Query 000464
Match_columns 1479
No_of_seqs 682 out of 2803
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 09:42:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000464.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000464hhsearch_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 8E-204 2E-208 1798.5 58.4 1318 10-1478 70-1514(1567)
2 KOG1016 Predicted DNA helicase 100.0 2E-107 4E-112 956.9 39.0 667 697-1389 228-960 (1387)
3 KOG0387 Transcription-coupled 100.0 2E-102 4E-107 932.1 42.0 498 710-1303 192-702 (923)
4 KOG0385 Chromatin remodeling c 100.0 4.5E-92 9.8E-97 837.7 47.7 483 716-1304 159-648 (971)
5 KOG0392 SNF2 family DNA-depend 100.0 3.2E-86 7E-91 813.1 43.2 522 700-1303 952-1500(1549)
6 KOG0384 Chromodomain-helicase 100.0 4.8E-85 1E-89 808.4 33.3 480 722-1304 369-862 (1373)
7 KOG0389 SNF2 family DNA-depend 100.0 3E-83 6.6E-88 765.6 41.1 510 716-1284 390-913 (941)
8 PLN03142 Probable chromatin-re 100.0 5.4E-82 1.2E-86 811.5 49.8 481 715-1303 161-645 (1033)
9 KOG0390 DNA repair protein, SN 100.0 1.2E-81 2.6E-86 776.0 44.8 516 712-1305 227-754 (776)
10 KOG0391 SNF2 family DNA-depend 100.0 1.2E-81 2.6E-86 761.2 38.1 541 711-1302 603-1431(1958)
11 KOG0388 SNF2 family DNA-depend 100.0 2.1E-78 4.5E-83 709.5 39.4 512 711-1283 555-1178(1185)
12 KOG0386 Chromatin remodeling c 100.0 2.3E-78 5E-83 737.5 30.5 502 703-1298 373-877 (1157)
13 KOG4439 RNA polymerase II tran 100.0 7.6E-71 1.7E-75 651.3 34.3 532 713-1300 315-901 (901)
14 KOG1002 Nucleotide excision re 100.0 8.5E-70 1.8E-74 620.0 33.1 544 712-1299 173-790 (791)
15 COG0553 HepA Superfamily II DN 100.0 9.1E-63 2E-67 645.7 37.6 504 718-1300 333-865 (866)
16 KOG1000 Chromatin remodeling p 100.0 8.9E-54 1.9E-58 490.9 34.1 428 716-1282 191-626 (689)
17 PRK04914 ATP-dependent helicas 100.0 4.1E-52 8.9E-57 534.5 31.2 453 720-1298 149-644 (956)
18 KOG1001 Helicase-like transcri 100.0 3.9E-51 8.5E-56 509.3 22.2 499 728-1282 135-673 (674)
19 KOG0383 Predicted helicase [Ge 100.0 1.3E-50 2.8E-55 497.7 10.4 383 722-1213 294-696 (696)
20 PF00176 SNF2_N: SNF2 family N 100.0 1.7E-39 3.8E-44 374.0 22.5 296 727-1048 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 3.9E-36 8.4E-41 376.2 35.4 354 720-1267 252-615 (732)
22 PRK13766 Hef nuclease; Provisi 100.0 1.6E-30 3.4E-35 338.6 35.9 461 723-1278 15-498 (773)
23 KOG0298 DEAD box-containing he 100.0 7.3E-32 1.6E-36 338.0 16.8 279 752-1050 374-693 (1394)
24 COG1111 MPH1 ERCC4-like helica 99.9 6.4E-25 1.4E-29 257.8 34.6 439 723-1282 15-504 (542)
25 PHA02558 uvsW UvsW helicase; P 99.9 1.7E-24 3.7E-29 268.7 33.3 336 722-1258 113-454 (501)
26 COG1061 SSL2 DNA or RNA helica 99.9 2.6E-24 5.7E-29 262.7 32.6 369 718-1271 31-406 (442)
27 KOG1123 RNA polymerase II tran 99.9 3.3E-23 7.3E-28 239.5 20.0 362 710-1264 289-658 (776)
28 KOG0354 DEAD-box like helicase 99.9 5.7E-20 1.2E-24 227.4 34.3 473 721-1284 60-553 (746)
29 PTZ00110 helicase; Provisional 99.9 1.1E-19 2.4E-24 227.6 30.0 125 1117-1259 360-484 (545)
30 TIGR00614 recQ_fam ATP-depende 99.9 3.9E-19 8.5E-24 219.5 33.7 105 1133-1253 225-329 (470)
31 PRK11776 ATP-dependent RNA hel 99.8 4.1E-19 9E-24 218.9 30.2 320 723-1259 26-349 (460)
32 PRK01297 ATP-dependent RNA hel 99.8 3.6E-19 7.9E-24 220.2 29.6 122 1117-1258 320-441 (475)
33 PRK11192 ATP-dependent RNA hel 99.8 8E-19 1.7E-23 214.7 31.9 117 1118-1252 231-347 (434)
34 PLN00206 DEAD-box ATP-dependen 99.8 2E-19 4.4E-24 224.4 27.1 124 1119-1259 352-475 (518)
35 PRK10590 ATP-dependent RNA hel 99.8 6.7E-19 1.4E-23 216.8 29.5 102 1134-1251 245-346 (456)
36 PRK04837 ATP-dependent RNA hel 99.8 6.1E-19 1.3E-23 215.1 28.2 121 1118-1258 241-361 (423)
37 PRK11448 hsdR type I restricti 99.8 4.6E-19 1E-23 234.5 27.3 115 1134-1256 698-815 (1123)
38 PRK04537 ATP-dependent RNA hel 99.8 1.6E-18 3.5E-23 218.2 29.9 121 1118-1258 243-363 (572)
39 PTZ00424 helicase 45; Provisio 99.8 1.7E-18 3.7E-23 209.3 27.1 108 1134-1259 267-374 (401)
40 TIGR01389 recQ ATP-dependent D 99.8 5.7E-18 1.2E-22 214.9 32.6 116 1119-1252 211-326 (591)
41 PRK11057 ATP-dependent DNA hel 99.8 5.6E-18 1.2E-22 215.0 32.1 103 1133-1251 235-337 (607)
42 TIGR00643 recG ATP-dependent D 99.8 9.3E-18 2E-22 213.9 32.2 312 721-1252 233-561 (630)
43 PRK11634 ATP-dependent RNA hel 99.8 1.9E-17 4.2E-22 209.8 30.4 116 1118-1251 231-346 (629)
44 PRK10917 ATP-dependent DNA hel 99.8 2.5E-17 5.3E-22 211.5 30.8 310 721-1251 259-583 (681)
45 TIGR00580 mfd transcription-re 99.8 2.4E-17 5.3E-22 214.9 30.1 311 723-1258 451-769 (926)
46 TIGR03817 DECH_helic helicase/ 99.8 4.8E-17 1.1E-21 209.9 31.3 348 722-1266 35-393 (742)
47 PLN03137 ATP-dependent DNA hel 99.8 1.4E-16 3E-21 205.4 32.1 105 1134-1254 680-784 (1195)
48 PRK13767 ATP-dependent helicas 99.8 1.6E-16 3.4E-21 208.8 31.5 120 1125-1254 275-395 (876)
49 PRK10689 transcription-repair 99.8 1.6E-16 3.5E-21 211.2 31.3 307 722-1251 599-913 (1147)
50 TIGR00348 hsdR type I site-spe 99.7 3.5E-15 7.6E-20 191.1 32.4 168 720-914 235-405 (667)
51 PRK02362 ski2-like helicase; P 99.7 1E-15 2.3E-20 198.7 27.7 153 722-911 22-181 (737)
52 KOG0331 ATP-dependent RNA heli 99.7 1.5E-15 3.4E-20 183.7 26.1 117 1117-1249 323-440 (519)
53 KOG0330 ATP-dependent RNA heli 99.7 1.4E-15 2.9E-20 174.0 23.4 130 1118-1269 286-415 (476)
54 PRK01172 ski2-like helicase; P 99.7 4E-15 8.8E-20 191.7 27.6 123 1126-1253 228-372 (674)
55 TIGR01587 cas3_core CRISPR-ass 99.7 1.4E-14 3.1E-19 172.9 29.3 123 1119-1259 208-338 (358)
56 COG0513 SrmB Superfamily II DN 99.7 2.6E-14 5.6E-19 178.2 31.1 133 1118-1271 259-391 (513)
57 PRK00254 ski2-like helicase; P 99.7 1.4E-14 3E-19 187.9 29.4 153 722-911 22-179 (720)
58 TIGR03714 secA2 accessory Sec 99.6 5.6E-14 1.2E-18 177.9 29.2 115 1116-1249 406-529 (762)
59 COG4096 HsdR Type I site-speci 99.6 9.9E-15 2.1E-19 180.8 19.1 378 711-1256 153-545 (875)
60 TIGR02621 cas3_GSU0051 CRISPR- 99.6 1.2E-13 2.7E-18 176.3 27.8 118 1132-1267 270-402 (844)
61 cd00079 HELICc Helicase superf 99.6 7.8E-15 1.7E-19 148.2 11.6 120 1118-1253 12-131 (131)
62 COG1200 RecG RecG-like helicas 99.6 5.6E-13 1.2E-17 164.0 27.8 320 720-1252 259-586 (677)
63 PRK09200 preprotein translocas 99.6 1E-12 2.2E-17 168.0 30.5 116 1116-1249 410-533 (790)
64 COG1201 Lhr Lhr-like helicases 99.6 1.5E-13 3.3E-18 174.7 22.7 320 721-1247 20-352 (814)
65 PF04851 ResIII: Type III rest 99.5 2.4E-14 5.2E-19 153.0 11.8 168 722-912 2-183 (184)
66 KOG0350 DEAD-box ATP-dependent 99.5 2.4E-13 5.3E-18 159.6 20.0 136 1119-1272 416-551 (620)
67 PRK12898 secA preprotein trans 99.5 3.6E-12 7.7E-17 160.0 31.3 130 1116-1268 455-592 (656)
68 PHA02653 RNA helicase NPH-II; 99.5 4.9E-12 1.1E-16 160.8 30.7 112 1133-1262 394-517 (675)
69 KOG0345 ATP-dependent RNA heli 99.5 1.1E-12 2.4E-17 153.4 22.6 121 1114-1250 237-357 (567)
70 KOG0328 Predicted ATP-dependen 99.5 1.1E-13 2.3E-18 152.8 13.2 124 1119-1262 253-376 (400)
71 PRK09751 putative ATP-dependen 99.5 1.9E-12 4.2E-17 173.9 27.2 108 1133-1244 243-371 (1490)
72 COG1205 Distinct helicase fami 99.5 1.5E-12 3.2E-17 169.6 25.3 345 724-1266 71-429 (851)
73 TIGR03158 cas3_cyano CRISPR-as 99.5 3.1E-12 6.7E-17 153.2 25.7 87 1133-1242 271-357 (357)
74 TIGR00963 secA preprotein tran 99.5 1.9E-12 4E-17 163.3 24.4 116 1117-1250 388-510 (745)
75 COG4889 Predicted helicase [Ge 99.5 2.8E-12 6.1E-17 156.9 23.6 86 1170-1256 499-585 (1518)
76 PRK05580 primosome assembly pr 99.5 3.1E-11 6.7E-16 155.3 33.4 104 1140-1257 432-549 (679)
77 COG0514 RecQ Superfamily II DN 99.4 1.4E-11 3.1E-16 152.2 27.4 318 722-1266 16-344 (590)
78 KOG0333 U5 snRNP-like RNA heli 99.4 7.5E-12 1.6E-16 147.9 22.9 126 1114-1259 499-624 (673)
79 PRK09401 reverse gyrase; Revie 99.4 1.1E-11 2.4E-16 166.0 27.7 104 1118-1244 315-431 (1176)
80 KOG0342 ATP-dependent RNA heli 99.4 9.9E-12 2.1E-16 146.6 22.6 114 1117-1247 314-427 (543)
81 smart00487 DEXDc DEAD-like hel 99.4 2.2E-12 4.7E-17 137.9 14.5 162 721-913 6-172 (201)
82 TIGR00595 priA primosomal prot 99.4 3.2E-11 7E-16 150.1 26.7 98 1147-1258 271-382 (505)
83 COG1204 Superfamily II helicas 99.4 1.6E-11 3.4E-16 158.2 24.2 153 723-911 31-190 (766)
84 KOG0335 ATP-dependent RNA heli 99.4 1.3E-11 2.7E-16 148.0 21.2 123 1116-1254 312-442 (482)
85 cd00046 DEXDc DEAD-like helica 99.4 4.3E-12 9.3E-17 127.7 13.2 139 754-911 2-144 (144)
86 PF00271 Helicase_C: Helicase 99.4 7.8E-13 1.7E-17 123.2 6.7 73 1169-1245 6-78 (78)
87 KOG0348 ATP-dependent RNA heli 99.4 2.4E-11 5.3E-16 143.8 20.4 140 1117-1262 406-557 (708)
88 KOG0343 RNA Helicase [RNA proc 99.4 2.1E-10 4.6E-15 136.3 27.6 139 1115-1272 296-434 (758)
89 KOG0340 ATP-dependent RNA heli 99.3 1.4E-10 3E-15 132.3 23.4 115 1117-1247 236-351 (442)
90 KOG4284 DEAD box protein [Tran 99.3 1.1E-11 2.4E-16 148.6 14.4 111 1119-1247 259-369 (980)
91 TIGR01970 DEAH_box_HrpB ATP-de 99.3 1.5E-10 3.2E-15 150.7 26.1 111 1134-1260 209-337 (819)
92 COG1197 Mfd Transcription-repa 99.3 6.2E-10 1.3E-14 144.1 31.3 314 723-1258 594-912 (1139)
93 KOG0336 ATP-dependent RNA heli 99.3 4.7E-11 1E-15 137.3 18.5 115 1117-1248 449-563 (629)
94 PRK09694 helicase Cas3; Provis 99.3 3.8E-10 8.3E-15 147.0 29.0 111 1125-1247 551-665 (878)
95 TIGR01054 rgy reverse gyrase. 99.3 1.9E-10 4E-15 154.6 26.6 87 1121-1229 316-409 (1171)
96 KOG0344 ATP-dependent RNA heli 99.3 1E-10 2.2E-15 141.1 18.5 119 1117-1252 372-491 (593)
97 KOG0338 ATP-dependent RNA heli 99.3 3.1E-10 6.6E-15 134.0 21.7 124 1122-1268 416-540 (691)
98 KOG0347 RNA helicase [RNA proc 99.3 1.4E-10 3E-15 137.9 18.6 97 1134-1246 463-559 (731)
99 PRK12906 secA preprotein trans 99.2 1E-09 2.3E-14 140.0 26.7 116 1117-1250 423-546 (796)
100 smart00490 HELICc helicase sup 99.2 2.2E-11 4.7E-16 112.9 8.0 73 1169-1245 10-82 (82)
101 PRK11664 ATP-dependent RNA hel 99.2 7.4E-10 1.6E-14 144.4 25.0 112 1134-1261 212-341 (812)
102 KOG0332 ATP-dependent RNA heli 99.2 6.2E-10 1.3E-14 127.7 21.0 125 1118-1262 316-447 (477)
103 COG1202 Superfamily II helicas 99.2 3.7E-10 8E-15 134.8 19.4 108 1135-1259 441-553 (830)
104 PRK13104 secA preprotein trans 99.2 2.7E-09 5.8E-14 137.0 28.5 120 1116-1253 426-583 (896)
105 PRK14701 reverse gyrase; Provi 99.2 3.6E-09 7.9E-14 145.2 31.2 103 1121-1247 320-446 (1638)
106 TIGR00631 uvrb excinuclease AB 99.2 4E-09 8.7E-14 134.8 29.5 134 1116-1268 424-564 (655)
107 KOG0339 ATP-dependent RNA heli 99.2 3.8E-09 8.3E-14 124.7 23.4 126 1118-1262 453-578 (731)
108 PRK12904 preprotein translocas 99.1 9.3E-09 2E-13 131.9 27.0 119 1117-1253 413-569 (830)
109 KOG0326 ATP-dependent RNA heli 99.1 2.8E-10 6.1E-15 127.9 10.8 121 1117-1257 307-427 (459)
110 PRK13107 preprotein translocas 99.1 6.2E-08 1.3E-12 124.3 31.1 116 1116-1249 431-583 (908)
111 PRK05298 excinuclease ABC subu 99.0 5.8E-08 1.3E-12 124.9 30.0 125 1116-1259 428-557 (652)
112 PRK12900 secA preprotein trans 99.0 1.1E-07 2.3E-12 122.7 31.5 115 1117-1249 581-703 (1025)
113 cd00268 DEADc DEAD-box helicas 99.0 3.8E-09 8.2E-14 116.0 15.8 160 723-912 21-185 (203)
114 PF00270 DEAD: DEAD/DEAH box h 99.0 4.3E-09 9.3E-14 111.5 14.5 161 726-918 2-168 (169)
115 PF11496 HDA2-3: Class II hist 99.0 5.8E-09 1.3E-13 121.4 16.7 219 992-1270 4-256 (297)
116 TIGR01967 DEAH_box_HrpA ATP-de 99.0 3.5E-08 7.5E-13 132.0 25.9 111 1134-1262 279-407 (1283)
117 KOG0952 DNA/RNA helicase MER3/ 99.0 8.7E-08 1.9E-12 121.6 27.2 161 749-930 123-299 (1230)
118 COG4098 comFA Superfamily II D 99.0 2.2E-07 4.7E-12 106.4 27.6 125 1122-1262 293-419 (441)
119 KOG0334 RNA helicase [RNA proc 99.0 2.3E-08 4.9E-13 127.9 21.5 123 1117-1258 597-719 (997)
120 COG1203 CRISPR-associated heli 98.9 1.2E-07 2.7E-12 123.4 24.5 133 1127-1276 433-569 (733)
121 PF13872 AAA_34: P-loop contai 98.9 2.9E-08 6.2E-13 114.2 16.3 258 713-1011 25-303 (303)
122 KOG0346 RNA helicase [RNA proc 98.9 4.4E-08 9.5E-13 114.7 17.5 123 1117-1258 252-409 (569)
123 PRK11131 ATP-dependent RNA hel 98.9 1.6E-07 3.5E-12 125.4 24.7 111 1133-1261 285-413 (1294)
124 PRK12899 secA preprotein trans 98.8 1.1E-06 2.3E-11 113.5 29.1 116 1117-1251 551-675 (970)
125 KOG0351 ATP-dependent DNA heli 98.8 1.4E-07 3.1E-12 123.3 20.7 108 1133-1256 484-591 (941)
126 KOG0327 Translation initiation 98.7 1.9E-07 4.2E-12 108.6 16.7 119 1119-1259 252-370 (397)
127 KOG0337 ATP-dependent RNA heli 98.7 2.3E-07 4.9E-12 108.5 17.0 124 1117-1259 245-368 (529)
128 PRK12326 preprotein translocas 98.7 9.4E-06 2E-10 102.7 32.4 118 1117-1252 410-542 (764)
129 COG0556 UvrB Helicase subunit 98.6 2E-05 4.4E-10 95.1 28.5 137 1118-1271 430-571 (663)
130 PRK13103 secA preprotein trans 98.6 2.4E-05 5.2E-10 101.3 30.6 118 1116-1251 431-585 (913)
131 KOG0951 RNA helicase BRR2, DEA 98.6 3.5E-06 7.6E-11 108.7 22.4 151 752-921 325-492 (1674)
132 KOG0341 DEAD-box protein abstr 98.6 1.4E-07 3E-12 108.6 8.4 130 1117-1267 407-536 (610)
133 TIGR01407 dinG_rel DnaQ family 98.5 1.9E-05 4.1E-10 105.2 29.3 93 1122-1229 661-756 (850)
134 PRK12903 secA preprotein trans 98.5 1.5E-05 3.3E-10 102.1 23.5 119 1116-1252 408-534 (925)
135 KOG0352 ATP-dependent DNA heli 98.4 2E-05 4.3E-10 92.5 22.2 102 1137-1254 258-359 (641)
136 KOG1513 Nuclear helicase MOP-3 98.4 1.7E-05 3.7E-10 98.3 21.4 269 714-1013 255-539 (1300)
137 TIGR00596 rad1 DNA repair prot 98.4 5.1E-06 1.1E-10 108.2 17.9 60 1220-1282 478-538 (814)
138 COG0610 Type I site-specific r 98.4 2.6E-06 5.7E-11 113.5 15.5 172 723-915 244-417 (962)
139 KOG0353 ATP-dependent DNA heli 98.2 0.00012 2.6E-09 84.6 20.4 107 1134-1256 317-466 (695)
140 TIGR00604 rad3 DNA repair heli 98.2 0.00053 1.2E-08 89.9 28.8 72 723-805 10-82 (705)
141 PRK15483 type III restriction- 98.1 3.7E-05 7.9E-10 100.6 15.9 185 753-947 60-278 (986)
142 COG4581 Superfamily II RNA hel 98.1 0.00017 3.8E-09 94.8 21.1 162 720-942 116-281 (1041)
143 COG1198 PriA Primosomal protei 98.0 0.00068 1.5E-08 87.4 25.7 110 1134-1259 482-605 (730)
144 KOG4299 PHD Zn-finger protein 98.0 1.3E-06 2.9E-11 106.8 1.3 49 535-587 254-305 (613)
145 COG1110 Reverse gyrase [DNA re 98.0 0.0061 1.3E-07 79.2 31.8 115 752-885 97-215 (1187)
146 CHL00122 secA preprotein trans 97.9 0.0032 6.9E-08 81.9 29.0 83 1117-1216 407-490 (870)
147 KOG0947 Cytoplasmic exosomal R 97.9 0.00064 1.4E-08 86.8 21.3 145 722-911 296-444 (1248)
148 PRK12901 secA preprotein trans 97.9 0.0022 4.7E-08 84.1 26.5 114 1117-1249 611-733 (1112)
149 KOG0329 ATP-dependent RNA heli 97.9 0.00017 3.7E-09 80.1 14.3 44 1204-1247 302-345 (387)
150 PF13871 Helicase_C_4: Helicas 97.8 4.3E-05 9.3E-10 88.1 8.7 93 1187-1283 52-152 (278)
151 KOG0349 Putative DEAD-box RNA 97.8 5.2E-05 1.1E-09 88.9 8.8 98 1134-1244 505-602 (725)
152 PRK07246 bifunctional ATP-depe 97.8 0.0028 6E-08 84.2 25.5 91 1122-1231 635-728 (820)
153 PRK12902 secA preprotein trans 97.8 0.001 2.2E-08 86.2 20.5 83 1117-1216 422-505 (939)
154 KOG0948 Nuclear exosomal RNA h 97.7 0.00027 5.9E-09 88.0 13.4 146 721-911 127-276 (1041)
155 COG0653 SecA Preprotein transl 97.7 0.008 1.7E-07 78.0 26.1 112 1117-1246 412-534 (822)
156 KOG0949 Predicted helicase, DE 97.7 0.0021 4.6E-08 82.4 20.2 157 750-924 524-682 (1330)
157 PF07652 Flavi_DEAD: Flaviviru 97.6 0.00029 6.2E-09 73.7 9.2 130 752-912 4-137 (148)
158 PF00628 PHD: PHD-finger; Int 97.5 2.1E-05 4.6E-10 67.8 -0.2 47 536-586 1-50 (51)
159 KOG0926 DEAH-box RNA helicase 97.5 0.001 2.2E-08 83.6 13.9 65 1190-1258 621-703 (1172)
160 KOG0922 DEAH-box RNA helicase 97.4 0.021 4.5E-07 71.9 23.9 118 1136-1261 260-392 (674)
161 KOG0950 DNA polymerase theta/e 97.4 0.013 2.8E-07 75.9 22.1 68 1174-1246 526-598 (1008)
162 COG1643 HrpA HrpA-like helicas 97.3 0.016 3.5E-07 76.2 22.9 113 1135-1262 260-390 (845)
163 KOG0920 ATP-dependent RNA heli 97.3 0.019 4.2E-07 75.4 22.9 129 1119-1259 396-544 (924)
164 PF02399 Herpes_ori_bp: Origin 97.3 0.014 3.1E-07 75.4 21.0 108 1123-1253 271-384 (824)
165 KOG1244 Predicted transcriptio 97.2 0.00011 2.4E-09 81.7 0.6 44 536-585 283-329 (336)
166 PF13086 AAA_11: AAA domain; P 97.1 0.013 2.8E-07 65.0 16.8 69 723-805 1-75 (236)
167 smart00489 DEXDc3 DEAD-like he 97.1 0.0057 1.2E-07 71.9 14.0 73 724-806 9-84 (289)
168 smart00488 DEXDc2 DEAD-like he 97.1 0.0057 1.2E-07 71.9 14.0 73 724-806 9-84 (289)
169 smart00249 PHD PHD zinc finger 97.1 0.00038 8.2E-09 58.0 3.0 44 536-584 1-47 (47)
170 KOG0953 Mitochondrial RNA heli 97.1 0.002 4.3E-08 78.7 9.8 102 1132-1249 356-466 (700)
171 TIGR03117 cas_csf4 CRISPR-asso 97.0 0.0074 1.6E-07 77.5 14.4 95 1133-1244 469-573 (636)
172 PRK10536 hypothetical protein; 96.8 0.0025 5.5E-08 73.0 7.0 151 724-915 60-216 (262)
173 KOG1473 Nucleosome remodeling 96.7 0.00055 1.2E-08 88.1 1.6 51 529-585 339-389 (1414)
174 PF02562 PhoH: PhoH-like prote 96.7 0.0014 3.1E-08 72.9 4.2 151 724-916 5-160 (205)
175 TIGR02562 cas3_yersinia CRISPR 96.6 0.71 1.5E-05 61.9 27.9 48 1199-1249 837-884 (1110)
176 KOG0924 mRNA splicing factor A 96.2 0.18 3.8E-06 63.5 18.3 107 1170-1280 597-721 (1042)
177 KOG1803 DNA helicase [Replicat 96.0 0.047 1E-06 68.1 12.4 69 718-803 180-249 (649)
178 PF12340 DUF3638: Protein of u 95.9 0.04 8.7E-07 62.3 10.1 151 722-888 22-187 (229)
179 PF13401 AAA_22: AAA domain; P 95.9 0.034 7.5E-07 56.5 8.8 116 752-911 4-125 (131)
180 KOG4323 Polycomb-like PHD Zn-f 95.7 0.0072 1.6E-07 73.7 3.6 101 486-588 96-225 (464)
181 COG3587 Restriction endonuclea 95.7 0.068 1.5E-06 68.8 12.1 180 751-946 73-268 (985)
182 KOG0923 mRNA splicing factor A 95.5 0.25 5.5E-06 62.1 15.6 82 1170-1260 506-607 (902)
183 PF07517 SecA_DEAD: SecA DEAD- 95.5 0.15 3.4E-06 59.2 13.2 163 721-920 75-266 (266)
184 PF13604 AAA_30: AAA domain; P 95.5 0.13 2.9E-06 57.1 12.1 59 723-797 1-59 (196)
185 PRK08074 bifunctional ATP-depe 95.3 0.19 4.1E-06 68.3 14.9 104 1121-1238 738-846 (928)
186 KOG1802 RNA helicase nonsense 95.0 0.29 6.2E-06 61.6 13.9 68 722-806 409-477 (935)
187 PRK14873 primosome assembly pr 95.0 0.17 3.8E-06 65.9 12.8 124 761-912 169-304 (665)
188 PF13307 Helicase_C_2: Helicas 95.0 0.071 1.5E-06 57.6 7.9 83 1131-1229 6-92 (167)
189 TIGR00376 DNA helicase, putati 94.7 0.47 1E-05 61.8 15.6 67 722-805 156-223 (637)
190 COG0553 HepA Superfamily II DN 94.5 0.06 1.3E-06 72.1 7.1 74 720-807 81-156 (866)
191 KOG4150 Predicted ATP-dependen 94.4 0.07 1.5E-06 65.4 6.5 125 1115-1247 506-630 (1034)
192 KOG1973 Chromatin remodeling p 94.3 0.017 3.7E-07 67.4 1.2 43 536-587 223-268 (274)
193 COG1199 DinG Rad3-related DNA 94.1 0.46 1E-05 62.2 13.9 116 1132-1268 477-625 (654)
194 KOG1512 PHD Zn-finger protein 94.0 0.02 4.4E-07 64.5 1.0 43 536-586 316-363 (381)
195 PF09848 DUF2075: Uncharacteri 93.8 0.3 6.6E-06 59.0 10.7 46 755-802 4-49 (352)
196 KOG1131 RNA polymerase II tran 93.7 0.87 1.9E-05 56.2 13.9 61 722-793 15-75 (755)
197 TIGR01448 recD_rel helicase, p 93.7 0.41 8.9E-06 63.3 12.4 135 721-914 321-455 (720)
198 PRK04296 thymidine kinase; Pro 93.4 0.24 5.2E-06 54.7 8.1 34 755-792 5-38 (190)
199 PRK08074 bifunctional ATP-depe 93.2 0.4 8.7E-06 65.2 11.4 83 723-821 257-344 (928)
200 PRK10875 recD exonuclease V su 93.2 0.6 1.3E-05 60.5 12.3 146 725-913 154-303 (615)
201 KOG1805 DNA replication helica 93.0 1.1 2.4E-05 59.0 14.0 157 715-913 657-831 (1100)
202 TIGR01447 recD exodeoxyribonuc 92.8 0.66 1.4E-05 59.9 11.8 148 726-913 148-297 (586)
203 PRK12723 flagellar biosynthesi 92.6 2.3 5E-05 52.3 15.5 76 872-947 253-344 (388)
204 PRK11747 dinG ATP-dependent DN 92.2 0.77 1.7E-05 60.6 11.6 97 1120-1231 520-619 (697)
205 TIGR02881 spore_V_K stage V sp 92.1 1.4 3.1E-05 50.9 12.6 27 752-778 42-68 (261)
206 cd00009 AAA The AAA+ (ATPases 92.0 1.7 3.6E-05 43.8 11.5 26 751-776 18-43 (151)
207 KOG0825 PHD Zn-finger protein 92.0 0.095 2.1E-06 66.2 2.7 48 535-588 216-267 (1134)
208 KOG1473 Nucleosome remodeling 91.0 0.084 1.8E-06 69.1 0.9 58 536-597 430-492 (1414)
209 smart00382 AAA ATPases associa 90.8 1 2.2E-05 44.8 8.4 44 752-799 2-45 (148)
210 COG1875 NYN ribonuclease and A 90.6 0.63 1.4E-05 55.7 7.5 37 875-913 353-389 (436)
211 PRK08116 hypothetical protein; 90.0 8.4 0.00018 45.1 16.2 46 752-801 114-159 (268)
212 TIGR02880 cbbX_cfxQ probable R 89.8 1.8 3.8E-05 51.0 10.5 41 751-791 57-97 (284)
213 KOG1132 Helicase of the DEAD s 89.7 1.4 3E-05 57.7 10.0 94 1134-1235 561-662 (945)
214 KOG4299 PHD Zn-finger protein 89.3 0.16 3.6E-06 63.6 1.5 45 535-584 48-92 (613)
215 CHL00181 cbbX CbbX; Provisiona 89.2 2.7 5.9E-05 49.6 11.4 46 751-796 58-103 (287)
216 PRK06526 transposase; Provisio 88.9 2.1 4.5E-05 49.7 10.0 29 751-779 97-125 (254)
217 TIGR03420 DnaA_homol_Hda DnaA 88.4 3.1 6.8E-05 46.5 10.8 27 751-777 37-63 (226)
218 cd01124 KaiC KaiC is a circadi 86.8 5.4 0.00012 43.1 11.2 48 755-806 2-49 (187)
219 PF05876 Terminase_GpA: Phage 85.8 1.3 2.9E-05 56.9 6.7 173 716-922 9-190 (557)
220 KOG4443 Putative transcription 85.7 0.4 8.6E-06 60.4 1.8 43 536-584 70-115 (694)
221 PF13245 AAA_19: Part of AAA d 85.5 2.5 5.4E-05 39.9 6.7 46 754-799 12-57 (76)
222 KOG0925 mRNA splicing factor A 85.4 1.1 2.5E-05 54.8 5.3 34 1230-1263 358-391 (699)
223 COG5034 TNG2 Chromatin remodel 85.3 0.39 8.4E-06 54.4 1.3 46 531-585 218-268 (271)
224 TIGR03015 pepcterm_ATPase puta 85.1 13 0.00028 42.7 13.9 22 754-775 45-66 (269)
225 PTZ00112 origin recognition co 84.9 10 0.00022 50.7 13.7 46 725-777 760-806 (1164)
226 KOG0957 PHD finger protein [Ge 84.7 0.54 1.2E-05 57.1 2.2 50 536-587 546-598 (707)
227 PHA02533 17 large terminase pr 84.6 13 0.00027 47.9 14.4 55 722-792 58-112 (534)
228 PRK07952 DNA replication prote 84.5 9 0.00019 44.3 11.9 43 753-803 100-142 (244)
229 PF10497 zf-4CXXC_R1: Zinc-fin 84.0 0.61 1.3E-05 46.9 1.9 48 538-586 22-69 (105)
230 smart00491 HELICc2 helicase su 83.8 4 8.6E-05 43.2 8.1 57 1174-1232 23-84 (142)
231 TIGR02928 orc1/cdc6 family rep 83.7 21 0.00046 43.1 15.4 56 714-778 11-66 (365)
232 PRK11889 flhF flagellar biosyn 83.2 37 0.0008 42.2 16.7 75 873-947 320-409 (436)
233 PRK05703 flhF flagellar biosyn 83.1 16 0.00036 45.6 14.2 56 873-929 299-360 (424)
234 PF06745 KaiC: KaiC; InterPro 82.5 17 0.00037 41.0 13.0 52 751-806 18-70 (226)
235 PRK07003 DNA polymerase III su 82.4 12 0.00026 49.6 12.9 27 752-778 38-64 (830)
236 PLN03025 replication factor C 82.4 9.1 0.0002 45.8 11.4 26 752-777 34-59 (319)
237 smart00492 HELICc3 helicase su 82.2 6 0.00013 41.8 8.6 55 1174-1232 26-83 (141)
238 PRK14956 DNA polymerase III su 82.0 7.2 0.00016 49.2 10.5 25 753-777 41-65 (484)
239 PRK12402 replication factor C 81.9 7.1 0.00015 46.5 10.2 24 754-777 38-61 (337)
240 KOG1245 Chromatin remodeling c 81.4 0.59 1.3E-05 65.2 1.0 53 530-588 1104-1159(1404)
241 PRK05707 DNA polymerase III su 81.4 5.6 0.00012 47.9 9.1 46 724-779 4-49 (328)
242 KOG0951 RNA helicase BRR2, DEA 81.3 5.5 0.00012 54.1 9.3 107 750-888 1157-1268(1674)
243 TIGR02768 TraA_Ti Ti-type conj 81.2 8.5 0.00019 51.4 11.5 60 722-798 351-410 (744)
244 PRK08769 DNA polymerase III su 80.7 8.2 0.00018 46.4 10.1 52 721-779 2-53 (319)
245 PRK14087 dnaA chromosomal repl 80.4 14 0.0003 46.5 12.4 48 752-801 141-188 (450)
246 PRK07994 DNA polymerase III su 80.3 16 0.00034 48.0 13.1 26 753-778 39-64 (647)
247 KOG0341 DEAD-box protein abstr 80.2 0.75 1.6E-05 54.7 1.1 145 752-911 207-367 (610)
248 COG5432 RAD18 RING-finger-cont 79.9 0.56 1.2E-05 53.6 0.0 48 531-589 23-70 (391)
249 COG3421 Uncharacterized protei 79.9 1.4 3.1E-05 55.3 3.3 41 759-802 4-45 (812)
250 PF06862 DUF1253: Protein of u 79.9 21 0.00046 44.6 13.4 113 1118-1245 281-397 (442)
251 KOG1081 Transcription factor N 79.8 0.85 1.8E-05 57.2 1.5 60 531-590 86-163 (463)
252 PRK08084 DNA replication initi 79.7 14 0.0003 42.3 11.2 26 752-777 45-70 (235)
253 PRK14974 cell division protein 79.7 16 0.00036 44.2 12.2 46 753-802 141-190 (336)
254 PRK07764 DNA polymerase III su 79.7 10 0.00022 51.1 11.4 27 752-778 37-63 (824)
255 PRK09112 DNA polymerase III su 79.6 10 0.00022 46.2 10.5 27 752-778 45-71 (351)
256 cd04718 BAH_plant_2 BAH, or Br 79.3 0.88 1.9E-05 48.2 1.2 27 555-587 1-27 (148)
257 PRK00149 dnaA chromosomal repl 79.3 11 0.00025 47.2 11.2 27 753-779 149-175 (450)
258 PRK08727 hypothetical protein; 79.0 18 0.00038 41.4 11.7 26 753-778 42-67 (233)
259 TIGR01837 PHA_granule_1 poly(h 78.8 10 0.00022 39.1 8.6 87 49-135 19-114 (118)
260 KOG3612 PHD Zn-finger protein 78.1 0.79 1.7E-05 56.7 0.5 61 530-595 56-116 (588)
261 PRK08181 transposase; Validate 78.1 19 0.00041 42.3 11.8 29 751-779 105-133 (269)
262 PRK07471 DNA polymerase III su 78.0 23 0.00049 43.5 12.8 30 751-780 40-69 (365)
263 PF05970 PIF1: PIF1-like helic 77.9 8 0.00017 47.2 9.1 62 724-797 2-63 (364)
264 PRK14952 DNA polymerase III su 77.9 14 0.00031 47.9 11.6 26 753-778 36-61 (584)
265 PHA02544 44 clamp loader, smal 77.8 21 0.00045 42.3 12.3 40 873-912 100-141 (316)
266 PF00265 TK: Thymidine kinase; 77.6 9.1 0.0002 42.1 8.4 34 756-793 5-38 (176)
267 COG1199 DinG Rad3-related DNA 77.4 6.9 0.00015 51.4 8.9 72 721-805 13-85 (654)
268 TIGR00362 DnaA chromosomal rep 77.3 14 0.0003 45.7 11.0 28 752-779 136-163 (405)
269 PRK14949 DNA polymerase III su 77.1 16 0.00036 49.1 11.9 25 754-778 40-64 (944)
270 PRK14960 DNA polymerase III su 76.8 17 0.00036 47.6 11.6 26 752-777 37-62 (702)
271 KOG0954 PHD finger protein [Ge 76.8 1.3 2.8E-05 56.5 1.8 45 533-585 270-319 (893)
272 PRK09111 DNA polymerase III su 76.8 11 0.00025 48.9 10.3 29 751-779 45-73 (598)
273 PF13177 DNA_pol3_delta2: DNA 76.8 32 0.00069 37.1 12.3 30 751-780 18-47 (162)
274 PRK12323 DNA polymerase III su 76.7 26 0.00055 46.0 13.1 27 752-778 38-64 (700)
275 KOG0989 Replication factor C, 76.2 8.6 0.00019 45.5 8.0 43 727-777 40-82 (346)
276 PF00580 UvrD-helicase: UvrD/R 76.1 5.4 0.00012 46.5 6.7 44 753-796 14-57 (315)
277 PF06733 DEAD_2: DEAD_2; Inte 75.7 2.3 5E-05 46.1 3.2 42 835-886 117-158 (174)
278 KOG0955 PHD finger protein BR1 75.7 2.2 4.7E-05 57.8 3.5 48 533-588 218-270 (1051)
279 PRK05986 cob(I)alamin adenolsy 75.2 19 0.00041 40.2 10.1 58 870-927 112-173 (191)
280 PRK07993 DNA polymerase III su 75.1 7.4 0.00016 47.1 7.6 50 723-779 2-51 (334)
281 cd00561 CobA_CobO_BtuR ATP:cor 75.1 26 0.00056 38.0 10.9 56 871-926 93-152 (159)
282 PRK06835 DNA replication prote 74.9 57 0.0012 39.5 14.9 28 752-779 183-210 (329)
283 cd01120 RecA-like_NTPases RecA 74.8 33 0.00071 35.4 11.6 33 756-792 3-35 (165)
284 PF00448 SRP54: SRP54-type pro 74.7 14 0.0003 41.3 9.1 59 871-929 81-143 (196)
285 COG0464 SpoVK ATPases of the A 73.7 21 0.00046 45.3 11.6 75 722-805 248-322 (494)
286 KOG2807 RNA polymerase II tran 73.6 1.8 3.8E-05 50.7 1.7 88 484-588 270-377 (378)
287 PRK13889 conjugal transfer rel 72.9 27 0.00057 48.1 12.6 131 723-918 346-477 (988)
288 PRK14961 DNA polymerase III su 72.8 25 0.00055 42.9 11.5 25 753-777 39-63 (363)
289 cd01122 GP4d_helicase GP4d_hel 72.7 45 0.00097 38.6 13.1 39 751-792 29-67 (271)
290 KOG0956 PHD finger protein AF1 72.5 1.8 3.8E-05 54.8 1.5 54 531-586 114-179 (900)
291 PRK14088 dnaA chromosomal repl 72.4 23 0.0005 44.5 11.3 26 753-778 131-156 (440)
292 PRK11054 helD DNA helicase IV; 72.4 10 0.00022 50.1 8.5 82 722-821 195-277 (684)
293 PRK14958 DNA polymerase III su 72.4 30 0.00065 44.4 12.3 27 752-778 38-64 (509)
294 TIGR00595 priA primosomal prot 72.3 19 0.00042 46.0 10.7 97 1114-1226 5-101 (505)
295 PRK14964 DNA polymerase III su 71.9 31 0.00068 43.9 12.2 28 751-778 34-61 (491)
296 PRK06871 DNA polymerase III su 71.8 31 0.00066 41.7 11.6 49 724-779 3-51 (325)
297 cd01121 Sms Sms (bacterial rad 71.7 36 0.00077 41.9 12.3 46 752-801 82-127 (372)
298 COG1484 DnaC DNA replication p 71.6 14 0.00031 42.8 8.6 50 751-804 104-153 (254)
299 PRK12422 chromosomal replicati 71.3 24 0.00052 44.4 11.0 26 753-778 142-167 (445)
300 PF05621 TniB: Bacterial TniB 71.0 40 0.00087 40.2 12.0 39 873-911 145-189 (302)
301 PRK14722 flhF flagellar biosyn 70.8 49 0.0011 40.8 13.1 27 751-777 136-162 (374)
302 PRK12377 putative replication 70.8 50 0.0011 38.3 12.7 43 752-798 101-143 (248)
303 PRK06921 hypothetical protein; 70.7 37 0.0008 39.8 11.7 29 751-779 116-144 (266)
304 PRK14962 DNA polymerase III su 69.6 29 0.00063 44.0 11.3 26 752-777 36-61 (472)
305 PHA03372 DNA packaging termina 69.4 13 0.00028 47.8 7.9 47 761-809 211-262 (668)
306 PRK14969 DNA polymerase III su 69.3 32 0.00069 44.3 11.7 26 752-777 38-63 (527)
307 PRK00411 cdc6 cell division co 68.7 72 0.0016 39.0 14.3 29 750-778 53-81 (394)
308 PRK06645 DNA polymerase III su 68.6 41 0.00088 43.1 12.3 28 751-778 42-69 (507)
309 COG0552 FtsY Signal recognitio 68.5 57 0.0012 39.4 12.5 128 752-918 139-276 (340)
310 PRK05580 primosome assembly pr 68.4 31 0.00067 45.8 11.6 97 1114-1226 170-266 (679)
311 PRK14959 DNA polymerase III su 68.1 23 0.0005 46.2 10.1 27 752-778 38-64 (624)
312 PRK06893 DNA replication initi 67.2 39 0.00084 38.5 10.8 25 754-778 41-65 (229)
313 PF14835 zf-RING_6: zf-RING of 67.2 3.4 7.5E-05 37.8 1.8 38 537-586 10-48 (65)
314 PHA03368 DNA packaging termina 67.0 21 0.00045 46.6 9.1 53 755-809 257-314 (738)
315 PRK08451 DNA polymerase III su 66.6 20 0.00044 46.0 9.0 26 753-778 37-62 (535)
316 PF01695 IstB_IS21: IstB-like 66.0 11 0.00024 41.3 5.8 42 750-795 45-86 (178)
317 KOG0957 PHD finger protein [Ge 65.9 7.9 0.00017 47.6 4.9 46 511-556 136-192 (707)
318 PRK09183 transposase/IS protei 65.8 39 0.00084 39.4 10.5 27 751-777 101-127 (259)
319 COG5141 PHD zinc finger-contai 65.7 3.4 7.4E-05 50.5 1.9 83 480-562 200-334 (669)
320 TIGR03346 chaperone_ClpB ATP-d 65.6 39 0.00085 46.0 12.0 26 751-776 193-218 (852)
321 PRK05642 DNA replication initi 65.5 33 0.00072 39.2 9.8 38 873-910 97-138 (234)
322 PRK10917 ATP-dependent DNA hel 65.4 25 0.00054 46.6 10.0 101 1114-1225 290-390 (681)
323 PRK14957 DNA polymerase III su 65.1 44 0.00096 43.1 11.7 26 753-778 39-64 (546)
324 PLN03208 E3 ubiquitin-protein 64.5 3.1 6.6E-05 46.1 1.1 56 532-587 16-77 (193)
325 TIGR01075 uvrD DNA helicase II 64.2 17 0.00038 48.3 8.3 70 723-808 4-74 (715)
326 TIGR03117 cas_csf4 CRISPR-asso 63.9 40 0.00086 44.3 11.1 68 728-807 2-70 (636)
327 PF13173 AAA_14: AAA domain 63.7 14 0.00031 37.8 5.9 37 873-913 61-100 (128)
328 PRK08691 DNA polymerase III su 63.6 1E+02 0.0022 41.0 14.5 27 751-777 37-63 (709)
329 PRK14086 dnaA chromosomal repl 63.3 47 0.001 43.4 11.4 26 753-778 315-340 (617)
330 COG5141 PHD zinc finger-contai 63.3 3 6.6E-05 50.9 0.9 50 531-588 190-244 (669)
331 PRK07940 DNA polymerase III su 62.7 17 0.00037 45.0 7.2 27 752-778 36-62 (394)
332 TIGR03877 thermo_KaiC_1 KaiC d 62.7 66 0.0014 36.8 11.6 38 751-792 20-57 (237)
333 PF13832 zf-HC5HC2H_2: PHD-zin 62.7 5.9 0.00013 39.8 2.7 32 533-564 54-88 (110)
334 KOG0956 PHD finger protein AF1 62.6 3.4 7.4E-05 52.4 1.2 43 537-587 8-57 (900)
335 KOG0298 DEAD box-containing he 62.4 3.7 7.9E-05 55.8 1.5 121 1134-1274 1221-1341(1394)
336 PRK13709 conjugal transfer nic 62.2 58 0.0012 47.5 12.9 69 717-797 961-1029(1747)
337 TIGR00708 cobA cob(I)alamin ad 62.1 57 0.0012 35.9 10.3 56 871-926 95-154 (173)
338 PRK13342 recombination factor 61.9 31 0.00068 42.9 9.4 24 751-774 35-58 (413)
339 TIGR01242 26Sp45 26S proteasom 61.9 28 0.0006 42.5 8.8 25 751-775 155-179 (364)
340 PRK00440 rfc replication facto 61.8 87 0.0019 36.9 12.8 24 753-776 39-62 (319)
341 KOG1701 Focal adhesion adaptor 61.5 2.7 5.9E-05 50.9 0.1 28 505-534 356-383 (468)
342 PRK06090 DNA polymerase III su 61.0 62 0.0014 39.0 11.3 50 723-779 3-52 (319)
343 PF00004 AAA: ATPase family as 60.8 31 0.00068 34.5 7.7 21 756-776 2-22 (132)
344 PRK10865 protein disaggregatio 60.7 47 0.001 45.3 11.4 26 751-776 198-223 (857)
345 PRK14712 conjugal transfer nic 60.7 63 0.0014 46.6 12.7 143 719-918 831-974 (1623)
346 PRK13531 regulatory ATPase Rav 60.1 33 0.00071 43.6 9.0 26 751-776 38-63 (498)
347 PRK14955 DNA polymerase III su 60.0 88 0.0019 38.8 12.8 27 752-778 38-64 (397)
348 PRK14963 DNA polymerase III su 59.5 44 0.00094 42.8 10.2 25 754-778 38-62 (504)
349 PRK06964 DNA polymerase III su 59.4 65 0.0014 39.3 11.2 47 724-779 2-48 (342)
350 PRK11773 uvrD DNA-dependent he 59.2 29 0.00062 46.4 8.9 71 722-808 8-79 (721)
351 PRK06731 flhF flagellar biosyn 59.1 1.9E+02 0.0041 34.2 14.6 74 873-947 154-243 (270)
352 TIGR02760 TraI_TIGR conjugativ 59.0 64 0.0014 47.9 12.8 64 722-797 1018-1081(1960)
353 PF03354 Terminase_1: Phage Te 58.9 62 0.0013 41.1 11.4 39 754-792 24-62 (477)
354 COG0593 DnaA ATPase involved i 58.5 51 0.0011 41.0 10.2 52 873-924 175-234 (408)
355 PF13831 PHD_2: PHD-finger; PD 58.5 3.3 7.2E-05 33.7 0.1 35 544-585 2-36 (36)
356 TIGR01074 rep ATP-dependent DN 58.4 30 0.00065 45.6 8.9 69 724-808 2-71 (664)
357 PRK10919 ATP-dependent DNA hel 57.9 28 0.00061 46.1 8.5 69 724-808 3-72 (672)
358 PTZ00454 26S protease regulato 57.9 33 0.00071 42.6 8.5 43 750-799 177-219 (398)
359 cd03115 SRP The signal recogni 57.9 1E+02 0.0023 33.0 11.5 25 755-779 3-27 (173)
360 PHA02929 N1R/p28-like protein; 57.8 5.1 0.00011 46.0 1.4 46 532-587 172-225 (238)
361 CHL00206 ycf2 Ycf2; Provisiona 57.8 42 0.00092 48.6 10.1 44 750-800 1628-1671(2281)
362 PRK13826 Dtr system oriT relax 57.6 63 0.0014 45.0 11.7 133 722-919 380-513 (1102)
363 PRK08533 flagellar accessory p 57.4 89 0.0019 35.7 11.4 39 751-793 23-61 (230)
364 PRK07133 DNA polymerase III su 57.4 68 0.0015 42.7 11.6 27 752-778 40-66 (725)
365 TIGR00643 recG ATP-dependent D 57.3 40 0.00087 44.3 9.7 101 1114-1225 264-364 (630)
366 PF07015 VirC1: VirC1 protein; 57.3 1.8E+02 0.0038 33.7 13.4 39 762-804 12-52 (231)
367 cd02037 MRP-like MRP (Multiple 56.9 65 0.0014 34.5 9.7 53 872-928 66-118 (169)
368 PRK11823 DNA repair protein Ra 56.7 1E+02 0.0022 38.9 12.7 49 752-804 80-128 (446)
369 TIGR03752 conj_TIGR03752 integ 56.4 82 0.0018 39.6 11.3 95 35-135 42-141 (472)
370 PRK13341 recombination factor 55.9 49 0.0011 44.2 10.1 25 750-774 50-74 (725)
371 PF13771 zf-HC5HC2H: PHD-like 55.9 9.1 0.0002 36.9 2.6 51 532-585 34-87 (90)
372 TIGR03689 pup_AAA proteasome A 55.8 29 0.00063 44.4 7.7 26 751-776 215-240 (512)
373 CHL00095 clpC Clp protease ATP 55.5 30 0.00065 46.9 8.3 26 751-776 199-224 (821)
374 PF06564 YhjQ: YhjQ protein; 55.4 54 0.0012 38.0 9.1 32 762-797 12-45 (243)
375 PF00539 Tat: Transactivating 55.3 2.4 5.2E-05 39.1 -1.3 16 552-584 27-42 (68)
376 TIGR01243 CDC48 AAA family ATP 55.1 40 0.00087 45.2 9.3 42 751-799 486-527 (733)
377 TIGR03345 VI_ClpV1 type VI sec 55.0 42 0.0009 45.8 9.4 27 750-776 206-232 (852)
378 PRK06067 flagellar accessory p 55.0 96 0.0021 35.2 11.2 51 751-805 24-74 (234)
379 PHA02926 zinc finger-like prot 54.8 4.7 0.0001 45.4 0.5 50 534-587 170-228 (242)
380 PF13639 zf-RING_2: Ring finge 54.8 3.7 8E-05 34.3 -0.2 38 536-584 2-43 (44)
381 COG3267 ExeA Type II secretory 54.7 1.3E+02 0.0028 35.2 11.8 41 873-913 131-175 (269)
382 PF15446 zf-PHD-like: PHD/FYVE 54.6 7.8 0.00017 41.9 2.0 48 537-584 2-57 (175)
383 PF13481 AAA_25: AAA domain; P 54.5 89 0.0019 34.0 10.4 56 752-807 32-93 (193)
384 PF01197 Ribosomal_L31: Riboso 54.5 9.3 0.0002 35.6 2.3 44 489-532 12-57 (69)
385 PRK14951 DNA polymerase III su 54.3 1.1E+02 0.0024 40.2 12.7 26 753-778 39-64 (618)
386 PRK14721 flhF flagellar biosyn 53.3 3.3E+02 0.0071 34.3 16.0 74 873-947 269-358 (420)
387 PRK00771 signal recognition pa 53.2 1.2E+02 0.0027 38.1 12.5 37 752-792 95-131 (437)
388 PRK05563 DNA polymerase III su 53.1 79 0.0017 41.1 11.2 27 751-777 37-63 (559)
389 PRK14873 primosome assembly pr 52.7 55 0.0012 43.3 9.7 80 1116-1210 170-250 (665)
390 KOG0740 AAA+-type ATPase [Post 52.6 22 0.00047 44.3 5.7 49 750-805 184-232 (428)
391 PRK14953 DNA polymerase III su 52.6 1E+02 0.0022 39.5 11.8 25 753-777 39-63 (486)
392 PRK14965 DNA polymerase III su 52.6 89 0.0019 40.8 11.5 27 752-778 38-64 (576)
393 KOG3970 Predicted E3 ubiquitin 52.5 3.1 6.8E-05 46.2 -1.3 86 510-598 20-116 (299)
394 PRK04328 hypothetical protein; 52.2 1.2E+02 0.0026 35.1 11.5 36 752-791 23-58 (249)
395 CHL00176 ftsH cell division pr 52.2 60 0.0013 42.8 9.9 25 751-775 215-239 (638)
396 PRK14948 DNA polymerase III su 52.0 1.2E+02 0.0025 40.1 12.4 27 752-778 38-64 (620)
397 PRK11034 clpA ATP-dependent Cl 51.6 71 0.0015 43.0 10.5 26 751-776 206-231 (758)
398 KOG1002 Nucleotide excision re 51.6 5.2 0.00011 49.4 0.2 71 503-587 514-584 (791)
399 PF05278 PEARLI-4: Arabidopsis 51.5 93 0.002 36.5 10.1 84 49-135 146-253 (269)
400 PRK14950 DNA polymerase III su 51.1 69 0.0015 41.9 10.2 25 753-777 39-63 (585)
401 cd00162 RING RING-finger (Real 50.7 5.5 0.00012 32.2 0.2 41 537-586 2-43 (45)
402 COG1435 Tdk Thymidine kinase [ 50.6 87 0.0019 35.2 9.3 34 874-910 83-118 (201)
403 PF00308 Bac_DnaA: Bacterial d 50.3 1.3E+02 0.0027 34.3 11.0 37 873-909 97-137 (219)
404 PRK00080 ruvB Holliday junctio 50.2 2.5E+02 0.0054 33.8 14.1 26 751-776 50-75 (328)
405 TIGR00678 holB DNA polymerase 50.1 48 0.001 36.2 7.5 28 751-778 13-40 (188)
406 smart00184 RING Ring finger. E 50.1 4.8 0.0001 31.3 -0.3 29 537-565 1-29 (39)
407 PRK08939 primosomal protein Dn 49.6 53 0.0012 39.3 8.2 43 751-797 155-197 (306)
408 cd00984 DnaB_C DnaB helicase C 49.5 1.6E+02 0.0035 33.2 11.9 49 751-802 12-64 (242)
409 PRK05973 replicative DNA helic 49.5 1.5E+02 0.0033 34.3 11.5 38 751-792 63-100 (237)
410 COG0470 HolB ATPase involved i 49.3 51 0.0011 38.8 8.1 27 754-780 26-52 (325)
411 COG3972 Superfamily I DNA and 48.6 89 0.0019 39.5 9.7 39 873-914 295-334 (660)
412 KOG4443 Putative transcription 48.5 5.8 0.00013 50.5 -0.0 47 536-587 20-71 (694)
413 KOG0383 Predicted helicase [Ge 47.8 4.4 9.5E-05 52.9 -1.3 54 529-587 501-554 (696)
414 PF05496 RuvB_N: Holliday junc 47.6 33 0.00072 39.3 5.7 17 752-768 50-66 (233)
415 PRK06647 DNA polymerase III su 47.4 1.1E+02 0.0023 40.0 11.0 27 752-778 38-64 (563)
416 COG1474 CDC6 Cdc6-related prot 47.2 1.2E+02 0.0027 37.3 11.0 57 714-779 13-69 (366)
417 KOG0317 Predicted E3 ubiquitin 47.2 6.6 0.00014 45.7 0.2 41 536-586 241-281 (293)
418 COG5151 SSL1 RNA polymerase II 46.9 11 0.00025 43.8 1.9 91 481-588 299-420 (421)
419 TIGR00580 mfd transcription-re 46.6 78 0.0017 43.6 10.0 99 1115-1224 481-579 (926)
420 COG1702 PhoH Phosphate starvat 46.6 26 0.00057 42.2 4.9 38 875-914 245-282 (348)
421 TIGR01425 SRP54_euk signal rec 46.3 4.3E+02 0.0093 33.4 15.5 35 754-792 102-136 (429)
422 COG3973 Superfamily I DNA and 45.7 42 0.0009 43.2 6.6 69 720-803 209-279 (747)
423 PRK08760 replicative DNA helic 45.5 2.1E+02 0.0047 36.4 13.1 52 752-806 229-280 (476)
424 TIGR00416 sms DNA repair prote 45.4 1.6E+02 0.0034 37.4 11.9 50 752-805 94-143 (454)
425 PRK12724 flagellar biosynthesi 45.4 3.3E+02 0.0071 34.4 14.2 75 872-947 298-391 (432)
426 PRK07399 DNA polymerase III su 45.4 1.6E+02 0.0035 35.4 11.5 29 751-779 25-53 (314)
427 COG0254 RpmE Ribosomal protein 45.2 13 0.00027 35.4 1.6 46 487-532 11-58 (75)
428 PRK10416 signal recognition pa 45.1 3.9E+02 0.0084 32.3 14.6 52 870-921 193-254 (318)
429 TIGR02639 ClpA ATP-dependent C 45.1 1.1E+02 0.0023 41.2 10.9 27 751-777 202-228 (731)
430 TIGR02688 conserved hypothetic 45.0 94 0.002 39.0 9.4 25 751-775 208-232 (449)
431 COG0630 VirB11 Type IV secreto 44.7 1.1E+02 0.0023 36.9 9.7 52 863-921 207-258 (312)
432 PRK12727 flagellar biosynthesi 44.6 2.7E+02 0.0059 36.1 13.5 27 752-778 350-376 (559)
433 TIGR01073 pcrA ATP-dependent D 44.5 59 0.0013 43.5 8.4 69 723-807 4-73 (726)
434 PRK06305 DNA polymerase III su 44.3 95 0.0021 39.3 9.7 27 752-778 39-65 (451)
435 PRK06646 DNA polymerase III su 44.2 98 0.0021 33.5 8.4 43 1114-1156 9-51 (154)
436 KOG2231 Predicted E3 ubiquitin 44.0 8.7 0.00019 49.8 0.5 91 491-587 100-215 (669)
437 PRK08058 DNA polymerase III su 43.9 2.1E+02 0.0045 34.6 12.2 29 751-779 27-55 (329)
438 KOG3362 Predicted BBOX Zn-fing 43.4 8.1 0.00018 40.5 0.1 30 535-565 119-149 (156)
439 TIGR01243 CDC48 AAA family ATP 43.3 68 0.0015 43.0 8.7 25 750-774 210-234 (733)
440 PRK14723 flhF flagellar biosyn 43.3 2.9E+02 0.0063 37.3 14.0 74 873-947 263-355 (767)
441 TIGR00570 cdk7 CDK-activating 43.2 11 0.00024 44.7 1.2 27 551-586 25-51 (309)
442 PRK07414 cob(I)yrinic acid a,c 42.9 82 0.0018 34.9 7.7 54 871-924 113-170 (178)
443 PF13923 zf-C3HC4_2: Zinc fing 42.8 6.3 0.00014 32.2 -0.6 38 537-584 1-39 (39)
444 PF01443 Viral_helicase1: Vira 42.2 47 0.001 37.2 6.0 40 873-915 62-101 (234)
445 PF02403 Seryl_tRNA_N: Seryl-t 41.7 1.7E+02 0.0038 29.2 9.3 81 56-143 26-107 (108)
446 cd01125 repA Hexameric Replica 41.6 4.4E+02 0.0096 30.0 13.9 52 754-805 3-65 (239)
447 KOG0978 E3 ubiquitin ligase in 41.5 5.6 0.00012 51.7 -1.7 43 536-587 645-687 (698)
448 PHA03333 putative ATPase subun 41.4 1.6E+02 0.0034 39.1 10.9 35 755-792 190-224 (752)
449 PRK06904 replicative DNA helic 41.1 2.7E+02 0.0059 35.5 13.0 52 751-805 220-271 (472)
450 KOG1512 PHD Zn-finger protein 40.9 8.1 0.00017 44.5 -0.4 40 542-584 275-314 (381)
451 COG0467 RAD55 RecA-superfamily 40.8 2.3E+02 0.0051 32.7 11.6 38 751-792 22-59 (260)
452 PF11793 FANCL_C: FANCL C-term 40.5 7.5 0.00016 36.3 -0.6 52 536-587 4-64 (70)
453 COG2256 MGS1 ATPase related to 40.0 1E+02 0.0022 38.3 8.4 22 750-771 46-67 (436)
454 COG0143 MetG Methionyl-tRNA sy 39.8 15 0.00032 47.4 1.6 24 536-561 147-170 (558)
455 PRK14954 DNA polymerase III su 39.6 2.4E+02 0.0053 37.2 12.5 28 751-778 37-64 (620)
456 KOG0320 Predicted E3 ubiquitin 39.6 8.1 0.00018 42.1 -0.6 41 537-587 134-176 (187)
457 PF15227 zf-C3HC4_4: zinc fing 39.5 10 0.00022 31.8 0.1 28 551-584 15-42 (42)
458 COG2109 BtuR ATP:corrinoid ade 39.4 4.5E+02 0.0098 29.6 12.5 57 871-927 120-180 (198)
459 COG1198 PriA Primosomal protei 39.4 76 0.0016 42.4 7.9 84 1111-1209 222-305 (730)
460 cd01131 PilT Pilus retraction 38.7 2.1E+02 0.0044 31.9 10.3 23 754-776 3-25 (198)
461 PRK05896 DNA polymerase III su 38.6 2.9E+02 0.0063 36.3 12.8 27 752-778 38-64 (605)
462 COG2888 Predicted Zn-ribbon RN 38.0 18 0.0004 32.6 1.4 49 490-553 9-57 (61)
463 KOG1734 Predicted RING-contain 37.9 10 0.00022 43.7 -0.2 49 531-587 221-279 (328)
464 PRK10689 transcription-repair 37.2 1.3E+02 0.0029 42.4 10.2 98 1115-1223 630-727 (1147)
465 TIGR02785 addA_Gpos recombinat 36.8 1.3E+02 0.0029 42.8 10.3 113 751-884 13-126 (1232)
466 PHA02542 41 41 helicase; Provi 36.8 3.2E+02 0.007 34.9 12.7 35 754-792 192-226 (473)
467 TIGR02655 circ_KaiC circadian 36.7 2.1E+02 0.0045 36.5 11.1 51 751-805 262-312 (484)
468 KOG0738 AAA+-type ATPase [Post 36.7 35 0.00075 41.8 3.9 45 753-805 246-291 (491)
469 PF07649 C1_3: C1-like domain; 36.1 19 0.00042 27.8 1.1 26 536-561 2-30 (30)
470 PRK10867 signal recognition pa 36.0 4E+02 0.0087 33.7 13.1 36 753-791 101-136 (433)
471 PRK13729 conjugal transfer pil 35.9 1.1E+02 0.0023 38.8 7.9 35 107-141 94-128 (475)
472 COG4626 Phage terminase-like p 35.8 2.7E+02 0.0058 36.0 11.5 189 718-937 56-253 (546)
473 PRK12726 flagellar biosynthesi 35.6 4.3E+02 0.0093 33.0 12.9 47 752-802 206-256 (407)
474 PHA00350 putative assembly pro 35.6 69 0.0015 39.8 6.3 15 875-889 83-97 (399)
475 TIGR01241 FtsH_fam ATP-depende 35.6 54 0.0012 41.8 5.7 26 750-775 86-111 (495)
476 COG5222 Uncharacterized conser 35.3 21 0.00045 41.5 1.7 36 552-596 293-330 (427)
477 PF00437 T2SE: Type II/IV secr 35.3 1.8E+02 0.0038 33.8 9.5 53 863-921 187-239 (270)
478 PRK04132 replication factor C 35.3 1.7E+02 0.0036 40.0 10.2 41 873-915 630-673 (846)
479 PF12678 zf-rbx1: RING-H2 zinc 35.3 16 0.00035 34.3 0.7 26 550-585 48-73 (73)
480 TIGR00959 ffh signal recogniti 35.2 2.3E+02 0.0051 35.7 10.9 36 753-791 100-135 (428)
481 PF02318 FYVE_2: FYVE-type zin 35.2 19 0.00042 36.9 1.4 42 536-586 56-102 (118)
482 TIGR02640 gas_vesic_GvpN gas v 35.0 96 0.0021 36.1 7.2 24 751-774 20-43 (262)
483 KOG1039 Predicted E3 ubiquitin 34.6 20 0.00043 43.5 1.5 53 532-587 159-219 (344)
484 TIGR00599 rad18 DNA repair pro 34.5 14 0.0003 45.6 0.2 42 536-587 28-69 (397)
485 KOG2164 Predicted E3 ubiquitin 34.4 16 0.00035 45.7 0.7 49 534-587 186-234 (513)
486 PRK14559 putative protein seri 34.3 22 0.00047 46.7 1.9 23 530-553 12-34 (645)
487 PTZ00396 Casein kinase II subu 34.3 19 0.0004 41.8 1.1 34 551-585 122-155 (251)
488 PRK05917 DNA polymerase III su 34.0 1.7E+02 0.0037 34.9 9.0 29 751-779 18-46 (290)
489 COG3598 RepA RecA-family ATPas 34.0 1.6E+02 0.0035 35.6 8.6 26 751-776 88-113 (402)
490 PRK09165 replicative DNA helic 33.9 4.3E+02 0.0094 33.9 13.3 52 753-804 218-280 (497)
491 PRK09302 circadian clock prote 33.7 2.2E+02 0.0049 36.4 10.8 50 752-805 273-322 (509)
492 PRK08840 replicative DNA helic 33.6 4.3E+02 0.0093 33.7 13.1 50 752-804 217-266 (464)
493 COG1107 Archaea-specific RecJ- 33.5 26 0.00056 44.5 2.3 21 536-556 70-90 (715)
494 COG0626 MetC Cystathionine bet 33.5 1.1E+02 0.0024 38.1 7.6 93 1114-1245 82-175 (396)
495 PF02572 CobA_CobO_BtuR: ATP:c 33.1 1.3E+02 0.0029 33.1 7.4 56 871-926 94-153 (172)
496 PRK06995 flhF flagellar biosyn 33.1 1.1E+03 0.025 30.2 16.5 54 873-927 334-392 (484)
497 PRK09302 circadian clock prote 33.1 2.9E+02 0.0062 35.4 11.6 52 751-805 30-81 (509)
498 PF14446 Prok-RING_1: Prokaryo 33.1 27 0.00059 31.1 1.7 29 536-564 7-39 (54)
499 KOG0733 Nuclear AAA ATPase (VC 32.4 2E+02 0.0043 37.6 9.5 25 750-774 543-567 (802)
500 PF02702 KdpD: Osmosensitive K 32.3 1.3E+02 0.0027 34.2 7.1 27 754-780 7-33 (211)
No 1
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=7.5e-204 Score=1798.48 Aligned_cols=1318 Identities=32% Similarity=0.418 Sum_probs=1092.9
Q ss_pred cccccccccccCCCccccCCCCCCCCCCCCCCCccccccCCHHHHHHHHHHHHHhhhHHHHHHHHHhHHHHHHHHHHHHH
Q 000464 10 KHEEVEDIESDSGDSFIVDSESDEPSISGQDDGLHLEEHLTEEEIEELIAEFLEVESKAAEAQEALELESLVKLKNEVRE 89 (1479)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (1479)
+++..+++.+.+..+ ++.++.++.-+...+++..++.++..+++.+++..++.++++.
