cccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCCCceEEEec
Confidence 999999999987632 22 24678999999999844444444
No 126
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.55 E-value=4.2e-07 Score=102.10 Aligned_cols=104 Identities=16% Similarity=0.116 Sum_probs=92.5
Q ss_pred ceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccce
Q 001337 978 KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGIN 1057 (1097)
Q Consensus 978 KVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLN 1057 (1097)
=-|||+......+.+.-.|.. .|++..-++.+....+|..+.+.|.++ .+. +|+.|-..|.|++
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 358999999888888888874 799999999999999999999999983 333 4777889999999
Q ss_pred ecccceEEEEcCCcCCcccHHHHHHHhhhccccccccccC
Q 001337 1058 LHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLTG 1097 (1097)
Q Consensus 1058 L~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr~ 1097 (1097)
=+...-||+++++-|-+-+-|--||++|-|-..-|..|+|
T Consensus 321 Kp~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYYs 360 (641)
T KOG0352|consen 321 KPDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYYS 360 (641)
T ss_pred CcceeEEEecCchhhhHHHHHhccccccCCCccceeeeec
Confidence 9999999999999999999999999999999888988875
No 127
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.54 E-value=1.6e-06 Score=100.51 Aligned_cols=107 Identities=20% Similarity=0.216 Sum_probs=91.6
Q ss_pred hhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeE
Q 001337 965 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1044 (1097)
Q Consensus 965 L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~V 1044 (1097)
|+.-|+...+.++++||-+-...|+.-|.++|.. .|+++..++.....-+|.++|..... +.+.
T Consensus 435 L~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e------------~gikv~YlHSdidTlER~eIirdLR~---G~~D- 498 (663)
T COG0556 435 LLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRL---GEFD- 498 (663)
T ss_pred HHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHh------------cCceEEeeeccchHHHHHHHHHHHhc---CCcc-
Confidence 3334444456789999999999999999999996 58999999999999999999999997 4444
Q ss_pred EEeeeccccccceecccceEEEEcCC-----cCCcccHHHHHHHhhhc
Q 001337 1045 TLISTRAGSLGINLHSANRVIIVDGS-----WNPTYDLQAIYRAWRCM 1087 (1097)
Q Consensus 1045 lLiStkagg~GLNL~~An~VIi~D~~-----WNP~~~~QAiGRa~RiG 1087 (1097)
+|+.....-+||+|+.++-|.|+|.+ -+-....|-||||-|--
T Consensus 499 vLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~ 546 (663)
T COG0556 499 VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV 546 (663)
T ss_pred EEEeehhhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhcc
Confidence 47888999999999999999999986 36678899999999943
No 128
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.54 E-value=6.3e-08 Score=107.23 Aligned_cols=112 Identities=24% Similarity=0.306 Sum_probs=100.6
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
-.|+..|++.|++ ...+||||+.-..-+|.|.+||- ..|+..+.|+|+-.+++|..+|+.|+.+.
T Consensus 407 EaKiVylLeCLQK---T~PpVLIFaEkK~DVD~IhEYLL------------lKGVEavaIHGGKDQedR~~ai~afr~gk 471 (610)
T KOG0341|consen 407 EAKIVYLLECLQK---TSPPVLIFAEKKADVDDIHEYLL------------LKGVEAVAIHGGKDQEDRHYAIEAFRAGK 471 (610)
T ss_pred hhhhhhHHHHhcc---CCCceEEEeccccChHHHHHHHH------------HccceeEEeecCcchhHHHHHHHHHhcCC
Confidence 4788888888864 46799999999999999999997 37999999999999999999999999842
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
+ -+|+.|++++-||++++..|||+||.|-.-.++..+|||.+|-|.+
T Consensus 472 --K--DVLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~ 518 (610)
T KOG0341|consen 472 --K--DVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKT 518 (610)
T ss_pred --C--ceEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCc
Confidence 2 2589999999999999999999999999999999999999999865
No 129
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.54 E-value=1.3e-06 Score=108.79 Aligned_cols=115 Identities=19% Similarity=0.198 Sum_probs=92.0
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
...|..++++-+..+.+.|..|||-+.++..-+.|..+|.. .|+++-.++.... ++-..+|++=-.
T Consensus 431 ~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~------------~gi~h~VLNAk~~-~~EA~IIa~AG~- 496 (913)
T PRK13103 431 AEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKK------------EGIEHKVLNAKYH-EKEAEIIAQAGR- 496 (913)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHH------------cCCcHHHhccccc-hhHHHHHHcCCC-
Confidence 35688999999999999999999999999999999999985 6888888877644 333445553322
Q ss_pred ccceeeEEEeeeccccccceec-------------------------------------ccceEEEEcCCcCCcccHHHH
Q 001337 1038 LNKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAI 1080 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~-------------------------------------~An~VIi~D~~WNP~~~~QAi 1080 (1097)
.+. +-|+|..+|.|.++. +.=+||.-+.+-|--.+.|..
T Consensus 497 -~Ga---VTIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLr 572 (913)
T PRK13103 497 -PGA---LTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLR 572 (913)
T ss_pred -CCc---EEEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhc
Confidence 233 488899999998874 234889999999999999999
Q ss_pred HHHhhhcccc
Q 001337 1081 YRAWRCMDKQ 1090 (1097)
Q Consensus 1081 GRa~RiGQkK 1090 (1097)
||++|.|..=
T Consensus 573 GRaGRQGDPG 582 (913)
T PRK13103 573 GRAGRQGDPG 582 (913)
T ss_pred cccccCCCCC
Confidence 9999999753
No 130
>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=98.43 E-value=4.8e-07 Score=101.82 Aligned_cols=191 Identities=21% Similarity=0.194 Sum_probs=106.4
Q ss_pred eEEEEEEecChHHHHHHHHhhhhcCCcc-----cccchH--------HHHHhhhhhHHHHHHHhcCcceeeecccCCCCC
Q 001337 834 TVFVITVKLSPLQRRLYKRFLDLHGFTN-----DRVSNE--------KIRKSFFAGYQALAQIWNHPGILQLTKDKGYPS 900 (1097)
Q Consensus 834 ~e~vv~v~Ls~~Q~~lY~~il~~~~~~~-----~~~~~~--------~~~~~~l~~l~~Lrqi~~hP~Ll~~~~~~~~~~ 900 (1097)
.++.++++|+..|+++|+.++....... ...... .....+...+..|+.+|+||+|+.........
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 4688999999999999998876432111 000111 12246777888999999999986422110000
Q ss_pred ccccccCCCCCCCccceeeccCcCCccccccccCCCCccchhhhhhhhhcccccccccCcceehhhHHHhhh-----ccC
Q 001337 901 REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-----SNM 975 (1097)
Q Consensus 901 ~e~~~d~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~S~Kl~~L~eiL~~~-----~~~ 975 (1097)
...+........|+|+..|-++|..+ ...
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 00011111235699999999999998 566
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHH------------Hhhcccccceee
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV------------ERFNEPLNKRVK 1043 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i------------~~Fn~~~n~~v~ 1043 (1097)
+-++||.++...++++|+.+|.. .++.|-|++|..-..+....- ..........+.
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 77999999999999999999983 688999999975543333222 122223334567
Q ss_pred EEEeeeccccc----cceecccceEEEEcCCcCCcccHHHHHHH
Q 001337 1044 CTLISTRAGSL----GINLHSANRVIIVDGSWNPTYDLQAIYRA 1083 (1097)
Q Consensus 1044 VlLiStkagg~----GLNL~~An~VIi~D~~WNP~~~~QAiGRa 1083 (1097)
|+|+++.-... .++-...+.||-||+.+++....-..-|.
T Consensus 185 i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~ 228 (297)
T PF11496_consen 185 IHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRT 228 (297)
T ss_dssp EEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH-
T ss_pred EEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHh
Confidence 78888764433 23344679999999999998765444443
No 131
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.42 E-value=1.8e-06 Score=95.34 Aligned_cols=106 Identities=18% Similarity=0.128 Sum_probs=88.7
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
|..-|||+-+..-.+.+...|+. .|+..-.++..+.+.+|.-+-..|-. +.+.| ++.|-|.|.|
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 66778999888888999999986 57888888888888888888777876 56665 5566799999
Q ss_pred ceecccceEEEEcCCcCCcccHHH-------------------------------------------HHHHhhhcccccc
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQA-------------------------------------------IYRAWRCMDKQSQ 1092 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QA-------------------------------------------iGRa~RiGQkK~V 1092 (1097)
|+-+....||+-..+-+-..+-|| -||++|-||+-.|
T Consensus 381 idkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~c 460 (695)
T KOG0353|consen 381 IDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADC 460 (695)
T ss_pred CCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccE
Confidence 999999999999999888888884 5778888999999
Q ss_pred ccccC
Q 001337 1093 FLLTG 1097 (1097)
Q Consensus 1093 ~VYr~ 1097 (1097)
.+|+|
T Consensus 461 ilyy~ 465 (695)
T KOG0353|consen 461 ILYYG 465 (695)
T ss_pred EEEec
Confidence 99886
No 132
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.36 E-value=3.9e-07 Score=113.09 Aligned_cols=120 Identities=18% Similarity=0.189 Sum_probs=102.6
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
.+++..|++.|......|.++|||+.....++.|..+|.. .|+++..++|.++..+|.+++..|..
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~------------~gi~~~~lh~~~~~~eR~~~l~~fr~-- 490 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKE------------LGIKVRYLHSEIDTLERVEIIRDLRL-- 490 (655)
T ss_pred cchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhh------------hccceeeeeCCCCHHHHHHHHHHHhc--
Confidence 4677788888888888899999999999999999999985 58889999999999999999999986
Q ss_pred cceeeEEEeeeccccccceecccceEEEEc-----CCcCCcccHHHHHHHhhhccccccccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVD-----GSWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D-----~~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
+.+. +|++|...+.|++++.++.||++| .+-+.....|++||+.|...- .|++|
T Consensus 491 -G~i~-VLV~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~~G-~vi~~ 549 (655)
T TIGR00631 491 -GEFD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNG-KVIMY 549 (655)
T ss_pred -CCce-EEEEcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCCCC-EEEEE
Confidence 4554 578889999999999999999999 355777889999999997433 34444
No 133
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.33 E-value=9.3e-07 Score=114.10 Aligned_cols=174 Identities=21% Similarity=0.194 Sum_probs=104.3
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
..|++|.....+..+..+..+.....+..+.||++.|..|.|||++++-++..+.+. ....++++|+=.. |-.|-.+
T Consensus 244 ~~k~~~~~~q~~av~~~i~~~~~~~~~~~~~~G~IWHtqGSGKTlTm~~~A~~l~~~--~~~~~v~fvvDR~dLd~Q~~~ 321 (962)
T COG0610 244 VKKKYQRYAQYRAVQKAIKRILKASNPGDGKGGYIWHTQGSGKTLTMFKLARLLLEL--PKNPKVLFVVDRKDLDDQTSD 321 (962)
T ss_pred cchhHHHHHHHHHHHHHHHHHHhccCCCcCCceEEEeecCCchHHHHHHHHHHHHhc--cCCCeEEEEechHHHHHHHHH
Confidence 345555555554444333333333333567899999999999999988777766665 3345777777644 7779999
Q ss_pred hhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecc
Q 001337 644 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 723 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDE 723 (1097)
+|..+..... ... ...+...-...+.. ..++|++||-+.|....... ....+....-+||+||
T Consensus 322 ~f~~~~~~~~----~~~-~~~s~~~Lk~~l~~--~~~~ii~TTIQKf~~~~~~~----------~~~~~~~~~ivvI~DE 384 (962)
T COG0610 322 EFQSFGKVAF----NDP-KAESTSELKELLED--GKGKIIVTTIQKFNKAVKED----------ELELLKRKNVVVIIDE 384 (962)
T ss_pred HHHHHHHhhh----hcc-cccCHHHHHHHHhc--CCCcEEEEEecccchhhhcc----------cccccCCCcEEEEEec
Confidence 9998865421 111 22222222233322 25689999999987533221 0111233556789999
Q ss_pred cchhcccchhHHHHHhhh-ccceeeeeccCccccchh
Q 001337 724 AHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLM 759 (1097)
Q Consensus 724 AH~iKN~~S~~~kal~~l-~a~~RllLTGTPiqNnl~ 759 (1097)
||+-- .....+.++.. ..-.-++.||||+...-.
T Consensus 385 aHRSQ--~G~~~~~~~~~~~~a~~~gFTGTPi~~~d~ 419 (962)
T COG0610 385 AHRSQ--YGELAKLLKKALKKAIFIGFTGTPIFKEDK 419 (962)
T ss_pred hhhcc--ccHHHHHHHHHhccceEEEeeCCccccccc
Confidence 99642 22233333332 446679999999875433
No 134
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=98.28 E-value=7.4e-07 Score=111.26 Aligned_cols=112 Identities=20% Similarity=0.215 Sum_probs=99.2
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
.+++..|++.|..+...|.++|||+.....++.|...|.. .|+++..++|.++..+|..++..|..
T Consensus 429 ~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~------------~gi~~~~~h~~~~~~~R~~~l~~f~~-- 494 (652)
T PRK05298 429 KGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRL-- 494 (652)
T ss_pred cccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhh------------cceeEEEEECCCCHHHHHHHHHHHHc--
Confidence 4567788888888888899999999999999999999985 58899999999999999999999986
Q ss_pred cceeeEEEeeeccccccceecccceEEEEcC-----CcCCcccHHHHHHHhhh
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVIIVDG-----SWNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VIi~D~-----~WNP~~~~QAiGRa~Ri 1086 (1097)
+.+. +|++|...+.|++++.++.||++|. +-++....|++||+.|.
T Consensus 495 -g~i~-vlV~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~ 545 (652)
T PRK05298 495 -GEFD-VLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 545 (652)
T ss_pred -CCce-EEEEeCHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC
Confidence 4453 5788999999999999999999996 45778899999999995
No 135
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.27 E-value=7.3e-06 Score=101.35 Aligned_cols=114 Identities=13% Similarity=0.113 Sum_probs=91.3
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
..|+.++++-+.++.+.|..|||.+.++...+.|..+|.+ .|+++-.++.... +.-..+|. +.
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 4688899998888888899999999999999999999985 6888888888644 22233444 22
Q ss_pred cceeeEEEeeeccccccceecccc--------eEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSAN--------RVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An--------~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
+...-+-|+|..+|.|.++.-.. |||..+.+-|--.+.|..||++|.|..=
T Consensus 472 -G~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpG 530 (925)
T PRK12903 472 -GQKGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVG 530 (925)
T ss_pred -CCCCeEEEecccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCC
Confidence 22223588899999998876433 9999999999999999999999999754
No 136
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.25 E-value=5.4e-06 Score=107.01 Aligned_cols=113 Identities=20% Similarity=0.221 Sum_probs=73.7
Q ss_pred hhHHHhhh-ccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceee
Q 001337 965 LLDILTMC-SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1097)
Q Consensus 965 L~eiL~~~-~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~ 1043 (1097)
+.+.|.++ ...+.++|||..+...++.+...|..... ..++..+. .... ..|.+++++|...++ .
T Consensus 662 ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~--------~~~~~~l~--q~~~-~~r~~ll~~F~~~~~-~-- 727 (850)
T TIGR01407 662 IASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPE--------FEGYEVLA--QGIN-GSRAKIKKRFNNGEK-A-- 727 (850)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc--------ccCceEEe--cCCC-ccHHHHHHHHHhCCC-e--
Confidence 34444333 23457899999999999999999874210 12333222 2222 478999999987322 2
Q ss_pred EEEeeeccccccceeccc--ceEEEEcCCcC-Cc-----------------------------ccHHHHHHHhhhccccc
Q 001337 1044 CTLISTRAGSLGINLHSA--NRVIIVDGSWN-PT-----------------------------YDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1044 VlLiStkagg~GLNL~~A--n~VIi~D~~WN-P~-----------------------------~~~QAiGRa~RiGQkK~ 1091 (1097)
+|+++...++||++++- ..||+.-.|+- |. ...|++||+.|-.+.+-
T Consensus 728 -iLlgt~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G 806 (850)
T TIGR01407 728 -ILLGTSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRG 806 (850)
T ss_pred -EEEEcceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceE
Confidence 47788999999999875 46677776652 32 13588888888776664
Q ss_pred c
Q 001337 1092 Q 1092 (1097)
Q Consensus 1092 V 1092 (1097)
|
T Consensus 807 ~ 807 (850)
T TIGR01407 807 S 807 (850)
T ss_pred E
Confidence 3
No 137
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.05 E-value=1.6e-05 Score=84.30 Aligned_cols=44 Identities=25% Similarity=0.198 Sum_probs=41.7
Q ss_pred EeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1046 LISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1046 LiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
|++|...|.|+++.+.|.+|+||.|-.+..+..+++|++|+|-+
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtk 345 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 345 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhccccc
Confidence 67888999999999999999999999999999999999999965
No 138
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.04 E-value=8.1e-06 Score=97.55 Aligned_cols=269 Identities=20% Similarity=0.262 Sum_probs=155.6
Q ss_pred ecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-h
Q 001337 557 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-V 635 (1097)
Q Consensus 557 ~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~ 635 (1097)
.+|.--...|-.-|+++|-|.-+.... +-......|.+|.|..|.||-.++..+|...... +.++.|.+.- .
T Consensus 256 alP~i~sg~lSALQLEav~YAcQ~He~----llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLk---GRKrAlW~SVSs 328 (1300)
T KOG1513|consen 256 ALPSIDSGHLSALQLEAVTYACQAHEV----LLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLK---GRKRALWFSVSS 328 (1300)
T ss_pred ecccCcccchhHHHHHHHHHHHhhhhh----cCCCCccceeeeccCcccCCCceeEEEEehhhhc---ccceeEEEEecc
Confidence 456655677889999999887554321 1222345688999999999988777777554433 4457777654 4
Q ss_pred hhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccC
Q 001337 636 NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDG 715 (1097)
Q Consensus 636 sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~ 715 (1097)
-|-..-.+.+...... .+.|+.+....-..- ..-..-..+.+|++.||..+-.-+.++..+-+...+.+..++...
T Consensus 329 DLKfDAERDL~DigA~---~I~V~alnK~KYakI-ss~en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge~ 404 (1300)
T KOG1513|consen 329 DLKFDAERDLRDIGAT---GIAVHALNKFKYAKI-SSKENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGED 404 (1300)
T ss_pred ccccchhhchhhcCCC---Cccceehhhcccccc-cccccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhhc
Confidence 4665655555544322 244544432211000 000011134589999999987655554444444555555566566
Q ss_pred CC-EEEecccchhcc-------cchhHHHHHhhh----ccceeeeeccCccccchhhhhhhhhhhhhccCCCchhhhh--
Q 001337 716 PD-ILVCDEAHMIKN-------TRADTTQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRN-- 781 (1097)
Q Consensus 716 ~d-lVIiDEAH~iKN-------~~S~~~kal~~l----~a~~RllLTGTPiqNnl~El~~Ll~fL~p~~lgs~~~F~~-- 781 (1097)
|+ +||+||||..|| ..+++-+++..| ...+++-.|||-- .|=.+|..+++.+++|....|.+
T Consensus 405 feGvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGA----sEPrNMaYM~RLGlWGegtaf~eF~ 480 (1300)
T KOG1513|consen 405 FEGVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGA----SEPRNMAYMVRLGLWGEGTAFPEFE 480 (1300)
T ss_pred cceeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCC----CCcchhhhhhhhccccCCCcCccHH
Confidence 64 788999999998 346666776655 4567777888853 45566777777787776544422
Q ss_pred hccCCCCCCcccCCcccchhhcccchhHHHHHHhhHHhhhchhhhccCCCCceEEEEEEecChHHHHHHHHhhh
Q 001337 782 RFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLD 855 (1097)
Q Consensus 782 ~f~~pi~~g~~~~s~~~d~~~~~~r~~~L~~~L~~fvlRr~~~~v~~~LP~k~e~vv~v~Ls~~Q~~lY~~il~ 855 (1097)
.|...++..... ... +-. +-..+++..+-|.. .+-.-...+-.|+|+++-+++|+.-..
T Consensus 481 eFi~AvEkRGvG-AME--IVA-------MDMK~rGmYiARQL-----SFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 481 EFIHAVEKRGVG-AME--IVA-------MDMKLRGMYIARQL-----SFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred HHHHHHHhcCCc-eee--eee-------hhhhhhhhhhhhhc-----cccCceEEEEecccCHHHHHHHHHHHH
Confidence 222222221110 000 000 11123332222221 233445667789999999999987544
No 139
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.99 E-value=8.6e-06 Score=102.79 Aligned_cols=187 Identities=17% Similarity=0.238 Sum_probs=111.1
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhc-----ccccC--CCcccEEEeecccc-
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFM-----KWRPS--ELKPLRVFMLEDVS- 665 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~-----k~~p~--~~~~l~V~~~~~~~- 665 (1097)
.+..+.+++|+|||.+++..|..+.... +..++|||||.. +.....+-+. .++.. +-.++.++++....
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~--~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~ 137 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKY--GLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDK 137 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHc--CCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcc
Confidence 5778899999999999999998886663 456999999964 3333322221 22221 11236666665432
Q ss_pred -hhHH---HHHHHHHHh-------cCcEEEEeeccccccccCcCCcchhh---HHHHHHHhccCCCEEEecccchhcccc
Q 001337 666 -RDRR---AELLAKWRA-------KGGVFLIGYTAFRNLSFGKHVKDRNM---AREICHALQDGPDILVCDEAHMIKNTR 731 (1097)
Q Consensus 666 -~~~r---~~~l~~~~~-------~~~VvIitY~~~r~l~~~~~~~~~~~---~~~~~~ll~~~~dlVIiDEAH~iKN~~ 731 (1097)
+..| ...+..+.. .-.|++++.++|..-.......+..+ ....-..+...--+||+||+|++.. .
T Consensus 138 ~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~-~ 216 (986)
T PRK15483 138 KKSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR-D 216 (986)
T ss_pred cccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc-c
Confidence 1111 122223322 23688999998864211011101100 0011223344556899999999965 3
Q ss_pred hhHHHHHhhhccceeeeeccCccc-------c--chhhhhhhhhhhhhccCCCchhhhhhccCCCCC
Q 001337 732 ADTTQALKQVKCQRRIALTGSPLQ-------N--NLMEYYCMVDFVREGFLGSSHEFRNRFQNPIEN 789 (1097)
Q Consensus 732 S~~~kal~~l~a~~RllLTGTPiq-------N--nl~El~~Ll~fL~p~~lgs~~~F~~~f~~pi~~ 789 (1097)
.+.++++..++....+.-|||--. | ...|+|+|+.-| ...+.|.+...+-|+.
T Consensus 217 ~k~~~~i~~lnpl~~lrysAT~~~~~~~~g~~~~~~~d~~NlvY~L-----davdAyn~~LVK~I~V 278 (986)
T PRK15483 217 NKFYQAIEALKPQMIIRFGATFPDITEGKGKNKCTRKDYYNLQFDL-----NAVDSFNDGLVKGVDI 278 (986)
T ss_pred hHHHHHHHhcCcccEEEEeeecCCccccccccccccccccCceeec-----CHHHHHHhCCcceEEE
Confidence 457788999998888889999754 1 123467766544 4567787777766554
No 140
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=97.99 E-value=7.3e-06 Score=92.10 Aligned_cols=109 Identities=23% Similarity=0.257 Sum_probs=98.3
Q ss_pred ceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccc
Q 001337 961 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1040 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~ 1040 (1097)
|+..|.++.+ .-...+||++...-++.|...|.. .|.....++|.+...+|..+...|+.+
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 8888888887 336789999999999999999964 688999999999999999999999984
Q ss_pred eeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccc
Q 001337 1041 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQk 1089 (1097)
..+ +||+|...+.|++++..+-||+||.|-|+.++..++||+.|+|-+
T Consensus 313 ssr-vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~grk 360 (397)
T KOG0327|consen 313 SSR-VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRK 360 (397)
T ss_pred Cce-EEeeccccccccchhhcceeeeeccccchhhhhhhcccccccCCC
Confidence 333 489999999999999999999999999999999999999999965
No 141
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.97 E-value=4.9e-05 Score=95.55 Aligned_cols=115 Identities=18% Similarity=0.146 Sum_probs=92.4
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
...|..++++-+..+.+.|..|||-+.++..-..|..+|.. .|+++-.++.... ++-.++|+.=-.
T Consensus 610 ~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~------------~gI~H~VLNAK~h-~~EAeIVA~AG~- 675 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKM------------RKIPHNVLNAKLH-QKEAEIVAEAGQ- 675 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHH------------cCCcHHHhhccch-hhHHHHHHhcCC-
Confidence 34688999999999999999999999999999999999985 6888888887644 222345544332
Q ss_pred ccceeeEEEeeeccccccceec--------ccceEEEEcCCcCCcccHHHHHHHhhhcccc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~--------~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK 1090 (1097)
.+. +-|+|..+|.|.++. +.=+||.-+.+-+.-.+.|..||++|.|..=
T Consensus 676 -~Ga---VTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPG 732 (1112)
T PRK12901 676 -PGT---VTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPG 732 (1112)
T ss_pred -CCc---EEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCC
Confidence 233 478899999998876 4468999999999999999999999999753
No 142
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.97 E-value=1.5e-06 Score=102.59 Aligned_cols=50 Identities=24% Similarity=0.662 Sum_probs=44.1
Q ss_pred cceeeeccCCCCe---eeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 376 ECYCVWCGRSSDL---VSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 376 ~~~C~~C~~gg~l---~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
.+||.-|+..|.. +|||+||++||..||++++.+..+ +.+.|+|..|..+
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eni----P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENI----PPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccC----CCCccccCCCeee
Confidence 4499999999988 999999999999999999877744 5789999999765
No 143
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.95 E-value=8.9e-05 Score=91.05 Aligned_cols=146 Identities=13% Similarity=0.194 Sum_probs=92.8
Q ss_pred cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhh
Q 001337 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNW 641 (1097)
Q Consensus 563 ~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW 641 (1097)
...|-++|+++|..| ..|...+.|..+-.|||+.|=+.|+....+ ..+++--.| ++|-.|=
T Consensus 295 pFelD~FQk~Ai~~l--------------erg~SVFVAAHTSAGKTvVAEYAialaq~h----~TR~iYTSPIKALSNQK 356 (1248)
T KOG0947|consen 295 PFELDTFQKEAIYHL--------------ERGDSVFVAAHTSAGKTVVAEYAIALAQKH----MTRTIYTSPIKALSNQK 356 (1248)
T ss_pred CCCccHHHHHHHHHH--------------HcCCeEEEEecCCCCcchHHHHHHHHHHhh----ccceEecchhhhhccch
Confidence 345678999999766 257788999999999999875555443322 246777888 5566666
Q ss_pred HHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEe
Q 001337 642 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 721 (1097)
Q Consensus 642 ~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIi 721 (1097)
.++|+.-+.. .. .+.|... .+.....+|||.+.+|++.+.... +. ...+.||+
T Consensus 357 fRDFk~tF~D----vg--LlTGDvq---------inPeAsCLIMTTEILRsMLYrgad----li--------RDvE~VIF 409 (1248)
T KOG0947|consen 357 FRDFKETFGD----VG--LLTGDVQ---------INPEASCLIMTTEILRSMLYRGAD----LI--------RDVEFVIF 409 (1248)
T ss_pred HHHHHHhccc----cc--eeeccee---------eCCCcceEeehHHHHHHHHhcccc----hh--------hccceEEE
Confidence 7778765544 12 2222211 235668999999999986543221 11 13577999
Q ss_pred cccchhcccc-hhHHHHHhhh--ccceeeeeccCc
Q 001337 722 DEAHMIKNTR-ADTTQALKQV--KCQRRIALTGSP 753 (1097)
Q Consensus 722 DEAH~iKN~~-S~~~kal~~l--~a~~RllLTGTP 753 (1097)
||.|.+.+.. .-.|.-+.-+ +--.-|+||||-
T Consensus 410 DEVHYiND~eRGvVWEEViIMlP~HV~~IlLSATV 444 (1248)
T KOG0947|consen 410 DEVHYINDVERGVVWEEVIIMLPRHVNFILLSATV 444 (1248)
T ss_pred eeeeecccccccccceeeeeeccccceEEEEeccC
Confidence 9999996643 2223222222 223458999994
No 144
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.95 E-value=0.00012 Score=91.37 Aligned_cols=83 Identities=14% Similarity=0.164 Sum_probs=63.9
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCc-cchHHHHHHHhhccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRT-ESSERQKLVERFNEP 1037 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGst-s~~eR~~~i~~Fn~~ 1037 (1097)
..|..++++-+....+.|..|||-+.++..-+.|...|.. .|+++..++... ..++-.++|++=-.
T Consensus 407 ~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~------------~gi~h~vLNAk~~~~~~EA~IIA~AG~- 473 (870)
T CHL00122 407 LSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKE------------YRLPHQLLNAKPENVRRESEIVAQAGR- 473 (870)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHH------------cCCccceeeCCCccchhHHHHHHhcCC-
Confidence 3578888888888888899999999999999999999985 688898998874 23444556665332
Q ss_pred ccceeeEEEeeecccccccee
Q 001337 1038 LNKRVKCTLISTRAGSLGINL 1058 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL 1058 (1097)
-+. +-|+|..+|.|.++
T Consensus 474 -~G~---VTIATNMAGRGTDI 490 (870)
T CHL00122 474 -KGS---ITIATNMAGRGTDI 490 (870)
T ss_pred -CCc---EEEeccccCCCcCe
Confidence 233 47888999988664
No 145
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=97.91 E-value=5e-05 Score=94.28 Aligned_cols=105 Identities=24% Similarity=0.296 Sum_probs=77.0
Q ss_pred hccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchH--HHHHHHhhcccccceeeEEEeee
Q 001337 972 CSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSE--RQKLVERFNEPLNKRVKCTLIST 1049 (1097)
Q Consensus 972 ~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~e--R~~~i~~Fn~~~n~~v~VlLiSt 1049 (1097)
|.+.|...|++.- .....|++.|..+ ..+.+++++|+.++... -..+++.|.+. ... |||.|
T Consensus 478 Cp~Cgs~~L~~~G--~GterieeeL~~~----------FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~g---e~d-ILiGT 541 (730)
T COG1198 478 CPECGSEHLRAVG--PGTERIEEELKRL----------FPGARIIRIDSDTTRRKGALEDLLDQFANG---EAD-ILIGT 541 (730)
T ss_pred CCCCCCCeeEEec--ccHHHHHHHHHHH----------CCCCcEEEEccccccchhhHHHHHHHHhCC---CCC-eeecc
Confidence 4445556566543 3567888888875 36899999999987544 45789999984 332 69999
Q ss_pred ccccccceecccceEEEEcCC---cCC---------cccHHHHHHHhhhcccccc
Q 001337 1050 RAGSLGINLHSANRVIIVDGS---WNP---------TYDLQAIYRAWRCMDKQSQ 1092 (1097)
Q Consensus 1050 kagg~GLNL~~An~VIi~D~~---WNP---------~~~~QAiGRa~RiGQkK~V 1092 (1097)
....-|+|++...-|.++|.+ .+| ....|.-||++|-+-.-.|
T Consensus 542 QmiaKG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~V 596 (730)
T COG1198 542 QMIAKGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEV 596 (730)
T ss_pred hhhhcCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeE
Confidence 999999999999999888765 223 3457999999997543333
No 146
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.90 E-value=2.3e-05 Score=88.31 Aligned_cols=97 Identities=25% Similarity=0.264 Sum_probs=85.7
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
-+|.|||+....-.|-|++++...+ ...+..+.++|...+.+|.+-++.|.. ..++ |||+|++++.|
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 4799999999999999999998632 134677889999999999999999997 4554 89999999999
Q ss_pred ceecccceEEEEcCCcCCcccHHHHHHHhh
Q 001337 1056 INLHSANRVIIVDGSWNPTYDLQAIYRAWR 1085 (1097)
Q Consensus 1056 LNL~~An~VIi~D~~WNP~~~~QAiGRa~R 1085 (1097)
|++++...+|.+..|-....+..+|||++|
T Consensus 572 ldi~g~p~~invtlpd~k~nyvhrigrvgr 601 (725)
T KOG0349|consen 572 LDITGLPFMINVTLPDDKTNYVHRIGRVGR 601 (725)
T ss_pred ccccCCceEEEEecCcccchhhhhhhccch
Confidence 999999999999999999999999988876
No 147
>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=97.87 E-value=3.9e-05 Score=76.43 Aligned_cols=128 Identities=16% Similarity=0.241 Sum_probs=63.6
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhcccccCCCcccEEEeecccchhHHHHHHHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAK 675 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~ 675 (1097)
--+|-.-.|.|||..++-=+....-. ...++||+.|+.++.. |+.+.+.. .++++..-. .. + .
T Consensus 6 ~~~~d~hpGaGKTr~vlp~~~~~~i~---~~~rvLvL~PTRvva~---em~~aL~~--~~~~~~t~~--~~--~-----~ 68 (148)
T PF07652_consen 6 LTVLDLHPGAGKTRRVLPEIVREAIK---RRLRVLVLAPTRVVAE---EMYEALKG--LPVRFHTNA--RM--R-----T 68 (148)
T ss_dssp EEEEE--TTSSTTTTHHHHHHHHHHH---TT--EEEEESSHHHHH---HHHHHTTT--SSEEEESTT--SS---------
T ss_pred eeEEecCCCCCCcccccHHHHHHHHH---ccCeEEEecccHHHHH---HHHHHHhc--CCcccCcee--ee--c-----c
Confidence 34566679999999877644332111 1358999999887643 33333322 122332111 00 0 1
Q ss_pred HHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHH-Hhhh-cc--ceeeeecc
Q 001337 676 WRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQA-LKQV-KC--QRRIALTG 751 (1097)
Q Consensus 676 ~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~ka-l~~l-~a--~~RllLTG 751 (1097)
......|.+++|.+|..... ......+|++||+||||-. .+.|-..+- +..+ .. ...++|||
T Consensus 69 ~~g~~~i~vMc~at~~~~~~-------------~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTA 134 (148)
T PF07652_consen 69 HFGSSIIDVMCHATYGHFLL-------------NPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTA 134 (148)
T ss_dssp --SSSSEEEEEHHHHHHHHH-------------TSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEES
T ss_pred ccCCCcccccccHHHHHHhc-------------CcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeC
Confidence 12445688999988753110 1111238999999999964 333322222 2222 22 36799999
Q ss_pred Ccc
Q 001337 752 SPL 754 (1097)
Q Consensus 752 TPi 754 (1097)
||-
T Consensus 135 TPP 137 (148)
T PF07652_consen 135 TPP 137 (148)
T ss_dssp S-T
T ss_pred CCC
Confidence 994
No 148
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.82 E-value=0.00011 Score=93.40 Aligned_cols=151 Identities=13% Similarity=0.142 Sum_probs=100.4
Q ss_pred ccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhh
Q 001337 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHN 640 (1097)
Q Consensus 562 l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~q 640 (1097)
+...|-|+|.+++.-+ ..+.+.+.+..+|.|||+.+-..++..+..+. +++-..| ++|..|
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 5677899999999766 46789999999999999999888887766533 5888889 778888
Q ss_pred hHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 641 W~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
=..+|..-+... .-.+-.+.|... ......++++|-+.+|++.+.... .......||
T Consensus 178 Kyrdl~~~fgdv--~~~vGL~TGDv~---------IN~~A~clvMTTEILRnMlyrg~~------------~~~~i~~Vi 234 (1041)
T COG4581 178 KYRDLLAKFGDV--ADMVGLMTGDVS---------INPDAPCLVMTTEILRNMLYRGSE------------SLRDIEWVV 234 (1041)
T ss_pred HHHHHHHHhhhh--hhhccceeccee---------eCCCCceEEeeHHHHHHHhccCcc------------cccccceEE
Confidence 777775444321 001122222111 124557888888999886544311 112566799
Q ss_pred ecccchhcccc-hhHHHHHhh-h-ccceeeeeccCc
Q 001337 721 CDEAHMIKNTR-ADTTQALKQ-V-KCQRRIALTGSP 753 (1097)
Q Consensus 721 iDEAH~iKN~~-S~~~kal~~-l-~a~~RllLTGTP 753 (1097)
+||.|.|.... .-.+.-+.- + +.-+-++||||-
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 99999997654 233333322 2 344779999994
No 149
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.66 E-value=2.7e-05 Score=93.21 Aligned_cols=145 Identities=13% Similarity=0.218 Sum_probs=88.0
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~ 642 (1097)
.+|-|+|..+|.-+ +.+...+...-+-.|||+.|=..|+..++.. .+++--.| ++|-.|=.
T Consensus 128 F~LDpFQ~~aI~Ci--------------dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k----QRVIYTSPIKALSNQKY 189 (1041)
T KOG0948|consen 128 FTLDPFQSTAIKCI--------------DRGESVLVSAHTSAGKTVVAEYAIAMSLREK----QRVIYTSPIKALSNQKY 189 (1041)
T ss_pred cccCchHhhhhhhh--------------cCCceEEEEeecCCCcchHHHHHHHHHHHhc----CeEEeeChhhhhcchhH
Confidence 44666777666544 4566778877799999998877776666553 37788888 56666767
Q ss_pred HhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
+|+..=+.+ |....|.-. .......+|||.+.+|++.+. .....+ ...+||+|
T Consensus 190 REl~~EF~D------VGLMTGDVT---------InP~ASCLVMTTEILRsMLYR----GSEvmr--------EVaWVIFD 242 (1041)
T KOG0948|consen 190 RELLEEFKD------VGLMTGDVT---------INPDASCLVMTTEILRSMLYR----GSEVMR--------EVAWVIFD 242 (1041)
T ss_pred HHHHHHhcc------cceeeccee---------eCCCCceeeeHHHHHHHHHhc----cchHhh--------eeeeEEee
Confidence 776543322 111112111 124456789999998875432 122222 34569999
Q ss_pred ccchhcccchhH-HH-HHhhh-ccceeeeeccCc
Q 001337 723 EAHMIKNTRADT-TQ-ALKQV-KCQRRIALTGSP 753 (1097)
Q Consensus 723 EAH~iKN~~S~~-~k-al~~l-~a~~RllLTGTP 753 (1097)
|.|.+|...-.. |. .+--+ ..-+-++||||-
T Consensus 243 EIHYMRDkERGVVWEETIIllP~~vr~VFLSATi 276 (1041)
T KOG0948|consen 243 EIHYMRDKERGVVWEETIILLPDNVRFVFLSATI 276 (1041)
T ss_pred eehhccccccceeeeeeEEeccccceEEEEeccC
Confidence 999998754221 11 11112 455668899984
No 150
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.63 E-value=0.00059 Score=85.31 Aligned_cols=84 Identities=15% Similarity=0.195 Sum_probs=63.1
Q ss_pred CcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCC-ccchHHHHHHHhhccc
Q 001337 959 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR-TESSERQKLVERFNEP 1037 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGs-ts~~eR~~~i~~Fn~~ 1037 (1097)
..|..++++-+.+..+.|..|||-+.++..-+.|...|.. .|+++-.++.. ...++-.++|..=-.