T Consensus 70 ~~~~~~~~~~~~~~t-~~~s~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~--------------------- 127 (1567)
T KOG1015|consen 70 EQSFTSLEVRKVAET-KEKSKHLKTKTCKKVQDGLSDIAEKFLKKDQSDETSEDDKKQS--------------------- 127 (1567)
T ss_pred hhhHHHHHHHhhhhc-cccchhhhhHhhhhhcccchhhhhhHhhhhcchhhhHHHHHHH---------------------
Confidence 344555555555554 7888888999999999999999999999999999988887753
Q ss_pred HHHHhcCCCchHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHhhhccCCCchhHHHHHHhhCCCccchHhhhcccccccc
Q 000464 90 ELAQALHGDDLEAAVEDEMTVYKEQWEAALDELETESAHLLEQLDGAGIELPSLYRLIENQVPNGCCTEAWKRRAHWVGS 169 (1479)
Q Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (1479)
..||+.+|.+|+-+|++.++|+++||+.+++|++++|+|||-||+.|++++|++|.||+|++++||+|+
T Consensus 128 -----------~~~~~~~~~~~~~~~~~~~~e~~~es~s~~~~~~~~~~e~~~~~~gik~~~~~~td~e~~~~~~~d~~~ 196 (1567)
T KOG1015|consen 128 -----------KKGTEEKKKPSDFKKKVIKMEQQYESSSDGTEKLPEREEICHFPKGIKQIKNGTTDGEKKSKKIRDKTS 196 (1567)
T ss_pred -----------hHhHHhhcCCchhHHHHHHHHHhhhcccchhhhccccccccchhhhhcccCCCCcchhhcccccccccc
Confidence 457889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchHHHHHHHhhHhhhhhcchhhhcccchhccccccccchhccCCCCCCCCcccccccccchhhhccCCcccccccccc
Q 000464 170 QVTSEMRESIAGAEDFLQTERPVRRRHGKLLEEGASGFLQKKIANDGSENGGKEVSDINWNSVNKIFSGDVSEKCAAFGS 249 (1479)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (1479)
+++.+..||..+++-.+.+++|+++||||+++||++||++|++......+.....++.+|.+.|+-+.+++ ...-.||+
T Consensus 197 ~~~ve~sES~~~s~~~~esed~~~~r~~kn~~egrekk~~K~l~k~~~k~~~~~ssd~dk~sakk~~~~ss-dE~v~~~e 275 (1567)
T KOG1015|consen 197 KKKVELSESAEKSTGKGESEDSSEDRKSKNGAEGREKKRCKLLGKSSRKRQDCSSSDTDKYSAKKDGCNSS-DERVKRIE 275 (1567)
T ss_pred ceehhhhhhhhhccccccccCcchhhhhhhhhhhhhhHHHHHhccchhhhcccCCCchhhhhhhhcccccc-cccchhhh
Confidence 99999999999999999999999999999999999999999999876655566889999999999999988 88899999
Q ss_pred ccceeeeecCCHHHHHHccCCCCCCccccccccccCCCCChhHHHHhcchhhhcccHHHHHhhcccccchhhhhhHHHHH
Q 000464 250 KHWASVYLASTPQQAAAMGLKFPGVDEVEEIEDVDGNSDDPFVADAIANEKELALSEEQRKKFRKVKEEDDANMDRKLQL 329 (1479)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 329 (1479)
..|+++||||+|.++++||+.||||.|++|++|++...++||.+++|-+|+|..+.++|...|..+.||||...++-+|.
T Consensus 276 ~~pr~~llsS~ktkerasg~s~sd~~es~E~ed~kksk~s~~~k~vi~keKern~k~a~~ts~s~~eeeDde~es~~~~~ 355 (1567)
T KOG1015|consen 276 LRPRRNLLSSRKTKERASGSSSSDAEESSEDEDKKKSKTSSKKKAVIVKEKERNRKQADITSSSSSEEEDDEQESIGEGS 355 (1567)
T ss_pred hhhHhhhccCcchhhhhccCCcCCccccchhhhhhhhccchhhhhhhhHHHHhhhhhhhcccccccchhhhhhhhhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhHhhhhhcccccccccccccccccccccccccccccccCCCCCCCCCCCCCchhhhhhcccccccccccccccCCCC
Q 000464 330 HLKRRRHRKISKQKEIGSVDWTIEDSAVETRPLVDASKSLSNKKTDDGDMPGNNNEVALQNLETGVLESSVKERSLSNGI 409 (1479)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 409 (1479)
+|+++++.++.+|+.++++ .++.++++..+- -.|..| -. +.....+++
T Consensus 356 ~lkkk~kqk~~kq~sskss-ees~dd~~~r~~---------------kk~t~n--------~a--------Ka~~ss~eT 403 (1567)
T KOG1015|consen 356 SLKKKIKQKSGKQASSKSS-EESVDDPENRIA---------------KKMTLN--------EA--------KANLSSDET 403 (1567)
T ss_pred cchHhhhhccchhhhhhcc-hhccccHHHHhh---------------hhcchH--------HH--------HhhhcCCCc
Confidence 9999999999999999888 556666654420 000000 00 001112222
Q ss_pred cccCCCCCCCchhhhcccccCCCCCCCcccccceEEEecCCCcccccccccccccCCCCCccccccccccccccccCCCC
Q 000464 410 SSVSDSALPDSSELRGIKRSNESEEPNSEKKRSRTIIIGSDEADVVKDECSTKLEDHSVSPENINDAATDNSLHSQSLSE 489 (1479)
Q Consensus 410 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~sd~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~ 489 (1479)
+.. -|+.| +++|++....+..+..+.+.+-+ +++.. +-..+.--.
T Consensus 404 s~~-----s~esE-~~sk~sgk~~es~~~~e~~s~~~-n~~s~----------------------------~dsk~~~k~ 448 (1567)
T KOG1015|consen 404 SSS-----SDESE-EGSKRSGKQNESNPGDEEASNQV-NSESD----------------------------SDSKESKKP 448 (1567)
T ss_pred ccc-----ccccc-cchhhhcccccCCCCcccccccc-ccccc----------------------------cccccccCc
Confidence 211 11222 34444433333333333322211 11110 001222234
Q ss_pred ceeeccCCcccccccccccccccccccchhhhhhcCcccCCCCCcccccccCCCCceeecCCcccccchhhhcccCCccc
Q 000464 490 KFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEAC 569 (1479)
Q Consensus 490 ~~~C~~Cg~~~~~~~~HP~l~v~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~ 569 (1479)
.+.|+.|.+.......||...++.|+.|...... .-...++..+..|.||+..-.+.-|..|++.||..|+.++.+...
T Consensus 449 ~~r~~~~~K~~vsd~e~peekkt~~k~ksR~~~~-~sSese~d~d~eee~~s~~~~~~e~~~~~k~~sa~e~~~esd~Ev 527 (1567)
T KOG1015|consen 449 RYRRLLRHKLTVSDGESPEEKKTKPKEKSRNRRK-VSSESEEDSDFEEEGVSEEVSESEDEQRPKTRSAKEAELESDQEV 527 (1567)
T ss_pred chhhhhhcchhhcccccchhhhcchhhhccchhh-hcccccccchhhcccccCccccchhhhcccccchHHHhhccchhh
Confidence 4779999999888999999999999998765543 344556667779999999999999999999999999999999998
Q ss_pred ccccccCCCceeecCCchhHHHHHHHHHHhhcCcccccCCCCCCCCCCccccccccccchhhhhhhhhhcccccccHHHH
Q 000464 570 LSDEVQASCWQCCCCSPSLLKRLTSELGRAMGSENLIVSSSESDSENSDADNNLKIGGKRKQKKKIRRILDDAELGEETK 649 (1479)
Q Consensus 570 ~~~~~~~~~W~C~~C~p~~l~~L~~~~~~~~~~~~~~~~~s~~~~d~sd~~~~~~~~~~~k~rk~ir~il~d~~l~e~tk 649 (1479)
++ ....-.|.|.+|++.+.+ .++.++.+........+++..++.+.+..|....+|.|+||+||+||+|++|+.+|+
T Consensus 528 mp-qkkkr~~~~~~sds~~e~--kse~E~ee~ekK~~ek~~kk~esseSd~vn~~sksK~K~rKkiRkII~d~kL~keT~ 604 (1567)
T KOG1015|consen 528 MP-QKKKRRRIKVQSDSSSEN--KSESEEEEEEKKEEEKEEKKEESSESDNVNDDSKSKGKGRKKIRKIIKDDKLRKETQ 604 (1567)
T ss_pred hh-hhhhcCceeeecCCcccc--cccccHHHHHHHHHhhhhhcccccccCCcCccccccccchhHHHhhcchhhhchhHH
Confidence 88 555567999999999988 677777777765555444444433333366677788999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH---HHHhhhhhhcccccccCCCCCCCchhhhhccccccchhhhccccCCcccccCchhhhhccH
Q 000464 650 RKIAIEKERQERLKSL---QVQFSSKSKLMNSVTLDGDLSAGASIEVLGDAITGYIVNVVREKGEEAVRIPSSISAKLKA 726 (1479)
Q Consensus 650 ~~~~~ek~r~~rl~~~---~~~~~~~~~~~~~~~~~~~l~~~~~~ev~~~~~~~~i~~~~~~~~~~~v~vP~~L~~~LrP 726 (1479)
.++++|++|++||+.. ++.++.+ .+.....++++ ...++|+++..+..++.+.||..|...|+|
T Consensus 605 ~a~k~EkeRrkRie~~~~rqK~~n~i-----~ied~s~~~e~--------it~~lVld~deet~e~~VqV~rslv~kLKp 671 (1567)
T KOG1015|consen 605 NALKEEKERRKRIEEERERQKLRNVI-----EIEDASPTKEP--------ITTKLVLDEDEETKEPLVQVHRSLVIKLKP 671 (1567)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhcee-----eeccCCCCccc--------cceeEEecchhhhccchhhccHhHHhhcCc
Confidence 9999999999999983 3333321 12222333332 233788999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHHh
Q 000464 727 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 806 (1479)
Q Consensus 727 hQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 806 (1479)
||..||+|||+++++++.|. ...+|.||||||+||||||+|+|+|+++++.....+++++|||||.+++.||.+||.+|
T Consensus 672 HQv~GvqFMwd~~~eSlkr~-~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c~klg~ktaLvV~PlNt~~NW~~EFekW 750 (1567)
T KOG1015|consen 672 HQVDGVQFMWDCCCESLKRT-KKSPGSGCILAHCMGLGKTLQVVTFLHTVLLCDKLGFKTALVVCPLNTALNWMNEFEKW 750 (1567)
T ss_pred ccccchhHHHHHHHHHHHhh-cCCCCcchHHHHhhcccceehhhHHHHHHHHhhccCCceEEEEcchHHHHHHHHHHHHh
Confidence 99999999999999999997 55799999999999999999999999999999999999999999999999999999999
Q ss_pred CCC--CCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhh-cCCCCEEEEcCC
Q 000464 807 RPS--ELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL-QDGPDILVCDEA 882 (1479)
Q Consensus 807 ~P~--~~~~l~V~~l~g~~~-~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL-~~~~dlVIlDEA 882 (1479)
.++ ...++.|+.+...++ ..|...+..|+..++|+|++|++||+|..++.++.+.....+...+ .++||+||||||
T Consensus 751 m~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdpGPD~vVCDE~ 830 (1567)
T KOG1015|consen 751 MEGLEDDEKLEVSELATVKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDPGPDFVVCDEG 830 (1567)
T ss_pred cccccccccceeehhhhccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHHHhccCCCCCeEEecch
Confidence 995 334789999888776 7888999999999999999999999999999988887555555444 459999999999
Q ss_pred cccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHHHHHH
Q 000464 883 HMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMN 962 (1479)
Q Consensus 883 H~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv~~~~ 962 (1479)
|.|||..|.+++|+.+++++|||+|||||+||||+|||||++|++|++||+..+|+|+|.+||.+|++.+++..++++|+
T Consensus 831 HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvNpI~nGq~~dST~~DVr~Mk 910 (1567)
T KOG1015|consen 831 HILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVNPIQNGQCADSTMVDVRVMK 910 (1567)
T ss_pred hhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcCccccCccCCCcHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccc--cchHHHHhhHHHHHHHHHH
Q 000464 963 QRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR--VSNEKIRKSFFAGYQALAQ 1040 (1479)
Q Consensus 963 ~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~--~~~~~~~~s~l~~l~~Lrk 1040 (1479)
+|+|+|+.+|++||+|+++.+|.++||||++|||.|.||+.|+.||.+|+++ .+.... ....+...++|..|+.|++
T Consensus 911 ~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~h-~~~~G~d~eg~~g~~arlf~dfqmlsr 989 (1567)
T KOG1015|consen 911 KRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLDH-LTGVGNDSEGGRGAGARLFQDFQMLSR 989 (1567)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHhh-ccccCCccccccchhhhHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999993 332221 1223466789999999999
Q ss_pred HhcCcchhhhccc----cCCCCCcc---c--cCCC----------------------Cccccccccccc------CCCcc
Q 000464 1041 IWNHPGILQLTKD----KGYPSRED---A--EDSS----------------------SDENMDYNVVIG------EKPRN 1083 (1479)
Q Consensus 1041 IcnHP~Ll~~~~~----~~~~~~ed---~--dd~~----------------------~d~~~d~~~~~~------ek~~~ 1083 (1479)
||+||+.++.... ..+....+ . ++++ .|+........+ .+.+.
T Consensus 990 IwtHP~~lqL~s~~~enkR~~seddm~~fi~D~sde~e~s~~s~d~~~~~ks~~~s~~Desss~~~~~g~~ev~k~k~rk 1069 (1567)
T KOG1015|consen 990 IWTHPWCLQLDSISKENKRYFSEDDMDEFIADDSDETEMSLSSDDYTKKKKSGKKSKKDESSSGSGSDGDVEVIKVKNRK 1069 (1567)
T ss_pred HhcCCCceeechhhhhhcccccccchhccccCCCccccccccccchhhcccccccccccccccccccCCchhhhhhhhhh
Confidence 9999999876433 11111111 0 1110 011112111111 11111
Q ss_pred chhhhcC------------------C----CCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHhhcCCCeEEEEc
Q 000464 1084 MNDFLQG------------------K----NDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFS 1141 (1479)
Q Consensus 1084 ~~d~~~~------------------~----~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFS 1141 (1479)
.+++..+ . ....-.+..||.+++....+..+.+|+||.+|++||..+.+.|+|+||||
T Consensus 1070 ~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGDKlLVFS 1149 (1567)
T KOG1015|consen 1070 SRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGDKLLVFS 1149 (1567)
T ss_pred ccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcceeEEee
Confidence 1111111 0 01112345799999999999999999999999999999999999999999
Q ss_pred CchhhHHHHHHHHhcCCCCCC-----------CcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccc
Q 000464 1142 QSIPTLDLIEFYLSKLPRPGK-----------QGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAG 1210 (1479)
Q Consensus 1142 Q~~~tLdlLe~~L~~l~~~~~-----------~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAG 1210 (1479)
|++.+|++|+.||..+.+.++ .| .|..|.+|+||||++...+|++++++||++.|-++++|||||+||
T Consensus 1150 QSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eG-kW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LISTRAG 1228 (1567)
T KOG1015|consen 1150 QSLISLDLIEDFLELVSREGKEDKDKPLIYKGEG-KWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLISTRAG 1228 (1567)
T ss_pred cccchhHHHHHHHHhhcccCcccccccccccccc-ceecCCceEEecCcccHHHHHHHHHHhcCcccceeEEEEEeeccC
Confidence 999999999999998876655 34 499999999999999999999999999999999999999999999
Q ss_pred ccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhccccccccCC
Q 000464 1211 SLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVHRTIS 1290 (1479)
Q Consensus 1211 GeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~~~~r~~s 1290 (1479)
++||||.+||||||||.+|||+++.|+|+|+||+||+|||||||||+.||||++||.||+.|+.++.||||.+|+.|||+
T Consensus 1229 sLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQVTKqsls~RVVDeqQv~Rhy~ 1308 (1567)
T KOG1015|consen 1229 SLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQVTKQSLSFRVVDEQQVERHYT 1308 (1567)
T ss_pred ccccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHHhHhhhhhhhhhHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccCCCCCCCChhhhhhhccCCCCCCCcccccccCCCCCCCCCchHHHHHHhcccCCCccccccccchhccccc
Q 000464 1291 KEEMLHLFEFGDDENPDPLTAVSKENGQGSSQNTNCALKHKLPLSHEGCSDKLMESLLGKHHPRWISNYHEHETLLQENE 1370 (1479)
Q Consensus 1291 ~~EL~~Lf~~~~de~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~ll~~ll~~~~~~~i~~~~eh~sll~~~~ 1370 (1479)
++||.+||.|.|+. .|+-.+ ..++.+|+|++++.++..| .+.|+.||+|+|||.+.+
T Consensus 1309 ~neLteLy~fep~~-ddp~sE---------------------r~~~~lpKdrllae~l~~~-q~~i~~y~ehdSll~~~e 1365 (1567)
T KOG1015|consen 1309 MNELTELYTFEPDL-DDPNSE---------------------RDTPMLPKDRLLAELLQIH-QEHIVGYHEHDSLLDHKE 1365 (1567)
T ss_pred HhhhHHHhhcCCcc-CCcccc---------------------cccccCCchhHHHHHHHHH-HHHhhhhhhhhhhhcchh
Confidence 99999999999852 111000 1234466999999999988 788999999999999999
Q ss_pred cccCCHHHHHHHHHHHHHhh------------------------------------------------hhhccccccccC
Q 000464 1371 EERLSKEEQDMAWEVFRKSL------------------------------------------------EWEEVQRVTVDE 1402 (1479)
Q Consensus 1371 ee~lt~ee~~~a~~~y~~~~------------------------------------------------~~~~~~~~~~~~ 1402 (1479)
+++||++|++.||.+|+... +|+.++|+|...
T Consensus 1366 ~eelteee~k~aWaeye~Ek~~~~~r~~~pt~t~~p~~~~~q~~Q~~~~nR~~~~~~~nq~~~d~~~~e~ekv~r~~ns~ 1445 (1567)
T KOG1015|consen 1366 EEELTEEERKAAWAEYEAEKKVLTMRFNIPTGTNLPPVSFNQQTQYIPFNRGALSAMSNQQLEDLINQEREKVVRATNSV 1445 (1567)
T ss_pred HHHHHHHhhhhhhhhHHhhhccccccccCCCCCCCCccchhhhhhhhhhhhhhhhhhhHHHHHHHHhhhhhheeecccCc
Confidence 99999999999999999864 344444444444
Q ss_pred ccccCCccCCCCCCCCCCCCCCccCCccccchhhhHhhhccchhHHHHhhcCCCCCcccccchhccccccchhccc
Q 000464 1403 SISERKPASMSNLTPPAPETSSVTQPRGILRSHVVIRKCTNLSHKLTLRSQGTKPGCSTVCGECAQEISWENCKVA 1478 (1479)
Q Consensus 1403 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 1478 (1479)
.++-..|. ..-++.+.+++..+ .|++|+++.||...|.+|++++|-++|-.++|++|+..+.|++.-.+
T Consensus 1446 tavr~~pl-~~ll~~il~~~~~~------nr~qv~~~n~trqa~qetd~k~~~~~~~dll~~~~~~v~~v~~m~~~ 1514 (1567)
T KOG1015|consen 1446 TAVRIQPL-EDLLSAILKENMNL------NRAQVQALNLTRQASQETDVKRREAIYNDLLTKQQMLVSCVQRMLMN 1514 (1567)
T ss_pred cceeeccc-HHHHhhhccccchh------hHhhhHhhhhHHHHHHHHhhhccchhhHHHHHhhcceeeeHHHHHhc
Confidence 44444444 33333333444333 89999999999999999999999999999999999999999976543
No 2
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=2e-107 Score=956.86 Aligned_cols=667 Identities=39% Similarity=0.644 Sum_probs=549.8
Q ss_pred ccccchhhhccccCCcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 697 AITGYIVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 697 ~~~~~i~~~~~~~~~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...++++|..++.+++.+++.+.|...|+|||+-||+|||+++++++.|++. +.|+||||||.||||||+|+|+|+..+
T Consensus 228 ~~Grv~VN~~HPeeee~iflapqla~v~kPHQiGGiRFlYDN~iESl~rykk-SsGFGCILAHSMGLGKTlQVisF~dif 306 (1387)
T KOG1016|consen 228 KEGRVLVNAGHPEEEEDIFLAPQLAHVLKPHQIGGIRFLYDNTIESLGRYKK-SSGFGCILAHSMGLGKTLQVISFSDIF 306 (1387)
T ss_pred ccCcEEEecCCCCCCcceeehhhhHhhcCccccCcEEEehhhHHHHHhhccc-cCCcceeeeeccccCceeEEeehhHHH
Confidence 4456778889999999999999999999999999999999999999999987 689999999999999999999999999
Q ss_pred HHhcccCCCceEEEechhhHHHHHHHHHHhCCCC-------CCCeEEEEecCcch--hHHHHHHHHHhhcCCEEEEeccc
Q 000464 777 MRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSE-------LKPLRVFMLEDVSR--DRRAELLAKWRAKGGVFLIGYTA 847 (1479)
Q Consensus 777 l~~~~~~~k~vLIV~P~sLl~qW~~E~~kw~P~~-------~~~l~V~~l~g~~~--~~r~~~l~~w~~~~~VvItsYe~ 847 (1479)
+++.. .|++|+|+|.+++.||..||.+|+|.- ...+.|+++.+..+ ..|++++..|...|||++++|+|
T Consensus 307 lRhT~--AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYem 384 (1387)
T KOG1016|consen 307 LRHTK--AKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEM 384 (1387)
T ss_pred hhcCc--cceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHHhccCCEEEehHHH
Confidence 98864 689999999999999999999999862 23578888888654 68999999999999999999999
Q ss_pred cccccccccc------c-----------------chhhHHHHHhh-hcCCCCEEEEcCCcccCCcchHHHHHHHhcccce
Q 000464 848 FRNLSFGKHV------K-----------------DRNMAREICHA-LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQR 903 (1479)
Q Consensus 848 fr~l~~~k~~------k-----------------d~~~~~~l~~l-L~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~r 903 (1479)
||.+...+.. + ...+...+..+ +..+||+|||||+|+|||..+.++.+++.|+++|
T Consensus 385 fRLL~lk~~~~~grpkkt~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrR 464 (1387)
T KOG1016|consen 385 FRLLILKTLPKKGRPKKTLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRR 464 (1387)
T ss_pred HHHHHHhcccccCCccccccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhce
Confidence 9987543110 0 11223333343 4459999999999999999999999999999999
Q ss_pred EEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhh
Q 000464 904 RIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNV 983 (1479)
Q Consensus 904 RllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~d 983 (1479)
||+|||.|+||||.|||||++|++|.+||+..+|.++|.+||.+|++.++++.++++|+.|+|+||.+|.+|++||+..+
T Consensus 465 RiVLTGYPLQNNLlEYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~Htv 544 (1387)
T KOG1016|consen 465 RIVLTGYPLQNNLLEYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTV 544 (1387)
T ss_pred eEEEeccccccchHHHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCcccc
Q 000464 984 VKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAE 1063 (1479)
Q Consensus 984 v~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~d 1063 (1479)
++..||.|.|+||.|++|..||+||+.|+.-.... ........-+.+.+|..+++|||||++++...++.....++..
T Consensus 545 Lk~~LP~k~EyViLvr~s~iQR~LY~~Fm~d~~r~--~~~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a~e~dl 622 (1387)
T KOG1016|consen 545 LKKILPEKKEYVILVRKSQIQRQLYRNFMLDAKRE--IAANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRAEEDDL 622 (1387)
T ss_pred HhhhcccccceEEEEeHHHHHHHHHHHHHHHHHHh--hccccccccChHHHHHHHHHhcCChHHHHHHHHHhhhhhhhhh
Confidence 99999999999999999999999999998321110 0011111236789999999999999999876553221111100
Q ss_pred ------------------CCCCcccccccccccCCCccchhhhcCCCC--------CccchhhhhhhhhhhccccccccC
Q 000464 1064 ------------------DSSSDENMDYNVVIGEKPRNMNDFLQGKND--------DGFFQKDWWNDLLHEHTYKELDYS 1117 (1479)
Q Consensus 1064 ------------------d~~~d~~~d~~~~~~ek~~~~~d~~~~~~~--------~~~~~~~~~~~ll~~~~~~~i~~S 1117 (1479)
....+.........+.......++..+... .......|..+++..+....++.+
T Consensus 623 ~vee~~~ag~~~~~~P~~~~~~~~s~~laSs~~k~~n~t~kp~~s~~~p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~ 702 (1387)
T KOG1016|consen 623 RVEEMKFAGLQQQQSPFNSIPSNPSTPLASSTSKSANKTKKPRGSKKAPKFDEEDEEVEKYSDWTFELFENYQEGVLENG 702 (1387)
T ss_pred hHHHHhhhcccccCCCCCCCCCCCCCcccchhhhhhcccCCcccCcCCCCcccccccccchhhHHHHHHhhhhcccccCC
Confidence 000000000000000000000111111111 111223788899999988999999
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCC------CcccccCCccEEEecCCCCHHHHHHHHHH
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGK------QGKLWKKGKDWYRLDGRTESSERQKLVER 1191 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~------~~~~w~~Gi~y~rLdGsts~~eRq~lI~~ 1191 (1479)
+|+..+++++.+....|+|+|||||.+.+|++|+.+|.+...+.+ .+..|.+++.|+++||.++...|+++|++
T Consensus 703 pk~V~~~~~~des~~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinq 782 (1387)
T KOG1016|consen 703 PKIVISLEILDESTQIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQ 782 (1387)
T ss_pred CceEEEEeeeccccccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHh
Confidence 999999999999999999999999999999999999998765533 34569999999999999999999999999
Q ss_pred HhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHH
Q 000464 1192 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVT 1271 (1479)
Q Consensus 1192 FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~ 1271 (1479)
||+.++-. ++||+||+||.+||||.+||++||||..|||+++.||++|+||+||+|+|+|||||+.+|+|.+||+||+.
T Consensus 783 fN~e~~ls-Wlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIs 861 (1387)
T KOG1016|consen 783 FNSEPGLS-WLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQIS 861 (1387)
T ss_pred ccCCCCce-eeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHh
Confidence 99987765 79999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccccccccCCHHHHHhcccCCCCCCCChhhhhhhccCCCCCCCcccccccCCCCCCCCCchHHHHHHhccc
Q 000464 1272 KEGLAARVVDRQQVHRTISKEEMLHLFEFGDDENPDPLTAVSKENGQGSSQNTNCALKHKLPLSHEGCSDKLMESLLGKH 1351 (1479)
Q Consensus 1272 K~~La~rVVd~~~~~r~~s~~EL~~Lf~~~~de~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~ll~~ll~~~ 1351 (1479)
|++|.+||||+.++..+||+.|+..|+.+.+... ++..++. ..+. ..+.|..+..+....
T Consensus 862 KqGmsdRvVDd~np~an~s~Ke~enLl~~~ea~~-~~~~~vn----------L~~~---------g~~~~e~~~~~t~~m 921 (1387)
T KOG1016|consen 862 KQGMSDRVVDDANPDANISQKELENLLMYDEAQD-VNHDKVN----------LTDD---------GDFGDEVLDSITKRM 921 (1387)
T ss_pred hccchhhhhcccCccccccHHHHHHHhhhhhccc-Cccccce----------ecCC---------CCccchhhhhhhhhc
Confidence 9999999999999999999999999998876221 1111110 0111 112355555666556
Q ss_pred CCCcccc-ccccchhccccccccCCHHHHHHHHHHHHHh
Q 000464 1352 HPRWISN-YHEHETLLQENEEERLSKEEQDMAWEVFRKS 1389 (1479)
Q Consensus 1352 ~~~~i~~-~~eh~sll~~~~ee~lt~ee~~~a~~~y~~~ 1389 (1479)
.|.++.+ +|+|++|+-+.+...|++.|+++|...|.+.
T Consensus 922 sp~~~~KkPf~he~l~~n~~shsl~k~EK~~a~~~~~~d 960 (1387)
T KOG1016|consen 922 SPMFAGKKPFLHETLIMNSESHSLSKQEKREAQLLFDRD 960 (1387)
T ss_pred CcccccCCCccccccCcCccccchhHHHHhHhhhhhhhh
Confidence 6777755 9999999999999999999999999999987
No 3
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=1.8e-102 Score=932.11 Aligned_cols=498 Identities=37% Similarity=0.615 Sum_probs=442.9
Q ss_pred CCcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEE
Q 000464 710 GEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALI 789 (1479)
Q Consensus 710 ~~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLI 789 (1479)
-+..+.||..|...|+|||++||+|||+.+. .+.||||+||||||||+|+|+||+.++.++.. .+|+||
T Consensus 192 ~~~~~~vPg~I~~~Lf~yQreGV~WL~~L~~----------q~~GGILgDeMGLGKTIQiisFLaaL~~S~k~-~~paLI 260 (923)
T KOG0387|consen 192 LEGGFKVPGFIWSKLFPYQREGVQWLWELYC----------QRAGGILGDEMGLGKTIQIISFLAALHHSGKL-TKPALI 260 (923)
T ss_pred ccccccccHHHHHHhhHHHHHHHHHHHHHHh----------ccCCCeecccccCccchhHHHHHHHHhhcccc-cCceEE
Confidence 3456899999999999999999999999764 46899999999999999999999999887543 489999
Q ss_pred EechhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHH----------H-HHHHHhhcCCEEEEecccccccccccccc
Q 000464 790 VTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRA----------E-LLAKWRAKGGVFLIGYTAFRNLSFGKHVK 858 (1479)
Q Consensus 790 V~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~----------~-~l~~w~~~~~VvItsYe~fr~l~~~k~~k 858 (1479)
|||++++.||.+||++|+|. ++|+++|+.....|. . +...-...++|+||+|+.|+...
T Consensus 261 VCP~Tii~qW~~E~~~w~p~----~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~------ 330 (923)
T KOG0387|consen 261 VCPATIIHQWMKEFQTWWPP----FRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG------ 330 (923)
T ss_pred EccHHHHHHHHHHHHHhCcc----eEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC------
Confidence 99999999999999999997 899999987652211 1 11122356789999999998532
Q ss_pred chhhHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHH
Q 000464 859 DRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFR 938 (1479)
Q Consensus 859 d~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~ 938 (1479)
..++...|++||+||||+|||++|+++.+++++++.+||+||||||||||.|||++|+|+.||.||+...|.
T Consensus 331 --------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~ 402 (923)
T KOG0387|consen 331 --------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQ 402 (923)
T ss_pred --------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHH
Confidence 124455899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh-cCCCCeEEEEEecCCHHHHHHHHHHHHhhcc
Q 000464 939 NRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGF 1017 (1479)
Q Consensus 939 ~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~-~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~ 1017 (1479)
+.|..||..|.+.++++..++..++++..|+.+|+||++||++.++.. .||.|.+.|++|.||+.|+.+|..|++....
T Consensus 403 ~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~v 482 (923)
T KOG0387|consen 403 QNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSEV 482 (923)
T ss_pred hhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHHH
Confidence 999999999999999999999999999999999999999999999999 9999999999999999999999999875322
Q ss_pred cccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccc
Q 000464 1018 TNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFF 1097 (1479)
Q Consensus 1018 ~~~~~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~ 1097 (1479)
.. .-....+.+..+..||+|||||.|+....+..
T Consensus 483 ~~----i~ng~~~~l~Gi~iLrkICnHPdll~~~~~~~------------------------------------------ 516 (923)
T KOG0387|consen 483 NK----ILNGKRNCLSGIDILRKICNHPDLLDRRDEDE------------------------------------------ 516 (923)
T ss_pred HH----HHcCCccceechHHHHhhcCCcccccCccccc------------------------------------------
Confidence 10 00112356889999999999999986321000
Q ss_pred hhhhhhhhhhhccc-cccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEe
Q 000464 1098 QKDWWNDLLHEHTY-KELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRL 1176 (1479)
Q Consensus 1098 ~~~~~~~ll~~~~~-~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rL 1176 (1479)
....++ ..+..||||.+|..+|..|...|+|||+|||...||++|+.+|.. ..|+.|+||
T Consensus 517 --------~~~~D~~g~~k~sGKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~-----------~~~ysylRm 577 (923)
T KOG0387|consen 517 --------KQGPDYEGDPKRSGKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRR-----------AKGYSYLRM 577 (923)
T ss_pred --------ccCCCcCCChhhcchHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHh-----------cCCceEEEe
Confidence 000111 345679999999999999999999999999999999999999994 269999999
Q ss_pred cCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEE
Q 000464 1177 DGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLM 1256 (1479)
Q Consensus 1177 dGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLI 1256 (1479)
||+|+...|+.+|++||+ +..++|||++|+|||+|+|||+|||||||||+|||++|.||..|+|||||+|.|.||||+
T Consensus 578 DGtT~~~~R~~lVd~Fne--~~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV~VYRL~ 655 (923)
T KOG0387|consen 578 DGTTPAALRQKLVDRFNE--DESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDVVVYRLM 655 (923)
T ss_pred cCCCccchhhHHHHhhcC--CCceEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccceEEEEEe
Confidence 999999999999999998 466789999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHhcccCCCC
Q 000464 1257 AHGTMEEKIYKRQVTKEGLAARVVDRQQVHRTISKEEMLHLFEFGDD 1303 (1479)
Q Consensus 1257 a~gTIEEkI~~rq~~K~~La~rVVd~~~~~r~~s~~EL~~Lf~~~~d 1303 (1479)
+.|||||+||.||+.|+.|.++++......|.|...+|.+||.+.+.
T Consensus 656 t~gTIEEkiY~rQI~Kq~Ltn~il~~p~q~RfF~~~dl~dLFsl~~~ 702 (923)
T KOG0387|consen 656 TAGTIEEKIYHRQIFKQFLTNRILKNPEQRRFFKGNDLHDLFSLKDF 702 (923)
T ss_pred cCCcHHHHHHHHHHHHHHHHHHHhcCHHHhhhcccccHHHHhCCCCC
Confidence 99999999999999999999999999999999999999999999884
No 4
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=4.5e-92 Score=837.69 Aligned_cols=483 Identities=34% Similarity=0.509 Sum_probs=412.0
Q ss_pred cCchhh-hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh
Q 000464 716 IPSSIS-AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 794 (1479)
Q Consensus 716 vP~~L~-~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s 794 (1479)
-|..+. +.|||||++|+.||+..+ ..|.+|||||+||||||+|+|+|+.++....+ -.+|+||+||.|
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~----------engingILaDEMGLGKTlQtIs~l~yl~~~~~-~~GPfLVi~P~S 227 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLY----------ENGINGILADEMGLGKTLQTISLLGYLKGRKG-IPGPFLVIAPKS 227 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHH----------hcCcccEeehhcccchHHHHHHHHHHHHHhcC-CCCCeEEEeeHh
Confidence 477777 899999999999998754 46789999999999999999999998866433 358999999999
Q ss_pred hHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHh--hcCCEEEEeccccccccccccccchhhHHHHHhhhcC
Q 000464 795 VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 872 (1479)
Q Consensus 795 Ll~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~--~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~ 872 (1479)
++.||.+||.+|+|. ++++.++|.. ..|..++.... ...+|+||||++.-+ +.. .+-..
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--------DKS------FLKKF 288 (971)
T ss_pred hHHHHHHHHHHhCCC----cceEEEeCCH-HHHHHHHHHhhccCCCceEeehHHHHHh--------hHH------HHhcC
Confidence 999999999999998 8899998865 45555555543 356899999998532 211 22234
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCC
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 952 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~d 952 (1479)
.|.++||||||+|||.+|.+++.++.+++.+|++|||||+||||.|||++++||.|.+|++...|..||...+..+.
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 99999999999999999999999999999999999999999999999999999999999999999999986533221
Q ss_pred CChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 953 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 953 st~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
. .....||.+|+||++||.+.+|...||||.|.+++|.||+.|++.|+.++...-..... ........+.
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----ELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLDALNG-EGKGEKTKLQ 435 (971)
T ss_pred -----H----HHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcchhhcc-cccchhhHHH
Confidence 1 13445999999999999999999999999999999999999999999998753221111 1111245788
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccc
Q 000464 1033 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 1112 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 1112 (1479)
..++.||++||||+|+..... +.+ +. ....
T Consensus 436 NI~mQLRKccnHPYLF~g~eP-g~p--------------------------------------yt-----------tdeh 465 (971)
T KOG0385|consen 436 NIMMQLRKCCNHPYLFDGAEP-GPP--------------------------------------YT-----------TDEH 465 (971)
T ss_pred HHHHHHHHhcCCccccCCCCC-CCC--------------------------------------CC-----------cchH
Confidence 999999999999999964211 100 00 0112
Q ss_pred ccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHH
Q 000464 1113 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1192 (1479)
Q Consensus 1113 ~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~F 1192 (1479)
.+..||||.+|.++|..+.+.|+|||||||++.|||+|++|+.- +|+.|+||||+|+.++|...|+.|
T Consensus 466 Lv~nSGKm~vLDkLL~~Lk~~GhRVLIFSQmt~mLDILeDyc~~------------R~y~ycRiDGSt~~eeR~~aI~~f 533 (971)
T KOG0385|consen 466 LVTNSGKMLVLDKLLPKLKEQGHRVLIFSQMTRMLDILEDYCML------------RGYEYCRLDGSTSHEEREDAIEAF 533 (971)
T ss_pred HHhcCcceehHHHHHHHHHhCCCeEEEeHHHHHHHHHHHHHHHh------------cCceeEeecCCCCcHHHHHHHHhc
Confidence 35679999999999999999999999999999999999999974 799999999999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000464 1193 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1272 (1479)
Q Consensus 1193 N~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K 1272 (1479)
|.++ ...+|||+||+|||+||||++|++||+||.+|||..|.||.+|+|||||+|+|.|||||+++||||+|+.|+..|
T Consensus 534 n~~~-s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~K 612 (971)
T KOG0385|consen 534 NAPP-SEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAK 612 (971)
T ss_pred CCCC-cceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHHH
Confidence 9975 457899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccc----cccccCCHHHHHhcccCCCCC
Q 000464 1273 EGLAARVVDRQ----QVHRTISKEEMLHLFEFGDDE 1304 (1479)
Q Consensus 1273 ~~La~rVVd~~----~~~r~~s~~EL~~Lf~~~~de 1304 (1479)
..|.+.||+.. +.....+..++..+..++.+.
T Consensus 613 L~Ld~~VIq~g~l~~~~~~~~~k~~~l~~~r~g~~~ 648 (971)
T KOG0385|consen 613 LRLDKLVIQQGRLEEQKSNGLGKDELLNLLRFGADP 648 (971)
T ss_pred hchhhhhhccCchhhhhccccchHHHHHHHHcCchh
Confidence 99999999987 333456789999999988753
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=3.2e-86 Score=813.14 Aligned_cols=522 Identities=32% Similarity=0.511 Sum_probs=435.5
Q ss_pred cchhhhccccCCcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 700 GYIVNVVREKGEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 700 ~~i~~~~~~~~~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
+++.....+..-+.+.+|-.|...||.||.+||.|+- + +++ .+..|||||+||||||+|+|++++.-...
T Consensus 952 kFLeqlldpski~~y~Ip~pI~a~LRkYQqEGVnWLa--F---Lnk-----y~LHGILcDDMGLGKTLQticilAsd~y~ 1021 (1549)
T KOG0392|consen 952 KFLEQLLDPSKIPEYKIPVPISAKLRKYQQEGVNWLA--F---LNK-----YKLHGILCDDMGLGKTLQTICILASDHYK 1021 (1549)
T ss_pred HHHHHhcCcccCCccccccchhHHHHHHHHhccHHHH--H---HHH-----hcccceeeccccccHHHHHHHHHHHHHHh
Confidence 3444455566667899999999999999999999983 2 232 34689999999999999999999765433
Q ss_pred c-----ccCCCceEEEechhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEecccccccccc
Q 000464 780 V-----NLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFG 854 (1479)
Q Consensus 780 ~-----~~~~k~vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~ 854 (1479)
. .....|.|||||.+|+.+|+.|+.+|+|. ++|..|-|.. ..|.... .-.++.+|+|++|+.+|+
T Consensus 1022 r~s~~~e~~~~PSLIVCPsTLtGHW~~E~~kf~pf----L~v~~yvg~p-~~r~~lR-~q~~~~~iiVtSYDv~Rn---- 1091 (1549)
T KOG0392|consen 1022 RRSESSEFNRLPSLIVCPSTLTGHWKSEVKKFFPF----LKVLQYVGPP-AERRELR-DQYKNANIIVTSYDVVRN---- 1091 (1549)
T ss_pred hcccchhhccCCeEEECCchhhhHHHHHHHHhcch----hhhhhhcCCh-HHHHHHH-hhccccceEEeeHHHHHH----
Confidence 2 11245899999999999999999999997 6666666644 3333332 334677999999999985
Q ss_pred ccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCCh
Q 000464 855 KHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS 934 (1479)
Q Consensus 855 k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~ 934 (1479)
++..+....|.|+|+||||-|||..+++++++++|++.+|++|||||||||+.|||++|+||+||++|+.
T Consensus 1092 ----------D~d~l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtE 1161 (1549)
T KOG0392|consen 1092 ----------DVDYLIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTE 1161 (1549)
T ss_pred ----------HHHHHHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcH
Confidence 3344556699999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhcCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHh
Q 000464 935 HEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDL 1014 (1479)
Q Consensus 935 ~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~ 1014 (1479)
+.|..+|.+||.......++..+.+.+..+...||+.+-||++||.+.+|.++||||..+.++|.|+|.|+++|+.|...
T Consensus 1162 KqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~ 1241 (1549)
T KOG0392|consen 1162 KQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKK 1241 (1549)
T ss_pred HHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred hccccc----c-cchHH-HHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhh
Q 000464 1015 HGFTND----R-VSNEK-IRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFL 1088 (1479)
Q Consensus 1015 ~~~~~~----~-~~~~~-~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~ 1088 (1479)
...... . ....+ ....+|.+++.+|++||||.|...... + ......
T Consensus 1242 ~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~h---p-------------------------~la~i~ 1293 (1549)
T KOG0392|consen 1242 AKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVH---P-------------------------DLAAIV 1293 (1549)
T ss_pred hccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCc---c-------------------------hHHHHH
Confidence 211100 0 00011 145789999999999999998743110 0 000000
Q ss_pred cCCCCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHhhc--------------CCCeEEEEcCchhhHHHHHHHH
Q 000464 1089 QGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSN--------------MGDKSLVFSQSIPTLDLIEFYL 1154 (1479)
Q Consensus 1089 ~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~--------------~G~KVLIFSQ~~~tLdlLe~~L 1154 (1479)
.... .......++.+|+|+.+|.++|.+|-- .+||+|||+|+..|+|++++-|
T Consensus 1294 -----------~~l~--~~~~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL 1360 (1549)
T KOG0392|consen 1294 -----------SHLA--HFNSSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDL 1360 (1549)
T ss_pred -----------HHHH--HhhhhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHH
Confidence 0000 011123456789999999999998731 3789999999999999999988
Q ss_pred hcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchH
Q 000464 1155 SKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYD 1234 (1479)
Q Consensus 1155 ~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d 1234 (1479)
-+- ....+.|.|+||++++.+|++++++||++ +.+.|+|++|.+||+|||||+||+|||++.+|||..|
T Consensus 1361 ~k~---------~mpsVtymRLDGSVpp~~R~kiV~~FN~D--ptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrD 1429 (1549)
T KOG0392|consen 1361 FKK---------YMPSVTYMRLDGSVPPGDRQKIVERFNED--PTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRD 1429 (1549)
T ss_pred hhh---------hcCceeEEEecCCCCcHHHHHHHHHhcCC--CceeEEEEeeeccccccccCCCceEEEEecCCCchhh
Confidence 762 23467899999999999999999999995 5678899999999999999999999999999999999
Q ss_pred HHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHhccc-CCCC
Q 000464 1235 LQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLFE-FGDD 1303 (1479)
Q Consensus 1235 ~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~~~~-r~~s~~EL~~Lf~-~~~d 1303 (1479)
.||++|||||||+|.|.|||||++||+||||+..|.+|...++.||..++.. ..+..++|.+||+ .+.|
T Consensus 1430 LQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqNasl~tM~TdqLLdlF~~~~gd 1500 (1549)
T KOG0392|consen 1430 LQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQNASLETMDTDQLLDLFTVLDGD 1500 (1549)
T ss_pred HHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhcccccccccCHHHHHHHhcccCCc
Confidence 9999999999999999999999999999999999999999999999998876 5899999999998 4443
No 6
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=4.8e-85 Score=808.38 Aligned_cols=480 Identities=34% Similarity=0.501 Sum_probs=403.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
..||.||++|+.||.-.+. .+.+||||||||||||+|+|+||.++...... .+|+|||||.|++.+|..
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 6899999999999987663 56899999999999999999999999887653 589999999999999999
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHh--h-----cCCEEEEeccccccccccccccchhhHHHHHhhhcCCC
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWR--A-----KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 874 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~--~-----~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~ 874 (1479)
||..|+ . +++++|+|....+.....-.|. . +.+++||||+++- ++..+ +-...|
T Consensus 438 ef~~w~-~----mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~L--------kDk~~------L~~i~w 498 (1373)
T KOG0384|consen 438 EFETWT-D----MNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVL--------KDKAE------LSKIPW 498 (1373)
T ss_pred HHHHHh-h----hceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHh--------ccHhh------hccCCc
Confidence 999999 4 7888888865433222222232 1 4678999999863 22222 223489
Q ss_pred CEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCC
Q 000464 875 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 954 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst 954 (1479)
.++++||||++||..|.++..+..++..+|+++||||+|||+.|||+|++||+|+-|.+..+|...|.. .+
T Consensus 499 ~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~~~---------~~ 569 (1373)
T KOG0384|consen 499 RYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEFDE---------ET 569 (1373)
T ss_pred ceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhhcc---------hh
Confidence 999999999999999999999999999999999999999999999999999999999999999987721 11
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhc-ccccccchHHHHhhHHH
Q 000464 955 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHG-FTNDRVSNEKIRKSFFA 1033 (1479)
Q Consensus 955 ~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~-~~~~~~~~~~~~~s~l~ 1033 (1479)
. .-.+.|+..|+||++||.+++|.+.||+|.|.++.|.||..|++.|+.+|...- +.... ..+...+++.
T Consensus 570 e-------~~~~~L~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG--~~g~~~~lLN 640 (1373)
T KOG0384|consen 570 E-------EQVRKLQQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKG--AKGSTPSLLN 640 (1373)
T ss_pred H-------HHHHHHHHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhcc--CCCCCchHHH
Confidence 1 124569999999999999999999999999999999999999999999987431 11111 1122257999
Q ss_pred HHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccc
Q 000464 1034 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 1113 (1479)
Q Consensus 1034 ~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 1113 (1479)
.++.|+++||||+|+..+...-.. ++.. . . .....-..
T Consensus 641 immELkKccNHpyLi~gaee~~~~----------------------------~~~~-~-----~--------~d~~L~~l 678 (1373)
T KOG0384|consen 641 IMMELKKCCNHPYLIKGAEEKILG----------------------------DFRD-K-----M--------RDEALQAL 678 (1373)
T ss_pred HHHHHHHhcCCccccCcHHHHHHH----------------------------hhhh-c-----c--------hHHHHHHH
Confidence 999999999999998643321100 0000 0 0 01112234
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
+..||||.+|.++|..+.+.|||||||||++.|||+|++||.. +|++|-||||+++.+-|+.+|++||
T Consensus 679 I~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~------------r~ypfQRLDGsvrgelRq~AIDhFn 746 (1373)
T KOG0384|consen 679 IQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSL------------RGYPFQRLDGSVRGELRQQAIDHFN 746 (1373)
T ss_pred HHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHH------------cCCcceeccCCcchHHHHHHHHhcc
Confidence 5779999999999999999999999999999999999999996 7999999999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHH
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKE 1273 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~ 1273 (1479)
.+.+. -+|||+||+|||+||||+.|++|||||.+|||.+|.||..|+|||||++.|.|||||+.||+|+-|++|+..|.
T Consensus 747 ap~Sd-dFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~Km 825 (1373)
T KOG0384|consen 747 APDSD-DFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKM 825 (1373)
T ss_pred CCCCC-ceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHHHHHh
Confidence 98655 56999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccc------ccccCCHHHHHhcccCCCCC
Q 000464 1274 GLAARVVDRQQ------VHRTISKEEMLHLFEFGDDE 1304 (1479)
Q Consensus 1274 ~La~rVVd~~~------~~r~~s~~EL~~Lf~~~~de 1304 (1479)
.|-..||.... -...|+++||.+|+.|+..+
T Consensus 826 vLD~aVIQ~m~t~~~~s~~~~f~K~ELsaILKfGA~~ 862 (1373)
T KOG0384|consen 826 VLDHAVIQRMDTKGKTSKSNPFSKEELSAILKFGAYE 862 (1373)
T ss_pred hhHHHHHHhhccccccCCCCCCCHHHHHHHHHhchHH
Confidence 99999987654 24589999999999998754
No 7
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=3e-83 Score=765.62 Aligned_cols=510 Identities=33% Similarity=0.434 Sum_probs=392.1
Q ss_pred cCchhh--hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech
Q 000464 716 IPSSIS--AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 793 (1479)
Q Consensus 716 vP~~L~--~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~ 793 (1479)
.|+.+. ..|+|||+.||.||.-.+ ..+-.||||||||||||+|+|||++++.+.+. .+|.|||||+
T Consensus 390 qp~~l~s~i~LkdYQlvGvNWL~Lly----------k~~l~gILADEMGLGKTiQvIaFlayLkq~g~--~gpHLVVvPs 457 (941)
T KOG0389|consen 390 QPKLLSSGIQLKDYQLVGVNWLLLLY----------KKKLNGILADEMGLGKTIQVIAFLAYLKQIGN--PGPHLVVVPS 457 (941)
T ss_pred CccccCCCCcccchhhhhHHHHHHHH----------HccccceehhhccCcchhHHHHHHHHHHHcCC--CCCcEEEecc
Confidence 444443 459999999999996433 45678899999999999999999999988876 5799999999
Q ss_pred hhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHH---hhcCCEEEEeccccccccccccccchhhHHHHHhhh
Q 000464 794 NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW---RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 870 (1479)
Q Consensus 794 sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w---~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL 870 (1479)
|++.||.+||.+|+|. ++|..|+|+.. .|..+.... ...++|++|||..+.. ...++.+.+
T Consensus 458 STleNWlrEf~kwCPs----l~Ve~YyGSq~-ER~~lR~~i~~~~~~ydVllTTY~la~~-----~kdDRsflk------ 521 (941)
T KOG0389|consen 458 STLENWLREFAKWCPS----LKVEPYYGSQD-ERRELRERIKKNKDDYDVLLTTYNLAAS-----SKDDRSFLK------ 521 (941)
T ss_pred hhHHHHHHHHHHhCCc----eEEEeccCcHH-HHHHHHHHHhccCCCccEEEEEeecccC-----ChHHHHHHH------
Confidence 9999999999999998 99999999763 333333222 3367999999998753 122333322
Q ss_pred cCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCCh-HHHHhhhcCCcccCC
Q 000464 871 QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-HEFRNRFQNPIENGQ 949 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~-~eF~~~F~~PI~~g~ 949 (1479)
...|++||.||||.+||..|.+++.+..++++.|++|||||+||||.||++|+.|+.|++|.+. ..+...|..--
T Consensus 522 ~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~---- 597 (941)
T KOG0389|consen 522 NQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKK---- 597 (941)
T ss_pred hccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccC----
Confidence 3389999999999999999999999999999999999999999999999999999999999765 45665554311
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHh
Q 000464 950 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 1029 (1479)
Q Consensus 950 ~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~ 1029 (1479)
..++.....-+...|...-..+++||++||.+++|.++||||..++.+|.|+..|+.+|..+++................
T Consensus 598 ~~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~ns~~~ 677 (941)
T KOG0389|consen 598 TSDGDIENALLSQERISRAKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKNSELK 677 (941)
T ss_pred CccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccccccc
Confidence 11333344444555677788899999999999999999999999999999999999999999886532211111111111
Q ss_pred hHHHHHHHHHHHhcCcchhhhccccCCCCCc---cccCC-CCcccccccccccCCCccchhhhcCCCCCccchhhhhhhh
Q 000464 1030 SFFAGYQALAQIWNHPGILQLTKDKGYPSRE---DAEDS-SSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDL 1105 (1479)
Q Consensus 1030 s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~e---d~dd~-~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~l 1105 (1479)
+ -..++.||+++|||.|+...-........ -..+. ..+.+. ....+.+..+.||.-. ..+..+
T Consensus 678 ~-~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~il~e~ay~~~n~---qyIfEDm~~msDfelH---------qLc~~f 744 (941)
T KOG0389|consen 678 S-GNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRILNEPAYKKANE---QYIFEDMEVMSDFELH---------QLCCQF 744 (941)
T ss_pred c-chHHHHHHHHhcChhHHHHhccHHHHHHHHHHHhCchhhhhcCH---HHHHHHHHhhhHHHHH---------HHHHhc
Confidence 1 45789999999999998642110000000 00000 000000 0001111111121100 000000
Q ss_pred hhhc----cccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCC
Q 000464 1106 LHEH----TYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE 1181 (1479)
Q Consensus 1106 l~~~----~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts 1181 (1479)
-.-. .-..+-.|||+..|..+|..+...|+||||||||+.|||+|+.+|.. .|+.|.|+||+|.
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 01123359999999999999999999999999999999999999997 5899999999999
Q ss_pred HHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCH
Q 000464 1182 SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1261 (1479)
Q Consensus 1182 ~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTI 1261 (1479)
...||.+|+.||. +..++|||+||+|||.||||++||+|||+|.++||..+.||.+|+||+||+|||+|||||+++||
T Consensus 813 V~~RQ~lId~Fn~--d~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk~TI 890 (941)
T KOG0389|consen 813 VNDRQDLIDEFNT--DKDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTI 890 (941)
T ss_pred chHHHHHHHhhcc--CCceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEecCcH
Confidence 9999999999998 46688999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc
Q 000464 1262 EEKIYKRQVTKEGLAARVVDRQQ 1284 (1479)
Q Consensus 1262 EEkI~~rq~~K~~La~rVVd~~~ 1284 (1479)
||.|+..+..|..|-..+.+...
T Consensus 891 EE~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 891 EEGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred HHHHHHHHHHhhhhhhhhccCcc
Confidence 99999999999999888876543
No 8
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=5.4e-82 Score=811.54 Aligned_cols=481 Identities=31% Similarity=0.463 Sum_probs=404.1
Q ss_pred ccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh
Q 000464 715 RIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN 794 (1479)
Q Consensus 715 ~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s 794 (1479)
..|..+...|||||++|++||+..+ ..+.||||||+||||||+|+|+++.++.... ...+|+|||||++
T Consensus 161 ~qP~~i~~~Lr~YQleGlnWLi~l~----------~~g~gGILADEMGLGKTlQaIalL~~L~~~~-~~~gp~LIVvP~S 229 (1033)
T PLN03142 161 VQPSCIKGKMRDYQLAGLNWLIRLY----------ENGINGILADEMGLGKTLQTISLLGYLHEYR-GITGPHMVVAPKS 229 (1033)
T ss_pred cCChHhccchHHHHHHHHHHHHHHH----------hcCCCEEEEeCCCccHHHHHHHHHHHHHHhc-CCCCCEEEEeChH
Confidence 4688899999999999999998753 3578999999999999999999998876542 2357999999999
Q ss_pred hHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHH--hhcCCEEEEeccccccccccccccchhhHHHHHhhhcC
Q 000464 795 VLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 872 (1479)
Q Consensus 795 Ll~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w--~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~ 872 (1479)
++.||.+||.+|+|. ++++.+++....+ ......+ ...++|+||+|+++.. ....+...
T Consensus 230 lL~nW~~Ei~kw~p~----l~v~~~~G~~~eR-~~~~~~~~~~~~~dVvITSYe~l~~--------------e~~~L~k~ 290 (1033)
T PLN03142 230 TLGNWMNEIRRFCPV----LRAVKFHGNPEER-AHQREELLVAGKFDVCVTSFEMAIK--------------EKTALKRF 290 (1033)
T ss_pred HHHHHHHHHHHHCCC----CceEEEeCCHHHH-HHHHHHHhcccCCCcceecHHHHHH--------------HHHHhccC
Confidence 999999999999986 7888888765432 2222222 2457899999998753 11223345
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCC
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 952 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~d 952 (1479)
.|++|||||||+|||+.|+++++++.+++++||+|||||++|++.|||+|++||.|+.|++...|..+|..+...+.
T Consensus 291 ~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~--- 367 (1033)
T PLN03142 291 SWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQ--- 367 (1033)
T ss_pred CCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccch---
Confidence 89999999999999999999999999999999999999999999999999999999999999999999986322110
Q ss_pred CChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 953 STSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 953 st~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
......|+.+|.||++||++.++...|||+.+.+++|.||+.|+.+|..++....... ........++
T Consensus 368 ---------~e~i~~L~~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l---~~g~~~~~Ll 435 (1033)
T PLN03142 368 ---------QEVVQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVV---NAGGERKRLL 435 (1033)
T ss_pred ---------HHHHHHHHHHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH---hccccHHHHH
Confidence 1234568999999999999999999999999999999999999999999886421111 1112234678
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccc
Q 000464 1033 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 1112 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 1112 (1479)
..++.||++|+||+++...... .++.. ...