T Consensus 422 ~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~------------~gi~h~vLNAk~~~~~~EA~IIa~AG~- 488 (939)
T PRK12902 422 IAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQE------------QGIPHNLLNAKPENVEREAEIVAQAGR- 488 (939)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHH------------cCCchheeeCCCcchHhHHHHHHhcCC-
Confidence 4688899988888888999999999999999999999985 68888888876 233444456655322
Q ss_pred ccceeeEEEeeeccccccceec
Q 001337 1038 LNKRVKCTLISTRAGSLGINLH 1059 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~ 1059 (1097)
.+. +-|+|..+|.|-++.
T Consensus 489 -~Ga---VTIATNMAGRGTDIk 506 (939)
T PRK12902 489 -KGA---VTIATNMAGRGTDII 506 (939)
T ss_pred -CCc---EEEeccCCCCCcCEe
Confidence 233 467788888885543
No 151
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.61 E-value=0.0018 Score=80.88 Aligned_cols=115 Identities=12% Similarity=0.172 Sum_probs=74.1
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhcccccCCC-cccEEEeeccc-chhHHH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPSEL-KPLRVFMLEDV-SRDRRA 670 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~k~~p~~~-~~l~V~~~~~~-~~~~r~ 670 (1097)
|...-+-.++|+|||.-.++....+... .++++||+|+. |+.|-.+-+.++....- ....+. ||+. +...+.
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 4444556689999995443333333222 26899999966 67898889998875533 223333 6655 444556
Q ss_pred HHHHHHHh-cCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchh
Q 001337 671 ELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 727 (1097)
Q Consensus 671 ~~l~~~~~-~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~i 727 (1097)
..+.++.. .++|+|+|-.-+. .....+....||+|++|-...+
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 66666654 4688888865543 2334455568999999999865
No 152
>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=97.60 E-value=1.6e-05 Score=65.42 Aligned_cols=47 Identities=30% Similarity=0.856 Sum_probs=37.7
Q ss_pred eeeeccC---CCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 378 YCVWCGR---SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 378 ~C~~C~~---gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
+|.+|+. ++++|.||.|.+.||..|+.+....... ..+.|.|+.|.+
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 5778877 8899999999999999998877554422 234899999965
No 153
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.54 E-value=0.00076 Score=83.30 Aligned_cols=157 Identities=14% Similarity=0.172 Sum_probs=99.2
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhhcccccCCCcccEEEeecccchhHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRA 670 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~ 670 (1097)
+.+..+++...+-.|||...-.++...++.... +-++-|+| ++++.|=..++.--+...-..-.+...... .+.
T Consensus 524 Dr~eSavIVAPTSaGKTfisfY~iEKVLResD~--~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~sl~g~l---tqE 598 (1330)
T KOG0949|consen 524 DRNESAVIVAPTSAGKTFISFYAIEKVLRESDS--DVVIYVAPTKALVNQVSANVYARFDTKTFLRGVSLLGDL---TQE 598 (1330)
T ss_pred hcccceEEEeeccCCceeccHHHHHHHHhhcCC--CEEEEecchHHHhhhhhHHHHHhhccCccccchhhHhhh---hHH
Confidence 456778888999999999999999998888664 47888899 568888666654322110000011111111 111
Q ss_pred HHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccc-hhHHHHHhhhccceeeee
Q 001337 671 ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR-ADTTQALKQVKCQRRIAL 749 (1097)
Q Consensus 671 ~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~-S~~~kal~~l~a~~RllL 749 (1097)
..+..| ...|.||..+-+..+.... ...........+||+||.|.|.|.. +..+.-+..+-...-++|
T Consensus 599 Ysinp~--nCQVLITvPecleslLlsp---------p~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L~L 667 (1330)
T KOG0949|consen 599 YSINPW--NCQVLITVPECLESLLLSP---------PHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFLVL 667 (1330)
T ss_pred hcCCch--hceEEEEchHHHHHHhcCc---------hhhhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCeeEE
Confidence 111112 4578899888876543221 0011122367789999999998865 555666666667778999
Q ss_pred ccCccccchhhhhhhhh
Q 001337 750 TGSPLQNNLMEYYCMVD 766 (1097)
Q Consensus 750 TGTPiqNnl~El~~Ll~ 766 (1097)
||| ++|+..++-.++
T Consensus 668 SAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 668 SAT--IGNPNLFQKWLN 682 (1330)
T ss_pred ecc--cCCHHHHHHHHH
Confidence 999 577777776666
No 154
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.51 E-value=0.0001 Score=86.07 Aligned_cols=102 Identities=23% Similarity=0.244 Sum_probs=77.3
Q ss_pred cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccc
Q 001337 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGS 1053 (1097)
Q Consensus 974 ~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg 1053 (1097)
..|+=|+-||... +-.+...+++ ..+.....|.|+.+++.|.+--..||++.|. +. +|+.++|.|
T Consensus 356 k~GDCvV~FSkk~--I~~~k~kIE~-----------~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e-~d-vlVAsDAIG 420 (700)
T KOG0953|consen 356 KPGDCVVAFSKKD--IFTVKKKIEK-----------AGNHKCAVIYGSLPPETRLAQAALFNDPSNE-CD-VLVASDAIG 420 (700)
T ss_pred CCCCeEEEeehhh--HHHHHHHHHH-----------hcCcceEEEecCCCCchhHHHHHHhCCCCCc-cc-eEEeecccc
Confidence 4588899998742 2334444543 2345599999999999999999999997554 44 477889999
Q ss_pred ccceecccceEEEEcCC-c--------CCcccHHHHHHHhhhccccc
Q 001337 1054 LGINLHSANRVIIVDGS-W--------NPTYDLQAIYRAWRCMDKQS 1091 (1097)
Q Consensus 1054 ~GLNL~~An~VIi~D~~-W--------NP~~~~QAiGRa~RiGQkK~ 1091 (1097)
.|||| +..||||++.. + .-+...|.-|||+|+|.+-+
T Consensus 421 MGLNL-~IrRiiF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~ 466 (700)
T KOG0953|consen 421 MGLNL-NIRRIIFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYP 466 (700)
T ss_pred ccccc-ceeEEEEeecccCCcccceeccHHHHHHHhhcccccccCCc
Confidence 99999 57899999875 2 23445799999999987654
No 155
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.40 E-value=4.3e-05 Score=81.30 Aligned_cols=45 Identities=29% Similarity=0.808 Sum_probs=38.4
Q ss_pred eeeeccCCC---CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 378 YCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
||.+||..- +|+.||-|.|.||..||.+++- .++++.|.|..|..
T Consensus 283 ~csicgtsenddqllfcddcdrgyhmyclsppm~------eppegswsc~KOG~ 330 (336)
T KOG1244|consen 283 YCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMV------EPPEGSWSCHLCLE 330 (336)
T ss_pred eeccccCcCCCceeEeecccCCceeeEecCCCcC------CCCCCchhHHHHHH
Confidence 899999554 6999999999999999987752 45889999999943
No 156
>PF13871 Helicase_C_4: Helicase_C-like
Probab=97.33 E-value=0.00014 Score=80.59 Aligned_cols=62 Identities=27% Similarity=0.448 Sum_probs=49.7
Q ss_pred HHHHhhcccccceeeEEEeeeccccccceeccc-------ceE-EEEcCCcCCcccHHHHHHHhhhccccc-ccc
Q 001337 1029 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSA-------NRV-IIVDGSWNPTYDLQAIYRAWRCMDKQS-QFL 1094 (1097)
Q Consensus 1029 ~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~A-------n~V-Ii~D~~WNP~~~~QAiGRa~RiGQkK~-V~V 1094 (1097)
.-.+.|++ +...|+|+| .|||+||.|++- .|| |+++++|+.....|.+||+||.||..+ .|+
T Consensus 52 ~e~~~F~~---g~k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~ 122 (278)
T PF13871_consen 52 AEKQAFMD---GEKDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYR 122 (278)
T ss_pred HHHHHHhC---CCceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEE
Confidence 46678998 445566665 899999999952 344 789999999999999999999999865 443
No 157
>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=97.30 E-value=0.0047 Score=76.77 Aligned_cols=109 Identities=17% Similarity=0.279 Sum_probs=73.0
Q ss_pred hhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeE
Q 001337 965 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1044 (1097)
Q Consensus 965 L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~V 1044 (1097)
...+|..-...|++|.|||......++++++... .+..++.++|..+..+ ++.+. +++|
T Consensus 271 F~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~------------~~~~Vl~l~s~~~~~d----v~~W~-----~~~V 329 (824)
T PF02399_consen 271 FFSELLARLNAGKNICVFSSTVSFAEIVARFCAR------------FTKKVLVLNSTDKLED----VESWK-----KYDV 329 (824)
T ss_pred HHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHh------------cCCeEEEEcCCCCccc----ccccc-----ceeE
Confidence 3444544556799999999999999999999885 3667888888766552 23343 3444
Q ss_pred EEeeeccccccceecc--cceEEEE--cCCcCCcc--cHHHHHHHhhhcccccccccc
Q 001337 1045 TLISTRAGSLGINLHS--ANRVIIV--DGSWNPTY--DLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1045 lLiStkagg~GLNL~~--An~VIi~--D~~WNP~~--~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
+|-|.+.++|+++-. .+.|+.| ....-|.. ..|.+||+-.++. +.++||.
T Consensus 330 -viYT~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~-~ei~v~~ 385 (824)
T PF02399_consen 330 -VIYTPVITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLD-NEIYVYI 385 (824)
T ss_pred -EEEeceEEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhcc-CeEEEEE
Confidence 556668889999853 3555544 22333443 4899999977764 4566663
No 158
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.18 E-value=0.0053 Score=76.72 Aligned_cols=113 Identities=21% Similarity=0.161 Sum_probs=85.1
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
.-.|+.++++-+......|.+|||-+.+...-..+...|.+ .|++...++-.-. .|..-+=.+.-
T Consensus 411 ~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~------------~~i~h~VLNAk~h--~~EA~Iia~AG- 475 (822)
T COG0653 411 EEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRK------------AGIPHNVLNAKNH--AREAEIIAQAG- 475 (822)
T ss_pred hHHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHh------------cCCCceeeccccH--HHHHHHHhhcC-
Confidence 34688999999999999999999999999999999999985 6888888877765 34333333321
Q ss_pred ccceeeEEEeeeccccccceec-ccc----------eEEEEcCCcCCcccHHHHHHHhhhcc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLH-SAN----------RVIIVDGSWNPTYDLQAIYRAWRCMD 1088 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~-~An----------~VIi~D~~WNP~~~~QAiGRa~RiGQ 1088 (1097)
..+. +=|+|..+|.|-++. +.+ +||=-+-+=+--.+.|--||++|.|-
T Consensus 476 ~~ga---VTiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGD 534 (822)
T COG0653 476 QPGA---VTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGD 534 (822)
T ss_pred CCCc---cccccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCCC
Confidence 1133 367889999999986 333 45555566666677899999999983
No 159
>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 TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=97.01 E-value=0.00066 Score=86.04 Aligned_cols=43 Identities=26% Similarity=0.252 Sum_probs=36.2
Q ss_pred cccCcceehhhHHHhhhccC---------CCceeEEecCCCchhHHHHHHhc
Q 001337 956 LDYSGKMVLLLDILTMCSNM---------GDKSLVFSQSIPTLDLIEFYLSK 998 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~---------geKVLIFSq~~~~ld~L~~~L~~ 998 (1097)
++..||...|.++|+++... +.+||||+++..|...|.++|..
T Consensus 266 lEe~PKw~~L~eiL~eI~~~~~~~~~~~~~~~iLI~~~d~~T~~qL~~~L~~ 317 (814)
T TIGR00596 266 LEENPKWEVLTDVLKEISHEMRMTNRLQGPGKVLIMCSDNRTCLQLRDYLTT 317 (814)
T ss_pred cccCCCHHHHHHHHHHHHhHHhhhcccCCCCcEEEEEcchHHHHHHHHHHHh
Confidence 35689999999999876543 46899999999999999999964
No 161
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.89 E-value=0.0037 Score=67.37 Aligned_cols=69 Identities=22% Similarity=0.279 Sum_probs=42.4
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccc-hhhhhhcCCCcchhhHHHHHHHhhh----ccccceeeEeecchh-hh
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLG-CILAHTMGLGKTFQVIAFLYTAMRS----VNLGLRTALIVTPVN-VL 638 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~G-gILADeMGLGKTlqaIali~~~l~~----~~~~~k~~LIV~P~s-Lv 638 (1097)
+|-+.|..++..++ ...+ .++.-..|+|||.++.+++..+... .....+++||++|.+ -+
T Consensus 1 ~ln~~Q~~Ai~~~~--------------~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~av 66 (236)
T PF13086_consen 1 KLNESQREAIQSAL--------------SSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAV 66 (236)
T ss_dssp ---HHHHHHHHHHC--------------TSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHH--------------cCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhH
Confidence 36678888887553 2334 7788889999998777777776321 123357999999966 45
Q ss_pred hhhHHhhcc
Q 001337 639 HNWKQEFMK 647 (1097)
Q Consensus 639 ~qW~~Ei~k 647 (1097)
.+-...+.+
T Consensus 67 d~~~~~l~~ 75 (236)
T PF13086_consen 67 DNILERLKK 75 (236)
T ss_dssp HHHHHHHHC
T ss_pred HHHHHHHHh
Confidence 565555544
No 162
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=96.88 E-value=0.017 Score=73.27 Aligned_cols=120 Identities=18% Similarity=0.117 Sum_probs=80.3
Q ss_pred ceehhhHHHhhhccC--CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccc
Q 001337 961 KMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1038 (1097)
Q Consensus 961 Kl~~L~eiL~~~~~~--geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~ 1038 (1097)
...++.+++..+... ..-||||-.-..-+..+...|.....-.. ...+-...++++++..+.+.+ |+.++
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 344555555555433 45899999988888888777764211100 123557788999997665544 66665
Q ss_pred cceeeEEEeeeccccccceecccceEE--------EEcCC----------cCCcccHHHHHHHhhhccc
Q 001337 1039 NKRVKCTLISTRAGSLGINLHSANRVI--------IVDGS----------WNPTYDLQAIYRAWRCMDK 1089 (1097)
Q Consensus 1039 n~~v~VlLiStkagg~GLNL~~An~VI--------i~D~~----------WNP~~~~QAiGRa~RiGQk 1089 (1097)
.+ ++-+|++|..+..+|.+...-+|| .|||. =.-+.-.||.||++|.---
T Consensus 468 ~g-~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv~~G 535 (924)
T KOG0920|consen 468 KG-TRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRVRPG 535 (924)
T ss_pred CC-cchhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCccCC
Confidence 44 344699999999999999888887 44442 2345668999999996433
No 163
>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=96.88 E-value=0.00051 Score=73.33 Aligned_cols=136 Identities=19% Similarity=0.244 Sum_probs=62.8
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhcccccCCCc----ccEEEeecccchhHHHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELK----PLRVFMLEDVSRDRRAE 671 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~~~----~l~V~~~~~~~~~~r~~ 671 (1097)
-.++--..|+|||+.|++........+. .++++|+-|..-+..+ + -|+|.... ++-...++....--...
T Consensus 21 ~v~~~G~AGTGKT~LA~a~Al~~v~~g~--~~kiii~Rp~v~~~~~---l-GflpG~~~eK~~p~~~p~~d~l~~~~~~~ 94 (205)
T PF02562_consen 21 LVIVNGPAGTGKTFLALAAALELVKEGE--YDKIIITRPPVEAGED---L-GFLPGDLEEKMEPYLRPIYDALEELFGKE 94 (205)
T ss_dssp EEEEE--TTSSTTHHHHHHHHHHHHTTS---SEEEEEE-S--TT--------SS---------TTTHHHHHHHTTTS-TT
T ss_pred eEEEECCCCCcHHHHHHHHHHHHHHhCC--CcEEEEEecCCCCccc---c-ccCCCCHHHHHHHHHHHHHHHHHHHhChH
Confidence 5577788999999999998887776633 4577777675533222 1 23333210 00000000000000001
Q ss_pred HHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeecc
Q 001337 672 LLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTG 751 (1097)
Q Consensus 672 ~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTG 751 (1097)
.+......+.+-+.+...+|-.+ ....+||+||||++.. ..+-..+.++-...+++++|
T Consensus 95 ~~~~~~~~~~Ie~~~~~~iRGrt-------------------~~~~~iIvDEaQN~t~--~~~k~ilTR~g~~skii~~G 153 (205)
T PF02562_consen 95 KLEELIQNGKIEIEPLAFIRGRT-------------------FDNAFIIVDEAQNLTP--EELKMILTRIGEGSKIIITG 153 (205)
T ss_dssp CHHHHHHTTSEEEEEGGGGTT---------------------B-SEEEEE-SGGG--H--HHHHHHHTTB-TT-EEEEEE
T ss_pred hHHHHhhcCeEEEEehhhhcCcc-------------------ccceEEEEecccCCCH--HHHHHHHcccCCCcEEEEec
Confidence 12223345667777777666322 1346799999998843 34455567777788999999
Q ss_pred Cccccch
Q 001337 752 SPLQNNL 758 (1097)
Q Consensus 752 TPiqNnl 758 (1097)
-|.|.+.
T Consensus 154 D~~Q~D~ 160 (205)
T PF02562_consen 154 DPSQIDL 160 (205)
T ss_dssp -------
T ss_pred CceeecC
Confidence 9988654
No 164
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.86 E-value=0.0097 Score=72.58 Aligned_cols=63 Identities=16% Similarity=0.167 Sum_probs=47.1
Q ss_pred HhhcccccceeeEEEeeeccccccceecccceEE-----------------EEcCCc-CCcccHHHHHHHhhhccccccc
Q 001337 1032 ERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI-----------------IVDGSW-NPTYDLQAIYRAWRCMDKQSQF 1093 (1097)
Q Consensus 1032 ~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VI-----------------i~D~~W-NP~~~~QAiGRa~RiGQkK~V~ 1093 (1097)
.-|...+.+ .++.+++|.++.+.|++++..+|| -|...| +-+.-.||-|||+|+|--+--.
T Consensus 621 RVF~~~p~g-~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgpGHcYR 699 (1172)
T KOG0926|consen 621 RVFDEVPKG-ERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGPGHCYR 699 (1172)
T ss_pred hhccCCCCC-ceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCCCceee
Confidence 346665443 467899999999999999999998 344445 5577789999999999765433
Q ss_pred cc
Q 001337 1094 LL 1095 (1097)
Q Consensus 1094 VY 1095 (1097)
.|
T Consensus 700 LY 701 (1172)
T KOG0926|consen 700 LY 701 (1172)
T ss_pred hh
Confidence 33
No 165
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.76 E-value=0.0004 Score=86.31 Aligned_cols=52 Identities=23% Similarity=0.574 Sum_probs=43.9
Q ss_pred CCCCCcceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 371 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 371 d~d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
++--++++|++|.++|+++||.+|||++|..|+.++.. ..+.+.|.|-+|..
T Consensus 339 ~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~------~~~s~~~e~evc~~ 390 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRF------AVPSAFWECEVCNI 390 (1414)
T ss_pred cceeecccccccCcccceeecccCCceEEeeecCCccc------cCCCccchhhhhhh
Confidence 34556779999999999999999999999999876642 45678999999973
No 166
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=96.76 E-value=0.017 Score=72.27 Aligned_cols=68 Identities=26% Similarity=0.189 Sum_probs=49.1
Q ss_pred eeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcCCc-----CCcccHHHHHHHhhhc
Q 001337 1015 WYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-----NPTYDLQAIYRAWRCM 1087 (1097)
Q Consensus 1015 ~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~W-----NP~~~~QAiGRa~RiG 1087 (1097)
+...+.+.+.++|..+=..|.+ +.++| |..|....-|+||++ .+||+=-|.. .-..+.|.+||++|.|
T Consensus 525 vAyHhaGLT~eER~~iE~afr~---g~i~v-l~aTSTlaaGVNLPA-rRVIiraP~~g~~~l~~~~YkQM~GRAGR~g 597 (1008)
T KOG0950|consen 525 VAYHHAGLTSEEREIIEAAFRE---GNIFV-LVATSTLAAGVNLPA-RRVIIRAPYVGREFLTRLEYKQMVGRAGRTG 597 (1008)
T ss_pred ceecccccccchHHHHHHHHHh---cCeEE-EEecchhhccCcCCc-ceeEEeCCccccchhhhhhHHhhhhhhhhcc
Confidence 4455667777899888888987 44554 555556889999975 5666655543 3356789999999987
No 167
>PRK10536 hypothetical protein; Provisional
Probab=96.72 E-value=0.00097 Score=73.23 Aligned_cols=137 Identities=18% Similarity=0.197 Sum_probs=76.9
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhcccccCCCc----ccEEEeecccchhHHH
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELK----PLRVFMLEDVSRDRRA 670 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k~~p~~~~----~l~V~~~~~~~~~~r~ 670 (1097)
.-.++--+.|+|||+.++++....+..+. ..+++|+-|.--. .|...|+|.... |+--..++.....-..
T Consensus 75 ~lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~----ge~LGfLPG~~~eK~~p~~~pi~D~L~~~~~~ 148 (262)
T PRK10536 75 QLIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQA----DEDLGFLPGDIAEKFAPYFRPVYDVLVRRLGA 148 (262)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCc----hhhhCcCCCCHHHHHHHHHHHHHHHHHHHhCh
Confidence 35677789999999999998886543322 3455555554322 455566766321 0000000000000000
Q ss_pred HHHHHHH--hcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeee
Q 001337 671 ELLAKWR--AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIA 748 (1097)
Q Consensus 671 ~~l~~~~--~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~Rll 748 (1097)
..+..+. ..+.+.|.+...+|..+ ..-++||+||||++.- ......+.++....+++
T Consensus 149 ~~~~~~~~~~~~~Iei~~l~ymRGrt-------------------l~~~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v 207 (262)
T PRK10536 149 SFMQYCLRPEIGKVEIAPFAYMRGRT-------------------FENAVVILDEAQNVTA--AQMKMFLTRLGENVTVI 207 (262)
T ss_pred HHHHHHHHhccCcEEEecHHHhcCCc-------------------ccCCEEEEechhcCCH--HHHHHHHhhcCCCCEEE
Confidence 1111111 23445555555544311 1347899999999843 45566677888889999
Q ss_pred eccCccccch
Q 001337 749 LTGSPLQNNL 758 (1097)
Q Consensus 749 LTGTPiqNnl 758 (1097)
++|-|-|.++
T Consensus 208 ~~GD~~QiD~ 217 (262)
T PRK10536 208 VNGDITQCDL 217 (262)
T ss_pred EeCChhhccC
Confidence 9999987653
No 168
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=96.70 E-value=0.017 Score=73.40 Aligned_cols=108 Identities=17% Similarity=0.126 Sum_probs=73.8
Q ss_pred CCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 976 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 976 geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
..-+|||-.-...++...+.|.+.. ....+.++-++|..+.++..+ -|+..+.++ +-+++||..+.++
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~--------l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~~-RKVVlATNIAETS 326 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAE--------LGDDLEILPLYGALSAEEQVR---VFEPAPGGK-RKVVLATNIAETS 326 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhcc--------ccCCcEEeeccccCCHHHHHh---hcCCCCCCc-ceEEEEccccccc
Confidence 3567888777777777777776410 013577888999999887776 566544442 2269999999999
Q ss_pred ceecccceEE--------EEcC----------CcCCcccHHHHHHHhhhccccccccc
Q 001337 1056 INLHSANRVI--------IVDG----------SWNPTYDLQAIYRAWRCMDKQSQFLL 1095 (1097)
Q Consensus 1056 LNL~~An~VI--------i~D~----------~WNP~~~~QAiGRa~RiGQkK~V~VY 1095 (1097)
|++.+...|| .|++ +-+-+.-.|+-||++|.+--.-...|
T Consensus 327 LTI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~pGicyRLy 384 (845)
T COG1643 327 LTIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPGICYRLY 384 (845)
T ss_pred eeeCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhccccccCCCceEEEec
Confidence 9999998888 2332 22334557888888887755544444
No 169
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.68 E-value=0.0026 Score=72.02 Aligned_cols=73 Identities=19% Similarity=0.153 Sum_probs=45.8
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccc--cceeeEeecchh-hhhhhH
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~--~~k~~LIV~P~s-Lv~qW~ 642 (1097)
.+|.|++-+..+++.+ ..+..+|+-.++|+|||+..+..+......... ...++++++++. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~----------~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00488 9 PYPIQYEFMEELKRVL----------DRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHH----------HcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 3889998776666554 245677888899999998887766544333211 112677777754 444544
Q ss_pred Hhhccc
Q 001337 643 QEFMKW 648 (1097)
Q Consensus 643 ~Ei~k~ 648 (1097)
.++++.
T Consensus 79 ~~l~~~ 84 (289)
T smart00488 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 555543
No 170
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.68 E-value=0.0026 Score=72.02 Aligned_cols=73 Identities=19% Similarity=0.153 Sum_probs=45.8
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccc--cceeeEeecchh-hhhhhH
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~--~~k~~LIV~P~s-Lv~qW~ 642 (1097)
.+|.|++-+..+++.+ ..+..+|+-.++|+|||+..+..+......... ...++++++++. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~----------~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00489 9 PYPIQYEFMEELKRVL----------DRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHH----------HcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 3889998776666554 245677888899999998887766544333211 112677777754 444544
Q ss_pred Hhhccc
Q 001337 643 QEFMKW 648 (1097)
Q Consensus 643 ~Ei~k~ 648 (1097)
.++++.
T Consensus 79 ~~l~~~ 84 (289)
T smart00489 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 555543
No 171
>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=96.68 E-value=0.0029 Score=78.20 Aligned_cols=86 Identities=13% Similarity=0.136 Sum_probs=54.3
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccc
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1054 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~ 1054 (1097)
.+.+++|...+...+..+...|... -.+ -+.+.|..+ .|..++++|.........-+|+.|....+
T Consensus 469 ~~G~~lvLfTS~~~~~~~~~~l~~~-----------l~~-~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfwe 534 (636)
T TIGR03117 469 AQGGTLVLTTAFSHISAIGQLVELG-----------IPA-EIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWT 534 (636)
T ss_pred cCCCEEEEechHHHHHHHHHHHHhh-----------cCC-CEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCcccc
Confidence 3445444444445566677777531 112 234455443 57889999997411111225899999999
Q ss_pred ccee--------c--ccceEEEEcCCcCCc
Q 001337 1055 GINL--------H--SANRVIIVDGSWNPT 1074 (1097)
Q Consensus 1055 GLNL--------~--~An~VIi~D~~WNP~ 1074 (1097)
|+|+ + ....|||.-.|+-|.
T Consensus 535 GvDv~~~~~~p~~G~~Ls~ViI~kLPF~~~ 564 (636)
T TIGR03117 535 GIDLTHKPVSPDKDNLLTDLIITCAPFGLN 564 (636)
T ss_pred ccccCCccCCCCCCCcccEEEEEeCCCCcC
Confidence 9999 2 468999999998773
No 172
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.45 E-value=0.011 Score=73.05 Aligned_cols=153 Identities=22% Similarity=0.234 Sum_probs=87.7
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh--h--hHHhhcccc-cCC--CcccEEEeecccch
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH--N--WKQEFMKWR-PSE--LKPLRVFMLEDVSR 666 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~--q--W~~Ei~k~~-p~~--~~~l~V~~~~~~~~ 666 (1097)
..++=+-+|+|+|||.+-+-++..+.+.. |.-+++||||+.-+. + --.+...++ ... -.++..++++..
T Consensus 74 ~lNiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~-- 149 (985)
T COG3587 74 KLNIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDED-- 149 (985)
T ss_pred cceeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechH--
Confidence 34555678999999999888887776553 456999999965332 1 122222222 211 134566665411
Q ss_pred hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcch------h---hHHHHHHHhccCCCEEEecccchhcccchhHHHH
Q 001337 667 DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDR------N---MAREICHALQDGPDILVCDEAHMIKNTRADTTQA 737 (1097)
Q Consensus 667 ~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~------~---~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~ka 737 (1097)
..+.. + .-.....|++++.+.+..-.....+... . .+...-..+...--+||+||-|++... .+.+.+
T Consensus 150 ~~~~~-~-~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~~~ 226 (985)
T COG3587 150 IEKFK-F-KSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTYGA 226 (985)
T ss_pred HHHHh-h-ccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHHHH
Confidence 11111 0 1123456888888877643111111000 0 001112223334457999999999775 788999
Q ss_pred HhhhccceeeeeccCc
Q 001337 738 LKQVKCQRRIALTGSP 753 (1097)
Q Consensus 738 l~~l~a~~RllLTGTP 753 (1097)
+.+++....+=.+||-
T Consensus 227 i~~l~pl~ilRfgATf 242 (985)
T COG3587 227 IKQLNPLLILRFGATF 242 (985)
T ss_pred HHhhCceEEEEecccc
Confidence 9999888777777774
No 173
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=96.45 E-value=0.042 Score=66.63 Aligned_cols=109 Identities=17% Similarity=0.142 Sum_probs=67.7
Q ss_pred ceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCC--ceeeccCCccchHHHHHHHhhcccccceeeEEEeeecccccc
Q 001337 978 KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGK--DWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1055 (1097)
Q Consensus 978 KVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi--~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~G 1055 (1097)
-+|||=.....++...+.|.+..... ..+. -++-++|+.+.++..+ -|...+. ..|-+++||..+.+.
T Consensus 260 DILvFLtGqeEIe~~~~~l~e~~~~~------~~~~~~~~lply~aL~~e~Q~r---vF~p~p~-g~RKvIlsTNIAETS 329 (674)
T KOG0922|consen 260 DILVFLTGQEEIEAACELLRERAKSL------PEDCPELILPLYGALPSEEQSR---VFDPAPP-GKRKVILSTNIAETS 329 (674)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHhhhc------cccCcceeeeecccCCHHHhhc---cccCCCC-CcceEEEEcceeeee
Confidence 57777776666666666665431110 0111 3566889999776554 4655442 345579999999999
Q ss_pred ceecccceEE----EEcCCcCC-----------cccHHHHHHHhhhcccccccccc
Q 001337 1056 INLHSANRVI----IVDGSWNP-----------TYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1056 LNL~~An~VI----i~D~~WNP-----------~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
|.+.+..+|| .---.||| ..-.||.-|++|-|-+.|-..||
T Consensus 330 lTI~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyR 385 (674)
T KOG0922|consen 330 LTIDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYR 385 (674)
T ss_pred EEecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEE
Confidence 9999988887 11123444 23456666677767676766665
No 174
>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=96.24 E-value=0.007 Score=77.01 Aligned_cols=72 Identities=21% Similarity=0.303 Sum_probs=50.3
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
.+||.|++-+..+++.+ ..+..++|-.++|+|||+.+|+.......... ...+++..+.++ -+.|-.+
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 35889998777776554 35678899999999999988777666544322 123555555654 5678888
Q ss_pred hhcc
Q 001337 644 EFMK 647 (1097)
Q Consensus 644 Ei~k 647 (1097)
|+++
T Consensus 79 Elk~ 82 (705)
T TIGR00604 79 ELRK 82 (705)
T ss_pred HHHh
Confidence 8877
No 175
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=96.15 E-value=0.013 Score=70.11 Aligned_cols=69 Identities=22% Similarity=0.337 Sum_probs=51.7
Q ss_pred ccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh-h
Q 001337 560 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-L 638 (1097)
Q Consensus 560 ~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL-v 638 (1097)
..+...|-+-|..++.+...+ + .=.++--++|+|||.+..-+|..++..+ +++||.+|+++ +
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 344566778899999988532 1 3346677899999999999888887663 58999999885 6
Q ss_pred hhhHHhh
Q 001337 639 HNWKQEF 645 (1097)
Q Consensus 639 ~qW~~Ei 645 (1097)
.|-.+.+
T Consensus 243 dNiverl 249 (649)
T KOG1803|consen 243 DNIVERL 249 (649)
T ss_pred HHHHHHh
Confidence 7776643
No 176
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.96 E-value=0.086 Score=63.67 Aligned_cols=50 Identities=10% Similarity=0.133 Sum_probs=36.6
Q ss_pred CCceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEE
Q 001337 1012 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI 1065 (1097)
Q Consensus 1012 Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VI 1065 (1097)
++.++-|...++..-.. +-|+..+ +.++-.+++|..+.+.|.+.+...||
T Consensus 597 ~L~vlpiYSQLp~dlQ~---kiFq~a~-~~vRK~IvATNIAETSLTi~gI~yVI 646 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQA---KIFQKAE-GGVRKCIVATNIAETSLTIPGIRYVI 646 (1042)
T ss_pred ceEEEeehhhCchhhhh---hhcccCC-CCceeEEEeccchhhceeecceEEEE
Confidence 56677777777755443 3466443 34566789999999999999998888
No 177
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.91 E-value=0.026 Score=55.30 Aligned_cols=35 Identities=26% Similarity=0.453 Sum_probs=26.6
Q ss_pred CEEEecccchhcccchhHHHHHhhh--ccceeeeeccCc
Q 001337 717 DILVCDEAHMIKNTRADTTQALKQV--KCQRRIALTGSP 753 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~S~~~kal~~l--~a~~RllLTGTP 753 (1097)
.+|||||+|++. .......++.+ ...-.++|+|||
T Consensus 89 ~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 479999999995 24555556555 566789999999
No 178
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.90 E-value=0.042 Score=66.15 Aligned_cols=79 Identities=20% Similarity=0.159 Sum_probs=53.4
Q ss_pred CceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccccccceecccceEEEEcC------CcCC-------------
Q 001337 1013 KDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG------SWNP------------- 1073 (1097)
Q Consensus 1013 i~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~------~WNP------------- 1073 (1097)
+-++-|+...+.+...++ |..-+.+. +-+++.|..+.+.|.+.+.++|| || .+||
T Consensus 507 liv~PiYaNLPselQakI---FePtP~ga-RKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~piS 580 (902)
T KOG0923|consen 507 LIVLPIYANLPSELQAKI---FEPTPPGA-RKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPIS 580 (902)
T ss_pred EEEeeccccCChHHHHhh---cCCCCCCc-eeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeeec
Confidence 334556667775554443 55443333 33577888999999999888887 33 2333
Q ss_pred -cccHHHHHHHhhhccccccccccC
Q 001337 1074 -TYDLQAIYRAWRCMDKQSQFLLTG 1097 (1097)
Q Consensus 1074 -~~~~QAiGRa~RiGQkK~V~VYr~ 1097 (1097)
+.-.|+-||++|.|--|--.+|++
T Consensus 581 KAsA~QRaGRAGRtgPGKCfRLYt~ 605 (902)
T KOG0923|consen 581 KASANQRAGRAGRTGPGKCFRLYTA 605 (902)
T ss_pred hhhhhhhccccCCCCCCceEEeech
Confidence 556799999999998887777753
No 179
>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=95.68 E-value=0.01 Score=64.23 Aligned_cols=152 Identities=19% Similarity=0.225 Sum_probs=91.7
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~ 643 (1097)
..|||-|.+.+..|.+ +..+.+.++-.-||-|||-.++=+++..+..+. +=+-+|||+.|+.|-.+
T Consensus 22 iliR~~Q~~ia~~mi~-----------~~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg~---~LvrviVpk~Ll~q~~~ 87 (229)
T PF12340_consen 22 ILIRPVQVEIAREMIS-----------PPSGKNSVMQLNMGEGKTSVIVPMLALALADGS---RLVRVIVPKALLEQMRQ 87 (229)
T ss_pred ceeeHHHHHHHHHHhC-----------CCCCCCeEeeecccCCccchHHHHHHHHHcCCC---cEEEEEcCHHHHHHHHH
Confidence 4589999988777742 246788899999999999887777777665432 46788999999999888
Q ss_pred hhcccccCCCcccEEEeec--ccch--hHHH----HHHHHHHhcCcEEEEeeccccccccCc-------CCcchhhHHHH
Q 001337 644 EFMKWRPSELKPLRVFMLE--DVSR--DRRA----ELLAKWRAKGGVFLIGYTAFRNLSFGK-------HVKDRNMAREI 708 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~--~~~~--~~r~----~~l~~~~~~~~VvIitY~~~r~l~~~~-------~~~~~~~~~~~ 708 (1097)
-+..-+.. +..-+|+.+. .... .... ..+..-...++|++++.+.+.++.... ..........+
T Consensus 88 ~L~~~lg~-l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~ 166 (229)
T PF12340_consen 88 MLRSRLGG-LLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKI 166 (229)
T ss_pred HHHHHHHH-HhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 77665543 2223444432 1111 1111 222334467899999998765432110 00000111122
Q ss_pred HHHhccCCCEEEecccchhcccc
Q 001337 709 CHALQDGPDILVCDEAHMIKNTR 731 (1097)
Q Consensus 709 ~~ll~~~~dlVIiDEAH~iKN~~ 731 (1097)
..++. ...+-|+||++.+-+.+
T Consensus 167 q~~l~-~~~rdilDEsDe~L~~k 188 (229)
T PF12340_consen 167 QKWLD-EHSRDILDESDEILSVK 188 (229)
T ss_pred HHHHH-hcCCeEeECchhccCcc
Confidence 23332 44557999999775543
No 180
>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=95.59 E-value=0.83 Score=59.09 Aligned_cols=51 Identities=18% Similarity=0.091 Sum_probs=36.1
Q ss_pred eeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhccccc----cccc
Q 001337 1042 VKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQS----QFLL 1095 (1097)
Q Consensus 1042 v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~----V~VY 1095 (1097)
..+++|+|.+...|+++- .+.+| -|+. .-....|+.||++|-|+..+ ++||
T Consensus 838 ~~~i~v~Tqv~E~g~D~d-fd~~~-~~~~-~~~sliQ~aGR~~R~~~~~~~~~N~~i~ 892 (1110)
T TIGR02562 838 HLFIVLATPVEEVGRDHD-YDWAI-ADPS-SMRSIIQLAGRVNRHRLEKVQQPNIVIL 892 (1110)
T ss_pred CCeEEEEeeeEEEEeccc-CCeee-eccC-cHHHHHHHhhcccccccCCCCCCcEEEe
Confidence 446899999999999985 34333 3332 22457899999999987654 5555
No 181
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.58 E-value=0.0098 Score=69.72 Aligned_cols=101 Identities=18% Similarity=0.391 Sum_probs=68.1
Q ss_pred ccCcceeeccccceEEE---eeccceeEEEEecCcccchhh--c------c-------cc---cC--C-CCCcceeeecc
Q 001337 328 SLSEKFYCTACNNVAIE---VHPHPILNVIVCKDCKCLLEK--K------M-------HV---KD--A-DCSECYCVWCG 383 (1097)
Q Consensus 328 ~~~~~~~C~~Cg~~~~~---~~~Hp~l~~~~C~~C~~~~~~--~------~-------~~---~d--~-d~~~~~C~~C~ 383 (1097)
..+++.+|-.|+.-..+ +-.-|-+...-|..|-.-... + . |. .| . .-.+..|.+|.