T Consensus 436 nilmqLRk~cnHP~L~~~~ep~---------------------------------------~~~~~-----------~e~ 465 (1033)
T PLN03142 436 NIAMQLRKCCNHPYLFQGAEPG---------------------------------------PPYTT-----------GEH 465 (1033)
T ss_pred HHHHHHHHHhCCHHhhhccccc---------------------------------------Ccccc-----------hhH
Confidence 8899999999999987421100 00000 001
Q ss_pred ccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHH
Q 000464 1113 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1192 (1479)
Q Consensus 1113 ~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~F 1192 (1479)
.+..|+|+.+|.++|..+...|+||||||||+.++++|+++|.. .|+.|++|||+|+..+|+.+|++|
T Consensus 466 lie~SgKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~------------~g~~y~rIdGsts~~eRq~~Id~F 533 (1033)
T PLN03142 466 LVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMY------------RGYQYCRIDGNTGGEDRDASIDAF 533 (1033)
T ss_pred HhhhhhHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHH------------cCCcEEEECCCCCHHHHHHHHHHh
Confidence 23568999999999999999999999999999999999999986 689999999999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000464 1193 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1272 (1479)
Q Consensus 1193 N~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K 1272 (1479)
|++++. ..|||+||+|||+||||+.||+||+||++|||+.+.||+||+|||||+++|+||||++.|||||+|+.|+..|
T Consensus 534 n~~~s~-~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~K 612 (1033)
T PLN03142 534 NKPGSE-KFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKK 612 (1033)
T ss_pred ccccCC-ceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHH
Confidence 986443 4589999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccccc--cccCCHHHHHhcccCCCC
Q 000464 1273 EGLAARVVDRQQV--HRTISKEEMLHLFEFGDD 1303 (1479)
Q Consensus 1273 ~~La~rVVd~~~~--~r~~s~~EL~~Lf~~~~d 1303 (1479)
..|...|++.... ...++.++|.+||.++.+
T Consensus 613 l~Ld~~Vi~~g~~~~~~~~~~~eL~~ll~~ga~ 645 (1033)
T PLN03142 613 LALDALVIQQGRLAEQKTVNKDELLQMVRYGAE 645 (1033)
T ss_pred HHHHHHHHhcCcccccccCCHHHHHHHHHhChH
Confidence 9999999986543 257899999999998774
No 9
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=1.2e-81 Score=775.98 Aligned_cols=516 Identities=35% Similarity=0.588 Sum_probs=420.3
Q ss_pred cccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccC---CCceE
Q 000464 712 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLG---LRTAL 788 (1479)
Q Consensus 712 ~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~---~k~vL 788 (1479)
..+.+.|.+...|||||++|++|||+++..... .....|||+||+||+|||+|+|+||+++++..+.. ..+.|
T Consensus 227 v~v~~dP~l~~~LrPHQ~EG~~FL~knl~g~~~----~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~P~~~~~~~k~l 302 (776)
T KOG0390|consen 227 VHVVIDPLLKKILRPHQREGFEFLYKNLAGLIR----PKNSGGCIMADEPGLGKTLQCISFIWTLLRQFPQAKPLINKPL 302 (776)
T ss_pred ceEEecccHhhhcCchHHHHHHHHHhhhhcccc----cCCCCceEeeCCCCcchHHHHHHHHHHHHHhCcCccccccccE
Confidence 457889999999999999999999999876422 02568999999999999999999999999886531 25889
Q ss_pred EEechhhHHHHHHHHHHhCCC-CCCCeEEEEecCcchhHHHHHHHHHh------hcCCEEEEeccccccccccccccchh
Q 000464 789 IVTPVNVLHNWKQEFMKWRPS-ELKPLRVFMLEDVSRDRRAELLAKWR------AKGGVFLIGYTAFRNLSFGKHVKDRN 861 (1479)
Q Consensus 789 IV~P~sLl~qW~~E~~kw~P~-~~~~l~V~~l~g~~~~~r~~~l~~w~------~~~~VvItsYe~fr~l~~~k~~kd~~ 861 (1479)
||||.+||.||.+||.+|... .+.++.++ +.... .......|. -..-|.+++|++++
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 33322 111111111 12346777777765
Q ss_pred hHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhh
Q 000464 862 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRF 941 (1479)
Q Consensus 862 ~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F 941 (1479)
+....++...|++|||||||++||..|.+.+++..+++++||+|||||+||++.|||++++|++|++||+...|.+.|
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 234566777999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccc
Q 000464 942 QNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 1021 (1479)
Q Consensus 942 ~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~ 1021 (1479)
..|+..++..+.+..+... ..+...|..+...|++||+.+.+.+.||++.+++|+|.+|+.|..+|..+++.. .
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 9999999998888877766 566888999999999999999999999999999999999999999999998753 1
Q ss_pred cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhh
Q 000464 1022 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 1101 (1479)
Q Consensus 1022 ~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~ 1101 (1479)
........+..+..|.++||||.|+........ + +........
T Consensus 519 --~~~~~~~~l~~~~~L~k~cnhP~L~~~~~~~~~---e-------~~~~~~~~~------------------------- 561 (776)
T KOG0390|consen 519 --MRTLKGYALELITKLKKLCNHPSLLLLCEKTEK---E-------KAFKNPALL------------------------- 561 (776)
T ss_pred --hhhhhcchhhHHHHHHHHhcCHHhhcccccccc---c-------ccccChHhh-------------------------
Confidence 111222367888899999999999852111000 0 000000000
Q ss_pred hhhhhhhccccccccChhHHHHHHHHHHhhcC-CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCC
Q 000464 1102 WNDLLHEHTYKELDYSGKMVLLLDILTMCSNM-GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRT 1180 (1479)
Q Consensus 1102 ~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~~-G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGst 1180 (1479)
...............|+|+..|..+|..+.+. -.++++-|+++.++++++.+++ |. |+.+++|||+|
T Consensus 562 ~~~~~~~~~~~~~~ks~kl~~L~~ll~~~~ek~~~~~v~Isny~~tldl~e~~~~-----------~~-g~~~~rLdG~~ 629 (776)
T KOG0390|consen 562 LDPGKLKLDAGDGSKSGKLLVLVFLLEVIREKLLVKSVLISNYTQTLDLFEQLCR-----------WR-GYEVLRLDGKT 629 (776)
T ss_pred hcccccccccccchhhhHHHHHHHHHHHHhhhcceEEEEeccHHHHHHHHHHHHh-----------hc-CceEEEEcCCC
Confidence 00000011122334589999999998655443 4688888889999999999987 55 99999999999
Q ss_pred CHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCC
Q 000464 1181 ESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGT 1260 (1479)
Q Consensus 1181 s~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gT 1260 (1479)
+..+|+.+|+.||+++++. +|||+|++|||+||||+||+|||+|||+|||+.+.||++||||.||+|+||||||++.||
T Consensus 630 ~~~qRq~~vd~FN~p~~~~-~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatGt 708 (776)
T KOG0390|consen 630 SIKQRQKLVDTFNDPESPS-FVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATGT 708 (776)
T ss_pred chHHHHHHHHhccCCCCCc-eEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEEeecCCC
Confidence 9999999999999987664 799999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccc-ccccCCHHHHHhcccCCCCCC
Q 000464 1261 MEEKIYKRQVTKEGLAARVVDRQQ-VHRTISKEEMLHLFEFGDDEN 1305 (1479)
Q Consensus 1261 IEEkI~~rq~~K~~La~rVVd~~~-~~r~~s~~EL~~Lf~~~~de~ 1305 (1479)
+||+||+||..|+.|...|++... ..++++.+++..+|.+..++.
T Consensus 709 iEEk~~qrq~~K~~lS~~v~~~~~~~~~~~~~~~~~~lf~~~~~~~ 754 (776)
T KOG0390|consen 709 IEEKIYQRQTHKEGLSSMVFDEEEDVEKHFFTEDLKTLFDLELDTI 754 (776)
T ss_pred chHHHHHHHHHhhhhhheEEecccccccccchHHHHHHHhhhcccc
Confidence 999999999999999999999865 557888899999998776543
No 10
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=1.2e-81 Score=761.20 Aligned_cols=541 Identities=29% Similarity=0.435 Sum_probs=422.5
Q ss_pred CcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEE
Q 000464 711 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 790 (1479)
Q Consensus 711 ~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV 790 (1479)
...+.+|..|.+.||.||+.|+.||...+ .++.+||||||||||||+|+|+|++++.... ..++|.|||
T Consensus 603 qVktpvPsLLrGqLReYQkiGLdWLatLY----------eknlNGILADEmGLGKTIQtISllAhLACee-gnWGPHLIV 671 (1958)
T KOG0391|consen 603 QVKTPVPSLLRGQLREYQKIGLDWLATLY----------EKNLNGILADEMGLGKTIQTISLLAHLACEE-GNWGPHLIV 671 (1958)
T ss_pred eeccCchHHHHHHHHHHHHhhHHHHHHHH----------HhcccceehhhhcccchhHHHHHHHHHHhcc-cCCCCceEE
Confidence 34578999999999999999999997654 4678999999999999999999999876553 457999999
Q ss_pred echhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhh--cCCEEEEeccccccccccccccchhhHHHHHh
Q 000464 791 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRA--KGGVFLIGYTAFRNLSFGKHVKDRNMAREICH 868 (1479)
Q Consensus 791 ~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~--~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~ 868 (1479)
||.+++.||.-||++|+|+ ++|..|.|+.+. |....+.|.. .++|.||+|..+- ..+..
T Consensus 672 VpTsviLnWEMElKRwcPg----lKILTYyGs~kE-rkeKRqgW~kPnaFHVCItSYklv~--------------qd~~A 732 (1958)
T KOG0391|consen 672 VPTSVILNWEMELKRWCPG----LKILTYYGSHKE-RKEKRQGWAKPNAFHVCITSYKLVF--------------QDLTA 732 (1958)
T ss_pred eechhhhhhhHHHhhhCCc----ceEeeecCCHHH-HHHHhhcccCCCeeEEeehhhHHHH--------------hHHHH
Confidence 9999999999999999998 899999997654 4445577854 3589999998763 23333
Q ss_pred hhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccC
Q 000464 869 ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENG 948 (1479)
Q Consensus 869 lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g 948 (1479)
+-...|.|+|+||||+|||..|+.++++..+++++|++|||||+||+|+|||+|++||+|..|.+...|+.||.+|+..-
T Consensus 733 FkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgm 812 (1958)
T KOG0391|consen 733 FKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGM 812 (1958)
T ss_pred HHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhh
Confidence 44459999999999999999999999999999999999999999999999999999999999999999999999997532
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHH
Q 000464 949 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 1028 (1479)
Q Consensus 949 ~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~ 1028 (1479)
-.. + .....+....||+.|+||++||.+.+|.+.||.|+|++|+|+||..|+.||+.|+........ ...+..
T Consensus 813 iEg-s----qeyn~klV~RLHkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~TKet--LkSGhf 885 (1958)
T KOG0391|consen 813 IEG-S----QEYNHKLVIRLHKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGTKET--LKSGHF 885 (1958)
T ss_pred ccc-c----hhhchHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccchhhH--hhcCch
Confidence 211 1 112234556799999999999999999999999999999999999999999999875432111 112223
Q ss_pred hhHHHHHHHHHHHhcCcchhhhccc-cCC-------CCCcc-----c-----cCCC---Cc--ccccccc----------
Q 000464 1029 KSFFAGYQALAQIWNHPGILQLTKD-KGY-------PSRED-----A-----EDSS---SD--ENMDYNV---------- 1075 (1479)
Q Consensus 1029 ~s~l~~l~~LrkIcnHP~Ll~~~~~-~~~-------~~~ed-----~-----dd~~---~d--~~~d~~~---------- 1075 (1479)
.+++..+++||++||||.|+.-.-- ..+ ....+ . +... +. .......
T Consensus 886 msVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sA 965 (1958)
T KOG0391|consen 886 MSVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSA 965 (1958)
T ss_pred hHHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhcc
Confidence 4688999999999999999853211 000 00000 0 0000 00 0000000
Q ss_pred -------cccC-CCc-----------cchh--------------------------------------hhcCCC------
Q 000464 1076 -------VIGE-KPR-----------NMND--------------------------------------FLQGKN------ 1092 (1479)
Q Consensus 1076 -------~~~e-k~~-----------~~~d--------------------------------------~~~~~~------ 1092 (1479)
.... ..+ ..+. ++....
T Consensus 966 spl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~ 1045 (1958)
T KOG0391|consen 966 SPLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQ 1045 (1958)
T ss_pred cccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeee
Confidence 0000 000 0000 000000
Q ss_pred -------------------------------------------------C-Cccch-----------hhh----------
Q 000464 1093 -------------------------------------------------D-DGFFQ-----------KDW---------- 1101 (1479)
Q Consensus 1093 -------------------------------------------------~-~~~~~-----------~~~---------- 1101 (1479)
+ ..++. ..|
T Consensus 1046 htt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~ 1125 (1958)
T KOG0391|consen 1046 HTTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGG 1125 (1958)
T ss_pred eecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCcccccc
Confidence 0 00000 000
Q ss_pred ---------h----hhhh--hhccc-------------------------------------------------------
Q 000464 1102 ---------W----NDLL--HEHTY------------------------------------------------------- 1111 (1479)
Q Consensus 1102 ---------~----~~ll--~~~~~------------------------------------------------------- 1111 (1479)
+ .+++ ....+
T Consensus 1126 klee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~p 1205 (1958)
T KOG0391|consen 1126 KLEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAP 1205 (1958)
T ss_pred chhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCC
Confidence 0 0000 00000
Q ss_pred -----------------------------------------------cc-cccChhHHHHHHHHHHhhcCCCeEEEEcCc
Q 000464 1112 -----------------------------------------------KE-LDYSGKMVLLLDILTMCSNMGDKSLVFSQS 1143 (1479)
Q Consensus 1112 -----------------------------------------------~~-i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~ 1143 (1479)
.. -..+||++.|.=+|+++...|||||||+|+
T Consensus 1206 pslra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~eghRvLIfTQM 1285 (1958)
T KOG0391|consen 1206 PSLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSEGHRVLIFTQM 1285 (1958)
T ss_pred hhhcCCCCCcccchHHHHHHHHHHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhcCceEEehhHH
Confidence 00 012789999999999999999999999999
Q ss_pred hhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEE
Q 000464 1144 IPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI 1223 (1479)
Q Consensus 1144 ~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVI 1223 (1479)
+.|||+|+.||.. .|+.|+||||+|+.++|+.++++||. +.+|+|||+||+.||+||||++||+||
T Consensus 1286 tkmLDVLeqFLny------------HgylY~RLDg~t~vEqRQaLmerFNa--D~RIfcfILSTrSggvGiNLtgADTVv 1351 (1958)
T KOG0391|consen 1286 TKMLDVLEQFLNY------------HGYLYVRLDGNTSVEQRQALMERFNA--DRRIFCFILSTRSGGVGINLTGADTVV 1351 (1958)
T ss_pred HHHHHHHHHHHhh------------cceEEEEecCCccHHHHHHHHHHhcC--CCceEEEEEeccCCccccccccCceEE
Confidence 9999999999996 79999999999999999999999998 578999999999999999999999999
Q ss_pred EEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHhcccCCC
Q 000464 1224 IVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLFEFGD 1302 (1479)
Q Consensus 1224 ifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~~~~-r~~s~~EL~~Lf~~~~ 1302 (1479)
|||.+|||+.|.||.+|+|||||+|.|+|||||...|||++|+.+...|+.|-+-++++.+.. .+|++.++.+||....
T Consensus 1352 FYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdfTt~ff~q~ti~dLFd~~~ 1431 (1958)
T KOG0391|consen 1352 FYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDFTTAFFKQRTIRDLFDVYL 1431 (1958)
T ss_pred EecCCCCchhhhHHHHHHHhhcCccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCccHHHHhhhhHHHHhcCCC
Confidence 999999999999999999999999999999999999999999999999999999999998876 4889999999998743
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=2.1e-78 Score=709.50 Aligned_cols=512 Identities=31% Similarity=0.467 Sum_probs=405.2
Q ss_pred CcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEE
Q 000464 711 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 790 (1479)
Q Consensus 711 ~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV 790 (1479)
...|+.|.-+..+|+.||+.|++||...+ .+|-+|||||+||||||+|+|++++++....+. .+|+|||
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 45678899999999999999999998765 567899999999999999999999998877654 6899999
Q ss_pred echhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHH--------hhcCCEEEEeccccccccccccccchhh
Q 000464 791 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--------RAKGGVFLIGYTAFRNLSFGKHVKDRNM 862 (1479)
Q Consensus 791 ~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w--------~~~~~VvItsYe~fr~l~~~k~~kd~~~ 862 (1479)
+|+|++.||.+||.+|+|. +++.-|.|+... |..+.+.| ....+|+||+|+++.. +..+
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 888888886543 33333333 2456899999998743 3333
Q ss_pred HHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhc
Q 000464 863 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQ 942 (1479)
Q Consensus 863 ~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~ 942 (1479)
... ..|.++|+|||+.||...|.+++.+..++++.|++||||||||+..|||++++|++|.+|.+..+|..||.
T Consensus 691 ~qk------vKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFS 764 (1185)
T KOG0388|consen 691 LQK------VKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFS 764 (1185)
T ss_pred HHh------hhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHh
Confidence 332 38999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhccccccc
Q 000464 943 NPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRV 1022 (1479)
Q Consensus 943 ~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~ 1022 (1479)
+-|+..-..+.+..+ +....||.+|+|||+||.+++|..+|..|++..++|.||..|+.+|+.+-....
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 999876555555444 335569999999999999999999999999999999999999999998754321
Q ss_pred chHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCC---Cc-cc-ccc----------------c-------
Q 000464 1023 SNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSS---SD-EN-MDY----------------N------- 1074 (1479)
Q Consensus 1023 ~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~---~d-~~-~d~----------------~------- 1074 (1479)
..-++..++.||++||||.|+...........+-.+-.. +. .+ .++ +
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 112345889999999999999765433222111000000 00 00 000 0
Q ss_pred ------ccccCCCccchh-hhcCCCCCcc---------------------chhhhhhhhhh-------------------
Q 000464 1075 ------VVIGEKPRNMND-FLQGKNDDGF---------------------FQKDWWNDLLH------------------- 1107 (1479)
Q Consensus 1075 ------~~~~ek~~~~~d-~~~~~~~~~~---------------------~~~~~~~~ll~------------------- 1107 (1479)
.+.|+.+..... ..-.....+. ........++.
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 000110000000 0000000000 00000000000
Q ss_pred ------------h-----------------ccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCC
Q 000464 1108 ------------E-----------------HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLP 1158 (1479)
Q Consensus 1108 ------------~-----------------~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~ 1158 (1479)
+ ..-..+..|||+..|.++|..+...||+||+|-|.+.|+++|++||..
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 000124569999999999999999999999999999999999999986
Q ss_pred CCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHh
Q 000464 1159 RPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAI 1238 (1479)
Q Consensus 1159 ~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAI 1238 (1479)
+|+.|+|+||+.+...|..+|..|+. +.++|||+||+|||+|||||+|++|||||.+|||+.+.||+
T Consensus 1067 ----------r~Y~ylRLDGSsk~~dRrd~vrDwQ~---sdiFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAM 1133 (1185)
T KOG0388|consen 1067 ----------RGYTYLRLDGSSKASDRRDVVRDWQA---SDIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAM 1133 (1185)
T ss_pred ----------hccceEEecCcchhhHHHHHHhhccC---CceEEEEEecccCcccccccccceEEEecCCCCcchhhHHH
Confidence 79999999999999999999999997 56789999999999999999999999999999999999999
Q ss_pred HhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhccc
Q 000464 1239 YRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQ 1283 (1479)
Q Consensus 1239 GRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~ 1283 (1479)
+|+||+||++.|.||||+++|||||+|.+|+..|......|+.+.
T Consensus 1134 DRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm~G~ 1178 (1185)
T KOG0388|consen 1134 DRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVMHGN 1178 (1185)
T ss_pred HHHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHHcCC
Confidence 999999999999999999999999999999999999988888764
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=2.3e-78 Score=737.50 Aligned_cols=502 Identities=32% Similarity=0.473 Sum_probs=425.4
Q ss_pred hhhccccCCcccccCchh-hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcc
Q 000464 703 VNVVREKGEEAVRIPSSI-SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN 781 (1479)
Q Consensus 703 ~~~~~~~~~~~v~vP~~L-~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~ 781 (1479)
.++++...+.....|..+ .+.|++||+.|++||... ++.+.+||||||||||||+|+|++|.+++...+
T Consensus 373 ys~AH~I~E~v~~Qps~l~GG~Lk~YQl~GLqWmVSL----------yNNnLNGILADEMGLGKTIQtIsLitYLmE~K~ 442 (1157)
T KOG0386|consen 373 YSTAHPIKENVAKQPSSLQGGELKEYQLHGLQWMVSL----------YNNNLNGILADEMGLGKTIQTISLITYLMEHKQ 442 (1157)
T ss_pred HHhcchhhhccccCcchhcCCCCchhhhhhhHHHhhc----------cCCCcccccchhcccchHHHHHHHHHHHHHHcc
Confidence 345566666677788777 478999999999999764 367789999999999999999999999988765
Q ss_pred cCCCceEEEechhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchh
Q 000464 782 LGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRN 861 (1479)
Q Consensus 782 ~~~k~vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~ 861 (1479)
. .+|.|||||.+++.||..||.+|.|+ +..+.|.|....++.-.-.....+++|++|+|+.+. +++.
T Consensus 443 ~-~GP~LvivPlstL~NW~~Ef~kWaPS----v~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyii--------kdk~ 509 (1157)
T KOG0386|consen 443 M-QGPFLIIVPLSTLVNWSSEFPKWAPS----VQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYII--------KDKA 509 (1157)
T ss_pred c-CCCeEEeccccccCCchhhccccccc----eeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhc--------CCHH
Confidence 3 58999999999999999999999998 778888887655544433334577899999998753 2333
Q ss_pred hHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHH-hcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhh
Q 000464 862 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNR 940 (1479)
Q Consensus 862 ~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk-~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~ 940 (1479)
+.. ...|.++||||+|+|||..++++..+. ...+++|++|||||+||++.|+|++|+|+-|.+|.+...|..|
T Consensus 510 lLs------KI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqW 583 (1157)
T KOG0386|consen 510 LLS------KISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQW 583 (1157)
T ss_pred HHh------ccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHH
Confidence 322 239999999999999999999999998 6699999999999999999999999999999999999999999
Q ss_pred hcCCcccCCC-CCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccc
Q 000464 941 FQNPIENGQH-TNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTN 1019 (1479)
Q Consensus 941 F~~PI~~g~~-~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~ 1019 (1479)
|..|+.+... ...+..+.-+.. +.||++|+||++||.+++|...||.|+++++.|.||..|+.+|..+.+......
T Consensus 584 FN~PFantGek~eLteEEtlLII---rRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~ 660 (1157)
T KOG0386|consen 584 FNQPFANTGEKVELTEEETLLII---RRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLK 660 (1157)
T ss_pred hhhhhhhcCCcccccchHHHHHH---HHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCc
Confidence 9999987553 445555555443 458899999999999999999999999999999999999999999987644433
Q ss_pred cccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchh
Q 000464 1020 DRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQK 1099 (1479)
Q Consensus 1020 ~~~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~ 1099 (1479)
+.....+..+.++..++.||+|||||+++......-..
T Consensus 661 d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~~~~------------------------------------------ 698 (1157)
T KOG0386|consen 661 DTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENSYTL------------------------------------------ 698 (1157)
T ss_pred CchhccccchhhhhHhHHHHHhcCCchhhhhhcccccc------------------------------------------
Confidence 33334455668899999999999999998532211000
Q ss_pred hhhhhhhhhccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCC
Q 000464 1100 DWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR 1179 (1479)
Q Consensus 1100 ~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGs 1179 (1479)
.|.. ...+..|||+.+|..||..+.+.||+||+|+|.+..+++++.||.- .++.|.|+||+
T Consensus 699 ~~~~-------~dL~R~sGKfELLDRiLPKLkatgHRVLlF~qMTrlmdimEdyL~~------------~~~kYlRLDG~ 759 (1157)
T KOG0386|consen 699 HYDI-------KDLVRVSGKFELLDRILPKLKATGHRVLLFSQMTRLMDILEDYLQI------------REYKYLRLDGQ 759 (1157)
T ss_pred ccCh-------hHHHHhccHHHHHHhhhHHHHhcCcchhhHHHHHHHHHHHHHHHhh------------hhhheeeecCC
Confidence 0000 1123458999999999999999999999999999999999999985 78999999999
Q ss_pred CCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1180 TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1180 ts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
|+..+|..+++.||.| +..+++||+||+|||+|+||+.|++|||||++|||..+.||.+|+|||||++.|.|+||++.+
T Consensus 760 TK~~eRg~ll~~FN~P-ds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~ 838 (1157)
T KOG0386|consen 760 TKVEERGDLLEIFNAP-DSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVN 838 (1157)
T ss_pred cchhhHHHHHHHhcCC-CCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhh
Confidence 9999999999999997 556999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHhcc
Q 000464 1260 TMEEKIYKRQVTKEGLAARVVDRQQVHRTISKEEMLHLF 1298 (1479)
Q Consensus 1260 TIEEkI~~rq~~K~~La~rVVd~~~~~r~~s~~EL~~Lf 1298 (1479)
++||+|..++..|..+..+|+..+.....=|.+|-..++
T Consensus 839 sveE~il~~a~~Kl~~d~kviqag~fdn~st~~eR~~~L 877 (1157)
T KOG0386|consen 839 SVEEKILAEAFYKLDVDGKVIQAGKFDNKSTAEEREMFL 877 (1157)
T ss_pred HHHHHHHHHHHHhcCchHhhhhcccccCCCcHHHHHHHH
Confidence 999999999999999999999987776665655544433
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=7.6e-71 Score=651.28 Aligned_cols=532 Identities=24% Similarity=0.376 Sum_probs=406.1
Q ss_pred ccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcc------cCCCc
Q 000464 713 AVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRT 786 (1479)
Q Consensus 713 ~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~------~~~k~ 786 (1479)
...-|.++...|.|||+.|++||... ....+.||||||+||||||+++|++|..-..... ....+
T Consensus 315 lte~P~g~~v~LmpHQkaal~Wl~wR---------E~q~~~GGILaddmGLGKTlsmislil~qK~~~~~~~~~~~~a~~ 385 (901)
T KOG4439|consen 315 LTETPDGLKVELMPHQKAALRWLLWR---------ESQPPSGGILADDMGLGKTLSMISLILHQKAARKAREKKGESASK 385 (901)
T ss_pred ccCCCCcceeecchhhhhhhhhhccc---------ccCCCCCcccccccccccchHHHHHHHHHHHHHHhhcccccccCC
Confidence 45668889999999999999999764 2367899999999999999999999987653321 11236
Q ss_pred eEEEechhhHHHHHHHHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHH
Q 000464 787 ALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMARE 865 (1479)
Q Consensus 787 vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~ 865 (1479)
+|||||++|++||.+||.+-+.. ..+.||+|||..+ ...+ +....|+|+||||..+.+......- ....
T Consensus 386 TLII~PaSli~qW~~Ev~~rl~~--n~LsV~~~HG~n~r~i~~----~~L~~YDvViTTY~lva~~~~~e~~----~~~~ 455 (901)
T KOG4439|consen 386 TLIICPASLIHQWEAEVARRLEQ--NALSVYLYHGPNKREISA----KELRKYDVVITTYNLVANKPDDELE----EGKN 455 (901)
T ss_pred eEEeCcHHHHHHHHHHHHHHHhh--cceEEEEecCCccccCCH----HHHhhcceEEEeeeccccCCchhhh----cccC
Confidence 99999999999999999998865 3599999999873 3333 3346789999999987652211110 0011
Q ss_pred HHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCc
Q 000464 866 ICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPI 945 (1479)
Q Consensus 866 l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI 945 (1479)
...++...|.+||+||||.|||++++.+.|++.|.+..||+|||||||||+.|+|+++.||+..+|++...|..+..++-
T Consensus 456 ~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s 535 (901)
T KOG4439|consen 456 SSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMS 535 (901)
T ss_pred ccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCcc
Confidence 12344458999999999999999999999999999999999999999999999999999999999999999988876543
Q ss_pred ccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh-----cCCCCeEEEEEecCCHHHHHHHHHHHHhhcccc-
Q 000464 946 ENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-----DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTN- 1019 (1479)
Q Consensus 946 ~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~-----~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~- 1019 (1479)
..|. ..|.-+.+++++||++..+.. .||++...++.+.|+..+...|+.++.......
T Consensus 536 ~~g~----------------~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~k 599 (901)
T KOG4439|consen 536 KGGA----------------NRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFK 599 (901)
T ss_pred ccch----------------hhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHH
Confidence 3221 123445778899999988877 799999999999999999999987654211000
Q ss_pred -------------c--------------------------ccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCc
Q 000464 1020 -------------D--------------------------RVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSRE 1060 (1479)
Q Consensus 1020 -------------~--------------------------~~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~e 1060 (1479)
. ..++......++..+.+|||+|+||.++....+.......
T Consensus 600 q~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~ 679 (901)
T KOG4439|consen 600 QFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMN 679 (901)
T ss_pred HHHHhhhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhc
Confidence 0 0001112234688999999999999877654432111111
Q ss_pred cccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHh-hcCCCeEEE
Q 000464 1061 DAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-SNMGDKSLV 1139 (1479)
Q Consensus 1061 d~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~-~~~G~KVLI 1139 (1479)
..++++.+ ..+......... .+......++. . -....+....+.....|.|+..+++++..+ ....+|++|
T Consensus 680 g~~~sde~-~~e~~~l~el~k---~~~T~~~~D~~---e-d~p~~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~skeK~vi 751 (901)
T KOG4439|consen 680 GGDDSDEE-QLEEDNLAELEK---NDETDCSDDNC---E-DLPTAFPDQAFEPDRPSCKIAMVLEILETILTSSKEKVVI 751 (901)
T ss_pred Ccchhhhh-hhhhhHHHhhhh---ccccccccccc---c-cccccchhhhcccccchhHHHHHHHHHHHHhhcccceeee
Confidence 11111111 000000000000 00000000000 0 000112223355567799999999999988 566899999
Q ss_pred EcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCcccc
Q 000464 1140 FSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSA 1219 (1479)
Q Consensus 1140 FSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~A 1219 (1479)
-||++.+|+++...|.. .|..|..++|.+..++|+.+|+.||.. ++..+|+|+|..|||+||||++|
T Consensus 752 VSQwtsvLniv~~hi~~------------~g~~y~si~Gqv~vK~Rq~iv~~FN~~-k~~~rVmLlSLtAGGVGLNL~Ga 818 (901)
T KOG4439|consen 752 VSQWTSVLNIVRKHIQK------------GGHIYTSITGQVLVKDRQEIVDEFNQE-KGGARVMLLSLTAGGVGLNLIGA 818 (901)
T ss_pred hhHHHHHHHHHHHHHhh------------CCeeeeeecCccchhHHHHHHHHHHhc-cCCceEEEEEEccCcceeeeccc
Confidence 99999999999999997 689999999999999999999999985 45578999999999999999999
Q ss_pred CEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhccccc--cccCCHHHHHhc
Q 000464 1220 NRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQV--HRTISKEEMLHL 1297 (1479)
Q Consensus 1220 nrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~~~--~r~~s~~EL~~L 1297 (1479)
||+|++|..|||+.+.||-+|+||+||+|+|+||||++.||+|++|...|..|..++..|+.+... .+.+|..+|..|
T Consensus 819 NHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~tr~~~kLT~adlk~L 898 (901)
T KOG4439|consen 819 NHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSATRKMNKLTLADLKKL 898 (901)
T ss_pred ceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCccccccccccHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999997654 689999999999
Q ss_pred ccC
Q 000464 1298 FEF 1300 (1479)
Q Consensus 1298 f~~ 1300 (1479)
|++
T Consensus 899 Fgl 901 (901)
T KOG4439|consen 899 FGL 901 (901)
T ss_pred hCC
Confidence 975
No 14
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=8.5e-70 Score=620.04 Aligned_cols=544 Identities=24% Similarity=0.349 Sum_probs=401.2
Q ss_pred cccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe
Q 000464 712 EAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 791 (1479)
Q Consensus 712 ~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~ 791 (1479)
+....|.++...|.|||++|+.|+..+.. +...|||||||||+|||+|+||+++.- ....|+||||
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 34578999999999999999999976532 345799999999999999999998772 2346899999
Q ss_pred chhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccc--cccchh-hHHHHHh
Q 000464 792 PVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGK--HVKDRN-MAREICH 868 (1479)
Q Consensus 792 P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k--~~kd~~-~~~~l~~ 868 (1479)
|.-.+.||.+||.+++.+ .+++++|+|.++....+.+ ..+++++|||..+.+..... ..+.+. ...+..-
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 999999999999999975 5899999998776554443 57899999999875432110 000000 1111112
Q ss_pred hhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCCh--------------
Q 000464 869 ALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSS-------------- 934 (1479)
Q Consensus 869 lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~-------------- 934 (1479)
+....|..||+||||.||+..|.+++|+..|.+.+||+|||||+||.+.|||+++.||+.++|..+
T Consensus 312 LHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~~~~f 391 (791)
T KOG1002|consen 312 LHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASLDWKF 391 (791)
T ss_pred hhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhccccccceee
Confidence 233489999999999999999999999999999999999999999999999999999997765321
Q ss_pred -----------------HHHHhhhcCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh--cCCCCeEEE
Q 000464 935 -----------------HEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK--DLPPKTVFV 995 (1479)
Q Consensus 935 -----------------~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~--~LPpK~e~v 995 (1479)
--|......||......... +......+.+|+.+|+||++-.-.. .|||....+
T Consensus 392 tdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpG-------k~af~~~h~llk~ImlrrTkl~RAdDLgLPPRiv~v 464 (791)
T KOG1002|consen 392 TDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPG-------KEAFNNIHTLLKNIMLRRTKLERADDLGLPPRIVTV 464 (791)
T ss_pred cccccCCcccchhhhhhhhhcccccccchhhcccCch-------HHHHHHHHHHHHHHHHHHhhcccccccCCCccceee
Confidence 01222233455543332221 1222346778899999998855444 499999999
Q ss_pred EEecCCHHHHHHHHHHHHhhcccccccchH----HHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCcc--ccCCC-Cc
Q 000464 996 ITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSRED--AEDSS-SD 1068 (1479)
Q Consensus 996 v~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~----~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed--~dd~~-~d 1068 (1479)
..--++..+..+|+.+...........-.. ....++|..+.++||+..||+|+........+.... ..... .|
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 888899999999998765322111111111 223478999999999999999986533222211100 00000 00
Q ss_pred cccccc---------------------------ccccCCCccchhhhcCCCCCccchhhhh-hhhhhhccccccccChhH
Q 000464 1069 ENMDYN---------------------------VVIGEKPRNMNDFLQGKNDDGFFQKDWW-NDLLHEHTYKELDYSGKM 1120 (1479)
Q Consensus 1069 ~~~d~~---------------------------~~~~ek~~~~~d~~~~~~~~~~~~~~~~-~~ll~~~~~~~i~~S~Kl 1120 (1479)
...++- .+.-..+-+. |.. ......+.-+.|- ..++..........|.|+
T Consensus 545 ~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~Lsi-Dls-e~alek~~l~~Fk~sSIlnRinm~~~qsSTKI 622 (791)
T KOG1002|consen 545 PAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSI-DLS-EPALEKTDLKGFKASSILNRINMDDWQSSTKI 622 (791)
T ss_pred hhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccc-ccc-chhhhhcchhhhhhHHHhhhcchhhhcchhHH
Confidence 000000 0000000000 000 0000000011111 123334445567889999
Q ss_pred HHHHHHHHHhhcCC--CeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1121 VLLLDILTMCSNMG--DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1121 ~~L~eIL~~~~~~G--~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
++|.+-|..+.+.. -|.||||||++|||+|+-.|.+ .|+..+.+.|+|++..|...|+.|.+ +.
T Consensus 623 EAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~k------------aGfscVkL~GsMs~~ardatik~F~n--d~ 688 (791)
T KOG1002|consen 623 EALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGK------------AGFSCVKLVGSMSPAARDATIKYFKN--DI 688 (791)
T ss_pred HHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhc------------cCceEEEeccCCChHHHHHHHHHhcc--CC
Confidence 99999988777653 4999999999999999999987 79999999999999999999999998 46
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHH
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAAR 1278 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~r 1278 (1479)
.++|||+|.+|||+.|||+.|++|+++||||||+.+-||.+|+|||||.|||.|.||+.++|||++|...|..|..++..
T Consensus 689 ~c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~miha 768 (791)
T KOG1002|consen 689 DCRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHA 768 (791)
T ss_pred CeEEEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhh
Confidence 67889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Hhcccc-ccccCCHHHHHhccc
Q 000464 1279 VVDRQQ-VHRTISKEEMLHLFE 1299 (1479)
Q Consensus 1279 VVd~~~-~~r~~s~~EL~~Lf~ 1299 (1479)
.++..+ ....|+.+||.-||+
T Consensus 769 Ti~qde~Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 769 TIGQDEEAISKLTEEDMQFLFN 790 (791)
T ss_pred hcCCcHHHHHhcCHHHHHHHhc
Confidence 998765 446899999999985
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=9.1e-63 Score=645.68 Aligned_cols=504 Identities=35% Similarity=0.515 Sum_probs=406.1
Q ss_pred chhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 718 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 718 ~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
..+...|+|||..|+.||+..+. ..+.||||||+||||||+|+|+++...+.......+|+|||||.+++.
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~---------~~~~~~ilaD~mglGKTiq~i~~l~~~~~~~~~~~~~~liv~p~s~~~ 403 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLR---------SNLLGGILADDMGLGKTVQTIALLLSLLESIKVYLGPALIVVPASLLS 403 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHH---------hccCCCcccccccchhHHHHHHHHHhhhhcccCCCCCeEEEecHHHHH
Confidence 67779999999999999974221 457899999999999999999999886655544367999999999999
Q ss_pred HHHHHHHHhCCCCCCCeE-EEEecCcch--hHHHHHHHHHhhc-----CCEEEEeccccccccccccccchhhHHHHHhh
Q 000464 798 NWKQEFMKWRPSELKPLR-VFMLEDVSR--DRRAELLAKWRAK-----GGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 869 (1479)
Q Consensus 798 qW~~E~~kw~P~~~~~l~-V~~l~g~~~--~~r~~~l~~w~~~-----~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~l 869 (1479)
||.+|+.+|.|. ++ +..++|... ..+...+..+... .+++++||+.++... .....+
T Consensus 404 nw~~e~~k~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~-----------~~~~~l 468 (866)
T COG0553 404 NWKREFEKFAPD----LRLVLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFL-----------VDHGGL 468 (866)
T ss_pred HHHHHHhhhCcc----ccceeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhh-----------hhHHHH
Confidence 999999999997 55 777777653 2223333344332 789999999987421 012233
Q ss_pred hcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhh-hhccCCCC-ChHHHHhhhcCCccc
Q 000464 870 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD-FVREGFLG-SSHEFRNRFQNPIEN 947 (1479)
Q Consensus 870 L~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~-FL~P~~Lg-s~~eF~~~F~~PI~~ 947 (1479)
....|+++|+||||+|||..+..+++++.+++.+|++|||||++|++.|||++++ |+.|++++ +...|..+|..|+..
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 3459999999999999999999999999999999999999999999999999999 99999999 569999999999988
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhh--HhhcCCCCeEEEEEecCCHHHHHHHHHHHHhh---ccccccc
Q 000464 948 GQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNV--VKKDLPPKTVFVITVKLSPLQRRLYKRFLDLH---GFTNDRV 1022 (1479)
Q Consensus 948 g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~d--v~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~---~~~~~~~ 1022 (1479)
...... ........+.|+.++.||++||.+.+ +..+||++.+.++.|.|++.|+.+|..++... .......
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 766544 12222334448899999999999999 88999999999999999999999999988721 1111110
Q ss_pred chHH--------HHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCC
Q 000464 1023 SNEK--------IRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDD 1094 (1479)
Q Consensus 1023 ~~~~--------~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~ 1094 (1479)
.... ....++..+..|+++|+||.++......... .. .. . .. ..
T Consensus 625 ~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~~~------~~-~~-----------------~---~~-~~ 676 (866)
T COG0553 625 EKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEATFD------RI-VL-----------------L---LR-ED 676 (866)
T ss_pred HhhccccccccchhhHHHHHHHHHHHhccCccccccccccccc------hh-hh-----------------h---hh-cc
Confidence 0000 1447889999999999999988532100000 00 00 0 00 00
Q ss_pred ccchhhhhhhhhhhccccccccC-hhHHHHHHHH-HHhhcCCC--eEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCC
Q 000464 1095 GFFQKDWWNDLLHEHTYKELDYS-GKMVLLLDIL-TMCSNMGD--KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG 1170 (1479)
Q Consensus 1095 ~~~~~~~~~~ll~~~~~~~i~~S-~Kl~~L~eIL-~~~~~~G~--KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~G 1170 (1479)
. .........+..| +|+..+.++| ......|+ |+|||+||+.++++|+.+|.. .+
T Consensus 677 -~--------~~~~~~~~~~~~s~~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~------------~~ 735 (866)
T COG0553 677 -K--------DFDYLKKPLIQLSKGKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKA------------LG 735 (866)
T ss_pred -c--------ccccccchhhhccchHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHh------------cC
Confidence 0 0000001123456 9999999999 78888899 999999999999999999997 45
Q ss_pred ccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcE
Q 000464 1171 KDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1250 (1479)
Q Consensus 1171 i~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V 1250 (1479)
+.|+++||+++...|+.+|++|+++ ....|||+|++|||.||||++|++||+||+||||+.+.||++|+||+||+++|
T Consensus 736 ~~~~~ldG~~~~~~r~~~i~~f~~~--~~~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~v 813 (866)
T COG0553 736 IKYVRLDGSTPAKRRQELIDRFNAD--EEEKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRPV 813 (866)
T ss_pred CcEEEEeCCCChhhHHHHHHHhhcC--CCCceEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCccee
Confidence 8899999999999999999999986 45678999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcc--ccccccCCHHHHHhcccC
Q 000464 1251 FAYRLMAHGTMEEKIYKRQVTKEGLAARVVDR--QQVHRTISKEEMLHLFEF 1300 (1479)
Q Consensus 1251 ~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~--~~~~r~~s~~EL~~Lf~~ 1300 (1479)
.||||++.||+||+|+.+|..|+.+...+++. .+....++.+++..||..
T Consensus 814 ~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ 865 (866)
T COG0553 814 KVYRLITRGTIEEKILELQEKKQELLDSLIDAEGEKELSKLSIEDLLDLFSL 865 (866)
T ss_pred EEEEeecCCcHHHHHHHHHHHHHHHHHHHhhhhcccchhhccHHHHHHHhcc
Confidence 99999999999999999999999999999995 456678999999999864
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=8.9e-54 Score=490.94 Aligned_cols=428 Identities=25% Similarity=0.325 Sum_probs=331.2
Q ss_pred cCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh
Q 000464 716 IPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV 795 (1479)
Q Consensus 716 vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL 795 (1479)
.|+.|...|.|||++||.|.++ .|+.++|||+||||||+|||++..++... .|.|||||+++
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 4899999999999999999974 57889999999999999999998887543 59999999999
Q ss_pred HHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcC-CC
Q 000464 796 LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GP 874 (1479)
Q Consensus 796 l~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~-~~ 874 (1479)
...|.+++.+|+|.... +.|. .+.... .......+.|.|++|+++..+ ...+.. .|
T Consensus 253 rftWa~al~r~lps~~p-i~vv--~~~~D~-----~~~~~t~~~v~ivSye~ls~l---------------~~~l~~~~~ 309 (689)
T KOG1000|consen 253 RFTWAKALNRFLPSIHP-IFVV--DKSSDP-----LPDVCTSNTVAIVSYEQLSLL---------------HDILKKEKY 309 (689)
T ss_pred hHHHHHHHHHhcccccc-eEEE--ecccCC-----ccccccCCeEEEEEHHHHHHH---------------HHHHhcccc
Confidence 99999999999998432 3333 222110 111123457999999987532 233444 59
Q ss_pred CEEEEcCCcccCCcchHHHHHHHhc--ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCC
Q 000464 875 DILVCDEAHMIKNTRADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTN 952 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~Sk~skalk~L--ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~d 952 (1479)
.+||+||+|.+|+..++..+++.-+ .+.|.|+|||||-...+.|||.++..+.+.+|....+|..+|++--..+.+.+
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 9999999999999999999998887 78999999999999999999999999999999999999999987544333322
Q ss_pred CChHHHHHHHHHHHHHHHHHhH-HhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhH
Q 000464 953 STSEDVKIMNQRSHILYEQLKG-FVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 1031 (1479)
Q Consensus 953 st~~dv~~~~~r~~~L~~~L~~-fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~ 1031 (1479)
... -.++..|+-+|.. .|+||.+.+|..+||||...+++ -.++.+-+..+.++...... .. .+...+
T Consensus 390 ykg------~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKrr~Vv~-~~~gr~da~~~~lv~~a~~~-t~--~~~~e~-- 457 (689)
T KOG1000|consen 390 YKG------CTNLEELAALLFKRLMIRRLKADVLKQLPPKRREVVY-VSGGRIDARMDDLVKAAADY-TK--VNSMER-- 457 (689)
T ss_pred cCC------CCCHHHHHHHHHHHHHHHHHHHHHHhhCCccceEEEE-EcCCccchHHHHHHHHhhhc-ch--hhhhhh--
Confidence 111 1123345555544 58999999999999999555554 44444444444443321110 00 000000
Q ss_pred HHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccc
Q 000464 1032 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 1111 (1479)
Q Consensus 1032 l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 1111 (1479)
+|-.++. +
T Consensus 458 -----------~~~~l~l-------------------------------------------------------------~ 465 (689)
T KOG1000|consen 458 -----------KHESLLL-------------------------------------------------------------F 465 (689)
T ss_pred -----------hhHHHHH-------------------------------------------------------------H
Confidence 0000000 0
Q ss_pred cccccChhHHHHHHHHHH----hhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHH
Q 000464 1112 KELDYSGKMVLLLDILTM----CSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQK 1187 (1479)
Q Consensus 1112 ~~i~~S~Kl~~L~eIL~~----~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~ 1187 (1479)
.....-.|+..+.+.|.. ....+.|+|||+.+..+||-|+.++.. +++.++||||+|+...|+.
T Consensus 466 y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~------------r~vg~IRIDGst~s~~R~l 533 (689)
T KOG1000|consen 466 YSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNK------------RKVGSIRIDGSTPSHRRTL 533 (689)
T ss_pred HHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHH------------cCCCeEEecCCCCchhHHH
Confidence 000123567777776665 345688999999999999999999997 7899999999999999999
Q ss_pred HHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHH
Q 000464 1188 LVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1267 (1479)
Q Consensus 1188 lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~ 1267 (1479)
+++.|+. +.+++|-++|..|+|.||+|++|+.|||.+.+|||....||.+|+||+||+..|.||+|+++||+|+.++.
T Consensus 534 l~qsFQ~--seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp 611 (689)
T KOG1000|consen 534 LCQSFQT--SEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWP 611 (689)
T ss_pred HHHHhcc--ccceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHH
Confidence 9999998 56788899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcc
Q 000464 1268 RQVTKEGLAARVVDR 1282 (1479)
Q Consensus 1268 rq~~K~~La~rVVd~ 1282 (1479)
....|......+-.+
T Consensus 612 ~l~~KL~vl~s~gl~ 626 (689)
T KOG1000|consen 612 MLQQKLDVLGSVGLS 626 (689)
T ss_pred HHHHHHHHHhhcccC
Confidence 999998776665443
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=4.1e-52 Score=534.55 Aligned_cols=453 Identities=19% Similarity=0.246 Sum_probs=325.4
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 799 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW 799 (1479)
....|.|||+..+.++.. ....++|||||||||||++|++++..++..+. .+|+|||||.+|+.||
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 346799999999877643 23578999999999999999999988776543 5799999999999999
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcchhHH-HHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSRDRR-AELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~~~r-~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
..|+.+|+.- .+.++.+...... ......| ...+++|+||++++.- . .....++...||+||
T Consensus 215 ~~El~~kF~l-----~~~i~~~~~~~~~~~~~~~pf-~~~~~vI~S~~~l~~~--------~---~~~~~l~~~~wdlvI 277 (956)
T PRK04914 215 LVEMLRRFNL-----RFSLFDEERYAEAQHDADNPF-ETEQLVICSLDFLRRN--------K---QRLEQALAAEWDLLV 277 (956)
T ss_pred HHHHHHHhCC-----CeEEEcCcchhhhcccccCcc-ccCcEEEEEHHHhhhC--------H---HHHHHHhhcCCCEEE
Confidence 9999988752 2333333211100 0000122 3468999999987631 1 112334556999999
Q ss_pred EcCCcccCCc---chHHHHHHHhc--ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcC--Cc------
Q 000464 879 CDEAHMIKNT---RADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQN--PI------ 945 (1479)
Q Consensus 879 lDEAH~IKN~---~Sk~skalk~L--ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~--PI------ 945 (1479)
|||||+++|. .|+.++++..+ +++++++|||||+||++.|+|++++||+|+.|+++..|...... |+
T Consensus 278 vDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~ 357 (956)
T PRK04914 278 VDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQA 357 (956)
T ss_pred EechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHH
Confidence 9999999953 46678888888 67899999999999999999999999999999999999875432 22
Q ss_pred -ccCCCCCC-ChHHHHHH---------------------HHHHHHHHHHH-----hHHhhhhhhhhHhhcCCCCeEEEEE
Q 000464 946 -ENGQHTNS-TSEDVKIM---------------------NQRSHILYEQL-----KGFVQRMDMNVVKKDLPPKTVFVIT 997 (1479)
Q Consensus 946 -~~g~~~ds-t~~dv~~~---------------------~~r~~~L~~~L-----~~fvlRr~k~dv~~~LPpK~e~vv~ 997 (1479)
..+..... ........ ..+...+..++ ..++.|+++..+. .+|++..+.+.
T Consensus 358 l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-~fp~R~~~~~~ 436 (956)
T PRK04914 358 LLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-GFPKRELHPIP 436 (956)
T ss_pred HhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc-CCCcCceeEee
Confidence 11111000 00000000 00111222222 2466788888875 69999999999
Q ss_pred ecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccc
Q 000464 998 VKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVI 1077 (1479)
Q Consensus 998 v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~ 1077 (1479)
+++.+..+..+..... ..+++ +.+|.-+...
T Consensus 437 l~~~~~y~~~~~~~~~----------------------~~~~~-~l~pe~~~~~-------------------------- 467 (956)
T PRK04914 437 LPLPEQYQTAIKVSLE----------------------ARARD-MLYPEQIYQE-------------------------- 467 (956)
T ss_pred cCCCHHHHHHHHHhHH----------------------HHHHh-hcCHHHHHHH--------------------------
Confidence 9987643333321000 00111 1122111000
Q ss_pred cCCCccchhhhcCCCCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcC
Q 000464 1078 GEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKL 1157 (1479)
Q Consensus 1078 ~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l 1157 (1479)
+. ....| ...++|+..|.++|+... ++|+|||+++..+++.|...|..
T Consensus 468 ---------~~--------~~~~~------------~~~d~Ki~~L~~~L~~~~--~~KvLVF~~~~~t~~~L~~~L~~- 515 (956)
T PRK04914 468 ---------FE--------DNATW------------WNFDPRVEWLIDFLKSHR--SEKVLVICAKAATALQLEQALRE- 515 (956)
T ss_pred ---------Hh--------hhhhc------------cccCHHHHHHHHHHHhcC--CCeEEEEeCcHHHHHHHHHHHhh-
Confidence 00 00011 234689999999998754 78999999999999999999964
Q ss_pred CCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHH
Q 000464 1158 PRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQA 1237 (1479)
Q Consensus 1158 ~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QA 1237 (1479)
..|+++..++|+++..+|.++++.|+++++ .++ +||+|.+||+|+||+.|++||+||+||||..++||
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 268999999999999999999999997432 344 57888999999999999999999999999999999
Q ss_pred hHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcccccc-ccCCHHHHHhcc
Q 000464 1238 IYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDRQQVH-RTISKEEMLHLF 1298 (1479)
Q Consensus 1238 IGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~~~~~-r~~s~~EL~~Lf 1298 (1479)
|||+||+||+++|.||.++..||++++|+.....|..++..++...+.. ..|. ++|.+.+
T Consensus 584 IGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~~~v~~~~~-~~l~~~l 644 (956)
T PRK04914 584 IGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTGRALYDEFG-DELIPYL 644 (956)
T ss_pred hcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCHHHHHHHHH-HHHHHHH
Confidence 9999999999999999999999999999999999999888887765433 3333 4554444
No 18
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=3.9e-51 Score=509.32 Aligned_cols=499 Identities=28% Similarity=0.334 Sum_probs=362.6
Q ss_pred HHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcc-----cCCCceEEEechhhHHHHHHH
Q 000464 728 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN-----LGLRTALIVTPVNVLHNWKQE 802 (1479)
Q Consensus 728 Q~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~-----~~~k~vLIV~P~sLl~qW~~E 802 (1479)
|.....|+|..- .....-.|||+||+||+|||+++|+++........ ...+.+|||||.+++.||..|
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 455556665421 13356789999999999999999999876543322 246799999999999999999
Q ss_pred HHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000464 803 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 882 (1479)
Q Consensus 803 ~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEA 882 (1479)
+.+..+. ..+.+++++| +..-.. -...++|++|||.++.+. .+....|-+||+|||
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--RTKDKS----ELNSYDVVLTTYDILKNS----------------PLVKIKWLRIVLDEA 263 (674)
T ss_pred HhccCCc--cceEEEEecc--cccccc----hhcCCceEEeeHHHhhcc----------------cccceeEEEEEeccc
Confidence 9655543 3588888888 211111 125678999999998741 223348899999999
Q ss_pred cccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHHHHHH
Q 000464 883 HMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMN 962 (1479)
Q Consensus 883 H~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv~~~~ 962 (1479)
|.|+|.+++.++++..+.+.+||+|||||+||++.|+|+++.|+.-+++.....|...+..|+..+.+ .
T Consensus 264 ~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~~~~i~~p~~~~~~-----------~ 332 (674)
T KOG1001|consen 264 HTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYFKLLIQDPDERNKY-----------K 332 (674)
T ss_pred cccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHHHHHhcChhhhhhH-----------H
Confidence 99999999999999999999999999999999999999999999999999999999999999887654 1
Q ss_pred HHHHHHHHHHhHHhhhhhhhhH-----hhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchH----HHHhhHHH
Q 000464 963 QRSHILYEQLKGFVQRMDMNVV-----KKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNE----KIRKSFFA 1033 (1479)
Q Consensus 963 ~r~~~L~~~L~~fvlRr~k~dv-----~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~----~~~~s~l~ 1033 (1479)
+-...++..|+.+++||++... ...|||+...++.+.++..++.+|..+.............. .....++.
T Consensus 333 ~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~~~~~~~~~Y~~~l~ 412 (674)
T KOG1001|consen 333 EGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYANEGTVSSTYAFFLK 412 (674)
T ss_pred HHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHhhhchhhhhHHHHHH
Confidence 1223366778889999887522 23799999999999999999999998876433222221111 12335778
Q ss_pred HHHHHHHHhcCcchhhhccccCC-CCCcc---------ccCC---CCcccccccccccCCCccc----hhhhcCCCCC--
Q 000464 1034 GYQALAQIWNHPGILQLTKDKGY-PSRED---------AEDS---SSDENMDYNVVIGEKPRNM----NDFLQGKNDD-- 1094 (1479)
Q Consensus 1034 ~l~~LrkIcnHP~Ll~~~~~~~~-~~~ed---------~dd~---~~d~~~d~~~~~~ek~~~~----~d~~~~~~~~-- 1094 (1479)
.+.+||++|+||.++........ ..... ...+ ......+............ ..........
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 88999999999998753221100 00000 0000 0000000000000000000 0000000000
Q ss_pred ccchhhh-hhhhhhhccc-----cccccChhHHHHHHHHHHhhcCCC-eEEEEcCchhhHHHHHHHHhcCCCCCCCcccc
Q 000464 1095 GFFQKDW-WNDLLHEHTY-----KELDYSGKMVLLLDILTMCSNMGD-KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLW 1167 (1479)
Q Consensus 1095 ~~~~~~~-~~~ll~~~~~-----~~i~~S~Kl~~L~eIL~~~~~~G~-KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w 1167 (1479)
+...... ...++..... .....|.|+..+.++|........ |+|||||++.++++++..|..
T Consensus 493 ~~cr~~l~~~~l~s~~~~~~~~~~~~~~s~ki~~~~~~l~~~~~s~~~kiiifsq~~~~l~l~~~~l~~----------- 561 (674)
T KOG1001|consen 493 PLCRNVLKEKKLLSANPLPSIINDLLPESSKIYAFLKILQAKEMSEQPKIVIFSQLIWGLALVCLRLFF----------- 561 (674)
T ss_pred cHHHHHHHHHHHhhcccccchhhhccchhhhhHHHHHHHhhccCCCCCceeeehhHHHHHHHhhhhhhh-----------
Confidence 0000000 0001110000 011258899999999985544444 999999999999999999884
Q ss_pred cCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1168 KKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1168 ~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
.|+.+.+++|.++...|.+.+..|+. ++.++|+|+|.+|||.||||+.|++||++||||||+.+.|||+|+||+||+
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 456677999999999999999999999999999999999999999999999
Q ss_pred CcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcc
Q 000464 1248 KPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDR 1282 (1479)
Q Consensus 1248 K~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~ 1282 (1479)
|+|.|+||+..+|+||+|...|..|+.+...+.+.
T Consensus 639 k~v~v~r~~i~dtveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 639 KPVKVSRFIIKDTVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred ceeeeeeehhhhccHHHHHHHHHHHHHHHhhhccC
Confidence 99999999999999999999999999998876653
No 19
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=1.3e-50 Score=497.69 Aligned_cols=383 Identities=32% Similarity=0.476 Sum_probs=302.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
+.|.|||.+|++|+.-.+ ..+.-+||||+||||||+|+|.|+..++..... .+|.||++|.+++.||..
T Consensus 294 g~L~~~qleGln~L~~~w----------s~~~~~ilADEmgLgktVqsi~fl~sl~~~~~~-~~P~Lv~ap~sT~~nwe~ 362 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISW----------SPGVDAILADEMGLGKTVQSIVFLYSLPKEIHS-PGPPLVVAPLSTIVNWER 362 (696)
T ss_pred ccccccchhhhhhhhccc----------ccCCCcccchhhcCCceeeEEEEEeecccccCC-CCCceeeccCccccCCCC
Confidence 789999999999996432 467889999999999999999999998776543 479999999999999999
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHH--------------------hhcCCEEEEeccccccccccccccchh
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKW--------------------RAKGGVFLIGYTAFRNLSFGKHVKDRN 861 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w--------------------~~~~~VvItsYe~fr~l~~~k~~kd~~ 861 (1479)
|+..|+|. +.+..+.|..+.........+ .....+.+++|++..+ +.
T Consensus 363 e~~~wap~----~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~--------~~- 429 (696)
T KOG0383|consen 363 EFELWAPS----FYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEI--------DQ- 429 (696)
T ss_pred chhccCCC----cccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhccc--------CH-
Confidence 99999997 556556664432211111111 1223455555554321 11
Q ss_pred hHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhh
Q 000464 862 MAREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRF 941 (1479)
Q Consensus 862 ~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F 941 (1479)
.-+....|.++|+||+|+++|..|..++.+......++++|||||+|||+.+|+++|+|+.|+.|.+...|.+.|
T Consensus 430 -----~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~ 504 (696)
T KOG0383|consen 430 -----SILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEF 504 (696)
T ss_pred -----HHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhc
Confidence 122334899999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred cCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccc
Q 000464 942 QNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDR 1021 (1479)
Q Consensus 942 ~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~ 1021 (1479)
..-. . ......|+.++.|+++||.+.++.+.+|+|++.++.+.|++.|+++|+.++... +...
T Consensus 505 ~d~~--------~-------~~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n-~~~l- 567 (696)
T KOG0383|consen 505 HDIS--------C-------EEQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRN-WQGL- 567 (696)
T ss_pred chhh--------H-------HHHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCC-hHHH-
Confidence 6421 1 123445889999999999999999999999999999999999999999987642 1111
Q ss_pred cchHHHHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhh
Q 000464 1022 VSNEKIRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDW 1101 (1479)
Q Consensus 1022 ~~~~~~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~ 1101 (1479)
......-++++.++.|++.|+||+++........ ++ .+
T Consensus 568 -~~~~~~~s~~n~~mel~K~~~hpy~~~~~e~~~~-------------------------------------~~----~~ 605 (696)
T KOG0383|consen 568 -LAGVHQYSLLNIVMELRKQCNHPYLSPLEEPLEE-------------------------------------NG----EY 605 (696)
T ss_pred -hhcchhHHHHHHHHHHHHhhcCcccCcccccccc-------------------------------------ch----HH
Confidence 1122233678999999999999999854111000 00 00
Q ss_pred hhhhhhhccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCC
Q 000464 1102 WNDLLHEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE 1181 (1479)
Q Consensus 1102 ~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts 1181 (1479)
. .-..+..|+|+.+|..+++.+...||||+||+|++.+||++++++.. .| .|.|+||..+
T Consensus 606 ~-------~~~l~k~~~k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~------------~~-~~~r~dG~~~ 665 (696)
T KOG0383|consen 606 L-------GSALIKASGKLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTY------------EG-KYERIDGPIT 665 (696)
T ss_pred H-------HHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhc------------cC-cceeccCCcc
Confidence 0 01124568999999999999999999999999999999999999996 56 8999999999
Q ss_pred HHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1182 SSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1182 ~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
...|+.+|++||.++ ..-.|||+||+|||+|
T Consensus 666 ~~~rq~ai~~~n~~~-~~~~cfllstra~g~g 696 (696)
T KOG0383|consen 666 GPERQAAIDRFNAPG-SNQFCFLLSTRAGGLG 696 (696)
T ss_pred chhhhhhccccCCCC-ccceEEEeecccccCC
Confidence 999999999999764 4456999999999998
No 20
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=100.00 E-value=1.7e-39 Score=374.04 Aligned_cols=296 Identities=30% Similarity=0.447 Sum_probs=221.3
Q ss_pred HHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhccc-CCCceEEEechhhHHHHHHHHHH
Q 000464 727 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 727 hQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~-~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
||+.||.||+........ ........||||||+||+|||+++|+++..+...... +.+++|||||.+++.||..||.+
T Consensus 1 ~Q~~~v~~m~~~~~~~~~-~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~~l~~~W~~E~~~ 79 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEY-PNSESPPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPSSLLSQWKEEIEK 79 (299)
T ss_dssp HHHHHHHHHHHHH----T-TSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-TTTHHHHHHHHHH
T ss_pred CHHHHHHHHHHHhhhhcc-cccccCCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeeccchhhhhhhhhcc
Confidence 899999999987511111 1223567899999999999999999999977665432 23479999999999999999999
Q ss_pred hCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc
Q 000464 806 WRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 885 (1479)
Q Consensus 806 w~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~I 885 (1479)
|++.. .++++.+.+... +......+...++++|++|++++.... ... ...+...+|++||+||+|.+
T Consensus 80 ~~~~~--~~~v~~~~~~~~--~~~~~~~~~~~~~vvi~ty~~~~~~~~------~~~---~~~l~~~~~~~vIvDEaH~~ 146 (299)
T PF00176_consen 80 WFDPD--SLRVIIYDGDSE--RRRLSKNQLPKYDVVITTYETLRKARK------KKD---KEDLKQIKWDRVIVDEAHRL 146 (299)
T ss_dssp HSGT---TS-EEEESSSCH--HHHTTSSSCCCSSEEEEEHHHHH--TS------THT---THHHHTSEEEEEEETTGGGG
T ss_pred ccccc--cccccccccccc--cccccccccccceeeeccccccccccc------ccc---ccccccccceeEEEeccccc
Confidence 99531 368888877651 112223345678999999999871110 001 11222247999999999999
Q ss_pred CCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHHHHHHHHH
Q 000464 886 KNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRS 965 (1479)
Q Consensus 886 KN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~ 965 (1479)
||..+..++++..+.+.++|+|||||++|++.|+|+++.||.|+.+++...|.+.|..+ .........
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 99999999999999999999999999999999999999999999999999999998665 222334556
Q ss_pred HHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccc--hHHHHhhHHHHHHHHHHHhc
Q 000464 966 HILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVS--NEKIRKSFFAGYQALAQIWN 1043 (1479)
Q Consensus 966 ~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~--~~~~~~s~l~~l~~LrkIcn 1043 (1479)
..|...+++|+.|+...++...||++.++++.++||+.|+.+|+.+............ .......++..+.+||++|+
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 7799999999999999999889999999999999999999999998876544333222 23344578999999999999
Q ss_pred Ccchh
Q 000464 1044 HPGIL 1048 (1479)
Q Consensus 1044 HP~Ll 1048 (1479)
||.|+
T Consensus 295 hp~l~ 299 (299)
T PF00176_consen 295 HPYLV 299 (299)
T ss_dssp -THHC
T ss_pred CcccC
Confidence 99874
No 21
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=3.9e-36 Score=376.15 Aligned_cols=354 Identities=17% Similarity=0.289 Sum_probs=252.4
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHN 798 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~q 798 (1479)
....|||||.+++.+|+.+ ....+|||..+||+|||+++|+++..+ .+++|||||.++ +.|
T Consensus 252 ~~~~LRpYQ~eAl~~~~~~-----------gr~r~GIIvLPtGaGKTlvai~aa~~l-------~k~tLILvps~~Lv~Q 313 (732)
T TIGR00603 252 PTTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKSLVGVTAACTV-------KKSCLVLCTSAVSVEQ 313 (732)
T ss_pred cCCCcCHHHHHHHHHHHhc-----------CCCCCcEEEeCCCCChHHHHHHHHHHh-------CCCEEEEeCcHHHHHH
Confidence 3578999999999998642 233689999999999999999988664 268999999664 889
Q ss_pred HHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 799 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 799 W~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
|.+||.+|+.- .+..+..+.+..+. .+....+|+|+||+++.+.... .......+..+....|++||
T Consensus 314 W~~ef~~~~~l--~~~~I~~~tg~~k~-------~~~~~~~VvVtTYq~l~~~~~r----~~~~~~~l~~l~~~~~gLII 380 (732)
T TIGR00603 314 WKQQFKMWSTI--DDSQICRFTSDAKE-------RFHGEAGVVVSTYSMVAHTGKR----SYESEKVMEWLTNREWGLIL 380 (732)
T ss_pred HHHHHHHhcCC--CCceEEEEecCccc-------ccccCCcEEEEEHHHhhccccc----chhhhHHHHHhccccCCEEE
Confidence 99999999742 22455555554322 1223578999999998643111 11111122223345899999
Q ss_pred EcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhh-ccCCCCChHHHHhhhcCCcccCCCCCCChHH
Q 000464 879 CDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV-REGFLGSSHEFRNRFQNPIENGQHTNSTSED 957 (1479)
Q Consensus 879 lDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL-~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~d 957 (1479)
+||||++.+ ....+++..+.+++||+|||||++++ +.+..+.|+ .|..+
T Consensus 381 ~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vy-------------------------- 430 (732)
T TIGR00603 381 LDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLY-------------------------- 430 (732)
T ss_pred EEccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeee--------------------------
Confidence 999999953 44556778889999999999999875 233333332 22221
Q ss_pred HHHHHHHHHHHHHHHhHHhhhhhhhhHh--hcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHH
Q 000464 958 VKIMNQRSHILYEQLKGFVQRMDMNVVK--KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGY 1035 (1479)
Q Consensus 958 v~~~~~r~~~L~~~L~~fvlRr~k~dv~--~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l 1035 (1479)
+....++. ..|.+...+.++|+|++.. |..++.... . .+..+
T Consensus 431 --------------------e~~~~eLi~~G~LA~~~~~ev~v~~t~~~---~~~yl~~~~--------~--~k~~l--- 474 (732)
T TIGR00603 431 --------------------EANWMELQKKGFIANVQCAEVWCPMTPEF---YREYLRENS--------R--KRMLL--- 474 (732)
T ss_pred --------------------ecCHHHHHhCCccccceEEEEEecCCHHH---HHHHHHhcc--------h--hhhHH---
Confidence 11111221 2466667778999999864 444432110 0 00000
Q ss_pred HHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccc
Q 000464 1036 QALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELD 1115 (1479)
Q Consensus 1036 ~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~ 1115 (1479)
. ..
T Consensus 475 ------------~-----------------------------------------------------------------~~ 477 (732)
T TIGR00603 475 ------------Y-----------------------------------------------------------------VM 477 (732)
T ss_pred ------------h-----------------------------------------------------------------hh
Confidence 0 01
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|+.++..++......|+|+||||+++..+..+...|. ...|+|.|+..+|.+++++|+.+
T Consensus 478 np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----------------~~~I~G~ts~~ER~~il~~Fr~~ 540 (732)
T TIGR00603 478 NPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----------------KPFIYGPTSQQERMQILQNFQHN 540 (732)
T ss_pred ChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----------------CceEECCCCHHHHHHHHHHHHhC
Confidence 2368888888888766689999999999988877776653 23489999999999999999863
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEeCCC-CcchHHHHhHhhhhcCCCC-----cEEEEEEEeCCCHHHHHHH
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTK-----PVFAYRLMAHGTMEEKIYK 1267 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-NPa~d~QAIGRa~RiGQkK-----~V~VYRLIa~gTIEEkI~~ 1267 (1479)
+.+++ |+++++|++||||+.|+.||++++++ |+..+.||+||+.|.+..+ +.++|.|++.+|.|+..-.
T Consensus 541 --~~i~v-Lv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~s~ 615 (732)
T TIGR00603 541 --PKVNT-IFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYYST 615 (732)
T ss_pred --CCccE-EEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHHHH
Confidence 34554 55569999999999999999999986 9999999999999999764 4799999999999998753
No 22
>PRK13766 Hef nuclease; Provisional
Probab=99.98 E-value=1.6e-30 Score=338.56 Aligned_cols=461 Identities=18% Similarity=0.160 Sum_probs=271.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech-hhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~-sLl~qW~~ 801 (1479)
.+|+||...+...++ .++|++.++|+|||++++.++...+.. ..+++|||||. .|+.||..
T Consensus 15 ~~r~yQ~~~~~~~l~---------------~n~lv~~ptG~GKT~~a~~~i~~~l~~---~~~~vLvl~Pt~~L~~Q~~~ 76 (773)
T PRK13766 15 EARLYQQLLAATALK---------------KNTLVVLPTGLGKTAIALLVIAERLHK---KGGKVLILAPTKPLVEQHAE 76 (773)
T ss_pred CccHHHHHHHHHHhc---------------CCeEEEcCCCccHHHHHHHHHHHHHHh---CCCeEEEEeCcHHHHHHHHH
Confidence 679999998876642 389999999999999998888776632 24699999996 78899999
Q ss_pred HHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
+|.+++... +..+..+.|... ..|.. .| ..++|+++|+..+.+..... .+....|++||+|
T Consensus 77 ~~~~~~~~~--~~~v~~~~g~~~~~~r~~---~~-~~~~iiv~T~~~l~~~l~~~------------~~~~~~~~liVvD 138 (773)
T PRK13766 77 FFRKFLNIP--EEKIVVFTGEVSPEKRAE---LW-EKAKVIVATPQVIENDLIAG------------RISLEDVSLLIFD 138 (773)
T ss_pred HHHHHhCCC--CceEEEEeCCCCHHHHHH---HH-hCCCEEEECHHHHHHHHHcC------------CCChhhCcEEEEE
Confidence 999987531 245555555432 33322 23 46799999998875421110 1112379999999
Q ss_pred CCcccCCcchHHHHHHHh---cccceEEEeeCCCCccchhHHHhhhhhhccCCCCChH----HHHhhhcCCcccCCCCCC
Q 000464 881 EAHMIKNTRADTTQALKQ---VKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH----EFRNRFQNPIENGQHTNS 953 (1479)
Q Consensus 881 EAH~IKN~~Sk~skalk~---Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~----eF~~~F~~PI~~g~~~ds 953 (1479)
|||++.+..+..+.+-.. .+..++++|||||.++ ...+..++..|....+.... .+...+..+-........
T Consensus 139 EaH~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l 217 (773)
T PRK13766 139 EAHRAVGNYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVEL 217 (773)
T ss_pred CCccccccccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCC
Confidence 999998765443332222 2456799999999875 45555555544322211111 111111111000000111
Q ss_pred ChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh-cCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 954 TSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 954 t~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~-~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
......++..|..++.++....... .+++....+....+...+..++..+.... .........+
T Consensus 218 --------~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~-------~~~~~~~~~~ 282 (773)
T PRK13766 218 --------PEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDD-------SEGYEAISIL 282 (773)
T ss_pred --------cHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCc-------hHHHHHHHHH
Confidence 1122335566666666555432221 12222222222233333444333322100 0000011122
Q ss_pred HHHHHHHHHhcCcchhhhccc---cCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhc
Q 000464 1033 AGYQALAQIWNHPGILQLTKD---KGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEH 1109 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~---~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~ 1109 (1479)
..+..++... .++..... ..+......... . .+. ......+. .. .... ..+. .
T Consensus 283 ~~~~~l~~~~---~~l~~~~~~~~~~y~~~l~~~~~-~---------~~~-~~~~~~l~----~~----~~~~-~~~~-~ 338 (773)
T PRK13766 283 AEAMKLRHAV---ELLETQGVEALRRYLERLREEAR-S---------SGG-SKASKRLV----ED----PRFR-KAVR-K 338 (773)
T ss_pred HHHHHHHHHH---HHHHHhCHHHHHHHHHHHHhhcc-c---------cCC-cHHHHHHH----hC----HHHH-HHHH-H
Confidence 2222222211 11100000 000000000000 0 000 00000000 00 0000 0000 0
Q ss_pred cccccccChhHHHHHHHHHHhh--cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCC--------
Q 000464 1110 TYKELDYSGKMVLLLDILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR-------- 1179 (1479)
Q Consensus 1110 ~~~~i~~S~Kl~~L~eIL~~~~--~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGs-------- 1179 (1479)
.......++|+..|.++|.... ..+.|+|||+++..+++.|..+|.. .|+.+.+++|.
T Consensus 339 ~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~------------~~~~~~~~~g~~~~~~~~~ 406 (773)
T PRK13766 339 AKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEK------------EGIKAVRFVGQASKDGDKG 406 (773)
T ss_pred HHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHh------------CCCceEEEEccccccccCC
Confidence 0011244799999999999876 4688999999999999999999975 57888888886
Q ss_pred CCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1180 TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1180 ts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
++..+|.+++.+|+++ .++ +|++|.++++|+|++.+++||+|||+|||...+|++||++|.|+ +.||.|++.+
T Consensus 407 ~~~~~r~~~~~~F~~g---~~~-vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~~~---~~v~~l~~~~ 479 (773)
T PRK13766 407 MSQKEQIEILDKFRAG---EFN-VLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQEE---GRVVVLIAKG 479 (773)
T ss_pred CCHHHHHHHHHHHHcC---CCC-EEEECChhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcCCC---CEEEEEEeCC
Confidence 8888999999999974 344 58899999999999999999999999999999998888888775 6789999999
Q ss_pred CHHHHHHHHHHHHHHHHHH
Q 000464 1260 TMEEKIYKRQVTKEGLAAR 1278 (1479)
Q Consensus 1260 TIEEkI~~rq~~K~~La~r 1278 (1479)
|+||.+|..+..|...+..
T Consensus 480 t~ee~~y~~~~~ke~~~~~ 498 (773)
T PRK13766 480 TRDEAYYWSSRRKEKKMKE 498 (773)
T ss_pred ChHHHHHHHhhHHHHHHHH
Confidence 9999999988877776633
No 23
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=99.97 E-value=7.3e-32 Score=338.02 Aligned_cols=279 Identities=18% Similarity=0.234 Sum_probs=198.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhc--------------ccCCCceEEEechhhHHHHHHHHHHhCCCCCCCeEEE
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSV--------------NLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVF 817 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~--------------~~~~k~vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~ 817 (1479)
|..+++|||||+|||+..++.....+... ....|++|||||.+++.||..||.++++.. ++|+
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 34479999999999999888765543211 123589999999999999999999999873 6888
Q ss_pred EecCcchhHHHHHHHHHhhcCCEEEEecccccccccccc-ccc-hhhHH------HHHhhhcCCCCEEEEcCCcccCCcc
Q 000464 818 MLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKH-VKD-RNMAR------EICHALQDGPDILVCDEAHMIKNTR 889 (1479)
Q Consensus 818 ~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~-~kd-~~~~~------~l~~lL~~~~dlVIlDEAH~IKN~~ 889 (1479)
.|.|..+.....- .-...++|++|||+.+|+-.+... ..+ +.+.. --..++...|..||+|||+.+....
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 8887643211111 113578999999999987433221 111 11000 0012333478899999999999999
Q ss_pred hHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHHHHHHHHHHHHH
Q 000464 890 ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILY 969 (1479)
Q Consensus 890 Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~ 969 (1479)
|..++.+..|.+.++|+.||||||+ +.+++.++.||+-.+|+....|.+....++.+. .....++
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 999999999999999999999988776554321 2233456
Q ss_pred HHHhHHhhhhhhhhHhh--cCCCCeEEEEEecCCHHHHHHHHHHHH----hhc---------cc---c-cccchHHHHhh
Q 000464 970 EQLKGFVQRMDMNVVKK--DLPPKTVFVITVKLSPLQRRLYKRFLD----LHG---------FT---N-DRVSNEKIRKS 1030 (1479)
Q Consensus 970 ~~L~~fvlRr~k~dv~~--~LPpK~e~vv~v~LS~~Qr~LY~~~l~----~~~---------~~---~-~~~~~~~~~~s 1030 (1479)
.++...+-|+.+..+.. .+||-.+.+....+++.+..+|+..-. ... .. . ...........
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 77777788887777765 489998888888888888777754211 100 00 0 00011122335
Q ss_pred HHHHHHHHHHHhcCcchhhh
Q 000464 1031 FFAGYQALAQIWNHPGILQL 1050 (1479)
Q Consensus 1031 ~l~~l~~LrkIcnHP~Ll~~ 1050 (1479)
++..+.+||++|+||.+...
T Consensus 674 i~~~l~rLRq~Cchplv~~~ 693 (1394)
T KOG0298|consen 674 ILKWLLRLRQACCHPLVGNS 693 (1394)
T ss_pred HHHHHHHHHHhhcccccccC
Confidence 78889999999999976543
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.94 E-value=6.4e-25 Score=257.80 Aligned_cols=439 Identities=20% Similarity=0.202 Sum_probs=260.4
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~ 801 (1479)
.-|.||..-+.-.+. .+++++-++|||||+.|+.+++..++... +++|+++| ..|+.|-..
T Consensus 15 e~R~YQ~~i~a~al~---------------~NtLvvlPTGLGKT~IA~~V~~~~l~~~~---~kvlfLAPTKPLV~Qh~~ 76 (542)
T COG1111 15 EPRLYQLNIAAKALF---------------KNTLVVLPTGLGKTFIAAMVIANRLRWFG---GKVLFLAPTKPLVLQHAE 76 (542)
T ss_pred cHHHHHHHHHHHHhh---------------cCeEEEecCCccHHHHHHHHHHHHHHhcC---CeEEEecCCchHHHHHHH
Confidence 457889877665432 58999999999999999999987776543 48999999 778999999
Q ss_pred HHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
-+.+.+.- .+-.+..+.|..+ ..|.. .| ..+.|++.|.+.+.|..... .+-...+.++|+|
T Consensus 77 ~~~~v~~i--p~~~i~~ltGev~p~~R~~---~w-~~~kVfvaTPQvveNDl~~G------------rid~~dv~~lifD 138 (542)
T COG1111 77 FCRKVTGI--PEDEIAALTGEVRPEEREE---LW-AKKKVFVATPQVVENDLKAG------------RIDLDDVSLLIFD 138 (542)
T ss_pred HHHHHhCC--ChhheeeecCCCChHHHHH---HH-hhCCEEEeccHHHHhHHhcC------------ccChHHceEEEec
Confidence 99988743 2345666666543 33443 35 56789999999987532111 1112278899999
Q ss_pred CCcccCCcchHHH--HHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHH
Q 000464 881 EAHMIKNTRADTT--QALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSED 957 (1479)
Q Consensus 881 EAH~IKN~~Sk~s--kalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~d 957 (1479)
|||+.-+..+-.+ +...+. +..+.++|||||= +.+..+-..++-|..
T Consensus 139 EAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASPG-s~~ekI~eV~~nLgI----------------------------- 188 (542)
T COG1111 139 EAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASPG-SDLEKIQEVVENLGI----------------------------- 188 (542)
T ss_pred hhhhccCcchHHHHHHHHHHhccCceEEEEecCCC-CCHHHHHHHHHhCCc-----------------------------
Confidence 9999876554333 322222 4557899999992 222222222222111
Q ss_pred HHHHHHHHHHHHHHHhHHhhhh-hhhhHhhcCCCCeEEEEEecCCHHHHHHHHHH-------HH---hhcccccccchHH
Q 000464 958 VKIMNQRSHILYEQLKGFVQRM-DMNVVKKDLPPKTVFVITVKLSPLQRRLYKRF-------LD---LHGFTNDRVSNEK 1026 (1479)
Q Consensus 958 v~~~~~r~~~L~~~L~~fvlRr-~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~-------l~---~~~~~~~~~~~~~ 1026 (1479)
.....|. .-.||.+++-.+....+.|+|+++-..+-+.+ ++ ..++.... ..-
T Consensus 189 ---------------e~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~--~~~ 251 (542)
T COG1111 189 ---------------EKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESS--SPV 251 (542)
T ss_pred ---------------ceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceecc--Ccc
Confidence 1111111 11244445555555566666665433222211 11 11111000 000
Q ss_pred HHhhHHHHH------------------HHHHHH--hcCcchhhhccccCCCC----CccccCCCCcccccccccccCCCc
Q 000464 1027 IRKSFFAGY------------------QALAQI--WNHPGILQLTKDKGYPS----REDAEDSSSDENMDYNVVIGEKPR 1082 (1479)
Q Consensus 1027 ~~~s~l~~l------------------~~LrkI--cnHP~Ll~~~~~~~~~~----~ed~dd~~~d~~~d~~~~~~ek~~ 1082 (1479)
..+.++... ..+..+ +.|+. ......+... ....... ...+. ..
T Consensus 252 ~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~--elletqGi~~~~~Yl~~l~e~---------~~~~~-sk 319 (542)
T COG1111 252 SKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHAL--ELLETQGIRPFYQYLEKLEEE---------ATKGG-SK 319 (542)
T ss_pred cHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHH--HHHHhhChHHHHHHHHHHHHH---------hcccc-hH
Confidence 011111111 111111 01110 0000000000 0000000 00000 00
Q ss_pred cchhhhcCCCCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHhh--cCCCeEEEEcCchhhHHHHHHHHhcCCCC
Q 000464 1083 NMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRP 1160 (1479)
Q Consensus 1083 ~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~~--~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~ 1160 (1479)
....+ ..+..+... ...+... ....-..|||..+.++|++.. ..+.|||||++|+.|++.|..+|...
T Consensus 320 ~a~~l----~~d~~~~~a-l~~~~~~--~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~--- 389 (542)
T COG1111 320 AAKSL----LADPYFKRA-LRLLIRA--DESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKI--- 389 (542)
T ss_pred HHHHH----hcChhhHHH-HHHHHHh--ccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhc---
Confidence 00000 000111000 0001111 112234699999999999877 45689999999999999999999974
Q ss_pred CCCcccccCCccEE-EecC--------CCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCc
Q 000464 1161 GKQGKLWKKGKDWY-RLDG--------RTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNP 1231 (1479)
Q Consensus 1161 ~~~~~~w~~Gi~y~-rLdG--------sts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNP 1231 (1479)
|+... ++-| +|++++..++|++|+.+ .+. .|++|.+|.+||+++..|-||+|||.-+|
T Consensus 390 ---------~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~G---e~n-VLVaTSVgEEGLDIp~vDlVifYEpvpSe 456 (542)
T COG1111 390 ---------GIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKG---EYN-VLVATSVGEEGLDIPEVDLVIFYEPVPSE 456 (542)
T ss_pred ---------CCcceeEEeeccccccccccCHHHHHHHHHHHhcC---Cce-EEEEcccccccCCCCcccEEEEecCCcHH
Confidence 22222 3333 58899999999999974 444 49999999999999999999999999999
Q ss_pred chHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhcc
Q 000464 1232 TYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGLAARVVDR 1282 (1479)
Q Consensus 1232 a~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~La~rVVd~ 1282 (1479)
...+||.||.+|- +.-.||-|+++||-|+.-|.....|.+.+...+.+
T Consensus 457 IR~IQR~GRTGR~---r~Grv~vLvt~gtrdeayy~~s~rke~~m~e~i~~ 504 (542)
T COG1111 457 IRSIQRKGRTGRK---RKGRVVVLVTEGTRDEAYYYSSRRKEQKMIESIRG 504 (542)
T ss_pred HHHHHhhCccccC---CCCeEEEEEecCchHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999884 77789999999999999999999998776665543
No 25
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.94 E-value=1.7e-24 Score=268.72 Aligned_cols=336 Identities=14% Similarity=0.166 Sum_probs=223.1
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~ 800 (1479)
..|+|||.+++.-++. +..+||...+|.|||+.+++++..+.... ..++||||| ..|+.||.
T Consensus 113 ~~~r~~Q~~av~~~l~--------------~~~~il~apTGsGKT~i~~~l~~~~~~~~---~~~vLilvpt~eL~~Q~~ 175 (501)
T PHA02558 113 IEPHWYQYDAVYEGLK--------------NNRRLLNLPTSAGKSLIQYLLSRYYLENY---EGKVLIIVPTTSLVTQMI 175 (501)
T ss_pred CCCCHHHHHHHHHHHh--------------cCceEEEeCCCCCHHHHHHHHHHHHHhcC---CCeEEEEECcHHHHHHHH
Confidence 5899999999976642 35689999999999998776654443321 238999999 57889999
Q ss_pred HHHHHhCCCCCCCeEE-EEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000464 801 QEFMKWRPSELKPLRV-FMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 879 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V-~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIl 879 (1479)
++|.+|.... ...+ .++.+.... ..+.|+|+||+.+.... ......+++||+
T Consensus 176 ~~l~~~~~~~--~~~~~~i~~g~~~~----------~~~~I~VaT~qsl~~~~---------------~~~~~~~~~iIv 228 (501)
T PHA02558 176 DDFVDYRLFP--REAMHKIYSGTAKD----------TDAPIVVSTWQSAVKQP---------------KEWFDQFGMVIV 228 (501)
T ss_pred HHHHHhcccc--ccceeEEecCcccC----------CCCCEEEeeHHHHhhch---------------hhhccccCEEEE
Confidence 9999986321 1222 223332211 34689999998764210 011247899999
Q ss_pred cCCcccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHH
Q 000464 880 DEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 958 (1479)
Q Consensus 880 DEAH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv 958 (1479)
||||++... .....+..+ +++++++|||||-.... ..+.+..+..| +.
T Consensus 229 DEaH~~~~~--~~~~il~~~~~~~~~lGLTATp~~~~~-~~~~~~~~fG~----------------i~------------ 277 (501)
T PHA02558 229 DECHLFTGK--SLTSIITKLDNCKFKFGLTGSLRDGKA-NILQYVGLFGD----------------IF------------ 277 (501)
T ss_pred Echhcccch--hHHHHHHhhhccceEEEEeccCCCccc-cHHHHHHhhCC----------------ce------------
Confidence 999999653 345566677 68899999999953221 11111111111 10
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhHh--hcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHH
Q 000464 959 KIMNQRSHILYEQLKGFVQRMDMNVVK--KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQ 1036 (1479)
Q Consensus 959 ~~~~~r~~~L~~~L~~fvlRr~k~dv~--~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l~ 1036 (1479)
.+....++. ..+.+.....+.+..++.....+. .. .+-..
T Consensus 278 ------------------~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~--------------~~----~~~~~-- 319 (501)
T PHA02558 278 ------------------KPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLK--------------GE----DYQEE-- 319 (501)
T ss_pred ------------------EEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhc--------------cc----chHHH--
Confidence 000000111 112222233344443332110000 00 00000
Q ss_pred HHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccccccc
Q 000464 1037 ALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDY 1116 (1479)
Q Consensus 1037 ~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~ 1116 (1479)
+.. ....
T Consensus 320 -~~~------------------------------------------------------------------------l~~~ 326 (501)
T PHA02558 320 -IKY------------------------------------------------------------------------ITSH 326 (501)
T ss_pred -HHH------------------------------------------------------------------------Hhcc
Confidence 000 0112
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|..++.+++..+...|.++|||+..+.+++.|...|.. .|+++..++|+++.++|..+++.|++
T Consensus 327 ~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~------------~g~~v~~i~G~~~~~eR~~i~~~~~~-- 392 (501)
T PHA02558 327 TKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKK------------VYDKVYYVSGEVDTEDRNEMKKIAEG-- 392 (501)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHhC--
Confidence 3456677777777767789999999999999999999986 58899999999999999999999985
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCC-cEEEEEEEeC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK-PVFAYRLMAH 1258 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK-~V~VYRLIa~ 1258 (1479)
+..+|+|.|++..|+|+|++..++||+++|+-+.....|++||++|.|..| .+.||.|+-.
T Consensus 393 -~~~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~ 454 (501)
T PHA02558 393 -GKGIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDD 454 (501)
T ss_pred -CCCeEEEEEcceeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeecc
Confidence 344566667799999999999999999999999999999999999998765 6899999864
No 26
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.93 E-value=2.6e-24 Score=262.69 Aligned_cols=369 Identities=17% Similarity=0.214 Sum_probs=259.3
Q ss_pred chhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhH
Q 000464 718 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVL 796 (1479)
Q Consensus 718 ~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl 796 (1479)
......|||||.+++.-++.+.- . ...|++.-.+|.|||+.++.++..+. .++||||| ..|+
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 45667899999999988765421 2 67899999999999999999887762 35999999 5577
Q ss_pred HHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCE
Q 000464 797 HNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 876 (1479)
Q Consensus 797 ~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dl 876 (1479)
.||.+.+.+++... -.+..+.+..+. +.. .+|.|+||+++.+.. .+..+....|++
T Consensus 94 ~Qw~~~~~~~~~~~---~~~g~~~~~~~~--------~~~-~~i~vat~qtl~~~~------------~l~~~~~~~~~l 149 (442)
T COG1061 94 DQWAEALKKFLLLN---DEIGIYGGGEKE--------LEP-AKVTVATVQTLARRQ------------LLDEFLGNEFGL 149 (442)
T ss_pred HHHHHHHHHhcCCc---cccceecCceec--------cCC-CcEEEEEhHHHhhhh------------hhhhhcccccCE
Confidence 89998898887642 123334443221 111 479999999875310 122334448999
Q ss_pred EEEcCCcccCCcchHHHHHHHhcccce-EEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCCh
Q 000464 877 LVCDEAHMIKNTRADTTQALKQVKCQR-RIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTS 955 (1479)
Q Consensus 877 VIlDEAH~IKN~~Sk~skalk~Lka~r-RllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~ 955 (1479)
||+||+|++-.+. ....+..+...+ |++|||||..........++++
T Consensus 150 iI~DE~Hh~~a~~--~~~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~------------------------------ 197 (442)
T COG1061 150 IIFDEVHHLPAPS--YRRILELLSAAYPRLGLTATPEREDGGRIGDLFDL------------------------------ 197 (442)
T ss_pred EEEEccccCCcHH--HHHHHHhhhcccceeeeccCceeecCCchhHHHHh------------------------------
Confidence 9999999995443 333445556666 9999999964332222222222
Q ss_pred HHHHHHHHHHHHHHHHHhHHhhhhhhhhHh--hcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHH
Q 000464 956 EDVKIMNQRSHILYEQLKGFVQRMDMNVVK--KDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFA 1033 (1479)
Q Consensus 956 ~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~--~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~ 1033 (1479)
+.+.+......++. ..|.|...+.+.+.++......|..+....... +.
T Consensus 198 ----------------~g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~-------------~~ 248 (442)
T COG1061 198 ----------------IGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFREL-------------LR 248 (442)
T ss_pred ----------------cCCeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhh-------------hh
Confidence 22222222222222 368899999999999999988887654321100 00
Q ss_pred HHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccc
Q 000464 1034 GYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKE 1113 (1479)
Q Consensus 1034 ~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~ 1113 (1479)
.... +... .+ .....
T Consensus 249 ~~~~---------~~~~-------------------------------------------------~~-------~~~~~ 263 (442)
T COG1061 249 ARGT---------LRAE-------------------------------------------------NE-------ARRIA 263 (442)
T ss_pred hhhh---------hhHH-------------------------------------------------HH-------HHHHh
Confidence 0000 0000 00 00001
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
.....|+..+..++.... .+.+++||+.+..++..|...|.. .|+ ...++|.++..+|..++++|.
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 123467788888887665 789999999999999999999885 355 889999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhh-cCCCCc--EEEEEEEeCCCHHHHHHHHHH
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWR-YGQTKP--VFAYRLMAHGTMEEKIYKRQV 1270 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~R-iGQkK~--V~VYRLIa~gTIEEkI~~rq~ 1270 (1479)
.+. + ..|++++++.+|+|++.|+.+|+..|.-++..+.|++||+.| ..+++. ++.|-++...+.+..+..+..
T Consensus 330 ~g~---~-~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (442)
T COG1061 330 TGG---I-KVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRR 405 (442)
T ss_pred cCC---C-CEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhh
Confidence 743 3 369999999999999999999999999999999999999999 444444 788888889998888876655
Q ss_pred H
Q 000464 1271 T 1271 (1479)
Q Consensus 1271 ~ 1271 (1479)
.
T Consensus 406 ~ 406 (442)
T COG1061 406 L 406 (442)
T ss_pred h
Confidence 4
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=99.90 E-value=3.3e-23 Score=239.55 Aligned_cols=362 Identities=21% Similarity=0.336 Sum_probs=251.2
Q ss_pred CCcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEE
Q 000464 710 GEEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALI 789 (1479)
Q Consensus 710 ~~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLI 789 (1479)
..+.+.+.-.-...|||||...++.|..+ ...+.||+.-+.|.|||+..|+.+.++ .+.+||
T Consensus 289 ~npdl~idLKPst~iRpYQEksL~KMFGN-----------gRARSGiIVLPCGAGKtLVGvTAa~ti-------kK~clv 350 (776)
T KOG1123|consen 289 VNPDLDIDLKPSTQIRPYQEKSLSKMFGN-----------GRARSGIIVLPCGAGKTLVGVTAACTI-------KKSCLV 350 (776)
T ss_pred CCCCCCcCcCcccccCchHHHHHHHHhCC-----------CcccCceEEEecCCCCceeeeeeeeee-------cccEEE
Confidence 34555565566788999999999999753 455779999999999999998877665 368999
Q ss_pred Eechhh-HHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHh
Q 000464 790 VTPVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICH 868 (1479)
Q Consensus 790 V~P~sL-l~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~ 868 (1479)
+|-.++ +.||...|..|..-. +-.+..+....+. .+....+|+|+||.|+.... +...-...+..
T Consensus 351 Lcts~VSVeQWkqQfk~wsti~--d~~i~rFTsd~Ke-------~~~~~~gvvvsTYsMva~t~-----kRS~eaek~m~ 416 (776)
T KOG1123|consen 351 LCTSAVSVEQWKQQFKQWSTIQ--DDQICRFTSDAKE-------RFPSGAGVVVTTYSMVAYTG-----KRSHEAEKIMD 416 (776)
T ss_pred EecCccCHHHHHHHHHhhcccC--ccceEEeeccccc-------cCCCCCcEEEEeeehhhhcc-----cccHHHHHHHH
Confidence 999776 889999999997542 2334444333221 13456799999999986421 11112333444
Q ss_pred hhcC-CCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhh-ccCCCCChHHHHhhhcCCcc
Q 000464 869 ALQD-GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV-REGFLGSSHEFRNRFQNPIE 946 (1479)
Q Consensus 869 lL~~-~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL-~P~~Lgs~~eF~~~F~~PI~ 946 (1479)
++.. .|+++|+||.|.+ |.....+.+.-+.+..+++||||-+... |-..=++|| .|.++.. .|...
T Consensus 417 ~l~~~EWGllllDEVHvv--PA~MFRRVlsiv~aHcKLGLTATLvRED--dKI~DLNFLIGPKlYEA--nWmdL------ 484 (776)
T KOG1123|consen 417 FLRGREWGLLLLDEVHVV--PAKMFRRVLSIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEA--NWMDL------ 484 (776)
T ss_pred HHhcCeeeeEEeehhccc--hHHHHHHHHHHHHHHhhccceeEEeecc--ccccccceeecchhhhc--cHHHH------
Confidence 5544 9999999999988 5555566666678999999999987542 222223444 2333210 00000
Q ss_pred cCCCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHH
Q 000464 947 NGQHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEK 1026 (1479)
Q Consensus 947 ~g~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~ 1026 (1479)
.-++ .+..-.--.|+|+||+ ++|+.|+....
T Consensus 485 ------------------------~~kG------------hIA~VqCaEVWCpMt~---eFy~eYL~~~t---------- 515 (776)
T KOG1123|consen 485 ------------------------QKKG------------HIAKVQCAEVWCPMTP---EFYREYLRENT---------- 515 (776)
T ss_pred ------------------------HhCC------------ceeEEeeeeeecCCCH---HHHHHHHhhhh----------
Confidence 0011 1223334568999997 46777765311
Q ss_pred HHhhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhh
Q 000464 1027 IRKSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLL 1106 (1479)
Q Consensus 1027 ~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll 1106 (1479)
++.+ |+.
T Consensus 516 -~kr~---------------lLy--------------------------------------------------------- 522 (776)
T KOG1123|consen 516 -RKRM---------------LLY--------------------------------------------------------- 522 (776)
T ss_pred -hhhh---------------eee---------------------------------------------------------
Confidence 0000 000
Q ss_pred hhccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHH
Q 000464 1107 HEHTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186 (1479)
Q Consensus 1107 ~~~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq 1186 (1479)
+-+..|+++..=+|+....+|+|+||||..+-.|....--|.+ -.|.|.|+..+|.
T Consensus 523 -------vMNP~KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----------------pfIYG~Tsq~ERm 578 (776)
T KOG1123|consen 523 -------VMNPNKFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----------------PFIYGPTSQNERM 578 (776)
T ss_pred -------ecCcchhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----------------ceEECCCchhHHH
Confidence 0123578888788888888999999999988776655444432 2488999999999
Q ss_pred HHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCC-CcchHHHHhHhhhhcCCC----CcEEEEEEEeCCCH
Q 000464 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQT----KPVFAYRLMAHGTM 1261 (1479)
Q Consensus 1187 ~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-NPa~d~QAIGRa~RiGQk----K~V~VYRLIa~gTI 1261 (1479)
+++..|+. |+.|.-+++| ++|-..|+|+.||.+|-+.... +-..+.||.||+.|---. -+++.|-||..+|.
T Consensus 579 ~ILqnFq~--n~~vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTq 655 (776)
T KOG1123|consen 579 KILQNFQT--NPKVNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQ 655 (776)
T ss_pred HHHHhccc--CCccceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchH
Confidence 99999998 5566555555 7999999999999999999877 667889999999997522 35899999999999
Q ss_pred HHH
Q 000464 1262 EEK 1264 (1479)
Q Consensus 1262 EEk 1264 (1479)
|-.
T Consensus 656 EM~ 658 (776)
T KOG1123|consen 656 EMY 658 (776)
T ss_pred HHH
Confidence 853
No 28
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.87 E-value=5.7e-20 Score=227.36 Aligned_cols=473 Identities=15% Similarity=0.145 Sum_probs=254.4
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech-hhHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~-sLl~qW 799 (1479)
...||+||.+-++-.+ +.++|+|.+||+|||+.|+.++..+++.... +++++.+|. .|+.|-
T Consensus 60 ~~~lR~YQ~eivq~AL---------------gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~--~KiVF~aP~~pLv~QQ 122 (746)
T KOG0354|consen 60 NLELRNYQEELVQPAL---------------GKNTIIALPTGSGKTFIAAVIMKNHFEWRPK--GKVVFLAPTRPLVNQQ 122 (746)
T ss_pred cccccHHHHHHhHHhh---------------cCCeEEEeecCCCccchHHHHHHHHHhcCCc--ceEEEeeCCchHHHHH
Confidence 3579999999887663 5799999999999999999999888877553 699999995 567777
Q ss_pred HHHHHHhCCCCCCCeEEEEecC--cchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLED--VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 877 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g--~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlV 877 (1479)
...|..++-+ ..+....+ ..+..|... | ...+|+++|.+.+.+......... ...|-++
T Consensus 123 ~a~~~~~~~~----~~~T~~l~~~~~~~~r~~i---~-~s~~vff~TpQil~ndL~~~~~~~-----------ls~fs~i 183 (746)
T KOG0354|consen 123 IACFSIYLIP----YSVTGQLGDTVPRSNRGEI---V-ASKRVFFRTPQILENDLKSGLHDE-----------LSDFSLI 183 (746)
T ss_pred HHHHhhccCc----ccceeeccCccCCCchhhh---h-cccceEEeChHhhhhhcccccccc-----------cceEEEE
Confidence 7888887643 23333322 334444432 3 567899999999876321111100 1258899
Q ss_pred EEcCCcccCCc--chHHHHHHHhc--ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChH--HHHhhhcCCcccCCCC
Q 000464 878 VCDEAHMIKNT--RADTTQALKQV--KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSH--EFRNRFQNPIENGQHT 951 (1479)
Q Consensus 878 IlDEAH~IKN~--~Sk~skalk~L--ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~--eF~~~F~~PI~~g~~~ 951 (1479)
|+||||+-... .+.+.+.+..+ ...+.|+|||||= +++...-..++=|.-. +.-.. .-...|. .-...
T Consensus 184 v~DE~Hra~kn~~Y~~Vmr~~l~~k~~~~qILgLTASpG-~~~~~v~~~I~~L~as-ldvr~~ssi~~~y~----~lr~~ 257 (746)
T KOG0354|consen 184 VFDECHRTSKNHPYNNIMREYLDLKNQGNQILGLTASPG-SKLEQVQNVIDNLCAS-LDVRTESSIKSNYE----ELREH 257 (746)
T ss_pred EEcccccccccccHHHHHHHHHHhhhccccEEEEecCCC-ccHHHHHHHHHhhhee-cccchhhhhhhhHH----HHhcc
Confidence 99999998532 23333333333 3447899999997 6666665555544433 21110 0011111 00000
Q ss_pred CCChHHH-HHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecC--CHHHHHHHHHHHHhhcccccccchHHHH
Q 000464 952 NSTSEDV-KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKL--SPLQRRLYKRFLDLHGFTNDRVSNEKIR 1028 (1479)
Q Consensus 952 dst~~dv-~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~L--S~~Qr~LY~~~l~~~~~~~~~~~~~~~~ 1028 (1479)
..-+.++ ..+......|...+.|++++.... .|++..-..-.... ...+.+.|..+ . ...
T Consensus 258 ~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~-~~q--- 320 (746)
T KOG0354|consen 258 VQIPVDLSLCERDIEDPFGMIIEPLLQQLQEE----GLIEISDKSTSYEQWVVQAEKAAAPNG---------P-ENQ--- 320 (746)
T ss_pred CcccCcHHHhhhhhhhhHHHHHHHHHHHHHhc----CccccccccccccchhhhhhhhhccCC---------C-ccc---
Confidence 0000011 112223344666677776654422 23222111110000 11111111100 0 000
Q ss_pred hhHHHHHHHHH----HHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhh
Q 000464 1029 KSFFAGYQALA----QIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWND 1104 (1479)
Q Consensus 1029 ~s~l~~l~~Lr----kIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ 1104 (1479)
+..|.++..+. .+.+|---+...... ..+ .......+. ..... . +...-..+..
T Consensus 321 ~~~f~~~~~~~~~~~ll~~~gir~~~~l~~-------~~~------f~~e~~~~k---~~~~~---~---e~~~~~~~~~ 378 (746)
T KOG0354|consen 321 RNCFYALHLRKYNLALLISDGIRFVDALDY-------LED------FYEEVALKK---YLKLE---L---EARLIRNFTE 378 (746)
T ss_pred hhhHHHHHHHHHHHHHHhhcchhhHHHHhh-------hhh------hccccchhH---HHHHH---h---cchhhHHHHH
Confidence 11122221111 111111000000000 000 000000000 00000 0 0000000111
Q ss_pred hhh---hccccccccChhHHHHHHHHHHhhcC--CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCC
Q 000464 1105 LLH---EHTYKELDYSGKMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR 1179 (1479)
Q Consensus 1105 ll~---~~~~~~i~~S~Kl~~L~eIL~~~~~~--G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGs 1179 (1479)
... ..........+|+..|.++|...... ..++|||+.++..+..|..+|..+..++-.+. |.-|..-..-.-+
T Consensus 379 ~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~-~fiGq~~s~~~~g 457 (746)
T KOG0354|consen 379 NMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAE-IFIGQGKSTQSTG 457 (746)
T ss_pred HHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccc-eeeeccccccccc
Confidence 111 11111124579999999999876553 56999999999999999999985433321111 1111111111135
Q ss_pred CCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1180 TESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1180 ts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
|+..+.+..++.|++ |.+. +|++|.+|.+||++..+|-||.||..-||...+||+|| +|--+. .++-|.+ |
T Consensus 458 mtqk~Q~evl~~Fr~---G~~N-vLVATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR-gRa~ns---~~vll~t-~ 528 (746)
T KOG0354|consen 458 MTQKEQKEVLDKFRD---GEIN-VLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GRARNS---KCVLLTT-G 528 (746)
T ss_pred cCHHHHHHHHHHHhC---CCcc-EEEEecchhccCCcccccEEEEecCCccHHHHHHHhcc-ccccCC---eEEEEEc-c
Confidence 778889999999997 4454 58999999999999999999999999999999999999 675444 4444444 4
Q ss_pred CHHHHHHHHHHHHHHHHHHHhcccc
Q 000464 1260 TMEEKIYKRQVTKEGLAARVVDRQQ 1284 (1479)
Q Consensus 1260 TIEEkI~~rq~~K~~La~rVVd~~~ 1284 (1479)
.=+-+--..+..|..+++..+..-+
T Consensus 529 ~~~~~~E~~~~~~e~lm~~~i~~~q 553 (746)
T KOG0354|consen 529 SEVIEFERNNLAKEKLMNQTISKIQ 553 (746)
T ss_pred hhHHHHHHHHHhHHHHHHHHHHHHH
Confidence 3333333446677777776666543
No 29
>PTZ00110 helicase; Provisional
Probab=99.85 E-value=1.1e-19 Score=227.62 Aligned_cols=125 Identities=22% Similarity=0.243 Sum_probs=109.1
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|...|..+|..+...+.++|||++....++.|...|.. .|+....++|.++..+|..+++.|+++
T Consensus 360 ~~k~~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~------------~g~~~~~ihg~~~~~eR~~il~~F~~G- 426 (545)
T PTZ00110 360 HEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRL------------DGWPALCIHGDKKQEERTWVLNEFKTG- 426 (545)
T ss_pred hhHHHHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHH------------cCCcEEEEECCCcHHHHHHHHHHHhcC-
Confidence 3567777888887766788999999999999999999985 578889999999999999999999963
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
.++ +||+|.+++.|||+..+++||+||+++++..+.|++||++|.|.+-. +|.|++.+
T Consensus 427 --~~~-ILVaTdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G~--ai~~~~~~ 484 (545)
T PTZ00110 427 --KSP-IMIATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGA--SYTFLTPD 484 (545)
T ss_pred --CCc-EEEEcchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCce--EEEEECcc
Confidence 444 58999999999999999999999999999999999999999998644 45566654
No 30
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.85 E-value=3.9e-19 Score=219.54 Aligned_cols=105 Identities=19% Similarity=0.177 Sum_probs=95.2
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+.++|||+.+....+.+...|.. .|+....++|+++..+|..+++.|.+ +.++ +|++|.+.|.
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~------------~g~~~~~~H~~l~~~eR~~i~~~F~~---g~~~-vLVaT~~~~~ 288 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQN------------LGIAAGAYHAGLEISARDDVHHKFQR---DEIQ-VVVATVAFGM 288 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHh------------cCCCeeEeeCCCCHHHHHHHHHHHHc---CCCc-EEEEechhhc
Confidence 467789999999999999999986 58899999999999999999999996 4455 5888999999
Q ss_pred ccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEE
Q 000464 1213 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1213 GLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VY 1253 (1479)
|||+++.+.||+|+++.++..+.|++||++|.|+...+.+|
T Consensus 289 GID~p~V~~VI~~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 289 GINKPDVRFVIHYSLPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred cCCcccceEEEEeCCCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 99999999999999999999999999999999988766654
No 31
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.84 E-value=4.1e-19 Score=218.86 Aligned_cols=320 Identities=17% Similarity=0.194 Sum_probs=209.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~ 801 (1479)
.+.|+|.+++..++ .+...|+..++|.|||+..+..+...+.... ....+||||| ..|+.||.+
T Consensus 26 ~~t~iQ~~ai~~~l--------------~g~dvi~~a~TGsGKT~a~~lpil~~l~~~~-~~~~~lil~PtreLa~Q~~~ 90 (460)
T PRK11776 26 EMTPIQAQSLPAIL--------------AGKDVIAQAKTGSGKTAAFGLGLLQKLDVKR-FRVQALVLCPTRELADQVAK 90 (460)
T ss_pred CCCHHHHHHHHHHh--------------cCCCEEEECCCCCcHHHHHHHHHHHHhhhcc-CCceEEEEeCCHHHHHHHHH
Confidence 47799999998774 3578999999999999875544444333221 1236899999 557789999
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 881 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDE 881 (1479)
++.++.... ..+++..+.|...... ....+....+|+|+|++.+..+.... .+....+++||+||
T Consensus 91 ~~~~~~~~~-~~~~v~~~~Gg~~~~~--~~~~l~~~~~IvV~Tp~rl~~~l~~~------------~~~l~~l~~lViDE 155 (460)
T PRK11776 91 EIRRLARFI-PNIKVLTLCGGVPMGP--QIDSLEHGAHIIVGTPGRILDHLRKG------------TLDLDALNTLVLDE 155 (460)
T ss_pred HHHHHHhhC-CCcEEEEEECCCChHH--HHHHhcCCCCEEEEChHHHHHHHHcC------------CccHHHCCEEEEEC
Confidence 998875321 1366666655432211 12333456789999998775332110 11122678999999
Q ss_pred CcccCCcc--hHHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHH
Q 000464 882 AHMIKNTR--ADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 958 (1479)
Q Consensus 882 AH~IKN~~--Sk~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv 958 (1479)
||++-+.. ..+...+..+ .....+++|||+-. .+.. +
T Consensus 156 ad~~l~~g~~~~l~~i~~~~~~~~q~ll~SAT~~~-~~~~------------------l--------------------- 195 (460)
T PRK11776 156 ADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPE-GIAA------------------I--------------------- 195 (460)
T ss_pred HHHHhCcCcHHHHHHHHHhCCcccEEEEEEecCcH-HHHH------------------H---------------------
Confidence 99886432 2334444444 34457888988621 0000 0
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHH
Q 000464 959 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQAL 1038 (1479)
Q Consensus 959 ~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l~~L 1038 (1479)
...++. -| ..+.+.... .
T Consensus 196 -------------~~~~~~----------~~----~~i~~~~~~------------------~----------------- 213 (460)
T PRK11776 196 -------------SQRFQR----------DP----VEVKVESTH------------------D----------------- 213 (460)
T ss_pred -------------HHHhcC----------CC----EEEEECcCC------------------C-----------------
Confidence 000000 00 000000000 0
Q ss_pred HHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccccCh
Q 000464 1039 AQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSG 1118 (1479)
Q Consensus 1039 rkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~ 1118 (1479)
.+.+ ...+..+....
T Consensus 214 -----~~~i------------------------------------------------------------~~~~~~~~~~~ 228 (460)
T PRK11776 214 -----LPAI------------------------------------------------------------EQRFYEVSPDE 228 (460)
T ss_pred -----CCCe------------------------------------------------------------eEEEEEeCcHH
Confidence 0000 00000111223
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|+..|..+|... .+.++|||++....++.+...|.. .|+....++|.++..+|+.+++.|++ +
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 777777777643 357899999999999999999986 58889999999999999999999996 3
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
.++ +||+|.+++.|||++++++||+||++.++..+.|++||++|.|+.- ..|.|+..+
T Consensus 292 ~~~-vLVaTdv~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 292 SCS-VLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred CCc-EEEEecccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 444 5889999999999999999999999999999999999999999763 455566553
No 32
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=3.6e-19 Score=220.19 Aligned_cols=122 Identities=25% Similarity=0.336 Sum_probs=102.7
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
+.|..+|..++.. ....|+|||++....++.|..+|.. .|+.+..++|.++..+|.++++.|++
T Consensus 320 ~~k~~~l~~ll~~--~~~~~~IVF~~s~~~~~~l~~~L~~------------~~~~~~~~~g~~~~~~R~~~~~~Fr~-- 383 (475)
T PRK01297 320 SDKYKLLYNLVTQ--NPWERVMVFANRKDEVRRIEERLVK------------DGINAAQLSGDVPQHKRIKTLEGFRE-- 383 (475)
T ss_pred hhHHHHHHHHHHh--cCCCeEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEECCCCHHHHHHHHHHHhC--
Confidence 3455666666654 2357999999999999999999986 57889999999999999999999996
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
+.++ +|++|.++++|||+.+++.||+||+++++..+.|++||++|.|+.-. +|.|+..
T Consensus 384 -G~~~-vLvaT~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~ 441 (475)
T PRK01297 384 -GKIR-VLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGV--SISFAGE 441 (475)
T ss_pred -CCCc-EEEEccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCce--EEEEecH
Confidence 3454 58899999999999999999999999999999999999999998643 3444443
No 33
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.84 E-value=8e-19 Score=214.72 Aligned_cols=117 Identities=24% Similarity=0.355 Sum_probs=101.7
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|..+|..++.. ....++|||+.....++.|...|.. .|+....++|.++..+|..++++|++
T Consensus 231 ~k~~~l~~l~~~--~~~~~~lVF~~s~~~~~~l~~~L~~------------~~~~~~~l~g~~~~~~R~~~l~~f~~--- 293 (434)
T PRK11192 231 HKTALLCHLLKQ--PEVTRSIVFVRTRERVHELAGWLRK------------AGINCCYLEGEMVQAKRNEAIKRLTD--- 293 (434)
T ss_pred HHHHHHHHHHhc--CCCCeEEEEeCChHHHHHHHHHHHh------------CCCCEEEecCCCCHHHHHHHHHHHhC---
Confidence 466666666653 2357999999999999999999986 58899999999999999999999996
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEE
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
+.++ +|++|.+++.|||++++++||+||+++++..+.|++||++|.|..-.+.+
T Consensus 294 G~~~-vLVaTd~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 294 GRVN-VLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred CCCc-EEEEccccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEE
Confidence 4554 58899999999999999999999999999999999999999998755444
No 34
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.84 E-value=2e-19 Score=224.39 Aligned_cols=124 Identities=23% Similarity=0.260 Sum_probs=103.8
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|...|.++|........++|||+.....++.|...|.. ..|+.+..++|.++..+|..+++.|.+ +
T Consensus 352 k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~-----------~~g~~~~~~Hg~~~~~eR~~il~~Fr~---G 417 (518)
T PLN00206 352 KKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITV-----------VTGLKALSIHGEKSMKERREVMKSFLV---G 417 (518)
T ss_pred HHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhh-----------ccCcceEEeeCCCCHHHHHHHHHHHHC---C
Confidence 44556666665444456899999999999999999975 247889999999999999999999996 4
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
.++ +|++|.+++.|||+..+++||+||++.++..+.|++||++|.|.. -.+|.|+..+
T Consensus 418 ~~~-ILVaTdvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~--G~ai~f~~~~ 475 (518)
T PLN00206 418 EVP-VIVATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEK--GTAIVFVNEE 475 (518)
T ss_pred CCC-EEEEecHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCC--eEEEEEEchh
Confidence 454 589999999999999999999999999999999999999999965 3444566543
No 35
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.83 E-value=6.7e-19 Score=216.77 Aligned_cols=102 Identities=18% Similarity=0.248 Sum_probs=92.6
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
..++|||+......+.|...|.. .|+....++|.++..+|..+++.|.+ +.++ +|++|.+++.|
T Consensus 245 ~~~~lVF~~t~~~~~~l~~~L~~------------~g~~~~~lhg~~~~~~R~~~l~~F~~---g~~~-iLVaTdv~~rG 308 (456)
T PRK10590 245 WQQVLVFTRTKHGANHLAEQLNK------------DGIRSAAIHGNKSQGARTRALADFKS---GDIR-VLVATDIAARG 308 (456)
T ss_pred CCcEEEEcCcHHHHHHHHHHHHH------------CCCCEEEEECCCCHHHHHHHHHHHHc---CCCc-EEEEccHHhcC
Confidence 46899999999999999999986 57889999999999999999999996 4454 58899999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEE
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
||+.+.++||+||++.++..+.|++||++|.|.+-.+.
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 99999999999999999999999999999999875443
No 36
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.83 E-value=6.1e-19 Score=215.13 Aligned_cols=121 Identities=20% Similarity=0.247 Sum_probs=104.8
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+..|..++... ...++|||++....++.|...|.. .|+.+..++|.++..+|..+++.|++
T Consensus 241 ~k~~~l~~ll~~~--~~~~~lVF~~t~~~~~~l~~~L~~------------~g~~v~~lhg~~~~~~R~~~l~~F~~--- 303 (423)
T PRK04837 241 EKMRLLQTLIEEE--WPDRAIIFANTKHRCEEIWGHLAA------------DGHRVGLLTGDVAQKKRLRILEEFTR--- 303 (423)
T ss_pred HHHHHHHHHHHhc--CCCeEEEEECCHHHHHHHHHHHHh------------CCCcEEEecCCCChhHHHHHHHHHHc---
Confidence 4677777777642 367999999999999999999986 58899999999999999999999996
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
+.++ +|++|.+++.|||+++.++||+||+++++..+.|++||++|.|+.-. ++.|++.
T Consensus 304 g~~~-vLVaTdv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 304 GDLD-ILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGH--SISLACE 361 (423)
T ss_pred CCCc-EEEEechhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCee--EEEEeCH
Confidence 4454 58999999999999999999999999999999999999999997643 4455654
No 37
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.83 E-value=4.6e-19 Score=234.47 Aligned_cols=115 Identities=14% Similarity=0.183 Sum_probs=90.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
+.|+|||+....+++.+.+.|...+...+.+ ..+..+..++|+++ ++..++++|.++.. ..+|+|+...++|
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~---~~~~~v~~itg~~~--~~~~li~~Fk~~~~---p~IlVsvdmL~TG 769 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQ---VEDDAVIKITGSID--KPDQLIRRFKNERL---PNIVVTVDLLTTG 769 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCC---cCccceEEEeCCcc--chHHHHHHHhCCCC---CeEEEEecccccC
Confidence 4799999999999999888887632110000 01234567999986 67889999987433 3479999999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCC---CCcEEEEEEE
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ---TKPVFAYRLM 1256 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQ---kK~V~VYRLI 1256 (1479)
+|.+..+.||++.|.-++....|++||+.|..- |....||.++
T Consensus 770 ~DvP~v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 770 IDVPSICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred CCcccccEEEEecCCCCHHHHHHHHhhhccCCccCCCceEEEEehH
Confidence 999999999999999999999999999999854 5667788765
No 38
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.82 E-value=1.6e-18 Score=218.16 Aligned_cols=121 Identities=21% Similarity=0.344 Sum_probs=103.6
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+..|..++.. ..+.++|||+.....++.|...|.. .|+....++|.++..+|..+++.|++
T Consensus 243 ~k~~~L~~ll~~--~~~~k~LVF~nt~~~ae~l~~~L~~------------~g~~v~~lhg~l~~~eR~~il~~Fr~--- 305 (572)
T PRK04537 243 EKQTLLLGLLSR--SEGARTMVFVNTKAFVERVARTLER------------HGYRVGVLSGDVPQKKRESLLNRFQK--- 305 (572)
T ss_pred HHHHHHHHHHhc--ccCCcEEEEeCCHHHHHHHHHHHHH------------cCCCEEEEeCCCCHHHHHHHHHHHHc---
Confidence 456666666654 3468999999999999999999986 58899999999999999999999996
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
+.++ +||+|.+++.|||+.+.++||+||.++++..+.|++||+.|.|..-.+ +.|++.
T Consensus 306 G~~~-VLVaTdv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~a--i~~~~~ 363 (572)
T PRK04537 306 GQLE-ILVATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDA--ISFACE 363 (572)
T ss_pred CCCe-EEEEehhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCceE--EEEecH
Confidence 4454 589999999999999999999999999999999999999999986544 345544
No 39
>PTZ00424 helicase 45; Provisional
Probab=99.82 E-value=1.7e-18 Score=209.27 Aligned_cols=108 Identities=17% Similarity=0.281 Sum_probs=95.3
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
..++|||+.....++.+...|.. .++....++|.++..+|..+++.|++ +.++ +|++|.+.++|
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~------------~~~~~~~~h~~~~~~~R~~i~~~f~~---g~~~-vLvaT~~l~~G 330 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHE------------RDFTVSCMHGDMDQKDRDLIMREFRS---GSTR-VLITTDLLARG 330 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHH------------CCCcEEEEeCCCCHHHHHHHHHHHHc---CCCC-EEEEcccccCC
Confidence 46899999999999999999986 57889999999999999999999996 4454 58999999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
||++.++.||+||++.++....|++||++|.|.. -.+|.|++..
T Consensus 331 iDip~v~~VI~~~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~ 374 (401)
T PTZ00424 331 IDVQQVSLVINYDLPASPENYIHRIGRSGRFGRK--GVAINFVTPD 374 (401)
T ss_pred cCcccCCEEEEECCCCCHHHEeecccccccCCCC--ceEEEEEcHH
Confidence 9999999999999999999999999999999864 3455566554
No 40
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.82 E-value=5.7e-18 Score=214.90 Aligned_cols=116 Identities=23% Similarity=0.212 Sum_probs=99.4
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
+...+.+.|.... +.++|||+.+....+.+..+|.. .|+.+..++|+++.++|..+++.|..+
T Consensus 211 ~~~~l~~~l~~~~--~~~~IIf~~sr~~~e~la~~L~~------------~g~~~~~~H~~l~~~~R~~i~~~F~~g--- 273 (591)
T TIGR01389 211 KQKFLLDYLKKHR--GQSGIIYASSRKKVEELAERLES------------QGISALAYHAGLSNKVRAENQEDFLYD--- 273 (591)
T ss_pred HHHHHHHHHHhcC--CCCEEEEECcHHHHHHHHHHHHh------------CCCCEEEEECCCCHHHHHHHHHHHHcC---
Confidence 3444555555432 68899999999999999999986 588899999999999999999999863
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEE
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
.++ +|++|.+.|.|||++.++.||+|+++.|+..+.|++||++|.|+...+.+
T Consensus 274 ~~~-vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~il 326 (591)
T TIGR01389 274 DVK-VMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAIL 326 (591)
T ss_pred CCc-EEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEEE
Confidence 343 68999999999999999999999999999999999999999997755543
No 41
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.81 E-value=5.6e-18 Score=215.03 Aligned_cols=103 Identities=19% Similarity=0.210 Sum_probs=93.4
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+.++|||+.+....+.+...|.. .|+.+..++|+++..+|..+++.|.. +.++ +|++|.+.|.
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 468999999999999999999986 68899999999999999999999986 3444 5889999999
Q ss_pred ccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEE
Q 000464 1213 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1213 GLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
|||+++.+.||+||+|.++..+.|++||++|.|....+.
T Consensus 299 GIDip~V~~VI~~d~P~s~~~y~Qr~GRaGR~G~~~~~i 337 (607)
T PRK11057 299 GINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAM 337 (607)
T ss_pred cCCCCCcCEEEEeCCCCCHHHHHHHhhhccCCCCCceEE
Confidence 999999999999999999999999999999999765443
No 42
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.81 E-value=9.3e-18 Score=213.89 Aligned_cols=312 Identities=16% Similarity=0.216 Sum_probs=195.5
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-hHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s-Ll~qW 799 (1479)
.-.|.++|..++..++.... .......+|..++|.|||+.++..+...+.. ...+||++|.. |..||
T Consensus 233 pf~lt~~Q~~ai~~I~~~~~--------~~~~~~~Ll~g~TGSGKT~va~l~il~~~~~----g~qvlilaPT~~LA~Q~ 300 (630)
T TIGR00643 233 PFKLTRAQKRVVKEILQDLK--------SDVPMNRLLQGDVGSGKTLVAALAMLAAIEA----GYQVALMAPTEILAEQH 300 (630)
T ss_pred CCCCCHHHHHHHHHHHHHhc--------cCCCccEEEECCCCCcHHHHHHHHHHHHHHc----CCcEEEECCHHHHHHHH
Confidence 34789999999988865421 1233467999999999999876555444432 24799999965 55799
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHh-hcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 877 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~-~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlV 877 (1479)
.+++.+|++. ..+++..+.+... ..+...+.... ...+|+|.|+..+... ......++|
T Consensus 301 ~~~~~~l~~~--~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~-----------------~~~~~l~lv 361 (630)
T TIGR00643 301 YNSLRNLLAP--LGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEK-----------------VEFKRLALV 361 (630)
T ss_pred HHHHHHHhcc--cCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhcc-----------------ccccccceE
Confidence 9999999874 1367777776543 33333333322 2458999988765320 011267899
Q ss_pred EEcCCcccCCcchHHHHHHHhcc---cceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCC
Q 000464 878 VCDEAHMIKNTRADTTQALKQVK---CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 954 (1479)
Q Consensus 878 IlDEAH~IKN~~Sk~skalk~Lk---a~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst 954 (1479)
|+||+|++.- .+......... ..+.++|||||+...+. +..+ +.. +
T Consensus 362 VIDEaH~fg~--~qr~~l~~~~~~~~~~~~l~~SATp~prtl~----l~~~------~~l-----------------~-- 410 (630)
T TIGR00643 362 IIDEQHRFGV--EQRKKLREKGQGGFTPHVLVMSATPIPRTLA----LTVY------GDL-----------------D-- 410 (630)
T ss_pred EEechhhccH--HHHHHHHHhcccCCCCCEEEEeCCCCcHHHH----HHhc------CCc-----------------c--
Confidence 9999999732 22222333333 57899999999753221 0000 000 0
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCe--EEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 955 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKT--VFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 955 ~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~--e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
. .....+|+.. .....+.-.
T Consensus 411 --------------------------~-~~i~~~p~~r~~i~~~~~~~~------------------------------- 432 (630)
T TIGR00643 411 --------------------------T-SIIDELPPGRKPITTVLIKHD------------------------------- 432 (630)
T ss_pred --------------------------e-eeeccCCCCCCceEEEEeCcc-------------------------------
Confidence 0 0000122110 000000000
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccc
Q 000464 1033 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 1112 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 1112 (1479)
T Consensus 433 -------------------------------------------------------------------------------- 432 (630)
T TIGR00643 433 -------------------------------------------------------------------------------- 432 (630)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccChhHHHHHHHHHHhhcCCCeEEEEcCch--------hhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHH
Q 000464 1113 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSI--------PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSE 1184 (1479)
Q Consensus 1113 ~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~--------~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~e 1184 (1479)
+...+...+......|++++||+... ..+..+...|... ..++.+..++|.++..+
T Consensus 433 ------~~~~~~~~i~~~l~~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~----------~~~~~v~~lHG~m~~~e 496 (630)
T TIGR00643 433 ------EKDIVYEFIEEEIAKGRQAYVVYPLIEESEKLDLKAAEALYERLKKA----------FPKYNVGLLHGRMKSDE 496 (630)
T ss_pred ------hHHHHHHHHHHHHHhCCcEEEEEccccccccchHHHHHHHHHHHHhh----------CCCCcEEEEeCCCCHHH
Confidence 00122222333334466677776543 2334455555531 14678999999999999
Q ss_pred HHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCC-CcchHHHHhHhhhhcCCCCcEEE
Q 000464 1185 RQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1185 Rq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-NPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
|..++++|.++ .++ +|++|.+.++|||++.++.||+++++. +-+...|++||++|-|..-.|++
T Consensus 497 R~~i~~~F~~g---~~~-ILVaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~il 561 (630)
T TIGR00643 497 KEAVMEEFREG---EVD-ILVATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQSYCLL 561 (630)
T ss_pred HHHHHHHHHcC---CCC-EEEECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCcEEEE
Confidence 99999999963 444 588999999999999999999999975 67888999999999987655543
No 43
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.79 E-value=1.9e-17 Score=209.85 Aligned_cols=116 Identities=20% Similarity=0.251 Sum_probs=101.5
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|...|..+|... ...++|||+......+.|...|.. .|+....++|.++..+|..++++|++
T Consensus 231 ~k~~~L~~~L~~~--~~~~~IVF~~tk~~a~~l~~~L~~------------~g~~~~~lhgd~~q~~R~~il~~Fr~--- 293 (629)
T PRK11634 231 RKNEALVRFLEAE--DFDAAIIFVRTKNATLEVAEALER------------NGYNSAALNGDMNQALREQTLERLKD--- 293 (629)
T ss_pred hHHHHHHHHHHhc--CCCCEEEEeccHHHHHHHHHHHHh------------CCCCEEEeeCCCCHHHHHHHHHHHhC---
Confidence 4677777777642 347899999999999999999986 58889999999999999999999996
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEE
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
+.++ +||+|.+++.|||+...++||+||++.++..+.|++||+.|.|..-.+.