T Consensus 96 p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~wD~~~~~n~qc~vC~ 175 (464)
T KOG4323|consen 96 PENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDWDSGHKVNLQCSVCY 175 (464)
T ss_pred CchhhhhhhhhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCcccccccCccccccceeeeee
Confidence 35578899999866443 224455567777776542111 1 0 11 11 0 11223599997
Q ss_pred CCC-----CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 384 RSS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 384 ~gg-----~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
.|| .+|-|+.|-.-||..|..+++-+..+.+ ....|+|..|.-.+
T Consensus 176 ~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D--~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 176 CGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGD--PFYEWFCDVCNRGP 225 (464)
T ss_pred cCCcCccceeeeecccccHHHHHhccCCCCHhhccC--ccceEeehhhccch
Confidence 655 7999999999999999999998887764 67889999997554
No 182
>PRK14873 primosome assembly protein PriA; Provisional
Probab=95.39 E-value=0.066 Score=67.19 Aligned_cols=126 Identities=13% Similarity=0.024 Sum_probs=79.3
Q ss_pred cCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhhcccccCCCcccEEEeecc-cchhHHHHHHHHHHhc-
Q 001337 603 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLED-VSRDRRAELLAKWRAK- 679 (1097)
Q Consensus 603 MGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei~k~~p~~~~~l~V~~~~~-~~~~~r~~~l~~~~~~- 679 (1097)
.|.|||-.-+.++...+.. .+.+||++| -++..|+...|...++. -.+..+|. .+...|...+......
T Consensus 169 ~GSGKTevyl~~i~~~l~~----Gk~vLvLvPEi~lt~q~~~rl~~~f~~----~~v~~lhS~l~~~~R~~~w~~~~~G~ 240 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRA----GRGALVVVPDQRDVDRLEAALRALLGA----GDVAVLSAGLGPADRYRRWLAVLRGQ 240 (665)
T ss_pred CCCcHHHHHHHHHHHHHHc----CCeEEEEecchhhHHHHHHHHHHHcCC----CcEEEECCCCCHHHHHHHHHHHhCCC
Confidence 4999999888888887765 357999999 55889999999988863 23444544 4455555544444333
Q ss_pred CcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccch--hcccchhHHHH--Hhhh----ccceeeeecc
Q 001337 680 GGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHM--IKNTRADTTQA--LKQV----KCQRRIALTG 751 (1097)
Q Consensus 680 ~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~--iKN~~S~~~ka--l~~l----~a~~RllLTG 751 (1097)
..|+|=|...+-. . -.+..+|||||=|. +|...+..+.+ +..+ ..-..++-|+
T Consensus 241 ~~IViGtRSAvFa-P------------------~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSa 301 (665)
T PRK14873 241 ARVVVGTRSAVFA-P------------------VEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGH 301 (665)
T ss_pred CcEEEEcceeEEe-c------------------cCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECC
Confidence 3566665544311 0 11678999999994 44443333222 1111 3445677799
Q ss_pred Cccc
Q 001337 752 SPLQ 755 (1097)
Q Consensus 752 TPiq 755 (1097)
||--
T Consensus 302 TPSl 305 (665)
T PRK14873 302 ARTA 305 (665)
T ss_pred CCCH
Confidence 9954
No 183
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.38 E-value=0.0032 Score=67.73 Aligned_cols=42 Identities=26% Similarity=0.589 Sum_probs=33.8
Q ss_pred eeeeccCC---CCeeeccccccchhhhhhhccchhhhhhhhhhcccceee--ecC
Q 001337 378 YCVWCGRS---SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCC--CCS 427 (1097)
Q Consensus 378 ~C~~C~~g---g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~--~C~ 427 (1097)
.|++|++. -+.+.||-|.|.||+.|+ |-+ ..+.|.|.|- +|.
T Consensus 316 lC~IC~~P~~E~E~~FCD~CDRG~HT~CV----GL~----~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFCDVCDRGPHTLCV----GLQ----DLPRGEWICDMRCRE 362 (381)
T ss_pred hhhccCCcccchheeccccccCCCCcccc----ccc----cccCccchhhhHHHH
Confidence 58899865 489999999999999995 544 4468999998 664
No 184
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.17 E-value=0.031 Score=58.00 Aligned_cols=83 Identities=25% Similarity=0.266 Sum_probs=54.3
Q ss_pred cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceeeEEEeeec--c
Q 001337 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTR--A 1051 (1097)
Q Consensus 974 ~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStk--a 1051 (1097)
..+..+|||..+-..++.+...+.... ...++.++.- ...++..+++.|... ... +|+++. .
T Consensus 7 ~~~g~~lv~f~Sy~~l~~~~~~~~~~~--------~~~~~~v~~q----~~~~~~~~l~~~~~~--~~~--il~~v~~g~ 70 (167)
T PF13307_consen 7 AVPGGVLVFFPSYRRLEKVYERLKERL--------EEKGIPVFVQ----GSKSRDELLEEFKRG--EGA--ILLAVAGGS 70 (167)
T ss_dssp CCSSEEEEEESSHHHHHHHHTT-TSS---------E-ETSCEEES----TCCHHHHHHHHHCCS--SSE--EEEEETTSC
T ss_pred cCCCCEEEEeCCHHHHHHHHHHHHhhc--------ccccceeeec----CcchHHHHHHHHHhc--cCe--EEEEEeccc
Confidence 446899999999999999998887521 0123333322 245789999999984 222 577777 8
Q ss_pred ccccceecc--cceEEEEcCCcC
Q 001337 1052 GSLGINLHS--ANRVIIVDGSWN 1072 (1097)
Q Consensus 1052 gg~GLNL~~--An~VIi~D~~WN 1072 (1097)
.++|||+.+ +..||+.-.|+-
T Consensus 71 ~~EGiD~~~~~~r~vii~glPfp 93 (167)
T PF13307_consen 71 FSEGIDFPGDLLRAVIIVGLPFP 93 (167)
T ss_dssp CGSSS--ECESEEEEEEES----
T ss_pred EEEeecCCCchhheeeecCCCCC
Confidence 899999985 778899888863
No 185
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=94.82 E-value=0.057 Score=69.70 Aligned_cols=89 Identities=12% Similarity=0.080 Sum_probs=59.6
Q ss_pred hhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcccccceee
Q 001337 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1043 (1097)
Q Consensus 964 ~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v~ 1043 (1097)
.+.+.|..+...+.+++|+..+..++..+...|... .+. ....|... .|.+++++|+..++ .
T Consensus 635 ~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~------------~~~-~l~Qg~~~--~~~~l~~~F~~~~~-~-- 696 (820)
T PRK07246 635 EIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQW------------QVS-HLAQEKNG--TAYNIKKRFDRGEQ-Q-- 696 (820)
T ss_pred HHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhc------------CCc-EEEeCCCc--cHHHHHHHHHcCCC-e--
Confidence 344445444455778899888888888888888641 222 24445333 36779999987422 2
Q ss_pred EEEeeeccccccceecc--cceEEEEcCCc
Q 001337 1044 CTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1097)
Q Consensus 1044 VlLiStkagg~GLNL~~--An~VIi~D~~W 1071 (1097)
+|+.+....+|+++++ +..||+.-.|+
T Consensus 697 -vLlG~~sFwEGVD~p~~~~~~viI~kLPF 725 (820)
T PRK07246 697 -ILLGLGSFWEGVDFVQADRMIEVITRLPF 725 (820)
T ss_pred -EEEecchhhCCCCCCCCCeEEEEEecCCC
Confidence 5777889999999963 55667777553
No 186
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=94.68 E-value=0.086 Score=63.58 Aligned_cols=49 Identities=20% Similarity=0.359 Sum_probs=39.8
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh-hhhhHHhhcc
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWKQEFMK 647 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL-v~qW~~Ei~k 647 (1097)
=.||--..|+|||++.-+++.++.+. ..+|+||++|.++ +.|-..-|++
T Consensus 427 lsLIQGPPGTGKTvtsa~IVyhl~~~---~~~~VLvcApSNiAVDqLaeKIh~ 476 (935)
T KOG1802|consen 427 LSLIQGPPGTGKTVTSATIVYHLARQ---HAGPVLVCAPSNIAVDQLAEKIHK 476 (935)
T ss_pred ceeeecCCCCCceehhHHHHHHHHHh---cCCceEEEcccchhHHHHHHHHHh
Confidence 35788899999999998888887766 3469999999886 6777777765
No 187
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=94.66 E-value=0.047 Score=71.53 Aligned_cols=116 Identities=18% Similarity=0.190 Sum_probs=75.4
Q ss_pred hhhHHHhhhc-cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccccccee
Q 001337 964 LLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRV 1042 (1097)
Q Consensus 964 ~L~eiL~~~~-~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~~n~~v 1042 (1097)
.+.+.|..+. ..+.++|||..+..++..+...|..... ..+ +..+.-+++...|.+++++|+..++ .
T Consensus 739 ~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~--------~~~--~~ll~Qg~~~~~r~~l~~~F~~~~~-~- 806 (928)
T PRK08074 739 EVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEE--------LEG--YVLLAQGVSSGSRARLTKQFQQFDK-A- 806 (928)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhccc--------ccC--ceEEecCCCCCCHHHHHHHHHhcCC-e-
Confidence 4444444433 3456888888888888888888874210 012 2222222223468999999987422 2
Q ss_pred eEEEeeeccccccceeccc--ceEEEEcCCc-CCcc-----------------------------cHHHHHHHhhhcccc
Q 001337 1043 KCTLISTRAGSLGINLHSA--NRVIIVDGSW-NPTY-----------------------------DLQAIYRAWRCMDKQ 1090 (1097)
Q Consensus 1043 ~VlLiStkagg~GLNL~~A--n~VIi~D~~W-NP~~-----------------------------~~QAiGRa~RiGQkK 1090 (1097)
+|+.+....+|+|+++. ..|||.-.|+ +|.. ..|++||+.|-.+.+
T Consensus 807 --iLlG~~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~ 884 (928)
T PRK08074 807 --ILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDR 884 (928)
T ss_pred --EEEecCcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCce
Confidence 46778899999999964 8888988777 4431 147888888877766
Q ss_pred ccc
Q 001337 1091 SQF 1093 (1097)
Q Consensus 1091 ~V~ 1093 (1097)
-|.
T Consensus 885 G~v 887 (928)
T PRK08074 885 GTV 887 (928)
T ss_pred EEE
Confidence 443
No 188
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=94.45 E-value=0.064 Score=69.89 Aligned_cols=74 Identities=23% Similarity=0.291 Sum_probs=51.3
Q ss_pred ccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCC--cchhhHHHHHHHhhhccccceeeEeecchhhhh
Q 001337 562 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLG--KTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1097)
Q Consensus 562 l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLG--KTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~ 639 (1097)
....+.+||...+.-.... ......+++..|+| ||+.+.++......... ..+.++++|..+..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 146 (866)
T COG0553 81 SRFILIPHQLDIALEVLNE------------LALRVLIADEVGLGDLKTIEAGAILKELLLRGE--IKRVLILVPKTLRA 146 (866)
T ss_pred cccccCcchhhhhhhhhhh------------hhhchhhcccccccccccccccccchHhhhhhh--hccceeccchHHHH
Confidence 3455677777655432221 12237889999999 89988777666544433 35889999999999
Q ss_pred hhHHhhcccc
Q 001337 640 NWKQEFMKWR 649 (1097)
Q Consensus 640 qW~~Ei~k~~ 649 (1097)
+|..|...++
T Consensus 147 ~~~~e~~~~~ 156 (866)
T COG0553 147 QWVVELLEKF 156 (866)
T ss_pred HHHHHhhhhc
Confidence 9999987653
No 189
>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=94.31 E-value=0.051 Score=60.58 Aligned_cols=114 Identities=19% Similarity=0.177 Sum_probs=59.6
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh----hhHHhhcccccCCCcccEEEeecc-cchhHH
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH----NWKQEFMKWRPSELKPLRVFMLED-VSRDRR 669 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~----qW~~Ei~k~~p~~~~~l~V~~~~~-~~~~~r 669 (1097)
.|-|.=..+|=|||+++...+....-. .+++-||+....+. +|...|-++++ +.+..... .+...|
T Consensus 91 ~G~laEm~TGEGKTli~~l~a~~~AL~----G~~V~vvT~NdyLA~RD~~~~~~~y~~LG-----lsv~~~~~~~~~~~r 161 (266)
T PF07517_consen 91 KGRLAEMKTGEGKTLIAALPAALNALQ----GKGVHVVTSNDYLAKRDAEEMRPFYEFLG-----LSVGIITSDMSSEER 161 (266)
T ss_dssp TTSEEEESTTSHHHHHHHHHHHHHHTT----SS-EEEEESSHHHHHHHHHHHHHHHHHTT-------EEEEETTTEHHHH
T ss_pred cceeEEecCCCCcHHHHHHHHHHHHHh----cCCcEEEeccHHHhhccHHHHHHHHHHhh-----hccccCccccCHHHH
Confidence 466888899999999775444333222 35788888766443 58888877775 44444333 333333
Q ss_pred HHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchh
Q 001337 670 AELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 727 (1097)
Q Consensus 670 ~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~i 727 (1097)
.... ..+|+-.|-..|..-..... +..........+++++||||+..+
T Consensus 162 ~~~Y-----~~dI~Y~t~~~~~fD~Lrd~-----~~~~~~~~~~r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 162 REAY-----AADIVYGTNSEFGFDYLRDN-----LALSKNEQVQRGFDFAIVDEVDSI 209 (266)
T ss_dssp HHHH-----HSSEEEEEHHHHHHHHHHHT-----T-SSGGG--SSSSSEEEECTHHHH
T ss_pred HHHH-----hCcccccccchhhHHHHHHH-----HhhccchhccCCCCEEEEeccceE
Confidence 3322 23555554444321000000 000011113458999999998865
No 190
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=94.04 E-value=0.017 Score=64.74 Aligned_cols=43 Identities=23% Similarity=0.585 Sum_probs=35.6
Q ss_pred eeeeccCCCCeeeccc--cc-cchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 378 YCVWCGRSSDLVSCKS--CK-TLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~--C~-~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+|- |...|+.+-||+ || .=||..|+... ..+.|.|+|+-|...
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 455 679999999999 99 99999997543 456788999999764
No 191
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.01 E-value=0.068 Score=57.01 Aligned_cols=57 Identities=19% Similarity=0.195 Sum_probs=35.8
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv 638 (1097)
|-+-|.+++..++. ...+-.+|.-..|.|||...-+++..+ ... ..++++++|++-.
T Consensus 2 L~~~Q~~a~~~~l~------------~~~~~~~l~G~aGtGKT~~l~~~~~~~-~~~---g~~v~~~apT~~A 58 (196)
T PF13604_consen 2 LNEEQREAVRAILT------------SGDRVSVLQGPAGTGKTTLLKALAEAL-EAA---GKRVIGLAPTNKA 58 (196)
T ss_dssp S-HHHHHHHHHHHH------------CTCSEEEEEESTTSTHHHHHHHHHHHH-HHT---T--EEEEESSHHH
T ss_pred CCHHHHHHHHHHHh------------cCCeEEEEEECCCCCHHHHHHHHHHHH-HhC---CCeEEEECCcHHH
Confidence 56778888887753 233456777889999997655544333 332 2588999997643
No 192
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=93.98 E-value=0.14 Score=60.19 Aligned_cols=42 Identities=21% Similarity=0.286 Sum_probs=31.3
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
+.++.|+|-.+.|+|||+.-++++.++..+.+.. -.-||-|.
T Consensus 33 DakGh~llEMPSGTGKTvsLLSli~aYq~~~p~~-~~KliYCS 74 (755)
T KOG1131|consen 33 DAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPDE-HRKLIYCS 74 (755)
T ss_pred ccCCcEEEECCCCCCcchHHHHHHHHHHHhCCcc-cceEEEec
Confidence 5677899999999999999999988876654422 13355554
No 193
>PRK04296 thymidine kinase; Provisional
Probab=93.75 E-value=0.14 Score=54.45 Aligned_cols=33 Identities=18% Similarity=0.279 Sum_probs=24.3
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
++.-+||.|||..++.++..+... .++++|+.|
T Consensus 6 litG~~GsGKTT~~l~~~~~~~~~----g~~v~i~k~ 38 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYNYEER----GMKVLVFKP 38 (190)
T ss_pred EEECCCCCHHHHHHHHHHHHHHHc----CCeEEEEec
Confidence 556789999998888887766544 247777755
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=93.61 E-value=0.13 Score=60.00 Aligned_cols=47 Identities=17% Similarity=0.207 Sum_probs=29.5
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhh-HHhhc
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW-KQEFM 646 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW-~~Ei~ 646 (1097)
|+--..|+|||+.++.++..+.... ....++++|+...+.+. ...+.
T Consensus 5 ~I~G~aGTGKTvla~~l~~~l~~~~--~~~~~~~l~~n~~l~~~l~~~l~ 52 (352)
T PF09848_consen 5 LITGGAGTGKTVLALNLAKELQNSE--EGKKVLYLCGNHPLRNKLREQLA 52 (352)
T ss_pred EEEecCCcCHHHHHHHHHHHhhccc--cCCceEEEEecchHHHHHHHHHh
Confidence 3344689999999999888772111 13467777776655543 33443
No 195
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=93.52 E-value=0.041 Score=69.34 Aligned_cols=101 Identities=22% Similarity=0.251 Sum_probs=66.0
Q ss_pred eccccceEE-EeeccceeE-------EEEecCcccch---------------hhcccccCCCCCc-----ceeeeccCCC
Q 001337 335 CTACNNVAI-EVHPHPILN-------VIVCKDCKCLL---------------EKKMHVKDADCSE-----CYCVWCGRSS 386 (1097)
Q Consensus 335 C~~Cg~~~~-~~~~Hp~l~-------~~~C~~C~~~~---------------~~~~~~~d~d~~~-----~~C~~C~~gg 386 (1097)
|-.|+..+. +...||.+. +.+|.-|+-.- ...+..+|..|.. ..|++|+.-|
T Consensus 359 ~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~ywfi~rrl~Ie~~de 438 (1414)
T KOG1473|consen 359 CETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYWFISRRLRIEGMDE 438 (1414)
T ss_pred cccCCceEEeeecCCccccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCccccchhceeeeeEEecCCC
Confidence 334444432 344688886 45777666432 2223333333322 2499999999
Q ss_pred Ceeeccc-cccchhh-hhhhccchhhhhhhhhhcccceeeecChh---hHHHHHHHHh
Q 001337 387 DLVSCKS-CKTLFCT-TCVKRNISEACLSDEVQASCWQCCCCSPS---LLKRLTSELG 439 (1097)
Q Consensus 387 ~l~~Cd~-C~~~fc~-~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~---~~~~l~~~~~ 439 (1097)
.++||+. ||..||. .||+ +.++..-..++.|.|.-|-.. +...|..+++
T Consensus 439 t~l~yysT~pqly~ll~cLd----~~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R 492 (1414)
T KOG1473|consen 439 TLLWYYSTCPQLYHLLRCLD----RTYVEMYLCDGIWERREEIIRQMGLTEELTNELR 492 (1414)
T ss_pred cEEEEecCcHHHHHHHHHhc----hHHHHHhhccchhhhHHHHHHhccchhhhhhhhh
Confidence 9999999 9999998 9964 455555557899999999544 4456666655
No 196
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=93.43 E-value=0.039 Score=66.93 Aligned_cols=47 Identities=28% Similarity=0.676 Sum_probs=37.3
Q ss_pred eeeeccCCC---Ceeeccccccc-hhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 378 YCVWCGRSS---DLVSCKSCKTL-FCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~-fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
-|.+|+-.- -||.||.|..+ ||..||++.+... +.++|+|..|.-..
T Consensus 217 ~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~ei------P~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 217 KCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSES------PVNEWYCTNCSLLE 267 (1134)
T ss_pred cceeeccCChHHhheeecccccceeeccccCcccccc------cccceecCcchhhh
Confidence 499998443 48899999999 9999999876544 44599999996543
No 197
>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=92.81 E-value=0.32 Score=61.18 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=49.3
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh-hhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL-v~qW~ 642 (1097)
..|-+.|..+|.+.+. .....++--..|+|||.++++++..+...+ .++||++|++. +.+..
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 3578889999877642 223567788899999999988887776542 38999999885 55666
Q ss_pred Hhhcc
Q 001337 643 QEFMK 647 (1097)
Q Consensus 643 ~Ei~k 647 (1097)
..+..
T Consensus 219 e~l~~ 223 (637)
T TIGR00376 219 ERLAL 223 (637)
T ss_pred HHHHh
Confidence 66654
No 198
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=92.46 E-value=0.13 Score=58.69 Aligned_cols=38 Identities=26% Similarity=0.396 Sum_probs=27.5
Q ss_pred CEEEecccchhcccchhHHHHHhhhccceeeeeccCcccc
Q 001337 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 756 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqN 756 (1097)
.+|||||||++-. ..+-..+.+.-...+|.|||-|-|-
T Consensus 353 ~FiIIDEaQNLTp--heikTiltR~G~GsKIVl~gd~aQi 390 (436)
T COG1875 353 SFIIIDEAQNLTP--HELKTILTRAGEGSKIVLTGDPAQI 390 (436)
T ss_pred ceEEEehhhccCH--HHHHHHHHhccCCCEEEEcCCHHHc
Confidence 4599999999843 2333445566667899999999773
No 199
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=91.91 E-value=0.34 Score=63.69 Aligned_cols=67 Identities=9% Similarity=0.081 Sum_probs=38.4
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhh-hH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHN-WK 642 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~q-W~ 642 (1097)
+.||-|.+-+..+.+.+. .+.-+++=..+|+|||+--+.-+..... ...++++|-+++. |..| +.
T Consensus 257 e~R~~Q~~m~~~v~~~l~----------~~~~~~iEA~TGtGKTlaYLlpa~~~a~---~~~~~vvIsT~T~~LQ~Ql~~ 323 (928)
T PRK08074 257 EKREGQQEMMKEVYTALR----------DSEHALIEAGTGTGKSLAYLLPAAYFAK---KKEEPVVISTYTIQLQQQLLE 323 (928)
T ss_pred cCCHHHHHHHHHHHHHHh----------cCCCEEEECCCCCchhHHHHHHHHHHhh---ccCCeEEEEcCCHHHHHHHHH
Confidence 567888876666655442 2334555668999999754332222111 1236888888865 4445 34
Q ss_pred Hh
Q 001337 643 QE 644 (1097)
Q Consensus 643 ~E 644 (1097)
++
T Consensus 324 kD 325 (928)
T PRK08074 324 KD 325 (928)
T ss_pred hh
Confidence 44
No 200
>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=91.23 E-value=0.16 Score=64.85 Aligned_cols=136 Identities=20% Similarity=0.147 Sum_probs=79.4
Q ss_pred cccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhH
Q 001337 563 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1097)
Q Consensus 563 ~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~ 642 (1097)
...|-+-|++++..+. ...-.+|.-..|+|||..+-+++..+...+. ..++++++|+.......
T Consensus 321 ~~~l~~~Q~~Ai~~~~--------------~~~~~iitGgpGTGKTt~l~~i~~~~~~~~~--~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 321 RKGLSEEQKQALDTAI--------------QHKVVILTGGPGTGKTTITRAIIELAEELGG--LLPVGLAAPTGRAAKRL 384 (720)
T ss_pred CCCCCHHHHHHHHHHH--------------hCCeEEEECCCCCCHHHHHHHHHHHHHHcCC--CceEEEEeCchHHHHHH
Confidence 4568889999887653 1235788899999999877666655433321 24788889988776655
Q ss_pred HhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 643 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 643 ~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
.|..-. ....+ ..++ .|... ... . .... .....++||||
T Consensus 385 ~e~~g~--------~a~Ti--------h~lL-~~~~~---------~~~---------~----~~~~--~~~~~~llIvD 423 (720)
T TIGR01448 385 GEVTGL--------TASTI--------HRLL-GYGPD---------TFR---------H----NHLE--DPIDCDLLIVD 423 (720)
T ss_pred HHhcCC--------ccccH--------HHHh-hccCC---------ccc---------h----hhhh--ccccCCEEEEe
Confidence 443210 00000 0111 00000 000 0 0000 01267899999
Q ss_pred ccchhcccchhHHHHHhhhccceeeeeccCccccc
Q 001337 723 EAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNN 757 (1097)
Q Consensus 723 EAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNn 757 (1097)
||+.+-.. ...+.+..+....+++|-|=|-|-.
T Consensus 424 EaSMvd~~--~~~~Ll~~~~~~~rlilvGD~~QLp 456 (720)
T TIGR01448 424 ESSMMDTW--LALSLLAALPDHARLLLVGDTDQLP 456 (720)
T ss_pred ccccCCHH--HHHHHHHhCCCCCEEEEECcccccc
Confidence 99999432 3455566667778999999887743
No 201
>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=90.76 E-value=0.34 Score=54.09 Aligned_cols=25 Identities=24% Similarity=0.048 Sum_probs=19.5
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
..+.+|.-+.|+|||..|-++...+
T Consensus 42 ~~~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHHHHHH
Confidence 4567899999999998776666554
No 202
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=90.75 E-value=0.37 Score=60.38 Aligned_cols=94 Identities=20% Similarity=0.329 Sum_probs=51.8
Q ss_pred CCCceeEEecCCCchhHHHHHHhcCCCCCCCCccccc--CCceeeccCCccchHHHHHHHhhcc----cccceeeEEEee
Q 001337 975 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKK--GKDWYRLDGRTESSERQKLVERFNE----PLNKRVKCTLIS 1048 (1097)
Q Consensus 975 ~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~--Gi~~~ridGsts~~eR~~~i~~Fn~----~~n~~v~VlLiS 1048 (1097)
..+-+|||-.+-.+++-+..+.+.. .+|.. +..-+.+--. +..+=.+++.+|.+ ++...+-.+.+.
T Consensus 560 Vp~G~L~FfPSY~vmdk~~tfw~~~-------~~we~~~~vk~l~vEPr-~k~~f~e~m~~y~~~i~~pes~ga~~~aVc 631 (945)
T KOG1132|consen 560 VPYGLLIFFPSYPVMDKLITFWQNR-------GLWERMEKVKKLVVEPR-SKSEFTEVMSRYYNAIADPESSGAVFFAVC 631 (945)
T ss_pred cccceEEeccchHHHHHHHHHHHcc-------hHHHHhhcccCceeccC-CccchHHHHHHHHHHhhCccccceEEEEEe
Confidence 3456999988888888875555431 22321 1111222111 22233344555533 222223235566
Q ss_pred eccccccceec--ccceEEEEcCCcCCccc
Q 001337 1049 TRAGSLGINLH--SANRVIIVDGSWNPTYD 1076 (1097)
Q Consensus 1049 tkagg~GLNL~--~An~VIi~D~~WNP~~~ 1076 (1097)
-...++||++. .+..||+.-.|+=|..+
T Consensus 632 RGKVSEGlDFsD~~~RaVI~tGlPyP~~~D 661 (945)
T KOG1132|consen 632 RGKVSEGLDFSDDNGRAVIITGLPYPPVMD 661 (945)
T ss_pred cccccCCCCccccCCceeEEecCCCCCCCC
Confidence 66889999997 46778888888766544
No 203
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=90.61 E-value=0.26 Score=61.50 Aligned_cols=149 Identities=17% Similarity=0.124 Sum_probs=79.2
Q ss_pred cceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHh-h
Q 001337 567 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE-F 645 (1097)
Q Consensus 567 rphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~E-i 645 (1097)
-+.|+.++.-.. ...-.+|.-..|+|||.++..++..+.+.......++++++|+.-...=..| +
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 467888876442 2345788889999999988888877655322222478888998754432222 2
Q ss_pred cccccCCCcccEEEeecccch---hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEec
Q 001337 646 MKWRPSELKPLRVFMLEDVSR---DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 722 (1097)
Q Consensus 646 ~k~~p~~~~~l~V~~~~~~~~---~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiD 722 (1097)
..-... +.+ .+... ......+.++. .. .... ..+. ...-....+|+||||
T Consensus 220 ~~~~~~----~~~---~~~~~~~~~~~a~TiHrlL-------------g~-~~~~----~~~~--~~~~~~l~~dvlIvD 272 (615)
T PRK10875 220 GKALRQ----LPL---TDEQKKRIPEEASTLHRLL-------------GA-QPGS----QRLR--YHAGNPLHLDVLVVD 272 (615)
T ss_pred Hhhhhc----ccc---chhhhhcCCCchHHHHHHh-------------Cc-CCCc----cchh--hccccCCCCCeEEEC
Confidence 111100 000 00000 00001111110 00 0000 0000 000011267999999
Q ss_pred ccchhcccchhHHHHHhhhccceeeeeccCccccch
Q 001337 723 EAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 758 (1097)
Q Consensus 723 EAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl 758 (1097)
||-.+- ....++.+..+....|++|-|-|-|--.
T Consensus 273 EaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL~s 306 (615)
T PRK10875 273 EASMVD--LPMMARLIDALPPHARVIFLGDRDQLAS 306 (615)
T ss_pred hHhccc--HHHHHHHHHhcccCCEEEEecchhhcCC
Confidence 999983 3445667777888889999999877543
No 204
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=90.39 E-value=0.32 Score=55.33 Aligned_cols=158 Identities=18% Similarity=0.206 Sum_probs=75.9
Q ss_pred cceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhH-HHHHHHhhh-c----ccccee-eEeecchh-hh
Q 001337 567 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVI-AFLYTAMRS-V----NLGLRT-ALIVTPVN-VL 638 (1097)
Q Consensus 567 rphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaI-ali~~~l~~-~----~~~~k~-~LIV~P~s-Lv 638 (1097)
-|-|++|+--.+ .|+-.|=..-+|.|||++-. -+|+..+++ . ..+-+| -|||||.. |.
T Consensus 194 TpIQvQGlPvvL--------------sGRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELA 259 (610)
T KOG0341|consen 194 TPIQVQGLPVVL--------------SGRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELA 259 (610)
T ss_pred CceeecCcceEe--------------ecCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHH
Confidence 478888886553 23444445569999998632 222222221 1 112233 59999976 44
Q ss_pred hhhHHhhcccccC----CCcccEEE-eecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhc
Q 001337 639 HNWKQEFMKWRPS----ELKPLRVF-MLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQ 713 (1097)
Q Consensus 639 ~qW~~Ei~k~~p~----~~~~l~V~-~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~ 713 (1097)
.|-..-+..|+.. +...++.. .+.|..-... +......-.+++.|...+..+...+ .+. .
T Consensus 260 rQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eq---l~~v~~GvHivVATPGRL~DmL~KK-----~~s-------L 324 (610)
T KOG0341|consen 260 RQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQ---LDVVRRGVHIVVATPGRLMDMLAKK-----IMS-------L 324 (610)
T ss_pred HHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHH---HHHHhcCeeEEEcCcchHHHHHHHh-----hcc-------H
Confidence 4544444443211 11112221 1223222222 2222234456777777654321110 000 1
Q ss_pred cCCCEEEecccchhcccc--hhHHHHHhhhcc-ceeeeeccCc
Q 001337 714 DGPDILVCDEAHMIKNTR--ADTTQALKQVKC-QRRIALTGSP 753 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~--S~~~kal~~l~a-~~RllLTGTP 753 (1097)
+-..++.+|||.++-.-. -.+...+.-+++ +..++.|||-
T Consensus 325 d~CRyL~lDEADRmiDmGFEddir~iF~~FK~QRQTLLFSATM 367 (610)
T KOG0341|consen 325 DACRYLTLDEADRMIDMGFEDDIRTIFSFFKGQRQTLLFSATM 367 (610)
T ss_pred HHHHHhhhhhHHHHhhccchhhHHHHHHHHhhhhheeeeeccc
Confidence 133457999999875322 223333333444 3468889985
No 205
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=90.25 E-value=0.91 Score=57.58 Aligned_cols=149 Identities=16% Similarity=0.154 Sum_probs=82.8
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
.|-.-|++|+...+.. .....|+.. +|+|||-++.++|..+... .+++|+.+=++ -|.|-.-
T Consensus 669 ~LN~dQr~A~~k~L~a------------edy~LI~GM-PGTGKTTtI~~LIkiL~~~----gkkVLLtsyThsAVDNILi 731 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAA------------EDYALILGM-PGTGKTTTISLLIKILVAL----GKKVLLTSYTHSAVDNILI 731 (1100)
T ss_pred hcCHHHHHHHHHHHhc------------cchheeecC-CCCCchhhHHHHHHHHHHc----CCeEEEEehhhHHHHHHHH
Confidence 6778898888655431 223334444 7999998888887776554 35788888655 4667655
Q ss_pred hhcccccCCCcccEEEeecccch------------hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHH
Q 001337 644 EFMKWRPSELKPLRVFMLEDVSR------------DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 711 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~~~~~------------~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~l 711 (1097)
-+..+--. -++.-..+.... ......+........||.+|--.+.. .+
T Consensus 732 KL~~~~i~---~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~-----------------pl 791 (1100)
T KOG1805|consen 732 KLKGFGIY---ILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINH-----------------PL 791 (1100)
T ss_pred HHhccCcc---eeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCc-----------------hh
Confidence 55443211 111111111111 11222333444445555555432211 11
Q ss_pred h-ccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccc
Q 001337 712 L-QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 755 (1097)
Q Consensus 712 l-~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiq 755 (1097)
+ ...||++|||||-.|--+- ++--+....+++|-|-+.|
T Consensus 792 f~~R~FD~cIiDEASQI~lP~-----~LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 792 FVNRQFDYCIIDEASQILLPL-----CLGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred hhccccCEEEEccccccccch-----hhhhhhhcceEEEeccccc
Confidence 1 2379999999998774332 3444566777888887766
No 206
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=90.13 E-value=0.6 Score=59.16 Aligned_cols=81 Identities=20% Similarity=0.158 Sum_probs=59.5
Q ss_pred cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCC-ceeeccCCccchHHHHHHHhhcccccceeeEEEeeeccc
Q 001337 974 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGK-DWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAG 1052 (1097)
Q Consensus 974 ~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi-~~~ridGsts~~eR~~~i~~Fn~~~n~~v~VlLiStkag 1052 (1097)
..+.++|||..+-..+..+...+... .. -.+...|.. .+..++++|....+. .+++.+...
T Consensus 477 ~~~~~~lvlF~Sy~~l~~~~~~~~~~------------~~~~~v~~q~~~---~~~~~l~~f~~~~~~---~~lv~~gsf 538 (654)
T COG1199 477 ASPGGVLVLFPSYEYLKRVAERLKDE------------RSTLPVLTQGED---EREELLEKFKASGEG---LILVGGGSF 538 (654)
T ss_pred hcCCCEEEEeccHHHHHHHHHHHhhc------------CccceeeecCCC---cHHHHHHHHHHhcCC---eEEEeeccc
Confidence 34558999999888888888888752 11 233444444 455899999985443 479999999
Q ss_pred cccceecc--cceEEEEcCCcC
Q 001337 1053 SLGINLHS--ANRVIIVDGSWN 1072 (1097)
Q Consensus 1053 g~GLNL~~--An~VIi~D~~WN 1072 (1097)
++|+|+++ ...||+.-.|+-
T Consensus 539 ~EGVD~~g~~l~~vvI~~lPfp 560 (654)
T COG1199 539 WEGVDFPGDALRLVVIVGLPFP 560 (654)
T ss_pred cCcccCCCCCeeEEEEEecCCC
Confidence 99999986 478888888774
No 207
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=90.02 E-value=0.13 Score=56.03 Aligned_cols=45 Identities=20% Similarity=0.568 Sum_probs=34.3
Q ss_pred eeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhhHH
Q 001337 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLLK 432 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~~~ 432 (1097)
.|++|..-=..-|=-.|...||.-||++.+|.. =+|++|...+.+
T Consensus 27 rC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~q----------p~CP~Cr~~~~e 71 (391)
T COG5432 27 RCRICDCRISIPCETTCGHTFCSLCIRRHLGTQ----------PFCPVCREDPCE 71 (391)
T ss_pred HhhhhhheeecceecccccchhHHHHHHHhcCC----------CCCccccccHHh
Confidence 688887666655556699999999999998755 259999765543
No 208
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.99 E-value=0.12 Score=61.05 Aligned_cols=123 Identities=18% Similarity=0.163 Sum_probs=89.8
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
.+.|+.....++-++...|-+.|-|+......+++-...+.+..... . .---.+..+.|+...++|.++-...-.
T Consensus 507 ~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~--~--~LV~~i~SYRGGY~A~DRRKIE~~~F~- 581 (1034)
T KOG4150|consen 507 KSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETA--P--HLVEAITSYRGGYIAEDRRKIESDLFG- 581 (1034)
T ss_pred hhhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhh--H--HHHHHHHhhcCccchhhHHHHHHHhhC-
Confidence 35677777778877778899999999998776665544333211000 0 000123456788888899888776443
Q ss_pred ccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcc
Q 001337 1038 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMD 1088 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQ 1088 (1097)
++. .-+|+|.|...||++-..+.|+....|.+-+...|..||++|-..
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 248999999999999999999999999999999999999999654
No 209
>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=89.95 E-value=0.96 Score=44.06 Aligned_cols=26 Identities=23% Similarity=0.085 Sum_probs=19.0
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
.+...++.-+.|.|||..+-.++..+
T Consensus 18 ~~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 45678889999999996555555443
No 210
>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=89.90 E-value=0.57 Score=45.11 Aligned_cols=44 Identities=14% Similarity=0.032 Sum_probs=28.6
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhH
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~ 642 (1097)
...+|.-.+|.|||..+..++..+.... ..++++.+......+.
T Consensus 3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~----~~~~~~~~~~~~~~~~ 46 (148)
T smart00382 3 EVILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGEDILEEVL 46 (148)
T ss_pred CEEEEECCCCCcHHHHHHHHHhccCCCC----CCEEEECCEEccccCH
Confidence 4567788899999988777766553221 2466666665554443
No 211
>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=89.54 E-value=0.32 Score=60.46 Aligned_cols=151 Identities=17% Similarity=0.125 Sum_probs=78.7
Q ss_pred ceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccc-cceeeEeecchhhhhh-hHHhh
Q 001337 568 AHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHN-WKQEF 645 (1097)
Q Consensus 568 phQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~-~~k~~LIV~P~sLv~q-W~~Ei 645 (1097)
+.|+.++...+. ..-.+|.-..|+|||.++..++..+...... +..++++++|+.-... ..+-+
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 577777765532 3456888899999999888887776544321 1136889999875443 33222
Q ss_pred cccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccc
Q 001337 646 MKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAH 725 (1097)
Q Consensus 646 ~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH 725 (1097)
..-... +... ... . ..-.+-..|...+-..... ...+.. ..--...+|+||||||-
T Consensus 214 ~~~~~~----l~~~------~~~----~----~~~~~~a~TiHrlLg~~~~----~~~~~~--~~~~~l~~dvlIiDEaS 269 (586)
T TIGR01447 214 RKAVKN----LAAA------EAL----I----AALPSEAVTIHRLLGIKPD----TKRFRH--HERNPLPLDVLVVDEAS 269 (586)
T ss_pred Hhhhcc----cccc------hhh----h----hccccccchhhhhhcccCC----cchhhh--cccCCCcccEEEEcccc
Confidence 221110 0000 000 0 0000001111111100000 000000 00011268999999999
Q ss_pred hhcccchhHHHHHhhhccceeeeeccCccccch
Q 001337 726 MIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 758 (1097)
Q Consensus 726 ~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl 758 (1097)
++-. ....+.+..+....|++|.|-|-|=-+
T Consensus 270 Mvd~--~l~~~ll~al~~~~rlIlvGD~~QLps 300 (586)
T TIGR01447 270 MVDL--PLMAKLLKALPPNTKLILLGDKNQLPS 300 (586)
T ss_pred cCCH--HHHHHHHHhcCCCCEEEEECChhhCCC
Confidence 9843 345566677777889999999977543
No 212
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.48 E-value=0.12 Score=62.15 Aligned_cols=47 Identities=26% Similarity=0.610 Sum_probs=37.5
Q ss_pred cceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 376 ECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 376 ~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
..-|.+|..||.++||+.|+.+||..|.+..+.+. ..-..|.|-.|.
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~-----~~~~~~~~~~~~ 93 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPD-----LKGSEINCSRCP 93 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcc-----cccccccccCCC
Confidence 34799999999999999999999999998887633 233557776663
No 213
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=89.45 E-value=0.13 Score=59.72 Aligned_cols=50 Identities=24% Similarity=0.648 Sum_probs=39.1
Q ss_pred eeeeccCCCC---eeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 378 YCVWCGRSSD---LVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 378 ~C~~C~~gg~---l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
.|.+|...-+ |+.||+|...||.-||.+++-+-.- -...-.|+|.-|+..
T Consensus 546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pk--k~kn~gWqCsECdk~ 598 (707)
T KOG0957|consen 546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPK--KNKNFGWQCSECDKN 598 (707)
T ss_pred eeeeeccchhhHHHhhcchhhceeeccccCCccccCcc--cccCcceeecccccc
Confidence 5999986664 8999999999999999998765432 234567999999653
No 214
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=89.20 E-value=0.13 Score=62.13 Aligned_cols=43 Identities=30% Similarity=0.766 Sum_probs=34.6
Q ss_pred eeeeccCCC---Ceeeccccccchhhhhhhccchhhhhhhhhhcccceeeec
Q 001337 378 YCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1097)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1097)
.|-.|+.+| .+..|+.|--+||-.|++|.. ...+.++|.|..|
T Consensus 70 vCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~------~~v~sg~~~ckk~ 115 (694)
T KOG4443|consen 70 VCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPN------DKVPSGPWLCKKC 115 (694)
T ss_pred eeeeccccCCcccccccccccccccccccCCcc------ccccCcccccHHH
Confidence 677777544 689999999999999998875 3557889997766
No 215
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=88.75 E-value=0.8 Score=59.35 Aligned_cols=67 Identities=16% Similarity=0.295 Sum_probs=39.9
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh-hhh-H
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL-HNW-K 642 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv-~qW-~ 642 (1097)
+.||-|.+-+..+.+.+. .+.-.++-..+|+|||+.-+.- .+... ...+++|.+|+..+ .|- .
T Consensus 245 e~R~~Q~~ma~~V~~~l~----------~~~~~~~eA~tGtGKT~ayllp---~l~~~--~~~~vvI~t~T~~Lq~Ql~~ 309 (820)
T PRK07246 245 EERPKQESFAKLVGEDFH----------DGPASFIEAQTGIGKTYGYLLP---LLAQS--DQRQIIVSVPTKILQDQIMA 309 (820)
T ss_pred ccCHHHHHHHHHHHHHHh----------CCCcEEEECCCCCcHHHHHHHH---HHHhc--CCCcEEEEeCcHHHHHHHHH
Confidence 567778776665555442 2344566779999999643332 22221 13589999997644 453 4
Q ss_pred Hhhc
Q 001337 643 QEFM 646 (1097)
Q Consensus 643 ~Ei~ 646 (1097)
+++.
T Consensus 310 ~~i~ 313 (820)
T PRK07246 310 EEVK 313 (820)
T ss_pred HHHH
Confidence 4443
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=88.42 E-value=0.94 Score=51.29 Aligned_cols=29 Identities=21% Similarity=0.139 Sum_probs=22.3
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+.+.+|.-+.|+|||..|-++...+...
T Consensus 57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~ 85 (284)
T TIGR02880 57 PTLHMSFTGNPGTGKTTVALRMAQILHRL 85 (284)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence 34578889999999998887776665443
No 217
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=88.00 E-value=0.72 Score=58.14 Aligned_cols=47 Identities=23% Similarity=0.377 Sum_probs=38.2
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhcccccC
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPS 651 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~k~~p~ 651 (1097)
+|.--+|.|||+++..++... .+|+|||+|.. +..||..||+.|+|.
T Consensus 33 ~l~Gvtgs~kt~~~a~~~~~~-------~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 33 TLLGVTGSGKTFTMANVIAQV-------NRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred EEECCCCcHHHHHHHHHHHHh-------CCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 466779999999887766543 35999999965 667999999999986
No 218
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=87.52 E-value=0.96 Score=57.64 Aligned_cols=90 Identities=19% Similarity=0.198 Sum_probs=59.5
Q ss_pred hhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc---ccc
Q 001337 964 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP---LNK 1040 (1097)
Q Consensus 964 ~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~---~n~ 1040 (1097)
.+.+.|..+...+..+|||..+...++.+...|... .+.. +.+.|. ..|.++++.|.+. ..+
T Consensus 522 ~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~-----------~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~ 586 (697)
T PRK11747 522 EMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRD-----------LRLM-LLVQGD---QPRQRLLEKHKKRVDEGEG 586 (697)
T ss_pred HHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHh-----------cCCc-EEEeCC---chHHHHHHHHHHHhccCCC
Confidence 445555444445556888888888888888888631 1222 334453 2578899777642 112
Q ss_pred eeeEEEeeeccccccceecc--cceEEEEcCCc
Q 001337 1041 RVKCTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1097)
Q Consensus 1041 ~v~VlLiStkagg~GLNL~~--An~VIi~D~~W 1071 (1097)
. +|+.+....+|||+++ ...||+.-.|+
T Consensus 587 ~---VL~g~~sf~EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 587 S---VLFGLQSFAEGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred e---EEEEeccccccccCCCCceEEEEEEcCCC
Confidence 2 4667788999999985 68889988776
No 219
>CHL00181 cbbX CbbX; Provisional
Probab=87.24 E-value=0.68 Score=52.47 Aligned_cols=29 Identities=21% Similarity=0.218 Sum_probs=22.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+...+|.-+.|+|||..|-++...+...
T Consensus 58 ~~~~ill~G~pGtGKT~lAr~la~~~~~~ 86 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVALKMADILYKL 86 (287)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 34457889999999999888887665443
No 220
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=87.23 E-value=1.9 Score=50.96 Aligned_cols=56 Identities=9% Similarity=0.142 Sum_probs=36.4
Q ss_pred cCCCEEEecccchhcccch---hHHHHHhhhc--cceeeeeccCccccchhhhhhhhhhhh
Q 001337 714 DGPDILVCDEAHMIKNTRA---DTTQALKQVK--CQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S---~~~kal~~l~--a~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
.++|+||||++.+.....- .+.+.+.... ....++|+||-=++.+.+++.-+..+.
T Consensus 253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~ 313 (388)
T PRK12723 253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFS 313 (388)
T ss_pred CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCC
Confidence 3789999999987753322 2222222222 245689999998888887776665544
No 221
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=86.78 E-value=0.98 Score=57.75 Aligned_cols=100 Identities=22% Similarity=0.284 Sum_probs=60.3
Q ss_pred hhHHHhhhc-cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccc--cCCceeeccCCccchHHHHHHHhhcccc-cc
Q 001337 965 LLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWK--KGKDWYRLDGRTESSERQKLVERFNEPL-NK 1040 (1097)
Q Consensus 965 L~eiL~~~~-~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~--~Gi~~~ridGsts~~eR~~~i~~Fn~~~-n~ 1040 (1097)
+.+.|.++. .....+|||..+-..++.+...+...+ .|. .....+.+.+.. ..++.++++.|...- .+
T Consensus 510 l~~~i~~~~~~~pgg~lvfFpSy~~l~~v~~~~~~~~-------~~~~i~~~k~i~~E~~~-~~~~~~~l~~f~~~~~~~ 581 (705)
T TIGR00604 510 LGELLVEFSKIIPDGIVVFFPSYSYLENIVSTWKEMG-------ILENIEKKKLIFVETKD-AQETSDALERYKQAVSEG 581 (705)
T ss_pred HHHHHHHHhhcCCCcEEEEccCHHHHHHHHHHHHhcC-------HHHHHhcCCCEEEeCCC-cchHHHHHHHHHHHHhcC
Confidence 444443332 346788898888888887777766421 010 001123333322 257899999997531 11
Q ss_pred eeeEEEeee--ccccccceecc--cceEEEEcCCc-CC
Q 001337 1041 RVKCTLIST--RAGSLGINLHS--ANRVIIVDGSW-NP 1073 (1097)
Q Consensus 1041 ~v~VlLiSt--kagg~GLNL~~--An~VIi~D~~W-NP 1073 (1097)
+- .+|+++ ...++|||+.+ +..||++-.|+ ||
T Consensus 582 ~g-avL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~ 618 (705)
T TIGR00604 582 RG-AVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYT 618 (705)
T ss_pred Cc-eEEEEecCCcccCccccCCCCCcEEEEEccCCCCC
Confidence 11 146665 57889999985 68899998887 54
No 222
>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=86.16 E-value=0.52 Score=45.12 Aligned_cols=48 Identities=23% Similarity=0.661 Sum_probs=34.7
Q ss_pred eeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 380 VWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 380 ~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
++|..-...--|..|...||-.||..-.|.... ++.++..|.||.|.-
T Consensus 22 ~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~-ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 22 TICTGHWKNSSCRGCRGKFCGGCLRNRYGENVE-EVLEDPNWKCPKCRG 69 (105)
T ss_pred eEcCCCCCCCCCccCcceehHhHHHHHHhhhHH-HHhcCCceECCCCCC
Confidence 455333444445556999999999999887544 467788999998853
No 223
>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=86.13 E-value=1.5 Score=47.35 Aligned_cols=28 Identities=21% Similarity=-0.012 Sum_probs=21.3
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
..+...+|.-+.|.|||..+.++.....
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3456788889999999988877765543
No 224
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=85.71 E-value=0.3 Score=65.64 Aligned_cols=54 Identities=24% Similarity=0.639 Sum_probs=41.6
Q ss_pred CCCCCcceeeeccCCC---CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 371 DADCSECYCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 371 d~d~~~~~C~~C~~gg---~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
+..-..-.|.+|...+ .++.||.|-.+||..|+++-+. -.+.+.|.|+.|.+..
T Consensus 1103 ~~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~------~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1103 DRSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALS------SVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred ccccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhc------cCCcCCccCCccchhh
Confidence 3444455799998555 4799999999999999876653 3355679999999885
No 225
>PRK08116 hypothetical protein; Validated
Probab=85.69 E-value=2 Score=48.30 Aligned_cols=45 Identities=20% Similarity=0.295 Sum_probs=31.0
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 642 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~ 642 (1097)
+.|.+|.-+.|+|||..+.|++..+...+ .+++++.-..++....
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~----~~v~~~~~~~ll~~i~ 158 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKG----VPVIFVNFPQLLNRIK 158 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcC----CeEEEEEHHHHHHHHH
Confidence 45789999999999999998888776541 3555554344444333
No 226
>PRK06526 transposase; Provisional
Probab=85.44 E-value=1 Score=50.13 Aligned_cols=29 Identities=21% Similarity=0.196 Sum_probs=23.8
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+.+.+|.-..|.|||..+.++.......
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 45688999999999999999988776543
No 227
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=85.34 E-value=0.43 Score=58.24 Aligned_cols=45 Identities=24% Similarity=0.664 Sum_probs=35.5
Q ss_pred CcceeeeccCC-----CCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 375 SECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 375 ~~~~C~~C~~g-----g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
.+-.|-+|.-+ .+++.||.|.-|-|..|-..+ ..++++|.|-.|.
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 34577777654 689999999999999995433 3467999999995
No 228
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.31 E-value=0.37 Score=57.91 Aligned_cols=43 Identities=26% Similarity=0.443 Sum_probs=30.7
Q ss_pred hhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhh
Q 001337 600 AHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEF 645 (1097)
Q Consensus 600 ADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei 645 (1097)
-..+|.|||+++.++|.+.... |.+..|..|- ++++..-..-|
T Consensus 3 ~matgsgkt~~ma~lil~~y~k---gyr~flffvnq~nilekt~~nf 46 (812)
T COG3421 3 EMATGSGKTLVMAGLILECYKK---GYRNFLFFVNQANILEKTKLNF 46 (812)
T ss_pred ccccCCChhhHHHHHHHHHHHh---chhhEEEEecchhHHHHHHhhc
Confidence 3568999999999999887765 4457777775 66766544333
No 229
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=84.55 E-value=0.74 Score=51.66 Aligned_cols=44 Identities=16% Similarity=0.099 Sum_probs=30.5
Q ss_pred eeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 569 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 569 hQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
+|...|+-|...+.. ......++.-+.|+|||-+|.+|...+..
T Consensus 40 gQe~vV~~L~~a~~~--------~~lp~~LFyGPpGTGKTStalafar~L~~ 83 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLR--------RILPHYLFYGPPGTGKTSTALAFARALNC 83 (346)
T ss_pred chHHHHHHHHHHHhh--------cCCceEEeeCCCCCcHhHHHHHHHHHhcC
Confidence 566666655443321 34556778889999999999999877643
No 230
>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=83.82 E-value=0.34 Score=48.76 Aligned_cols=27 Identities=26% Similarity=0.625 Sum_probs=22.3
Q ss_pred chhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 397 LFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 397 ~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
.||..||++++- ..+++.|+|+.|..+
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 489999999872 557799999999754
No 231
>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=83.61 E-value=3.6 Score=42.87 Aligned_cols=45 Identities=24% Similarity=0.271 Sum_probs=31.3
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhc
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~ 646 (1097)
+++-+.|.|||..++.++...... ..+++++.......+..+.+.
T Consensus 3 li~G~~G~GKT~l~~~~~~~~~~~----g~~v~~~s~e~~~~~~~~~~~ 47 (187)
T cd01124 3 LLSGGPGTGKTTFALQFLYAGLAR----GEPGLYVTLEESPEELIENAE 47 (187)
T ss_pred EEEcCCCCCHHHHHHHHHHHHHHC----CCcEEEEECCCCHHHHHHHHH
Confidence 567789999999998888876644 247888876544444444443
No 232
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=83.52 E-value=2.6 Score=54.90 Aligned_cols=108 Identities=22% Similarity=0.297 Sum_probs=72.6
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh-----hhhHHhhcccccCCCcccEEEeecccch
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL-----HNWKQEFMKWRPSELKPLRVFMLEDVSR 666 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv-----~qW~~Ei~k~~p~~~~~l~V~~~~~~~~ 666 (1097)
......+++...|.|||+ +|-++.+. +....++.-++|...+ .-|..-|.+-.+ +.+..+.|...
T Consensus 1157 ~~nd~v~vga~~gsgkt~--~ae~a~l~---~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G-----~~~~~l~ge~s 1226 (1674)
T KOG0951|consen 1157 NTNDNVLVGAPNGSGKTA--CAELALLR---PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLG-----LRIVKLTGETS 1226 (1674)
T ss_pred cccceEEEecCCCCchhH--HHHHHhcC---CccceEEEEecchHHHHHHHHHHHHHhhccccC-----ceEEecCCccc
Confidence 456789999999999995 44444432 3345688999997754 348877776532 56666666543
Q ss_pred hHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcccc
Q 001337 667 DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR 731 (1097)
Q Consensus 667 ~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~~ 731 (1097)
... +....++++|.|.+.+..+. ....-++.|+||.|.|....
T Consensus 1227 ~~l-----kl~~~~~vii~tpe~~d~lq-----------------~iQ~v~l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1227 LDL-----KLLQKGQVIISTPEQWDLLQ-----------------SIQQVDLFIVDELHLIGGVY 1269 (1674)
T ss_pred cch-----HHhhhcceEEechhHHHHHh-----------------hhhhcceEeeehhhhhcccC
Confidence 322 22356789999998876531 11256889999999997544
No 233
>PF13245 AAA_19: Part of AAA domain
Probab=83.44 E-value=1.2 Score=40.00 Aligned_cols=49 Identities=14% Similarity=0.214 Sum_probs=34.6
Q ss_pred hhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh-hhHHhh
Q 001337 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQEF 645 (1097)
Q Consensus 597 gILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~-qW~~Ei 645 (1097)
.++--..|.|||.+++..+..+........+++||++|..-.. +-.+.+
T Consensus 13 ~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 13 FVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 4558889999999999998888753222256899999977543 333333
No 234
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=83.02 E-value=1.1 Score=46.60 Aligned_cols=43 Identities=14% Similarity=0.381 Sum_probs=25.6
Q ss_pred HhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhcc
Q 001337 677 RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKN 729 (1097)
Q Consensus 677 ~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN 729 (1097)
....+|+|++|..+-. ......+. .+...-.+||+||||+|-+
T Consensus 117 ~~~adivi~~y~yl~~---------~~~~~~~~-~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 117 AKNADIVICNYNYLFD---------PSIRKSLF-GIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp GGG-SEEEEETHHHHS---------HHHHHHHC-T--CCCEEEEETTGGGCGG
T ss_pred cccCCEEEeCHHHHhh---------HHHHhhhc-cccccCcEEEEecccchHH
Confidence 3567999999987642 11111111 1234667899999999854
No 235
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=83.00 E-value=5.8 Score=46.35 Aligned_cols=29 Identities=10% Similarity=0.141 Sum_probs=23.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+...++.-+.|+|||..+..++..++..
T Consensus 44 l~ha~L~~G~~G~GKttlA~~lA~~Llc~ 72 (351)
T PRK09112 44 LHHALLFEGPEGIGKATLAFHLANHILSH 72 (351)
T ss_pred CCeeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 34567889999999999888888777653
No 236
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=81.99 E-value=2.5 Score=42.71 Aligned_cols=46 Identities=26% Similarity=0.425 Sum_probs=31.1
Q ss_pred hHHHHHHHhhcccccceeeEEEeeecc--ccccceecc--cceEEEEcCCc
Q 001337 1025 SERQKLVERFNEPLNKRVKCTLISTRA--GSLGINLHS--ANRVIIVDGSW 1071 (1097)
Q Consensus 1025 ~eR~~~i~~Fn~~~n~~v~VlLiStka--gg~GLNL~~--An~VIi~D~~W 1071 (1097)
.+..++++.|+...+.. .-+|+++.. .++||||++ +..||+.-.|+
T Consensus 31 ~~~~~~l~~f~~~~~~~-g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 31 GETEELLEKYSAACEAR-GALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred chHHHHHHHHHHhcCCC-CEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence 35578999998743211 124555544 799999986 57888888775
No 237
>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=80.59 E-value=13 Score=40.32 Aligned_cols=51 Identities=20% Similarity=0.316 Sum_probs=33.7
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhh-ccccceeeEeecchhhhhhhHHhhccc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS-VNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~-~~~~~k~~LIV~P~sLv~qW~~Ei~k~ 648 (1097)
+.-.+++-+.|.|||+-++-++...++. +. +++.|.-..-..++.+.+..+
T Consensus 19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge----~vlyvs~ee~~~~l~~~~~s~ 70 (226)
T PF06745_consen 19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGE----KVLYVSFEEPPEELIENMKSF 70 (226)
T ss_dssp TSEEEEEESTTSSHHHHHHHHHHHHHHHHT------EEEEESSS-HHHHHHHHHTT
T ss_pred CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC----cEEEEEecCCHHHHHHHHHHc
Confidence 4456778899999999999988877665 33 677777444445555555443
No 238
>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=80.43 E-value=3.2 Score=43.61 Aligned_cols=33 Identities=18% Similarity=0.207 Sum_probs=22.7
Q ss_pred hhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 599 LAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 599 LADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
+.-.|+.|||...|..+..+... .++++++-|.
T Consensus 6 i~GpM~sGKS~eLi~~~~~~~~~----~~~v~~~kp~ 38 (176)
T PF00265_consen 6 ITGPMFSGKSTELIRRIHRYEIA----GKKVLVFKPA 38 (176)
T ss_dssp EEESTTSSHHHHHHHHHHHHHHT----T-EEEEEEES
T ss_pred EECCcCChhHHHHHHHHHHHHhC----CCeEEEEEec
Confidence 34579999998877776555332 3578888775
No 239
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=79.81 E-value=0.95 Score=49.02 Aligned_cols=46 Identities=33% Similarity=0.796 Sum_probs=35.5
Q ss_pred CCCcceeeecc--CCCCeeeccc--ccc-chhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 373 DCSECYCVWCG--RSSDLVSCKS--CKT-LFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 373 d~~~~~C~~C~--~gg~l~~Cd~--C~~-~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
.|.+.||- |. .=|+.+-||+ |+| =||..|+.. . .++.+.|+|.-|.
T Consensus 218 e~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGL----k----~pPKG~WYC~eCk 268 (271)
T COG5034 218 EGEELYCF-CQQVSYGQMVACDNANCKREWFHLECVGL----K----EPPKGKWYCPECK 268 (271)
T ss_pred cCceeEEE-ecccccccceecCCCCCchhheecccccc----C----CCCCCcEeCHHhH
Confidence 56667874 54 4489999999 996 699999632 2 5678999999995
No 240
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.44 E-value=5.3 Score=48.33 Aligned_cols=27 Identities=22% Similarity=0.148 Sum_probs=21.1
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
+...|+.-+.|.|||..|..++..+..
T Consensus 40 ~ha~Lf~GP~GtGKTTlAriLAk~Lnc 66 (484)
T PRK14956 40 GHAYIFFGPRGVGKTTIARILAKRLNC 66 (484)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhcCc
Confidence 344689999999999888877766543
No 241
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=79.20 E-value=3.5 Score=52.23 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.3
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.+..||.-.-|+|||..+..|...+..
T Consensus 38 ~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 38 HHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 455688999999999888887776643
No 242
>PLN03025 replication factor C subunit; Provisional
Probab=78.53 E-value=4 Score=46.98 Aligned_cols=26 Identities=27% Similarity=0.290 Sum_probs=21.0
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
....||.-+.|.|||..+.+++..+.
T Consensus 34 ~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 34 MPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHh
Confidence 34578999999999988888776653
No 243
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=78.16 E-value=8.4 Score=45.28 Aligned_cols=31 Identities=10% Similarity=0.104 Sum_probs=25.6
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhc
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~ 622 (1097)
.-+...|+.-..|+|||..|.+|+..++...
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 3456678899999999999999999887653
No 244
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=77.88 E-value=1.1 Score=58.41 Aligned_cols=48 Identities=21% Similarity=0.497 Sum_probs=37.2
Q ss_pred cceeeeccCC-----CCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhhH
Q 001337 376 ECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLL 431 (1097)
Q Consensus 376 ~~~C~~C~~g-----g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~~ 431 (1097)
+..|.+|-+| ...+.||.|.-+.|..|-... -.+++.|.|..|.-+|.
T Consensus 219 D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~--------~ipeg~WlCr~Cl~s~~ 271 (1051)
T KOG0955|consen 219 DAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP--------FIPEGQWLCRRCLQSPQ 271 (1051)
T ss_pred CccceeecccccCCCceEEEcCCCcchhhhhccCCC--------CCCCCcEeehhhccCcC
Confidence 4478888665 467999999999999996422 34689999999976653
No 245
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=77.64 E-value=5 Score=46.09 Aligned_cols=24 Identities=25% Similarity=0.182 Sum_probs=20.4
Q ss_pred chhhhhhcCCCcchhhHHHHHHHh
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l 619 (1097)
..+|.-+.|.|||..+.+++..+.
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 678899999999998888877664
No 246
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=77.64 E-value=4.9 Score=47.61 Aligned_cols=51 Identities=16% Similarity=0.258 Sum_probs=34.0
Q ss_pred cCCCEEEecccchhcccchhHHHHHhhh--------ccceeeeeccCccccchhhhhhhhhhh
Q 001337 714 DGPDILVCDEAHMIKNTRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S~~~kal~~l--------~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
..|..||+||||. .|-.+..+..+ ..-+.+++|+|-....+..||.=.-++
T Consensus 158 ~~y~viiLDeahE----RtlATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll 216 (699)
T KOG0925|consen 158 GRYGVIILDEAHE----RTLATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLL 216 (699)
T ss_pred ccccEEEechhhh----hhHHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCee
Confidence 4899999999994 33333333333 233568999999887777777644443
No 247
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.46 E-value=6 Score=51.06 Aligned_cols=26 Identities=23% Similarity=0.165 Sum_probs=20.4
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
...||.-+.|.|||..|-.|+..+..
T Consensus 39 HAyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 39 HAYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhccC
Confidence 34488999999999888887766643
No 248
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=77.27 E-value=3.5 Score=47.67 Aligned_cols=46 Identities=13% Similarity=0.089 Sum_probs=32.2
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
++|+|....+-+ ++. +......++.-+.|+|||..|.+++..++..
T Consensus 4 ~yPWl~~~~~~~----~~~------~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 4 IYPWQQSLWQQL----AGR------GRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred CCCCcHHHHHHH----HHC------CCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 467777554433 321 3345667789999999999999998887654
No 249
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=77.12 E-value=7.8 Score=41.20 Aligned_cols=58 Identities=21% Similarity=0.251 Sum_probs=35.2
Q ss_pred hccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhh
Q 001337 712 LQDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 712 l~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
....||+||+||.=..-+.. ..+...+..-...--++|||-=....+.|+..++.-+.
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 34589999999987654432 23333333323344699999866555555555554443
No 250
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=76.66 E-value=3.8 Score=51.91 Aligned_cols=72 Identities=22% Similarity=0.224 Sum_probs=50.0
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~ 642 (1097)
-.|.++|..++.-+.+.+. ......++.--.|.|||+.+.+++... .+|+|||+|.. ...+|.
T Consensus 11 ~~~~~~Q~~ai~~l~~~~~---------~~~~~~ll~Gl~gs~ka~lia~l~~~~-------~r~vLIVt~~~~~A~~l~ 74 (652)
T PRK05298 11 YKPAGDQPQAIEELVEGIE---------AGEKHQTLLGVTGSGKTFTMANVIARL-------QRPTLVLAHNKTLAAQLY 74 (652)
T ss_pred CCCChHHHHHHHHHHHhhh---------cCCCcEEEEcCCCcHHHHHHHHHHHHh-------CCCEEEEECCHHHHHHHH
Confidence 3467788888776654431 111134577778999998766544331 25899999975 677999
Q ss_pred HhhcccccC
Q 001337 643 QEFMKWRPS 651 (1097)
Q Consensus 643 ~Ei~k~~p~ 651 (1097)
+++..|+|.
T Consensus 75 ~dL~~~~~~ 83 (652)
T PRK05298 75 SEFKEFFPE 83 (652)
T ss_pred HHHHHhcCC
Confidence 999999886
No 251
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=76.62 E-value=11 Score=39.46 Aligned_cols=58 Identities=19% Similarity=0.272 Sum_probs=34.9
Q ss_pred hccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhh
Q 001337 712 LQDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 712 l~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
....||+||+||.-..-+.. ..+...+..-...--++|||.=....+.|+..++.-+.
T Consensus 94 ~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~VTEm~ 155 (173)
T TIGR00708 94 ADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLVTEMR 155 (173)
T ss_pred hcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCceeeeec
Confidence 34589999999987544332 23334443333444699999866555555555544433
No 252
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=76.55 E-value=5.4 Score=48.26 Aligned_cols=27 Identities=22% Similarity=0.119 Sum_probs=21.1
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
....+|.-..|+|||..+-++...+..
T Consensus 148 ~~~l~l~G~~G~GKThL~~ai~~~~~~ 174 (450)
T PRK00149 148 YNPLFIYGGVGLGKTHLLHAIGNYILE 174 (450)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 345788999999999888777766544
No 253
>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=76.28 E-value=0.91 Score=56.25 Aligned_cols=174 Identities=16% Similarity=0.146 Sum_probs=99.2
Q ss_pred cCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-
Q 001337 558 IPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN- 636 (1097)
Q Consensus 558 vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s- 636 (1097)
.|........|||++-+..|-. ..-....+.-..-+|||..++.++.+.+... ..|+|+|.|+-
T Consensus 9 ~pG~w~~~~~Py~~eimd~~~~------------~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~---P~~~l~v~Pt~~ 73 (557)
T PF05876_consen 9 EPGPWRTDRTPYLREIMDALSD------------PSVREVVVMKSAQVGKTELLLNWIGYSIDQD---PGPMLYVQPTDD 73 (557)
T ss_pred CCCCCCCCCChhHHHHHHhcCC------------cCccEEEEEEcchhhHhHHHHhhceEEEEeC---CCCEEEEEEcHH
Confidence 4555667788999977765522 2245667777888999987777766654442 36999999966
Q ss_pred hhhhhHHh-hcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccC
Q 001337 637 VLHNWKQE-FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDG 715 (1097)
Q Consensus 637 Lv~qW~~E-i~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~ 715 (1097)
....|..+ |...+... ..++-.+.....+........+....+.+.+.+..+-.++ ....
T Consensus 74 ~a~~~~~~rl~Pmi~~s-p~l~~~~~~~~~~~~~~t~~~k~f~gg~l~~~ga~S~~~l------------------~s~~ 134 (557)
T PF05876_consen 74 AAKDFSKERLDPMIRAS-PVLRRKLSPSKSRDSGNTILYKRFPGGFLYLVGANSPSNL------------------RSRP 134 (557)
T ss_pred HHHHHHHHHHHHHHHhC-HHHHHHhCchhhcccCCchhheecCCCEEEEEeCCCCccc------------------ccCC
Confidence 56677643 33322110 0011111110011111122222223444555555543321 1236
Q ss_pred CCEEEecccchh----cccchhHHHHHhhh---ccceeeeeccCccccchhhhhhhh
Q 001337 716 PDILVCDEAHMI----KNTRADTTQALKQV---KCQRRIALTGSPLQNNLMEYYCMV 765 (1097)
Q Consensus 716 ~dlVIiDEAH~i----KN~~S~~~kal~~l---~a~~RllLTGTPiqNnl~El~~Ll 765 (1097)
.++|++||...+ .+....+..+..+. ...+++++..||.......+..++
T Consensus 135 ~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~~ 191 (557)
T PF05876_consen 135 ARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERLY 191 (557)
T ss_pred cCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHHH
Confidence 788999999987 34445566665555 356889999999877555555444
No 254
>PRK08084 DNA replication initiation factor; Provisional
Probab=76.21 E-value=5.8 Score=43.56 Aligned_cols=26 Identities=15% Similarity=-0.023 Sum_probs=19.4
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
.+...+|.-+.|+|||--+.++....
T Consensus 44 ~~~~l~l~Gp~G~GKThLl~a~~~~~ 69 (235)
T PRK08084 44 HSGYIYLWSREGAGRSHLLHAACAEL 69 (235)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHH
Confidence 34567889999999997766665554
No 255
>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=75.96 E-value=9.8 Score=45.58 Aligned_cols=111 Identities=16% Similarity=0.166 Sum_probs=82.7
Q ss_pred ceehhhH-HHhhhc--cCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhccc
Q 001337 961 KMVLLLD-ILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1037 (1097)
Q Consensus 961 Kl~~L~e-iL~~~~--~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~~ 1037 (1097)
++....+ +|..+. ....++|||..+--..-.|..+|.+ .++.|..++--++..+-.++-..|..
T Consensus 282 Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~------------~~~sF~~i~EYts~~~isRAR~~F~~- 348 (442)
T PF06862_consen 282 RFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKK------------ENISFVQISEYTSNSDISRARSQFFH- 348 (442)
T ss_pred HHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHh------------cCCeEEEecccCCHHHHHHHHHHHHc-
Confidence 4444443 344443 3346899998776555667888874 68999999999999999999999997
Q ss_pred ccceeeEEEeeecccc-ccceecccceEEEEcCCcCCcccHHHHHHHhhh
Q 001337 1038 LNKRVKCTLISTRAGS-LGINLHSANRVIIVDGSWNPTYDLQAIYRAWRC 1086 (1097)
Q Consensus 1038 ~n~~v~VlLiStkagg-~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~Ri 1086 (1097)
++.++||.|-++-= .=..+.++.+||||.||-+|.-+...+.-+..-
T Consensus 349 --G~~~iLL~TER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~ 396 (442)
T PF06862_consen 349 --GRKPILLYTERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDES 396 (442)
T ss_pred --CCceEEEEEhHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhccc
Confidence 56778888877542 245677899999999999998887777554443
No 256
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=75.80 E-value=1.8 Score=48.36 Aligned_cols=47 Identities=30% Similarity=0.644 Sum_probs=33.0
Q ss_pred CCcceeeecc---CCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 374 CSECYCVWCG---RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 374 ~~~~~C~~C~---~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
.....|..|+ .++.-+-|..|...||..|-. ..-+.--+|+-|..+|
T Consensus 328 ~~~~~Cf~C~~~~~~~~~y~C~~Ck~~FCldCDv----------~iHesLh~CpgCeh~~ 377 (378)
T KOG2807|consen 328 NGSRFCFACQGELLSSGRYRCESCKNVFCLDCDV----------FIHESLHNCPGCEHKP 377 (378)
T ss_pred CCCcceeeeccccCCCCcEEchhccceeeccchH----------HHHhhhhcCCCcCCCC
Confidence 3455799993 456778999999999999921 1122335799998654
No 257
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=75.76 E-value=6.7 Score=48.84 Aligned_cols=55 Identities=16% Similarity=0.279 Sum_probs=31.5
Q ss_pred cCCCEEEecccchhcccchhHHHHHhhh--ccceeeeeccC-------c----cccchhhhhhhhhhhhh
Q 001337 714 DGPDILVCDEAHMIKNTRADTTQALKQV--KCQRRIALTGS-------P----LQNNLMEYYCMVDFVRE 770 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S~~~kal~~l--~a~~RllLTGT-------P----iqNnl~El~~Ll~fL~p 770 (1097)
..||++|+||||.|+.. .....+-.+ .....|.+|-| . +.|...++.+.++|+.+
T Consensus 351 qtfDLLIVDEAqFIk~~--al~~ilp~l~~~n~k~I~ISS~Ns~~~sTSFL~nLk~a~~~lLNVVsYvCd 418 (738)
T PHA03368 351 QDFNLLFVDEANFIRPD--AVQTIMGFLNQTNCKIIFVSSTNTGKASTSFLYNLKGAADELLNVVTYICD 418 (738)
T ss_pred CcccEEEEechhhCCHH--HHHHHHHHHhccCccEEEEecCCCCccchHHHHhhcCchhhheeeEEEECh
Confidence 47999999999999653 222222222 44555666544 2 33444455555556544
No 258
>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=75.44 E-value=7.2 Score=41.66 Aligned_cols=56 Identities=14% Similarity=0.211 Sum_probs=31.1
Q ss_pred ccCCCEEEecccchhcccch---hHHHHHhhh-ccceeeeeccCccccchhhhhhhhhhh
Q 001337 713 QDGPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~S---~~~kal~~l-~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
..++|+|+||-+-+..+... .+.+.+..+ ....-++|++|--+..+..+......+
T Consensus 81 ~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~ 140 (196)
T PF00448_consen 81 KKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAF 140 (196)
T ss_dssp HTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHS
T ss_pred hcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcc
Confidence 34789999999875533222 222222222 345668888887766665555544444
No 259
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=75.37 E-value=9.6 Score=43.27 Aligned_cols=40 Identities=28% Similarity=0.292 Sum_probs=25.2
Q ss_pred cCCCEEEecccchh-cccchhHHH---HHhhhcc--ceeeeeccCc
Q 001337 714 DGPDILVCDEAHMI-KNTRADTTQ---ALKQVKC--QRRIALTGSP 753 (1097)
Q Consensus 714 ~~~dlVIiDEAH~i-KN~~S~~~k---al~~l~a--~~RllLTGTP 753 (1097)
.+..++||||.|++ .+...+.-. +++.|.. .--+++.||+
T Consensus 144 ~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 144 LGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred cCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 48999999999996 444444333 3444422 2336777887
No 260
>PHA02533 17 large terminase protein; Provisional
Probab=75.22 E-value=4.6 Score=49.83 Aligned_cols=49 Identities=24% Similarity=0.325 Sum_probs=29.2
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh-cc--ceeeeeccCccccchhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV-KC--QRRIALTGSPLQNNLMEYYCMVD 766 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l-~a--~~RllLTGTPiqNnl~El~~Ll~ 766 (1097)
.++++|+||+|.+++.. .+..++... .+ ..++.+..||-. ...+|.+..
T Consensus 169 ~~~~liiDE~a~~~~~~-e~~~ai~p~lasg~~~r~iiiSTp~G--~n~fye~~~ 220 (534)
T PHA02533 169 SFAMIYIDECAFIPNFI-DFWLAIQPVISSGRSSKIIITSTPNG--LNHFYDIWT 220 (534)
T ss_pred CCceEEEeccccCCCHH-HHHHHHHHHHHcCCCceEEEEECCCc--hhhHHHHHH
Confidence 67789999999987643 333333322 22 246888889842 222555443
No 261
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=75.08 E-value=1.7 Score=53.79 Aligned_cols=61 Identities=26% Similarity=0.457 Sum_probs=45.2
Q ss_pred HHhhcccccceeeEEEeeeccccccceecccceE--------EEEcCCcCCcccHHHHHHHhhhcccc-ccccc
Q 001337 1031 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRV--------IIVDGSWNPTYDLQAIYRAWRCMDKQ-SQFLL 1095 (1097)
Q Consensus 1031 i~~Fn~~~n~~v~VlLiStkagg~GLNL~~An~V--------Ii~D~~WNP~~~~QAiGRa~RiGQkK-~V~VY 1095 (1097)
.++|.++ .--|-+| +.|++.||.||.-.|| |-+++||+...-+|-.||.||-.|-. |=|||
T Consensus 850 KqrFM~G---eK~vAII-SEAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvF 919 (1300)
T KOG1513|consen 850 KQRFMDG---EKLVAII-SEAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVF 919 (1300)
T ss_pred Hhhhccc---cceeeee-ehhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEE
Confidence 3567763 2223344 5689999999975444 57899999999999999999999964 44443
No 262
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=74.60 E-value=13 Score=47.98 Aligned_cols=25 Identities=20% Similarity=0.188 Sum_probs=19.4
Q ss_pred cchh-hhhhcCCCcchhhHHHHHHHh
Q 001337 595 LGCI-LAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 595 ~GgI-LADeMGLGKTlqaIali~~~l 619 (1097)
.++| |.-.+|+|||.++-.++..+.
T Consensus 781 nnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 781 NQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHH
Confidence 3444 799999999999888876553
No 263
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=74.49 E-value=1.1 Score=54.03 Aligned_cols=61 Identities=26% Similarity=0.558 Sum_probs=40.8
Q ss_pred CCCCcceeeeccCCCCeeecc--------ccccchhhhhhhccchhhhhhh----------hhhcccceeeecChhhHH
Q 001337 372 ADCSECYCVWCGRSSDLVSCK--------SCKTLFCTTCVKRNISEACLSD----------EVQASCWQCCCCSPSLLK 432 (1097)
Q Consensus 372 ~d~~~~~C~~C~~gg~l~~Cd--------~C~~~fc~~Cl~~~~~~~~~~~----------~~~~~~W~C~~C~~~~~~ 432 (1097)
..-..++|.+|.+||.+++|+ .|+.++|.+|+.+......... ....-.|-|++|.+..+.
T Consensus 85 ~~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~~~d~~~~~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~ 163 (463)
T KOG1081|consen 85 PKIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQLEKCSKRCTDCRAFKKREVGDLVWSKVGEYPWWPCMVCHDPLLP 163 (463)
T ss_pred cCCCcchhccccCCCccceeccccccccccCcCccCcccccCCcceeeeccccceeEEeEEcCcccccccceecCcccc
Confidence 334456999999999999999 3888888888877322222221 113345779999876444
No 264
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=74.47 E-value=8.4 Score=46.63 Aligned_cols=26 Identities=19% Similarity=0.005 Sum_probs=19.6
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
..+.+|.-+.|+|||..+-|+...+.