T Consensus 294 G~~~-ILVATdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ai 346 (629)
T PRK11634 294 GRLD-ILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRAL 346 (629)
T ss_pred CCCC-EEEEcchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcceEE
Confidence 3444 6999999999999999999999999999999999999999999764433
No 44
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.79 E-value=2.5e-17 Score=211.49 Aligned_cols=310 Identities=16% Similarity=0.211 Sum_probs=198.6
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-hHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s-Ll~qW 799 (1479)
.-.|.++|..++.-+...+. .......+|..++|.|||+.++..+...... ...+||++|.. |..|+
T Consensus 259 ~f~lt~~Q~~ai~~I~~d~~--------~~~~~~~Ll~~~TGSGKT~va~~~il~~~~~----g~q~lilaPT~~LA~Q~ 326 (681)
T PRK10917 259 PFELTGAQKRVVAEILADLA--------SPKPMNRLLQGDVGSGKTVVAALAALAAIEA----GYQAALMAPTEILAEQH 326 (681)
T ss_pred CCCCCHHHHHHHHHHHHhhh--------ccCCceEEEECCCCCcHHHHHHHHHHHHHHc----CCeEEEEeccHHHHHHH
Confidence 34699999999988765321 1223468999999999999887665544432 24799999955 56699
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHhh-cCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 877 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~~-~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlV 877 (1479)
.+.|.+|++. ..+++..+.|... ..+...+..... ..+|+|.|+..+... ......++|
T Consensus 327 ~~~l~~l~~~--~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~-----------------v~~~~l~lv 387 (681)
T PRK10917 327 YENLKKLLEP--LGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDD-----------------VEFHNLGLV 387 (681)
T ss_pred HHHHHHHHhh--cCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhccc-----------------chhcccceE
Confidence 9999999865 2367777776543 344455555443 478999988765421 011267899
Q ss_pred EEcCCcccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChH
Q 000464 878 VCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSE 956 (1479)
Q Consensus 878 IlDEAH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~ 956 (1479)
|+||+|++. ......+... ...+.++|||||+...+. +.. ++.
T Consensus 388 VIDE~Hrfg---~~qr~~l~~~~~~~~iL~~SATp~prtl~----~~~------~g~----------------------- 431 (681)
T PRK10917 388 IIDEQHRFG---VEQRLALREKGENPHVLVMTATPIPRTLA----MTA------YGD----------------------- 431 (681)
T ss_pred EEechhhhh---HHHHHHHHhcCCCCCEEEEeCCCCHHHHH----HHH------cCC-----------------------
Confidence 999999972 2233334333 357789999999643211 000 000
Q ss_pred HHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCe--EEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000464 957 DVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKT--VFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 1034 (1479)
Q Consensus 957 dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~--e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~ 1034 (1479)
+ .. .+...+|+.. .....+
T Consensus 432 ---------------~-------~~-s~i~~~p~~r~~i~~~~~------------------------------------ 452 (681)
T PRK10917 432 ---------------L-------DV-SVIDELPPGRKPITTVVI------------------------------------ 452 (681)
T ss_pred ---------------C-------ce-EEEecCCCCCCCcEEEEe------------------------------------
Confidence 0 00 0000111100 000000
Q ss_pred HHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccccc
Q 000464 1035 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 1114 (1479)
Q Consensus 1035 l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i 1114 (1479)
T Consensus 453 -------------------------------------------------------------------------------- 452 (681)
T PRK10917 453 -------------------------------------------------------------------------------- 452 (681)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchh--------hHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHH
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIP--------TLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ 1186 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~--------tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq 1186 (1479)
...+...+.+.+......|++++||+.... .+..+.+.|... ..++++..++|.++..+|.
T Consensus 453 -~~~~~~~~~~~i~~~~~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~----------~~~~~v~~lHG~m~~~eR~ 521 (681)
T PRK10917 453 -PDSRRDEVYERIREEIAKGRQAYVVCPLIEESEKLDLQSAEETYEELQEA----------FPELRVGLLHGRMKPAEKD 521 (681)
T ss_pred -CcccHHHHHHHHHHHHHcCCcEEEEEcccccccchhHHHHHHHHHHHHHH----------CCCCcEEEEeCCCCHHHHH
Confidence 001112223334334456788888887432 234455555541 1347899999999999999
Q ss_pred HHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCC-CcchHHHHhHhhhhcCCCCcEE
Q 000464 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1187 ~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-NPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
.++++|.+ +.++ +|++|.+.+.|+|+++++.||+++++. ..+...|++||++|-|..-.|+
T Consensus 522 ~i~~~F~~---g~~~-ILVaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g~~i 583 (681)
T PRK10917 522 AVMAAFKA---GEID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGAAQSYCV 583 (681)
T ss_pred HHHHHHHc---CCCC-EEEECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHhhcccCCCCceEEE
Confidence 99999996 3444 589999999999999999999999975 5688899999999998764444
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=99.78 E-value=2.4e-17 Score=214.92 Aligned_cols=311 Identities=15% Similarity=0.238 Sum_probs=202.6
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-hHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~ 801 (1479)
.+.|+|..++..+...+. ...+...++..++|.|||..++..+...... .+.++|+||+. |+.|...
T Consensus 451 ~~T~~Q~~aI~~I~~d~~--------~~~~~d~Ll~adTGsGKT~val~a~l~al~~----g~qvlvLvPT~~LA~Q~~~ 518 (926)
T TIGR00580 451 EETPDQLKAIEEIKADME--------SPRPMDRLVCGDVGFGKTEVAMRAAFKAVLD----GKQVAVLVPTTLLAQQHFE 518 (926)
T ss_pred CCCHHHHHHHHHHHhhhc--------ccCcCCEEEECCCCccHHHHHHHHHHHHHHh----CCeEEEEeCcHHHHHHHHH
Confidence 478999999988865421 1234578999999999998876554443332 25899999955 5668999
Q ss_pred HHHHhCCCCCCCeEEEEecCcc-hhHHHHHHHHHhh-cCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000464 802 EFMKWRPSELKPLRVFMLEDVS-RDRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 879 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~-~~~r~~~l~~w~~-~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIl 879 (1479)
.|.+++.. .++++..+++.. ...+...+..+.. ..+|+|.|+..+.. .....+..+||+
T Consensus 519 ~f~~~~~~--~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~-----------------~v~f~~L~llVI 579 (926)
T TIGR00580 519 TFKERFAN--FPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQK-----------------DVKFKDLGLLII 579 (926)
T ss_pred HHHHHhcc--CCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhC-----------------CCCcccCCEEEe
Confidence 99998764 246777666543 2334444444433 46788888754321 001125689999
Q ss_pred cCCcccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHH
Q 000464 880 DEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 958 (1479)
Q Consensus 880 DEAH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv 958 (1479)
||+|++. ......++.+ .....++|||||+...+.. ++..+..+.
T Consensus 580 DEahrfg---v~~~~~L~~~~~~~~vL~~SATpiprtl~~--~l~g~~d~s----------------------------- 625 (926)
T TIGR00580 580 DEEQRFG---VKQKEKLKELRTSVDVLTLSATPIPRTLHM--SMSGIRDLS----------------------------- 625 (926)
T ss_pred ecccccc---hhHHHHHHhcCCCCCEEEEecCCCHHHHHH--HHhcCCCcE-----------------------------
Confidence 9999973 2334455555 3567899999997532211 000000000
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEE---EecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHH
Q 000464 959 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVI---TVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGY 1035 (1479)
Q Consensus 959 ~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv---~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l 1035 (1479)
.+ ..||.....+ .+..
T Consensus 626 ------------------------~I--~~~p~~R~~V~t~v~~~----------------------------------- 644 (926)
T TIGR00580 626 ------------------------II--ATPPEDRLPVRTFVMEY----------------------------------- 644 (926)
T ss_pred ------------------------EE--ecCCCCccceEEEEEec-----------------------------------
Confidence 00 0111000000 0000
Q ss_pred HHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccc
Q 000464 1036 QALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELD 1115 (1479)
Q Consensus 1036 ~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~ 1115 (1479)
T Consensus 645 -------------------------------------------------------------------------------- 644 (926)
T TIGR00580 645 -------------------------------------------------------------------------------- 644 (926)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
+. ..+...+......|.+++||++....++.+...|..+ ..++++..++|.|+..+|.+++.+|.++
T Consensus 645 -~~--~~i~~~i~~el~~g~qv~if~n~i~~~e~l~~~L~~~----------~p~~~v~~lHG~m~~~eRe~im~~F~~G 711 (926)
T TIGR00580 645 -DP--ELVREAIRRELLRGGQVFYVHNRIESIEKLATQLREL----------VPEARIAIAHGQMTENELEEVMLEFYKG 711 (926)
T ss_pred -CH--HHHHHHHHHHHHcCCeEEEEECCcHHHHHHHHHHHHh----------CCCCeEEEecCCCCHHHHHHHHHHHHcC
Confidence 00 0011111111234789999999999999999999863 1467899999999999999999999963
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEeCC-CCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~-WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
+++ +|+||.+.+.|||++.+++||+++++ +..+...|++||++|.|.+- ++|-|+..
T Consensus 712 ---k~~-ILVaT~iie~GIDIp~v~~VIi~~a~~~gls~l~Qr~GRvGR~g~~g--~aill~~~ 769 (926)
T TIGR00580 712 ---EFQ-VLVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSKKKA--YAYLLYPH 769 (926)
T ss_pred ---CCC-EEEECChhhcccccccCCEEEEecCCCCCHHHHHHHhcCCCCCCCCe--EEEEEECC
Confidence 444 58999999999999999999999985 45667889999999988654 45555544
No 46
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.78 E-value=4.8e-17 Score=209.88 Aligned_cols=348 Identities=14% Similarity=0.130 Sum_probs=213.8
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~ 800 (1479)
..|+|||..++..+. .|...|+...+|.|||+..+.-+...+... ...++|||+| ..|..|-.
T Consensus 35 ~~p~~~Q~~ai~~il--------------~G~nvvv~apTGSGKTla~~LPiL~~l~~~--~~~~aL~l~PtraLa~q~~ 98 (742)
T TIGR03817 35 HRPWQHQARAAELAH--------------AGRHVVVATGTASGKSLAYQLPVLSALADD--PRATALYLAPTKALAADQL 98 (742)
T ss_pred CcCCHHHHHHHHHHH--------------CCCCEEEECCCCCcHHHHHHHHHHHHHhhC--CCcEEEEEcChHHHHHHHH
Confidence 358999999998763 467899999999999988755444333222 2347999999 55667888
Q ss_pred HHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 801 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
.++.++.. ..+++..++|......... .....+|+|+|.+++......... .... +..+.++||+|
T Consensus 99 ~~l~~l~~---~~i~v~~~~Gdt~~~~r~~---i~~~~~IivtTPd~L~~~~L~~~~-------~~~~-~l~~l~~vViD 164 (742)
T TIGR03817 99 RAVRELTL---RGVRPATYDGDTPTEERRW---AREHARYVLTNPDMLHRGILPSHA-------RWAR-FLRRLRYVVID 164 (742)
T ss_pred HHHHHhcc---CCeEEEEEeCCCCHHHHHH---HhcCCCEEEEChHHHHHhhccchh-------HHHH-HHhcCCEEEEe
Confidence 88888862 2467777777654322222 234578999999887531111110 1111 12377999999
Q ss_pred CCcccCC-cchHHHHHHHhc--------ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCC
Q 000464 881 EAHMIKN-TRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 951 (1479)
Q Consensus 881 EAH~IKN-~~Sk~skalk~L--------ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~ 951 (1479)
|+|.+.+ ..+.....+..+ .....+++|||. . |+.++. ..+ +..|+.
T Consensus 165 Eah~~~g~fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi-~-n~~~~~---~~l--------------~g~~~~----- 220 (742)
T TIGR03817 165 ECHSYRGVFGSHVALVLRRLRRLCARYGASPVFVLASATT-A-DPAAAA---SRL--------------IGAPVV----- 220 (742)
T ss_pred ChhhccCccHHHHHHHHHHHHHHHHhcCCCCEEEEEecCC-C-CHHHHH---HHH--------------cCCCeE-----
Confidence 9999975 234444444444 235689999995 2 222221 111 001100
Q ss_pred CCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh-cCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhh
Q 000464 952 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKS 1030 (1479)
Q Consensus 952 dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~-~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s 1030 (1479)
.+.. .-|.....+....... +. . ...
T Consensus 221 -------------------------------~i~~~~~~~~~~~~~~~~p~~-----~~-~------~~~---------- 247 (742)
T TIGR03817 221 -------------------------------AVTEDGSPRGARTVALWEPPL-----TE-L------TGE---------- 247 (742)
T ss_pred -------------------------------EECCCCCCcCceEEEEecCCc-----cc-c------ccc----------
Confidence 0000 0111111111100000 00 0 000
Q ss_pred HHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcc
Q 000464 1031 FFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHT 1110 (1479)
Q Consensus 1031 ~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~ 1110 (1479)
.. ..
T Consensus 248 -----------------------~~--------------------------------------~~--------------- 251 (742)
T TIGR03817 248 -----------------------NG--------------------------------------AP--------------- 251 (742)
T ss_pred -----------------------cc--------------------------------------cc---------------
Confidence 00 00
Q ss_pred ccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHH
Q 000464 1111 YKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1190 (1479)
Q Consensus 1111 ~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~ 1190 (1479)
........+..+|..++. .+.++|||+++....+.|..+|........ ...+..+..++|+++..+|.++.+
T Consensus 252 ~r~~~~~~~~~~l~~l~~----~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~----~~l~~~v~~~hgg~~~~eR~~ie~ 323 (742)
T TIGR03817 252 VRRSASAEAADLLADLVA----EGARTLTFVRSRRGAELVAAIARRLLGEVD----PDLAERVAAYRAGYLPEDRRELER 323 (742)
T ss_pred cccchHHHHHHHHHHHHH----CCCCEEEEcCCHHHHHHHHHHHHHHHHhhc----cccccchhheecCCCHHHHHHHHH
Confidence 000001124445555554 478999999999999999998875210000 012456778899999999999999
Q ss_pred HHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHH
Q 000464 1191 RFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIY 1266 (1479)
Q Consensus 1191 ~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~ 1266 (1479)
+|.+ +.++ +|++|.+.++|||+.+.+.||+|+.|-++....|++||++|.|+.-. ++-++..+..|..+.
T Consensus 324 ~f~~---G~i~-vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~~ 393 (742)
T TIGR03817 324 ALRD---GELL-GVATTNALELGVDISGLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYLV 393 (742)
T ss_pred HHHc---CCce-EEEECchHhccCCcccccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHHH
Confidence 9996 5565 58999999999999999999999999999999999999999997643 344455555665544
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.77 E-value=1.4e-16 Score=205.39 Aligned_cols=105 Identities=18% Similarity=0.149 Sum_probs=94.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
+...|||+.+....+.|..+|.. .|+....++|+++..+|..++++|.. +.++ +|++|.|.|.|
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~------------~Gika~~YHAGLs~eeR~~vqe~F~~---Gei~-VLVATdAFGMG 743 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQE------------FGHKAAFYHGSMDPAQRAFVQKQWSK---DEIN-IICATVAFGMG 743 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHH------------CCCCeeeeeCCCCHHHHHHHHHHHhc---CCCc-EEEEechhhcC
Confidence 45789999999999999999986 68999999999999999999999996 3454 58889999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEE
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYR 1254 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYR 1254 (1479)
||+...+.||+|+++-++..+.|++||++|.|+.-.+..|+
T Consensus 744 IDkPDVR~VIHydlPkSiEsYyQriGRAGRDG~~g~cILly 784 (1195)
T PLN03137 744 INKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 784 (1195)
T ss_pred CCccCCcEEEEcCCCCCHHHHHhhhcccCCCCCCceEEEEe
Confidence 99999999999999999999999999999999986665543
No 48
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.76 E-value=1.6e-16 Score=208.82 Aligned_cols=120 Identities=16% Similarity=0.141 Sum_probs=96.3
Q ss_pred HHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEE
Q 000464 1125 DILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTL 1204 (1479)
Q Consensus 1125 eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfL 1204 (1479)
..|..+...+.++|||++.....+.+...|...... +..+..+..++|+++.++|..+.++|++ +.++ +|
T Consensus 275 ~~L~~~i~~~~~~LVF~nTr~~ae~la~~L~~~~~~------~~~~~~i~~hHg~ls~~~R~~ve~~fk~---G~i~-vL 344 (876)
T PRK13767 275 ETLHELIKEHRTTLIFTNTRSGAERVLYNLRKRFPE------EYDEDNIGAHHSSLSREVRLEVEEKLKR---GELK-VV 344 (876)
T ss_pred HHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHhchh------hccccceeeeeCCCCHHHHHHHHHHHHc---CCCe-EE
Confidence 334444445789999999999999999998863210 0134678889999999999999999996 4554 58
Q ss_pred eeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhc-CCCCcEEEEE
Q 000464 1205 ISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY-GQTKPVFAYR 1254 (1479)
Q Consensus 1205 ISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~Ri-GQkK~V~VYR 1254 (1479)
++|.+.+.|||+.+.+.||+++++.++....|++||++|- |+...-.++-
T Consensus 345 VaTs~Le~GIDip~Vd~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii~ 395 (876)
T PRK13767 345 VSSTSLELGIDIGYIDLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRIIV 395 (876)
T ss_pred EECChHHhcCCCCCCcEEEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEEE
Confidence 8999999999999999999999999999999999999976 4444445544
No 49
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.76 E-value=1.6e-16 Score=211.24 Aligned_cols=307 Identities=16% Similarity=0.222 Sum_probs=198.6
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 800 (1479)
-.+.|.|..++.-+...+. ...+...+++.++|.|||.+++-.+..... ..+.+|||||+.. ..|..
T Consensus 599 ~~~T~~Q~~aI~~il~d~~--------~~~~~d~Ll~a~TGsGKT~val~aa~~~~~----~g~qvlvLvPT~eLA~Q~~ 666 (1147)
T PRK10689 599 FETTPDQAQAINAVLSDMC--------QPLAMDRLVCGDVGFGKTEVAMRAAFLAVE----NHKQVAVLVPTTLLAQQHY 666 (1147)
T ss_pred CCCCHHHHHHHHHHHHHhh--------cCCCCCEEEEcCCCcCHHHHHHHHHHHHHH----cCCeEEEEeCcHHHHHHHH
Confidence 3678999999987654321 134467899999999999987644333322 2358999999665 56888
Q ss_pred HHHHHhCCCCCCCeEEEEecCc-chhHHHHHHHHHh-hcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 801 QEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~-~~~~r~~~l~~w~-~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
..|.+++.. .++++..+.+. +...+...+.... ...+|+|.|+..++.. +.....++||
T Consensus 667 ~~f~~~~~~--~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~-----------------v~~~~L~lLV 727 (1147)
T PRK10689 667 DNFRDRFAN--WPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSD-----------------VKWKDLGLLI 727 (1147)
T ss_pred HHHHHhhcc--CCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCC-----------------CCHhhCCEEE
Confidence 989887654 24566555543 3333444443332 3468999998755310 0012678999
Q ss_pred EcCCcccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHH
Q 000464 879 CDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSED 957 (1479)
Q Consensus 879 lDEAH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~d 957 (1479)
+||+|++.. .....++.+ .....+++||||++..+.- ++..+..+.
T Consensus 728 IDEahrfG~---~~~e~lk~l~~~~qvLl~SATpiprtl~l--~~~gl~d~~---------------------------- 774 (1147)
T PRK10689 728 VDEEHRFGV---RHKERIKAMRADVDILTLTATPIPRTLNM--AMSGMRDLS---------------------------- 774 (1147)
T ss_pred Eechhhcch---hHHHHHHhcCCCCcEEEEcCCCCHHHHHH--HHhhCCCcE----------------------------
Confidence 999999832 233445555 4567899999997643221 000000000
Q ss_pred HHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEE---EEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHH
Q 000464 958 VKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVF---VITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAG 1034 (1479)
Q Consensus 958 v~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~---vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~ 1034 (1479)
.+ ..|+.... .+.....
T Consensus 775 -------------------------~I--~~~p~~r~~v~~~~~~~~--------------------------------- 794 (1147)
T PRK10689 775 -------------------------II--ATPPARRLAVKTFVREYD--------------------------------- 794 (1147)
T ss_pred -------------------------EE--ecCCCCCCCceEEEEecC---------------------------------
Confidence 00 00110000 0000000
Q ss_pred HHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccccc
Q 000464 1035 YQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKEL 1114 (1479)
Q Consensus 1035 l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i 1114 (1479)
T Consensus 795 -------------------------------------------------------------------------------- 794 (1147)
T PRK10689 795 -------------------------------------------------------------------------------- 794 (1147)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
.......++.++. .+.+++||++....++.+...|..+ ..++.+..++|.++..+|.+++.+|.+
T Consensus 795 ----~~~~k~~il~el~-r~gqv~vf~n~i~~ie~la~~L~~~----------~p~~~v~~lHG~m~q~eRe~im~~Fr~ 859 (1147)
T PRK10689 795 ----SLVVREAILREIL-RGGQVYYLYNDVENIQKAAERLAEL----------VPEARIAIGHGQMRERELERVMNDFHH 859 (1147)
T ss_pred ----cHHHHHHHHHHHh-cCCeEEEEECCHHHHHHHHHHHHHh----------CCCCcEEEEeCCCCHHHHHHHHHHHHh
Confidence 0000111222222 3678999999999999999999873 246788899999999999999999996
Q ss_pred CCCCCceEEEeeccccccccCccccCEEEEEeCC-CCcchHHHHhHhhhhcCCCCcEE
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~-WNPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
++++ +|++|.+.+.|||++.+++||+.+++ |..+...|++||++|.|.+-.++
T Consensus 860 ---Gk~~-VLVaTdIierGIDIP~v~~VIi~~ad~fglaq~~Qr~GRvGR~g~~g~a~ 913 (1147)
T PRK10689 860 ---QRFN-VLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLRGRVGRSHHQAYAW 913 (1147)
T ss_pred ---cCCC-EEEECchhhcccccccCCEEEEecCCCCCHHHHHHHhhccCCCCCceEEE
Confidence 4455 58899999999999999999998774 67788999999999998764443
No 50
>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=99.71 E-value=3.5e-15 Score=191.08 Aligned_cols=168 Identities=20% Similarity=0.233 Sum_probs=108.7
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHN 798 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~q 798 (1479)
+....++||..+|+-+.+.+... ..+....+|++.|.+|.|||++++.++..++... +..++||||| ..|..|
T Consensus 235 ~k~~~r~~Q~~av~~~~~~~~~~----~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~--~~~~vl~lvdR~~L~~Q 308 (667)
T TIGR00348 235 TKPYQRYMQYRAVKKIVESITRK----TWGKDERGGLIWHTQGSGKTLTMLFAARKALELL--KNPKVFFVVDRRELDYQ 308 (667)
T ss_pred eeeehHHHHHHHHHHHHHHHHhc----ccCCCCceeEEEEecCCCccHHHHHHHHHHHhhc--CCCeEEEEECcHHHHHH
Confidence 34558999999999887765431 1112346899999999999999999888776432 3468999999 568889
Q ss_pred HHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCC-CEE
Q 000464 799 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP-DIL 877 (1479)
Q Consensus 799 W~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~-dlV 877 (1479)
|.++|..+.+... ... + +...-...+ .....+|+|+|++.|.... ............ .+|
T Consensus 309 ~~~~f~~~~~~~~-----~~~-~-s~~~L~~~l--~~~~~~iivtTiQk~~~~~----------~~~~~~~~~~~~~~lv 369 (667)
T TIGR00348 309 LMKEFQSLQKDCA-----ERI-E-SIAELKRLL--EKDDGGIIITTIQKFDKKL----------KEEEEKFPVDRKEVVV 369 (667)
T ss_pred HHHHHHhhCCCCC-----ccc-C-CHHHHHHHH--hCCCCCEEEEEhHHhhhhH----------hhhhhccCCCCCCEEE
Confidence 9999999875311 001 1 111111111 1134689999999986410 000111111122 389
Q ss_pred EEcCCcccCCcchHHHHHHH-hcccceEEEeeCCCCcc
Q 000464 878 VCDEAHMIKNTRADTTQALK-QVKCQRRIALTGSPLQN 914 (1479)
Q Consensus 878 IlDEAH~IKN~~Sk~skalk-~Lka~rRllLTGTPLqN 914 (1479)
|+||||+... ....+.++ .++..++++|||||+..
T Consensus 370 IvDEaHrs~~--~~~~~~l~~~~p~a~~lGfTaTP~~~ 405 (667)
T TIGR00348 370 IFDEAHRSQY--GELAKNLKKALKNASFFGFTGTPIFK 405 (667)
T ss_pred EEEcCccccc--hHHHHHHHhhCCCCcEEEEeCCCccc
Confidence 9999998632 23445553 56778999999999753
No 51
>PRK02362 ski2-like helicase; Provisional
Probab=99.71 E-value=1e-15 Score=198.73 Aligned_cols=153 Identities=18% Similarity=0.188 Sum_probs=102.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~ 800 (1479)
..|+|+|.+++.-++ ..+.+++++.++|.|||+.+...+...+. ..+++|+|+| ..|+.|+.
T Consensus 22 ~~l~p~Q~~ai~~~~-------------~~g~nvlv~APTGSGKTlia~lail~~l~----~~~kal~i~P~raLa~q~~ 84 (737)
T PRK02362 22 EELYPPQAEAVEAGL-------------LDGKNLLAAIPTASGKTLIAELAMLKAIA----RGGKALYIVPLRALASEKF 84 (737)
T ss_pred CcCCHHHHHHHHHHH-------------hCCCcEEEECCCcchHHHHHHHHHHHHHh----cCCcEEEEeChHHHHHHHH
Confidence 368999999997543 23678999999999999987544433332 2358999999 67888999
Q ss_pred HHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 801 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
.+|.++.+. .+++..+.|..... ..+....+|+|+|++.+..+.... . ......++||+|
T Consensus 85 ~~~~~~~~~---g~~v~~~tGd~~~~-----~~~l~~~~IiV~Tpek~~~llr~~----~--------~~l~~v~lvViD 144 (737)
T PRK02362 85 EEFERFEEL---GVRVGISTGDYDSR-----DEWLGDNDIIVATSEKVDSLLRNG----A--------PWLDDITCVVVD 144 (737)
T ss_pred HHHHHhhcC---CCEEEEEeCCcCcc-----ccccCCCCEEEECHHHHHHHHhcC----h--------hhhhhcCEEEEE
Confidence 999987542 25666665543211 123456799999999875443210 0 012367999999
Q ss_pred CCcccCCcc--hHHHHHHHhc----ccceEEEeeCCC
Q 000464 881 EAHMIKNTR--ADTTQALKQV----KCQRRIALTGSP 911 (1479)
Q Consensus 881 EAH~IKN~~--Sk~skalk~L----ka~rRllLTGTP 911 (1479)
|+|.+-+.. ...-..+.++ ...+.++||||+
T Consensus 145 E~H~l~d~~rg~~le~il~rl~~~~~~~qii~lSATl 181 (737)
T PRK02362 145 EVHLIDSANRGPTLEVTLAKLRRLNPDLQVVALSATI 181 (737)
T ss_pred CccccCCCcchHHHHHHHHHHHhcCCCCcEEEEcccC
Confidence 999996532 2222223333 345789999997
No 52
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.70 E-value=1.5e-15 Score=183.70 Aligned_cols=117 Identities=24% Similarity=0.277 Sum_probs=105.0
Q ss_pred ChhHHHHHHHHHHhh-cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~-~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
..|...|..+|.... ..+.|+|||++...+.+.|+..|+. .+++..-|+|..++.+|...++.|.++
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 468888888888776 4567999999999999999999986 578899999999999999999999974
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
+.. +|++|.+++.||++.+.+.||+||+|-|...+++|+||.+|.|++-.
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 69999999999999999999999999999999999999999887643
No 53
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.70 E-value=1.4e-15 Score=174.03 Aligned_cols=130 Identities=20% Similarity=0.282 Sum_probs=112.9
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
-|-..|+.||++.. |.-+||||..-.+.+.+.-+|+. .|+....++|.|++..|..+++.|+++
T Consensus 286 ~K~~yLV~ll~e~~--g~s~iVF~~t~~tt~~la~~L~~------------lg~~a~~LhGqmsq~~Rlg~l~~Fk~~-- 349 (476)
T KOG0330|consen 286 DKDTYLVYLLNELA--GNSVIVFCNTCNTTRFLALLLRN------------LGFQAIPLHGQMSQSKRLGALNKFKAG-- 349 (476)
T ss_pred ccchhHHHHHHhhc--CCcEEEEEeccchHHHHHHHHHh------------cCcceecccchhhHHHHHHHHHHHhcc--
Confidence 35667888888654 68999999999999999999997 589999999999999999999999974
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHH
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQ 1269 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq 1269 (1479)
.. =+|++|++|+.||+.+.++.||+||.|-+...+++|+||+.|.| +.-.+..||+. .|-..|+|.
T Consensus 350 -~r-~iLv~TDVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtq--yDve~~qrI 415 (476)
T KOG0330|consen 350 -AR-SILVCTDVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQ--YDVELVQRI 415 (476)
T ss_pred -CC-cEEEecchhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEeh--hhhHHHHHH
Confidence 22 26999999999999999999999999999999999999999999 67778889998 444445443
No 54
>PRK01172 ski2-like helicase; Provisional
Probab=99.68 E-value=4e-15 Score=191.73 Aligned_cols=123 Identities=20% Similarity=0.144 Sum_probs=86.3
Q ss_pred HHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCc-------ccc------cCCccEEEecCCCCHHHHHHHHHHH
Q 000464 1126 ILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQG-------KLW------KKGKDWYRLDGRTESSERQKLVERF 1192 (1479)
Q Consensus 1126 IL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~-------~~w------~~Gi~y~rLdGsts~~eRq~lI~~F 1192 (1479)
++......+.++|||+........+...|.......... ... .-...+..++|+++..+|..+.+.|
T Consensus 228 ~i~~~~~~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f 307 (674)
T PRK01172 228 LIKETVNDGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMF 307 (674)
T ss_pred HHHHHHhCCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHH
Confidence 334444557899999999988877777776431110000 000 0012356789999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCccccCEEEEEeC---------CCCcchHHHHhHhhhhcCCCCcEEEE
Q 000464 1193 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG---------SWNPTYDLQAIYRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1193 N~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp---------~WNPa~d~QAIGRa~RiGQkK~V~VY 1253 (1479)
.+ +.++ +|++|.+.+.|+|+++ .+||++|. ++++....|++||++|.|....-..+
T Consensus 308 ~~---g~i~-VLvaT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~ 372 (674)
T PRK01172 308 RN---RYIK-VIVATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRPGYDQYGIGY 372 (674)
T ss_pred Hc---CCCe-EEEecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCCCCCCcceEE
Confidence 96 4555 5889999999999985 68888775 34666788999999999976553333
No 55
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.67 E-value=1.4e-14 Score=172.86 Aligned_cols=123 Identities=17% Similarity=0.244 Sum_probs=94.6
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHH----HHHHhC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL----VERFNE 1194 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~l----I~~FN~ 1194 (1479)
|...+..++... ..+.++|||++....+..+...|.... .+..+..++|.++..+|.+. ++.|.+
T Consensus 208 ~~~~l~~l~~~~-~~~~~~lVf~~t~~~~~~~~~~L~~~~----------~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~ 276 (358)
T TIGR01587 208 EISSLERLLEFI-KKGGKIAIIVNTVDRAQEFYQQLKENA----------PEEEIMLLHSRFTEKDRAKKEAELLEEMKK 276 (358)
T ss_pred CHHHHHHHHHHh-hCCCeEEEEECCHHHHHHHHHHHHhhc----------CCCeEEEEECCCCHHHHHHHHHHHHHHhcC
Confidence 344445555333 357899999999999999999998621 12358899999999999764 888986
Q ss_pred CCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCC----cEEEEEEEeCC
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK----PVFAYRLMAHG 1259 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK----~V~VYRLIa~g 1259 (1479)
+..+ +|++|.+.+.|||+ .++.||.++.+ +....|++||++|.|.+. .|+||.....+
T Consensus 277 ---~~~~-ilvaT~~~~~GiDi-~~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~ 338 (358)
T TIGR01587 277 ---NEKF-VIVATQVIEASLDI-SADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEG 338 (358)
T ss_pred ---CCCe-EEEECcchhceecc-CCCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCC
Confidence 3333 69999999999999 58999888765 788999999999999763 56777665544
No 56
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.66 E-value=2.6e-14 Score=178.24 Aligned_cols=133 Identities=24% Similarity=0.340 Sum_probs=111.5
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+.+|..++..... .++|||+.....++.|...|.. .|+....|+|++++.+|.+.++.|++
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 488888888886443 4799999999999999999997 68999999999999999999999995
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHH
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVT 1271 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~ 1271 (1479)
+.++ +|+.|++++.||++.+.++||+||++.++..+.+++||.+|.|.+ =..+.|++. .-|...+.+...
T Consensus 322 g~~~-vLVaTDvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~~--G~ai~fv~~-~~e~~~l~~ie~ 391 (513)
T COG0513 322 GELR-VLVATDVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGRK--GVAISFVTE-EEEVKKLKRIEK 391 (513)
T ss_pred CCCC-EEEEechhhccCCccccceeEEccCCCCHHHheeccCccccCCCC--CeEEEEeCc-HHHHHHHHHHHH
Confidence 4454 589999999999999999999999999999999999999999943 355667766 224444444333
No 57
>PRK00254 ski2-like helicase; Provisional
Probab=99.66 E-value=1.4e-14 Score=187.92 Aligned_cols=153 Identities=20% Similarity=0.240 Sum_probs=103.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHH-HHHHHHHHhcccCCCceEEEec-hhhHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVI-AFLYTAMRSVNLGLRTALIVTP-VNVLHNW 799 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaI-AlL~~ll~~~~~~~k~vLIV~P-~sLl~qW 799 (1479)
..|+|+|.+++.-.+ ..+.++|++..+|.|||+.+. +++..+... .+++|+|+| ..|+.|+
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 468999999986322 246789999999999999884 444333322 358999999 6678899
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 879 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIl 879 (1479)
..+|..|... .+++..+.|..... ..|....+|+|+|++.+..+..... ......++||+
T Consensus 85 ~~~~~~~~~~---g~~v~~~~Gd~~~~-----~~~~~~~~IiV~Tpe~~~~ll~~~~------------~~l~~l~lvVi 144 (720)
T PRK00254 85 YREFKDWEKL---GLRVAMTTGDYDST-----DEWLGKYDIIIATAEKFDSLLRHGS------------SWIKDVKLVVA 144 (720)
T ss_pred HHHHHHHhhc---CCEEEEEeCCCCCc-----hhhhccCCEEEEcHHHHHHHHhCCc------------hhhhcCCEEEE
Confidence 9999887432 35666666543221 1344667999999988754321110 01136789999
Q ss_pred cCCcccCCc--chHHHHHHHhc-ccceEEEeeCCC
Q 000464 880 DEAHMIKNT--RADTTQALKQV-KCQRRIALTGSP 911 (1479)
Q Consensus 880 DEAH~IKN~--~Sk~skalk~L-ka~rRllLTGTP 911 (1479)
||+|.+... ...+...+..+ ...+.++||||+
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 999999643 34444455555 456789999997
No 58
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.63 E-value=5.6e-14 Score=177.86 Aligned_cols=115 Identities=17% Similarity=0.174 Sum_probs=99.4
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|+.++.+.+.+....+..||||+.+....+.+...|.. .|+++..++|.+...+|..+..+|+.
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 45799999999998888899999999999999999999986 68999999999998777666665553
Q ss_pred CCCCceEEEeeccccccccCcc---------ccCEEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH---------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt---------~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
+. ++|+|..+|.|+++. +.+.||.|+++-+.. +.|++||++|.|..-.
T Consensus 473 --g~---VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~ri-d~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 473 --GA---VTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSRV-DLQLRGRSGRQGDPGS 529 (762)
T ss_pred --Ce---EEEEccccccccCCCCCccccccCCeEEEEecCCCCcHH-HHHhhhcccCCCCcee
Confidence 32 589999999999999 889999999997654 4999999999997644
No 59
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.61 E-value=9.9e-15 Score=180.78 Aligned_cols=378 Identities=18% Similarity=0.187 Sum_probs=226.5
Q ss_pred CcccccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEE
Q 000464 711 EEAVRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 790 (1479)
Q Consensus 711 ~~~v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV 790 (1479)
.+..+.|......+|+||+.+|+...+.+.+ .....+|+..+|.|||.+||+++..+++++. .|++|.+
T Consensus 153 ~~~~~~~~~s~i~~RyyQ~~AI~rv~Eaf~~---------g~~raLlvMATGTGKTrTAiaii~rL~r~~~--~KRVLFL 221 (875)
T COG4096 153 QQLAYIDIDSAIGPRYYQIIAIRRVIEAFSK---------GQNRALLVMATGTGKTRTAIAIIDRLIKSGW--VKRVLFL 221 (875)
T ss_pred cccccCcccccccchHHHHHHHHHHHHHHhc---------CCceEEEEEecCCCcceeHHHHHHHHHhcch--hheeeEE
Confidence 5667788888899999999999998877642 3345999999999999999999999999865 5799999
Q ss_pred ec-hhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhh
Q 000464 791 TP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHA 869 (1479)
Q Consensus 791 ~P-~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~l 869 (1479)
+- .+|+.|-...|..|.|..-. .+.. .+... ...+.|++.+|.++......... ....+
T Consensus 222 aDR~~Lv~QA~~af~~~~P~~~~-~n~i--~~~~~----------~~s~~i~lsTyqt~~~~~~~~~~-------~~~~f 281 (875)
T COG4096 222 ADRNALVDQAYGAFEDFLPFGTK-MNKI--EDKKG----------DTSSEIYLSTYQTMTGRIEQKED-------EYRRF 281 (875)
T ss_pred echHHHHHHHHHHHHHhCCCccc-eeee--ecccC----------CcceeEEEeehHHHHhhhhcccc-------ccccC
Confidence 96 88899999999999997421 1111 11110 12458999999998653322211 11122
Q ss_pred hcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCC
Q 000464 870 LQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQ 949 (1479)
Q Consensus 870 L~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~ 949 (1479)
-...||+||+||||+- ...-++.+...-...+++|||||-..--..-|.+ |. ..|+....
T Consensus 282 ~~g~FDlIvIDEaHRg---i~~~~~~I~dYFdA~~~gLTATP~~~~d~~T~~~--------------F~---g~Pt~~Ys 341 (875)
T COG4096 282 GPGFFDLIVIDEAHRG---IYSEWSSILDYFDAATQGLTATPKETIDRSTYGF--------------FN---GEPTYAYS 341 (875)
T ss_pred CCCceeEEEechhhhh---HHhhhHHHHHHHHHHHHhhccCcccccccccccc--------------cC---CCcceeec
Confidence 2346999999999973 2223334444445566777999955211111111 11 33433221
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHh
Q 000464 950 HTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRK 1029 (1479)
Q Consensus 950 ~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~ 1029 (1479)
+ ...+.. ..|-|...+.+.+.... .+.
T Consensus 342 l------------------eeAV~D-----------GfLvpy~vi~i~~~~~~------------~G~------------ 368 (875)
T COG4096 342 L------------------EEAVED-----------GFLVPYKVIRIDTDFDL------------DGW------------ 368 (875)
T ss_pred H------------------HHHhhc-----------cccCCCCceEEeeeccc------------cCc------------
Confidence 1 111110 11222222222222110 000
Q ss_pred hHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhc
Q 000464 1030 SFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEH 1109 (1479)
Q Consensus 1030 s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~ 1109 (1479)
+|.-.. +......+..++ ++.... ...+-.
T Consensus 369 --------------~~~~~s---erek~~g~~i~~----dd~~~~-----------------------~~d~dr------ 398 (875)
T COG4096 369 --------------KPDAGS---EREKLQGEAIDE----DDQNFE-----------------------ARDFDR------ 398 (875)
T ss_pred --------------CcCccc---hhhhhhccccCc----cccccc-----------------------ccccch------
Confidence 000000 000000000000 000000 000000
Q ss_pred cccccccChhHHHHHHHHHHhhcC---C---CeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHH
Q 000464 1110 TYKELDYSGKMVLLLDILTMCSNM---G---DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESS 1183 (1479)
Q Consensus 1110 ~~~~i~~S~Kl~~L~eIL~~~~~~---G---~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~ 1183 (1479)
.+..-.....+...|...... | .|.|||+....+++.|...|...+.. ..|.=...|+|...
T Consensus 399 ---~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype-------~~~~~a~~IT~d~~-- 466 (875)
T COG4096 399 ---TLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPE-------YNGRYAMKITGDAE-- 466 (875)
T ss_pred ---hccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCcc-------ccCceEEEEeccch--
Confidence 000112233444444443333 3 59999999999999999999975422 12334567889876
Q ss_pred HHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhc-------CCCCc-EEEEEE
Q 000464 1184 ERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY-------GQTKP-VFAYRL 1255 (1479)
Q Consensus 1184 eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~Ri-------GQkK~-V~VYRL 1255 (1479)
+=+..|+.|-. +.+...+.+|......|+|...+-.+||+-.--+-+...|.+||.-|+ ||.|. ..|+.|
T Consensus 467 ~~q~~Id~f~~--ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf 544 (875)
T COG4096 467 QAQALIDNFID--KEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDF 544 (875)
T ss_pred hhHHHHHHHHh--cCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEh
Confidence 55668899876 334445799999999999999999999999999999999999999996 34443 566666
Q ss_pred E
Q 000464 1256 M 1256 (1479)
Q Consensus 1256 I 1256 (1479)
+
T Consensus 545 ~ 545 (875)
T COG4096 545 V 545 (875)
T ss_pred h
Confidence 5
No 60
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.60 E-value=1.2e-13 Score=176.33 Aligned_cols=118 Identities=20% Similarity=0.306 Sum_probs=90.4
Q ss_pred cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHH-----HHHHHHhC----CC----CC
Q 000464 1132 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-----KLVERFNE----PL----NK 1198 (1479)
Q Consensus 1132 ~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq-----~lI~~FN~----~~----n~ 1198 (1479)
..+.++|||++....++.|...|.. .++ ..|+|.++..+|. .++++|.+ .. ++
T Consensus 270 e~g~~vLVF~NTv~~Aq~L~~~L~~------------~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~ 335 (844)
T TIGR02621 270 DSGGAILVFCRTVKHVRKVFAKLPK------------EKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQ 335 (844)
T ss_pred hCCCcEEEEECCHHHHHHHHHHHHh------------cCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccc
Confidence 3568999999999999999999986 344 8999999999999 78899975 21 11
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCc--EEEEEEEeCCCHHHHHHH
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP--VFAYRLMAHGTMEEKIYK 1267 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~--V~VYRLIa~gTIEEkI~~ 1267 (1479)
.. .+||+|.+++.|||+.. ++||++..++ ..++||+||++|.|.... ++|+.+-...+-+..||.
T Consensus 336 g~-~ILVATdVaerGLDId~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~~~~~~~~~~vY~ 402 (844)
T TIGR02621 336 GT-VYLVCTSAGEVGVNISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHLDLGKDQDFDVYG 402 (844)
T ss_pred cc-eEEeccchhhhcccCCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEeeccCCCcccCCCC
Confidence 13 47999999999999975 9999877664 689999999999998633 455544111223456664
No 61
>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=99.58 E-value=7.8e-15 Score=148.20 Aligned_cols=120 Identities=32% Similarity=0.407 Sum_probs=109.6
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+..+..++......+.++|||+.+...+..+...|.. .+..+..++|+++..+|..+++.|+++.
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~------------~~~~~~~~~~~~~~~~~~~~~~~f~~~~- 78 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRK------------PGIKVAALHGDGSQEEREEVLKDFREGE- 78 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHh------------cCCcEEEEECCCCHHHHHHHHHHHHcCC-
Confidence 699999999998776789999999999999999999985 4678999999999999999999999743
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEE
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VY 1253 (1479)
. .+|++|.++++|+|++.+++||+++++||+....|++||++|.||+..|++|
T Consensus 79 --~-~ili~t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 79 --I-VVLVATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred --C-cEEEEcChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 2 4788999999999999999999999999999999999999999998888775
No 62
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.56 E-value=5.6e-13 Score=163.98 Aligned_cols=320 Identities=17% Similarity=0.230 Sum_probs=201.5
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-H
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-N 798 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-q 798 (1479)
+.-.|-..|+.++.-+..-+.. ...-.-+|--++|.|||+.|+..++.....+ ..+.+.+|+.++. |
T Consensus 259 LPF~LT~aQ~~vi~EI~~Dl~~--------~~~M~RLlQGDVGSGKTvVA~laml~ai~~G----~Q~ALMAPTEILA~Q 326 (677)
T COG1200 259 LPFKLTNAQKRVIKEILADLAS--------PVPMNRLLQGDVGSGKTVVALLAMLAAIEAG----YQAALMAPTEILAEQ 326 (677)
T ss_pred CCCCccHHHHHHHHHHHhhhcC--------chhhHHHhccCcCCCHHHHHHHHHHHHHHcC----CeeEEeccHHHHHHH
Confidence 3456777899888776554322 2334557788999999998876666665543 4688899988766 8
Q ss_pred HHHHHHHhCCCCCCCeEEEEecCcch-hHHHHHHHHHhh-cCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCE
Q 000464 799 WKQEFMKWRPSELKPLRVFMLEDVSR-DRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDI 876 (1479)
Q Consensus 799 W~~E~~kw~P~~~~~l~V~~l~g~~~-~~r~~~l~~w~~-~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dl 876 (1479)
-...|.+|++.- .++|..+.|.-+ ..|...+..... .-+++|=|+..|..-. --.+..+
T Consensus 327 H~~~~~~~l~~~--~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V-----------------~F~~LgL 387 (677)
T COG1200 327 HYESLRKWLEPL--GIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKV-----------------EFHNLGL 387 (677)
T ss_pred HHHHHHHHhhhc--CCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcce-----------------eecceeE
Confidence 999999999752 377887777643 344455544433 3578888887764211 0115679
Q ss_pred EEEcCCcccCCcchHHHHHHHhc-c-cceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCC
Q 000464 877 LVCDEAHMIKNTRADTTQALKQV-K-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNST 954 (1479)
Q Consensus 877 VIlDEAH~IKN~~Sk~skalk~L-k-a~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst 954 (1479)
||+||=|++. ...-..++.- . .++.++||||||...|.=- .||+.
T Consensus 388 VIiDEQHRFG---V~QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt----------~fgDl-------------------- 434 (677)
T COG1200 388 VIIDEQHRFG---VHQRLALREKGEQNPHVLVMTATPIPRTLALT----------AFGDL-------------------- 434 (677)
T ss_pred EEEecccccc---HHHHHHHHHhCCCCCcEEEEeCCCchHHHHHH----------Hhccc--------------------
Confidence 9999999983 2333334333 4 6899999999998654300 01100
Q ss_pred hHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeE--EEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 955 SEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTV--FVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 955 ~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e--~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
+. .+.++||+..- .+..++.. .-.++|+.+...... +..
T Consensus 435 -------------------------dv-S~IdElP~GRkpI~T~~i~~~-~~~~v~e~i~~ei~~-GrQ----------- 475 (677)
T COG1200 435 -------------------------DV-SIIDELPPGRKPITTVVIPHE-RRPEVYERIREEIAK-GRQ----------- 475 (677)
T ss_pred -------------------------cc-hhhccCCCCCCceEEEEeccc-cHHHHHHHHHHHHHc-CCE-----------
Confidence 00 12246887632 23333322 223445543322100 000
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccc
Q 000464 1033 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 1112 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 1112 (1479)
-.|. +-
T Consensus 476 ------------------------------------------------------------------aY~V--------cP 481 (677)
T COG1200 476 ------------------------------------------------------------------AYVV--------CP 481 (677)
T ss_pred ------------------------------------------------------------------EEEE--------ec
Confidence 0010 01
Q ss_pred ccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHH
Q 000464 1113 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1192 (1479)
Q Consensus 1113 ~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~F 1192 (1479)
.++.|.|+.+ ..+..+...|+. +..++.+..++|.|+.+++++++.+|
T Consensus 482 LIeESE~l~l----------------------~~a~~~~~~L~~----------~~~~~~vgL~HGrm~~~eKd~vM~~F 529 (677)
T COG1200 482 LIEESEKLEL----------------------QAAEELYEELKS----------FLPELKVGLVHGRMKPAEKDAVMEAF 529 (677)
T ss_pred cccccccchh----------------------hhHHHHHHHHHH----------HcccceeEEEecCCChHHHHHHHHHH
Confidence 1223333331 112223333332 12467889999999999999999999
Q ss_pred hCCCCCCceEEEeeccccccccCccccCEEEEEeCC-CCcchHHHHhHhhhhcCCCCcEEE
Q 000464 1193 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1193 N~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~-WNPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
++ +.+. +|+||.+..+|+|++.|+.+||.++. +--+...|-.||++|=+....|..
T Consensus 530 k~---~e~~-ILVaTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSyC~L 586 (677)
T COG1200 530 KE---GEID-ILVATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSYCVL 586 (677)
T ss_pred Hc---CCCc-EEEEeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceEEEE
Confidence 97 3454 58899999999999999999999984 678899999999999776665543
No 63
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.56 E-value=1e-12 Score=167.99 Aligned_cols=116 Identities=18% Similarity=0.180 Sum_probs=101.4
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|+.+|.+.+......+.++|||+.+....+.|...|.. .|+++..++|.+...+|..+..+|..
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 35799999999988777799999999999999999999996 68999999999987777766666653
Q ss_pred CCCCceEEEeeccccccccCc---cccC-----EEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINL---HSAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNL---t~An-----rVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
+. ++|+|..+|.|+++ .+.. +||.+|.|-|+..+.|++||++|.|..-.
T Consensus 477 --g~---VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~ 533 (790)
T PRK09200 477 --GA---VTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGS 533 (790)
T ss_pred --Ce---EEEEccchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCee
Confidence 32 58999999999999 4676 99999999999999999999999998743
No 64
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.56 E-value=1.5e-13 Score=174.67 Aligned_cols=320 Identities=17% Similarity=0.176 Sum_probs=207.2
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhc-cc---CCCceEEEechhhH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV-NL---GLRTALIVTPVNVL 796 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~-~~---~~k~vLIV~P~sLl 796 (1479)
...+.|+|+.++..+ ..|.+.++..++|.|||..|+.-+...+... .. ..-.+|-|.|.--+
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 356899999998766 3578999999999999999876554444332 11 11358999996655
Q ss_pred HH-HHHHHHHhCCCCCCCeEEEEecCcchh-HHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCC
Q 000464 797 HN-WKQEFMKWRPSELKPLRVFMLEDVSRD-RRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGP 874 (1479)
Q Consensus 797 ~q-W~~E~~kw~P~~~~~l~V~~l~g~~~~-~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~ 874 (1479)
.| -..-+..|... ..+.|.+-+|.... .|... ..+..+|+|||.+++..+...+.. . ..+ .+.
T Consensus 86 n~Di~~rL~~~~~~--~G~~v~vRhGDT~~~er~r~---~~~PPdILiTTPEsL~lll~~~~~-----r----~~l-~~v 150 (814)
T COG1201 86 NNDIRRRLEEPLRE--LGIEVAVRHGDTPQSEKQKM---LKNPPHILITTPESLAILLNSPKF-----R----ELL-RDV 150 (814)
T ss_pred HHHHHHHHHHHHHH--cCCccceecCCCChHHhhhc---cCCCCcEEEeChhHHHHHhcCHHH-----H----HHh-cCC
Confidence 54 55556555532 22455555554433 33222 246789999999998765433211 1 111 267
Q ss_pred CEEEEcCCcccCCcc--hHHHHHHHhc---c-cceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccC
Q 000464 875 DILVCDEAHMIKNTR--ADTTQALKQV---K-CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENG 948 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~--Sk~skalk~L---k-a~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g 948 (1479)
.+||+||.|.+.+.+ ++++-.+.+| . .-.||+||||-- ++.++ ..||.+.--
T Consensus 151 r~VIVDEiHel~~sKRG~~Lsl~LeRL~~l~~~~qRIGLSATV~--~~~~v---arfL~g~~~----------------- 208 (814)
T COG1201 151 RYVIVDEIHALAESKRGVQLALSLERLRELAGDFQRIGLSATVG--PPEEV---AKFLVGFGD----------------- 208 (814)
T ss_pred cEEEeehhhhhhccccchhhhhhHHHHHhhCcccEEEeehhccC--CHHHH---HHHhcCCCC-----------------
Confidence 899999999998653 6777776666 2 468999999952 22222 222221100
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHH
Q 000464 949 QHTNSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIR 1028 (1479)
Q Consensus 949 ~~~dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~ 1028 (1479)
....+......+..+.+.++--.
T Consensus 209 -------------------------------~~~Iv~~~~~k~~~i~v~~p~~~-------------------------- 231 (814)
T COG1201 209 -------------------------------PCEIVDVSAAKKLEIKVISPVED-------------------------- 231 (814)
T ss_pred -------------------------------ceEEEEcccCCcceEEEEecCCc--------------------------
Confidence 00000000111111111000000
Q ss_pred hhHHHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhh
Q 000464 1029 KSFFAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHE 1108 (1479)
Q Consensus 1029 ~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~ 1108 (1479)
+ .|.
T Consensus 232 ------------------~----------------------------------------------------~~~------ 235 (814)
T COG1201 232 ------------------L----------------------------------------------------IYD------ 235 (814)
T ss_pred ------------------c----------------------------------------------------ccc------
Confidence 0 000
Q ss_pred ccccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHH
Q 000464 1109 HTYKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1188 (1479)
Q Consensus 1109 ~~~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~l 1188 (1479)
..=...+.+.|..+.+....+|||++.+.+...+...|.++ .+..+...+||.+.+.|...
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 00112233344444445568999999999999999999973 23788999999999999999
Q ss_pred HHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhh-hhcCCC
Q 000464 1189 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRA-WRYGQT 1247 (1479)
Q Consensus 1189 I~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa-~RiGQk 1247 (1479)
-++|.+ +.+++ +++|....+||+.-..+.||.|.+|-.-+...|++||+ ||+|..
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 999997 44664 78888999999999999999999999999999999997 788865
No 65
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.54 E-value=2.4e-14 Score=152.95 Aligned_cols=168 Identities=21% Similarity=0.302 Sum_probs=107.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech-hhHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV-NVLHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~-sLl~qW~ 800 (1479)
-.|+|||.+++.-+++.+... .....++|..+||.|||+.++.++..+.. ++|||||. +++.||.
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 369999999999887754320 13578999999999999999988877743 89999995 7888999
Q ss_pred HHHHHhCCCCCCCeEEEEe-------------cCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHH
Q 000464 801 QEFMKWRPSELKPLRVFML-------------EDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREIC 867 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l-------------~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~ 867 (1479)
++|..+.+.. ..+... ........ ...-.....+++++|..+........... .......
T Consensus 68 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~~~~~~~l~~~~~~~~~~~-~~~~~~~ 140 (184)
T PF04851_consen 68 DEFDDFGSEK---YNFFEKSIKPAYDSKEFISIQDDISDK---SESDNNDKDIILTTYQSLQSDIKEEKKID-ESARRSY 140 (184)
T ss_dssp HHHHHHSTTS---EEEEE--GGGCCE-SEEETTTTEEEHH---HHHCBSS-SEEEEEHHHHHHHHHH----------GCH
T ss_pred HHHHHhhhhh---hhhcccccccccccccccccccccccc---cccccccccchhhHHHHHHhhcccccccc-cchhhhh
Confidence 9998887652 111110 00000111 11113466899999998865321110000 0000112
Q ss_pred hhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCC
Q 000464 868 HALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPL 912 (1479)
Q Consensus 868 ~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPL 912 (1479)
......+++||+||||++.+... ++.+......++|+|||||.
T Consensus 141 ~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 141 KLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp HGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred hhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 23345889999999999854332 66666688999999999994
No 66
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.53 E-value=2.4e-13 Score=159.58 Aligned_cols=136 Identities=20% Similarity=0.296 Sum_probs=104.9
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|-.++..+|..+ ...++|+|+.+......+...|.-.+. ..+..+..++|+.+.+.|.+++.+|+.+
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 445566666653 368999999999999998888883210 1345566699999999999999999974
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1272 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K 1272 (1479)
.++ +||++++++.||++-+.+.||.||||-.-..+++|+||..|-||.- ++|.|+... |++.|.....|
T Consensus 483 ~i~-vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~~--~~r~F~klL~~ 551 (620)
T KOG0350|consen 483 DIN-VLICSDALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDKH--EKRLFSKLLKK 551 (620)
T ss_pred Cce-EEEehhhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeeccc--cchHHHHHHHH
Confidence 344 5888899999999999999999999999999999999999999964 455565442 34444433333
No 67
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.53 E-value=3.6e-12 Score=160.04 Aligned_cols=130 Identities=15% Similarity=0.190 Sum_probs=105.1
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|..+|.+++......+..+|||+.+....+.|...|.. .|+++..|+|.+. +|+..+..|...
T Consensus 455 ~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~se~L~~~L~~------------~gi~~~~Lhg~~~--~rE~~ii~~ag~ 520 (656)
T PRK12898 455 AAAKWAAVAARVRELHAQGRPVLVGTRSVAASERLSALLRE------------AGLPHQVLNAKQD--AEEAAIVARAGQ 520 (656)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCEEEeeCCcH--HHHHHHHHHcCC
Confidence 35699999999998777788999999999999999999997 6899999999865 666666667643
Q ss_pred CCCCceEEEeeccccccccCcc---ccC-----EEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHH
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1267 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt---~An-----rVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~ 1267 (1479)
+ +. ++|+|..+|.|+++. ... +||.+|.+-|+..+.|++||++|.|..-.+ +.|+ |.|+.++.
T Consensus 521 ~-g~---VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~s--~~~i---s~eD~l~~ 591 (656)
T PRK12898 521 R-GR---ITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGSY--EAIL---SLEDDLLQ 591 (656)
T ss_pred C-Cc---EEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeEE--EEEe---chhHHHHH
Confidence 2 22 689999999999998 443 999999999999999999999999976333 2233 34666664
Q ss_pred H
Q 000464 1268 R 1268 (1479)
Q Consensus 1268 r 1268 (1479)
+
T Consensus 592 ~ 592 (656)
T PRK12898 592 S 592 (656)
T ss_pred h
Confidence 4
No 68
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.51 E-value=4.9e-12 Score=160.82 Aligned_cols=112 Identities=19% Similarity=0.212 Sum_probs=89.0
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+..+|||......++.+...|.... .++.+..++|+++. +++.+++|.. +++.+ +|+||..++.
T Consensus 394 ~~g~iLVFlpg~~ei~~l~~~L~~~~----------~~~~v~~LHG~Lsq--~eq~l~~ff~--~gk~k-ILVATdIAER 458 (675)
T PHA02653 394 KGSSGIVFVASVSQCEEYKKYLEKRL----------PIYDFYIIHGKVPN--IDEILEKVYS--SKNPS-IIISTPYLES 458 (675)
T ss_pred cCCcEEEEECcHHHHHHHHHHHHhhc----------CCceEEeccCCcCH--HHHHHHHHhc--cCcee-EEeccChhhc
Confidence 35689999999999999999998620 26889999999995 4567788742 24444 6899999999
Q ss_pred ccCccccCEEEEEe----CC--------CCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1213 GINLHSANRVIIVD----GS--------WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1213 GLNLt~AnrVIifD----p~--------WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
||++.+.++||-++ |. .+.+...||.||++|. ++-.+|+|+++..+.
T Consensus 459 GIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~~ 517 (675)
T PHA02653 459 SVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV---SPGTYVYFYDLDLLK 517 (675)
T ss_pred cccccCeeEEEECCCccCCCcccCcccccCHHHHHHhccCcCCC---CCCeEEEEECHHHhH
Confidence 99999999999997 21 2556778999998887 467889999887753
No 69
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.51 E-value=1.1e-12 Score=153.44 Aligned_cols=121 Identities=21% Similarity=0.341 Sum_probs=105.7
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
+...-|+..|+++|.. ...+|+|||-..-...++...+|..+ ..++..+-++|.++.+.|.+.+..|.
T Consensus 237 ~~a~eK~~~lv~~L~~--~~~kK~iVFF~TCasVeYf~~~~~~~----------l~~~~i~~iHGK~~q~~R~k~~~~F~ 304 (567)
T KOG0345|consen 237 CEADEKLSQLVHLLNN--NKDKKCIVFFPTCASVEYFGKLFSRL----------LKKREIFSIHGKMSQKARAKVLEAFR 304 (567)
T ss_pred ecHHHHHHHHHHHHhc--cccccEEEEecCcchHHHHHHHHHHH----------hCCCcEEEecchhcchhHHHHHHHHH
Confidence 3445699999999987 34589999999999999988888863 25788999999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcE
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1250 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V 1250 (1479)
+..++ .|++|++++.||++++.+.||.||||-+|....+|.||..|.|..-.-
T Consensus 305 ~~~~~----vl~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~A 357 (567)
T KOG0345|consen 305 KLSNG----VLFCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNA 357 (567)
T ss_pred hccCc----eEEeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccce
Confidence 85444 589999999999999999999999999999999999999999976443
No 70
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=1.1e-13 Score=152.77 Aligned_cols=124 Identities=20% Similarity=0.281 Sum_probs=103.8
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|+..|.++...+. =...+|||+.....|+|.+-++. .++.+..++|.++.++|.++++.|+.+.
T Consensus 253 KfdtLcdLYd~Lt--ItQavIFcnTk~kVdwLtekm~~------------~nftVssmHGDm~qkERd~im~dFRsg~-- 316 (400)
T KOG0328|consen 253 KFDTLCDLYDTLT--ITQAVIFCNTKRKVDWLTEKMRE------------ANFTVSSMHGDMEQKERDKIMNDFRSGK-- 316 (400)
T ss_pred hHhHHHHHhhhhe--hheEEEEecccchhhHHHHHHHh------------hCceeeeccCCcchhHHHHHHHHhhcCC--
Confidence 4555555544332 14789999999999999999986 6889999999999999999999999753
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
-+ +||+|++-+.||+.+..+.||+||.|-|+..+++||||.+|+|.+ -.+.+|+....++
T Consensus 317 -Sr-vLitTDVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRk--GvainFVk~~d~~ 376 (400)
T KOG0328|consen 317 -SR-VLITTDVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK--GVAINFVKSDDLR 376 (400)
T ss_pred -ce-EEEEechhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCc--ceEEEEecHHHHH
Confidence 23 499999999999999999999999999999999999999999965 3456777765543
No 71
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.50 E-value=1.9e-12 Score=173.85 Aligned_cols=108 Identities=19% Similarity=0.165 Sum_probs=85.6
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCC----------------Ccccc--cCC---ccEEEecCCCCHHHHHHHHHH
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGK----------------QGKLW--KKG---KDWYRLDGRTESSERQKLVER 1191 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~----------------~~~~w--~~G---i~y~rLdGsts~~eRq~lI~~ 1191 (1479)
.+.++|||+++....+.+...|+....... .+... ..+ +....++|+++.++|..+.+.