T Consensus 141 ~npl~i~G~~G~GKTHLl~Ai~~~l~ 166 (450)
T PRK14087 141 YNPLFIYGESGMGKTHLLKAAKNYIE 166 (450)
T ss_pred cCceEEECCCCCcHHHHHHHHHHHHH
Confidence 35677899999999977766665544
No 265
>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=74.38 E-value=14 Score=38.21 Aligned_cols=56 Identities=20% Similarity=0.211 Sum_probs=34.2
Q ss_pred ccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhh
Q 001337 713 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
...+|+||+||.=..-+.. ..+...+..-....-++|||-=....+.|+..++.-+
T Consensus 93 ~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~~l~e~AD~VTEm 152 (159)
T cd00561 93 SGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPKELIEAADLVTEM 152 (159)
T ss_pred cCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCHHHHHhCceeeec
Confidence 3489999999987653322 2333333333344469999977666666655555433
No 266
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=74.35 E-value=1.3 Score=52.58 Aligned_cols=57 Identities=12% Similarity=0.205 Sum_probs=44.1
Q ss_pred CCCcceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhhHHHH
Q 001337 373 DCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLLKRL 434 (1097)
Q Consensus 373 d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~~~~l 434 (1097)
.+.+.||.-|.-.|.++.|+.|-|+||..|+.+-.-.. ..+.+|.|+.|.+-+-+.+
T Consensus 57 ~N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r-----~~s~p~~~p~p~s~k~~~~ 113 (588)
T KOG3612|consen 57 SNIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKR-----NYSVPSDKPQPYSFKVNEL 113 (588)
T ss_pred cCCCcccccccCCcceeeeehhhccccccccCcchhhc-----cccccccCCcccccCCCcc
Confidence 45677999999999999999999999999986543211 2468899999976544333
No 267
>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=73.92 E-value=6.8 Score=46.67 Aligned_cols=28 Identities=21% Similarity=0.147 Sum_probs=21.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
....+|.-..|+|||..+-++...+.+.
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 3456789999999998887777665543
No 268
>PRK14974 cell division protein FtsY; Provisional
Probab=73.35 E-value=11 Score=43.62 Aligned_cols=44 Identities=16% Similarity=0.273 Sum_probs=26.4
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch----hhhhhhHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV----NVLHNWKQ 643 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~----sLv~qW~~ 643 (1097)
-.++.-..|.|||.++..++..+... + .+++++... ..+.||..
T Consensus 142 vi~~~G~~GvGKTTtiakLA~~l~~~---g-~~V~li~~Dt~R~~a~eqL~~ 189 (336)
T PRK14974 142 VIVFVGVNGTGKTTTIAKLAYYLKKN---G-FSVVIAAGDTFRAGAIEQLEE 189 (336)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHc---C-CeEEEecCCcCcHHHHHHHHH
Confidence 35567799999998776666554332 1 355555542 33455544
No 269
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=72.92 E-value=3.7 Score=51.28 Aligned_cols=30 Identities=17% Similarity=0.115 Sum_probs=23.7
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
......||.-..|+|||..|..++..+...
T Consensus 44 ri~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 44 RIAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 345577889999999999888888776543
No 270
>PRK08727 hypothetical protein; Validated
Probab=72.48 E-value=6.6 Score=43.07 Aligned_cols=26 Identities=27% Similarity=0.193 Sum_probs=20.0
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
...+|.-..|+|||--+.|+.....+
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~ 67 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQ 67 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34788999999999877777766543
No 271
>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=71.98 E-value=23 Score=41.18 Aligned_cols=55 Identities=16% Similarity=0.191 Sum_probs=33.4
Q ss_pred eecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 556 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 556 v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.++|..+.+ |..|++.+...+.... .+..+.+.+|.-+.|.|||..+-+++..+.
T Consensus 11 ~~~p~~l~g--Re~e~~~l~~~l~~~~-------~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~ 65 (365)
T TIGR02928 11 DYVPDRIVH--RDEQIEELAKALRPIL-------RGSRPSNVFIYGKTGTGKTAVTKYVMKELE 65 (365)
T ss_pred CCCCCCCCC--cHHHHHHHHHHHHHHH-------cCCCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence 456665533 4555555543333222 123445778899999999988877776653
No 272
>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=71.95 E-value=20 Score=35.62 Aligned_cols=33 Identities=15% Similarity=0.128 Sum_probs=21.7
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
+|.-..|.|||..+..++...... .++++++..
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 345568999998888777665432 245666544
No 273
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.88 E-value=8.1 Score=48.43 Aligned_cols=27 Identities=19% Similarity=0.097 Sum_probs=21.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.....||.-..|.|||..|.+++..+.
T Consensus 36 l~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 36 LHHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 345668999999999988877776654
No 274
>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=71.82 E-value=9.5 Score=42.29 Aligned_cols=22 Identities=23% Similarity=0.274 Sum_probs=16.1
Q ss_pred chhhhhhcCCCcchhhHHHHHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~ 617 (1097)
-.+|.-+.|.|||..+-.++..
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHh
Confidence 3678999999999766555433
No 275
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=71.46 E-value=26 Score=41.27 Aligned_cols=29 Identities=21% Similarity=0.214 Sum_probs=22.2
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+...++.-..|+|||..+-.++..+..
T Consensus 53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~ 81 (394)
T PRK00411 53 SRPLNVLIYGPPGTGKTTTVKKVFEELEE 81 (394)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34566889999999999887777765533
No 276
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=71.11 E-value=8.7 Score=47.08 Aligned_cols=29 Identities=21% Similarity=0.153 Sum_probs=23.1
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
......||.-+.|+|||..|-.++..+..
T Consensus 41 ri~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 41 RLAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 34567889999999999888888777654
No 277
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.98 E-value=7.4 Score=48.67 Aligned_cols=28 Identities=18% Similarity=0.082 Sum_probs=22.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+..||.-..|+|||..+..|...++.
T Consensus 37 LpHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 37 LHHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred CceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3455688999999999888888877654
No 278
>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=70.97 E-value=4.1 Score=47.82 Aligned_cols=62 Identities=21% Similarity=0.299 Sum_probs=42.1
Q ss_pred ccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh
Q 001337 566 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1097)
Q Consensus 566 LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~ 639 (1097)
|-+-|..++.++++.+.. ..+...+|--.-|+|||...=+++..+.. ..+.+++++|+.+..
T Consensus 2 Ln~eQ~~~~~~v~~~~~~--------~~~~~~fv~G~~GtGKs~l~~~i~~~~~~----~~~~~~~~a~tg~AA 63 (364)
T PF05970_consen 2 LNEEQRRVFDTVIEAIEN--------EEGLNFFVTGPAGTGKSFLIKAIIDYLRS----RGKKVLVTAPTGIAA 63 (364)
T ss_pred CCHHHHHHHHHHHHHHHc--------cCCcEEEEEcCCCCChhHHHHHHHHHhcc----ccceEEEecchHHHH
Confidence 455677777777655431 35667788889999999876666555432 235899999987654
No 279
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=70.71 E-value=17 Score=43.74 Aligned_cols=55 Identities=15% Similarity=0.195 Sum_probs=35.4
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh------ccceeeeeccCccccchhhhhhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV------KCQRRIALTGSPLQNNLMEYYCMVDFVRE 770 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l------~a~~RllLTGTPiqNnl~El~~Ll~fL~p 770 (1097)
++|+||||.+-+...... ....+..+ .....++|++|+-.+.+.+++..++.+.+
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 689999999865433222 22222222 22457899999988888888777766554
No 280
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=70.60 E-value=8.7 Score=48.33 Aligned_cols=27 Identities=19% Similarity=0.090 Sum_probs=21.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
....|+.-+.|+|||..|-.|+..+..
T Consensus 38 ~hAyLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 38 HHAYLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence 344588999999999888888777654
No 281
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=70.55 E-value=6.3 Score=51.09 Aligned_cols=28 Identities=14% Similarity=0.072 Sum_probs=22.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+..||.-..|+|||..+..|...++.
T Consensus 36 i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 36 INHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 3445688999999999988888777654
No 282
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=70.17 E-value=7.5 Score=45.64 Aligned_cols=26 Identities=23% Similarity=0.174 Sum_probs=20.6
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.+..||.-+.|+|||..|-+++..+.
T Consensus 38 ~h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 38 HHAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred CeEEEEecCCCCCHHHHHHHHHHHhc
Confidence 34568999999999988877776654
No 283
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=70.07 E-value=22 Score=40.88 Aligned_cols=55 Identities=24% Similarity=0.287 Sum_probs=32.9
Q ss_pred HHHHHHHhccCCCEEEecccchhcccch------hHHHHHhhh--ccceeeeec--cCccccchh
Q 001337 705 AREICHALQDGPDILVCDEAHMIKNTRA------DTTQALKQV--KCQRRIALT--GSPLQNNLM 759 (1097)
Q Consensus 705 ~~~~~~ll~~~~dlVIiDEAH~iKN~~S------~~~kal~~l--~a~~RllLT--GTPiqNnl~ 759 (1097)
.+.+......++|+|+||=|-++-|..- ++.+.+... .+++.++|+ ||-=||.+.
T Consensus 211 fDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~ 275 (340)
T COG0552 211 FDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALS 275 (340)
T ss_pred HHHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHH
Confidence 3445556667999999999998877542 222222222 345555554 666566543
No 284
>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=70.01 E-value=3.4 Score=53.15 Aligned_cols=59 Identities=14% Similarity=0.011 Sum_probs=40.0
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhh
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 639 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~ 639 (1097)
..|-+-|++++..+.. ...-.+|--..|+|||..+-+++..+... ..++++++|+....
T Consensus 351 ~~Ls~~Q~~Av~~i~~-------------s~~~~il~G~aGTGKTtll~~i~~~~~~~----g~~V~~~ApTg~Aa 409 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTG-------------SGDIAVVVGRAGTGKSTMLKAAREAWEAA----GYRVIGAALSGKAA 409 (744)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCEEEEEecCCCCHHHHHHHHHHHHHhC----CCeEEEEeCcHHHH
Confidence 4577888888876531 12346788899999998766665444332 24788889987654
No 285
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=69.63 E-value=2.9 Score=44.45 Aligned_cols=19 Identities=26% Similarity=0.253 Sum_probs=12.6
Q ss_pred CCCEEEecccchhcccchh
Q 001337 715 GPDILVCDEAHMIKNTRAD 733 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~ 733 (1097)
.-.+||+||||.+-+..+.
T Consensus 79 ~~~liviDEa~~~~~~r~~ 97 (193)
T PF05707_consen 79 KGSLIVIDEAQNFFPSRSW 97 (193)
T ss_dssp TT-EEEETTGGGTSB---T
T ss_pred CCcEEEEECChhhcCCCcc
Confidence 4578999999998776544
No 286
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.42 E-value=7.9 Score=47.06 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=20.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
+++.||.-+.|.|||..|-+++..+.
T Consensus 36 ~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 36 SHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 44568999999999988777766653
No 287
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.08 E-value=13 Score=46.43 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=21.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.+..|+.-..|+|||..|.+|+..+..
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 344588999999999888888877654
No 288
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=69.01 E-value=2.4 Score=44.78 Aligned_cols=56 Identities=18% Similarity=0.342 Sum_probs=36.2
Q ss_pred CCcceeeeccCCCCeeeccccccchhhhhhhccchhhhhh--h----hhhcccceeeecChh
Q 001337 374 CSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLS--D----EVQASCWQCCCCSPS 429 (1097)
Q Consensus 374 ~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~--~----~~~~~~W~C~~C~~~ 429 (1097)
+.+..|.+|.+.-.--.--.|...||..||...+-...-+ . ........|++|...
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 3466899998766544445699999999998654221100 0 012346789999754
No 289
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=68.97 E-value=9.5 Score=46.01 Aligned_cols=26 Identities=19% Similarity=0.172 Sum_probs=20.3
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
...+|.-+.|+|||.-+-++...+.+
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~ 156 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQ 156 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHH
Confidence 45788999999999877777766544
No 290
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=68.80 E-value=5.9 Score=45.42 Aligned_cols=40 Identities=23% Similarity=0.340 Sum_probs=28.2
Q ss_pred CEEEecccchhcccchhHHHHHhhhccceeeeeccCccccch
Q 001337 717 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 758 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl 758 (1097)
-+||+||||+ ..-.+.-..+.+|-...+..+||++.|-++
T Consensus 245 AfVIlDEaQN--tT~~QmKMfLTRiGf~skmvItGD~tQiDL 284 (348)
T COG1702 245 AFVILDEAQN--TTVGQMKMFLTRIGFESKMVITGDITQIDL 284 (348)
T ss_pred eEEEEecccc--cchhhhceeeeeecCCceEEEEcCcccccC
Confidence 4699999997 222333344566677888999999988543
No 291
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=68.53 E-value=8.5 Score=45.42 Aligned_cols=61 Identities=18% Similarity=0.454 Sum_probs=43.9
Q ss_pred eeecccc-ceEEEeeccceeEEEEecCcccchhhcccccC-----CCCCc------ceeeeccCCCCeeeccccccch
Q 001337 333 FYCTACN-NVAIEVHPHPILNVIVCKDCKCLLEKKMHVKD-----ADCSE------CYCVWCGRSSDLVSCKSCKTLF 398 (1097)
Q Consensus 333 ~~C~~Cg-~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d-----~d~~~------~~C~~C~~gg~l~~Cd~C~~~f 398 (1097)
+.|-.|- .-+..+- +.+-|..|--..+++-|..+ ..|+. .||.-|--|-.|--|..||..|
T Consensus 120 ~iCcVClg~rs~da~-----ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~ 192 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAG-----EILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRF 192 (707)
T ss_pred eEEEEeecCcccccc-----ceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcC
Confidence 3788883 2222221 45678888888888888776 33333 3899999999999999999876
No 292
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.43 E-value=5.2 Score=49.92 Aligned_cols=27 Identities=22% Similarity=0.196 Sum_probs=21.8
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
....|+.-+.|+|||..|..|+..+..
T Consensus 38 ~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 38 APAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhccc
Confidence 456778999999999988888777653
No 293
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=67.36 E-value=6.6 Score=48.31 Aligned_cols=27 Identities=19% Similarity=0.175 Sum_probs=21.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.+..|+.-+.|.|||..|-+++..+..
T Consensus 36 ~hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 36 AHAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred CeeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 344588999999999888888877654
No 294
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=66.86 E-value=10 Score=46.68 Aligned_cols=44 Identities=18% Similarity=0.199 Sum_probs=26.1
Q ss_pred CcchhhHHHHHHHhhhccccceeeEeecch-h----hhhhhHHhhcccccC
Q 001337 606 GKTFQVIAFLYTAMRSVNLGLRTALIVTPV-N----VLHNWKQEFMKWRPS 651 (1097)
Q Consensus 606 GKTlqaIali~~~l~~~~~~~k~~LIV~P~-s----Lv~qW~~Ei~k~~p~ 651 (1097)
|||..++++|..++..... =.+..|+=. . +...-...+.+|+|.
T Consensus 214 GKTWf~VpiIsllL~s~~g--I~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~ 262 (668)
T PHA03372 214 GKTWFIIPIISFLLKNIIG--ISIGYVAHQKHVSQFVLKEVEFRCRRMFPR 262 (668)
T ss_pred CceehHHHHHHHHHHhhcC--ceEEEEeeHHHHHHHHHHHHHHHHhhhcCc
Confidence 9999888888777764321 245555532 2 222334445788886
No 295
>PRK06893 DNA replication initiation factor; Validated
Probab=66.81 E-value=14 Score=40.38 Aligned_cols=25 Identities=12% Similarity=-0.087 Sum_probs=19.3
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhh
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+|.-..|+|||.-+.|+...+..
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~~ 65 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYLL 65 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4578999999999877777666543
No 296
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=66.42 E-value=11 Score=42.98 Aligned_cols=39 Identities=10% Similarity=0.152 Sum_probs=23.3
Q ss_pred CCCEEEecccchhcccc--hhHHHHHhhhccceeeeeccCc
Q 001337 715 GPDILVCDEAHMIKNTR--ADTTQALKQVKCQRRIALTGSP 753 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~--S~~~kal~~l~a~~RllLTGTP 753 (1097)
.+++||+||+|.+.... ..+...+.......++++|++.
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~ 140 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANN 140 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCC
Confidence 56789999999883222 1122223333455678887764
No 297
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.07 E-value=9.7 Score=46.80 Aligned_cols=27 Identities=19% Similarity=0.083 Sum_probs=20.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
+...|+.-..|+|||..|-.++..+..
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 344588999999999888877776643
No 298
>COG0254 RpmE Ribosomal protein L31 [Translation, ribosomal structure and biogenesis]
Probab=65.79 E-value=8.5 Score=34.45 Aligned_cols=46 Identities=22% Similarity=0.444 Sum_probs=34.6
Q ss_pred cCcceeeccccceEE--EeeccceeEEEEecCcccchhhcccccCCCC
Q 001337 329 LSEKFYCTACNNVAI--EVHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 329 ~~~~~~C~~Cg~~~~--~~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
..-.|.|.+||.... -...++.+.+-+|..|+.||.-..-..|..|
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 3445679999999999999986555555544
No 299
>PRK08181 transposase; Validated
Probab=65.45 E-value=12 Score=42.11 Aligned_cols=29 Identities=24% Similarity=0.250 Sum_probs=23.7
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+.+.+|.-..|.|||.-+.|+...+...
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred cCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 45689999999999999888887766543
No 300
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=65.33 E-value=8.6 Score=44.61 Aligned_cols=50 Identities=14% Similarity=0.070 Sum_probs=34.7
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.++|+|......+.+ .++ .+.-+..-|++-+-|+||+..|.+|+..++..
T Consensus 2 ~~yPWl~~~~~~l~~----~~~---~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~ 51 (334)
T PRK07993 2 KWYPWLRPDYEQLVG----SYQ---AGRGHHALLIQALPGMGDDALIYALSRWLMCQ 51 (334)
T ss_pred CCCCCChHHHHHHHH----HHH---cCCcceEEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 357777765544433 222 23445677789999999999999998888754
No 301
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=65.28 E-value=7.6 Score=46.13 Aligned_cols=49 Identities=20% Similarity=0.159 Sum_probs=36.8
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhcc
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k 647 (1097)
....|.+|+-+.|.|||+.+.|++... .-++.=|.|.+|...|.-|.++
T Consensus 184 ~p~rglLLfGPpgtGKtmL~~aiAsE~-------~atff~iSassLtsK~~Ge~eK 232 (428)
T KOG0740|consen 184 EPVRGLLLFGPPGTGKTMLAKAIATES-------GATFFNISASSLTSKYVGESEK 232 (428)
T ss_pred cccchhheecCCCCchHHHHHHHHhhh-------cceEeeccHHHhhhhccChHHH
Confidence 345788999999999998888776553 1256667788898888766644
No 302
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=65.04 E-value=2.1 Score=32.69 Aligned_cols=34 Identities=21% Similarity=0.617 Sum_probs=16.8
Q ss_pred CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 387 DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 387 ~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
.|+.|++|.-++|..|-... .....+.|.|-.|.
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~-------~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVS-------EVPDGDDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-S-------S--SS-----HHH-
T ss_pred ceEEeCCCCCcCChhhCCcc-------cCCCCCcEECCcCC
Confidence 58999999999999995322 23344469998873
No 303
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=64.97 E-value=26 Score=36.81 Aligned_cols=54 Identities=15% Similarity=0.224 Sum_probs=32.2
Q ss_pred ccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhh
Q 001337 713 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD 766 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~ 766 (1097)
...||+||+||.-..-+.. ..+...+..-...--++|||-=....+.|+..++.
T Consensus 113 ~~~~dlvVLDEi~~Al~~gli~~eeVl~~L~~rp~~~evILTGR~~p~~Lie~AD~VT 170 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEMPESLLAIADQIT 170 (178)
T ss_pred CCCCCEEEEehhHHHHHCCCccHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCCeee
Confidence 4589999999987654433 22333333333444699999755544444444443
No 304
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=64.96 E-value=11 Score=49.69 Aligned_cols=52 Identities=25% Similarity=0.369 Sum_probs=34.6
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh-ccceeeeeccCccccchhhhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l-~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
..++||||||-.+... ...+.+... ....+++|.|=|-|-..-+--..|..|
T Consensus 433 ~~~vlIVDEASMv~~~--~m~~LL~~a~~~garvVLVGD~~QLpsV~aG~~f~~L 485 (988)
T PRK13889 433 SRDVLVIDEAGMVGTR--QLERVLSHAADAGAKVVLVGDPQQLQAIEAGAAFRSI 485 (988)
T ss_pred cCcEEEEECcccCCHH--HHHHHHHhhhhCCCEEEEECCHHHcCCCCCCchHHHH
Confidence 5689999999998433 334444433 567799999999886655444444433
No 305
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=64.95 E-value=20 Score=42.43 Aligned_cols=44 Identities=16% Similarity=0.243 Sum_probs=26.7
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc----hhhhhhhHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP----VNVLHNWKQ 643 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P----~sLv~qW~~ 643 (1097)
-..|.-..|.|||.++..+...+... .+++++|.- ...+.||..
T Consensus 243 vI~LVGptGvGKTTTiaKLA~~L~~~----GkkVglI~aDt~RiaAvEQLk~ 290 (436)
T PRK11889 243 TIALIGPTGVGKTTTLAKMAWQFHGK----KKTVGFITTDHSRIGTVQQLQD 290 (436)
T ss_pred EEEEECCCCCcHHHHHHHHHHHHHHc----CCcEEEEecCCcchHHHHHHHH
Confidence 34567779999998877776655322 135555553 224556653
No 306
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=64.85 E-value=3.2 Score=35.86 Aligned_cols=38 Identities=26% Similarity=0.829 Sum_probs=17.3
Q ss_pred eeeccCCCCeeec-cccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 379 CVWCGRSSDLVSC-KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 379 C~~C~~gg~l~~C-d~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
|..|.+--.--.| .+|...||..||...+|. .|++|.-
T Consensus 10 Cs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~------------~CPvC~~ 48 (65)
T PF14835_consen 10 CSICFDILKEPVCLGGCEHIFCSSCIRDCIGS------------ECPVCHT 48 (65)
T ss_dssp -SSS-S--SS-B---SSS--B-TTTGGGGTTT------------B-SSS--
T ss_pred CcHHHHHhcCCceeccCccHHHHHHhHHhcCC------------CCCCcCC
Confidence 5555554443334 669999999999766542 2999963
No 307
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=64.72 E-value=13 Score=45.45 Aligned_cols=29 Identities=17% Similarity=0.060 Sum_probs=22.0
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.-....||.-..|+|||..|..+...+..
T Consensus 33 ri~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 33 KIPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred CCCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 34567889999999999877777665543
No 308
>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=64.50 E-value=24 Score=41.63 Aligned_cols=38 Identities=16% Similarity=0.180 Sum_probs=25.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
+.-.+|.-++|.|||..++.++...... .+++|.|.-.
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~----g~~VlYvs~E 119 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKR----GGKVLYVSGE 119 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhc----CCeEEEEECC
Confidence 3445678899999998887777665432 2467777543
No 309
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=64.03 E-value=4.4 Score=51.39 Aligned_cols=72 Identities=17% Similarity=0.169 Sum_probs=49.7
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWK 642 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~ 642 (1097)
...||+|.+.+..+.+.+ ..+.++++=..+|+|||+..|+.+........ ++++|.+++. +..|-.
T Consensus 14 ~~~r~~Q~~~~~~v~~a~----------~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~---~~viist~t~~lq~q~~ 80 (654)
T COG1199 14 FEPRPEQREMAEAVAEAL----------KGGEGLLIEAPTGTGKTLAYLLPALAYAREEG---KKVIISTRTKALQEQLL 80 (654)
T ss_pred CCCCHHHHHHHHHHHHHH----------cCCCcEEEECCCCccHHHHHHHHHHHHHHHcC---CcEEEECCCHHHHHHHH
Confidence 457899997776665332 34566899999999999988877766654432 5777777766 555655
Q ss_pred Hhhccc
Q 001337 643 QEFMKW 648 (1097)
Q Consensus 643 ~Ei~k~ 648 (1097)
++...+
T Consensus 81 ~~~~~~ 86 (654)
T COG1199 81 EEDLPI 86 (654)
T ss_pred Hhhcch
Confidence 555443
No 310
>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=63.99 E-value=8.4 Score=37.22 Aligned_cols=16 Identities=25% Similarity=0.324 Sum_probs=13.3
Q ss_pred CCEEEecccchhcccc
Q 001337 716 PDILVCDEAHMIKNTR 731 (1097)
Q Consensus 716 ~dlVIiDEAH~iKN~~ 731 (1097)
+.+|++||+|.+....
T Consensus 59 ~~vl~iDe~d~l~~~~ 74 (132)
T PF00004_consen 59 PCVLFIDEIDKLFPKS 74 (132)
T ss_dssp SEEEEEETGGGTSHHC
T ss_pred ceeeeeccchhccccc
Confidence 7889999999986554
No 311
>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=63.80 E-value=2.6 Score=33.36 Aligned_cols=38 Identities=24% Similarity=0.614 Sum_probs=24.5
Q ss_pred eeeeccC----CCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeec
Q 001337 378 YCVWCGR----SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1097)
Q Consensus 378 ~C~~C~~----gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1097)
.|.+|.+ +..++... |...||..||...+... -.||+|
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 4566643 33455555 99999999997765321 288888
No 312
>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=63.50 E-value=26 Score=38.77 Aligned_cols=32 Identities=28% Similarity=0.452 Sum_probs=23.5
Q ss_pred CCCcchhhHHHHHHHhhhccccceeeEee--cchhhhh
Q 001337 604 GLGKTFQVIAFLYTAMRSVNLGLRTALIV--TPVNVLH 639 (1097)
Q Consensus 604 GLGKTlqaIali~~~l~~~~~~~k~~LIV--~P~sLv~ 639 (1097)
|.|||-.+.++...+.+.+ +++|+| +|.+++.
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 7899998888887776553 367776 6877663
No 313
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=63.49 E-value=10 Score=44.21 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=30.9
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhhcc
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMK 647 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei~k 647 (1097)
.|.+|+-..|+|||+.|=|+... ++++.+=+. ..|...|.-|=+|
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATE--------c~tTFFNVSsstltSKwRGeSEK 291 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATE--------CGTTFFNVSSSTLTSKWRGESEK 291 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHh--------hcCeEEEechhhhhhhhccchHH
Confidence 57789999999999877776543 345555554 5566778665443
No 314
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=63.39 E-value=7.9 Score=44.62 Aligned_cols=51 Identities=20% Similarity=0.259 Sum_probs=36.4
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
..++|+|......+... +. .+.-....++.-..|+||+..|.+|+..++..
T Consensus 3 ~~~yPW~~~~~~~l~~~----~~---~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 3 SAFSPWQQRAYDQTVAA----LD---AGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred ccccccHHHHHHHHHHH----HH---cCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 46788888766554432 22 22345567889999999999999998888754
No 315
>PTZ00293 thymidine kinase; Provisional
Probab=63.08 E-value=7 Score=42.23 Aligned_cols=34 Identities=15% Similarity=0.196 Sum_probs=23.3
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
++.-.||.|||.+.|-.+..+... .++++++-|.
T Consensus 8 vi~GpMfSGKTteLLr~i~~y~~a----g~kv~~~kp~ 41 (211)
T PTZ00293 8 VIIGPMFSGKTTELMRLVKRFTYS----EKKCVVIKYS 41 (211)
T ss_pred EEECCCCChHHHHHHHHHHHHHHc----CCceEEEEec
Confidence 456789999997666655544332 3578888885
No 316
>PF13173 AAA_14: AAA domain
Probab=63.00 E-value=11 Score=36.96 Aligned_cols=38 Identities=29% Similarity=0.330 Sum_probs=26.6
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh---ccceeeeeccCcccc
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQN 756 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l---~a~~RllLTGTPiqN 756 (1097)
+..+||+||+|++.+. ...++.+ ....++++||+-...
T Consensus 61 ~~~~i~iDEiq~~~~~----~~~lk~l~d~~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDW----EDALKFLVDNGPNIKIILTGSSSSL 101 (128)
T ss_pred CCcEEEEehhhhhccH----HHHHHHHHHhccCceEEEEccchHH
Confidence 6788999999999653 3444444 234689999986543
No 317
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=62.84 E-value=17 Score=44.01 Aligned_cols=26 Identities=23% Similarity=0.061 Sum_probs=20.2
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.+.+|.-+.|+|||.-+-++...+..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~ 167 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRE 167 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 46788889999999877777766543
No 318
>PRK10865 protein disaggregation chaperone; Provisional
Probab=62.27 E-value=19 Score=47.31 Aligned_cols=27 Identities=22% Similarity=0.140 Sum_probs=20.8
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
....+.||.-+.|.|||..+-+++...
T Consensus 197 ~~~~n~lL~G~pGvGKT~l~~~la~~i 223 (857)
T PRK10865 197 RTKNNPVLIGEPGVGKTAIVEGLAQRI 223 (857)
T ss_pred CCcCceEEECCCCCCHHHHHHHHHHHh
Confidence 345688999999999997776666554
No 319
>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=62.09 E-value=3.1 Score=46.90 Aligned_cols=43 Identities=16% Similarity=0.117 Sum_probs=32.1
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV 637 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sL 637 (1097)
+..++--..|.|||.+++.-+..++.........+|+|+++..
T Consensus 14 ~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~ 56 (315)
T PF00580_consen 14 GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNA 56 (315)
T ss_dssp SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHH
T ss_pred CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHH
Confidence 3445555699999999988888887776455568999998765
No 320
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=61.96 E-value=2.6 Score=49.36 Aligned_cols=48 Identities=21% Similarity=0.524 Sum_probs=36.3
Q ss_pred CCCcceeeeccCC-----CCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 373 DCSECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 373 d~~~~~C~~C~~g-----g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
|..+..|++|..- ..++.||+|.-+-|.+|-... -.++|.|.|--|--
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~--------f~peG~WlCrkCi~ 242 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQ--------FLPEGFWLCRKCIY 242 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecCcchhhhhhcccce--------ecCcchhhhhhhcc
Confidence 4456678888643 569999999999999995433 34789999888843
No 321
>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=61.95 E-value=25 Score=36.28 Aligned_cols=32 Identities=19% Similarity=0.142 Sum_probs=23.0
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhcc
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN 623 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~ 623 (1097)
.-+...|+.-+-|.||+-.|.+++..++....
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 34455688888999999999999988775543
No 322
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=61.83 E-value=20 Score=42.26 Aligned_cols=27 Identities=22% Similarity=0.239 Sum_probs=21.0
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.+.-.+|.-..|.|||.++..++..+.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~ 162 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCV 162 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 355667799999999998888776653
No 323
>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=61.56 E-value=8.4 Score=41.98 Aligned_cols=20 Identities=30% Similarity=0.266 Sum_probs=14.6
Q ss_pred ccchhhhhhcCCCcchhhHHHH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFL 615 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali 615 (1097)
-...||.-..|+||| ++|-+
T Consensus 50 l~h~lf~GPPG~GKT--TLA~I 69 (233)
T PF05496_consen 50 LDHMLFYGPPGLGKT--TLARI 69 (233)
T ss_dssp --EEEEESSTTSSHH--HHHHH
T ss_pred cceEEEECCCccchh--HHHHH
Confidence 356899999999999 44444
No 324
>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=61.53 E-value=35 Score=37.94 Aligned_cols=38 Identities=18% Similarity=0.122 Sum_probs=26.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
+.-.+|+-..|.|||..++.++....... ..+++++.-
T Consensus 30 g~~~~i~g~~G~GKT~l~~~~~~~~~~~~---g~~vl~iS~ 67 (271)
T cd01122 30 GELIILTAGTGVGKTTFLREYALDLITQH---GVRVGTISL 67 (271)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHHhc---CceEEEEEc
Confidence 44567889999999988888877664431 236777764
No 325
>CHL00095 clpC Clp protease ATP binding subunit
Probab=61.31 E-value=13 Score=48.45 Aligned_cols=26 Identities=23% Similarity=0.119 Sum_probs=20.5
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
...+.||.-+.|.|||..+-+++...
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHH
Confidence 45688999999999998776665554
No 326
>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=61.31 E-value=3.9 Score=30.25 Aligned_cols=29 Identities=21% Similarity=0.613 Sum_probs=21.5
Q ss_pred eeeccCCCCeeeccccccchhhhhhhccc
Q 001337 379 CVWCGRSSDLVSCKSCKTLFCTTCVKRNI 407 (1097)
Q Consensus 379 C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~ 407 (1097)
|.+|.+......--.|...||..|+...+
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~ 29 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWL 29 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHH
Confidence 56777765555556699999999987554
No 327
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.27 E-value=17 Score=44.66 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=20.3
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhh
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..|+.-+.|+|||..|.+++..+..
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3488999999999988888777653
No 328
>PHA02929 N1R/p28-like protein; Provisional
Probab=61.23 E-value=3.8 Score=45.01 Aligned_cols=45 Identities=20% Similarity=0.493 Sum_probs=30.2
Q ss_pred CCcceeeeccCCCC--------eeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 374 CSECYCVWCGRSSD--------LVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 374 ~~~~~C~~C~~gg~--------l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
..+..|.+|.+.-. +..=..|...||..||...+... =.||+|..
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~----------~tCPlCR~ 224 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK----------NTCPVCRT 224 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC----------CCCCCCCC
Confidence 34568999988622 11223689999999997754321 16999964
No 329
>PRK06835 DNA replication protein DnaC; Validated
Probab=61.09 E-value=9.7 Score=44.08 Aligned_cols=28 Identities=18% Similarity=0.192 Sum_probs=23.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
+.+.+|.-++|+|||..+.|++..++..
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 4678889999999999998888877654
No 330
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=61.02 E-value=4.2 Score=38.99 Aligned_cols=32 Identities=28% Similarity=0.789 Sum_probs=27.1
Q ss_pred CcceeeeccC-CCCeeeccc--cccchhhhhhhcc
Q 001337 375 SECYCVWCGR-SSDLVSCKS--CKTLFCTTCVKRN 406 (1097)
Q Consensus 375 ~~~~C~~C~~-gg~l~~Cd~--C~~~fc~~Cl~~~ 406 (1097)
....|.+|+. +|-++-|.. |.+.||+.|....
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 4558999997 688999988 9999999997543
No 331
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=60.49 E-value=5 Score=47.49 Aligned_cols=69 Identities=22% Similarity=0.443 Sum_probs=48.3
Q ss_pred ccceeEEEEecCcccchhhcccccCCCCCcceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeec
Q 001337 347 PHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1097)
Q Consensus 347 ~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1097)
-||-|.... ......|++-+.-.|..|.+..+-..=..|...||..||.-- +........-.|+.|
T Consensus 516 DHP~LVl~S---------~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~ey-----v~~f~~~~nvtCP~C 581 (791)
T KOG1002|consen 516 DHPDLVLYS---------ANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEY-----VESFMENNNVTCPVC 581 (791)
T ss_pred cCcceeeeh---------hhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHHHH-----HHhhhcccCCCCccc
Confidence 488765432 223344566667789999999998888889999999998533 222334445889999
Q ss_pred Chh
Q 001337 427 SPS 429 (1097)
Q Consensus 427 ~~~ 429 (1097)
...
T Consensus 582 ~i~ 584 (791)
T KOG1002|consen 582 HIG 584 (791)
T ss_pred ccc
Confidence 643
No 332
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=60.45 E-value=15 Score=45.06 Aligned_cols=48 Identities=25% Similarity=0.274 Sum_probs=34.7
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhcc
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 647 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k 647 (1097)
...|.||+-..|.|||+.|-++.... ..+++-|-...++..|.-|..+
T Consensus 275 ~~~giLl~GpPGtGKT~lAkava~~~-------~~~fi~v~~~~l~sk~vGesek 322 (494)
T COG0464 275 PPKGVLLYGPPGTGKTLLAKAVALES-------RSRFISVKGSELLSKWVGESEK 322 (494)
T ss_pred CCCeeEEECCCCCCHHHHHHHHHhhC-------CCeEEEeeCHHHhccccchHHH
Confidence 45689999999999998887776532 1255555544888888777654
No 333
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=60.07 E-value=22 Score=44.36 Aligned_cols=25 Identities=28% Similarity=0.122 Sum_probs=19.7
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l 619 (1097)
...+|.-..|+|||.-+.|+...+.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~ 339 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYAR 339 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHH
Confidence 3478889999999987777776654
No 334
>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=59.50 E-value=26 Score=44.16 Aligned_cols=54 Identities=19% Similarity=0.213 Sum_probs=36.8
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhcccc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWR 649 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~k~~ 649 (1097)
+...++-..+|+|||+..+.-+....... ..+++||.+|+. |..|+.+++..+.
T Consensus 16 ~~~lliEA~TGtGKTlAYLlpal~~~~~~--~~~rvlIstpT~~Lq~Ql~~~l~~l~ 70 (636)
T TIGR03117 16 KRIGMLEASTGVGKTLAMIMAALTMLKER--PDQKIAIAVPTLALMGQLWSELERLT 70 (636)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHHHHHhc--cCceEEEECCcHHHHHHHHHHHHHHH
Confidence 45566777999999976655543333221 136899999965 7789888876554
No 335
>PRK09183 transposase/IS protein; Provisional
Probab=59.29 E-value=22 Score=39.72 Aligned_cols=27 Identities=33% Similarity=0.465 Sum_probs=21.4
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.+.+.+|.-+.|.|||..+.++.....
T Consensus 101 ~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 101 RNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 466788889999999988888765543
No 336
>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=59.12 E-value=8 Score=34.15 Aligned_cols=46 Identities=24% Similarity=0.495 Sum_probs=31.9
Q ss_pred cCcceeeccccceEEE--eeccceeEEEEecCcccchhhcccccCCCC
Q 001337 329 LSEKFYCTACNNVAIE--VHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 329 ~~~~~~C~~Cg~~~~~--~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
..-.|.|++||....- ...-|++.+-+|..|+.+|.-..-..|..|
T Consensus 10 ~~v~v~c~s~g~~~~~~St~~~~~~~vdi~s~~HPfytG~~~~~~~~G 57 (69)
T PF01197_consen 10 REVKVTCSSCGNTFETRSTKEYPVIKVDICSNCHPFYTGKQKVVDTAG 57 (69)
T ss_dssp CEEEEEES-SSSCECECSSSSES-EEECSCSSSSCTTCSCSSCSCCCC
T ss_pred EEEEEEEcCCCCEEEEEECCcceEEEEeecCCCCEEEcCcEEEEcccc
Confidence 3456999999976432 334566999999999999987665555554
No 337
>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=59.03 E-value=4.6 Score=31.07 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=28.1
Q ss_pred eeeccCCC-CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 379 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 379 C~~C~~gg-~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
|.+|.+.- +.+.-..|...||..|+...+.. +...|+.|..
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 66666554 45555669999999998755322 4567998853
No 338
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=58.77 E-value=4.2 Score=37.23 Aligned_cols=31 Identities=23% Similarity=0.430 Sum_probs=22.4
Q ss_pred ccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 391 CKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 391 Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
-..|...||..||..-+..... .=.|++|..
T Consensus 49 ~g~C~H~FH~hCI~kWl~~~~~-------~~~CPmCR~ 79 (85)
T PF12861_consen 49 WGKCSHNFHMHCILKWLSTQSS-------KGQCPMCRQ 79 (85)
T ss_pred eccCccHHHHHHHHHHHccccC-------CCCCCCcCC
Confidence 3459999999999888754321 228999953
No 339
>PRK11054 helD DNA helicase IV; Provisional
Probab=58.72 E-value=5.2 Score=50.85 Aligned_cols=82 Identities=11% Similarity=-0.014 Sum_probs=55.1
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHH
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~ 643 (1097)
..|-|-|.++|..- . ...++--..|.|||.++++-+.+++.........+|+++.+.-..+...
T Consensus 195 ~~L~~~Q~~av~~~---------------~-~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~ 258 (684)
T PRK11054 195 SPLNPSQARAVVNG---------------E-DSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMD 258 (684)
T ss_pred CCCCHHHHHHHhCC---------------C-CCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHH
Confidence 35778888877532 2 2345556699999999999998888765444468999999887776665
Q ss_pred h-hcccccCCCcccEEEeecc
Q 001337 644 E-FMKWRPSELKPLRVFMLED 663 (1097)
Q Consensus 644 E-i~k~~p~~~~~l~V~~~~~ 663 (1097)
| +...++. ..+.+..+|.
T Consensus 259 eRL~~~lg~--~~v~v~TFHS 277 (684)
T PRK11054 259 ERIRERLGT--EDITARTFHA 277 (684)
T ss_pred HHHHHhcCC--CCcEEEeHHH
Confidence 5 5544431 2345555554
No 340
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.69 E-value=12 Score=46.27 Aligned_cols=27 Identities=19% Similarity=0.126 Sum_probs=21.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.....|+.-+.|.|||..|-.|+..+.
T Consensus 37 ~~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 37 LHHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 345568999999999988877776654
No 341
>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=58.69 E-value=15 Score=45.08 Aligned_cols=26 Identities=27% Similarity=0.244 Sum_probs=21.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
...|.+|.-++|.|||..+-+++..+
T Consensus 215 ~p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 215 PPKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CCcceEEECCCCCcHHHHHHHHHHhh
Confidence 45789999999999998877776554
No 342
>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=57.79 E-value=25 Score=46.09 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=20.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
...+.||.-+.|.|||..+-+++..+
T Consensus 193 ~~~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 193 TKNNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred CCCceEEEcCCCCCHHHHHHHHHHHH
Confidence 45677889999999998777666554
No 343
>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=57.70 E-value=17 Score=44.68 Aligned_cols=97 Identities=18% Similarity=0.204 Sum_probs=68.5
Q ss_pred cccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhc
Q 001337 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn 1035 (1097)
...|||-...+.++......|.++||.+........+.+.|.+. .|..+..++|.++..+|.+...+-.
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 45689999988888888778899999999988888888878752 3677889999999888877766655
Q ss_pred ccccceeeEEEeeeccccccceecccceEEEEc
Q 001337 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1068 (1097)
Q Consensus 1036 ~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D 1068 (1097)
+ +..+| ++.|+.. .=+-+.....||+-+
T Consensus 74 ~---g~~~I-VVGTrsa-lf~p~~~l~lIIVDE 101 (505)
T TIGR00595 74 N---GEILV-VIGTRSA-LFLPFKNLGLIIVDE 101 (505)
T ss_pred c---CCCCE-EECChHH-HcCcccCCCEEEEEC
Confidence 4 33444 4555432 112344555555554
No 344
>PRK12377 putative replication protein; Provisional
Probab=57.41 E-value=20 Score=39.78 Aligned_cols=28 Identities=14% Similarity=0.127 Sum_probs=22.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
..+.+|.-..|.|||..+.|++..+...
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~ 128 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAK 128 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 3577888899999999999988877643
No 345
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=57.21 E-value=2.6 Score=55.06 Aligned_cols=118 Identities=25% Similarity=0.261 Sum_probs=98.3
Q ss_pred CcceehhhHHHhhhcc--CCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 959 SGKMVLLLDILTMCSN--MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 959 S~Kl~~L~eiL~~~~~--~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
++|+..+...+..+.. .-+|||||||+...++.++..+.- .++.+.+..+ + ++-...+..|..
T Consensus 1202 g~kI~~v~~~il~iK~k~~qekvIvfsqws~~ldV~e~~~~~------------N~I~~~~~~~-t--~d~~dc~~~fk~ 1266 (1394)
T KOG0298|consen 1202 GTKIDSVVIAILYIKFKNEQEKVIVFSQWSVVLDVKELRYLM------------NLIKKQLDGE-T--EDFDDCIICFKS 1266 (1394)
T ss_pred ccCchhHHHHHHHHhccCcCceEEEEEehHHHHHHHHHHHHh------------hhhHhhhccC-C--cchhhhhhhccc
Confidence 4577766555554432 246999999999999999999874 5676655443 3 367788888976
Q ss_pred cccceeeEEEeeeccccccceecccceEEEEcCCcCCcccHHHHHHHhhhcccccccccc
Q 001337 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRCMDKQSQFLLT 1096 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~~WNP~~~~QAiGRa~RiGQkK~V~VYr 1096 (1097)
+.+||+-+..|+-|+||..|.||++.+|--||+.+.||+||+||+||++|++||+
T Consensus 1267 -----I~clll~~~~~~~GLNL~eA~Hvfl~ePiLN~~~E~QAigRvhRiGQ~~pT~V~~ 1321 (1394)
T KOG0298|consen 1267 -----IDCLLLFVSKGSKGLNLIEATHVFLVEPILNPGDEAQAIGRVHRIGQKRPTFVHR 1321 (1394)
T ss_pred -----ceEEEEEeccCcccccHHhhhhhheeccccCchHHHhhhhhhhhcccccchhhhh
Confidence 6789999999999999999999999999999999999999999999999999986
No 346
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=57.15 E-value=17 Score=39.58 Aligned_cols=28 Identities=18% Similarity=0.248 Sum_probs=23.3
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
..-...|++-..|.|||..+.+++..++
T Consensus 46 gnmP~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 46 GNMPNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CCCCceEeeCCCCCchhhHHHHHHHHHh
Confidence 4456889999999999998888887765
No 347
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=56.93 E-value=4.3 Score=44.52 Aligned_cols=41 Identities=27% Similarity=0.624 Sum_probs=30.7
Q ss_pred CCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 384 RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 384 ~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
....+|||..|-.++|..||..... +..+..--+|.|.-|.
T Consensus 275 r~~S~I~C~~C~~~~HP~Ci~M~~e---lv~~~KTY~W~C~~C~ 315 (381)
T KOG1512|consen 275 RRNSWIVCKPCATRPHPYCVAMIPE---LVGQYKTYFWKCSSCE 315 (381)
T ss_pred hhccceeecccccCCCCcchhcCHH---HHhHHhhcchhhcccH
Confidence 3457999999999999999975422 2234566789998883
No 348
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.63 E-value=23 Score=44.56 Aligned_cols=27 Identities=19% Similarity=0.112 Sum_probs=21.3
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
....|+.-..|+|||..+..++..+..
T Consensus 38 ~ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 38 HHAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 344588999999999888888777654
No 349
>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=56.32 E-value=32 Score=35.36 Aligned_cols=53 Identities=17% Similarity=0.148 Sum_probs=34.2
Q ss_pred cCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhhh
Q 001337 714 DGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVRE 770 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~p 770 (1097)
..+|+||+|=...+.+ ... .+..+.....+++..+|-..++.+...++.++..
T Consensus 66 ~~yD~VIiD~pp~~~~---~~~-~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~ 118 (169)
T cd02037 66 GELDYLVIDMPPGTGD---EHL-TLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKK 118 (169)
T ss_pred CCCCEEEEeCCCCCcH---HHH-HHHhccCCCeEEEEECCchhhHHHHHHHHHHHHh
Confidence 4899999998886521 111 1111233455666668877888888888887764
No 350
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=55.73 E-value=29 Score=41.28 Aligned_cols=41 Identities=17% Similarity=0.392 Sum_probs=27.8
Q ss_pred CCCEEEecccchhcccch---hHHHHHhhh-ccceeeeecc--Cccc
Q 001337 715 GPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTG--SPLQ 755 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S---~~~kal~~l-~a~~RllLTG--TPiq 755 (1097)
..|+++||-.|.+.+... .....+..+ .....|+||+ +|-+
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~ 221 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKE 221 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchh
Confidence 678899999999977632 334444444 3344899999 7754
No 351
>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=55.21 E-value=25 Score=42.94 Aligned_cols=41 Identities=10% Similarity=-0.140 Sum_probs=23.8
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
.-++|.-.=|=|||..+.++..+.+-.......-++++++.
T Consensus 23 ~~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~ 63 (477)
T PF03354_consen 23 REVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANT 63 (477)
T ss_pred EEEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCC
Confidence 34666667788999877666555443221112345666664
No 352
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=54.80 E-value=13 Score=43.10 Aligned_cols=144 Identities=18% Similarity=0.183 Sum_probs=73.8
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhc-ccccCCCcccEEEeecccchhHHH-
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM-KWRPSELKPLRVFMLEDVSRDRRA- 670 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~-k~~p~~~~~l~V~~~~~~~~~~r~- 670 (1097)
.|...+.--..|+|||.+-...++.... ......-+||++|...+.+-..+.. .+... ...++...-+.....+.
T Consensus 62 ~G~dv~~qaqsgTgKt~af~i~iLq~iD-~~~ke~qalilaPtreLa~qi~~v~~~lg~~--~~~~v~~~igg~~~~~~~ 138 (397)
T KOG0327|consen 62 KGHDVIAQAQSGTGKTAAFLISILQQID-MSVKETQALILAPTRELAQQIQKVVRALGDH--MDVSVHACIGGTNVRRED 138 (397)
T ss_pred cCCceeEeeeccccchhhhHHHHHhhcC-cchHHHHHHHhcchHHHHHHHHHHHHhhhcc--cceeeeeecCcccchhhh
Confidence 4566777778999999762222222211 1112246899999987665433333 23222 23445533332222211
Q ss_pred HHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhc--ccchhHHHHHhhhc-cceee
Q 001337 671 ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIK--NTRADTTQALKQVK-CQRRI 747 (1097)
Q Consensus 671 ~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iK--N~~S~~~kal~~l~-a~~Rl 747 (1097)
..+.. ....+++-|...+..+ .... .+...+..+.|+|||..+. +..-+++..+..+. .-..+
T Consensus 139 ~~i~~--~~~hivvGTpgrV~dm-----------l~~~-~l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~ 204 (397)
T KOG0327|consen 139 QALLK--DKPHIVVGTPGRVFDM-----------LNRG-SLSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVV 204 (397)
T ss_pred hhhhc--cCceeecCCchhHHHh-----------hccc-cccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhhe
Confidence 11111 1223444444222110 0000 2223367789999998764 44566777777773 34668
Q ss_pred eeccCc
Q 001337 748 ALTGSP 753 (1097)
Q Consensus 748 lLTGTP 753 (1097)
++|||-
T Consensus 205 l~SAT~ 210 (397)
T KOG0327|consen 205 LLSATM 210 (397)
T ss_pred eecccC
Confidence 889985
No 353
>PRK01678 rpmE2 50S ribosomal protein L31 type B; Reviewed
Probab=54.60 E-value=17 Score=33.53 Aligned_cols=46 Identities=13% Similarity=0.095 Sum_probs=32.5
Q ss_pred cCcceeeccccceEEE--------------eeccceeEEEEecCcccchhhcccccCCCC
Q 001337 329 LSEKFYCTACNNVAIE--------------VHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 329 ~~~~~~C~~Cg~~~~~--------------~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
....|.|.+||....- -...|++.+-+|..|+.||.-..-..|..|
T Consensus 10 ~~v~~~~~t~g~~f~~~ST~~~~~t~~~~dg~~yp~i~vdi~S~~HPFyTGkq~~vdt~G 69 (87)
T PRK01678 10 RPVVFHDTSTGFKFLTGSTITTDETIEWEDGKTYPLVKVEISSASHPFYTGKQKFVDTEG 69 (87)
T ss_pred EEEEEEECCCCCEEEEeeeccccceeeecCCcccceEEEEeCCCCCCcCcCCeeEeccCC
Confidence 3456899999966321 124589999999999999986655555444
No 354
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=54.58 E-value=9.7 Score=45.18 Aligned_cols=25 Identities=28% Similarity=0.244 Sum_probs=20.5
Q ss_pred CccchhhhhhcCCCcchhhHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
...|.+|.-+.|+|||..|-++...
T Consensus 164 ~p~gvLL~GppGtGKT~lAkaia~~ 188 (389)
T PRK03992 164 PPKGVLLYGPPGTGKTLLAKAVAHE 188 (389)
T ss_pred CCCceEEECCCCCChHHHHHHHHHH
Confidence 4578999999999999887776554
No 355
>PRK05642 DNA replication initiation factor; Validated
Probab=54.56 E-value=20 Score=39.38 Aligned_cols=38 Identities=16% Similarity=0.313 Sum_probs=24.7
Q ss_pred CCCEEEecccchhcccch---hHHHHHhhhc-cceeeeeccC
Q 001337 715 GPDILVCDEAHMIKNTRA---DTTQALKQVK-CQRRIALTGS 752 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S---~~~kal~~l~-a~~RllLTGT 752 (1097)
..|++|||+.|.+.+... ..+..+..+. ...++++|+|
T Consensus 97 ~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 97 QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 458899999998865432 2344444443 3467888886
No 356
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=54.52 E-value=4.5 Score=35.74 Aligned_cols=41 Identities=24% Similarity=0.369 Sum_probs=17.4
Q ss_pred eeecc--ccccchhhhhhhccchhhhhhhh-hhcccceeeecCh
Q 001337 388 LVSCK--SCKTLFCTTCVKRNISEACLSDE-VQASCWQCCCCSP 428 (1097)
Q Consensus 388 l~~Cd--~C~~~fc~~Cl~~~~~~~~~~~~-~~~~~W~C~~C~~ 428 (1097)
.+.|+ .|...||..||...+-...-.+. ...-.+.||.|..
T Consensus 20 ~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~ 63 (70)
T PF11793_consen 20 DVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSS 63 (70)
T ss_dssp -B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-S
T ss_pred ceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCC
Confidence 47898 59999999999877633222111 1123478999964
No 357
>PHA02926 zinc finger-like protein; Provisional
Probab=54.19 E-value=5.3 Score=42.86 Aligned_cols=50 Identities=24% Similarity=0.448 Sum_probs=31.6
Q ss_pred cceeeeccCCC---Cee------eccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 376 ECYCVWCGRSS---DLV------SCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 376 ~~~C~~C~~gg---~l~------~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+..|.+|-+.- .+. .=+.|..+||..||....... ........||+|.-.
T Consensus 170 E~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r----~~~~~~rsCPiCR~~ 228 (242)
T PHA02926 170 EKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTR----RETGASDNCPICRTR 228 (242)
T ss_pred CCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhc----cccCcCCcCCCCcce
Confidence 45788887641 111 114589999999998775432 112346789999643
No 358
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=54.12 E-value=6 Score=36.36 Aligned_cols=33 Identities=18% Similarity=0.631 Sum_probs=27.6
Q ss_pred CCCcceeeeccCC-CCeeeccc--cccchhhhhhhc
Q 001337 373 DCSECYCVWCGRS-SDLVSCKS--CKTLFCTTCVKR 405 (1097)
Q Consensus 373 d~~~~~C~~C~~g-g~l~~Cd~--C~~~fc~~Cl~~ 405 (1097)
.+....|.+|... |-.+.|.. |.+.||..|-..
T Consensus 33 ~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 33 RRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 3445579999998 99999977 999999999654
No 359
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=53.96 E-value=4.7 Score=49.33 Aligned_cols=46 Identities=28% Similarity=0.756 Sum_probs=33.4
Q ss_pred eeeeccCCC-----CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 378 YCVWCGRSS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 378 ~C~~C~~gg-----~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
-|.+|+.+| .++-|..|...||..|+....-. ..-...|.|+-|..
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~-----~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQH-----AVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHhH-----HHhcCCcccCCcee
Confidence 466676554 58999999999999998764332 22345699998854
No 360
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=53.23 E-value=5 Score=49.03 Aligned_cols=55 Identities=24% Similarity=0.524 Sum_probs=35.8
Q ss_pred CCCcceeeeccCCC--------Ceeeccc--cccchhhhhhhcc--chhhhhhhhhhcccceeeecChh
Q 001337 373 DCSECYCVWCGRSS--------DLVSCKS--CKTLFCTTCVKRN--ISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 373 d~~~~~C~~C~~gg--------~l~~Cd~--C~~~fc~~Cl~~~--~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
|-+.-.|-+|.+-| -..-|.. |.+.||+.|-.+. +.++.- ...+..=+|-.|.-.
T Consensus 114 dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~g--n~~dNVKYCGYCk~H 180 (900)
T KOG0956|consen 114 DRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEG--NISDNVKYCGYCKYH 180 (900)
T ss_pred hhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccc--cccccceechhHHHH
Confidence 44455699998764 5566755 9999999997643 333321 123455789999653
No 361
>PRK05580 primosome assembly protein PriA; Validated
Probab=53.22 E-value=24 Score=45.02 Aligned_cols=97 Identities=18% Similarity=0.176 Sum_probs=69.4
Q ss_pred ccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
..|||-...+.++......|.++||.+.....+..+.+.|.+. .|..+..++|+++..+|.+...+...
T Consensus 171 TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~-----------fg~~v~~~~s~~s~~~r~~~~~~~~~ 239 (679)
T PRK05580 171 TGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR-----------FGAPVAVLHSGLSDGERLDEWRKAKR 239 (679)
T ss_pred CCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH-----------hCCCEEEEECCCCHHHHHHHHHHHHc
Confidence 4588998888888777777889999999998888888888752 36789999999998888877777665
Q ss_pred cccceeeEEEeeeccccccceecccceEEEEcC
Q 001337 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDG 1069 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~ 1069 (1097)
+.+.| +++|+.. .=+.+.....||+-+-
T Consensus 240 ---g~~~I-VVgTrsa-l~~p~~~l~liVvDEe 267 (679)
T PRK05580 240 ---GEAKV-VIGARSA-LFLPFKNLGLIIVDEE 267 (679)
T ss_pred ---CCCCE-EEeccHH-hcccccCCCEEEEECC
Confidence 33343 5555422 2234555566666554
No 362
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.14 E-value=21 Score=42.42 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=22.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.....|+.-+.|+|||..|.+++..+..
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 3456788999999999888888777654
No 363
>PHA00350 putative assembly protein
Probab=52.97 E-value=16 Score=43.40 Aligned_cols=15 Identities=47% Similarity=0.569 Sum_probs=12.6
Q ss_pred CEEEecccchhcccc
Q 001337 717 DILVCDEAHMIKNTR 731 (1097)
Q Consensus 717 dlVIiDEAH~iKN~~ 731 (1097)
.+|||||||++-+..
T Consensus 83 aLIViDEaq~~~p~r 97 (399)
T PHA00350 83 ALYVIDEAQMIFPKR 97 (399)
T ss_pred CEEEEECchhhcCCC
Confidence 689999999987654
No 364
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.88 E-value=25 Score=43.57 Aligned_cols=27 Identities=19% Similarity=0.053 Sum_probs=21.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
....|+.-+.|+|||..|-.++..+..
T Consensus 38 ~ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 38 HHAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 345678999999999888888776653
No 365
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=52.66 E-value=6.9 Score=40.18 Aligned_cols=32 Identities=25% Similarity=0.710 Sum_probs=24.8
Q ss_pred eeecc------CCCCeeeccccccchhhhhhhccchhh
Q 001337 379 CVWCG------RSSDLVSCKSCKTLFCTTCVKRNISEA 410 (1097)
Q Consensus 379 C~~C~------~gg~l~~Cd~C~~~fc~~Cl~~~~~~~ 410 (1097)
|.+|+ .-|-||-|-.|..+||+.||..--.++
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~Re 39 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQRE 39 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccc
Confidence 56664 457899999999999999986554444
No 366
>PHA00012 I assembly protein
Probab=52.37 E-value=25 Score=40.45 Aligned_cols=23 Identities=17% Similarity=0.287 Sum_probs=17.2
Q ss_pred hhhcCCCcchhhHHHHHHHhhhc
Q 001337 600 AHTMGLGKTFQVIAFLYTAMRSV 622 (1097)
Q Consensus 600 ADeMGLGKTlqaIali~~~l~~~ 622 (1097)
.--+|.|||+.|++-|...+..+
T Consensus 7 TGkPGSGKSl~aV~~I~~~L~~G 29 (361)
T PHA00012 7 TGKLGAGKTLVAVSRIQDKLVKG 29 (361)
T ss_pred ecCCCCCchHHHHHHHHHHHHcC
Confidence 34589999999998776665553
No 367
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=52.28 E-value=7.3 Score=50.04 Aligned_cols=82 Identities=12% Similarity=0.031 Sum_probs=51.6
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
.|-|-|.++|..- .+.+++.-..|.|||.+.++-+++++.........+|+|+.+. ....-++
T Consensus 4 ~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~ 67 (715)
T TIGR01075 4 GLNDKQREAVAAP----------------PGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRH 67 (715)
T ss_pred ccCHHHHHHHcCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHH
Confidence 4667777776522 2345667789999999999999888865443445788888854 3444555
Q ss_pred hhcccccCCCcccEEEeec
Q 001337 644 EFMKWRPSELKPLRVFMLE 662 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~ 662 (1097)
-+.+.++.....+.+..+|
T Consensus 68 Rl~~~~~~~~~~~~i~TfH 86 (715)
T TIGR01075 68 RIGALLGTSARGMWIGTFH 86 (715)
T ss_pred HHHHHhcccccCcEEEcHH
Confidence 5555544322233444444
No 368
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=51.99 E-value=39 Score=43.68 Aligned_cols=25 Identities=20% Similarity=0.255 Sum_probs=19.3
Q ss_pred CccchhhhhhcCCCcchhhHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
...+.||.-+.|.|||..+-++...
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~ 230 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWR 230 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHH
Confidence 3567799999999999776666543
No 369
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=51.91 E-value=6.3 Score=43.80 Aligned_cols=41 Identities=27% Similarity=0.626 Sum_probs=32.3
Q ss_pred eeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
.|..|-+...--.|--|...||-.||.-..+.. + .||.|..
T Consensus 241 kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek------~----eCPlCR~ 281 (293)
T KOG0317|consen 241 KCSLCLENRSNPSATPCGHIFCWSCILEWCSEK------A----ECPLCRE 281 (293)
T ss_pred ceEEEecCCCCCCcCcCcchHHHHHHHHHHccc------c----CCCcccc
Confidence 789998888888899999999999986554332 1 1999964
No 370
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=51.61 E-value=6.5 Score=48.11 Aligned_cols=44 Identities=25% Similarity=0.617 Sum_probs=33.4
Q ss_pred eeeeccCCC-----Ceeeccc--cccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 378 YCVWCGRSS-----DLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 378 ~C~~C~~gg-----~l~~Cd~--C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
-|-||.+.. -|+-||. |.-+-|..|-..- ..+.++|+|--|...
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIv--------qVPtGpWfCrKCesq 57 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIV--------QVPTGPWFCRKCESQ 57 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehhcceeE--------ecCCCchhhhhhhhh
Confidence 367776543 6999998 9999999994221 347899999999754
No 371
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=51.43 E-value=24 Score=44.90 Aligned_cols=28 Identities=18% Similarity=0.112 Sum_probs=22.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+..|+.-+.|.|||..|-+++..+..
T Consensus 39 l~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 39 ISHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 3455688999999999988888777643
No 372
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=51.42 E-value=11 Score=44.88 Aligned_cols=25 Identities=28% Similarity=0.235 Sum_probs=20.3
Q ss_pred CccchhhhhhcCCCcchhhHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
.+.|.+|.-+.|.|||..+=+++..
T Consensus 178 ~pkgvLL~GppGTGKT~LAkalA~~ 202 (398)
T PTZ00454 178 PPRGVLLYGPPGTGKTMLAKAVAHH 202 (398)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHh
Confidence 5689999999999999877666543
No 373
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=51.41 E-value=19 Score=40.93 Aligned_cols=27 Identities=19% Similarity=0.218 Sum_probs=22.1
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhc
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSV 622 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~ 622 (1097)
..+|.-..|.|||..|.++...+....
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 467788899999999999988876543
No 374
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=51.33 E-value=46 Score=36.98 Aligned_cols=46 Identities=20% Similarity=0.162 Sum_probs=27.9
Q ss_pred hhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh------hhhHHhhcc
Q 001337 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL------HNWKQEFMK 647 (1097)
Q Consensus 597 gILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv------~qW~~Ei~k 647 (1097)
+.+.-++|.|||+..=+++..+. +..-++|+.|+.++ .-|..++.-
T Consensus 54 ~~vtGevGsGKTv~~Ral~~s~~-----~d~~~~v~i~~~~~s~~~~~~ai~~~l~~ 105 (269)
T COG3267 54 LAVTGEVGSGKTVLRRALLASLN-----EDQVAVVVIDKPTLSDATLLEAIVADLES 105 (269)
T ss_pred EEEEecCCCchhHHHHHHHHhcC-----CCceEEEEecCcchhHHHHHHHHHHHhcc
Confidence 44577899999987775555542 12234456665433 347776653
No 375
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=51.05 E-value=52 Score=35.78 Aligned_cols=37 Identities=19% Similarity=0.331 Sum_probs=26.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
+.-.+++-+.|.|||.-+..+++..... ..+++.|.=
T Consensus 25 g~~~~i~G~~GsGKt~l~~~~~~~~~~~----g~~~~y~~~ 61 (234)
T PRK06067 25 PSLILIEGDHGTGKSVLSQQFVYGALKQ----GKKVYVITT 61 (234)
T ss_pred CcEEEEECCCCCChHHHHHHHHHHHHhC----CCEEEEEEc
Confidence 4456778899999999998888765543 246677763
No 376
>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=51.02 E-value=10 Score=39.79 Aligned_cols=43 Identities=30% Similarity=0.406 Sum_probs=29.1
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv 638 (1097)
..+.|.+|.-.+|.|||..|.|++..+...+ .+++.+.-..|+
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 3567899999999999999999988776642 355655444333
No 377
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=50.88 E-value=72 Score=34.92 Aligned_cols=37 Identities=14% Similarity=0.152 Sum_probs=26.3
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
+.-.+|.-+.|.|||..++.++......+ .+++.|+.
T Consensus 24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g----~~~~yi~~ 60 (230)
T PRK08533 24 GSLILIEGDESTGKSILSQRLAYGFLQNG----YSVSYVST 60 (230)
T ss_pred CcEEEEECCCCCCHHHHHHHHHHHHHhCC----CcEEEEeC
Confidence 44567789999999988888877765432 35566654
No 378
>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=50.60 E-value=27 Score=45.79 Aligned_cols=26 Identities=27% Similarity=0.268 Sum_probs=19.3
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
....+.||.-+.|.|||..+=+++..
T Consensus 206 ~~~~n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 206 RRQNNPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred CCcCceeEECCCCCCHHHHHHHHHHH
Confidence 34568899999999999665555444
No 379
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=50.46 E-value=7.8 Score=42.45 Aligned_cols=48 Identities=31% Similarity=0.692 Sum_probs=33.9
Q ss_pred eeeeccCCC----------CeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 378 YCVWCGRSS----------DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 378 ~C~~C~~gg----------~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
||-.|-++. +|+.|.-|.|+=|.+||.....-- ....---|+|.-|.-
T Consensus 226 YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~---~avk~yrwqcieck~ 283 (336)
T KOG1244|consen 226 YCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMI---AAVKTYRWQCIECKY 283 (336)
T ss_pred ccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHH---HHHHhheeeeeecce
Confidence 777775443 899999999999999986432111 122456799999854
No 380
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=50.41 E-value=18 Score=46.27 Aligned_cols=103 Identities=17% Similarity=0.087 Sum_probs=69.2
Q ss_pred cccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhc
Q 001337 956 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1035 (1097)
Q Consensus 956 ~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn 1035 (1097)
...|||-.+..-.+......|.+++|.+.....+..+...+..+. ...|+.+..++|+++..+|...++...
T Consensus 290 ~TGSGKT~va~~~il~~~~~g~q~lilaPT~~LA~Q~~~~l~~l~--------~~~~i~v~ll~G~~~~~~r~~~~~~l~ 361 (681)
T PRK10917 290 DVGSGKTVVAALAALAAIEAGYQAALMAPTEILAEQHYENLKKLL--------EPLGIRVALLTGSLKGKERREILEAIA 361 (681)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCeEEEEeccHHHHHHHHHHHHHHH--------hhcCcEEEEEcCCCCHHHHHHHHHHHh
Confidence 356888875554444444568899999988877666666665432 123788999999999999999999887
Q ss_pred ccccceeeEEEeeeccccccceecccceEEEEcC
Q 001337 1036 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG 1069 (1097)
Q Consensus 1036 ~~~n~~v~VlLiStkagg~GLNL~~An~VIi~D~ 1069 (1097)
+ +.+.|++.+.......+.+.....||+=+.
T Consensus 362 ~---g~~~IvVgT~~ll~~~v~~~~l~lvVIDE~ 392 (681)
T PRK10917 362 S---GEADIVIGTHALIQDDVEFHNLGLVIIDEQ 392 (681)
T ss_pred C---CCCCEEEchHHHhcccchhcccceEEEech
Confidence 6 344555555444555566666665555333
No 381
>PRK13342 recombination factor protein RarA; Reviewed
Probab=50.19 E-value=21 Score=42.70 Aligned_cols=24 Identities=25% Similarity=0.043 Sum_probs=18.0
Q ss_pred CccchhhhhhcCCCcchhhHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~ 616 (1097)
.....||.-+.|+|||..|-++..
T Consensus 35 ~~~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 35 RLSSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 345788899999999976655543
No 382
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.04 E-value=2.7 Score=44.58 Aligned_cols=74 Identities=27% Similarity=0.537 Sum_probs=44.3
Q ss_pred EEEEecCcccchhhc-------ccccCCCCCcceeeeccCCCCeeecc--ccccchhhhhhhccchhhhhhhhhhcccce
Q 001337 352 NVIVCKDCKCLLEKK-------MHVKDADCSECYCVWCGRSSDLVSCK--SCKTLFCTTCVKRNISEACLSDEVQASCWQ 422 (1097)
Q Consensus 352 ~~~~C~~C~~~~~~~-------~~~~d~d~~~~~C~~C~~gg~l~~Cd--~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~ 422 (1097)
+|.+|..|----+.+ .+..|.| |...|+.|+..=.---|- .|-..||-+|++- ....++....-...+
T Consensus 20 RVNVCEhClV~nHpkCiVQSYLqWL~DsD-Y~pNC~LC~t~La~gdt~RLvCyhlfHW~Clne--raA~lPanTAPaGyq 96 (299)
T KOG3970|consen 20 RVNVCEHCLVANHPKCIVQSYLQWLQDSD-YNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNE--RAANLPANTAPAGYQ 96 (299)
T ss_pred hhhHHHHHHhccCchhhHHHHHHHHhhcC-CCCCCceeCCccccCcceeehhhhhHHHHHhhH--HHhhCCCcCCCCccc
Confidence 477787774322222 2345555 455899997432222222 2889999999852 233334344446699
Q ss_pred eeecCh
Q 001337 423 CCCCSP 428 (1097)
Q Consensus 423 C~~C~~ 428 (1097)
|++|.-
T Consensus 97 CP~Cs~ 102 (299)
T KOG3970|consen 97 CPCCSQ 102 (299)
T ss_pred CCCCCC
Confidence 999974
No 383
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=50.00 E-value=50 Score=39.83 Aligned_cols=38 Identities=21% Similarity=0.228 Sum_probs=22.7
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh-ccceeeeeccCccc
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQ 755 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l-~a~~RllLTGTPiq 755 (1097)
-+|+|.|||+|-+ +.+ .+..+..+ +.+.|+.--+--+|
T Consensus 295 ~yD~ilIDE~QDF--P~~-F~~Lcf~~tkd~KrlvyAyDelQ 333 (660)
T COG3972 295 AYDYILIDESQDF--PQS-FIDLCFMVTKDKKRLVYAYDELQ 333 (660)
T ss_pred cccEEEecccccC--CHH-HHHHHHHHhcCcceEEEehHhhh
Confidence 7899999999977 222 33444333 44566655443333
No 384
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.96 E-value=9.4 Score=44.06 Aligned_cols=43 Identities=19% Similarity=0.447 Sum_probs=30.8
Q ss_pred ceeeeccC---CCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 377 CYCVWCGR---SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 377 ~~C~~C~~---gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
+.|.+|-+ -|+.+-==-|...||..||++.+.+- .=.|++|..
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 58999974 35544445589999999998876432 114999965
No 385
>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=49.86 E-value=5.6 Score=30.62 Aligned_cols=38 Identities=26% Similarity=0.692 Sum_probs=23.1
Q ss_pred eeeccCCC-Ceeeccccccchhhhhhhccchhhhhhhhhhcccceeeec
Q 001337 379 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1097)
Q Consensus 379 C~~C~~gg-~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1097)
|.+|.+.- +.+....|...||..|+...+. . ...|++|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~---------~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLE---------K-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHH---------C-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHH---------C-cCCCcCC
Confidence 44554332 3335677999999999865432 1 3678876
No 386
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=49.36 E-value=68 Score=34.29 Aligned_cols=33 Identities=18% Similarity=0.263 Sum_probs=21.9
Q ss_pred CCEEEecccchhcccchhHHHHHhhhcc--ceeeeecc
Q 001337 716 PDILVCDEAHMIKNTRADTTQALKQVKC--QRRIALTG 751 (1097)
Q Consensus 716 ~dlVIiDEAH~iKN~~S~~~kal~~l~a--~~RllLTG 751 (1097)
.+.|+|||||-+.. .....+..+.. ..++++.|
T Consensus 83 ~~~v~IDEaQF~~~---~~v~~l~~lad~lgi~Vi~~G 117 (201)
T COG1435 83 VDCVLIDEAQFFDE---ELVYVLNELADRLGIPVICYG 117 (201)
T ss_pred cCEEEEehhHhCCH---HHHHHHHHHHhhcCCEEEEec
Confidence 67999999998843 45555666633 45555555
No 387
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=49.29 E-value=12 Score=44.34 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=22.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+.|+.-..|.|||..|.++...++.
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 456788999999999988888777654
No 388
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=49.27 E-value=1.3e+02 Score=32.00 Aligned_cols=57 Identities=19% Similarity=0.229 Sum_probs=34.0
Q ss_pred ccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhhh
Q 001337 713 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
...||+||+||--..-... ..+..++..-....-+++||.-.+..+.|+..++.=+.
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 3489999999986433222 22233333334455699999766666666655554443
No 389
>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=49.22 E-value=17 Score=46.81 Aligned_cols=42 Identities=24% Similarity=0.297 Sum_probs=28.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW 641 (1097)
...|.+|.-..|.|||..|=++.... ..+++.|-+..++..|
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 45688999999999998777665442 1245555555555544
No 390
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=49.20 E-value=12 Score=43.87 Aligned_cols=25 Identities=28% Similarity=0.244 Sum_probs=20.1
Q ss_pred CccchhhhhhcCCCcchhhHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
...|.+|.-+.|+|||..|=++...
T Consensus 155 ~p~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 155 PPKGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHh
Confidence 4578999999999999877776544
No 391
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=48.97 E-value=4.1 Score=47.37 Aligned_cols=27 Identities=22% Similarity=0.327 Sum_probs=14.8
Q ss_pred ccceeEEEEecCcccchhhcccccCCCCC
Q 001337 347 PHPILNVIVCKDCKCLLEKKMHVKDADCS 375 (1097)
Q Consensus 347 ~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~ 375 (1097)
.||- --.|-.|+.-+..-.|..|.+++
T Consensus 356 yHp~--CF~Cv~C~r~ldgipFtvd~~n~ 382 (468)
T KOG1701|consen 356 YHPG--CFTCVVCARCLDGIPFTVDSQNN 382 (468)
T ss_pred cCCC--ceEEEEeccccCCccccccCCCc
Confidence 4763 33344444444555788877664
No 392
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=48.67 E-value=56 Score=32.99 Aligned_cols=45 Identities=27% Similarity=0.360 Sum_probs=32.5
Q ss_pred chHHHHHHHhhcccccceeeEEEeeeccccccceecc--cceEEEEcCCc
Q 001337 1024 SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHS--ANRVIIVDGSW 1071 (1097)
Q Consensus 1024 ~~eR~~~i~~Fn~~~n~~v~VlLiStkagg~GLNL~~--An~VIi~D~~W 1071 (1097)
..+...+++.|...... .+|+++...++|||+++ +..||+.-.|+
T Consensus 33 ~~~~~~~l~~f~~~~~~---~iL~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 33 GKETGKLLEKYVEACEN---AILLATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred hhHHHHHHHHHHHcCCC---EEEEEccceecceecCCCCeeEEEEEecCC
Confidence 34678899999874222 24677666999999985 56788887665
No 393
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=48.58 E-value=30 Score=43.88 Aligned_cols=28 Identities=21% Similarity=0.138 Sum_probs=21.9
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
....+.||.-..|+|||..|.+|+..+.
T Consensus 36 rl~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 36 RLHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred CCCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 3455678999999999988887776654
No 394
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=48.52 E-value=25 Score=45.66 Aligned_cols=115 Identities=16% Similarity=0.273 Sum_probs=68.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhh----hhHHhhcccccCCCcccEEEeecccchh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLH----NWKQEFMKWRPSELKPLRVFMLEDVSRD 667 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~----qW~~Ei~k~~p~~~~~l~V~~~~~~~~~ 667 (1097)
.....++.++.|.|||+.+-..+...+.. .+.+++.+|+| ++|+. .|..-+. .+ .+++....+....
T Consensus 942 td~~~~~g~ptgsgkt~~ae~a~~~~~~~--~p~~kvvyIap~kalvker~~Dw~~r~~--~~----g~k~ie~tgd~~p 1013 (1230)
T KOG0952|consen 942 TDLNFLLGAPTGSGKTVVAELAIFRALSY--YPGSKVVYIAPDKALVKERSDDWSKRDE--LP----GIKVIELTGDVTP 1013 (1230)
T ss_pred cchhhhhcCCccCcchhHHHHHHHHHhcc--CCCccEEEEcCCchhhcccccchhhhcc--cC----CceeEeccCccCC
Confidence 35678899999999998765444444333 23478999999 44544 4655442 22 2566665554433
Q ss_pred HHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEEecccchhccc
Q 001337 668 RRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNT 730 (1097)
Q Consensus 668 ~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVIiDEAH~iKN~ 730 (1097)
.-.. ....+++|||.+..-.++.. ...++. -....++|+||.|.++..
T Consensus 1014 d~~~-----v~~~~~~ittpek~dgi~Rs--w~~r~~--------v~~v~~iv~de~hllg~~ 1061 (1230)
T KOG0952|consen 1014 DVKA-----VREADIVITTPEKWDGISRS--WQTRKY--------VQSVSLIVLDEIHLLGED 1061 (1230)
T ss_pred Chhh-----eecCceEEcccccccCcccc--ccchhh--------hccccceeecccccccCC
Confidence 2111 24568999999886543211 111111 125677999999988654
No 395
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=48.40 E-value=28 Score=43.45 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=20.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.++..|+.-+.|+|||..|-.|...+.