T Consensus 243 ~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~ 322 (1490)
T PRK09751 243 RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQA 322 (1490)
T ss_pred cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHH
Confidence 468999999999999999999976421000 00000 001 124567899999999999999
Q ss_pred HhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhc
Q 000464 1192 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRY 1244 (1479)
Q Consensus 1192 FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~Ri 1244 (1479)
|++ +.++ +|++|.+.+.|||+...+.||+|+.+.+.+...|++||++|.
T Consensus 323 fK~---G~Lr-vLVATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 323 LKS---GELR-CVVATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HHh---CCce-EEEeCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 996 4565 589999999999999999999999999999999999999885
No 72
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.50 E-value=1.5e-12 Score=169.62 Aligned_cols=345 Identities=18% Similarity=0.180 Sum_probs=221.5
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-hHHHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQE 802 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E 802 (1479)
|++||.++++.++ .|...|+.-.||.|||..-+..|...+.... ..+.|+|-|.+ |...-...
T Consensus 71 lY~HQ~~A~~~~~--------------~G~~vvVtTgTgSGKTe~FllPIld~~l~~~--~a~AL~lYPtnALa~DQ~~r 134 (851)
T COG1205 71 LYSHQVDALRLIR--------------EGRNVVVTTGTGSGKTESFLLPILDHLLRDP--SARALLLYPTNALANDQAER 134 (851)
T ss_pred ccHHHHHHHHHHH--------------CCCCEEEECCCCCchhHHHHHHHHHHHhhCc--CccEEEEechhhhHhhHHHH
Confidence 9999999999884 4689999999999999887655544433322 34899999955 56678888
Q ss_pred HHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000464 803 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 882 (1479)
Q Consensus 803 ~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEA 882 (1479)
|.+|.......+.+..|+|.....+.. .-...+.+|++|+|+|+..+........ .++.....+||+||+
T Consensus 135 l~~~~~~~~~~v~~~~y~Gdt~~~~r~--~~~~~pp~IllTNpdMLh~~llr~~~~~--------~~~~~~Lk~lVvDEl 204 (851)
T COG1205 135 LRELISDLPGKVTFGRYTGDTPPEERR--AIIRNPPDILLTNPDMLHYLLLRNHDAW--------LWLLRNLKYLVVDEL 204 (851)
T ss_pred HHHHHHhCCCcceeeeecCCCChHHHH--HHHhCCCCEEEeCHHHHHHHhccCcchH--------HHHHhcCcEEEEecc
Confidence 999876543357888888876554442 2234788999999999865322111111 122235889999999
Q ss_pred cccCCc-chHHHHHHHhcc--------cceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCC
Q 000464 883 HMIKNT-RADTTQALKQVK--------CQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNS 953 (1479)
Q Consensus 883 H~IKN~-~Sk~skalk~Lk--------a~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~ds 953 (1479)
|..++- .|..+-.+++|+ ....++.|||- ++..+|...+..-....
T Consensus 205 HtYrGv~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~--------------------~np~e~~~~l~~~~f~~----- 259 (851)
T COG1205 205 HTYRGVQGSEVALLLRRLLRRLRRYGSPLQIICTSATL--------------------ANPGEFAEELFGRDFEV----- 259 (851)
T ss_pred eeccccchhHHHHHHHHHHHHHhccCCCceEEEEeccc--------------------cChHHHHHHhcCCccee-----
Confidence 999864 466666666662 34558888883 33344433332100000
Q ss_pred ChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhh-cCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHH
Q 000464 954 TSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKK-DLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFF 1032 (1479)
Q Consensus 954 t~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~-~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l 1032 (1479)
.+.. --|.-..+++.-. .+.....+.
T Consensus 260 -----------------------------~v~~~g~~~~~~~~~~~~-p~~~~~~~~----------------------- 286 (851)
T COG1205 260 -----------------------------PVDEDGSPRGLRYFVRRE-PPIRELAES----------------------- 286 (851)
T ss_pred -----------------------------eccCCCCCCCceEEEEeC-Ccchhhhhh-----------------------
Confidence 0000 0111111111110 000000000
Q ss_pred HHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhcccc
Q 000464 1033 AGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYK 1112 (1479)
Q Consensus 1033 ~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~ 1112 (1479)
T Consensus 287 -------------------------------------------------------------------------------- 286 (851)
T COG1205 287 -------------------------------------------------------------------------------- 286 (851)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCC-CCCCCcccccCCccEEEecCCCCHHHHHHHHHH
Q 000464 1113 ELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLP-RPGKQGKLWKKGKDWYRLDGRTESSERQKLVER 1191 (1479)
Q Consensus 1113 ~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~-~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~ 1191 (1479)
..-++...+..++..+...|-|.|+|+.+...+..+........ +.+ + ..........|++...+|.++...
T Consensus 287 --~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~--~---~l~~~v~~~~~~~~~~er~~ie~~ 359 (851)
T COG1205 287 --IRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREG--G---KLLDAVSTYRAGLHREERRRIEAE 359 (851)
T ss_pred --cccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcc--h---hhhhheeeccccCCHHHHHHHHHH
Confidence 00134555666777777889999999999999998863222210 000 0 012456778899999999999999
Q ss_pred HhCCCCCCceEEEeeccccccccCccccCEEEEEeCCC-CcchHHHHhHhhhhcCCCCc-EEEEEEEeCCCHHHHHH
Q 000464 1192 FNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-NPTYDLQAIYRAWRYGQTKP-VFAYRLMAHGTMEEKIY 1266 (1479)
Q Consensus 1192 FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-NPa~d~QAIGRa~RiGQkK~-V~VYRLIa~gTIEEkI~ 1266 (1479)
|+.+ ++. +++||.|.-+||++.+.+.||..-.|- .-....|+.||++|-||.-. +.|++ .+-++....
T Consensus 360 ~~~g---~~~-~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v~~---~~~~d~yy~ 429 (851)
T COG1205 360 FKEG---ELL-GVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVVLR---SDPLDSYYL 429 (851)
T ss_pred HhcC---Ccc-EEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhhhhccCCCCCceEEEEeC---CCccchhhh
Confidence 9974 443 699999999999999999999998887 66888999999999996533 33333 444554443
No 73
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.49 E-value=3.1e-12 Score=153.15 Aligned_cols=87 Identities=16% Similarity=0.271 Sum_probs=69.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+.|+|||++....++.+...|+.. ..++.+..++|.++..+|.+.. +. .+|++|.+.+.
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 4789999999999999999999862 1246778999999998887543 12 26999999999
Q ss_pred ccCccccCEEEEEeCCCCcchHHHHhHhhh
Q 000464 1213 GINLHSANRVIIVDGSWNPTYDLQAIYRAW 1242 (1479)
Q Consensus 1213 GLNLt~AnrVIifDp~WNPa~d~QAIGRa~ 1242 (1479)
|||+.. +.|| ++ +-++..+.||+||++
T Consensus 331 GiDi~~-~~vi-~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 331 GVDFKR-DWLI-FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred ccCCCC-ceEE-EC-CCCHHHHhhhcccCC
Confidence 999985 4666 66 457888899999874
No 74
>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=99.49 E-value=1.9e-12 Score=163.34 Aligned_cols=116 Identities=19% Similarity=0.150 Sum_probs=102.8
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|+.++.+.+......|..|||||.+....+.|..+|.. .|+++..++|. ..+|+..+..|...+
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 4688899998888888999999999999999999999997 68999999998 669999999998532
Q ss_pred CCCceEEEeeccccccccCccc-------cCEEEEEeCCCCcchHHHHhHhhhhcCCCCcE
Q 000464 1197 NKRVKCTLISTRAGSLGINLHS-------ANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1250 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~-------AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V 1250 (1479)
. -++|+|..+|.|+++.. .-+||.++.+-|+..+.|++||++|.|..-..
T Consensus 454 ---g-~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~s 510 (745)
T TIGR00963 454 ---G-AVTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGSS 510 (745)
T ss_pred ---c-eEEEEeccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcce
Confidence 2 25999999999999887 67999999999999999999999999987443
No 75
>COG4889 Predicted helicase [General function prediction only]
Probab=99.48 E-value=2.8e-12 Score=156.94 Aligned_cols=86 Identities=23% Similarity=0.183 Sum_probs=66.1
Q ss_pred CccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC-C
Q 000464 1170 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT-K 1248 (1479)
Q Consensus 1170 Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk-K 1248 (1479)
.+..-.+||+|...+|.++..--|.-+...++ +|-..++.++|++.++.+-||||||--.-....||+||+.|-.-. +
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neck-IlSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECK-ILSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchhe-eeccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCc
Confidence 35566789999999997666554442334555 478899999999999999999999988888889999999997544 3
Q ss_pred cEEEEEEE
Q 000464 1249 PVFAYRLM 1256 (1479)
Q Consensus 1249 ~V~VYRLI 1256 (1479)
.-||.--|
T Consensus 578 yGYIILPI 585 (1518)
T COG4889 578 YGYIILPI 585 (1518)
T ss_pred cceEEEEe
Confidence 34444433
No 76
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.47 E-value=3.1e-11 Score=155.29 Aligned_cols=104 Identities=20% Similarity=0.211 Sum_probs=80.8
Q ss_pred EcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCC--HHHHHHHHHHHhCCCCCCceEEEeeccccccccCcc
Q 000464 1140 FSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE--SSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLH 1217 (1479)
Q Consensus 1140 FSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts--~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt 1217 (1479)
|..+..-.+.+++.|..++ .+.++.++||.+. ..+|++++++|.++ ++. +|++|...+.|+|+.
T Consensus 432 l~~~g~G~e~~~e~l~~~f----------p~~~v~~~~~d~~~~~~~~~~~l~~f~~g---~~~-ILVgT~~iakG~d~p 497 (679)
T PRK05580 432 LVPVGPGTERLEEELAELF----------PEARILRIDRDTTRRKGALEQLLAQFARG---EAD-ILIGTQMLAKGHDFP 497 (679)
T ss_pred eEEeeccHHHHHHHHHHhC----------CCCcEEEEeccccccchhHHHHHHHHhcC---CCC-EEEEChhhccCCCCC
Confidence 4444456677888887642 4788999999986 46799999999963 343 589999999999999
Q ss_pred ccCEEEEEeCC---CCc---------chHHHHhHhhhhcCCCCcEEEEEEEe
Q 000464 1218 SANRVIIVDGS---WNP---------TYDLQAIYRAWRYGQTKPVFAYRLMA 1257 (1479)
Q Consensus 1218 ~AnrVIifDp~---WNP---------a~d~QAIGRa~RiGQkK~V~VYRLIa 1257 (1479)
..+.|+++|.+ ..| ....|+.||++|.|....|.|...-.
T Consensus 498 ~v~lV~il~aD~~l~~pdfra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p 549 (679)
T PRK05580 498 NVTLVGVLDADLGLFSPDFRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHP 549 (679)
T ss_pred CcCEEEEEcCchhccCCccchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCC
Confidence 99999998875 334 56899999999988877777655443
No 77
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.45 E-value=1.4e-11 Score=152.15 Aligned_cols=318 Identities=16% Similarity=0.195 Sum_probs=210.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~ 800 (1479)
...||=|.++|..+. .+..+|.-..+|-||++. ..|-+++. .+.+|||.| .+|+..-.
T Consensus 16 ~~FR~gQ~evI~~~l--------------~g~d~lvvmPTGgGKSlC--yQiPAll~-----~G~TLVVSPLiSLM~DQV 74 (590)
T COG0514 16 ASFRPGQQEIIDALL--------------SGKDTLVVMPTGGGKSLC--YQIPALLL-----EGLTLVVSPLISLMKDQV 74 (590)
T ss_pred cccCCCHHHHHHHHH--------------cCCcEEEEccCCCCcchH--hhhHHHhc-----CCCEEEECchHHHHHHHH
Confidence 346788999988774 357899999999999964 33333333 359999999 78888888
Q ss_pred HHHHHhCCCCCCCeEEEEecCc-chhHHHHHHHHHhh-cCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 801 QEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~-~~~~r~~~l~~w~~-~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
+.+...- +.+..+++. +...+..++..... ..+++.++.+.+.+- .+.+. +......+++
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---------RFLEL---LKRLPISLVA 136 (590)
T ss_pred HHHHHcC------ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcCh---------HHHHH---HHhCCCceEE
Confidence 8887642 455555554 55566555554432 247788888877541 12222 2244889999
Q ss_pred EcCCcccCC-------cchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCC
Q 000464 879 CDEAHMIKN-------TRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHT 951 (1479)
Q Consensus 879 lDEAH~IKN-------~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~ 951 (1479)
|||||-+-. ....+......+....+++||||--.---.|+-.+|..-.+..| ..-|.+|
T Consensus 137 IDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~------~~sfdRp------- 203 (590)
T COG0514 137 IDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIF------RGSFDRP------- 203 (590)
T ss_pred echHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceE------EecCCCc-------
Confidence 999998753 33445555556666789999888643333333333322221111 0001000
Q ss_pred CCChHHHHHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhH
Q 000464 952 NSTSEDVKIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSF 1031 (1479)
Q Consensus 952 dst~~dv~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~ 1031 (1479)
.+|-.+..
T Consensus 204 ------------------------------------------------------Ni~~~v~~------------------ 211 (590)
T COG0514 204 ------------------------------------------------------NLALKVVE------------------ 211 (590)
T ss_pred ------------------------------------------------------hhhhhhhh------------------
Confidence 00000000
Q ss_pred HHHHHHHHHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccc
Q 000464 1032 FAGYQALAQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTY 1111 (1479)
Q Consensus 1032 l~~l~~LrkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~ 1111 (1479)
T Consensus 212 -------------------------------------------------------------------------------- 211 (590)
T COG0514 212 -------------------------------------------------------------------------------- 211 (590)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cccccChhHHHHHHHHH-HhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHH
Q 000464 1112 KELDYSGKMVLLLDILT-MCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1190 (1479)
Q Consensus 1112 ~~i~~S~Kl~~L~eIL~-~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~ 1190 (1479)
..+++.+.. .|. .....+.-.|||+.++...+.|..+|.. .|+....++|+++..+|+..-+
T Consensus 212 ---~~~~~~q~~--fi~~~~~~~~~~GIIYc~sRk~~E~ia~~L~~------------~g~~a~~YHaGl~~~eR~~~q~ 274 (590)
T COG0514 212 ---KGEPSDQLA--FLATVLPQLSKSGIIYCLTRKKVEELAEWLRK------------NGISAGAYHAGLSNEERERVQQ 274 (590)
T ss_pred ---cccHHHHHH--HHHhhccccCCCeEEEEeeHHhHHHHHHHHHH------------CCCceEEecCCCCHHHHHHHHH
Confidence 000111111 111 1122345579999999999999999997 6899999999999999999999
Q ss_pred HHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHH
Q 000464 1191 RFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIY 1266 (1479)
Q Consensus 1191 ~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~ 1266 (1479)
+|.++ .++ +++.|.|.|.|||=++...||+||+|-+...+.|=+|||+|-|..-.+. -|...+.+.-..|
T Consensus 275 ~f~~~---~~~-iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~GRAGRDG~~a~ai--ll~~~~D~~~~~~ 344 (590)
T COG0514 275 AFLND---EIK-VMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQETGRAGRDGLPAEAI--LLYSPEDIRWQRY 344 (590)
T ss_pred HHhcC---CCc-EEEEeccccCccCCCCceEEEEecCCCCHHHHHHHHhhccCCCCcceEE--EeeccccHHHHHH
Confidence 99964 333 5889999999999999999999999999999999999999999765554 4555555443333
No 78
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.44 E-value=7.5e-12 Score=147.90 Aligned_cols=126 Identities=20% Similarity=0.242 Sum_probs=110.5
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
+..+.|...|+++|... ....+|||.+....++.|.+.|.+ .|+...+|+|+-+.++|+.++..|.
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 45578999999999876 457999999999999999999997 6899999999999999999999999
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
++..+ +|+.|.++|.||+++..++||.||..-+-..+.++|||.+|-|+.-.+ ..|++..
T Consensus 565 ~~t~d----IlVaTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gta--iSflt~~ 624 (673)
T KOG0333|consen 565 EGTGD----ILVATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTA--ISFLTPA 624 (673)
T ss_pred hcCCC----EEEEecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCcee--EEEeccc
Confidence 74322 589999999999999999999999999999999999999999987543 3455543
No 79
>PRK09401 reverse gyrase; Reviewed
Probab=99.44 E-value=1.1e-11 Score=165.95 Aligned_cols=104 Identities=17% Similarity=0.134 Sum_probs=81.9
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhh---HHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~t---LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
.|...|.+++... +..+|||++.... ++.|..+|.. .|+++..++|.+ .+.+++|.+
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 3556666776543 4689999999777 9999999986 689999999999 234599996
Q ss_pred CCCCCceEEEee---ccccccccCccc-cCEEEEEeCCC------CcchHHHHhHhhhhc
Q 000464 1195 PLNKRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW------NPTYDLQAIYRAWRY 1244 (1479)
Q Consensus 1195 ~~n~~v~VfLIS---TkAGGeGLNLt~-AnrVIifDp~W------NPa~d~QAIGRa~Ri 1244 (1479)
+.++|++.+ |.+++.|||++. ..+||+|+.|- .......++||+-++
T Consensus 375 ---G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 375 ---GEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred ---CCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 566665554 789999999998 89999999997 555566777887643
No 80
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.43 E-value=9.9e-12 Score=146.64 Aligned_cols=114 Identities=17% Similarity=0.235 Sum_probs=102.5
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..++.++..+|++.... .||+||+..-.+..++...|.. -.+++..|+|..++..|.....+|.+..
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 45678889999887654 8999999999999999999997 3688999999999999999999999754
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
.+ +|++|++++.|+|++..+-||-||||-+|..+++|+||..|-|-+
T Consensus 381 sg----IL~cTDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~ 427 (543)
T KOG0342|consen 381 SG----ILVCTDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE 427 (543)
T ss_pred cc----eEEecchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC
Confidence 33 799999999999999999999999999999999999999997655
No 81
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.41 E-value=2.2e-12 Score=137.88 Aligned_cols=162 Identities=21% Similarity=0.226 Sum_probs=111.8
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW 799 (1479)
...++|||.+++..+.. ...++++..++|+|||..++.++........ .+++||++| ..++.||
T Consensus 6 ~~~~~~~Q~~~~~~~~~-------------~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~--~~~~l~~~p~~~~~~~~ 70 (201)
T smart00487 6 FEPLRPYQKEAIEALLS-------------GLRDVILAAPTGSGKTLAALLPALEALKRGK--GKRVLVLVPTRELAEQW 70 (201)
T ss_pred CCCCCHHHHHHHHHHHc-------------CCCcEEEECCCCCchhHHHHHHHHHHhcccC--CCcEEEEeCCHHHHHHH
Confidence 35689999999988752 1168999999999999988777766655432 468999999 7788899
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcC-CEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKG-GVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~-~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
..++..+++... ......+++.... ..+..+.... ++++++|+.+........ .....++++|
T Consensus 71 ~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~~~~~v~~~t~~~l~~~~~~~~------------~~~~~~~~iI 134 (201)
T smart00487 71 AEELKKLGPSLG-LKVVGLYGGDSKR---EQLRKLESGKTDILVTTPGRLLDLLENDL------------LELSNVDLVI 134 (201)
T ss_pred HHHHHHHhccCC-eEEEEEeCCcchH---HHHHHHhcCCCCEEEeChHHHHHHHHcCC------------cCHhHCCEEE
Confidence 999999886521 1344445454322 2233344455 999999988764321110 1223788999
Q ss_pred EcCCcccCC-cc-hHHHHHHHhc-ccceEEEeeCCCCc
Q 000464 879 CDEAHMIKN-TR-ADTTQALKQV-KCQRRIALTGSPLQ 913 (1479)
Q Consensus 879 lDEAH~IKN-~~-Sk~skalk~L-ka~rRllLTGTPLq 913 (1479)
+||+|.+.+ .. ......+..+ ...+++++||||..
T Consensus 135 iDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~ 172 (201)
T smart00487 135 LDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPE 172 (201)
T ss_pred EECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCch
Confidence 999999985 33 3333344444 57899999999953
No 82
>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=99.41 E-value=3.2e-11 Score=150.13 Aligned_cols=98 Identities=23% Similarity=0.239 Sum_probs=75.9
Q ss_pred HHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHH--HHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEE
Q 000464 1147 LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER--QKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVII 1224 (1479)
Q Consensus 1147 LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eR--q~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIi 1224 (1479)
.+.+++.|.+.+ .+.++.++|+.++...+ +++++.|.++ .+. +|++|...+.|+|+...+.|++
T Consensus 271 te~~~e~l~~~f----------p~~~v~~~d~d~~~~~~~~~~~l~~f~~g---~~~-ILVgT~~i~kG~d~~~v~lV~v 336 (505)
T TIGR00595 271 TEQVEEELAKLF----------PGARIARIDSDTTSRKGAHEALLNQFANG---KAD-ILIGTQMIAKGHHFPNVTLVGV 336 (505)
T ss_pred HHHHHHHHHhhC----------CCCcEEEEecccccCccHHHHHHHHHhcC---CCC-EEEeCcccccCCCCCcccEEEE
Confidence 567777777632 46889999999886655 8999999963 333 5899999999999999999988
Q ss_pred EeCCC---Cc---------chHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1225 VDGSW---NP---------TYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1225 fDp~W---NP---------a~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
+|.+- .| ....|+.||++|.+..-.|.|..+-..
T Consensus 337 l~aD~~l~~pd~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 337 LDADSGLHSPDFRAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred EcCcccccCcccchHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 87752 34 467999999999888777765544333
No 83
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.40 E-value=1.6e-11 Score=158.15 Aligned_cols=153 Identities=14% Similarity=0.143 Sum_probs=109.3
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~ 801 (1479)
.|+|+|..+|.-.+ ..+.++|++.++|.|||+.|...|...+..+ .++++-||| .+|..+=..
T Consensus 31 el~~~qq~av~~~~-------------~~~~N~li~aPTgsGKTlIA~lai~~~l~~~---~~k~vYivPlkALa~Ek~~ 94 (766)
T COG1204 31 ELFNPQQEAVEKGL-------------LSDENVLISAPTGSGKTLIALLAILSTLLEG---GGKVVYIVPLKALAEEKYE 94 (766)
T ss_pred HhhHHHHHHhhccc-------------cCCCcEEEEcCCCCchHHHHHHHHHHHHHhc---CCcEEEEeChHHHHHHHHH
Confidence 89999999986442 1268999999999999998877666555443 369999999 778888999
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 881 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDE 881 (1479)
+|.+|-.- .++|.+..|..... ..|...++|+|+||+.+-.+..... .+....++||+||
T Consensus 95 ~~~~~~~~---GirV~~~TgD~~~~-----~~~l~~~~ViVtT~EK~Dsl~R~~~------------~~~~~V~lvViDE 154 (766)
T COG1204 95 EFSRLEEL---GIRVGISTGDYDLD-----DERLARYDVIVTTPEKLDSLTRKRP------------SWIEEVDLVVIDE 154 (766)
T ss_pred HhhhHHhc---CCEEEEecCCcccc-----hhhhccCCEEEEchHHhhHhhhcCc------------chhhcccEEEEee
Confidence 99966443 37888887765432 2345788999999998865432111 1233679999999
Q ss_pred CcccCCc-c-----hHHHHHHHhcccceEEEeeCCC
Q 000464 882 AHMIKNT-R-----ADTTQALKQVKCQRRIALTGSP 911 (1479)
Q Consensus 882 AH~IKN~-~-----Sk~skalk~Lka~rRllLTGTP 911 (1479)
+|.+... . +-+++....-..-+.++||||-
T Consensus 155 iH~l~d~~RG~~lE~iv~r~~~~~~~~rivgLSATl 190 (766)
T COG1204 155 IHLLGDRTRGPVLESIVARMRRLNELIRIVGLSATL 190 (766)
T ss_pred eeecCCcccCceehhHHHHHHhhCcceEEEEEeeec
Confidence 9999755 2 3333333333345889999994
No 84
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.40 E-value=1.3e-11 Score=147.95 Aligned_cols=123 Identities=22% Similarity=0.278 Sum_probs=104.4
Q ss_pred cChhHHHHHHHHHHhhc---C----CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHH
Q 000464 1116 YSGKMVLLLDILTMCSN---M----GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKL 1188 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~---~----G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~l 1188 (1479)
...|...|+++|..... . -++++||+.....++.++.+|.. .|+++..|+|..+..+|.++
T Consensus 312 ~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~------------~~~~~~sIhg~~tq~er~~a 379 (482)
T KOG0335|consen 312 EMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSS------------NGYPAKSIHGDRTQIEREQA 379 (482)
T ss_pred chhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhc------------CCCCceeecchhhhhHHHHH
Confidence 34566677777765441 1 24999999999999999999997 68999999999999999999
Q ss_pred HHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC-CcEEEEE
Q 000464 1189 VERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT-KPVFAYR 1254 (1479)
Q Consensus 1189 I~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk-K~V~VYR 1254 (1479)
++.|.+ +++. .||.|.+++.|||..+..|||+||.|-+-..+..||||.+|.|+. +.+-.+.
T Consensus 380 l~~Fr~---g~~p-vlVaT~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~atsf~n 442 (482)
T KOG0335|consen 380 LNDFRN---GKAP-VLVATNVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSFFN 442 (482)
T ss_pred HHHhhc---CCcc-eEEEehhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCceeEEEec
Confidence 999996 4444 589999999999999999999999999999999999999999998 4444333
No 85
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.37 E-value=4.3e-12 Score=127.67 Aligned_cols=139 Identities=18% Similarity=0.150 Sum_probs=96.0
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-HHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLA 832 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~ 832 (1479)
++++.+.+|.|||.+++.++..+.... ..+++||+||...+. +|...+.+|... .+.+..+.+....... ..
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~--~~~~~lv~~p~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~--~~ 74 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSL--KGGQVLVLAPTRELANQVAERLKELFGE---GIKVGYLIGGTSIKQQ--EK 74 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcc--cCCCEEEEcCcHHHHHHHHHHHHHHhhC---CcEEEEEecCcchhHH--HH
Confidence 689999999999999999998876652 357999999977655 566777777753 2445554443322111 12
Q ss_pred HHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchHHH---HHHHhcccceEEEeeC
Q 000464 833 KWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTT---QALKQVKCQRRIALTG 909 (1479)
Q Consensus 833 ~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~s---kalk~Lka~rRllLTG 909 (1479)
.+....++++++|+++....... ......+++||+||+|.+.+...... .........+++++||
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 33467899999999875321100 01234799999999999988765443 3444457889999999
Q ss_pred CC
Q 000464 910 SP 911 (1479)
Q Consensus 910 TP 911 (1479)
||
T Consensus 143 Tp 144 (144)
T cd00046 143 TP 144 (144)
T ss_pred cC
Confidence 99
No 86
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.37 E-value=7.8e-13 Score=123.24 Aligned_cols=73 Identities=36% Similarity=0.471 Sum_probs=68.5
Q ss_pred CCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcC
Q 000464 1169 KGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1245 (1479)
Q Consensus 1169 ~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiG 1245 (1479)
.|+.+..++|.++..+|+.+++.|+.+.. .+|++|.++++|||++.+++||+++++||+..+.|++||++|.|
T Consensus 6 ~~~~~~~i~~~~~~~~r~~~~~~f~~~~~----~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 6 KGIKVAIIHGDMSQKERQEILKKFNSGEI----RVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRIG 78 (78)
T ss_dssp TTSSEEEESTTSHHHHHHHHHHHHHTTSS----SEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTTT
T ss_pred CCCcEEEEECCCCHHHHHHHHHHhhccCc----eEEEeeccccccccccccccccccccCCCHHHHHHHhhcCCCCC
Confidence 68999999999999999999999998533 26889999999999999999999999999999999999999998
No 87
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.36 E-value=2.4e-11 Score=143.80 Aligned_cols=140 Identities=20% Similarity=0.298 Sum_probs=103.4
Q ss_pred ChhHHHHHHHHHHhhcC--CCeEEEEcCchhhHHHHHHHHhcCCCC------C---CCc-ccccCCccEEEecCCCCHHH
Q 000464 1117 SGKMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRP------G---KQG-KLWKKGKDWYRLDGRTESSE 1184 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~--G~KVLIFSQ~~~tLdlLe~~L~~l~~~------~---~~~-~~w~~Gi~y~rLdGsts~~e 1184 (1479)
--++..|..+|....+. ..|+|||-....+.+.=..+|...... + ..| .....+.++++++|+|++.+
T Consensus 406 KLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~Qee 485 (708)
T KOG0348|consen 406 KLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEE 485 (708)
T ss_pred chhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHH
Confidence 34566677777655432 458899988888777666555532111 0 011 11124567999999999999
Q ss_pred HHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1185 RQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1185 Rq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
|...+..|.... +.+|++|++++.||+|+...-||-||||..|+.++.||||.-|+|-+-.-.. |+.+.-.|
T Consensus 486 Rts~f~~Fs~~~----~~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alL--fL~P~Eae 557 (708)
T KOG0348|consen 486 RTSVFQEFSHSR----RAVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALL--FLLPSEAE 557 (708)
T ss_pred HHHHHHhhcccc----ceEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEE--EecccHHH
Confidence 999999998742 2379999999999999999999999999999999999999999998754332 45555454
No 88
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.36 E-value=2.1e-10 Score=136.30 Aligned_cols=139 Identities=19% Similarity=0.261 Sum_probs=116.1
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
...-|+.+|...|.... ..|.|||-.+-.-...+...+.++ ..|++.+-++|.+++..|..+.++|..
T Consensus 296 ~l~~Ki~~L~sFI~shl--k~K~iVF~SscKqvkf~~e~F~rl----------rpg~~l~~L~G~~~Q~~R~ev~~~F~~ 363 (758)
T KOG0343|consen 296 PLEDKIDMLWSFIKSHL--KKKSIVFLSSCKQVKFLYEAFCRL----------RPGIPLLALHGTMSQKKRIEVYKKFVR 363 (758)
T ss_pred ehhhHHHHHHHHHHhcc--ccceEEEEehhhHHHHHHHHHHhc----------CCCCceeeeccchhHHHHHHHHHHHHH
Confidence 33468889999988755 479999999999999999998875 469999999999999999999999987
Q ss_pred CCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHH
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTK 1272 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K 1272 (1479)
.. .++|++|.+++.||++++.|.||-+|.|-+-..+++|+||.-|++-.-..++|-+ -+-||.+..+...|
T Consensus 364 ~~----~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~L~---psEeE~~l~~Lq~k 434 (758)
T KOG0343|consen 364 KR----AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLMLT---PSEEEAMLKKLQKK 434 (758)
T ss_pred hc----ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEEEc---chhHHHHHHHHHHc
Confidence 32 2589999999999999999999999999999999999999999998877766432 33446666555544
No 89
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.33 E-value=1.4e-10 Score=132.30 Aligned_cols=115 Identities=21% Similarity=0.289 Sum_probs=101.0
Q ss_pred ChhHHHHHHHHHHhhc-CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCSN-MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~-~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
..|-.+|..+|..... ....++||.|.+.+..+|...|+.+ +++...+++.+++++|...+.+|+..
T Consensus 236 ~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~l------------e~r~~~lHs~m~Q~eR~~aLsrFrs~ 303 (442)
T KOG0340|consen 236 DVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNL------------EVRVVSLHSQMPQKERLAALSRFRSN 303 (442)
T ss_pred hhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhh------------ceeeeehhhcchHHHHHHHHHHHhhc
Confidence 3566677777776655 4568999999999999999999973 78899999999999999999999973
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
.++ +||.|++++.||+++..+-||+||.|-.|-.+++++||.-|-|..
T Consensus 304 ---~~~-iliaTDVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~ 351 (442)
T KOG0340|consen 304 ---AAR-ILIATDVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRK 351 (442)
T ss_pred ---Ccc-EEEEechhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCC
Confidence 444 589999999999999999999999999999999999998888865
No 90
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.32 E-value=1.1e-11 Score=148.56 Aligned_cols=111 Identities=25% Similarity=0.323 Sum_probs=98.9
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|++.|-+++..+. -...||||....-++-|..+|.. .|+++..|.|.|++.+|..+++.++. -
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 5666666666543 25689999999999999999986 79999999999999999999999985 5
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
.++ +|+||+..+.||+-..+|-||++|++-+...+.+||||++|+|..
T Consensus 322 ~~r-ILVsTDLtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~ 369 (980)
T KOG4284|consen 322 RVR-ILVSTDLTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAH 369 (980)
T ss_pred eEE-EEEecchhhccCCccccceEEecCCCcchHHHHHHhhhccccccc
Confidence 676 599999999999999999999999999999999999999999976
No 91
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.32 E-value=1.5e-10 Score=150.67 Aligned_cols=111 Identities=18% Similarity=0.195 Sum_probs=91.6
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
+.++|||......++.+...|.... ..++.++.++|+++.++|.++++.|.+ +..+ +|+||.++..|
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~---------~~~~~v~pLHg~L~~~eq~~~~~~~~~---G~rk-VlVATnIAErg 275 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERL---------DSDVLICPLYGELSLAAQDRAIKPDPQ---GRRK-VVLATNIAETS 275 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhc---------CCCcEEEEecCCCCHHHHHHHHhhccc---CCeE-EEEecchHhhc
Confidence 4689999999999999999997521 136889999999999999999999975 3444 58999999999
Q ss_pred cCccccCEEEEEeCC----CCcch--------------HHHHhHhhhhcCCCCcEEEEEEEeCCC
Q 000464 1214 INLHSANRVIIVDGS----WNPTY--------------DLQAIYRAWRYGQTKPVFAYRLMAHGT 1260 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~----WNPa~--------------d~QAIGRa~RiGQkK~V~VYRLIa~gT 1260 (1479)
|++.+.++||.++.+ |||.. ..||.||++|. ++=..|||+++..
T Consensus 276 ItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 276 LTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred ccccCceEEEEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 999999999998865 56654 67999999887 4667899987643
No 92
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.32 E-value=6.2e-10 Score=144.13 Aligned_cols=314 Identities=18% Similarity=0.247 Sum_probs=204.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-HHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-qW~~ 801 (1479)
.--|-|..+|.-..+-+.. ...---++|-++|.|||=.|+=.+..... +.+-+.|+||+.++. |-.+
T Consensus 594 eET~DQl~AI~eVk~DM~~--------~kpMDRLiCGDVGFGKTEVAmRAAFkAV~----~GKQVAvLVPTTlLA~QHy~ 661 (1139)
T COG1197 594 EETPDQLKAIEEVKRDMES--------GKPMDRLICGDVGFGKTEVAMRAAFKAVM----DGKQVAVLVPTTLLAQQHYE 661 (1139)
T ss_pred cCCHHHHHHHHHHHHHhcc--------CCcchheeecCcCCcHHHHHHHHHHHHhc----CCCeEEEEcccHHhHHHHHH
Confidence 3457799999887665432 23345689999999999888743322222 237899999998876 5566
Q ss_pred HHHHhCCCCCCCeEEEEecCcchh-HHHHHHHHHh-hcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRD-RRAELLAKWR-AKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 879 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~-~r~~~l~~w~-~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIl 879 (1479)
.|..-+.+ .|++|-.++..... .....++... ..-+|+|-|+..+..- + . -.+.++|||
T Consensus 662 tFkeRF~~--fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kd-----v---~---------FkdLGLlII 722 (1139)
T COG1197 662 TFKERFAG--FPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKD-----V---K---------FKDLGLLII 722 (1139)
T ss_pred HHHHHhcC--CCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCC-----c---E---------EecCCeEEE
Confidence 66544332 36888888765433 2333344332 2346777776655321 0 0 115689999
Q ss_pred cCCcccCCcchHHHHHHHhccc-ceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcccCCCCCCChHHH
Q 000464 880 DEAHMIKNTRADTTQALKQVKC-QRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIENGQHTNSTSEDV 958 (1479)
Q Consensus 880 DEAH~IKN~~Sk~skalk~Lka-~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~g~~~dst~~dv 958 (1479)
||=|++.-. .-..++.+++ -..+-||||||...|.
T Consensus 723 DEEqRFGVk---~KEkLK~Lr~~VDvLTLSATPIPRTL~----------------------------------------- 758 (1139)
T COG1197 723 DEEQRFGVK---HKEKLKELRANVDVLTLSATPIPRTLN----------------------------------------- 758 (1139)
T ss_pred echhhcCcc---HHHHHHHHhccCcEEEeeCCCCcchHH-----------------------------------------
Confidence 999998532 3355777754 4789999999875432
Q ss_pred HHHHHHHHHHHHHHhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHHhhcccccccchHHHHhhHHHHHHHH
Q 000464 959 KIMNQRSHILYEQLKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLDLHGFTNDRVSNEKIRKSFFAGYQAL 1038 (1479)
Q Consensus 959 ~~~~~r~~~L~~~L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~~~~~~~~~~~~~~~~~s~l~~l~~L 1038 (1479)
..+.+. |+.+.+ .-||...+.|..-..+..-
T Consensus 759 -----------Msm~Gi---RdlSvI--~TPP~~R~pV~T~V~~~d~--------------------------------- 789 (1139)
T COG1197 759 -----------MSLSGI---RDLSVI--ATPPEDRLPVKTFVSEYDD--------------------------------- 789 (1139)
T ss_pred -----------HHHhcc---hhhhhc--cCCCCCCcceEEEEecCCh---------------------------------
Confidence 111111 222232 2454444333221111000
Q ss_pred HHHhcCcchhhhccccCCCCCccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccccCh
Q 000464 1039 AQIWNHPGILQLTKDKGYPSREDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSG 1118 (1479)
Q Consensus 1039 rkIcnHP~Ll~~~~~~~~~~~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~ 1118 (1479)
T Consensus 790 -------------------------------------------------------------------------------- 789 (1139)
T COG1197 790 -------------------------------------------------------------------------------- 789 (1139)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
.++.+.|..-..+|..|-.-.+.+..+.-+...|+.+- ...++...+|.|+..+-++++..|.+ +
T Consensus 790 --~~ireAI~REl~RgGQvfYv~NrV~~Ie~~~~~L~~LV----------PEarI~vaHGQM~e~eLE~vM~~F~~---g 854 (1139)
T COG1197 790 --LLIREAILRELLRGGQVFYVHNRVESIEKKAERLRELV----------PEARIAVAHGQMRERELEEVMLDFYN---G 854 (1139)
T ss_pred --HHHHHHHHHHHhcCCEEEEEecchhhHHHHHHHHHHhC----------CceEEEEeecCCCHHHHHHHHHHHHc---C
Confidence 12223333333457788788888889999999998753 35668899999999999999999996 4
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCC-CCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGS-WNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~-WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
++.| |++|.....||+++.||++||-+.+ +--+..-|-.|||+|-. +.-|.|-|+..
T Consensus 855 ~~dV-Lv~TTIIEtGIDIPnANTiIIe~AD~fGLsQLyQLRGRVGRS~--~~AYAYfl~p~ 912 (1139)
T COG1197 855 EYDV-LVCTTIIETGIDIPNANTIIIERADKFGLAQLYQLRGRVGRSN--KQAYAYFLYPP 912 (1139)
T ss_pred CCCE-EEEeeeeecCcCCCCCceEEEeccccccHHHHHHhccccCCcc--ceEEEEEeecC
Confidence 5554 6677799999999999999999885 57888999999999954 45677777754
No 93
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.32 E-value=4.7e-11 Score=137.25 Aligned_cols=115 Identities=23% Similarity=0.268 Sum_probs=99.0
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
+.|+..+..++.. ....+|||||+....++|.|..-|.- .|+...-|+|.-.+.+|+.+++.|+.
T Consensus 449 ~~k~~~~~~f~~~-ms~ndKvIiFv~~K~~AD~LSSd~~l------------~gi~~q~lHG~r~Q~DrE~al~~~ks-- 513 (629)
T KOG0336|consen 449 SEKLEIVQFFVAN-MSSNDKVIIFVSRKVMADHLSSDFCL------------KGISSQSLHGNREQSDREMALEDFKS-- 513 (629)
T ss_pred HHHHHHHHHHHHh-cCCCceEEEEEechhhhhhccchhhh------------cccchhhccCChhhhhHHHHHHhhhc--
Confidence 4566555555544 45589999999999999988776653 79999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTK 1248 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK 1248 (1479)
+.|+ +|+.|+.++.||++....||+.||.|-|-..+.+++||.+|-|.+-
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 5676 6899999999999999999999999999999999999999999764
No 94
>PRK09694 helicase Cas3; Provisional
Probab=99.31 E-value=3.8e-10 Score=147.00 Aligned_cols=111 Identities=15% Similarity=0.169 Sum_probs=83.7
Q ss_pred HHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHH----HHHHHHHhCCCCCCc
Q 000464 1125 DILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSER----QKLVERFNEPLNKRV 1200 (1479)
Q Consensus 1125 eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eR----q~lI~~FN~~~n~~v 1200 (1479)
+.+......|.++|||++.+..+..+.+.|+... ..+.++..++|.++..+| +++++.|.......-
T Consensus 551 ~~i~~~~~~g~~vLVf~NTV~~Aq~ly~~L~~~~---------~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~ 621 (878)
T PRK09694 551 QRMIAAANAGAQVCLICNLVDDAQKLYQRLKELN---------NTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQ 621 (878)
T ss_pred HHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhhC---------CCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCC
Confidence 3333334568999999999999999999998621 123578999999999999 467889943211111
Q ss_pred eEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1201 KCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1201 ~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
..+||+|.+...|||+ .++.+|....+ ....+|++||++|.|.+
T Consensus 622 ~~ILVaTQViE~GLDI-d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 622 GRILVATQVVEQSLDL-DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred CeEEEECcchhheeec-CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 2479999999999999 57877775444 46789999999999875
No 95
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=99.31 E-value=1.9e-10 Score=154.60 Aligned_cols=87 Identities=15% Similarity=0.182 Sum_probs=71.4
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCch---hhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1121 VLLLDILTMCSNMGDKSLVFSQSI---PTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1121 ~~L~eIL~~~~~~G~KVLIFSQ~~---~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
..|.++|... |.++|||++.. ..++.|..+|.. .|++...++|.++ +..+++|.+
T Consensus 316 ~~L~~ll~~l---~~~~IVFv~t~~~~~~a~~l~~~L~~------------~g~~a~~lhg~~~----~~~l~~Fr~--- 373 (1171)
T TIGR01054 316 ETLLEIVKKL---GTGGIVYVSIDYGKEKAEEIAEFLEN------------HGVKAVAYHATKP----KEDYEKFAE--- 373 (1171)
T ss_pred HHHHHHHHHc---CCCEEEEEeccccHHHHHHHHHHHHh------------CCceEEEEeCCCC----HHHHHHHHc---
Confidence 4455666543 57899999998 899999999986 6899999999986 368999996
Q ss_pred CCceEEEee---ccccccccCccc-cCEEEEEeCCC
Q 000464 1198 KRVKCTLIS---TRAGSLGINLHS-ANRVIIVDGSW 1229 (1479)
Q Consensus 1198 ~~v~VfLIS---TkAGGeGLNLt~-AnrVIifDp~W 1229 (1479)
+.++|++.+ |.+++.|||++. .++||+||+|-
T Consensus 374 G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 374 GEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred CCCCEEEEeccccCcccccCCCCccccEEEEECCCC
Confidence 566765554 689999999998 79999999974
No 96
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.27 E-value=1e-10 Score=141.14 Aligned_cols=119 Identities=23% Similarity=0.222 Sum_probs=104.1
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
-+|+.++.+++.... .-.+|||.|+......|...|.. ..++++..++|..+..+|...+++|+.
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 479999999998754 46899999999999988888852 268999999999999999999999996
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC-CcEEE
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT-KPVFA 1252 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk-K~V~V 1252 (1479)
+.++| |+.|.+.+.||++.++|.||+||.+-.-..++.+|||++|-|+. +.+..
T Consensus 437 -g~Iwv-LicTdll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~Aitf 491 (593)
T KOG0344|consen 437 -GKIWV-LICTDLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAITF 491 (593)
T ss_pred -cCeeE-EEehhhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcceEEE
Confidence 67774 88999999999999999999999999999999999999999986 43433
No 97
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.26 E-value=3.1e-10 Score=133.99 Aligned_cols=124 Identities=22% Similarity=0.336 Sum_probs=102.5
Q ss_pred HHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCce
Q 000464 1122 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1201 (1479)
Q Consensus 1122 ~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~ 1201 (1479)
.|..++.... .++++||.+....+..+.-+|.- -|+++.-|+|+.++.+|-..++.|.+ ..+.
T Consensus 416 ~l~~l~~rtf--~~~~ivFv~tKk~AHRl~IllGL------------lgl~agElHGsLtQ~QRlesL~kFk~---~eid 478 (691)
T KOG0338|consen 416 MLASLITRTF--QDRTIVFVRTKKQAHRLRILLGL------------LGLKAGELHGSLTQEQRLESLEKFKK---EEID 478 (691)
T ss_pred HHHHHHHHhc--ccceEEEEehHHHHHHHHHHHHH------------hhchhhhhcccccHHHHHHHHHHHHh---ccCC
Confidence 3444454433 58999999999999988888775 58899999999999999999999996 4554
Q ss_pred EEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC-CcEEEEEEEeCCCHHHHHHHH
Q 000464 1202 CTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT-KPVFAYRLMAHGTMEEKIYKR 1268 (1479)
Q Consensus 1202 VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk-K~V~VYRLIa~gTIEEkI~~r 1268 (1479)
+||+|++++.||++.+.-+||+|+.|-.--++++++||.-|-|.. +.| .|+..+ |.+|+.-
T Consensus 479 -vLiaTDvAsRGLDI~gV~tVINy~mP~t~e~Y~HRVGRTARAGRaGrsV---tlvgE~--dRkllK~ 540 (691)
T KOG0338|consen 479 -VLIATDVASRGLDIEGVQTVINYAMPKTIEHYLHRVGRTARAGRAGRSV---TLVGES--DRKLLKE 540 (691)
T ss_pred -EEEEechhhccCCccceeEEEeccCchhHHHHHHHhhhhhhcccCcceE---EEeccc--cHHHHHH
Confidence 699999999999999999999999999999999999999999865 444 466666 5555543
No 98
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.26 E-value=1.4e-10 Score=137.94 Aligned_cols=97 Identities=20% Similarity=0.236 Sum_probs=89.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
..+.|||+++++.+..|.-+|.. -+++.+.|+.+|.+++|-+.+++|.+.+++ +||.|++++.|
T Consensus 463 PGrTlVF~NsId~vKRLt~~L~~------------L~i~p~~LHA~M~QKqRLknLEkF~~~~~~----VLiaTDVAARG 526 (731)
T KOG0347|consen 463 PGRTLVFCNSIDCVKRLTVLLNN------------LDIPPLPLHASMIQKQRLKNLEKFKQSPSG----VLIATDVAARG 526 (731)
T ss_pred CCceEEEechHHHHHHHHHHHhh------------cCCCCchhhHHHHHHHHHHhHHHHhcCCCe----EEEeehhhhcc
Confidence 46899999999999999999997 378889999999999999999999985443 79999999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCC
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQ 1246 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQ 1246 (1479)
|++++..|||+|..|-..-.+++|-||.-|-+.
T Consensus 527 LDIp~V~HVIHYqVPrtseiYVHRSGRTARA~~ 559 (731)
T KOG0347|consen 527 LDIPGVQHVIHYQVPRTSEIYVHRSGRTARANS 559 (731)
T ss_pred CCCCCcceEEEeecCCccceeEecccccccccC
Confidence 999999999999999999999999999999875
No 99
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.24 E-value=1e-09 Score=139.98 Aligned_cols=116 Identities=16% Similarity=0.165 Sum_probs=100.6
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|..+|.+.+......|..|||||.+....+.|...|.. .|+++..++|.....++..+..+|..
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 4689999999988888899999999999999999999997 68999999999886666666666554
Q ss_pred CCCceEEEeeccccccccCcc---ccC-----EEEEEeCCCCcchHHHHhHhhhhcCCCCcE
Q 000464 1197 NKRVKCTLISTRAGSLGINLH---SAN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKPV 1250 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt---~An-----rVIifDp~WNPa~d~QAIGRa~RiGQkK~V 1250 (1479)
+. ++|+|..+|.|+++. +.. +||.++.+-|+..+.|++||++|.|..-..
T Consensus 489 -g~---VtIATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s 546 (796)
T PRK12906 489 -GA---VTIATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSS 546 (796)
T ss_pred -ce---EEEEeccccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcce
Confidence 32 699999999999994 567 999999999999999999999999987443
No 100
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.23 E-value=2.2e-11 Score=112.86 Aligned_cols=73 Identities=34% Similarity=0.491 Sum_probs=68.0
Q ss_pred CCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcC
Q 000464 1169 KGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1245 (1479)
Q Consensus 1169 ~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiG 1245 (1479)
.++.+..++|.++..+|..+++.|+++.. .+|++|.++++|+|++.+++||+++++||+....|++||++|.|
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 47889999999999999999999997532 47899999999999999999999999999999999999999987
No 101
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.23 E-value=7.4e-10 Score=144.42 Aligned_cols=112 Identities=17% Similarity=0.162 Sum_probs=90.5
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
+..+|||......++.+...|.... ..++.+..++|+++..+|.+++..|.+ +..+ +|++|.++..|
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~---------~~~~~v~~Lhg~l~~~eq~~~~~~~~~---G~rk-VlvATnIAErs 278 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRV---------ASDVLLCPLYGALSLAEQQKAILPAPA---GRRK-VVLATNIAETS 278 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhc---------cCCceEEEeeCCCCHHHHHHHhccccC---CCeE-EEEecchHHhc
Confidence 5789999999999999999998511 136788999999999999999998874 3444 69999999999
Q ss_pred cCccccCEEEEEeCC----CCcc--------------hHHHHhHhhhhcCCCCcEEEEEEEeCCCH
Q 000464 1214 INLHSANRVIIVDGS----WNPT--------------YDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1261 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~----WNPa--------------~d~QAIGRa~RiGQkK~V~VYRLIa~gTI 1261 (1479)
|++.+.++||.++.. |+|. ...||.||++|. .+=..|||+++...
T Consensus 279 LtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 279 LTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred ccccCceEEEECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 999999999996654 3332 468888888887 47789999987544
No 102
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.22 E-value=6.2e-10 Score=127.66 Aligned_cols=125 Identities=22% Similarity=0.322 Sum_probs=100.4
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+++|.++.. .... ...|||++...++..|...|.. .|..+..++|.+...+|..++++|+.+
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 46777776433 2222 3578999999999999999987 799999999999999999999999974
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCC------CcchHHHHhHhhhhcCCCCcEEEEEEEeC-CCHH
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSW------NPTYDLQAIYRAWRYGQTKPVFAYRLMAH-GTME 1262 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W------NPa~d~QAIGRa~RiGQkK~V~VYRLIa~-gTIE 1262 (1479)
..+ +||+|.+.+.||+....+.||+||.|- .|..+.+||||.+|+|-+- + +++|+-. .+++
T Consensus 380 -~~k-VLitTnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG-~-a~n~v~~~~s~~ 447 (477)
T KOG0332|consen 380 -KEK-VLITTNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKG-L-AINLVDDKDSMN 447 (477)
T ss_pred -cce-EEEEechhhcccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccc-e-EEEeecccCcHH
Confidence 333 599999999999999999999999874 4678899999999999653 2 3346643 4443
No 103
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.22 E-value=3.7e-10 Score=134.76 Aligned_cols=108 Identities=20% Similarity=0.234 Sum_probs=92.0
Q ss_pred CeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccccc
Q 000464 1135 DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGI 1214 (1479)
Q Consensus 1135 ~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGL 1214 (1479)
...|||+.+..-...|..+|.. +|++..-++++++..+|..+-..|.+ +.+. .+++|.|.|.|+
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 4789999999999999999986 69999999999999999999999996 4443 588999999999
Q ss_pred CccccCEEEE----EeCCC-CcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1215 NLHSANRVII----VDGSW-NPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1215 NLt~AnrVIi----fDp~W-NPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
++++ +.||| +-..| +|....|..||++|.|-...-.||-++-.|
T Consensus 505 DFPA-SQVIFEsLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 505 DFPA-SQVIFESLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred CCch-HHHHHHHHHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 9985 55554 45556 999999999999999988666777777544
No 104
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.21 E-value=2.7e-09 Score=136.96 Aligned_cols=120 Identities=20% Similarity=0.172 Sum_probs=106.2
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|+.++.+-+..+...|..|||||.+....+.|..+|.. .|+++..|+|.....+|+.+..+|+.+
T Consensus 426 ~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~------------~gi~h~vLnak~~q~Ea~iia~Ag~~G 493 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKK------------ENIKHQVLNAKFHEKEAQIIAEAGRPG 493 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHH------------cCCCeEeecCCCChHHHHHHHhCCCCC
Confidence 35699999999999999999999999999999999999997 799999999999999999999999963
Q ss_pred CCCCceEEEeeccccccccCcc--------------------------------------ccCEEEEEeCCCCcchHHHH
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH--------------------------------------SANRVIIVDGSWNPTYDLQA 1237 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt--------------------------------------~AnrVIifDp~WNPa~d~QA 1237 (1479)
. ++|+|..+|.|+++. +.=+||.-..+=|--.|.|.
T Consensus 494 ---~---VtIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QL 567 (896)
T PRK13104 494 ---A---VTIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQL 567 (896)
T ss_pred ---c---EEEeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHh
Confidence 3 599999999999975 23488999999999999999
Q ss_pred hHhhhhcCCCCcEEEE
Q 000464 1238 IYRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1238 IGRa~RiGQkK~V~VY 1253 (1479)
.||++|.|..-....|
T Consensus 568 rGRaGRQGDPGss~f~ 583 (896)
T PRK13104 568 RGRAGRQGDPGSSRFY 583 (896)
T ss_pred ccccccCCCCCceEEE
Confidence 9999999987544433
No 105
>PRK14701 reverse gyrase; Provisional
Probab=99.21 E-value=3.6e-09 Score=145.17 Aligned_cols=103 Identities=17% Similarity=0.187 Sum_probs=79.7
Q ss_pred HHHHHHHHHhhcCCCeEEEEcCchhh---HHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1121 VLLLDILTMCSNMGDKSLVFSQSIPT---LDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1121 ~~L~eIL~~~~~~G~KVLIFSQ~~~t---LdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
..|.++|... |..+|||++.... ++.|..+|.. .|+++..++|. |.+.+++|.+
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 4566666543 6789999998765 5788888886 68999999984 8999999996
Q ss_pred CCceEEEeec----cccccccCccc-cCEEEEEeCCC---CcchHHH-------------HhHhhhhcCCC
Q 000464 1198 KRVKCTLIST----RAGSLGINLHS-ANRVIIVDGSW---NPTYDLQ-------------AIYRAWRYGQT 1247 (1479)
Q Consensus 1198 ~~v~VfLIST----kAGGeGLNLt~-AnrVIifDp~W---NPa~d~Q-------------AIGRa~RiGQk 1247 (1479)
+.++| |++| .+++.|||++. ..+|||||+|- |.-.+.| .+||++|-|..
T Consensus 377 G~~~V-LVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 377 GEIDY-LIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred CCCCE-EEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 45655 5555 57889999998 89999999987 5544444 45888888764
No 106
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.20 E-value=4e-09 Score=134.83 Aligned_cols=134 Identities=19% Similarity=0.141 Sum_probs=112.1
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
..+++..|++.|..+...|.++|||+.....++.|..+|.. .|+.+..++|.++..+|.+++..|..
T Consensus 424 ~~~qi~~Ll~eI~~~~~~g~~vLIf~~tk~~ae~L~~~L~~------------~gi~~~~lh~~~~~~eR~~~l~~fr~- 490 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVARNERVLVTTLTKKMAEDLTDYLKE------------LGIKVRYLHSEIDTLERVEIIRDLRL- 490 (655)
T ss_pred ccchHHHHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHhh------------hccceeeeeCCCCHHHHHHHHHHHhc-
Confidence 35788899999999888999999999999999999999986 58899999999999999999999986
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEe-----CCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCC--HHHHHHHH
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVD-----GSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGT--MEEKIYKR 1268 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifD-----p~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gT--IEEkI~~r 1268 (1479)
+.+. +|++|...+.|++++.++.||++| .+-+....+|++||+.|... -.++-|+...| |...|.+.
T Consensus 491 --G~i~-VLV~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~~---G~vi~~~~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 491 --GEFD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVN---GKVIMYADKITDSMQKAIEET 564 (655)
T ss_pred --CCce-EEEEcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCCC---CEEEEEEcCCCHHHHHHHHHH
Confidence 4554 578999999999999999999999 45578899999999999742 23555555544 55555543
No 107
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.15 E-value=3.8e-09 Score=124.66 Aligned_cols=126 Identities=25% Similarity=0.320 Sum_probs=109.7
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
.|+..|++-|...... .|||||..-....+-|...|.. +|+++..++|++.+.+|.+.+..|+..
T Consensus 453 ~Kl~wl~~~L~~f~S~-gkvlifVTKk~~~e~i~a~Lkl------------k~~~v~llhgdkdqa~rn~~ls~fKkk-- 517 (731)
T KOG0339|consen 453 KKLNWLLRHLVEFSSE-GKVLIFVTKKADAEEIAANLKL------------KGFNVSLLHGDKDQAERNEVLSKFKKK-- 517 (731)
T ss_pred HHHHHHHHHhhhhccC-CcEEEEEeccCCHHHHHHHhcc------------ccceeeeecCchhhHHHHHHHHHHhhc--
Confidence 5888888888776653 4899999999999999999885 799999999999999999999999974
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
+.. +|+.|.+..+|+++....+||+||.--.-....|+|||..|-|-+ -..|.||++-..+
T Consensus 518 -~~~-VlvatDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 518 -RKP-VLVATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred -CCc-eEEEeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 222 588999999999999999999999998888999999999999987 5678899875544
No 108
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=9.3e-09 Score=131.94 Aligned_cols=119 Identities=20% Similarity=0.158 Sum_probs=102.8
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|+.+|.+.+..+...|..|||||.+....+.|...|.. .|+++..|+|. ..+|+..|.+|...+
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 4699999999998888899999999999999999999997 68999999996 679999999998642
Q ss_pred CCCceEEEeeccccccccCcc--------------------------------------ccCEEEEEeCCCCcchHHHHh
Q 000464 1197 NKRVKCTLISTRAGSLGINLH--------------------------------------SANRVIIVDGSWNPTYDLQAI 1238 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt--------------------------------------~AnrVIifDp~WNPa~d~QAI 1238 (1479)
. -++|+|..+|.|+++. +.=+||.-..+=|--.+.|..
T Consensus 479 ---g-~VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~Qlr 554 (830)
T PRK12904 479 ---G-AVTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLR 554 (830)
T ss_pred ---c-eEEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhh
Confidence 2 2699999999999864 245889989999999999999
Q ss_pred HhhhhcCCCCcEEEE
Q 000464 1239 YRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1239 GRa~RiGQkK~V~VY 1253 (1479)
||++|.|..-....|
T Consensus 555 GRagRQGdpGss~f~ 569 (830)
T PRK12904 555 GRSGRQGDPGSSRFY 569 (830)
T ss_pred cccccCCCCCceeEE
Confidence 999999987554443
No 109
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.10 E-value=2.8e-10 Score=127.88 Aligned_cols=121 Identities=21% Similarity=0.343 Sum_probs=99.2
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
+-|+--|-.++..+.- ...||||+++...++|..-+.. -|+..++++..|..+.|.+....|.+
T Consensus 307 ~qKvhCLntLfskLqI--NQsIIFCNS~~rVELLAkKITe------------lGyscyyiHakM~Q~hRNrVFHdFr~-- 370 (459)
T KOG0326|consen 307 RQKVHCLNTLFSKLQI--NQSIIFCNSTNRVELLAKKITE------------LGYSCYYIHAKMAQEHRNRVFHDFRN-- 370 (459)
T ss_pred hhhhhhHHHHHHHhcc--cceEEEeccchHhHHHHHHHHh------------ccchhhHHHHHHHHhhhhhhhhhhhc--
Confidence 3444444444443321 4689999999999999998887 48999999999999999999999995
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEe
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMA 1257 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa 1257 (1479)
+.++ .|+.|+....||+.++.|.||.||.+-|+..+..+|||.+|+|-- -....||+
T Consensus 371 -G~cr-nLVctDL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhl--GlAInLit 427 (459)
T KOG0326|consen 371 -GKCR-NLVCTDLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHL--GLAINLIT 427 (459)
T ss_pred -cccc-eeeehhhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCc--ceEEEEEe
Confidence 6676 478889999999999999999999999999999999999999953 23344553
No 110
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.07 E-value=6.2e-08 Score=124.35 Aligned_cols=116 Identities=17% Similarity=0.151 Sum_probs=104.0
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|..++++-+..+.+.|..||||+.+....+.|..+|.. .|+++..|++..+..+|..+...|+.
T Consensus 431 ~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~------------~gi~~~vLnak~~~~Ea~ii~~Ag~~- 497 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVK------------EKIPHEVLNAKFHEREAEIVAQAGRT- 497 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCeEeccCcccHHHHHHHHhCCCC-
Confidence 35799999999999999999999999999999999999997 68999999999999999999999986
Q ss_pred CCCCceEEEeeccccccccCcc-------------------------------------ccCEEEEEeCCCCcchHHHHh
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAI 1238 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt-------------------------------------~AnrVIifDp~WNPa~d~QAI 1238 (1479)
+. ++|+|..+|.|+++. |.=+||.-..+=|--.|.|..
T Consensus 498 --G~---VtIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLr 572 (908)
T PRK13107 498 --GA---VTIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLR 572 (908)
T ss_pred --Cc---EEEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhh
Confidence 33 599999999999975 334899999999999999999
Q ss_pred HhhhhcCCCCc
Q 000464 1239 YRAWRYGQTKP 1249 (1479)
Q Consensus 1239 GRa~RiGQkK~ 1249 (1479)
||++|.|..-.
T Consensus 573 GRaGRQGDPGs 583 (908)
T PRK13107 573 GRAGRQGDAGS 583 (908)
T ss_pred cccccCCCCCc
Confidence 99999998744
No 111
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.05 E-value=5.8e-08 Score=124.87 Aligned_cols=125 Identities=18% Similarity=0.144 Sum_probs=107.2
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
..+++..|++.|..+...|.++|||+.....++.|..+|.. .|+++..++|.++..+|..++..|..
T Consensus 428 ~~~q~~~L~~~L~~~~~~g~~viIf~~t~~~ae~L~~~L~~------------~gi~~~~~h~~~~~~~R~~~l~~f~~- 494 (652)
T PRK05298 428 TKGQVDDLLSEIRKRVAKGERVLVTTLTKRMAEDLTDYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRL- 494 (652)
T ss_pred ccccHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHHHhh------------cceeEEEEECCCCHHHHHHHHHHHHc-
Confidence 35678899999999888999999999999999999999986 68999999999999999999999986
Q ss_pred CCCCceEEEeeccccccccCccccCEEEEEeC-----CCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSANRVIIVDG-----SWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp-----~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
+.+. +|++|...+.|+++..++.||++|. +-++...+|++||++|- . .-.++.|+...