T Consensus 37 ~~hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 37 ISHAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 345567799999999988877776654
No 396
>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=48.35 E-value=1.5e+02 Score=32.57 Aligned_cols=39 Identities=21% Similarity=0.336 Sum_probs=27.1
Q ss_pred CCCcchhhHHHHHHHhhhccccceeeEee-c-chhhhhhhHHhhc
Q 001337 604 GLGKTFQVIAFLYTAMRSVNLGLRTALIV-T-PVNVLHNWKQEFM 646 (1097)
Q Consensus 604 GLGKTlqaIali~~~l~~~~~~~k~~LIV-~-P~sLv~qW~~Ei~ 646 (1097)
|.|||-.++++...+...+ +++.|| + |..-+..|.+-..
T Consensus 12 GaGKTT~~~~LAs~la~~G----~~V~lIDaDpn~pl~~W~~~a~ 52 (231)
T PF07015_consen 12 GAGKTTAAMALASELAARG----ARVALIDADPNQPLAKWAENAQ 52 (231)
T ss_pred CCcHHHHHHHHHHHHHHCC----CeEEEEeCCCCCcHHHHHHhcc
Confidence 7899988888777765543 355555 4 7778889976543
No 397
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=48.27 E-value=4.4 Score=50.81 Aligned_cols=55 Identities=9% Similarity=0.046 Sum_probs=46.3
Q ss_pred CCCCCcceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 371 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 371 d~d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
-++.++..|+.|.+++.++.|+.|.|.++.+|+++ .+.. ....+.|.|.-|+.+-
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 46788899999999999999999999999999987 3333 4457899999997653
No 398
>PRK00019 rpmE 50S ribosomal protein L31; Reviewed
Probab=48.19 E-value=26 Score=31.28 Aligned_cols=44 Identities=25% Similarity=0.428 Sum_probs=29.6
Q ss_pred CcceeeccccceEEE--eeccceeEEEEecCcccchhhcccccCCCC
Q 001337 330 SEKFYCTACNNVAIE--VHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 330 ~~~~~C~~Cg~~~~~--~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
.-.|.|+ ||....- ...-+-+.+-+|..|+.||.-..-..|..|
T Consensus 11 ~v~~~c~-~g~~f~~~ST~~~~~i~vdi~s~~HPFyTG~q~~~dt~G 56 (72)
T PRK00019 11 EVTVTCS-CGNVFETRSTLGKDEINVDVCSKCHPFYTGKQKIVDTGG 56 (72)
T ss_pred EEEEEEC-CCCEEEEeecCCCCcEEEEeCCCCCCcCcCCEeEeccCC
Confidence 3458899 9976432 222344899999999999986544444443
No 399
>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=48.11 E-value=67 Score=35.15 Aligned_cols=37 Identities=19% Similarity=0.286 Sum_probs=27.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
.+.-.+++-+.|.|||..++-++...+..+ .++|.|.
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 355667799999999999888887765442 3677776
No 400
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=48.06 E-value=17 Score=42.88 Aligned_cols=27 Identities=26% Similarity=0.821 Sum_probs=23.1
Q ss_pred eeecc-CCCCeeeccc--cccchhhhhhhc
Q 001337 379 CVWCG-RSSDLVSCKS--CKTLFCTTCVKR 405 (1097)
Q Consensus 379 C~~C~-~gg~l~~Cd~--C~~~fc~~Cl~~ 405 (1097)
|-+|. .||.-+-|.. |.++||+.|-.+
T Consensus 306 C~iCk~~~GtcIqCs~~nC~~aYHVtCArr 335 (669)
T COG5141 306 CLICKEFGGTCIQCSYFNCTRAYHVTCARR 335 (669)
T ss_pred eeEEcccCcceeeecccchhhhhhhhhhhh
Confidence 99997 7889999976 999999999543
No 401
>CHL00206 ycf2 Ycf2; Provisional
Probab=47.88 E-value=29 Score=48.34 Aligned_cols=44 Identities=16% Similarity=0.228 Sum_probs=31.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~ 643 (1097)
...|.+|.-.+|+|||+.|=|++... .-|.+-|....++..|..
T Consensus 1629 pPKGILLiGPPGTGKTlLAKALA~es-------~VPFIsISgs~fl~~~~~ 1672 (2281)
T CHL00206 1629 PSRGILVIGSIGTGRSYLVKYLATNS-------YVPFITVFLNKFLDNKPK 1672 (2281)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHhc-------CCceEEEEHHHHhhcccc
Confidence 46799999999999998877776543 126666666777777643
No 402
>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=47.71 E-value=91 Score=32.04 Aligned_cols=24 Identities=21% Similarity=0.275 Sum_probs=17.9
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhh
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~ 621 (1097)
++.-..|.|||..+..++..+...
T Consensus 4 ~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 4 LLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHC
Confidence 456679999999888877665433
No 403
>CHL00136 rpl31 ribosomal protein L31; Validated
Probab=47.47 E-value=23 Score=31.21 Aligned_cols=42 Identities=21% Similarity=0.265 Sum_probs=29.1
Q ss_pred ceeeccccceEEEeeccceeEEEEecCcccchhhcccccCCCC
Q 001337 332 KFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 332 ~~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
.+.| +||....---.-|.+.+-+|..|+.||.-..-..|..|
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 5778 69875443223477899999999999986554444443
No 404
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=47.07 E-value=56 Score=37.81 Aligned_cols=30 Identities=17% Similarity=0.065 Sum_probs=24.5
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
..+.+.|+.-+.|+||+..|.+|+..++..
T Consensus 22 rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~ 51 (325)
T PRK06871 22 LGHHALLFKADSGLGTEQLIRALAQWLMCQ 51 (325)
T ss_pred CcceeEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 345677789999999999999999887754
No 405
>PRK11823 DNA repair protein RadA; Provisional
Probab=46.83 E-value=67 Score=38.89 Aligned_cols=43 Identities=12% Similarity=0.081 Sum_probs=28.2
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhh
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 641 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW 641 (1097)
.-.+|.-++|.|||..++.++...... ..++|.|.-.....|.
T Consensus 81 s~~lI~G~pG~GKTtL~lq~a~~~a~~----g~~vlYvs~Ees~~qi 123 (446)
T PRK11823 81 SVVLIGGDPGIGKSTLLLQVAARLAAA----GGKVLYVSGEESASQI 123 (446)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHHHhc----CCeEEEEEccccHHHH
Confidence 345678899999998888887765432 2467777643333343
No 406
>PRK00528 rpmE 50S ribosomal protein L31; Reviewed
Probab=46.67 E-value=29 Score=30.90 Aligned_cols=33 Identities=9% Similarity=-0.099 Sum_probs=24.3
Q ss_pred ceeeccccceEEEe----eccceeEEEEecCcccchhh
Q 001337 332 KFYCTACNNVAIEV----HPHPILNVIVCKDCKCLLEK 365 (1097)
Q Consensus 332 ~~~C~~Cg~~~~~~----~~Hp~l~~~~C~~C~~~~~~ 365 (1097)
.+.| +||....-. ..-|.+.+-+|..|+.||..
T Consensus 13 ~~~~-~~g~~f~~~ST~g~~~~~i~vdv~s~~HPfyT~ 49 (71)
T PRK00528 13 KVVM-TDGTEYETRSTWGKTGPELRLDIDSGNHPAWTG 49 (71)
T ss_pred EEEE-eCCCEEEEEEcCCCCCCeEEEEECCCCCccEeC
Confidence 3544 588764422 15799999999999999983
No 407
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=45.90 E-value=32 Score=48.18 Aligned_cols=69 Identities=17% Similarity=0.153 Sum_probs=42.6
Q ss_pred CccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh
Q 001337 559 PSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1097)
Q Consensus 559 P~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv 638 (1097)
+..+...|-+-|++++..++. ....-.+|---.|.|||.+.-+++..+..........++.++|++-.
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 344445678889988876642 22346677888999999776555544322111122367788997644
Q ss_pred h
Q 001337 639 H 639 (1097)
Q Consensus 639 ~ 639 (1097)
.
T Consensus 1029 A 1029 (1747)
T PRK13709 1029 V 1029 (1747)
T ss_pred H
Confidence 3
No 408
>PF02572 CobA_CobO_BtuR: ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; InterPro: IPR003724 ATP:cob(I)alamin (or ATP:corrinoid) adenosyltransferases (2.5.1.17 from EC), catalyse the conversion of cobalamin (vitamin B12) into its coenzyme form, adenosylcobalamin (coenzyme B12) []. Adenosylcobalamin (AdoCbl) is required for the ativity of certain enzymes. AdoCbl contains an adenosyl moiety liganded to the cobalt ion of cobalamin via a covalent Co-C bond, and its synthesis is unique to certain prokaryotes. ATP:cob(I)alamin adenosyltransferases are classed into three groups: CobA-type [], EutT-type [] and PduO-type []. Each of the three enzyme types appears to be specialised for particular AdoCbl-dependent enzymes or for the de novo synthesis AdoCbl. PduO and EutT are distantly related, sharing short conserved motifs, while CobA is evolutionarily unrelated and is an example of convergent evolution. This entry represents the ATP:cob(I)alamin adenosyltransferases CobA (Salmonella typhimurium), CobO (Pseudomonas denitrificans), and ButR (Escherichia coli). There is a high degree of sequence identity between these proteins []. CobA is responsible for attaching the adenosyl moiety from ATP to the cobalt ion of the corrin ring, necessary for the convertion of cobalamin to adenosylcobalamin [, ]. ; GO: 0005524 ATP binding, 0008817 cob(I)yrinic acid a,c-diamide adenosyltransferase activity, 0009236 cobalamin biosynthetic process; PDB: 1G64_A 1G5T_A 1G5R_A.
Probab=45.73 E-value=56 Score=34.22 Aligned_cols=56 Identities=18% Similarity=0.207 Sum_probs=29.5
Q ss_pred ccCCCEEEecccchhcccc----hhHHHHHhhhccceeeeeccCccccchhhhhhhhhhh
Q 001337 713 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 713 ~~~~dlVIiDEAH~iKN~~----S~~~kal~~l~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
...||+||+||.=..-+.. ..+...+..-....-++|||-=.+-.+.|+..++.-+
T Consensus 94 ~~~~dlvILDEi~~a~~~gll~~~~v~~~l~~rp~~~evVlTGR~~~~~l~e~ADlVTem 153 (172)
T PF02572_consen 94 SGEYDLVILDEINYAVDYGLLSEEEVLDLLENRPESLEVVLTGRNAPEELIEAADLVTEM 153 (172)
T ss_dssp -TT-SEEEEETHHHHHHTTSS-HHHHHHHHHTS-TT-EEEEE-SS--HHHHHH-SEEEEE
T ss_pred CCCCCEEEEcchHHHhHCCCccHHHHHHHHHcCCCCeEEEEECCCCCHHHHHhCCeeeee
Confidence 3589999999987654433 2333344433455669999987665555555554433
No 409
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.46 E-value=24 Score=44.10 Aligned_cols=28 Identities=14% Similarity=0.097 Sum_probs=21.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
..+..|+.-+-|.|||..+.+|+..+..
T Consensus 37 ~~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 37 VAHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 3455688999999999888888777643
No 410
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=45.45 E-value=21 Score=45.80 Aligned_cols=24 Identities=29% Similarity=0.200 Sum_probs=18.1
Q ss_pred CCccchhhhhhcCCCcchhhHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFL 615 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali 615 (1097)
......||.-+.|+|||..|-++.
T Consensus 50 ~~~~slLL~GPpGtGKTTLA~aIA 73 (725)
T PRK13341 50 DRVGSLILYGPPGVGKTTLARIIA 73 (725)
T ss_pred CCCceEEEECCCCCCHHHHHHHHH
Confidence 344578999999999996665554
No 411
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=45.37 E-value=34 Score=45.69 Aligned_cols=52 Identities=21% Similarity=0.310 Sum_probs=35.1
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh-ccceeeeeccCccccchhhhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l-~a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
.-++||||||..+-. ..+.+.+..+ ....+++|.|-|-|-.+-+--..|..|
T Consensus 468 ~~~vlVIDEAsMv~~--~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~l 520 (1102)
T PRK13826 468 NKTVFVLDEAGMVAS--RQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAI 520 (1102)
T ss_pred CCcEEEEECcccCCH--HHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHHH
Confidence 457899999999843 2344455555 467899999999886665544444443
No 412
>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=45.10 E-value=7.9 Score=43.94 Aligned_cols=27 Identities=22% Similarity=0.588 Sum_probs=20.7
Q ss_pred ccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 393 ~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
.|...||..|+.+.+..+ +=.|+.|.-
T Consensus 25 ~CGH~~C~sCv~~l~~~~---------~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRG---------SGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCC---------CCCCCCCCC
Confidence 799999999998875332 237999953
No 413
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=45.05 E-value=12 Score=48.23 Aligned_cols=70 Identities=16% Similarity=0.057 Sum_probs=45.4
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
.|-|-|.++|.+- .+..++--..|.|||.+.+.-+++++.........+|+|+-+. ....-++
T Consensus 9 ~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~ 72 (721)
T PRK11773 9 SLNDKQREAVAAP----------------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRH 72 (721)
T ss_pred hcCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHH
Confidence 4777888777532 2345556679999999999988888765433445688888754 3334444
Q ss_pred hhccccc
Q 001337 644 EFMKWRP 650 (1097)
Q Consensus 644 Ei~k~~p 650 (1097)
.+.+.++
T Consensus 73 Rl~~~~~ 79 (721)
T PRK11773 73 RIEQLLG 79 (721)
T ss_pred HHHHHhc
Confidence 4444443
No 414
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=44.97 E-value=47 Score=37.63 Aligned_cols=23 Identities=26% Similarity=0.274 Sum_probs=18.4
Q ss_pred chhhhhhcCCCcchhhHHHHHHH
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~ 618 (1097)
..+|.-+.|.|||..+-+++..+
T Consensus 40 ~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 47899999999998777666554
No 415
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=44.89 E-value=11 Score=47.91 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=35.6
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHHhhcccc
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWR 649 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~Ei~k~~ 649 (1097)
.+++.-..|.|||.+.++-+++++.........+|+|+.+. -...-++.+.+.+
T Consensus 17 ~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l 71 (672)
T PRK10919 17 PCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTL 71 (672)
T ss_pred CEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHh
Confidence 44556679999999999999888865333345788888754 3334444444443
No 416
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=44.83 E-value=35 Score=47.21 Aligned_cols=151 Identities=17% Similarity=0.128 Sum_probs=79.2
Q ss_pred cccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhh
Q 001337 561 SISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 640 (1097)
Q Consensus 561 ~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~q 640 (1097)
.+...|-+-|++++..++. ...+-.+|--..|.|||.++-+++..+..........++.++|++-...
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 3445688899998876642 2234567778899999987655544432211111236777889764432
Q ss_pred hHHhhcccccCCCcccEEEeecccchhHHHHHHHHHHhcCcEEEEeeccccccccCcCCcchhhHHHHHHHhccCCCEEE
Q 001337 641 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 720 (1097)
Q Consensus 641 W~~Ei~k~~p~~~~~l~V~~~~~~~~~~r~~~l~~~~~~~~VvIitY~~~r~l~~~~~~~~~~~~~~~~~ll~~~~dlVI 720 (1097)
=..+. . + . ...+..|..... .+.. .. .......++||
T Consensus 899 ~L~e~-----G----i--------~----A~TIasfL~~~~-------~~~~--~~-------------~~~~~~~~llI 935 (1623)
T PRK14712 899 EMRSA-----G----V--------D----AQTLASFLHDTQ-------LQQR--SG-------------ETPDFSNTLFL 935 (1623)
T ss_pred HHHHh-----C----c--------h----HhhHHHHhcccc-------chhh--cc-------------cCCCCCCcEEE
Confidence 22221 0 0 0 111222211000 0000 00 00001458999
Q ss_pred ecccchhcccchhHHHHHhhhc-cceeeeeccCccccchhhhhhhhhhh
Q 001337 721 CDEAHMIKNTRADTTQALKQVK-CQRRIALTGSPLQNNLMEYYCMVDFV 768 (1097)
Q Consensus 721 iDEAH~iKN~~S~~~kal~~l~-a~~RllLTGTPiqNnl~El~~Ll~fL 768 (1097)
||||-.+-+. .+.+.+..+. ...|++|.|=|-|-..-+--..|..+
T Consensus 936 VDEASMV~~~--~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~~F~~l 982 (1623)
T PRK14712 936 LDESSMVGNT--DMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQ 982 (1623)
T ss_pred EEccccccHH--HHHHHHHhhhhCCCEEEEEcchhhcCCCCCCHHHHHH
Confidence 9999998543 3444444444 34789999988776655544444433
No 417
>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=44.71 E-value=22 Score=38.34 Aligned_cols=41 Identities=27% Similarity=0.341 Sum_probs=26.6
Q ss_pred CCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccch
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 758 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl 758 (1097)
.++.+||||++.+-.. ....+..+.....+.|-|=|.|-..
T Consensus 62 ~~~~liiDE~~~~~~g---~l~~l~~~~~~~~~~l~GDp~Q~~~ 102 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPG---YLLLLLSLSPAKNVILFGDPLQIPY 102 (234)
T ss_pred cCCEEEEeccccCChH---HHHHHHhhccCcceEEEECchhccC
Confidence 4789999999987321 2222344444456778899988543
No 418
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=44.68 E-value=5.2 Score=31.62 Aligned_cols=28 Identities=32% Similarity=0.812 Sum_probs=16.7
Q ss_pred ccccchhhhhhhccchhhhhhhhhhcccceeeec
Q 001337 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 426 (1097)
Q Consensus 393 ~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C 426 (1097)
.|..+||..||....... ....+.|+.|
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 388999999997664322 1223888877
No 419
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=44.47 E-value=52 Score=38.83 Aligned_cols=19 Identities=32% Similarity=0.149 Sum_probs=15.7
Q ss_pred CCccchhhhhhcCCCcchh
Q 001337 592 DKGLGCILAHTMGLGKTFQ 610 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlq 610 (1097)
..-...||.-..|.|||-.
T Consensus 46 ~~l~SmIl~GPPG~GKTTl 64 (436)
T COG2256 46 GHLHSMILWGPPGTGKTTL 64 (436)
T ss_pred CCCceeEEECCCCCCHHHH
Confidence 4557889999999999943
No 420
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.99 E-value=7 Score=42.81 Aligned_cols=54 Identities=26% Similarity=0.504 Sum_probs=31.7
Q ss_pred CCCcceeeeccCCCCeeec-----c-----ccccchhhhhhhccchhhhhhhhhhcccceeeecChh-hHHHH
Q 001337 373 DCSECYCVWCGRSSDLVSC-----K-----SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS-LLKRL 434 (1097)
Q Consensus 373 d~~~~~C~~C~~gg~l~~C-----d-----~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~-~~~~l 434 (1097)
..+|..|.+||+.=+.-.= + .|..+||..||+-..=-+. .=.||.|..+ .++++
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGK--------kqtCPYCKekVdl~rm 285 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGK--------KQTCPYCKEKVDLKRM 285 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecC--------CCCCchHHHHhhHhhh
Confidence 4456789998765433221 1 2999999999974321111 1248888665 34443
No 421
>CHL00176 ftsH cell division protein; Validated
Probab=43.79 E-value=36 Score=43.07 Aligned_cols=24 Identities=29% Similarity=0.254 Sum_probs=19.6
Q ss_pred CccchhhhhhcCCCcchhhHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~ 616 (1097)
...|.+|.-+.|+|||..|=+++.
T Consensus 215 ~p~gVLL~GPpGTGKT~LAralA~ 238 (638)
T CHL00176 215 IPKGVLLVGPPGTGKTLLAKAIAG 238 (638)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 356899999999999987776654
No 422
>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=43.23 E-value=10 Score=27.53 Aligned_cols=26 Identities=23% Similarity=0.613 Sum_probs=12.2
Q ss_pred eeeeccCCC---Ceeeccccccchhhhhh
Q 001337 378 YCVWCGRSS---DLVSCKSCKTLFCTTCV 403 (1097)
Q Consensus 378 ~C~~C~~gg---~l~~Cd~C~~~fc~~Cl 403 (1097)
.|.+|+..+ ....|..|...+|..|+
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 578888554 58999999999999994
No 423
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=43.22 E-value=66 Score=41.56 Aligned_cols=26 Identities=23% Similarity=0.176 Sum_probs=20.7
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
...+.||.-+.|.|||..+-+++..+
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~ 227 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRI 227 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHH
Confidence 45688999999999998776666554
No 424
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=42.91 E-value=34 Score=43.68 Aligned_cols=85 Identities=19% Similarity=0.223 Sum_probs=71.1
Q ss_pred cccccccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHH
Q 001337 952 TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV 1031 (1097)
Q Consensus 952 ~~~~~~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i 1031 (1097)
....+..|+|.++.++++....+.|+.+||...-......+...+.. +.|.++..++.+.+..+|...-
T Consensus 221 Ll~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~-----------rFg~~v~vlHS~Ls~~er~~~W 289 (730)
T COG1198 221 LLDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKA-----------RFGAKVAVLHSGLSPGERYRVW 289 (730)
T ss_pred eEeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHH-----------HhCCChhhhcccCChHHHHHHH
Confidence 34567889999999999999999999999999999988888888886 3578999999999999999888
Q ss_pred HhhcccccceeeEEEeeecc
Q 001337 1032 ERFNEPLNKRVKCTLISTRA 1051 (1097)
Q Consensus 1032 ~~Fn~~~n~~v~VlLiStka 1051 (1097)
.+..+ +.++| +|.|+.
T Consensus 290 ~~~~~---G~~~v-VIGtRS 305 (730)
T COG1198 290 RRARR---GEARV-VIGTRS 305 (730)
T ss_pred HHHhc---CCceE-EEEech
Confidence 88876 55554 555543
No 425
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=42.77 E-value=14 Score=47.10 Aligned_cols=69 Identities=17% Similarity=0.149 Sum_probs=43.7
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc-hhhhhhhHHhhcccccC-CCcccEEEeecc
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPS-ELKPLRVFMLED 663 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P-~sLv~qW~~Ei~k~~p~-~~~~l~V~~~~~ 663 (1097)
+.+++--..|.|||.+.+.-+..++.......+.+|+|+. .....+-...+.+.++. ....+.|..+|+
T Consensus 15 ~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~~~~~v~v~TfHs 85 (664)
T TIGR01074 15 GPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKGEARGLTISTFHT 85 (664)
T ss_pred CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCccccCCeEEEeHHH
Confidence 3456677799999999999888887643333356777765 44555666666655432 122345555553
No 426
>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=42.75 E-value=19 Score=40.55 Aligned_cols=48 Identities=25% Similarity=0.286 Sum_probs=34.4
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhccc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 648 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~k~ 648 (1097)
-+|.+|.-..|+||+..|=|++... ..++.-|...-|+..|.-|-++.
T Consensus 166 wrgiLLyGPPGTGKSYLAKAVATEA-------nSTFFSvSSSDLvSKWmGESEkL 213 (439)
T KOG0739|consen 166 WRGILLYGPPGTGKSYLAKAVATEA-------NSTFFSVSSSDLVSKWMGESEKL 213 (439)
T ss_pred ceeEEEeCCCCCcHHHHHHHHHhhc-------CCceEEeehHHHHHHHhccHHHH
Confidence 4688999999999998777665432 13556666667898887765543
No 427
>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=42.45 E-value=40 Score=48.18 Aligned_cols=63 Identities=14% Similarity=0.130 Sum_probs=39.4
Q ss_pred ccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhh
Q 001337 564 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 638 (1097)
Q Consensus 564 ~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv 638 (1097)
..|-+-|+.++..++. ....-.++--..|.|||.+..+++..+..........++.++|++-.
T Consensus 1018 ~~Lt~~Q~~Ai~~il~------------~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~A 1080 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIIS------------TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEA 1080 (1960)
T ss_pred CCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHH
Confidence 4578888888776532 23345566778999999877555444433222223467788897644
No 428
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=42.43 E-value=21 Score=39.81 Aligned_cols=50 Identities=26% Similarity=0.351 Sum_probs=38.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhc
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~ 646 (1097)
.+.|.+|--.+|.|||..|+|+...+... ..+++++.-+.++.+++..+.
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 67889999999999999999999888733 236777766777777766554
No 429
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=42.40 E-value=14 Score=30.90 Aligned_cols=29 Identities=28% Similarity=0.833 Sum_probs=24.1
Q ss_pred eeeeccC----CCCeeeccccccchhhhhhhcc
Q 001337 378 YCVWCGR----SSDLVSCKSCKTLFCTTCVKRN 406 (1097)
Q Consensus 378 ~C~~C~~----gg~l~~Cd~C~~~fc~~Cl~~~ 406 (1097)
-|.+|++ +++++.|..|...||..|-.+.
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 5777873 8899999999999999995443
No 430
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.89 E-value=9.2 Score=39.64 Aligned_cols=32 Identities=22% Similarity=0.712 Sum_probs=22.8
Q ss_pred eeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 388 LVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 388 l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+..--.|..+||..||+..+.. .=.|+.|..+
T Consensus 145 ~~vsTkCGHvFC~~Cik~alk~----------~~~CP~C~kk 176 (187)
T KOG0320|consen 145 VPVSTKCGHVFCSQCIKDALKN----------TNKCPTCRKK 176 (187)
T ss_pred cccccccchhHHHHHHHHHHHh----------CCCCCCcccc
Confidence 3344569999999999765432 3569999754
No 431
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=41.84 E-value=28 Score=44.09 Aligned_cols=101 Identities=15% Similarity=0.101 Sum_probs=65.5
Q ss_pred ccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
..|||-.+..-.+......|.+++|-+.....+..+...+.++.. ..|+.+..++|+++..+|..+++...+
T Consensus 265 TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~--------~~gi~v~lltg~~~~~~r~~~~~~i~~ 336 (630)
T TIGR00643 265 VGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLA--------PLGIEVALLTGSLKGKRRKELLETIAS 336 (630)
T ss_pred CCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhc--------ccCcEEEEEecCCCHHHHHHHHHHHhC
Confidence 457887654433333344578999999887776666666654321 137899999999999999999888875
Q ss_pred cccceeeEEEeeeccccccceecccceEEEEc
Q 001337 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1068 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkagg~GLNL~~An~VIi~D 1068 (1097)
+.+.|++.+....-..+.+.....||+=+
T Consensus 337 ---g~~~IiVgT~~ll~~~~~~~~l~lvVIDE 365 (630)
T TIGR00643 337 ---GQIHLVVGTHALIQEKVEFKRLALVIIDE 365 (630)
T ss_pred ---CCCCEEEecHHHHhccccccccceEEEec
Confidence 33445555544444455555555555433
No 432
>TIGR00105 L31 ribosomal protein L31. This family consists exclusively of bacterial (and organellar) 50S ribosomal protein L31. In some species, such as Bacillus subtilis, this protein exists in two forms (RpmE and YtiA), one of which (RpmE) contains a pair of motifs, CXC and CXXC, for binding zinc.
Probab=41.73 E-value=37 Score=29.97 Aligned_cols=43 Identities=23% Similarity=0.432 Sum_probs=28.5
Q ss_pred cceeeccccceEEEeeccce--eEEEEecCcccchhhcccccCCCC
Q 001337 331 EKFYCTACNNVAIEVHPHPI--LNVIVCKDCKCLLEKKMHVKDADC 374 (1097)
Q Consensus 331 ~~~~C~~Cg~~~~~~~~Hp~--l~~~~C~~C~~~~~~~~~~~d~d~ 374 (1097)
-.|.| +||....-.-.-|- +.+-+|..|+.+|.-.....|..|
T Consensus 12 v~~~~-s~g~~f~~~ST~~~~~i~vdi~s~~HPfyTG~~~~~~~~G 56 (68)
T TIGR00105 12 ITVTC-TCGNVFTTRSTWGKETLNLDICSKCHPFYTGKQKIVDTGG 56 (68)
T ss_pred EEEEE-CCCCEEEEeeecCCceEEEEECCCCcccCCCceEEeccCC
Confidence 45778 59987543222343 899999999999986544444433
No 433
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=41.48 E-value=7.2 Score=48.78 Aligned_cols=43 Identities=21% Similarity=0.552 Sum_probs=26.9
Q ss_pred eeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+|.+|..-=.=..=-.|..+||..|+.+-.+.. .-.||-|...
T Consensus 645 kCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etR---------qRKCP~Cn~a 687 (698)
T KOG0978|consen 645 KCSVCNTRWKDAVITKCGHVFCEECVQTRYETR---------QRKCPKCNAA 687 (698)
T ss_pred eCCCccCchhhHHHHhcchHHHHHHHHHHHHHh---------cCCCCCCCCC
Confidence 466655322222224599999999997665444 3569999743
No 434
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.21 E-value=12 Score=44.88 Aligned_cols=49 Identities=16% Similarity=0.479 Sum_probs=35.4
Q ss_pred cceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 376 ECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 376 ~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+.+|.+|-..-..-+=-.|...||-.||-.-+..+. -..+=.|++|-..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~-----~~~~~~CPiC~s~ 234 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSA-----IKGPCSCPICRST 234 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhc-----ccCCccCCchhhh
Confidence 568999988887777777999999999975554441 2234459999543
No 435
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.21 E-value=12 Score=46.73 Aligned_cols=90 Identities=16% Similarity=0.337 Sum_probs=60.1
Q ss_pred eeeccccceEEEeeccceeEEEEecCcccchhhcccccC---CCCCcceeeeccCCCCeeecc---------------cc
Q 001337 333 FYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKD---ADCSECYCVWCGRSSDLVSCK---------------SC 394 (1097)
Q Consensus 333 ~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d---~d~~~~~C~~C~~gg~l~~Cd---------------~C 394 (1097)
-.|..|+...- -++...-|..| ..|.+-++.++ .-....+|..|.++-.+..|. +|
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 67888876531 12233347777 44444433332 223344889998888877762 24
Q ss_pred c-------cchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 395 K-------TLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 395 ~-------~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
| .--|..|..+.++...+-+-..-+.|.|.+|+-
T Consensus 174 ~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~ 214 (669)
T KOG2231|consen 174 PDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDY 214 (669)
T ss_pred CccccccCCccchhhhhhhccHHHHHHhhccceeheeecCc
Confidence 4 345788999999999998888889999999964
No 436
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=41.16 E-value=8.2 Score=38.43 Aligned_cols=29 Identities=34% Similarity=0.952 Sum_probs=23.9
Q ss_pred ceeeeccCCCCeeeccccccchh-hhhhhcc
Q 001337 377 CYCVWCGRSSDLVSCKSCKTLFC-TTCVKRN 406 (1097)
Q Consensus 377 ~~C~~C~~gg~l~~Cd~C~~~fc-~~Cl~~~ 406 (1097)
-+|.||| --...+|-+|...|| +.|+..+
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 566889999999999 7887544
No 437
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=40.90 E-value=1.1e+02 Score=34.53 Aligned_cols=54 Identities=13% Similarity=0.130 Sum_probs=29.8
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh----cc-ceeeeeccCccccchhhhhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV----KC-QRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l----~a-~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
++|+||+|-+=+.-+.. .....+..+ .. ...+.|+||--.+...++...++-+.
T Consensus 154 ~~D~ViIDt~Gr~~~~~-~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~~~ 212 (270)
T PRK06731 154 RVDYILIDTAGKNYRAS-ETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIH 212 (270)
T ss_pred CCCEEEEECCCCCcCCH-HHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCCCC
Confidence 68889999885543222 122222222 22 23567888877777666655555443
No 438
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.73 E-value=14 Score=42.60 Aligned_cols=43 Identities=23% Similarity=0.475 Sum_probs=31.5
Q ss_pred eeeeccCCC----Ceeeccccccchhhhhhhccchhhhhhhhhhcccc--eeeecChh
Q 001337 378 YCVWCGRSS----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCW--QCCCCSPS 429 (1097)
Q Consensus 378 ~C~~C~~gg----~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W--~C~~C~~~ 429 (1097)
.|.+|-+|. +|-.=.+|...||..|+-. ..+-+|| .|+.|.-+
T Consensus 6 ~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~q---------wfe~~Ps~R~cpic~ik 54 (465)
T KOG0827|consen 6 ECHICIDGRPNDHELGPIGTCGHIFHTTCLTQ---------WFEGDPSNRGCPICQIK 54 (465)
T ss_pred eeeEeccCCccccccccccchhhHHHHHHHHH---------HHccCCccCCCCceeec
Confidence 688886665 3444566999999999743 3466789 69999844
No 439
>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=40.28 E-value=63 Score=35.06 Aligned_cols=37 Identities=14% Similarity=0.416 Sum_probs=24.2
Q ss_pred CCCEEEecccchhcccch---hHHHHHhhh-ccceeeeecc
Q 001337 715 GPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTG 751 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S---~~~kal~~l-~a~~RllLTG 751 (1097)
..|++|||..|.+.+... .....+..+ ....++++|+
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 789999999999987542 223333333 3445677766
No 440
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=39.90 E-value=22 Score=39.69 Aligned_cols=93 Identities=26% Similarity=0.515 Sum_probs=54.8
Q ss_pred CCcccccccCcceeeccccceEEEeeccceeEEEEecCcccch--------------hhcccccCCCC---Ccceeeecc
Q 001337 321 DNSLHSQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLL--------------EKKMHVKDADC---SECYCVWCG 383 (1097)
Q Consensus 321 ~~~~~~~~~~~~~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~--------------~~~~~~~d~d~---~~~~C~~C~ 383 (1097)
-+.-.+++...-++|..|... |+.-| +.|+.|.-.+ --++|..-+.+ .-..|.+|.
T Consensus 297 ~CaCHs~~~~gGy~CP~Cktk---VCsLP----i~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ 369 (421)
T COG5151 297 VCACHSEVKGGGYECPVCKTK---VCSLP----ISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQ 369 (421)
T ss_pred ceeeeeeeccCceeCCcccce---eecCC----ccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceecc
Confidence 344455666677888888543 33334 4677775422 22234333322 244699997
Q ss_pred C--------------CCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChhh
Q 001337 384 R--------------SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 430 (1097)
Q Consensus 384 ~--------------gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~~ 430 (1097)
. ...-+-|..|...||..|-. ..-+---+|+-|+.++
T Consensus 370 ~~fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdv----------fiHe~Lh~C~gCe~~~ 420 (421)
T COG5151 370 GPFPKPPVSPFDESTSSGRYQCELCKSTFCSDCDV----------FIHETLHFCIGCELPH 420 (421)
T ss_pred CCCCCCCCCcccccccccceechhhhhhhhhhhHH----------HHHHHHhhCCCCcCCC
Confidence 6 13456799999999999931 1112234699997543
No 441
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=39.63 E-value=32 Score=42.14 Aligned_cols=27 Identities=15% Similarity=0.134 Sum_probs=19.9
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
.-..+.++.-.=|+|||-.|=-++.++
T Consensus 36 ri~hAYlfsG~RGvGKTt~Ari~Akal 62 (515)
T COG2812 36 RIAHAYLFSGPRGVGKTTIARILAKAL 62 (515)
T ss_pred cchhhhhhcCCCCcCchhHHHHHHHHh
Confidence 456788899999999996655555444
No 442
>PRK08939 primosomal protein DnaI; Reviewed
Probab=39.37 E-value=36 Score=39.07 Aligned_cols=29 Identities=24% Similarity=0.346 Sum_probs=24.4
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.+.|.+|.-.+|.|||..+.|++..+...
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~ 183 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANELAKK 183 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHc
Confidence 45788899999999999999988887643
No 443
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=38.99 E-value=11 Score=47.37 Aligned_cols=53 Identities=26% Similarity=0.686 Sum_probs=38.9
Q ss_pred CCCcceeeeccCC----CCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecCh
Q 001337 373 DCSECYCVWCGRS----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 428 (1097)
Q Consensus 373 d~~~~~C~~C~~g----g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~ 428 (1097)
.+.--.|.||.+- -....|.+|-++||..||...-.. .+....+.|.|+-|+.
T Consensus 188 ~~~~yeCmIC~e~I~~t~~~WSC~sCYhVFHl~CI~~WArs---~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 188 SNRKYECMICTERIKRTAPVWSCKSCYHVFHLNCIKKWARS---SEKTGQDGWRCPACQS 244 (950)
T ss_pred hcCceEEEEeeeeccccCCceecchhhhhhhHHHHHHHHHH---hhhccCccccCCcccc
Confidence 3444468888643 357899999999999999877444 2234568899999974
No 444
>PRK04328 hypothetical protein; Provisional
Probab=38.97 E-value=1.1e+02 Score=33.97 Aligned_cols=36 Identities=19% Similarity=0.274 Sum_probs=26.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
+.-.+++-+.|.|||..++-++...+..+ .++++|.
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 44456799999999998888887765443 2566665
No 445
>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=38.68 E-value=1.8e+02 Score=31.79 Aligned_cols=23 Identities=17% Similarity=0.235 Sum_probs=18.8
Q ss_pred hhhhhhcCCCcchhhHHHHHHHh
Q 001337 597 CILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 597 gILADeMGLGKTlqaIali~~~l 619 (1097)
++|+-.-|.|||.-++.+++...
T Consensus 4 ~ll~g~~G~GKS~lal~la~~va 26 (239)
T cd01125 4 SALVAPGGTGKSSLLLVLALAMA 26 (239)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHh
Confidence 57888999999998888876653
No 446
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=38.64 E-value=53 Score=38.33 Aligned_cols=30 Identities=13% Similarity=0.034 Sum_probs=24.8
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
..+.+.++.-..|.|||..|.+|+..++..
T Consensus 19 rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~ 48 (342)
T PRK06964 19 RLPHALLLHGQAGIGKLDFAQHLAQGLLCE 48 (342)
T ss_pred CcceEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 445677789999999999999998887664
No 447
>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=38.53 E-value=55 Score=37.63 Aligned_cols=51 Identities=10% Similarity=0.083 Sum_probs=31.0
Q ss_pred HHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhh
Q 001337 706 REICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYC 763 (1097)
Q Consensus 706 ~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~ 763 (1097)
..+...+..++|++|++|.+- -...-+++.+.+.+ .-=+|....++...+.
T Consensus 208 dll~aalR~rPd~IivgEvrg-----~e~~~~~~a~~tGh--~~isT~ha~s~~~~~~ 258 (312)
T COG0630 208 DLLRAALRQRPDYIIVGELRG-----REAFVLFQAMQTGH--GTISTIHADSPELVLD 258 (312)
T ss_pred HHHHHHHhcCCCeEEEeeeec-----HHHHHHHHHHhcCC--CceeEEecCCHHHHHH
Confidence 445566777999999999983 22344555556666 3334555555554443
No 448
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=38.08 E-value=50 Score=41.71 Aligned_cols=34 Identities=12% Similarity=0.035 Sum_probs=22.0
Q ss_pred hhhhcCCCcchhhHHHHHHHhhhccccceeeEeecch
Q 001337 599 LAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 635 (1097)
Q Consensus 599 LADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~ 635 (1097)
+.-+=|-|||..+..++..+.... + ..++|.+|.
T Consensus 192 ~taPRqrGKS~iVgi~l~~La~f~--G-i~IlvTAH~ 225 (752)
T PHA03333 192 ATVPRRCGKTTIMAIILAAMISFL--E-IDIVVQAQR 225 (752)
T ss_pred EEeccCCCcHHHHHHHHHHHHHhc--C-CeEEEECCC
Confidence 334579999987765555544321 2 478999993
No 449
>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=37.94 E-value=29 Score=44.79 Aligned_cols=24 Identities=29% Similarity=0.267 Sum_probs=18.6
Q ss_pred CccchhhhhhcCCCcchhhHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLY 616 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~ 616 (1097)
.+.|.+|.-+.|.|||..+=++..
T Consensus 211 ~~~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 211 PPKGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred CCceEEEECCCCCChHHHHHHHHH
Confidence 457889999999999976655543
No 450
>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=37.92 E-value=41 Score=35.23 Aligned_cols=29 Identities=17% Similarity=0.267 Sum_probs=22.9
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.....||.-+.|.|||..+..++..++..
T Consensus 13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~~ 41 (188)
T TIGR00678 13 LAHAYLFAGPEGVGKELLALALAKALLCE 41 (188)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 34567889999999998888888776543
No 451
>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=37.46 E-value=14 Score=32.86 Aligned_cols=26 Identities=19% Similarity=0.602 Sum_probs=18.4
Q ss_pred cccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 392 KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 392 d~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
..|...||..||...+... ..||+|.
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 4599999999997665322 3899984
No 452
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=37.22 E-value=26 Score=29.86 Aligned_cols=47 Identities=19% Similarity=0.467 Sum_probs=31.3
Q ss_pred ceeeccccceEEEeeccceeEEEEecCcccchhhcccccCCCCCc--ceeeeccCCCCeeeccccc
Q 001337 332 KFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSE--CYCVWCGRSSDLVSCKSCK 395 (1097)
Q Consensus 332 ~~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~~--~~C~~C~~gg~l~~Cd~C~ 395 (1097)
.-.||+||..+... + ....-.|.+| |.. -.|.-|..-|..+-|.+|.
T Consensus 9 ~~~CtSCg~~i~p~-e--~~v~F~CPnC--------------Ge~~I~Rc~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPG-E--TAVKFPCPNC--------------GEVEIYRCAKCRKLGNPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccC-C--ceeEeeCCCC--------------CceeeehhhhHHHcCCceECCCcC
Confidence 35899999864211 1 1124458888 322 2588899999999998885
No 453
>PRK05973 replicative DNA helicase; Provisional
Probab=36.94 E-value=1.3e+02 Score=33.12 Aligned_cols=37 Identities=32% Similarity=0.356 Sum_probs=27.7
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
.|.-.+++-.+|.|||.-++-++......+ .+++++.
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 344567899999999998888887765442 4777776
No 454
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.89 E-value=56 Score=38.23 Aligned_cols=27 Identities=15% Similarity=0.123 Sum_probs=20.6
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
......+|.-+.|.|||..+-+++..+
T Consensus 37 ~~~~~~L~~G~~G~GKt~~a~~la~~l 63 (367)
T PRK14970 37 HLAQALLFCGPRGVGKTTCARILARKI 63 (367)
T ss_pred CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence 345678899999999998777775544
No 455
>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]
Probab=36.61 E-value=60 Score=39.59 Aligned_cols=24 Identities=29% Similarity=0.300 Sum_probs=19.3
Q ss_pred CCccchhhhhhcCCCcchhhHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFL 615 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali 615 (1097)
.-+.|.+|.-..|+|||+-|=|++
T Consensus 335 KLPKGVLLvGPPGTGKTlLARAvA 358 (752)
T KOG0734|consen 335 KLPKGVLLVGPPGTGKTLLARAVA 358 (752)
T ss_pred cCCCceEEeCCCCCchhHHHHHhh
Confidence 446899999999999997665543
No 456
>PRK14873 primosome assembly protein PriA; Provisional
Probab=36.47 E-value=52 Score=41.87 Aligned_cols=80 Identities=18% Similarity=0.123 Sum_probs=66.3
Q ss_pred cCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccC-CceeeccCCccchHHHHHHHhhcc
Q 001337 958 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG-KDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 958 ~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~G-i~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
.|+|-+..++++......|+.+||...-......+...|... .| ..++.++++.+..+|.+...+..+
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 489999999999999999999999999999989898888863 34 678999999999999888888775
Q ss_pred cccceeeEEEeeeccc
Q 001337 1037 PLNKRVKCTLISTRAG 1052 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkag 1052 (1097)
+.++ ++|.|+.+
T Consensus 239 ---G~~~-IViGtRSA 250 (665)
T PRK14873 239 ---GQAR-VVVGTRSA 250 (665)
T ss_pred ---CCCc-EEEEccee
Confidence 4444 36666654
No 457
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=36.29 E-value=56 Score=38.94 Aligned_cols=33 Identities=18% Similarity=0.174 Sum_probs=22.7
Q ss_pred hhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 597 gILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
.+++-=-|.|||-++.=+..++... .+++|+|+
T Consensus 103 ImmvGLQGsGKTTt~~KLA~~lkk~----~~kvllVa 135 (451)
T COG0541 103 ILMVGLQGSGKTTTAGKLAKYLKKK----GKKVLLVA 135 (451)
T ss_pred EEEEeccCCChHhHHHHHHHHHHHc----CCceEEEe
Confidence 4556678999998887777776552 23556665
No 458
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=36.21 E-value=79 Score=36.52 Aligned_cols=50 Identities=16% Similarity=0.017 Sum_probs=33.6
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.++|+|...-+.+. ..+. .+.-....++.-..|+||+..|.+|+..++..
T Consensus 3 ~~yPWl~~~~~~l~----~~~~---~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~ 52 (319)
T PRK06090 3 NDYPWLVPVWQNWK----AGLD---AGRIPGALLLQSDEGLGVESLVELFSRALLCQ 52 (319)
T ss_pred cCcccHHHHHHHHH----HHHH---cCCcceeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 35676665444332 2222 23445678889999999999999998887654
No 459
>KOG1705 consensus Uncharacterized conserved protein, contains CXXC motifs [Function unknown]
Probab=36.09 E-value=21 Score=32.70 Aligned_cols=32 Identities=25% Similarity=0.517 Sum_probs=23.6
Q ss_pred eeccceeEEEEecCcccchhhcccccCCCCCcceeeeccCCCC
Q 001337 345 VHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSD 387 (1097)
Q Consensus 345 ~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~ 387 (1097)
.+..|--.|-+|.+|. =..++..|-+|+..|-
T Consensus 35 S~VRP~tlVRiC~eC~-----------~Gs~q~~ciic~~~gV 66 (110)
T KOG1705|consen 35 SYVRPCTLVRICDECN-----------YGSYQGRCVICGGVGV 66 (110)
T ss_pred cccccceeeeeehhcC-----------CccccCceEEecCCcc
Confidence 3567877899999994 1345668999998774
No 460
>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=35.79 E-value=1.5e+02 Score=32.16 Aligned_cols=48 Identities=17% Similarity=0.150 Sum_probs=33.3
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec----chhhhhhhHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT----PVNVLHNWKQE 644 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~----P~sLv~qW~~E 644 (1097)
|.=.+|+-..|.|||.-++.++....... ..++|++. |..++..+...
T Consensus 13 G~l~lI~G~~G~GKT~~~~~~~~~~~~~~---g~~vly~s~E~~~~~~~~r~~~~ 64 (242)
T cd00984 13 GDLIIIAARPSMGKTAFALNIAENIAKKQ---GKPVLFFSLEMSKEQLLQRLLAS 64 (242)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHHhC---CCceEEEeCCCCHHHHHHHHHHH
Confidence 44467899999999988888877765542 23788887 45556555443
No 461
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=35.48 E-value=19 Score=45.45 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=13.3
Q ss_pred CCCCcceeeeccCCCCeeeccccc
Q 001337 372 ADCSECYCVWCGRSSDLVSCKSCK 395 (1097)
Q Consensus 372 ~d~~~~~C~~C~~gg~l~~Cd~C~ 395 (1097)
+++.. ||.-||..-....|-.|.
T Consensus 12 ~~~ak-FC~~CG~~l~~~~Cp~CG 34 (645)
T PRK14559 12 PNNNR-FCQKCGTSLTHKPCPQCG 34 (645)
T ss_pred CCCCc-cccccCCCCCCCcCCCCC
Confidence 44444 888887665433455554
No 462
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.20 E-value=1.3e+02 Score=36.02 Aligned_cols=56 Identities=9% Similarity=0.209 Sum_probs=33.5
Q ss_pred cCCCEEEecccchhcccchhHHHHHhhh--------ccceeeeeccCccccchhhhhhhhhhhhh
Q 001337 714 DGPDILVCDEAHMIKNTRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFVRE 770 (1097)
Q Consensus 714 ~~~dlVIiDEAH~iKN~~S~~~kal~~l--------~a~~RllLTGTPiqNnl~El~~Ll~fL~p 770 (1097)
.++|+||||=+-+.-+.. .....+..+ .....++|+||-=++.+.+++..+..+.+
T Consensus 298 ~~~D~VLIDTaGr~~rd~-~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~ 361 (432)
T PRK12724 298 DGSELILIDTAGYSHRNL-EQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNY 361 (432)
T ss_pred CCCCEEEEeCCCCCccCH-HHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCC
Confidence 478999999876543222 222233222 22456888998877777776666555543
No 463
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=35.17 E-value=63 Score=40.35 Aligned_cols=28 Identities=25% Similarity=0.188 Sum_probs=22.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.++..|+.-+.|.|||..|-+++..+..
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 3445788999999999988888777653
No 464
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=35.01 E-value=1e+02 Score=36.63 Aligned_cols=56 Identities=14% Similarity=0.159 Sum_probs=35.4
Q ss_pred CCCEEEecccch-hcccchhHH--HHHhhh--ccceeeeeccCccccchhhhhhhhhhhhhc
Q 001337 715 GPDILVCDEAHM-IKNTRADTT--QALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREG 771 (1097)
Q Consensus 715 ~~dlVIiDEAH~-iKN~~S~~~--kal~~l--~a~~RllLTGTPiqNnl~El~~Ll~fL~p~ 771 (1097)
..|+|.+|=+-+ .++.. .+. +++... ....-+.||+|-=.+.+.+++..+.++...
T Consensus 281 ~~d~ILVDTaGrs~~D~~-~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~~f~~~~i~ 341 (407)
T COG1419 281 DCDVILVDTAGRSQYDKE-KIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIKQFSLFPID 341 (407)
T ss_pred cCCEEEEeCCCCCccCHH-HHHHHHHHHhccccceEEEEEecCcchHHHHHHHHHhccCCcc
Confidence 568888886542 22221 111 111111 345668999999999999999988887654
No 465
>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=34.84 E-value=27 Score=42.82 Aligned_cols=25 Identities=28% Similarity=0.239 Sum_probs=19.9
Q ss_pred CCccchhhhhhcCCCcchhhHHHHH
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLY 616 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~ 616 (1097)
....|.||.-+.|+|||..+=+++.
T Consensus 86 ~~~~giLL~GppGtGKT~la~alA~ 110 (495)
T TIGR01241 86 KIPKGVLLVGPPGTGKTLLAKAVAG 110 (495)
T ss_pred CCCCcEEEECCCCCCHHHHHHHHHH
Confidence 3456899999999999987766653
No 466
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=34.73 E-value=21 Score=39.58 Aligned_cols=56 Identities=29% Similarity=0.573 Sum_probs=32.1
Q ss_pred eeeeccCCCCeeeccc--cccchhhhhhhccchhhhhhhhhhcccceeeecChh--hHHHH------HHHHhhhcC
Q 001337 378 YCVWCGRSSDLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS--LLKRL------TSELGRAMG 443 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~--C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~--~~~~l------~~~~~~~~~ 443 (1097)
-|..|+.--.- -|.+ |...||..||..- .-+....|+.|..+ .|.+| -.++|+++.
T Consensus 276 kCplc~~Llrn-p~kT~cC~~~fc~eci~~a---------l~dsDf~CpnC~rkdvlld~l~pD~dk~~EvE~~lk 341 (427)
T COG5222 276 KCPLCHCLLRN-PMKTPCCGHTFCDECIGTA---------LLDSDFKCPNCSRKDVLLDGLTPDIDKKLEVEKALK 341 (427)
T ss_pred cCcchhhhhhC-cccCccccchHHHHHHhhh---------hhhccccCCCcccccchhhccCccHHHHHHHHHHHH
Confidence 46666532211 1233 6789999997422 12356899999875 23333 345555655
No 467
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=34.66 E-value=63 Score=39.61 Aligned_cols=26 Identities=23% Similarity=0.125 Sum_probs=19.5
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.+..|+.-+.|.|||..|-.+...+.
T Consensus 38 ~hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 38 SHAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34457899999999987777766653
No 468
>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=34.52 E-value=19 Score=42.84 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=20.0
Q ss_pred CccchhhhhhcCCCcchhhHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYT 617 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~ 617 (1097)
.+.+.|+--..|+|||-.+.++...
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHH
Confidence 4678888899999999877776555
No 469
>PRK08760 replicative DNA helicase; Provisional
Probab=34.33 E-value=1.7e+02 Score=35.82 Aligned_cols=50 Identities=14% Similarity=0.010 Sum_probs=35.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhhc
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 646 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei~ 646 (1097)
|.=.|||-.+|.|||.-++.++....... ..+++++..---..+|...+.
T Consensus 229 G~LivIaarPg~GKTafal~iA~~~a~~~---g~~V~~fSlEMs~~ql~~Rl~ 278 (476)
T PRK08760 229 TDLIILAARPAMGKTTFALNIAEYAAIKS---KKGVAVFSMEMSASQLAMRLI 278 (476)
T ss_pred CceEEEEeCCCCChhHHHHHHHHHHHHhc---CCceEEEeccCCHHHHHHHHH
Confidence 34467899999999988888776654221 247888887666667766654
No 470
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=34.32 E-value=29 Score=42.33 Aligned_cols=21 Identities=24% Similarity=0.833 Sum_probs=14.3
Q ss_pred eeeeccCCCCeeeccccccch
Q 001337 378 YCVWCGRSSDLVSCKSCKTLF 398 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~f 398 (1097)
.|.-|++-|..+-|+.|.+.|
T Consensus 70 ~c~~c~G~gkv~~c~~cG~~~ 90 (715)
T COG1107 70 TCPECGGTGKVLTCDICGDII 90 (715)
T ss_pred ecccCCCceeEEeecccccee
Confidence 477777777777777776544
No 471
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=34.29 E-value=1.7e+02 Score=36.15 Aligned_cols=27 Identities=22% Similarity=0.149 Sum_probs=18.2
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
+.-.+|.-..|.|||..+..++..+..
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 334445667999999887777665443
No 472
>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=34.22 E-value=14 Score=36.08 Aligned_cols=44 Identities=25% Similarity=0.689 Sum_probs=29.7
Q ss_pred ceeeeccCC-----CCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 377 CYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 377 ~~C~~C~~g-----g~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
..|..|+.. +.-..|..|.+.+|..|-.. ......|.|.+|...
T Consensus 55 ~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---------~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 55 RHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---------SKKEPIWLCKVCQKQ 103 (118)
T ss_dssp SB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---------TSSSCCEEEHHHHHH
T ss_pred cchhhhCCcccccCCCCCcCCcCCccccCccCCc---------CCCCCCEEChhhHHH
Confidence 367777642 33367889999999999422 224578999999754
No 473
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=33.81 E-value=1.3e+02 Score=33.42 Aligned_cols=54 Identities=17% Similarity=0.247 Sum_probs=29.8
Q ss_pred hHHHHHHHhccCCCEEEecccchhcccchhHHHHHhhhccceeeeeccCccccchhhhhh
Q 001337 704 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYC 763 (1097)
Q Consensus 704 ~~~~~~~ll~~~~dlVIiDEAH~iKN~~S~~~kal~~l~a~~RllLTGTPiqNnl~El~~ 763 (1097)
+...+...+..+||+||++|.- +. ....++....+-+...+| |-..++..+...
T Consensus 186 ~~~~l~~~LR~~pD~iiigEiR---~~--e~~~~~~a~~tGh~~~~t-T~Ha~s~~~~i~ 239 (270)
T PF00437_consen 186 YEDLLKSALRQDPDVIIIGEIR---DP--EAAEAIQAANTGHLGSLT-TLHANSAEDAIE 239 (270)
T ss_dssp HHHHHHHHTTS--SEEEESCE----SC--HHHHHHHHHHTT-EEEEE-EEE-SSHHHHHH
T ss_pred HHHHHHHHhcCCCCcccccccC---CH--hHHHHHHhhccCCceeee-eeecCCHHHHHH
Confidence 3445666777899999999975 33 344456666666665443 444555555543
No 474
>PF02702 KdpD: Osmosensitive K+ channel His kinase sensor domain; InterPro: IPR003852 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represents the N-terminal domain found in KdpD sensor kinase proteins, which regulate the kdpFABC operon responsible for potassium transport []. The N-terminal domain forms part of the cytoplasmic region of the protein, which may be the sensor domain responsible for sensing turgor pressure [].; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0016020 membrane; PDB: 2R8R_B.
Probab=33.67 E-value=52 Score=35.32 Aligned_cols=26 Identities=19% Similarity=0.271 Sum_probs=20.4
Q ss_pred chhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 596 GCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 596 GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
-.+|....|.|||..++.-...+...
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~~ 32 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKEQ 32 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHHC
Confidence 45788899999999888777666554
No 475
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.57 E-value=47 Score=41.66 Aligned_cols=26 Identities=15% Similarity=0.169 Sum_probs=20.6
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
+...||.-+.|+|||..+.+++..+.
T Consensus 38 ~~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 38 AHAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhc
Confidence 33458899999999988888876664
No 476
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=33.37 E-value=18 Score=38.02 Aligned_cols=33 Identities=30% Similarity=0.422 Sum_probs=21.5
Q ss_pred CCCEEEecccchhcccchhHHHHHhh-hccceeeeeccCc
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQ-VKCQRRIALTGSP 753 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~-l~a~~RllLTGTP 753 (1097)
.+|++|||||=.|- .-.+.+ +....|+++|.|-
T Consensus 90 ~~DlliVDEAAaIp------~p~L~~ll~~~~~vv~stTi 123 (177)
T PF05127_consen 90 QADLLIVDEAAAIP------LPLLKQLLRRFPRVVFSTTI 123 (177)
T ss_dssp --SCEEECTGGGS-------HHHHHHHHCCSSEEEEEEEB
T ss_pred CCCEEEEechhcCC------HHHHHHHHhhCCEEEEEeec
Confidence 57999999998772 123333 3567788888874
No 477
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=33.29 E-value=17 Score=27.96 Aligned_cols=30 Identities=20% Similarity=0.557 Sum_probs=19.2
Q ss_pred eeeccCCCCeee-ccccccchhhhhhhccch
Q 001337 379 CVWCGRSSDLVS-CKSCKTLFCTTCVKRNIS 408 (1097)
Q Consensus 379 C~~C~~gg~l~~-Cd~C~~~fc~~Cl~~~~~ 408 (1097)
|.+|.+.-.--. =-.|...||..|+...+.
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~ 31 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLE 31 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHH
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHH
Confidence 445554433333 456999999999976643
No 478
>PRK04023 DNA polymerase II large subunit; Validated
Probab=33.24 E-value=22 Score=45.96 Aligned_cols=53 Identities=17% Similarity=0.394 Sum_probs=0.0
Q ss_pred cccccCcceeeccccceEEEeeccceeEEEEecCcccchhhcccccCCCCCcceeeeccCCCCeeecccccc
Q 001337 325 HSQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKT 396 (1097)
Q Consensus 325 ~~~~~~~~~~C~~Cg~~~~~~~~Hp~l~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~~ 396 (1097)
..+......+|+.||....... |..|-.. ...--.|..|+.-+.-..|..|..
T Consensus 619 ~~eVEVg~RfCpsCG~~t~~fr---------CP~CG~~----------Te~i~fCP~CG~~~~~y~CPKCG~ 671 (1121)
T PRK04023 619 TIEVEIGRRKCPSCGKETFYRR---------CPFCGTH----------TEPVYRCPRCGIEVEEDECEKCGR 671 (1121)
T ss_pred ceeecccCccCCCCCCcCCccc---------CCCCCCC----------CCcceeCccccCcCCCCcCCCCCC
No 479
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.07 E-value=24 Score=43.64 Aligned_cols=47 Identities=17% Similarity=0.322 Sum_probs=29.3
Q ss_pred EEEEecCcccchhhcccccCCCCCcceeeeccCCCCeeeccccccchhhhhhh
Q 001337 352 NVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVK 404 (1097)
Q Consensus 352 ~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~ 404 (1097)
.+..|..|..|+-+... .|...+|..|..+|+- ||+|.+.+|+.|+.
T Consensus 125 ~~~Yc~~~e~fl~dr~v----~g~cp~cg~~~arGD~--Ce~Cg~~~~P~~l~ 171 (558)
T COG0143 125 EGLYCVSCERFLPDRYV----EGTCPKCGGEDARGDQ--CENCGRTLDPTELI 171 (558)
T ss_pred eeeEcccccccccchhe----eccCCCcCccccCcch--hhhccCcCCchhcC
Confidence 46667777655532221 1222355555567764 99999999999964
No 480
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=32.99 E-value=1.3e+02 Score=35.47 Aligned_cols=57 Identities=18% Similarity=0.222 Sum_probs=34.6
Q ss_pred eecCccccccccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 556 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 556 v~vP~~l~~~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
-.+|..+ .-|.-|+..+...+...+ .+..+.++++.-.+|+|||.++-.++..+...
T Consensus 13 ~~iP~~l--~~Re~ei~~l~~~l~~~~-------~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 13 DYIPEEL--PHREEEINQLASFLAPAL-------RGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred CCCcccc--cccHHHHHHHHHHHHHHh-------cCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 3455552 235556655554443332 23445568899999999998877766665433
No 481
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=32.81 E-value=74 Score=38.59 Aligned_cols=28 Identities=18% Similarity=0.119 Sum_probs=22.4
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHhh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAMR 620 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l~ 620 (1097)
.....|+.-+.|.|||..|.+++..+..
T Consensus 38 i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 38 AAHAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred CceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 3456788999999999988888877654
No 482
>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=32.38 E-value=1.3e+02 Score=36.62 Aligned_cols=46 Identities=17% Similarity=0.223 Sum_probs=29.9
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHH
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 643 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~ 643 (1097)
+.-.+|+-++|.|||..++.++...... .+++|.|..-.-..|...
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~----g~kvlYvs~EEs~~qi~~ 139 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKN----QMKVLYVSGEESLQQIKM 139 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhc----CCcEEEEECcCCHHHHHH
Confidence 3345778999999998888776665432 136777775444444433
No 483
>PRK07952 DNA replication protein DnaC; Validated
Probab=32.35 E-value=35 Score=37.83 Aligned_cols=34 Identities=21% Similarity=0.263 Sum_probs=26.3
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEee
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 632 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV 632 (1097)
.|.+|.-..|+|||..+.+++..+...+ .+++++
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l~~~g----~~v~~i 133 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNELLLRG----KSVLII 133 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcC----CeEEEE
Confidence 4788999999999999999888776542 355555
No 484
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=32.34 E-value=3e+02 Score=31.75 Aligned_cols=32 Identities=16% Similarity=0.195 Sum_probs=21.3
Q ss_pred hhhhhcCCCcchhhHHHHHHHhhhccccceeeEeec
Q 001337 598 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 633 (1097)
Q Consensus 598 ILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~ 633 (1097)
.|.-..|.|||.++..++..+... .++++|+.
T Consensus 118 ~lvGpnGsGKTTt~~kLA~~l~~~----g~~V~Li~ 149 (318)
T PRK10416 118 LVVGVNGVGKTTTIGKLAHKYKAQ----GKKVLLAA 149 (318)
T ss_pred EEECCCCCcHHHHHHHHHHHHHhc----CCeEEEEe
Confidence 345599999998877776665432 24566665
No 485
>PF00539 Tat: Transactivating regulatory protein (Tat); InterPro: IPR001831 Like other lentiviruses, Human immunodeficiency virus 1 (HIV-1) encodes a trans-activating regulatory protein (Tat), which is essential for efficient transcription of the viral genome [, ]. Tat acts by binding to an RNA stem-loop structure, the trans-activating response element (TAR), found at the 5' ends of nascent HIV-1 transcripts. In binding to TAR, Tat alters the properties of the transcription complex, recruits a positive transcription elongation complex (P-TEFb) and hence increases the production of full-length viral RNA []. Tat protein also associates with RNA polymerase II complexes during early transcription elongation after the promoter clearance and before the synthesis of full-length TAR RNA transcript. This interaction of Tat with RNA polymerase II elongation complexes is P-TEFb-independent. There are two Tat binding sites on each transcription elongation complex; one is located on TAR RNA and the other one on RNA polymerase II near the exit site for nascent mRNA transcripts which suggests that two Tat molecules are involved in performing various functions during a single round of HIV-1 mRNA synthesis []. The minimum Tat sequence that can mediate specific TAR binding in vitro has been mapped to a basic domain of 10 amino acids, comprising mostly Arg and Lys residues. Regulatory activity, however, also requires the 47 N-terminal residues, which interact with components of the transcription complex and function as a transcriptional activation domain [, , ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 2W2H_D 1ZBN_B 1TVS_A 1TVT_A 3O6L_C 3O6M_C 3MI9_C 3MIA_C 1JFW_A 1TBC_A ....
Probab=32.19 E-value=17 Score=31.90 Aligned_cols=17 Identities=35% Similarity=1.415 Sum_probs=14.4
Q ss_pred cccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 394 CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 394 C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
|.++||+.| -|+|.+|=
T Consensus 27 Cn~CyCK~C-----------------cyHCqlCF 43 (68)
T PF00539_consen 27 CNKCYCKKC-----------------CYHCQLCF 43 (68)
T ss_dssp SSSSSSTTS-----------------TSSSSCCC
T ss_pred cCCcccCcc-----------------eeeceeee
Confidence 678899999 58999993
No 486
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=32.15 E-value=80 Score=32.74 Aligned_cols=52 Identities=21% Similarity=0.415 Sum_probs=37.4
Q ss_pred EEEEecCcccchhhcccccCCCCCcceeeeccCCC-----------------------------------------Ceee
Q 001337 352 NVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSS-----------------------------------------DLVS 390 (1097)
Q Consensus 352 ~~~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg-----------------------------------------~l~~ 390 (1097)
-|+-|+-|-..+..+.-. -.....|..|...| -|+-
T Consensus 50 FVLQCr~Cig~~~kKD~~---aP~~~~C~~C~~~G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFR 126 (175)
T PF15446_consen 50 FVLQCRRCIGIAHKKDPR---APHHGMCQQCKKPGPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFR 126 (175)
T ss_pred eEEechhhcChhhcccCC---CCCCCcccccCCCCCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEe
Confidence 477888887776543221 33455788886655 4788
Q ss_pred ccccccchhhhhhhcc
Q 001337 391 CKSCKTLFCTTCVKRN 406 (1097)
Q Consensus 391 Cd~C~~~fc~~Cl~~~ 406 (1097)
|..|-|+||...|.+.
T Consensus 127 C~~C~RawH~~HLP~~ 142 (175)
T PF15446_consen 127 CTSCHRAWHFEHLPPP 142 (175)
T ss_pred cCCccceeehhhCCCC
Confidence 9999999999998765
No 487
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=32.15 E-value=23 Score=45.61 Aligned_cols=82 Identities=15% Similarity=0.102 Sum_probs=48.3
Q ss_pred cccceeeeeehhhHHHHHHHhhhcccCCCccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchh-hhhhhHH
Q 001337 565 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 643 (1097)
Q Consensus 565 ~LrphQ~~gV~~ml~~~~~sl~~~~~~~~~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~s-Lv~qW~~ 643 (1097)
.|-|-|.++|... .+..++--..|.|||.+.+.-+++++.........+|+|+-+. ....-+.
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 4677788777532 2345667779999999999988888765333334677777653 2223333
Q ss_pred hhcccccCCCcccEEEeec
Q 001337 644 EFMKWRPSELKPLRVFMLE 662 (1097)
Q Consensus 644 Ei~k~~p~~~~~l~V~~~~ 662 (1097)
-+.+.++.....+.+..+|
T Consensus 68 Rl~~~~~~~~~~~~i~TFH 86 (726)
T TIGR01073 68 RVEKLLGPVAEDIWISTFH 86 (726)
T ss_pred HHHHHhccccCCcEEEcHH
Confidence 3433333222234444444
No 488
>PRK06904 replicative DNA helicase; Validated
Probab=32.00 E-value=2.1e+02 Score=34.95 Aligned_cols=49 Identities=14% Similarity=0.049 Sum_probs=32.8
Q ss_pred ccchhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecchhhhhhhHHhh
Q 001337 594 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 645 (1097)
Q Consensus 594 ~~GgILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P~sLv~qW~~Ei 645 (1097)
|.=.|||--+|+|||.-++.++...... ...+++++..---..++...+
T Consensus 221 G~LiiIaarPg~GKTafalnia~~~a~~---~g~~Vl~fSlEMs~~ql~~Rl 269 (472)
T PRK06904 221 SDLIIVAARPSMGKTTFAMNLCENAAMA---SEKPVLVFSLEMPAEQIMMRM 269 (472)
T ss_pred CcEEEEEeCCCCChHHHHHHHHHHHHHh---cCCeEEEEeccCCHHHHHHHH
Confidence 4446889999999998777666554322 135889988765555555443
No 489
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=31.88 E-value=59 Score=37.29 Aligned_cols=26 Identities=31% Similarity=0.361 Sum_probs=20.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHH
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTA 618 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~ 618 (1097)
.+.+.||+-+-|+|||...|-+..++
T Consensus 88 ~g~~~~~~gdsg~GKttllL~l~Ial 113 (402)
T COG3598 88 KGYVSILYGDSGVGKTTLLLYLCIAL 113 (402)
T ss_pred cCeeEEEecCCcccHhHHHHHHHHHH
Confidence 57788999999999998766655443
No 490
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=31.69 E-value=1.5e+02 Score=30.69 Aligned_cols=54 Identities=11% Similarity=0.013 Sum_probs=32.0
Q ss_pred cchhhhhhcCCCcchhhHHHHHHHhhhcc------ccceeeEeecchhhhhhhHHhhccc
Q 001337 595 LGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTPVNVLHNWKQEFMKW 648 (1097)
Q Consensus 595 ~GgILADeMGLGKTlqaIali~~~l~~~~------~~~k~~LIV~P~sLv~qW~~Ei~k~ 648 (1097)
.=++++-..|.|||..++.++..+..... ....++|+|..-.-..++.+-+...
T Consensus 33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~ 92 (193)
T PF13481_consen 33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRAL 92 (193)
T ss_dssp SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHH
T ss_pred eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHH
Confidence 34678889999999999888887764211 1235778887655444555444443
No 491
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=31.67 E-value=1.7e+02 Score=35.12 Aligned_cols=54 Identities=11% Similarity=0.143 Sum_probs=31.8
Q ss_pred CCCEEEecccchhcccchhHHHHHhhh-----ccceeeeeccCccccchhhhhhhhhhhh
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFVR 769 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l-----~a~~RllLTGTPiqNnl~El~~Ll~fL~ 769 (1097)
++++|+||.+=+..+ .......+..+ .....++|+||--.+.+.++...+..+.
T Consensus 269 ~~d~VLIDTaGrsqr-d~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~ 327 (420)
T PRK14721 269 GKHMVLIDTVGMSQR-DQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHG 327 (420)
T ss_pred CCCEEEecCCCCCcc-hHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCC
Confidence 678888888633322 12233333333 2245588999987777777766655444
No 492
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=31.49 E-value=84 Score=37.20 Aligned_cols=39 Identities=18% Similarity=0.328 Sum_probs=26.3
Q ss_pred CCCEEEecccchhcccchhHHHHHhhhcc---ceeeeeccCccc
Q 001337 715 GPDILVCDEAHMIKNTRADTTQALKQVKC---QRRIALTGSPLQ 755 (1097)
Q Consensus 715 ~~dlVIiDEAH~iKN~~S~~~kal~~l~a---~~RllLTGTPiq 755 (1097)
.++++++|||..+. .....+++.+++. ..++.+|.||-.
T Consensus 101 ~~~~~~idEa~~~~--~~~~~~l~~rlr~~~~~~~i~~t~NP~~ 142 (396)
T TIGR01547 101 GIAIIWFEEASQLT--FEDIKELIPRLRETGGKKFIIFSSNPES 142 (396)
T ss_pred eeeeehhhhhhhcC--HHHHHHHHHHhhccCCccEEEEEcCcCC
Confidence 46899999999984 2344444445542 235999999954
No 493
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=31.38 E-value=88 Score=35.61 Aligned_cols=30 Identities=7% Similarity=-0.089 Sum_probs=24.1
Q ss_pred CCccchhhhhhcCCCcchhhHHHHHHHhhh
Q 001337 592 DKGLGCILAHTMGLGKTFQVIAFLYTAMRS 621 (1097)
Q Consensus 592 ~~~~GgILADeMGLGKTlqaIali~~~l~~ 621 (1097)
.-....++.-+-|.||+..|.+|+..++..
T Consensus 17 rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~ 46 (290)
T PRK05917 17 KVPSAIILHGQDLSNLSARAYELASLILKE 46 (290)
T ss_pred CcCeeEeeECCCCCcHHHHHHHHHHHHhCC
Confidence 345667788899999999999999887653
No 494
>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=31.38 E-value=52 Score=43.53 Aligned_cols=101 Identities=8% Similarity=-0.015 Sum_probs=68.8
Q ss_pred ccCcceehhhHHHhhhccCCCceeEEecCCCchhHHHHHHhcCCCCCCCCcccccCCceeeccCCccchHHHHHHHhhcc
Q 001337 957 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1036 (1097)
Q Consensus 957 ~~S~Kl~~L~eiL~~~~~~geKVLIFSq~~~~ld~L~~~L~~l~~~~~~~~~~~~Gi~~~ridGsts~~eR~~~i~~Fn~ 1036 (1097)
..|||-.+.+..+-.....|.+++|.+..+..+..+...+.++.. ..++.+..++|.++..++.++++.+..
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 447887655544433444578999999998887777777765321 135677889999998899999998876
Q ss_pred cccceeeEEEeeeccccccceecccceEEEEc
Q 001337 1037 PLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1068 (1097)
Q Consensus 1037 ~~n~~v~VlLiStkagg~GLNL~~An~VIi~D 1068 (1097)
+.+.|++.+.......+.+.....||+=+
T Consensus 553 ---g~~dIVIGTp~ll~~~v~f~~L~llVIDE 581 (926)
T TIGR00580 553 ---GKIDILIGTHKLLQKDVKFKDLGLLIIDE 581 (926)
T ss_pred ---CCceEEEchHHHhhCCCCcccCCEEEeec
Confidence 34555665655555566676666666533
No 495
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.34 E-value=25 Score=38.77 Aligned_cols=46 Identities=24% Similarity=0.628 Sum_probs=34.7
Q ss_pred cceeeeccCCCCeeeccccccchhhhhhhccchhhhhhhhhhcccceeeecChh
Q 001337 376 ECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 429 (1097)
Q Consensus 376 ~~~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~~~ 429 (1097)
+-.|.+|-+.-+...|-.|...||..||... -.....=+|+.|..+
T Consensus 215 d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~--------~t~~k~~~CplCRak 260 (271)
T COG5574 215 DYKCFLCLEEPEVPSCTPCGHLFCLSCLLIS--------WTKKKYEFCPLCRAK 260 (271)
T ss_pred ccceeeeecccCCcccccccchhhHHHHHHH--------HHhhccccCchhhhh
Confidence 3369999999999999999999999998432 112223459999654
No 496
>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=30.82 E-value=83 Score=36.41 Aligned_cols=19 Identities=32% Similarity=0.200 Sum_probs=14.9
Q ss_pred CCCcchhhHHHHHHHhhhc
Q 001337 604 GLGKTFQVIAFLYTAMRSV 622 (1097)
Q Consensus 604 GLGKTlqaIali~~~l~~~ 622 (1097)
|.|||-+|.|+...+...+
T Consensus 12 GVGKTT~aaA~A~~lA~~g 30 (322)
T COG0003 12 GVGKTTIAAATAVKLAESG 30 (322)
T ss_pred cccHHHHHHHHHHHHHHcC
Confidence 7899999988777766553
No 497
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.80 E-value=76 Score=40.10 Aligned_cols=27 Identities=22% Similarity=0.187 Sum_probs=20.2
Q ss_pred CccchhhhhhcCCCcchhhHHHHHHHh
Q 001337 593 KGLGCILAHTMGLGKTFQVIAFLYTAM 619 (1097)
Q Consensus 593 ~~~GgILADeMGLGKTlqaIali~~~l 619 (1097)
.....|+.-+.|.|||..|..++..+.
T Consensus 38 l~hayLf~Gp~G~GKtt~A~~lAk~l~ 64 (614)
T PRK14971 38 LAHAYLFCGPRGVGKTTCARIFAKTIN 64 (614)
T ss_pred CCeeEEEECCCCCCHHHHHHHHHHHhC
Confidence 345578899999999986666665553
No 498
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=30.45 E-value=16 Score=40.36 Aligned_cols=34 Identities=15% Similarity=0.247 Sum_probs=25.1
Q ss_pred ccccchhhhhhhccchhhhhhhhhhcccceeeecC
Q 001337 393 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 427 (1097)
Q Consensus 393 ~C~~~fc~~Cl~~~~~~~~~~~~~~~~~W~C~~C~ 427 (1097)
.|||++|..|--.++|..... -...-.++|+.|.
T Consensus 122 ~CPRv~C~~q~~LPvGlSd~~-g~~~VKlyCP~C~ 155 (251)
T PTZ00396 122 HCPRVLCEGQNVLPIGLSDVL-KTSRVKVYCPRCQ 155 (251)
T ss_pred CCCCccCCCCcccccccCCCc-CcCceeEeCCCch
Confidence 399999999887788766444 2244568999995
No 499
>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=30.43 E-value=3.9e+02 Score=32.31 Aligned_cols=34 Identities=24% Similarity=0.296 Sum_probs=22.5
Q ss_pred hhhhhhcCCCcchhhHHHHHHHhhhccccceeeEeecc
Q 001337 597 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 634 (1097)
Q Consensus 597 gILADeMGLGKTlqaIali~~~l~~~~~~~k~~LIV~P 634 (1097)
.+|+--.|.|||-++.-++..+... + .++++|+-
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 3456789999998887777665433 2 35666653
No 500
>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=29.94 E-value=41 Score=39.99 Aligned_cols=56 Identities=16% Similarity=0.455 Sum_probs=36.6
Q ss_pred eeeeccCCCCeeeccccccchhhhhhhccc--hhhhh--hhh-hhcccceeeecChhhHHHHHHHHhhhc
Q 001337 378 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNI--SEACL--SDE-VQASCWQCCCCSPSLLKRLTSELGRAM 442 (1097)
Q Consensus 378 ~C~~C~~gg~l~~Cd~C~~~fc~~Cl~~~~--~~~~~--~~~-~~~~~W~C~~C~~~~~~~l~~~~~~~~ 442 (1097)
-|.| |-||.|...=|..|--+.- |+|.. ..+ ..+...+|..|+.. ..|+....+++
T Consensus 143 ~~~W-------i~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~--seLlG~vk~vf 203 (446)
T PF07227_consen 143 TCSW-------IGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKT--SELLGFVKKVF 203 (446)
T ss_pred CeeE-------EeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCCh--hhHHHHHHHHH
Confidence 6777 6789999999999977643 33322 211 24668999999854 34445444444
Done!