T Consensus 495 --g~i~-vlV~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~~~~~ 557 (652)
T PRK05298 495 --GEFD-VLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-V--NGKVILYADKI 557 (652)
T ss_pred --CCce-EEEEeCHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-C--CCEEEEEecCC
Confidence 4454 5789999999999999999999996 45888999999999994 2 33455566543
No 112
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.04 E-value=1.1e-07 Score=122.73 Aligned_cols=115 Identities=16% Similarity=0.086 Sum_probs=99.6
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|+.+|++.+......|..||||+.+....+.|..+|.. .|+++..|++ ...+|+..|.+|...+
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 4699999999998888899999999999999999999997 6899999997 5679999999998642
Q ss_pred CCCceEEEeeccccccccCccc---cC-----EEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1197 NKRVKCTLISTRAGSLGINLHS---AN-----RVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~---An-----rVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
. -++|+|..+|.|+++.- +. +||.++.+-+.-.+.|++||++|.|..-.
T Consensus 647 ---g-~VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGs 703 (1025)
T PRK12900 647 ---G-AVTIATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGE 703 (1025)
T ss_pred ---C-eEEEeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcc
Confidence 2 26999999999999983 32 44888889999999999999999998733
No 113
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.03 E-value=3.8e-09 Score=115.96 Aligned_cols=160 Identities=16% Similarity=0.106 Sum_probs=104.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhc-ccCCCceEEEec-hhhHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV-NLGLRTALIVTP-VNVLHNWK 800 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~-~~~~k~vLIV~P-~sLl~qW~ 800 (1479)
.+++||.+++..+. .+.+.++..++|.|||+..+..+...+... .....++|||+| ..++.||.
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 57999999997764 257899999999999998655444433332 112357999999 56788999
Q ss_pred HHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 801 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
..+..+... ..+.+..+.+...... ....+....+|+|+|.+.+..+..... .....++++|+|
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 999998754 2356666655433221 122333567899999887644221110 112367899999
Q ss_pred CCcccCCcc--hHHHHHHHhcc-cceEEEeeCCCC
Q 000464 881 EAHMIKNTR--ADTTQALKQVK-CQRRIALTGSPL 912 (1479)
Q Consensus 881 EAH~IKN~~--Sk~skalk~Lk-a~rRllLTGTPL 912 (1479)
|+|.+.+.. ......+..+. ....+++||||-
T Consensus 151 E~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 151 EADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred ChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 999986543 22223334443 577899999996
No 114
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.01 E-value=4.3e-09 Score=111.53 Aligned_cols=161 Identities=17% Similarity=0.192 Sum_probs=106.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHHHH
Q 000464 726 AHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFM 804 (1479)
Q Consensus 726 PhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E~~ 804 (1479)
|+|.+++.-+. .+...++..++|.|||..++..+...+... ..+.+||++| ..++.|-..++.
T Consensus 2 ~~Q~~~~~~i~--------------~~~~~li~aptGsGKT~~~~~~~l~~~~~~--~~~~~lii~P~~~l~~q~~~~~~ 65 (169)
T PF00270_consen 2 PLQQEAIEAII--------------SGKNVLISAPTGSGKTLAYILPALNRLQEG--KDARVLIIVPTRALAEQQFERLR 65 (169)
T ss_dssp HHHHHHHHHHH--------------TTSEEEEECSTTSSHHHHHHHHHHHHHHTT--SSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH--------------cCCCEEEECCCCCccHHHHHHHHHhhhccC--CCceEEEEeeccccccccccccc
Confidence 78999887664 246699999999999999886666554443 2348999999 668889999999
Q ss_pred HhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcc
Q 000464 805 KWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHM 884 (1479)
Q Consensus 805 kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~ 884 (1479)
.++.. ..+++..+.+....... .........+|+|+|++.|........ ......++||+||+|.
T Consensus 66 ~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~~ilv~T~~~l~~~~~~~~------------~~~~~~~~iViDE~h~ 130 (169)
T PF00270_consen 66 KFFSN--TNVRVVLLHGGQSISED-QREVLSNQADILVTTPEQLLDLISNGK------------INISRLSLIVIDEAHH 130 (169)
T ss_dssp HHTTT--TTSSEEEESTTSCHHHH-HHHHHHTTSSEEEEEHHHHHHHHHTTS------------STGTTESEEEEETHHH
T ss_pred ccccc--ccccccccccccccccc-ccccccccccccccCcchhhccccccc------------cccccceeeccCcccc
Confidence 99865 23455555554332211 111113468999999999865322100 0112478999999999
Q ss_pred cCCc--chHHHHHHHhc---ccceEEEeeCCCCccchhH
Q 000464 885 IKNT--RADTTQALKQV---KCQRRIALTGSPLQNNLME 918 (1479)
Q Consensus 885 IKN~--~Sk~skalk~L---ka~rRllLTGTPLqNnL~E 918 (1479)
+-.. .......+..+ ...+.+++||||- .++..
T Consensus 131 l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 131 LSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp HHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred cccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 9652 22333344444 3467999999997 55544
No 115
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=99.00 E-value=5.8e-09 Score=121.45 Aligned_cols=219 Identities=20% Similarity=0.165 Sum_probs=125.0
Q ss_pred eEEEEEecCCHHHHHHHHHHHHhhcccc-----cccchHH--------HHhhHHHHHHHHHHHhcCcchhhhccccCCCC
Q 000464 992 TVFVITVKLSPLQRRLYKRFLDLHGFTN-----DRVSNEK--------IRKSFFAGYQALAQIWNHPGILQLTKDKGYPS 1058 (1479)
Q Consensus 992 ~e~vv~v~LS~~Qr~LY~~~l~~~~~~~-----~~~~~~~--------~~~s~l~~l~~LrkIcnHP~Ll~~~~~~~~~~ 1058 (1479)
.++.+.++|+..|+++|+.++....... ....... ....+...+..|+.+|+||+|+...-.....
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~l- 82 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQL- 82 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCcccc-
Confidence 4788999999999999998876432111 0001111 1245667788999999999986421110000
Q ss_pred CccccCCCCcccccccccccCCCccchhhhcCCCCCccchhhhhhhhhhhccccccccChhHHHHHHHHHHh-----hcC
Q 000464 1059 REDAEDSSSDENMDYNVVIGEKPRNMNDFLQGKNDDGFFQKDWWNDLLHEHTYKELDYSGKMVLLLDILTMC-----SNM 1133 (1479)
Q Consensus 1059 ~ed~dd~~~d~~~d~~~~~~ek~~~~~d~~~~~~~~~~~~~~~~~~ll~~~~~~~i~~S~Kl~~L~eIL~~~-----~~~ 1133 (1479)
++.+........|+|+..|-++|..+ ...
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 00001111235699999999999998 555
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHH------------HHHhCCCCCCce
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLV------------ERFNEPLNKRVK 1201 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI------------~~FN~~~n~~v~ 1201 (1479)
+-++||.++...++++||.+|.. +++.|-|++|..-..+....- ...+......+.
T Consensus 117 ~~~ilIv~~~~k~ldllE~~llG------------k~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (297)
T PF11496_consen 117 PLHILIVSRSGKELDLLEGLLLG------------KKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVW 184 (297)
T ss_dssp SEEEEEEE-STHHHHHHHHHHTT------------SSSEEEESSS--S--S---S----------------------SEE
T ss_pred CceEEEEecCccHHHHHHHHHcc------------CCeeEEecCCCCCcCccccCCcccccccccccccccccccccceE
Confidence 77999999999999999999974 789999999976544433222 222333445677
Q ss_pred EEEeecccccc----ccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHH
Q 000464 1202 CTLISTRAGSL----GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQV 1270 (1479)
Q Consensus 1202 VfLISTkAGGe----GLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~ 1270 (1479)
|+|+++.-... .++-...+.||-||+.+++....-..-|...-.+ +.+-|+|||..+|+|.-+.....
T Consensus 185 i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~PiirLv~~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 185 IHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLCPIIRLVPSNSIEHIELCFPK 256 (297)
T ss_dssp EEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S--EEEEEETTSHHHHHHHHTT
T ss_pred EEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCCcEEEEeeCCCHHHHHHHccC
Confidence 88888875443 2344567999999999999886544444433223 89999999999999998876544
No 116
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.00 E-value=3.5e-08 Score=132.04 Aligned_cols=111 Identities=15% Similarity=0.157 Sum_probs=87.6
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
...+|||......+..+...|.... ..++.++.++|+++.++|++++..+ + . +-+|+||.++..|
T Consensus 279 ~GdILVFLpg~~EI~~l~~~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~vf~~~---~-~--rkIVLATNIAEtS 343 (1283)
T TIGR01967 279 PGDILIFLPGEREIRDAAEILRKRN---------LRHTEILPLYARLSNKEQQRVFQPH---S-G--RRIVLATNVAETS 343 (1283)
T ss_pred CCCEEEeCCCHHHHHHHHHHHHhcC---------CCCcEEEeccCCCCHHHHHHHhCCC---C-C--ceEEEeccHHHhc
Confidence 4689999999999999999998621 1346688999999999999875433 1 2 2368999999999
Q ss_pred cCccccCEEEEEeCC----C--------------CcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1214 INLHSANRVIIVDGS----W--------------NPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~----W--------------NPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
|++.+..+||-++.. + +.+...||.||++|.| +-..|||+++...+
T Consensus 344 LTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~ 407 (1283)
T TIGR01967 344 LTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFN 407 (1283)
T ss_pred cccCCeeEEEeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHH
Confidence 999999999987631 2 3357889999999997 66789999876544
No 117
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.99 E-value=8.7e-08 Score=121.64 Aligned_cols=161 Identities=17% Similarity=0.207 Sum_probs=98.2
Q ss_pred CCCCcceEEEcCCCchHHHHHHHHHHHHHHhcc------cCCCceEEEec-hhhHHHHHHHHHHhCCCCCCCeEEEEecC
Q 000464 749 GDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLED 821 (1479)
Q Consensus 749 ~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~------~~~k~vLIV~P-~sLl~qW~~E~~kw~P~~~~~l~V~~l~g 821 (1479)
+....++|++.++|.|||..+...|...+.... .+.-+++-|+| ++|...-.+-|.+-+.. ..+.|..+.|
T Consensus 123 Y~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~--~gi~v~ELTG 200 (1230)
T KOG0952|consen 123 YKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAP--LGISVRELTG 200 (1230)
T ss_pred hcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhccc--ccceEEEecC
Confidence 356689999999999999888665555554311 12347889999 55554333333222210 1377888877
Q ss_pred cchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcc-----hHHHHHH
Q 000464 822 VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR-----ADTTQAL 896 (1479)
Q Consensus 822 ~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~-----Sk~skal 896 (1479)
.....+.++ ...+|+|||.+-+.-++.. ..-+ ..|.....+||+||.|.+.... +-.++.+
T Consensus 201 D~ql~~tei-----~~tqiiVTTPEKwDvvTRk-~~~d--------~~l~~~V~LviIDEVHlLhd~RGpvlEtiVaRtl 266 (1230)
T KOG0952|consen 201 DTQLTKTEI-----ADTQIIVTTPEKWDVVTRK-SVGD--------SALFSLVRLVIIDEVHLLHDDRGPVLETIVARTL 266 (1230)
T ss_pred cchhhHHHH-----HhcCEEEecccceeeeeee-eccc--------hhhhhheeeEEeeeehhhcCcccchHHHHHHHHH
Confidence 655444442 4578999999987543211 1111 1223356899999999998654 3445555
Q ss_pred Hhc----ccceEEEeeCCCCccchhHHHhhhhhhccCC
Q 000464 897 KQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGF 930 (1479)
Q Consensus 897 k~L----ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~ 930 (1479)
+.+ ..-|.++||||- . | |-.+-.||+.++
T Consensus 267 r~vessqs~IRivgLSATl-P-N---~eDvA~fL~vn~ 299 (1230)
T KOG0952|consen 267 RLVESSQSMIRIVGLSATL-P-N---YEDVARFLRVNP 299 (1230)
T ss_pred HHHHhhhhheEEEEeeccC-C-C---HHHHHHHhcCCC
Confidence 443 455779999994 2 2 333455666543
No 118
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.98 E-value=2.2e-07 Score=106.44 Aligned_cols=125 Identities=16% Similarity=0.138 Sum_probs=92.2
Q ss_pred HHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCce
Q 000464 1122 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1201 (1479)
Q Consensus 1122 ~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~ 1201 (1479)
.|..+|+.....|.-+|||...+.++..+...|+... .......++... ..|.+.|.+|++ +.+.
T Consensus 293 kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~~~----------~~~~i~~Vhs~d--~~R~EkV~~fR~---G~~~ 357 (441)
T COG4098 293 KLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKKKL----------PKETIASVHSED--QHRKEKVEAFRD---GKIT 357 (441)
T ss_pred HHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHhhC----------CccceeeeeccC--ccHHHHHHHHHc---CceE
Confidence 4567788878889999999999999999999996411 122223344433 479999999996 4554
Q ss_pred EEEeeccccccccCccccCEEEEEeCC--CCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1202 CTLISTRAGSLGINLHSANRVIIVDGS--WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1202 VfLISTkAGGeGLNLt~AnrVIifDp~--WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
+||+|.....|+.++..+..|+=.-. ++.+..+|.-||++|---.-.-.|+.|-..-|..
T Consensus 358 -lLiTTTILERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~G~ska 419 (441)
T COG4098 358 -LLITTTILERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHYGKSKA 419 (441)
T ss_pred -EEEEeehhhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEeccchHH
Confidence 68999999999999999988886555 8889999999999996544333444444433433
No 119
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.97 E-value=2.3e-08 Score=127.86 Aligned_cols=123 Identities=20% Similarity=0.243 Sum_probs=105.4
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|+..|.++|.+... ..++|||++...-++.|.+-|.+ .|+....++|..+..+|...|..|+++
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 5789999999998776 67999999999999999998886 688888899999999999999999973
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
.+ .+|+.|.+.+.||+...-..||+||.+---..+..|.||..|-|-+- .-|.|+..
T Consensus 663 --~~-~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 663 --VV-NLLVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred --Cc-eEEEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 34 37999999999999999999999999766667777777777777665 66677766
No 120
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.89 E-value=1.2e-07 Score=123.44 Aligned_cols=133 Identities=17% Similarity=0.178 Sum_probs=101.6
Q ss_pred HHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC--CCCCceEEE
Q 000464 1127 LTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP--LNKRVKCTL 1204 (1479)
Q Consensus 1127 L~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~--~n~~v~VfL 1204 (1479)
+......|.||+|-++.+..+..+...|+. .+.+++.+++......|.+.++...+- .+. ..++
T Consensus 433 ~~~~~~~~~kvlvI~NTV~~Aie~Y~~Lk~------------~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~--~~Iv 498 (733)
T COG1203 433 ISEEVKEGKKVLVIVNTVDRAIELYEKLKE------------KGPKVLLLHSRFTLKDREEKERELKKLFKQNE--GFIV 498 (733)
T ss_pred chhhhccCCcEEEEEecHHHHHHHHHHHHh------------cCCCEEEEecccchhhHHHHHHHHHHHHhccC--CeEE
Confidence 334455689999999999999999999986 233699999999999999998865431 111 2379
Q ss_pred eeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcC--CCCcEEEEEEEeCCCHHHHHHHHHHHHHHHH
Q 000464 1205 ISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG--QTKPVFAYRLMAHGTMEEKIYKRQVTKEGLA 1276 (1479)
Q Consensus 1205 ISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiG--QkK~V~VYRLIa~gTIEEkI~~rq~~K~~La 1276 (1479)
|+|++...|+|+. .+.+ |-|+. -....+||.||++|.| ....++||...-.+....+.+.....+....
T Consensus 499 VaTQVIEagvDid-fd~m-ITe~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 569 (733)
T COG1203 499 VATQVIEAGVDID-FDVL-ITELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSL 569 (733)
T ss_pred EEeeEEEEEeccc-cCee-eecCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhhccc
Confidence 9999999999998 4444 44442 2346789999999999 5677888888888888888887776665433
No 121
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.89 E-value=2.9e-08 Score=114.19 Aligned_cols=258 Identities=17% Similarity=0.219 Sum_probs=153.2
Q ss_pred ccccCchh--hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEE
Q 000464 713 AVRIPSSI--SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 790 (1479)
Q Consensus 713 ~v~vP~~L--~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV 790 (1479)
...+|..+ ...|=.-|+++|-+........ -......|.+|+|.+|.||..|+-++|......++ .+++-|-
T Consensus 25 ~~~lp~~~~~~g~LS~~QLEaV~yA~q~h~~~----Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr--~r~vwvS 98 (303)
T PF13872_consen 25 RLHLPEEVIDSGLLSALQLEAVIYACQRHEQI----LPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGR--KRAVWVS 98 (303)
T ss_pred ccCCCHHHHhcccccHHHHHHHHHHHHHHHhh----cccccCcEEEeccCCCcCccchhHHHHHHHHHcCC--CceEEEE
Confidence 34567653 4678999999999886654332 23456789999999999999999999988776654 2355555
Q ss_pred echhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhh
Q 000464 791 TPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHAL 870 (1479)
Q Consensus 791 ~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL 870 (1479)
+...|..--.+.+..--.. .+.+..+...+.... .....||+++||.+++.-... ..+.......+..++
T Consensus 99 ~s~dL~~Da~RDl~DIG~~---~i~v~~l~~~~~~~~------~~~~~GvlF~TYs~L~~~~~~-~~~~~sRl~ql~~W~ 168 (303)
T PF13872_consen 99 VSNDLKYDAERDLRDIGAD---NIPVHPLNKFKYGDI------IRLKEGVLFSTYSTLISESQS-GGKYRSRLDQLVDWC 168 (303)
T ss_pred CChhhhhHHHHHHHHhCCC---cccceechhhccCcC------CCCCCCccchhHHHHHhHHhc-cCCccchHHHHHHHH
Confidence 5677777655555543222 233333332211110 113568999999998764321 122233445555555
Q ss_pred cCCC-CEEEEcCCcccCCcch------HHHHHHHhc----ccceEEEeeCCCCccchhHHHhhhhhhccCCC------CC
Q 000464 871 QDGP-DILVCDEAHMIKNTRA------DTTQALKQV----KCQRRIALTGSPLQNNLMEYYCMVDFVREGFL------GS 933 (1479)
Q Consensus 871 ~~~~-dlVIlDEAH~IKN~~S------k~skalk~L----ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~L------gs 933 (1479)
...| .+||+||||+.||..+ ++..++..| ..-+.+-.|||...+ --+|.-+.+-+++ .+
T Consensus 169 g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase----p~NmaYm~RLGLWG~gtpf~~ 244 (303)
T PF13872_consen 169 GEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE----PRNMAYMSRLGLWGPGTPFPD 244 (303)
T ss_pred hcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC----CceeeeeeeccccCCCCCCCC
Confidence 4444 4788999999999754 555665544 455789999999742 2223222333444 34
Q ss_pred hHHHHhhhcCCcccCCCCCCChHHHHHHHHHHHHHHHH--HhHHhhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHH
Q 000464 934 SHEFRNRFQNPIENGQHTNSTSEDVKIMNQRSHILYEQ--LKGFVQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRF 1011 (1479)
Q Consensus 934 ~~eF~~~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~--L~~fvlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~ 1011 (1479)
..+|.+.+. .+... . ..++-.. ..+..++|.. .+-.-...++.++||+.|.++|+.|
T Consensus 245 ~~~f~~a~~----~gGv~--------a----mE~vA~dlKa~G~yiaR~L-----Sf~gvef~~~e~~l~~~~~~~Yd~~ 303 (303)
T PF13872_consen 245 FDDFLEAME----KGGVG--------A----MEMVAMDLKARGMYIARQL-----SFEGVEFEIEEVPLTPEQIKMYDAY 303 (303)
T ss_pred HHHHHHHHH----hcCch--------H----HHHHHHHHHhcchheeeec-----ccCCceEEEEEecCCHHHHHHhcCC
Confidence 455554433 22110 0 0111111 1223333333 2444566788999999999999853
No 122
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.88 E-value=4.4e-08 Score=114.69 Aligned_cols=123 Identities=22% Similarity=0.292 Sum_probs=100.1
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
-.|+.++.-+|+--.- ..|.|||.+.++.--.|.-||.. .|++.+.+.|.+|...|.-+|++||.
T Consensus 252 ~DKflllyallKL~LI-~gKsliFVNtIdr~YrLkLfLeq------------FGiksciLNseLP~NSR~Hii~QFNk-- 316 (569)
T KOG0346|consen 252 EDKFLLLYALLKLRLI-RGKSLIFVNTIDRCYRLKLFLEQ------------FGIKSCILNSELPANSRCHIIEQFNK-- 316 (569)
T ss_pred chhHHHHHHHHHHHHh-cCceEEEEechhhhHHHHHHHHH------------hCcHhhhhcccccccchhhHHHHhhC--
Confidence 3577777777764332 46999999999999999999997 79999999999999999999999997
Q ss_pred CCCceEEEeecc--------------------------c---------cccccCccccCEEEEEeCCCCcchHHHHhHhh
Q 000464 1197 NKRVKCTLISTR--------------------------A---------GSLGINLHSANRVIIVDGSWNPTYDLQAIYRA 1241 (1479)
Q Consensus 1197 n~~v~VfLISTk--------------------------A---------GGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa 1241 (1479)
+-+.+ ||.|+ + .+.||+++..+.||+||.|-++..+++|+||.
T Consensus 317 -G~Ydi-vIAtD~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRT 394 (569)
T KOG0346|consen 317 -GLYDI-VIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRT 394 (569)
T ss_pred -cceeE-EEEccCccchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhcccc
Confidence 34444 55554 1 24799999999999999999999999999999
Q ss_pred hhcCCCCcEEEEEEEeC
Q 000464 1242 WRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1242 ~RiGQkK~V~VYRLIa~ 1258 (1479)
.|-|.+-.+ .-|+..
T Consensus 395 aRg~n~Gta--lSfv~P 409 (569)
T KOG0346|consen 395 ARGNNKGTA--LSFVSP 409 (569)
T ss_pred ccCCCCCce--EEEecc
Confidence 998876544 345544
No 123
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.87 E-value=1.6e-07 Score=125.44 Aligned_cols=111 Identities=16% Similarity=0.138 Sum_probs=85.4
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
...++|||......++.+...|.... .....++.++|+++..+|.++++.+ +..+ +|++|.+++.
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~---------~~~~~VlpLhg~Ls~~eQ~~Vf~~~-----g~rk-IIVATNIAEt 349 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLN---------LRHTEILPLYARLSNSEQNRVFQSH-----SGRR-IVLATNVAET 349 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcC---------CCcceEeecccCCCHHHHHHHhccc-----CCee-EEEeccHHhh
Confidence 35689999999999999999998621 1234467899999999999876642 2333 6899999999
Q ss_pred ccCccccCEEEEEe---------------CCCCc---chHHHHhHhhhhcCCCCcEEEEEEEeCCCH
Q 000464 1213 GINLHSANRVIIVD---------------GSWNP---TYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1261 (1479)
Q Consensus 1213 GLNLt~AnrVIifD---------------p~WNP---a~d~QAIGRa~RiGQkK~V~VYRLIa~gTI 1261 (1479)
||++.+.++||.++ .+-.| +...||.||++|.+ +=..|+|+++...
T Consensus 350 SITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~~---~G~c~rLyte~d~ 413 (1294)
T PRK11131 350 SLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVS---EGICIRLYSEDDF 413 (1294)
T ss_pred ccccCcceEEEECCCccccccccccCcccCCeeecCHhhHhhhccccCCCC---CcEEEEeCCHHHH
Confidence 99999999999874 22223 56789999988883 5678899886543
No 124
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.83 E-value=1.1e-06 Score=113.45 Aligned_cols=116 Identities=13% Similarity=0.139 Sum_probs=93.7
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHH-HHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-KLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq-~lI~~FN~~ 1195 (1479)
..|..++++-+......|..|||-+.++..-..|..+|.. .|+++..++.... +++ .+|.+=-.
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 4789999999999999999999999999999999999986 6888888887644 333 44443222
Q ss_pred CCCCceEEEeeccccccccCcc--------ccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEE
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt--------~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
.+ .+-|+|..+|.|.++. +.=+||.-..+-|...+.|..||++|.|..-...
T Consensus 616 -~g---~VTIATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~ 675 (970)
T PRK12899 616 -LG---AVTVATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAK 675 (970)
T ss_pred -CC---cEEEeeccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCcee
Confidence 23 3589999999998864 3458999999999999999999999999875443
No 125
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.81 E-value=1.4e-07 Score=123.28 Aligned_cols=108 Identities=16% Similarity=0.103 Sum_probs=96.6
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+.-.||||.+..+.+.+...|+. .|+....++.+++..+|+.+-.+|..+ .++ +++.|-|.|-
T Consensus 484 ~~~s~IIYC~sr~~ce~vs~~L~~------------~~~~a~~YHAGl~~~~R~~Vq~~w~~~---~~~-VivATVAFGM 547 (941)
T KOG0351|consen 484 PDQSGIIYCLSRKECEQVSAVLRS------------LGKSAAFYHAGLPPKERETVQKAWMSD---KIR-VIVATVAFGM 547 (941)
T ss_pred CCCCeEEEeCCcchHHHHHHHHHH------------hchhhHhhhcCCCHHHHHHHHHHHhcC---CCe-EEEEEeeccC
Confidence 367889999999999999999997 578889999999999999999999973 465 4777889999
Q ss_pred ccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEE
Q 000464 1213 GINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLM 1256 (1479)
Q Consensus 1213 GLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLI 1256 (1479)
|||-....-||+|..|-+---+-|-+||++|-|+...|..|+=.
T Consensus 548 GIdK~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y~~ 591 (941)
T KOG0351|consen 548 GIDKPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLYGY 591 (941)
T ss_pred CCCCCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEecch
Confidence 99999999999999999999999999999999999887776543
No 126
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.74 E-value=1.9e-07 Score=108.65 Aligned_cols=119 Identities=22% Similarity=0.284 Sum_probs=102.2
Q ss_pred hHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCC
Q 000464 1119 KMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNK 1198 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~ 1198 (1479)
|+..|.++.. .-...+||++...-++.|...|.. .|+....++|.+...+|..+.+.|+.+
T Consensus 252 k~~~l~dl~~----~~~q~~if~nt~r~v~~l~~~L~~------------~~~~~s~~~~d~~q~~R~~~~~ef~~g--- 312 (397)
T KOG0327|consen 252 KLDTLCDLYR----RVTQAVIFCNTRRKVDNLTDKLRA------------HGFTVSAIHGDMEQNERDTLMREFRSG--- 312 (397)
T ss_pred cccHHHHHHH----hhhcceEEecchhhHHHHHHHHhh------------CCceEEEeecccchhhhhHHHHHhhcC---
Confidence 7777777777 235789999999999999999965 689999999999999999999999974
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
..+ +||+|...+.||+++..+-||+||.|-|+.++..++||++|+|-+ -.+..+++..
T Consensus 313 ssr-vlIttdl~argidv~~~slvinydlP~~~~~yihR~gr~gr~grk--g~~in~v~~~ 370 (397)
T KOG0327|consen 313 SSR-VLITTDLLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRK--GVAINFVTEE 370 (397)
T ss_pred Cce-EEeeccccccccchhhcceeeeeccccchhhhhhhcccccccCCC--ceeeeeehHh
Confidence 334 489999999999999999999999999999999999999999964 3344556554
No 127
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.73 E-value=2.3e-07 Score=108.48 Aligned_cols=124 Identities=20% Similarity=0.200 Sum_probs=106.7
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|..+|+.++..... .+..+||......+.++...|.. .|+....+.|++....|..-+..|+...
T Consensus 245 a~K~aaLl~il~~~~~-~~~t~vf~~tk~hve~~~~ll~~------------~g~~~s~iysslD~~aRk~~~~~F~~~k 311 (529)
T KOG0337|consen 245 AEKEAALLSILGGRIK-DKQTIVFVATKHHVEYVRGLLRD------------FGGEGSDIYSSLDQEARKINGRDFRGRK 311 (529)
T ss_pred HHHHHHHHHHHhcccc-ccceeEEecccchHHHHHHHHHh------------cCCCccccccccChHhhhhccccccCCc
Confidence 4688888888887654 56899999999999999999986 6888889999999999999999999743
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
.. +|++|+++..|++.+.-+.||.||.+-.+.....++||+.|-|.+ -..|-||+..
T Consensus 312 ~~----~lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt--g~aYs~V~~~ 368 (529)
T KOG0337|consen 312 TS----ILVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT--GRAYSLVAST 368 (529)
T ss_pred cc----eEEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc--ceEEEEEecc
Confidence 32 699999999999999999999999999999999999999998864 3456666654
No 128
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.73 E-value=9.4e-06 Score=102.72 Aligned_cols=118 Identities=16% Similarity=0.173 Sum_probs=95.3
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
..|+.++++-+..+.+.|..|||.+.++..-..|..+|.+ .|+++..|..... .+-..+|.+=-.
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 4699999999999999999999999999999999999997 6899999988754 233445554322
Q ss_pred CCCceEEEeeccccccccCcc---------------ccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEE
Q 000464 1197 NKRVKCTLISTRAGSLGINLH---------------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt---------------~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
.+ .+-|+|..+|.|.++. +-=+||....+-|--.+.|..||++|.|..-....
T Consensus 475 ~g---aVTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss~f 542 (764)
T PRK12326 475 YG---AVTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSSVF 542 (764)
T ss_pred CC---cEEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCceeE
Confidence 22 3589999999998875 34589999999999999999999999998744433
No 129
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.60 E-value=2e-05 Score=95.10 Aligned_cols=137 Identities=20% Similarity=0.205 Sum_probs=110.1
Q ss_pred hhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCC
Q 000464 1118 GKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLN 1197 (1479)
Q Consensus 1118 ~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n 1197 (1479)
+-+.-|+.-+....+.++|+||-+-...|+.-|.+||.. .|+++.+++.....-+|..+|...+.+
T Consensus 430 ~QvdDL~~EI~~r~~~~eRvLVTtLTKkmAEdLT~Yl~e------------~gikv~YlHSdidTlER~eIirdLR~G-- 495 (663)
T COG0556 430 GQVDDLLSEIRKRVAKNERVLVTTLTKKMAEDLTEYLKE------------LGIKVRYLHSDIDTLERVEIIRDLRLG-- 495 (663)
T ss_pred CcHHHHHHHHHHHHhcCCeEEEEeehHHHHHHHHHHHHh------------cCceEEeeeccchHHHHHHHHHHHhcC--
Confidence 345555566666677899999999999999999999997 699999999999999999999999973
Q ss_pred CCceEEEeeccccccccCccccCEEEEEeCC-----CCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHH
Q 000464 1198 KRVKCTLISTRAGSLGINLHSANRVIIVDGS-----WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVT 1271 (1479)
Q Consensus 1198 ~~v~VfLISTkAGGeGLNLt~AnrVIifDp~-----WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~ 1271 (1479)
.+. +|+.....-+||+|+.+.-|.|+|.+ -+-...+|-|||+-|--..+ |..|-=...++|.+.|-....+
T Consensus 496 -~~D-vLVGINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~Gk-vIlYAD~iT~sM~~Ai~ET~RR 571 (663)
T COG0556 496 -EFD-VLVGINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGK-VILYADKITDSMQKAIDETERR 571 (663)
T ss_pred -Ccc-EEEeehhhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCCe-EEEEchhhhHHHHHHHHHHHHH
Confidence 443 48889999999999999999999986 47788999999999954433 4444434456777777654433
No 130
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.59 E-value=2.4e-05 Score=101.26 Aligned_cols=118 Identities=19% Similarity=0.201 Sum_probs=93.6
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|..++++-+..+...|..|||-+.++..-..|..+|.. .|+++-.|..... .+-..+|.+ .+
T Consensus 431 ~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~------------~gi~h~VLNAk~~-~~EA~IIa~--AG 495 (913)
T PRK13103 431 AEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKK------------EGIEHKVLNAKYH-EKEAEIIAQ--AG 495 (913)
T ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHH------------cCCcHHHhccccc-hhHHHHHHc--CC
Confidence 35799999999999999999999999999999999999997 6777777776544 222344443 22
Q ss_pred CCCCceEEEeeccccccccCcc-------------------------------------ccCEEEEEeCCCCcchHHHHh
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH-------------------------------------SANRVIIVDGSWNPTYDLQAI 1238 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt-------------------------------------~AnrVIifDp~WNPa~d~QAI 1238 (1479)
..+ .+-|+|..+|.|.++. |-=+||.-..+=|--.|.|..
T Consensus 496 ~~G---aVTIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLr 572 (913)
T PRK13103 496 RPG---ALTIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLR 572 (913)
T ss_pred CCC---cEEEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhc
Confidence 223 3588999999998874 345899999999999999999
Q ss_pred HhhhhcCCCCcEE
Q 000464 1239 YRAWRYGQTKPVF 1251 (1479)
Q Consensus 1239 GRa~RiGQkK~V~ 1251 (1479)
||++|.|..-...
T Consensus 573 GRaGRQGDPGsS~ 585 (913)
T PRK13103 573 GRAGRQGDPGSSR 585 (913)
T ss_pred cccccCCCCCceE
Confidence 9999999874433
No 131
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.58 E-value=3.5e-06 Score=108.67 Aligned_cols=151 Identities=15% Similarity=0.193 Sum_probs=90.6
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcc-------cCCCceEEEec-hhhHHHHHHHHHHhCCCCCCCeEEEEecCcc
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN-------LGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVS 823 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~-------~~~k~vLIV~P-~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~ 823 (1479)
..+.+|+.++|.|||-.|+.-+..-+..+. ...-.+.-|+| ..|+..|...|.+|+.. ..+.|....+..
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 457899999999999877654443332221 12235777888 88899999999999864 124454444433
Q ss_pred hhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc---CCcc--hHHHHHHHh
Q 000464 824 RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI---KNTR--ADTTQALKQ 898 (1479)
Q Consensus 824 ~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~I---KN~~--Sk~skalk~ 898 (1479)
...+.. .....|+++|.+-+--+..... ++.+ ..-+.++|+||.|.+ |++. |-..+..++
T Consensus 403 ~l~~~q-----ieeTqVIV~TPEK~DiITRk~g--draY--------~qlvrLlIIDEIHLLhDdRGpvLESIVaRt~r~ 467 (1674)
T KOG0951|consen 403 QLGKEQ-----IEETQVIVTTPEKWDIITRKSG--DRAY--------EQLVRLLIIDEIHLLHDDRGPVLESIVARTFRR 467 (1674)
T ss_pred cchhhh-----hhcceeEEeccchhhhhhcccC--chhH--------HHHHHHHhhhhhhhcccccchHHHHHHHHHHHH
Confidence 222222 1345788888876643321111 1111 112457899999999 4442 344455554
Q ss_pred c----ccceEEEeeCCCCccchhHHHh
Q 000464 899 V----KCQRRIALTGSPLQNNLMEYYC 921 (1479)
Q Consensus 899 L----ka~rRllLTGTPLqNnL~EL~s 921 (1479)
. ...+.++||||- -|.+|.-+
T Consensus 468 ses~~e~~RlVGLSATL--PNy~DV~~ 492 (1674)
T KOG0951|consen 468 SESTEEGSRLVGLSATL--PNYEDVAS 492 (1674)
T ss_pred hhhcccCceeeeecccC--CchhhhHH
Confidence 4 355779999995 24455544
No 132
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.56 E-value=1.4e-07 Score=108.63 Aligned_cols=130 Identities=24% Similarity=0.311 Sum_probs=109.4
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
-+|+..|++.|+. ..-+||||+.-..-.|-|.+||-- +|+..+.|+|+-.+++|...|..|+.+.
T Consensus 407 EaKiVylLeCLQK---T~PpVLIFaEkK~DVD~IhEYLLl------------KGVEavaIHGGKDQedR~~ai~afr~gk 471 (610)
T KOG0341|consen 407 EAKIVYLLECLQK---TSPPVLIFAEKKADVDDIHEYLLL------------KGVEAVAIHGGKDQEDRHYAIEAFRAGK 471 (610)
T ss_pred hhhhhhHHHHhcc---CCCceEEEeccccChHHHHHHHHH------------ccceeEEeecCcchhHHHHHHHHHhcCC
Confidence 4799998888874 457999999999999999999974 7999999999999999999999999743
Q ss_pred CCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHH
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYK 1267 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~ 1267 (1479)
. -+|+.|++++-||++++..|||+||.+-.--++..+|||.+|-|.+- ....||-+++-|--+.+
T Consensus 472 K----DVLVATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~G--iATTfINK~~~esvLlD 536 (610)
T KOG0341|consen 472 K----DVLVATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTG--IATTFINKNQEESVLLD 536 (610)
T ss_pred C----ceEEEecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcc--eeeeeecccchHHHHHH
Confidence 2 25999999999999999999999999999999999999999998763 23345666665554443
No 133
>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=98.54 E-value=1.9e-05 Score=105.19 Aligned_cols=93 Identities=20% Similarity=0.260 Sum_probs=61.8
Q ss_pred HHHHHHHHhh-cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCc
Q 000464 1122 LLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRV 1200 (1479)
Q Consensus 1122 ~L~eIL~~~~-~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v 1200 (1479)
.+.+.|..+. ..+.++|||..+..+++.+...|..... ..++..+. .| .. ..|.+++++|+...+
T Consensus 661 ~ia~~i~~l~~~~~g~~LVlftS~~~l~~v~~~L~~~~~--------~~~~~~l~-q~-~~-~~r~~ll~~F~~~~~--- 726 (850)
T TIGR01407 661 EIASYIIEITAITSPKILVLFTSYEMLHMVYDMLNELPE--------FEGYEVLA-QG-IN-GSRAKIKKRFNNGEK--- 726 (850)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHhhhcc--------ccCceEEe-cC-CC-ccHHHHHHHHHhCCC---
Confidence 3344443332 3456899999999999999999874110 12333222 22 22 478999999997432
Q ss_pred eEEEeeccccccccCcccc--CEEEEEeCCC
Q 000464 1201 KCTLISTRAGSLGINLHSA--NRVIIVDGSW 1229 (1479)
Q Consensus 1201 ~VfLISTkAGGeGLNLt~A--nrVIifDp~W 1229 (1479)
-+|++|....+||++.+- ..|||.-.|+
T Consensus 727 -~iLlgt~sf~EGVD~~g~~l~~viI~~LPf 756 (850)
T TIGR01407 727 -AILLGTSSFWEGVDFPGNGLVCLVIPRLPF 756 (850)
T ss_pred -eEEEEcceeecccccCCCceEEEEEeCCCC
Confidence 257788999999999975 4667777665
No 134
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.45 E-value=1.5e-05 Score=102.14 Aligned_cols=119 Identities=13% Similarity=0.089 Sum_probs=95.3
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEP 1195 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~ 1195 (1479)
...|+.++++-+..+...|..|||.+.++..-..|..+|.. .|+++..++.... +|+..|=. +.+
T Consensus 408 ~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~------------~gi~h~vLNAk~~--e~EA~IIa-~AG 472 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLE------------ANIPHTVLNAKQN--AREAEIIA-KAG 472 (925)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHH------------CCCCceeecccch--hhHHHHHH-hCC
Confidence 35799999999999888999999999999999999999997 6888888888644 44433322 332
Q ss_pred CCCCceEEEeeccccccccCccccC--------EEEEEeCCCCcchHHHHhHhhhhcCCCCcEEE
Q 000464 1196 LNKRVKCTLISTRAGSLGINLHSAN--------RVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFA 1252 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt~An--------rVIifDp~WNPa~d~QAIGRa~RiGQkK~V~V 1252 (1479)
...-+.|+|..+|.|.++.-.. +||....+=|-..+.|..||++|.|..-....
T Consensus 473 ---~~GaVTIATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~f 534 (925)
T PRK12903 473 ---QKGAITIATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESRF 534 (925)
T ss_pred ---CCCeEEEecccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcceE
Confidence 2223689999999999976333 99999999999999999999999998744433
No 135
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.45 E-value=2e-05 Score=92.50 Aligned_cols=102 Identities=18% Similarity=0.166 Sum_probs=91.0
Q ss_pred EEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCc
Q 000464 1137 SLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINL 1216 (1479)
Q Consensus 1137 VLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNL 1216 (1479)
-||||..+.....+.-.|.. .||....++.+....+|...-+.|.+. .+. +++.|-..|.|++=
T Consensus 258 GIVYCRTR~~cEq~AI~l~~------------~Gi~A~AYHAGLK~~ERTeVQe~WM~~---~~P-vI~AT~SFGMGVDK 321 (641)
T KOG0352|consen 258 GIVYCRTRNECEQVAIMLEI------------AGIPAMAYHAGLKKKERTEVQEKWMNN---EIP-VIAATVSFGMGVDK 321 (641)
T ss_pred eEEEeccHHHHHHHHHHhhh------------cCcchHHHhcccccchhHHHHHHHhcC---CCC-EEEEEeccccccCC
Confidence 58999999998888888875 789999999999999999999999863 344 47788899999999
Q ss_pred cccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEE
Q 000464 1217 HSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYR 1254 (1479)
Q Consensus 1217 t~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYR 1254 (1479)
+...-||+++++-|-+-+-|--||++|-|-..-|..|+
T Consensus 322 p~VRFViHW~~~qn~AgYYQESGRAGRDGk~SyCRLYY 359 (641)
T KOG0352|consen 322 PDVRFVIHWSPSQNLAGYYQESGRAGRDGKRSYCRLYY 359 (641)
T ss_pred cceeEEEecCchhhhHHHHHhccccccCCCccceeeee
Confidence 99999999999999999999999999999888888775
No 136
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.41 E-value=1.7e-05 Score=98.25 Aligned_cols=269 Identities=20% Similarity=0.276 Sum_probs=152.3
Q ss_pred cccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe-c
Q 000464 714 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT-P 792 (1479)
Q Consensus 714 v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~-P 792 (1479)
+.+|..-...|-.-|+++|-|.....- ++.......|.+|.|.-|.||-.++..+|...+.. +.|+.|.+. .
T Consensus 255 lalP~i~sg~lSALQLEav~YAcQ~He----~llPsG~RaGfLiGDGAGVGKGRTvAgiIfeNyLk---GRKrAlW~SVS 327 (1300)
T KOG1513|consen 255 LALPSIDSGHLSALQLEAVTYACQAHE----VLLPSGQRAGFLIGDGAGVGKGRTVAGIIFENYLK---GRKRALWFSVS 327 (1300)
T ss_pred EecccCcccchhHHHHHHHHHHHhhhh----hcCCCCccceeeeccCcccCCCceeEEEEehhhhc---ccceeEEEEec
Confidence 456765567889999999998765432 22233456789999999999987776666554433 345666654 4
Q ss_pred hhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcC
Q 000464 793 VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD 872 (1479)
Q Consensus 793 ~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~ 872 (1479)
.-|...-.+.+...-.. .+.|+.++..+-.+... -..-..+.||++.||+.+---+.++.-+.+...+.+..++..
T Consensus 328 sDLKfDAERDL~DigA~---~I~V~alnK~KYakIss-~en~n~krGViFaTYtaLIGEs~~~~~kyrtR~rQllqW~Ge 403 (1300)
T KOG1513|consen 328 SDLKFDAERDLRDIGAT---GIAVHALNKFKYAKISS-KENTNTKRGVIFATYTALIGESQGKGGKYRTRFRQLLQWCGE 403 (1300)
T ss_pred cccccchhhchhhcCCC---Cccceehhhcccccccc-cccCCccceeEEEeeHhhhhhccccCchHHHHHHHHHHHhhh
Confidence 55655666666554322 24555443321100000 000123458999999988654544444555555666666666
Q ss_pred CC-CEEEEcCCcccCC-------cchHHHHHHHh----cccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHh-
Q 000464 873 GP-DILVCDEAHMIKN-------TRADTTQALKQ----VKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRN- 939 (1479)
Q Consensus 873 ~~-dlVIlDEAH~IKN-------~~Sk~skalk~----Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~- 939 (1479)
.| ++||+||||+.|| ..+++-+++.. |...+++-.|||-- .|=.+|.-+++-++||....|.+
T Consensus 404 ~feGvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~LP~ARVVYASATGA----sEPrNMaYM~RLGlWGegtaf~eF 479 (1300)
T KOG1513|consen 404 DFEGVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKKLPNARVVYASATGA----SEPRNMAYMVRLGLWGEGTAFPEF 479 (1300)
T ss_pred ccceeEEehhhhhhcccccccCCCcCcccHhHHHHHHhCCCceEEEeeccCC----CCcchhhhhhhhccccCCCcCccH
Confidence 66 4688999999999 23455555543 46667788888853 34456666777777765433322
Q ss_pred -hhcCCcccCCCCCCChHHHHHHHHHHHHHHHHHhHH-hhhhhhhhHhhcCCCCeEEEEEecCCHHHHHHHHHHHH
Q 000464 940 -RFQNPIENGQHTNSTSEDVKIMNQRSHILYEQLKGF-VQRMDMNVVKKDLPPKTVFVITVKLSPLQRRLYKRFLD 1013 (1479)
Q Consensus 940 -~F~~PI~~g~~~dst~~dv~~~~~r~~~L~~~L~~f-vlRr~k~dv~~~LPpK~e~vv~v~LS~~Qr~LY~~~l~ 1013 (1479)
.|...++.... .+.....-.|+ +++. +.|. . .+-.-...+-.|+|+++-+++|+.-..
T Consensus 480 ~eFi~AvEkRGv-GAMEIVAMDMK---------~rGmYiARQ-L-----SFkgVsFrieEv~ls~eF~k~Yn~a~~ 539 (1300)
T KOG1513|consen 480 EEFIHAVEKRGV-GAMEIVAMDMK---------LRGMYIARQ-L-----SFKGVSFRIEEVPLSKEFRKVYNRAAE 539 (1300)
T ss_pred HHHHHHHHhcCC-ceeeeeehhhh---------hhhhhhhhh-c-----cccCceEEEEecccCHHHHHHHHHHHH
Confidence 12222222111 11111001111 2222 2211 1 233344567788999999999986544
No 137
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.40 E-value=5.1e-06 Score=108.24 Aligned_cols=60 Identities=23% Similarity=0.331 Sum_probs=43.5
Q ss_pred CEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHHH-HHHHhcc
Q 000464 1220 NRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEGL-AARVVDR 1282 (1479)
Q Consensus 1220 nrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~L-a~rVVd~ 1282 (1479)
+.||+|||.-.....+|. .|++|-|. ++.||-|++.||.||.-|-....|..- +..++..
T Consensus 478 ~~VImYEP~~sfIR~IEv-yra~r~~r--~~rVyfL~y~~S~EEq~yl~sirrEK~AFe~LIre 538 (814)
T TIGR00596 478 RYVIMYEPDISFIRQLEV-YKASRPLR--PLRVYFLYYGGSIEEQRYLTSLRREKDAFTKLIRE 538 (814)
T ss_pred CEEEEECCChHHHHHHHH-HHccCCCC--CcEEEEEEECCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999996666666652 34445443 589999999999999998887777654 4445544
No 138
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.39 E-value=2.6e-06 Score=113.53 Aligned_cols=172 Identities=21% Similarity=0.216 Sum_probs=103.9
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~ 801 (1479)
..|++|+....+.....+..+........+.||++.|..|.|||++++-+...+... ....+++||+= .-|-.|-.+
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 345555554444444333333333333567899999999999999998877777665 33457777776 556669999
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 881 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDE 881 (1479)
+|..+..... ... ...+...-...+.. ..++|+|||.+-|....... ....+....-+||+||
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 9999875421 111 11222222222221 25699999999887543221 0111233556799999
Q ss_pred CcccCCcchHHHHHHHh-cccceEEEeeCCCCccc
Q 000464 882 AHMIKNTRADTTQALKQ-VKCQRRIALTGSPLQNN 915 (1479)
Q Consensus 882 AH~IKN~~Sk~skalk~-Lka~rRllLTGTPLqNn 915 (1479)
||+--.. ...+.++. ++.-.-++.||||+.-.
T Consensus 385 aHRSQ~G--~~~~~~~~~~~~a~~~gFTGTPi~~~ 417 (962)
T COG0610 385 AHRSQYG--ELAKLLKKALKKAIFIGFTGTPIFKE 417 (962)
T ss_pred hhhcccc--HHHHHHHHHhccceEEEeeCCccccc
Confidence 9976432 33333333 35577899999998644
No 139
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.18 E-value=0.00012 Score=84.58 Aligned_cols=107 Identities=15% Similarity=0.109 Sum_probs=87.0
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
|..-||||-+..--..+...|+. .||....++..+.+.+|..+-..|-. +.+.| ++.|-|.|.|
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 66778988888888888888886 57887788888887777776666664 56665 6677899999
Q ss_pred cCccccCEEEEEeCCCCcchHHH-------------------------------------------HhHhhhhcCCCCcE
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQ-------------------------------------------AIYRAWRYGQTKPV 1250 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~Q-------------------------------------------AIGRa~RiGQkK~V 1250 (1479)
|+-+....||+-..+-+-.++-| --||++|-||+-.|
T Consensus 381 idkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~c 460 (695)
T KOG0353|consen 381 IDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADC 460 (695)
T ss_pred CCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccE
Confidence 99999999999999998888888 45888999999888
Q ss_pred EEEEEE
Q 000464 1251 FAYRLM 1256 (1479)
Q Consensus 1251 ~VYRLI 1256 (1479)
..|+=.
T Consensus 461 ilyy~~ 466 (695)
T KOG0353|consen 461 ILYYGF 466 (695)
T ss_pred EEEech
Confidence 777643
No 140
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.16 E-value=0.00053 Score=89.86 Aligned_cols=72 Identities=21% Similarity=0.293 Sum_probs=53.1
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~ 801 (1479)
.+||.|++-+..+++.+ ..+..++|-.++|+|||+.+|+.......... ...+++..+. .+-+.|-.+
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 46999999988887765 35678999999999999998877766544322 1235555555 445778999
Q ss_pred HHHH
Q 000464 802 EFMK 805 (1479)
Q Consensus 802 E~~k 805 (1479)
|+++
T Consensus 79 Elk~ 82 (705)
T TIGR00604 79 ELRK 82 (705)
T ss_pred HHHh
Confidence 9988
No 141
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.10 E-value=3.7e-05 Score=100.63 Aligned_cols=185 Identities=18% Similarity=0.266 Sum_probs=113.2
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-HHHHH---------HHHhCCCCCCCeEEEEecCc
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQE---------FMKWRPSELKPLRVFMLEDV 822 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-qW~~E---------~~kw~P~~~~~l~V~~l~g~ 822 (1479)
.+..+..++|.|||.+++..|..+.... +...+|||||..-+. -..+- |...++. .++.+++++..
T Consensus 60 ~n~~~~M~TGtGKT~~~~~~i~~l~~~~--~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~--~~~~~~~~~S~ 135 (986)
T PRK15483 60 ANIDIKMETGTGKTYVYTRLMYELHQKY--GLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYEN--TRIELYVINAG 135 (986)
T ss_pred ceEEEEeCCCCCHHHHHHHHHHHHHHHc--CCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCC--ceeEEEEEecC
Confidence 5788999999999999999998887653 457999999964433 23222 2222322 24677777654
Q ss_pred c--hhHH---HHHHHHHhhc-------CCEEEEeccccccccccccccchhh---HHHHHhhhcCCCCEEEEcCCcccCC
Q 000464 823 S--RDRR---AELLAKWRAK-------GGVFLIGYTAFRNLSFGKHVKDRNM---AREICHALQDGPDILVCDEAHMIKN 887 (1479)
Q Consensus 823 ~--~~~r---~~~l~~w~~~-------~~VvItsYe~fr~l~~~k~~kd~~~---~~~l~~lL~~~~dlVIlDEAH~IKN 887 (1479)
. +..| ...+..+... -.|+||+.++|..-.......+..+ .......+...--+||+||+|++..
T Consensus 136 k~~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh~~~~ 215 (986)
T PRK15483 136 DKKKSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPHRFPR 215 (986)
T ss_pred cccccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCCCCCc
Confidence 3 1111 1223334332 3688999999864211011101100 0011223344556899999999965
Q ss_pred cchHHHHHHHhcccceEEEeeCCCCc-------cc--hhHHHhhhhhhccCCCCChHHHHhhhcCCccc
Q 000464 888 TRADTTQALKQVKCQRRIALTGSPLQ-------NN--LMEYYCMVDFVREGFLGSSHEFRNRFQNPIEN 947 (1479)
Q Consensus 888 ~~Sk~skalk~Lka~rRllLTGTPLq-------Nn--L~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~~ 947 (1479)
..+...++..++....+.-|||--. |. -.++|+|+- .|+..+.|.+..++-|.-
T Consensus 216 -~~k~~~~i~~lnpl~~lrysAT~~~~~~~~g~~~~~~~d~~NlvY-----~LdavdAyn~~LVK~I~V 278 (986)
T PRK15483 216 -DNKFYQAIEALKPQMIIRFGATFPDITEGKGKNKCTRKDYYNLQF-----DLNAVDSFNDGLVKGVDI 278 (986)
T ss_pred -chHHHHHHHhcCcccEEEEeeecCCccccccccccccccccCcee-----ecCHHHHHHhCCcceEEE
Confidence 2456788999999999999999743 11 223666554 345577888888776654
No 142
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.06 E-value=0.00017 Score=94.77 Aligned_cols=162 Identities=14% Similarity=0.168 Sum_probs=108.2
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHN 798 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~q 798 (1479)
....|-|+|++++.-+ ..+.+.+++..+|.|||+.+-.+++..+..+. +++-..| +.|..|
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 4577999999999766 45789999999999999999888887776543 5889999 666677
Q ss_pred HHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 799 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 799 W~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
=..+|..-+... .-.|.++.|.- .......++++|-+.+|++.+... ........||
T Consensus 178 Kyrdl~~~fgdv--~~~vGL~TGDv---------~IN~~A~clvMTTEILRnMlyrg~------------~~~~~i~~Vi 234 (1041)
T COG4581 178 KYRDLLAKFGDV--ADMVGLMTGDV---------SINPDAPCLVMTTEILRNMLYRGS------------ESLRDIEWVV 234 (1041)
T ss_pred HHHHHHHHhhhh--hhhccceecce---------eeCCCCceEEeeHHHHHHHhccCc------------ccccccceEE
Confidence 667765544321 00112222211 112456788888899998654331 1122567899
Q ss_pred EcCCcccCCcc-hHHHH-HHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhc
Q 000464 879 CDEAHMIKNTR-ADTTQ-ALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQ 942 (1479)
Q Consensus 879 lDEAH~IKN~~-Sk~sk-alk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~ 942 (1479)
+||.|.|.... .-.+. .+..+ +.-+-++||||- ++..+|..|+.
T Consensus 235 FDEvHyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv--------------------~N~~EF~~Wi~ 281 (1041)
T COG4581 235 FDEVHYIGDRERGVVWEEVIILLPDHVRFVFLSATV--------------------PNAEEFAEWIQ 281 (1041)
T ss_pred EEeeeeccccccchhHHHHHHhcCCCCcEEEEeCCC--------------------CCHHHHHHHHH
Confidence 99999997543 22333 33344 444889999994 45667777775
No 143
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.04 E-value=0.00068 Score=87.42 Aligned_cols=110 Identities=24% Similarity=0.270 Sum_probs=79.8
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHH--HHHHHHHHhCCCCCCceEEEeeccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSE--RQKLVERFNEPLNKRVKCTLISTRAGS 1211 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~e--Rq~lI~~FN~~~n~~v~VfLISTkAGG 1211 (1479)
|...|++.- .-...|++.|..++ .+.+++|+|+.++... =..+++.|.++ ... +||.|....
T Consensus 482 gs~~L~~~G--~GterieeeL~~~F----------P~~rv~r~d~Dtt~~k~~~~~~l~~~~~g---e~d-ILiGTQmia 545 (730)
T COG1198 482 GSEHLRAVG--PGTERIEEELKRLF----------PGARIIRIDSDTTRRKGALEDLLDQFANG---EAD-ILIGTQMIA 545 (730)
T ss_pred CCCeeEEec--ccHHHHHHHHHHHC----------CCCcEEEEccccccchhhHHHHHHHHhCC---CCC-eeecchhhh
Confidence 444555443 23466777777643 5789999999987543 45789999974 332 699999999
Q ss_pred cccCccccCEEEEEeCCC---Cc---------chHHHHhHhhhhcCCCCcEEEEEEEeCC
Q 000464 1212 LGINLHSANRVIIVDGSW---NP---------TYDLQAIYRAWRYGQTKPVFAYRLMAHG 1259 (1479)
Q Consensus 1212 eGLNLt~AnrVIifDp~W---NP---------a~d~QAIGRa~RiGQkK~V~VYRLIa~g 1259 (1479)
-|.|++...-|.++|.+= +| ....|.-||++|-+-.-.|.|-.+-...
T Consensus 546 KG~~fp~vtLVgvl~aD~~L~~~DfRA~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~h 605 (730)
T COG1198 546 KGHDFPNVTLVGVLDADTGLGSPDFRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDH 605 (730)
T ss_pred cCCCcccceEEEEEechhhhcCCCcchHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCc
Confidence 999999999998888752 33 3557999999998776667665555544
No 144
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.04 E-value=1.3e-06 Score=106.82 Aligned_cols=49 Identities=22% Similarity=0.671 Sum_probs=44.4
Q ss_pred ccccccCCCCce---eecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 535 CYCVWCGRSSDL---VSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 535 ~~C~~C~~gg~L---~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
.||.-|+..|.. +|||+||++||+.||++++.+. ..+.|.|+|..|..+
T Consensus 254 ~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~e----niP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 254 DFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPE----NIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHhCCccccccceeecCCchHHHHhhcCCCCCcc----cCCCCccccCCCeee
Confidence 499999999988 9999999999999999998877 556889999999766
No 145
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.98 E-value=0.0061 Score=79.18 Aligned_cols=115 Identities=12% Similarity=0.172 Sum_probs=74.6
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-hHHHHHHHHHHhCCCCC-CCeEEEEecCc-chhHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN-VLHNWKQEFMKWRPSEL-KPLRVFMLEDV-SRDRRA 828 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s-Ll~qW~~E~~kw~P~~~-~~l~V~~l~g~-~~~~r~ 828 (1479)
|...-+-.++|+|||.-.+.+...+... .++++||+|+. |+.|-.+-+.++..... ....+. ||+. +...+.
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 4556666799999996554444333222 27999999955 57799999999986533 223333 6665 344455
Q ss_pred HHHHHHhh-cCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCccc
Q 000464 829 ELLAKWRA-KGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMI 885 (1479)
Q Consensus 829 ~~l~~w~~-~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~I 885 (1479)
..+.+..+ .++|+|+|-.-+. ..+..+....||+|++|-...+
T Consensus 172 e~le~i~~gdfdIlitTs~FL~--------------k~~e~L~~~kFdfifVDDVDA~ 215 (1187)
T COG1110 172 EALERIESGDFDILITTSQFLS--------------KRFEELSKLKFDFIFVDDVDAI 215 (1187)
T ss_pred HHHHHHhcCCccEEEEeHHHHH--------------hhHHHhcccCCCEEEEccHHHH
Confidence 55555543 5688888865432 2333444558999999998765
No 146
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.95 E-value=0.0032 Score=81.94 Aligned_cols=83 Identities=16% Similarity=0.176 Sum_probs=64.8
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCC-HHHHHHHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTE-SSERQKLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts-~~eRq~lI~~FN~~ 1195 (1479)
..|..++++-+......|..|||-+.++..-+.|..+|.. .|+++..+..... ...=..+|.+=-.
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 4688888888888889999999999999999999999997 6899988988743 2333446655221
Q ss_pred CCCCceEEEeeccccccccCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINL 1216 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNL 1216 (1479)
-+ -+-|+|..+|.|.++
T Consensus 474 -~G---~VTIATNMAGRGTDI 490 (870)
T CHL00122 474 -KG---SITIATNMAGRGTDI 490 (870)
T ss_pred -CC---cEEEeccccCCCcCe
Confidence 22 358899999999764
No 147
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=97.91 E-value=0.00064 Score=86.82 Aligned_cols=145 Identities=14% Similarity=0.229 Sum_probs=94.0
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-HHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-qW~ 800 (1479)
-.|-++|+++|-.| ..|...+.|..+-.|||+.|=+.|+....+ ..+++--.|.-.+. |=.
T Consensus 296 FelD~FQk~Ai~~l--------------erg~SVFVAAHTSAGKTvVAEYAialaq~h----~TR~iYTSPIKALSNQKf 357 (1248)
T KOG0947|consen 296 FELDTFQKEAIYHL--------------ERGDSVFVAAHTSAGKTVVAEYAIALAQKH----MTRTIYTSPIKALSNQKF 357 (1248)
T ss_pred CCccHHHHHHHHHH--------------HcCCeEEEEecCCCCcchHHHHHHHHHHhh----ccceEecchhhhhccchH
Confidence 45778999999766 357889999999999999986555544333 34788888955555 566
Q ss_pred HHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 801 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
++|..-+.. .. .+.|.. ........+|||.+.+|++.+... .+. ...+.||+|
T Consensus 358 RDFk~tF~D----vg--LlTGDv---------qinPeAsCLIMTTEILRsMLYrga----dli--------RDvE~VIFD 410 (1248)
T KOG0947|consen 358 RDFKETFGD----VG--LLTGDV---------QINPEASCLIMTTEILRSMLYRGA----DLI--------RDVEFVIFD 410 (1248)
T ss_pred HHHHHhccc----cc--eeecce---------eeCCCcceEeehHHHHHHHHhccc----chh--------hccceEEEe
Confidence 777765543 22 222221 123566889999999998654321 111 146789999
Q ss_pred CCcccCCcc-hHHHHHH-Hhc-ccceEEEeeCCC
Q 000464 881 EAHMIKNTR-ADTTQAL-KQV-KCQRRIALTGSP 911 (1479)
Q Consensus 881 EAH~IKN~~-Sk~skal-k~L-ka~rRllLTGTP 911 (1479)
|.|.|.+.. .-.+.-+ ..+ +--.-|+||||-
T Consensus 411 EVHYiND~eRGvVWEEViIMlP~HV~~IlLSATV 444 (1248)
T KOG0947|consen 411 EVHYINDVERGVVWEEVIIMLPRHVNFILLSATV 444 (1248)
T ss_pred eeeecccccccccceeeeeeccccceEEEEeccC
Confidence 999996532 1222222 222 334569999995
No 148
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.91 E-value=0.0022 Score=84.14 Aligned_cols=114 Identities=18% Similarity=0.189 Sum_probs=93.0
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHH-HHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQ-KLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq-~lI~~FN~~ 1195 (1479)
..|..++++-+..+...|..|||-+.++..-.+|.++|.. .|+++-.|+.... +++ .+|.+=-.
T Consensus 611 ~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~SE~lS~~L~~------------~gI~H~VLNAK~h--~~EAeIVA~AG~- 675 (1112)
T PRK12901 611 REKYNAVIEEITELSEAGRPVLVGTTSVEISELLSRMLKM------------RKIPHNVLNAKLH--QKEAEIVAEAGQ- 675 (1112)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEeCcHHHHHHHHHHHHH------------cCCcHHHhhccch--hhHHHHHHhcCC-
Confidence 4699999999999999999999999999999999999997 6788777776644 333 34443222
Q ss_pred CCCCceEEEeeccccccccCcc--------ccCEEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINLH--------SANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNLt--------~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
.+. +-|+|..+|.|.++. +.=+||.-..+=+...+.|..||++|.|..-.
T Consensus 676 -~Ga---VTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGs 733 (1112)
T PRK12901 676 -PGT---VTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGS 733 (1112)
T ss_pred -CCc---EEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCc
Confidence 232 588999999998875 56789999999999999999999999998744
No 149
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.90 E-value=0.00017 Score=80.08 Aligned_cols=44 Identities=25% Similarity=0.295 Sum_probs=42.2
Q ss_pred EeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1204 LISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1204 LISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
|++|.+.|.|+++...|.||+||.+-.+..+..+++|++|+|.+
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtk 345 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTK 345 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhccccc
Confidence 77889999999999999999999999999999999999999976
No 150
>PF13871 Helicase_C_4: Helicase_C-like
Probab=97.84 E-value=4.3e-05 Score=88.13 Aligned_cols=93 Identities=22% Similarity=0.246 Sum_probs=71.9
Q ss_pred HHHHHHhCCCCCCceEEEeeccccccccCccc-------cCEE-EEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1187 KLVERFNEPLNKRVKCTLISTRAGSLGINLHS-------ANRV-IIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1187 ~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~-------AnrV-IifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
...++|++ +...|+++| .|||.||.|++ --|| |+++++|+....+|.+||+||-||..+..+..+++.
T Consensus 52 ~e~~~F~~---g~k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~ 127 (278)
T PF13871_consen 52 AEKQAFMD---GEKDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTD 127 (278)
T ss_pred HHHHHHhC---CCceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecC
Confidence 46678996 455667775 89999999995 2345 689999999999999999999999977433334455
Q ss_pred CCHHHHHHHHHHHHHHHHHHHhccc
Q 000464 1259 GTMEEKIYKRQVTKEGLAARVVDRQ 1283 (1479)
Q Consensus 1259 gTIEEkI~~rq~~K~~La~rVVd~~ 1283 (1479)
-..|.+.......|..-..+...++
T Consensus 128 ~~gE~Rfas~va~rL~sLgAlt~gd 152 (278)
T PF13871_consen 128 LPGERRFASTVARRLESLGALTRGD 152 (278)
T ss_pred CHHHHHHHHHHHHHHhhccccccCc
Confidence 5678899888888877776666554
No 151
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.81 E-value=5.2e-05 Score=88.92 Aligned_cols=98 Identities=24% Similarity=0.254 Sum_probs=85.9
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
-+|.||||....-.|-|++++..-. ..-+..+-++|...+.+|.+-++.|.. ..++ |||.|.+++.|
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 4799999999999999999999721 134677889999999999999999996 4565 89999999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhc
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRY 1244 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~Ri 1244 (1479)
|++++...+|.+..+-...++..+|||++|.
T Consensus 572 ldi~g~p~~invtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 572 LDITGLPFMINVTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred ccccCCceEEEEecCcccchhhhhhhccchh
Confidence 9999999999999999999999988887763
No 152
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=97.79 E-value=0.0028 Score=84.25 Aligned_cols=91 Identities=14% Similarity=0.120 Sum_probs=62.0
Q ss_pred HHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCce
Q 000464 1122 LLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVK 1201 (1479)
Q Consensus 1122 ~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~ 1201 (1479)
.+.+.|..+...+.++|||-.+..++..+...|... .+. ....|... .|.+++++|+..++.
T Consensus 635 ~~~~~i~~~~~~~g~~LVLFtS~~~l~~v~~~l~~~------------~~~-~l~Qg~~~--~~~~l~~~F~~~~~~--- 696 (820)
T PRK07246 635 EIAKRLEELKQLQQPILVLFNSKKHLLAVSDLLDQW------------QVS-HLAQEKNG--TAYNIKKRFDRGEQQ--- 696 (820)
T ss_pred HHHHHHHHHHhcCCCEEEEECcHHHHHHHHHHHhhc------------CCc-EEEeCCCc--cHHHHHHHHHcCCCe---
Confidence 444555444455778999888899999888888641 222 34445433 367799999974332
Q ss_pred EEEeeccccccccCccc--cCEEEEEeCCC-Cc
Q 000464 1202 CTLISTRAGSLGINLHS--ANRVIIVDGSW-NP 1231 (1479)
Q Consensus 1202 VfLISTkAGGeGLNLt~--AnrVIifDp~W-NP 1231 (1479)
+|+.|....+|+++++ +..|||.-.|+ +|
T Consensus 697 -vLlG~~sFwEGVD~p~~~~~~viI~kLPF~~P 728 (820)
T PRK07246 697 -ILLGLGSFWEGVDFVQADRMIEVITRLPFDNP 728 (820)
T ss_pred -EEEecchhhCCCCCCCCCeEEEEEecCCCCCC
Confidence 5788899999999973 56667777554 45
No 153
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.78 E-value=0.001 Score=86.24 Aligned_cols=83 Identities=16% Similarity=0.210 Sum_probs=62.5
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCC-CCHHHHHHHHHHHhCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGR-TESSERQKLVERFNEP 1195 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGs-ts~~eRq~lI~~FN~~ 1195 (1479)
..|..++++-+..+.+.|..|||-+.++..-..|..+|.. .|+++-.++.. ...+.-..+|.+=-.
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 4799999999998889999999999999999999999997 67888788776 232333445554221
Q ss_pred CCCCceEEEeeccccccccCc
Q 000464 1196 LNKRVKCTLISTRAGSLGINL 1216 (1479)
Q Consensus 1196 ~n~~v~VfLISTkAGGeGLNL 1216 (1479)
-+ -+-|+|..+|.|.++
T Consensus 489 -~G---aVTIATNMAGRGTDI 505 (939)
T PRK12902 489 -KG---AVTIATNMAGRGTDI 505 (939)
T ss_pred -CC---cEEEeccCCCCCcCE
Confidence 22 247788888888654
No 154
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.72 E-value=0.00027 Score=88.00 Aligned_cols=146 Identities=12% Similarity=0.219 Sum_probs=92.7
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW 799 (1479)
.-.|-|+|..+|.-+ +.+...+...-+-.|||+.|=..|+..++.. .+++.-.| +.|-.|=
T Consensus 127 PF~LDpFQ~~aI~Ci--------------dr~eSVLVSAHTSAGKTVVAeYAIA~sLr~k----QRVIYTSPIKALSNQK 188 (1041)
T KOG0948|consen 127 PFTLDPFQSTAIKCI--------------DRGESVLVSAHTSAGKTVVAEYAIAMSLREK----QRVIYTSPIKALSNQK 188 (1041)
T ss_pred CcccCchHhhhhhhh--------------cCCceEEEEeecCCCcchHHHHHHHHHHHhc----CeEEeeChhhhhcchh
Confidence 356788999888654 4567889999999999999877676666653 37888889 4555566
Q ss_pred HHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEE
Q 000464 800 KQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVC 879 (1479)
Q Consensus 800 ~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIl 879 (1479)
.+|+..=+.+ +-. ..|.-. .......+|||.+.+|++.+.. ....+ ...+||+
T Consensus 189 YREl~~EF~D----VGL--MTGDVT---------InP~ASCLVMTTEILRsMLYRG----SEvmr--------EVaWVIF 241 (1041)
T KOG0948|consen 189 YRELLEEFKD----VGL--MTGDVT---------INPDASCLVMTTEILRSMLYRG----SEVMR--------EVAWVIF 241 (1041)
T ss_pred HHHHHHHhcc----cce--eeccee---------eCCCCceeeeHHHHHHHHHhcc----chHhh--------eeeeEEe
Confidence 7777654432 111 111100 1234567899999998764432 12222 4567999
Q ss_pred cCCcccCCcchHH-H-HHHHhc-ccceEEEeeCCC
Q 000464 880 DEAHMIKNTRADT-T-QALKQV-KCQRRIALTGSP 911 (1479)
Q Consensus 880 DEAH~IKN~~Sk~-s-kalk~L-ka~rRllLTGTP 911 (1479)
||.|.+|...-.. + ..+-.+ +.-+-+.||||-
T Consensus 242 DEIHYMRDkERGVVWEETIIllP~~vr~VFLSATi 276 (1041)
T KOG0948|consen 242 DEIHYMRDKERGVVWEETIILLPDNVRFVFLSATI 276 (1041)
T ss_pred eeehhccccccceeeeeeEEeccccceEEEEeccC
Confidence 9999998643211 1 112222 455668999994
No 155
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.67 E-value=0.008 Score=77.96 Aligned_cols=112 Identities=21% Similarity=0.201 Sum_probs=88.9
Q ss_pred ChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1117 SGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1117 S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
-.|+.++++-+..+...|..|||-+.+...-..+...|.+ .|++...|+-.-. .|+.-|-.+.-
T Consensus 412 ~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE~ls~~L~~------------~~i~h~VLNAk~h--~~EA~Iia~AG-- 475 (822)
T COG0653 412 EEKFKAIVEDIKERHEKGQPVLVGTVSIEKSELLSKLLRK------------AGIPHNVLNAKNH--AREAEIIAQAG-- 475 (822)
T ss_pred HHHHHHHHHHHHHHHhcCCCEEEcCcceecchhHHHHHHh------------cCCCceeeccccH--HHHHHHHhhcC--
Confidence 4699999999999999999999999999999999999996 6888888877766 55555544432
Q ss_pred CCCceEEEeeccccccccCcc-ccC----------EEEEEeCCCCcchHHHHhHhhhhcCC
Q 000464 1197 NKRVKCTLISTRAGSLGINLH-SAN----------RVIIVDGSWNPTYDLQAIYRAWRYGQ 1246 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt-~An----------rVIifDp~WNPa~d~QAIGRa~RiGQ 1246 (1479)
.....-|+|.-+|.|-++. +.+ +||--+-.=+--.+.|-.||++|.|-
T Consensus 476 --~~gaVTiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQGD 534 (822)
T COG0653 476 --QPGAVTIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQGD 534 (822)
T ss_pred --CCCccccccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCCC
Confidence 2223478999999999986 444 56666666677778899999999993
No 156
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.66 E-value=0.0021 Score=82.38 Aligned_cols=157 Identities=14% Similarity=0.171 Sum_probs=98.9
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRA 828 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~ 828 (1479)
+.+...++...+-.|||...-.++-..++... .+-++-|+| ..++.|-..++.--+......-.+.....- .+.
T Consensus 524 Dr~eSavIVAPTSaGKTfisfY~iEKVLResD--~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~sl~g~l---tqE 598 (1330)
T KOG0949|consen 524 DRNESAVIVAPTSAGKTFISFYAIEKVLRESD--SDVVIYVAPTKALVNQVSANVYARFDTKTFLRGVSLLGDL---TQE 598 (1330)
T ss_pred hcccceEEEeeccCCceeccHHHHHHHHhhcC--CCEEEEecchHHHhhhhhHHHHHhhccCccccchhhHhhh---hHH
Confidence 45678899999999999999888888888765 457888999 677888777765433110000011111111 111
Q ss_pred HHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcc-hHHHHHHHhcccceEEEe
Q 000464 829 ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTR-ADTTQALKQVKCQRRIAL 907 (1479)
Q Consensus 829 ~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~-Sk~skalk~Lka~rRllL 907 (1479)
..+..| ...|+||..+.+..+..... ..........+||+||.|.|.|.. +.....+-.+-.-.-++|
T Consensus 599 Ysinp~--nCQVLITvPecleslLlspp---------~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll~li~CP~L~L 667 (1330)
T KOG0949|consen 599 YSINPW--NCQVLITVPECLESLLLSPP---------HHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLLLLIPCPFLVL 667 (1330)
T ss_pred hcCCch--hceEEEEchHHHHHHhcCch---------hhhhhhhcceEEEechhhhccccccchHHHHHHHhcCCCeeEE
Confidence 111122 46799999988865432210 011122366799999999999865 555555666666677999
Q ss_pred eCCCCccchhHHHhhhh
Q 000464 908 TGSPLQNNLMEYYCMVD 924 (1479)
Q Consensus 908 TGTPLqNnL~EL~sLL~ 924 (1479)
||| ++|+..++.-++
T Consensus 668 SAT--igN~~l~qkWln 682 (1330)
T KOG0949|consen 668 SAT--IGNPNLFQKWLN 682 (1330)
T ss_pred ecc--cCCHHHHHHHHH
Confidence 999 466666655554
No 157
>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=97.57 E-value=0.00029 Score=73.70 Aligned_cols=130 Identities=18% Similarity=0.260 Sum_probs=68.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELL 831 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l 831 (1479)
|.--+|---.|.|||-.++--+..-.-. ..+++||+.|.-++. +|+.+.+.+ .++++.. . ... +
T Consensus 4 g~~~~~d~hpGaGKTr~vlp~~~~~~i~---~~~rvLvL~PTRvva---~em~~aL~~--~~~~~~t--~-~~~-~---- 67 (148)
T PF07652_consen 4 GELTVLDLHPGAGKTRRVLPEIVREAIK---RRLRVLVLAPTRVVA---EEMYEALKG--LPVRFHT--N-ARM-R---- 67 (148)
T ss_dssp TEEEEEE--TTSSTTTTHHHHHHHHHHH---TT--EEEEESSHHHH---HHHHHHTTT--SSEEEES--T-TSS------
T ss_pred CceeEEecCCCCCCcccccHHHHHHHHH---ccCeEEEecccHHHH---HHHHHHHhc--CCcccCc--e-eee-c----
Confidence 4445677778999999877643322111 236999999988775 455555544 1233331 1 110 0
Q ss_pred HHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcchHHHHH-HHhc---ccceEEEe
Q 000464 832 AKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRADTTQA-LKQV---KCQRRIAL 907 (1479)
Q Consensus 832 ~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~ska-lk~L---ka~rRllL 907 (1479)
.......|-+++|.+|..... ...-..+|++||+||||-. .+.|-..+- +..+ .....|.+
T Consensus 68 -~~~g~~~i~vMc~at~~~~~~-------------~p~~~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~m 132 (148)
T PF07652_consen 68 -THFGSSIIDVMCHATYGHFLL-------------NPCRLKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFM 132 (148)
T ss_dssp ----SSSSEEEEEHHHHHHHHH-------------TSSCTTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred -cccCCCcccccccHHHHHHhc-------------CcccccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEE
Confidence 112455688999988753210 0111238999999999964 444433322 2222 22368999
Q ss_pred eCCCC
Q 000464 908 TGSPL 912 (1479)
Q Consensus 908 TGTPL 912 (1479)
||||-
T Consensus 133 TATPP 137 (148)
T PF07652_consen 133 TATPP 137 (148)
T ss_dssp ESS-T
T ss_pred eCCCC
Confidence 99993
No 158
>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=97.49 E-value=2.1e-05 Score=67.81 Aligned_cols=47 Identities=32% Similarity=0.905 Sum_probs=37.7
Q ss_pred cccccCC---CCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 536 YCVWCGR---SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 536 ~C~~C~~---gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
+|.+|+. ++++|.||.|.+.||..|+.++.... ....+.|.|+.|.+
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~----~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAE----EIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHH----SHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhc----cCCCCcEECcCCcC
Confidence 5788887 89999999999999999987665544 23344999999965
No 159
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=97.49 E-value=0.001 Score=83.58 Aligned_cols=65 Identities=20% Similarity=0.286 Sum_probs=50.7
Q ss_pred HHHhCCCCCCceEEEeeccccccccCccccCEEE-----------------EEeCCC-CcchHHHHhHhhhhcCCCCcEE
Q 000464 1190 ERFNEPLNKRVKCTLISTRAGSLGINLHSANRVI-----------------IVDGSW-NPTYDLQAIYRAWRYGQTKPVF 1251 (1479)
Q Consensus 1190 ~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVI-----------------ifDp~W-NPa~d~QAIGRa~RiGQkK~V~ 1251 (1479)
+-|...+.+ .++.+++|.++...|.+++..+|| -|...| +-+.-.||.||++|+|- -+
T Consensus 621 RVF~~~p~g-~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgp---GH 696 (1172)
T KOG0926|consen 621 RVFDEVPKG-ERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGP---GH 696 (1172)
T ss_pred hhccCCCCC-ceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCC---Cc
Confidence 346665544 578899999999999999988888 355566 66778899999999984 47
Q ss_pred EEEEEeC
Q 000464 1252 AYRLMAH 1258 (1479)
Q Consensus 1252 VYRLIa~ 1258 (1479)
-|||+..
T Consensus 697 cYRLYSS 703 (1172)
T KOG0926|consen 697 CYRLYSS 703 (1172)
T ss_pred eeehhhh
Confidence 7888754
No 160
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=97.41 E-value=0.021 Score=71.87 Aligned_cols=118 Identities=20% Similarity=0.200 Sum_probs=78.7
Q ss_pred eEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccC
Q 000464 1136 KSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGIN 1215 (1479)
Q Consensus 1136 KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLN 1215 (1479)
-+|||=....-++.....|......... +. ..-++-++|+.+.++..+ -|...+. ..|-+++||..+...|.
T Consensus 260 DILvFLtGqeEIe~~~~~l~e~~~~~~~---~~-~~~~lply~aL~~e~Q~r---vF~p~p~-g~RKvIlsTNIAETSlT 331 (674)
T KOG0922|consen 260 DILVFLTGQEEIEAACELLRERAKSLPE---DC-PELILPLYGALPSEEQSR---VFDPAPP-GKRKVILSTNIAETSLT 331 (674)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHhhhccc---cC-cceeeeecccCCHHHhhc---cccCCCC-CcceEEEEcceeeeeEE
Confidence 5778877777666666666653111000 00 113577899999777544 4665542 34557999999999999
Q ss_pred ccccCEEEE----EeCCCCc-----------chHHHHhHhhhhcCCCCcEEEEEEEeCCCH
Q 000464 1216 LHSANRVII----VDGSWNP-----------TYDLQAIYRAWRYGQTKPVFAYRLMAHGTM 1261 (1479)
Q Consensus 1216 Lt~AnrVIi----fDp~WNP-----------a~d~QAIGRa~RiGQkK~V~VYRLIa~gTI 1261 (1479)
+.+.-.||= ---.||| ..-.||.-|++|-|.+.|...|||.++.-.
T Consensus 332 I~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~ 392 (674)
T KOG0922|consen 332 IDGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAY 392 (674)
T ss_pred ecceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHH
Confidence 998877761 1123454 345677778888888889999999998766
No 161
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.38 E-value=0.013 Score=75.91 Aligned_cols=68 Identities=28% Similarity=0.235 Sum_probs=49.0
Q ss_pred EEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeCCC-----CcchHHHHhHhhhhcCC
Q 000464 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSW-----NPTYDLQAIYRAWRYGQ 1246 (1479)
Q Consensus 1174 ~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~W-----NPa~d~QAIGRa~RiGQ 1246 (1479)
.+.+.+.+.++|.-+=..|++ +.++ +|+.|....-|+||++ .|||+=-|.. .-..+.|.+||++|.|=
T Consensus 526 AyHhaGLT~eER~~iE~afr~---g~i~-vl~aTSTlaaGVNLPA-rRVIiraP~~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 526 AYHHAGLTSEEREIIEAAFRE---GNIF-VLVATSTLAAGVNLPA-RRVIIRAPYVGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred eecccccccchHHHHHHHHHh---cCeE-EEEecchhhccCcCCc-ceeEEeCCccccchhhhhhHHhhhhhhhhccc
Confidence 455666777888877778886 4454 4666667999999985 6666655543 33567899999999983
No 162
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.34 E-value=0.016 Score=76.24 Aligned_cols=113 Identities=19% Similarity=0.210 Sum_probs=77.6
Q ss_pred CeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccccc
Q 000464 1135 DKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGI 1214 (1479)
Q Consensus 1135 ~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGL 1214 (1479)
.-+|||=.-..-++.....|.... ....+.++-++|..+.++..+ -|+..+.++ +-+++||..+..+|
T Consensus 260 GdILvFLpG~~EI~~~~~~L~~~~--------l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~~-RKVVlATNIAETSL 327 (845)
T COG1643 260 GSILVFLPGQREIERTAEWLEKAE--------LGDDLEILPLYGALSAEEQVR---VFEPAPGGK-RKVVLATNIAETSL 327 (845)
T ss_pred CCEEEECCcHHHHHHHHHHHHhcc--------ccCCcEEeeccccCCHHHHHh---hcCCCCCCc-ceEEEEccccccce
Confidence 457888777777777667766410 113577889999999888766 576654442 32699999999999
Q ss_pred CccccCEEE--------EEeCC----------CCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHH
Q 000464 1215 NLHSANRVI--------IVDGS----------WNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTME 1262 (1479)
Q Consensus 1215 NLt~AnrVI--------ifDp~----------WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIE 1262 (1479)
++.+...|| .||+. =+-+.-.||-||++| +.+=..|||++++..+
T Consensus 328 TI~gIr~VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR---~~pGicyRLyse~~~~ 390 (845)
T COG1643 328 TIPGIRYVIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR---TGPGICYRLYSEEDFL 390 (845)
T ss_pred eeCCeEEEecCCcccccccccccCceeeeEEEechhhhhhhcccccc---CCCceEEEecCHHHHH
Confidence 999988777 23322 122344566666666 4577899999986655
No 163
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=97.30 E-value=0.019 Score=75.43 Aligned_cols=129 Identities=19% Similarity=0.206 Sum_probs=87.1
Q ss_pred hHHHHHHHHHHhhcC--CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCC
Q 000464 1119 KMVLLLDILTMCSNM--GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPL 1196 (1479)
Q Consensus 1119 Kl~~L~eIL~~~~~~--G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~ 1196 (1479)
...++..++..+.+. ..-||||-.-..-+..+...|........ ...+-...++++++..+.+. -|+.++
T Consensus 396 d~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~-----~~~~~ilplHs~~~s~eQ~~---VF~~pp 467 (924)
T KOG0920|consen 396 DYDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFAD-----SLKFAILPLHSSIPSEEQQA---VFKRPP 467 (924)
T ss_pred cHHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhcccccc-----ccceEEEeccccCChHHHHH---hcCCCC
Confidence 445555665554433 45899999999888888888764211100 02355778899999766554 377766
Q ss_pred CCCceEEEeeccccccccCccccCEEE--------EEeCC---------C-CcchHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1197 NKRVKCTLISTRAGSLGINLHSANRVI--------IVDGS---------W-NPTYDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1197 n~~v~VfLISTkAGGeGLNLt~AnrVI--------ifDp~---------W-NPa~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
.+ ++=++++|..+...|.+...-+|| .|||. | .-+.-.||.||++|. ++=..|+|++.
T Consensus 468 ~g-~RKIIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv---~~G~cy~L~~~ 543 (924)
T KOG0920|consen 468 KG-TRKIILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRV---RPGICYHLYTR 543 (924)
T ss_pred CC-cchhhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCc---cCCeeEEeech
Confidence 54 344799999999999998777666 44443 3 445667999998885 55578888876
Q ss_pred C
Q 000464 1259 G 1259 (1479)
Q Consensus 1259 g 1259 (1479)
.
T Consensus 544 ~ 544 (924)
T KOG0920|consen 544 S 544 (924)
T ss_pred h
Confidence 4
No 164
>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=97.28 E-value=0.014 Score=75.38 Aligned_cols=108 Identities=17% Similarity=0.283 Sum_probs=74.7
Q ss_pred HHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceE
Q 000464 1123 LLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKC 1202 (1479)
Q Consensus 1123 L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~V 1202 (1479)
....|......|++|.|||....+.++++++... .+..+..++|..+..+ ++.+ .+++|
T Consensus 271 F~~~L~~~L~~gknIcvfsSt~~~~~~v~~~~~~------------~~~~Vl~l~s~~~~~d----v~~W-----~~~~V 329 (824)
T PF02399_consen 271 FFSELLARLNAGKNICVFSSTVSFAEIVARFCAR------------FTKKVLVLNSTDKLED----VESW-----KKYDV 329 (824)
T ss_pred HHHHHHHHHhCCCcEEEEeChHHHHHHHHHHHHh------------cCCeEEEEcCCCCccc----cccc-----cceeE
Confidence 4455555566799999999999999999999986 3677888888776552 2333 23555
Q ss_pred EEeeccccccccCccc--cCEEEEE--eCCCCcch--HHHHhHhhhhcCCCCcEEEE
Q 000464 1203 TLISTRAGSLGINLHS--ANRVIIV--DGSWNPTY--DLQAIYRAWRYGQTKPVFAY 1253 (1479)
Q Consensus 1203 fLISTkAGGeGLNLt~--AnrVIif--Dp~WNPa~--d~QAIGRa~RiGQkK~V~VY 1253 (1479)
++ =|.+.+.|+++-. .+.|+.| .....|.. ..|.+||+..++.. +++||
T Consensus 330 vi-YT~~itvG~Sf~~~HF~~~f~yvk~~~~gpd~~s~~Q~lgRvR~l~~~-ei~v~ 384 (824)
T PF02399_consen 330 VI-YTPVITVGLSFEEKHFDSMFAYVKPMSYGPDMVSVYQMLGRVRSLLDN-EIYVY 384 (824)
T ss_pred EE-EeceEEEEeccchhhceEEEEEecCCCCCCcHHHHHHHHHHHHhhccC-eEEEE
Confidence 44 4557888988863 4666655 33334543 58999999888753 55555
No 165
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.16 E-value=0.00011 Score=81.69 Aligned_cols=44 Identities=30% Similarity=0.832 Sum_probs=37.8
Q ss_pred cccccCCC---CceeecCCcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 536 YCVWCGRS---SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 536 ~C~~C~~g---g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
||.+||.. -+|+-||-|-|.||..||.+++. ..+.|.|+|.+|.
T Consensus 283 ~csicgtsenddqllfcddcdrgyhmyclsppm~------eppegswsc~KOG 329 (336)
T KOG1244|consen 283 YCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMV------EPPEGSWSCHLCL 329 (336)
T ss_pred eeccccCcCCCceeEeecccCCceeeEecCCCcC------CCCCCchhHHHHH
Confidence 89999954 48999999999999999887753 4588999999993
No 166
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=97.15 E-value=0.013 Score=65.05 Aligned_cols=69 Identities=22% Similarity=0.280 Sum_probs=45.5
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcc-eEEEcCCCchHHHHHHHHHHHHHH----hcccCCCceEEEechhh-H
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLG-CILAHTMGLGKTFQVIAFLYTAMR----SVNLGLRTALIVTPVNV-L 796 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~G-gILADeMGLGKTLQaIAlL~~ll~----~~~~~~k~vLIV~P~sL-l 796 (1479)
+|-+.|..+|..++. ..+ +++.-..|.|||-++.+++..+.. ......+++||++|.+. +
T Consensus 1 ~ln~~Q~~Ai~~~~~--------------~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~av 66 (236)
T PF13086_consen 1 KLNESQREAIQSALS--------------SNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAV 66 (236)
T ss_dssp ---HHHHHHHHHHCT--------------SSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHHc--------------CCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhH
Confidence 477899999987642 245 888889999999887777777632 11234579999999654 6
Q ss_pred HHHHHHHHH
Q 000464 797 HNWKQEFMK 805 (1479)
Q Consensus 797 ~qW~~E~~k 805 (1479)
.+-...+.+
T Consensus 67 d~~~~~l~~ 75 (236)
T PF13086_consen 67 DNILERLKK 75 (236)
T ss_dssp HHHHHHHHC
T ss_pred HHHHHHHHh
Confidence 677776666
No 167
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.10 E-value=0.0057 Score=71.90 Aligned_cols=73 Identities=18% Similarity=0.114 Sum_probs=49.4
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhccc--CCCceEEEechh-hHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 800 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~--~~k~vLIV~P~s-Ll~qW~ 800 (1479)
.||.|++-++.+++.+. .+..+|+-.++|+|||+.++..+......... ...+++++++.. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~~----------~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00489 9 PYPIQYEFMEELKRVLD----------RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHHH----------cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 39999998888877652 35678899999999999988776544333221 113677777744 444555
Q ss_pred HHHHHh
Q 000464 801 QEFMKW 806 (1479)
Q Consensus 801 ~E~~kw 806 (1479)
.++.+.
T Consensus 79 ~~l~~~ 84 (289)
T smart00489 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 666654
No 168
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.10 E-value=0.0057 Score=71.90 Aligned_cols=73 Identities=18% Similarity=0.114 Sum_probs=49.4
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhccc--CCCceEEEechh-hHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVN-VLHNWK 800 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~--~~k~vLIV~P~s-Ll~qW~ 800 (1479)
.||.|++-++.+++.+. .+..+|+-.++|+|||+.++..+......... ...+++++++.. ++.+=.
T Consensus 9 ~r~~Q~~~m~~v~~~~~----------~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i 78 (289)
T smart00488 9 PYPIQYEFMEELKRVLD----------RGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRL 78 (289)
T ss_pred CCHHHHHHHHHHHHHHH----------cCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHH
Confidence 39999998888877652 35678899999999999988776544333221 113677777744 444555
Q ss_pred HHHHHh
Q 000464 801 QEFMKW 806 (1479)
Q Consensus 801 ~E~~kw 806 (1479)
.++.+.
T Consensus 79 ~~l~~~ 84 (289)
T smart00488 79 EELRKL 84 (289)
T ss_pred HHHHhc
Confidence 666654
No 169
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.07 E-value=0.002 Score=78.71 Aligned_cols=102 Identities=24% Similarity=0.268 Sum_probs=76.5
Q ss_pred cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccc
Q 000464 1132 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGS 1211 (1479)
Q Consensus 1132 ~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGG 1211 (1479)
..|+=|+-||.-.- --+..-+.+ ..+.....|.|+.|+..|.+--..||++.| .+. +|+.++|.|
T Consensus 356 k~GDCvV~FSkk~I--~~~k~kIE~-----------~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~-e~d-vlVAsDAIG 420 (700)
T KOG0953|consen 356 KPGDCVVAFSKKDI--FTVKKKIEK-----------AGNHKCAVIYGSLPPETRLAQAALFNDPSN-ECD-VLVASDAIG 420 (700)
T ss_pred CCCCeEEEeehhhH--HHHHHHHHH-----------hcCcceEEEecCCCCchhHHHHHHhCCCCC-ccc-eEEeecccc
Confidence 46899999997532 222333333 123458999999999999999999998754 465 477889999
Q ss_pred cccCccccCEEEEEeCC---------CCcchHHHHhHhhhhcCCCCc
Q 000464 1212 LGINLHSANRVIIVDGS---------WNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1212 eGLNLt~AnrVIifDp~---------WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
.|||| +..||||++.. -.-+...|.-|||+|+|.+-+
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 46899999874 233456799999999998743
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=96.98 E-value=0.0074 Score=77.45 Aligned_cols=95 Identities=14% Similarity=0.118 Sum_probs=58.7
Q ss_pred CCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccccc
Q 000464 1133 MGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSL 1212 (1479)
Q Consensus 1133 ~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGe 1212 (1479)
.+.++||...+...+..+...|..- -.+ .+.+.|..+ .|..++++|...-+....-+|+.|....+
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 3445544444445556666666531 011 245566554 56789999997411111126899999999
Q ss_pred ccCc--------c--ccCEEEEEeCCCCcchHHHHhHhhhhc
Q 000464 1213 GINL--------H--SANRVIIVDGSWNPTYDLQAIYRAWRY 1244 (1479)
Q Consensus 1213 GLNL--------t--~AnrVIifDp~WNPa~d~QAIGRa~Ri 1244 (1479)
|+|+ . ....|||.-.|+-|.... .|+.|+
T Consensus 535 GvDv~~~~~~p~~G~~Ls~ViI~kLPF~~~dp~---a~~~~~ 573 (636)
T TIGR03117 535 GIDLTHKPVSPDKDNLLTDLIITCAPFGLNRSL---SMLKRI 573 (636)
T ss_pred ccccCCccCCCCCCCcccEEEEEeCCCCcCChH---HHHHHH
Confidence 9999 2 379999999998874433 455554
No 172
>PRK10536 hypothetical protein; Provisional
Probab=96.77 E-value=0.0025 Score=73.00 Aligned_cols=151 Identities=15% Similarity=0.175 Sum_probs=85.8
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 803 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 803 (1479)
+-..|...+.++.+ +.-.++--+.|+|||+.++++....+.... ..+++|+=|.--. .|.
T Consensus 60 ~n~~Q~~~l~al~~--------------~~lV~i~G~aGTGKT~La~a~a~~~l~~~~--~~kIiI~RP~v~~----ge~ 119 (262)
T PRK10536 60 RNEAQAHYLKAIES--------------KQLIFATGEAGCGKTWISAAKAAEALIHKD--VDRIIVTRPVLQA----DED 119 (262)
T ss_pred CCHHHHHHHHHHhc--------------CCeEEEECCCCCCHHHHHHHHHHHHHhcCC--eeEEEEeCCCCCc----hhh
Confidence 44567776666532 246778889999999999998886543322 3455555554323 466
Q ss_pred HHhCCCCCCC-eEEE---EecCcchhHHHHHHHHH--hhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEE
Q 000464 804 MKWRPSELKP-LRVF---MLEDVSRDRRAELLAKW--RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDIL 877 (1479)
Q Consensus 804 ~kw~P~~~~~-l~V~---~l~g~~~~~r~~~l~~w--~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlV 877 (1479)
..|+|+.... +..| +++....--....+..+ ...+.|-|.....+|..+ ..-++|
T Consensus 120 LGfLPG~~~eK~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrt-------------------l~~~~v 180 (262)
T PRK10536 120 LGFLPGDIAEKFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRT-------------------FENAVV 180 (262)
T ss_pred hCcCCCCHHHHHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCc-------------------ccCCEE
Confidence 6677763210 0000 00000000000011111 123445555555544321 134789
Q ss_pred EEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccc
Q 000464 878 VCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNN 915 (1479)
Q Consensus 878 IlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNn 915 (1479)
|+||||++.- .+....+.++....+++++|-|-|..
T Consensus 181 IvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD 216 (262)
T PRK10536 181 ILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCD 216 (262)
T ss_pred EEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhcc
Confidence 9999998843 56666778889999999999997754
No 173
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.74 E-value=0.00055 Score=88.14 Aligned_cols=51 Identities=24% Similarity=0.602 Sum_probs=43.1
Q ss_pred CCCCCcccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 529 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 529 d~d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
++--++++|++|.++|+++||.+|||++|..|+.++.. ..+.+.|.|-+|.
T Consensus 339 ~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~------~~~s~~~e~evc~ 389 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRF------AVPSAFWECEVCN 389 (1414)
T ss_pred cceeecccccccCcccceeecccCCceEEeeecCCccc------cCCCccchhhhhh
Confidence 45556779999999999999999999999999876543 3467889999996
No 174
>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=96.70 E-value=0.0014 Score=72.93 Aligned_cols=151 Identities=19% Similarity=0.240 Sum_probs=73.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 803 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 803 (1479)
+-++|...+..|++. .-.++--..|.|||+.|++....+...+. .++++|+-|..-+. +=
T Consensus 5 ~~~~Q~~~~~al~~~--------------~~v~~~G~AGTGKT~LA~a~Al~~v~~g~--~~kiii~Rp~v~~~----~~ 64 (205)
T PF02562_consen 5 KNEEQKFALDALLNN--------------DLVIVNGPAGTGKTFLALAAALELVKEGE--YDKIIITRPPVEAG----ED 64 (205)
T ss_dssp -SHHHHHHHHHHHH---------------SEEEEE--TTSSTTHHHHHHHHHHHHTTS---SEEEEEE-S--TT------
T ss_pred CCHHHHHHHHHHHhC--------------CeEEEECCCCCcHHHHHHHHHHHHHHhCC--CcEEEEEecCCCCc----cc
Confidence 346898888877631 46778889999999999998887776633 45777777754332 22
Q ss_pred HHhCCCCCCCeEEEEecC-----cchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 804 MKWRPSELKPLRVFMLED-----VSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 804 ~kw~P~~~~~l~V~~l~g-----~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
.-|+|+.... ++..+-. ...--....+......+.|-+.+...+|-.++ ...+||
T Consensus 65 lGflpG~~~e-K~~p~~~p~~d~l~~~~~~~~~~~~~~~~~Ie~~~~~~iRGrt~-------------------~~~~iI 124 (205)
T PF02562_consen 65 LGFLPGDLEE-KMEPYLRPIYDALEELFGKEKLEELIQNGKIEIEPLAFIRGRTF-------------------DNAFII 124 (205)
T ss_dssp --SS----------TTTHHHHHHHTTTS-TTCHHHHHHTTSEEEEEGGGGTT--B--------------------SEEEE
T ss_pred cccCCCCHHH-HHHHHHHHHHHHHHHHhChHhHHHHhhcCeEEEEehhhhcCccc-------------------cceEEE
Confidence 2345542110 0000000 00000001112223466677777776654221 346799
Q ss_pred EcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccch
Q 000464 879 CDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNL 916 (1479)
Q Consensus 879 lDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL 916 (1479)
+|||+++.. ..+-..+.++....+++++|-|-|..+
T Consensus 125 vDEaQN~t~--~~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 125 VDEAQNLTP--EELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp E-SGGG--H--HHHHHHHTTB-TT-EEEEEE-------
T ss_pred EecccCCCH--HHHHHHHcccCCCcEEEEecCceeecC
Confidence 999998843 355566777888899999999987543
No 175
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=96.58 E-value=0.71 Score=61.94 Aligned_cols=48 Identities=19% Similarity=0.077 Sum_probs=34.7
Q ss_pred CceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCc
Q 000464 1199 RVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKP 1249 (1479)
Q Consensus 1199 ~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~ 1249 (1479)
...+++|+|.+...|+++- .+.+| -|+. .-...+|+.||++|-|+..+
T Consensus 837 ~~~~i~v~Tqv~E~g~D~d-fd~~~-~~~~-~~~sliQ~aGR~~R~~~~~~ 884 (1110)
T TIGR02562 837 NHLFIVLATPVEEVGRDHD-YDWAI-ADPS-SMRSIIQLAGRVNRHRLEKV 884 (1110)
T ss_pred CCCeEEEEeeeEEEEeccc-CCeee-eccC-cHHHHHHHhhcccccccCCC
Confidence 3457899999999999985 34443 3332 23457899999999998643
No 176
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.23 E-value=0.18 Score=63.51 Aligned_cols=107 Identities=18% Similarity=0.252 Sum_probs=68.8
Q ss_pred CccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEe----CCCCc-----------chH
Q 000464 1170 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVD----GSWNP-----------TYD 1234 (1479)
Q Consensus 1170 Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifD----p~WNP-----------a~d 1234 (1479)
++.++-|....+..-.. +-|+..+ +.++-.+++|..+...|.+.+...||=-- -.+|| ..-
T Consensus 597 ~L~vlpiYSQLp~dlQ~---kiFq~a~-~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~ 672 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQA---KIFQKAE-GGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQ 672 (1042)
T ss_pred ceEEEeehhhCchhhhh---hhcccCC-CCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechh
Confidence 56677777777755443 3366443 34666799999999999999888887211 12343 333
Q ss_pred HHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHH---HHHHHHHHHHHh
Q 000464 1235 LQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKR---QVTKEGLAARVV 1280 (1479)
Q Consensus 1235 ~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~r---q~~K~~La~rVV 1280 (1479)
.||--|++|.|.+.|-.-|||+++.+....++.- -+.+..+.+.|+
T Consensus 673 AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~stvPEIqRTNl~nvVL 721 (1042)
T KOG0924|consen 673 ANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLPSTVPEIQRTNLSNVVL 721 (1042)
T ss_pred ccchhhccccCCCCCcceeeehhhhHHHhhcccCCCchhhhcchhhHHH
Confidence 4555566666667788999999998877766632 122344555554
No 177
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=96.04 E-value=0.047 Score=68.12 Aligned_cols=69 Identities=22% Similarity=0.337 Sum_probs=52.8
Q ss_pred chhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-H
Q 000464 718 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-L 796 (1479)
Q Consensus 718 ~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l 796 (1479)
..+...|-+-|+.++.+...+ + .=.++--+.|+|||.+.+-+|..+...+ +++||.+|.++ +
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 345567888999999988532 1 3456667899999999999998887653 68999999886 6
Q ss_pred HHHHHHH
Q 000464 797 HNWKQEF 803 (1479)
Q Consensus 797 ~qW~~E~ 803 (1479)
.|-.+.+
T Consensus 243 dNiverl 249 (649)
T KOG1803|consen 243 DNIVERL 249 (649)
T ss_pred HHHHHHh
Confidence 6776643
No 178
>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=95.90 E-value=0.04 Score=62.29 Aligned_cols=151 Identities=19% Similarity=0.213 Sum_probs=92.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
-.|||-|.+-++.|.+ +..+.+.++=--||-|||-.++=+++..+..+ .+=+-+|||..++.|-.+
T Consensus 22 iliR~~Q~~ia~~mi~-----------~~~~~n~v~QlnMGeGKTsVI~Pmla~~LAdg---~~LvrviVpk~Ll~q~~~ 87 (229)
T PF12340_consen 22 ILIRPVQVEIAREMIS-----------PPSGKNSVMQLNMGEGKTSVIVPMLALALADG---SRLVRVIVPKALLEQMRQ 87 (229)
T ss_pred ceeeHHHHHHHHHHhC-----------CCCCCCeEeeecccCCccchHHHHHHHHHcCC---CcEEEEEcCHHHHHHHHH
Confidence 4689999999888853 24578899999999999988777777666443 346788999999999888
Q ss_pred HHHHhCCCCCCCeEEEEec--Ccch--hHH----HHHHHHHhhcCCEEEEeccccccccccc-------cccchhhHHHH
Q 000464 802 EFMKWRPSELKPLRVFMLE--DVSR--DRR----AELLAKWRAKGGVFLIGYTAFRNLSFGK-------HVKDRNMAREI 866 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~--g~~~--~~r----~~~l~~w~~~~~VvItsYe~fr~l~~~k-------~~kd~~~~~~l 866 (1479)
-+..-+.+-+ .-+|+.+. .... ... ...+..-...++|++++.+.+-++.... ..........+
T Consensus 88 ~L~~~lg~l~-~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf~L~~le~l~~~~~~~~~~l~~~ 166 (229)
T PF12340_consen 88 MLRSRLGGLL-NRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSFKLKGLERLQDGKPEEARELLKI 166 (229)
T ss_pred HHHHHHHHHh-CCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence 8877664322 22344332 2211 111 1223344568899999998765432110 00000111122
Q ss_pred HhhhcCCCCEEEEcCCcccCCc
Q 000464 867 CHALQDGPDILVCDEAHMIKNT 888 (1479)
Q Consensus 867 ~~lL~~~~dlVIlDEAH~IKN~ 888 (1479)
..++. ..-.-|+||++.+-+.
T Consensus 167 q~~l~-~~~rdilDEsDe~L~~ 187 (229)
T PF12340_consen 167 QKWLD-EHSRDILDESDEILSV 187 (229)
T ss_pred HHHHH-hcCCeEeECchhccCc
Confidence 23333 3444699999977543
No 179
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=95.86 E-value=0.034 Score=56.49 Aligned_cols=116 Identities=18% Similarity=0.225 Sum_probs=62.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhccc--CCCceEEEechhh-HHHHHHHHHHhCCCCCCCeEEEEecCcchhHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNL--GLRTALIVTPVNV-LHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRA 828 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~--~~k~vLIV~P~sL-l~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~ 828 (1479)
+.-+++.-+.|.|||..+-.++..+...... ...-+.|-+|... ...+..++..-+...... ......
T Consensus 4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~-------~~~~~~-- 74 (131)
T PF13401_consen 4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS-------RQTSDE-- 74 (131)
T ss_dssp ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-------TS-HHH--
T ss_pred CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-------cCCHHH--
Confidence 3457788899999999888887776543111 1123445556544 445555555443221100 000000
Q ss_pred HHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcC-CCCEEEEcCCcccCCcchHHHHHHHhc--ccceEE
Q 000464 829 ELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQD-GPDILVCDEAHMIKNTRADTTQALKQV--KCQRRI 905 (1479)
Q Consensus 829 ~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~-~~dlVIlDEAH~IKN~~Sk~skalk~L--ka~rRl 905 (1479)
+...+...+.. ...+||+||+|++. .......++.+ ...-.+
T Consensus 75 ---------------------------------l~~~~~~~l~~~~~~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~v 119 (131)
T PF13401_consen 75 ---------------------------------LRSLLIDALDRRRVVLLVIDEADHLF--SDEFLEFLRSLLNESNIKV 119 (131)
T ss_dssp ---------------------------------HHHHHHHHHHHCTEEEEEEETTHHHH--THHHHHHHHHHTCSCBEEE
T ss_pred ---------------------------------HHHHHHHHHHhcCCeEEEEeChHhcC--CHHHHHHHHHHHhCCCCeE
Confidence 01111122222 22479999999994 24555556655 677889
Q ss_pred EeeCCC
Q 000464 906 ALTGSP 911 (1479)
Q Consensus 906 lLTGTP 911 (1479)
+|+|||
T Consensus 120 vl~G~~ 125 (131)
T PF13401_consen 120 VLVGTP 125 (131)
T ss_dssp EEEESS
T ss_pred EEEECh
Confidence 999999
No 180
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.73 E-value=0.0072 Score=73.66 Aligned_cols=101 Identities=19% Similarity=0.378 Sum_probs=68.4
Q ss_pred CCCCceeeccCCccccccc---ccccccccccccchhhhhhc--C------cc----------cCCC---CCcccccccC
Q 000464 486 SLSEKFYCTACNNVAIEVH---PHPILNVIVCKDCKCLLEKK--M------HV----------KDAD---CSECYCVWCG 541 (1479)
Q Consensus 486 ~~~~~~~C~~Cg~~~~~~~---~HP~l~v~~C~~C~~~~~~~--~------~~----------~d~d---~~~~~C~~C~ 541 (1479)
..+++.+|-.|+..+..-+ .-|-+....|..|..-.... . .. .|-| -.+..|.+|.
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 3567889999987755422 34555677777764322211 0 11 1101 1123588887
Q ss_pred CCC-----ceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 542 RSS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 542 ~gg-----~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
.|| .++-|+.|-.-||..|+.+.+-+..+.+ +...|+|.+|.-.|
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 555 8999999999999999999998887653 67889999998665
No 181
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=95.71 E-value=0.068 Score=68.82 Aligned_cols=180 Identities=22% Similarity=0.251 Sum_probs=103.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH----HHHHHHHHhC-CCCC--CCeEEEEecCcc
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH----NWKQEFMKWR-PSEL--KPLRVFMLEDVS 823 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~----qW~~E~~kw~-P~~~--~~l~V~~l~g~~ 823 (1479)
...++=+-.|+|+|||.+-+-.|..+++.. |.-+++||||..-+. .--.++..++ .... .++..++++...
T Consensus 73 ~~lNiDI~METGTGKTy~YlrtmfeLhk~Y--G~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~~ 150 (985)
T COG3587 73 DKLNIDILMETGTGKTYTYLRTMFELHKKY--GLFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDEDI 150 (985)
T ss_pred CcceeeEEEecCCCceeeHHHHHHHHHHHh--CceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechHH
Confidence 345677788999999999999998887764 456999999955432 2223333333 2211 245666654211
Q ss_pred hhHHHHHHHHHhhcCCEEEEecccccccccccc-ccch-----h---hHHHHHhhhcCCCCEEEEcCCcccCCcchHHHH
Q 000464 824 RDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKH-VKDR-----N---MAREICHALQDGPDILVCDEAHMIKNTRADTTQ 894 (1479)
Q Consensus 824 ~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~-~kd~-----~---~~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~sk 894 (1479)
.+.. -.-.....|++++...|..-.-... +... . .+......+...-.+||+||-|++... .+++.
T Consensus 151 --~~~~--~~~~~~~~vLl~~~~Afnk~~inan~iN~~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~~ 225 (985)
T COG3587 151 --EKFK--FKSNNKPCVLLIFVSAFNKEEINANMINSESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTYG 225 (985)
T ss_pred --HHHh--hccCCCceEEEEehhhhccccccccccchhhhcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHHH
Confidence 1111 0112344688888888764311000 0000 0 001112233334458999999999765 78999
Q ss_pred HHHhcccceEEEeeCCCCccchhHHHhhhhhhccCCCCChHHHHhhhcCCcc
Q 000464 895 ALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVREGFLGSSHEFRNRFQNPIE 946 (1479)
Q Consensus 895 alk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF~~~F~~PI~ 946 (1479)
++.+++....+=..||- ..+|++++- .|.+...|.+...+.|.
T Consensus 226 ~i~~l~pl~ilRfgATf----kd~y~~l~y-----rLDsi~Af~~~LVK~I~ 268 (985)
T COG3587 226 AIKQLNPLLILRFGATF----KDEYNNLVY-----RLDSIDAFNQKLVKQIR 268 (985)
T ss_pred HHHhhCceEEEEecccc----hhhhcCeeE-----EeeHHhhhhhhhhhhee
Confidence 99999988888788874 234443221 23455666666655543
No 182
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=95.53 E-value=0.25 Score=62.12 Aligned_cols=82 Identities=21% Similarity=0.208 Sum_probs=54.2
Q ss_pred CccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccccCEEEEEeC------CCCc------------
Q 000464 1170 GKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDG------SWNP------------ 1231 (1479)
Q Consensus 1170 Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp------~WNP------------ 1231 (1479)
.+-++-|+.+.|.+...++ |...|++ .+-+++.|..+...|.+.+.+.|| || .+||
T Consensus 506 eliv~PiYaNLPselQakI---FePtP~g-aRKVVLATNIAETSlTIdgI~yVi--DpGf~K~nsynprtGmesL~v~pi 579 (902)
T KOG0923|consen 506 ELIVLPIYANLPSELQAKI---FEPTPPG-ARKVVLATNIAETSLTIDGIKYVI--DPGFVKQNSYNPRTGMESLLVTPI 579 (902)
T ss_pred eEEEeeccccCChHHHHhh---cCCCCCC-ceeEEEeecchhhceeecCeEEEe--cCccccccCcCCCcCceeEEEeee
Confidence 3446667778886654433 5544443 344678888999999998888776 44 3444
Q ss_pred --chHHHHhHhhhhcCCCCcEEEEEEEeCCC
Q 000464 1232 --TYDLQAIYRAWRYGQTKPVFAYRLMAHGT 1260 (1479)
Q Consensus 1232 --a~d~QAIGRa~RiGQkK~V~VYRLIa~gT 1260 (1479)
+.-.||.||++|.|-- .-|||.+.-+
T Consensus 580 SKAsA~QRaGRAGRtgPG---KCfRLYt~~a 607 (902)
T KOG0923|consen 580 SKASANQRAGRAGRTGPG---KCFRLYTAWA 607 (902)
T ss_pred chhhhhhhccccCCCCCC---ceEEeechhh
Confidence 4567888888888755 4567776433
No 183
>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner [,]. This domain represents the N-terminal ATP-dependent helicase domain, which is related to the IPR0011545 from INTERPRO.; GO: 0005524 ATP binding, 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 3DIN_B 3JUX_A 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 3BXZ_A ....
Probab=95.49 E-value=0.15 Score=59.17 Aligned_cols=163 Identities=18% Similarity=0.199 Sum_probs=84.8
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH---
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH--- 797 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~--- 797 (1479)
...+++-|+-|+--|. .|-|.=-.+|=|||+++..+++...- ..+++-||+....+.
T Consensus 75 g~~p~~vQll~~l~L~----------------~G~laEm~TGEGKTli~~l~a~~~AL----~G~~V~vvT~NdyLA~RD 134 (266)
T PF07517_consen 75 GLRPYDVQLLGALALH----------------KGRLAEMKTGEGKTLIAALPAALNAL----QGKGVHVVTSNDYLAKRD 134 (266)
T ss_dssp S----HHHHHHHHHHH----------------TTSEEEESTTSHHHHHHHHHHHHHHT----TSS-EEEEESSHHHHHHH
T ss_pred CCcccHHHHhhhhhcc----------------cceeEEecCCCCcHHHHHHHHHHHHH----hcCCcEEEeccHHHhhcc
Confidence 4455666777764441 47788889999999987544433322 235888888866654
Q ss_pred -HHHHHHHHhCCCCCCCeEEEEecCc-chhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCC
Q 000464 798 -NWKQEFMKWRPSELKPLRVFMLEDV-SRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPD 875 (1479)
Q Consensus 798 -qW~~E~~kw~P~~~~~l~V~~l~g~-~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~d 875 (1479)
+|...|-+++. +.+...... ....|... + ..+|+-.+-..|.... .++ .+..........+++
T Consensus 135 ~~~~~~~y~~LG-----lsv~~~~~~~~~~~r~~~---Y--~~dI~Y~t~~~~~fD~----Lrd-~~~~~~~~~~~r~~~ 199 (266)
T PF07517_consen 135 AEEMRPFYEFLG-----LSVGIITSDMSSEERREA---Y--AADIVYGTNSEFGFDY----LRD-NLALSKNEQVQRGFD 199 (266)
T ss_dssp HHHHHHHHHHTT-------EEEEETTTEHHHHHHH---H--HSSEEEEEHHHHHHHH----HHH-TT-SSGGG--SSSSS
T ss_pred HHHHHHHHHHhh-----hccccCccccCHHHHHHH---H--hCcccccccchhhHHH----HHH-HHhhccchhccCCCC
Confidence 58888888886 455444433 33333322 1 2354444433332100 000 000001112346899
Q ss_pred EEEEcCCcccC-----Cc-------------------chHHHHHHHhcccceEEEeeCCCCccchhHHH
Q 000464 876 ILVCDEAHMIK-----NT-------------------RADTTQALKQVKCQRRIALTGSPLQNNLMEYY 920 (1479)
Q Consensus 876 lVIlDEAH~IK-----N~-------------------~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~ 920 (1479)
++|+||+..+- ++ .+-.++.+.+. -.+..+|||| ....-.|+|
T Consensus 200 ~~ivDEvDs~LiDea~~pl~is~~Ke~~~i~~~~~t~a~is~q~~f~~-Y~~l~GmTGT-a~~~~~e~~ 266 (266)
T PF07517_consen 200 FAIVDEVDSILIDEARTPLIISGAKEGLKITPESLTLASISYQNFFRL-YPKLSGMTGT-AKTEAKEFW 266 (266)
T ss_dssp EEEECTHHHHTTTGCCSEEEEEEHHTTS----SEEEEEEEEHHHHHTT-SSEEEEEESS-TGGGHHHHH
T ss_pred EEEEeccceEEEecCcccccccccccCCccCCCCeEEEEeehHHHHHh-cchheeeCCC-ChhhHhhcC
Confidence 99999987652 10 11122333333 2337899999 666666665
No 184
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=95.46 E-value=0.13 Score=57.06 Aligned_cols=59 Identities=19% Similarity=0.168 Sum_probs=38.7
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
.|-+-|..++..++. +...-.+|.-.-|.|||...-.+...+... ..++++++|.+-..
T Consensus 1 ~L~~~Q~~a~~~~l~------------~~~~~~~l~G~aGtGKT~~l~~~~~~~~~~----g~~v~~~apT~~Aa 59 (196)
T PF13604_consen 1 TLNEEQREAVRAILT------------SGDRVSVLQGPAGTGKTTLLKALAEALEAA----GKRVIGLAPTNKAA 59 (196)
T ss_dssp -S-HHHHHHHHHHHH------------CTCSEEEEEESTTSTHHHHHHHHHHHHHHT----T--EEEEESSHHHH
T ss_pred CCCHHHHHHHHHHHh------------cCCeEEEEEECCCCCHHHHHHHHHHHHHhC----CCeEEEECCcHHHH
Confidence 367889999998863 233457777889999998665554444332 25899999976544
No 185
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.26 E-value=0.19 Score=68.31 Aligned_cols=104 Identities=18% Similarity=0.195 Sum_probs=67.3
Q ss_pred HHHHHHHHHhh-cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCC
Q 000464 1121 VLLLDILTMCS-NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKR 1199 (1479)
Q Consensus 1121 ~~L~eIL~~~~-~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~ 1199 (1479)
..+.+.|..+. ..+.++|||..+..++..+...|..... ..++. +...|. +...|.+++++|+..++.
T Consensus 738 ~~la~~i~~l~~~~~g~~LVLFtSy~~l~~v~~~l~~~~~--------~~~~~-ll~Qg~-~~~~r~~l~~~F~~~~~~- 806 (928)
T PRK08074 738 EEVAAYIAKIAKATKGRMLVLFTSYEMLKKTYYNLKNEEE--------LEGYV-LLAQGV-SSGSRARLTKQFQQFDKA- 806 (928)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCHHHHHHHHHHHhhccc--------ccCce-EEecCC-CCCCHHHHHHHHHhcCCe-
Confidence 34455554443 3456888888888999999888875210 01222 222232 223588999999974322
Q ss_pred ceEEEeeccccccccCcccc--CEEEEEeCCC-Ccch-HHHHh
Q 000464 1200 VKCTLISTRAGSLGINLHSA--NRVIIVDGSW-NPTY-DLQAI 1238 (1479)
Q Consensus 1200 v~VfLISTkAGGeGLNLt~A--nrVIifDp~W-NPa~-d~QAI 1238 (1479)
+|+.+....+|+|+++. ..|||.-.|+ +|.. ..|+.
T Consensus 807 ---iLlG~~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~ 846 (928)
T PRK08074 807 ---ILLGTSSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAK 846 (928)
T ss_pred ---EEEecCcccCccccCCCceEEEEEecCCCCCCCCHHHHHH
Confidence 47778899999999974 8889998887 6652 44443
No 186
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.02 E-value=0.29 Score=61.64 Aligned_cols=68 Identities=21% Similarity=0.322 Sum_probs=54.1
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 800 (1479)
..|-.-|..||+..+.+ .=.||--..|+|||++.-++++.+.+.. .+|+||++|.++ +.|-.
T Consensus 409 pkLN~SQ~~AV~~VL~r--------------plsLIQGPPGTGKTvtsa~IVyhl~~~~---~~~VLvcApSNiAVDqLa 471 (935)
T KOG1802|consen 409 PKLNASQSNAVKHVLQR--------------PLSLIQGPPGTGKTVTSATIVYHLARQH---AGPVLVCAPSNIAVDQLA 471 (935)
T ss_pred hhhchHHHHHHHHHHcC--------------CceeeecCCCCCceehhHHHHHHHHHhc---CCceEEEcccchhHHHHH
Confidence 46777899999877642 3468888999999999999998887763 579999999887 66777
Q ss_pred HHHHHh
Q 000464 801 QEFMKW 806 (1479)
Q Consensus 801 ~E~~kw 806 (1479)
..|++-
T Consensus 472 eKIh~t 477 (935)
T KOG1802|consen 472 EKIHKT 477 (935)
T ss_pred HHHHhc
Confidence 777663
No 187
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.99 E-value=0.17 Score=65.86 Aligned_cols=124 Identities=14% Similarity=0.014 Sum_probs=80.2
Q ss_pred CCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHHHHHhCCCCCCCeEEEEecC-cchhHHHHHHHHHhhc-
Q 000464 761 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKWRPSELKPLRVFMLED-VSRDRRAELLAKWRAK- 837 (1479)
Q Consensus 761 MGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E~~kw~P~~~~~l~V~~l~g-~~~~~r~~~l~~w~~~- 837 (1479)
.|.|||-..+.++...+..+ +.+||++| .++..|+..-|...++. -.|.++|+ .+...|...+......
T Consensus 169 ~GSGKTevyl~~i~~~l~~G----k~vLvLvPEi~lt~q~~~rl~~~f~~----~~v~~lhS~l~~~~R~~~w~~~~~G~ 240 (665)
T PRK14873 169 PGEDWARRLAAAAAATLRAG----RGALVVVPDQRDVDRLEAALRALLGA----GDVAVLSAGLGPADRYRRWLAVLRGQ 240 (665)
T ss_pred CCCcHHHHHHHHHHHHHHcC----CeEEEEecchhhHHHHHHHHHHHcCC----CcEEEECCCCCHHHHHHHHHHHhCCC
Confidence 49999999998888877653 57999999 77889999999999873 24555655 4555555554444322
Q ss_pred CCEEEEeccccccccccccccchhhHHHHHhhhc-CCCCEEEEcCCccc--CCcchHHHH----HH--HhcccceEEEee
Q 000464 838 GGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQ-DGPDILVCDEAHMI--KNTRADTTQ----AL--KQVKCQRRIALT 908 (1479)
Q Consensus 838 ~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~-~~~dlVIlDEAH~I--KN~~Sk~sk----al--k~Lka~rRllLT 908 (1479)
..|+|-|...+- .. .+.++|||||=|.- |...+..+. ++ .+...-..++-|
T Consensus 241 ~~IViGtRSAvF--------------------aP~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgS 300 (665)
T PRK14873 241 ARVVVGTRSAVF--------------------APVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGG 300 (665)
T ss_pred CcEEEEcceeEE--------------------eccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEEC
Confidence 356666655431 11 16789999999964 333222211 11 112344567779
Q ss_pred CCCC
Q 000464 909 GSPL 912 (1479)
Q Consensus 909 GTPL 912 (1479)
+||-
T Consensus 301 aTPS 304 (665)
T PRK14873 301 HART 304 (665)
T ss_pred CCCC
Confidence 9993
No 188
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=94.96 E-value=0.071 Score=57.64 Aligned_cols=83 Identities=28% Similarity=0.299 Sum_probs=54.7
Q ss_pred hcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecc--
Q 000464 1131 SNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTR-- 1208 (1479)
Q Consensus 1131 ~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTk-- 1208 (1479)
...+.++|||..+-..++.+...+.... -..++..+.- + ...+..+++.|....+ .+|+++.
T Consensus 6 ~~~~g~~lv~f~Sy~~l~~~~~~~~~~~--------~~~~~~v~~q-~---~~~~~~~l~~~~~~~~----~il~~v~~g 69 (167)
T PF13307_consen 6 SAVPGGVLVFFPSYRRLEKVYERLKERL--------EEKGIPVFVQ-G---SKSRDELLEEFKRGEG----AILLAVAGG 69 (167)
T ss_dssp HCCSSEEEEEESSHHHHHHHHTT-TSS---------E-ETSCEEES-T---CCHHHHHHHHHCCSSS----EEEEEETTS
T ss_pred hcCCCCEEEEeCCHHHHHHHHHHHHhhc--------ccccceeeec-C---cchHHHHHHHHHhccC----eEEEEEecc
Confidence 3456899999999999999999887521 0113333322 2 3478899999998422 2577776
Q ss_pred ccccccCccc--cCEEEEEeCCC
Q 000464 1209 AGSLGINLHS--ANRVIIVDGSW 1229 (1479)
Q Consensus 1209 AGGeGLNLt~--AnrVIifDp~W 1229 (1479)
...+|||+.+ +..||+.-.|+
T Consensus 70 ~~~EGiD~~~~~~r~vii~glPf 92 (167)
T PF13307_consen 70 SFSEGIDFPGDLLRAVIIVGLPF 92 (167)
T ss_dssp CCGSSS--ECESEEEEEEES---
T ss_pred cEEEeecCCCchhheeeecCCCC
Confidence 8899999985 77889988887
No 189
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=94.67 E-value=0.47 Score=61.85 Aligned_cols=67 Identities=16% Similarity=0.251 Sum_probs=51.2
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW~ 800 (1479)
..|-+.|+.+|.+.+. .....++--..|.|||.++++++..+...+ .++||++|.+. +.+..
T Consensus 156 ~~ln~~Q~~Av~~~l~-------------~~~~~lI~GpPGTGKT~t~~~ii~~~~~~g----~~VLv~a~sn~Avd~l~ 218 (637)
T TIGR00376 156 PNLNESQKEAVSFALS-------------SKDLFLIHGPPGTGKTRTLVELIRQLVKRG----LRVLVTAPSNIAVDNLL 218 (637)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCeEEEEcCCCCCHHHHHHHHHHHHHHcC----CCEEEEcCcHHHHHHHH
Confidence 5789999999987642 124567788899999999999888776543 38999999776 55676
Q ss_pred HHHHH
Q 000464 801 QEFMK 805 (1479)
Q Consensus 801 ~E~~k 805 (1479)
..+..
T Consensus 219 e~l~~ 223 (637)
T TIGR00376 219 ERLAL 223 (637)
T ss_pred HHHHh
Confidence 66655
No 190
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=94.45 E-value=0.06 Score=72.06 Aligned_cols=74 Identities=23% Similarity=0.291 Sum_probs=52.4
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCch--HHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLG--KTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLG--KTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
....+.+||.....-.... ......+++..|+| ||+.+..+......... ..++++++|..+..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 146 (866)
T COG0553 81 SRFILIPHQLDIALEVLNE------------LALRVLIADEVGLGDLKTIEAGAILKELLLRGE--IKRVLILVPKTLRA 146 (866)
T ss_pred cccccCcchhhhhhhhhhh------------hhhchhhcccccccccccccccccchHhhhhhh--hccceeccchHHHH
Confidence 3455677777665433221 12337889999999 89998777666554433 46899999999999
Q ss_pred HHHHHHHHhC
Q 000464 798 NWKQEFMKWR 807 (1479)
Q Consensus 798 qW~~E~~kw~ 807 (1479)
+|..+...++
T Consensus 147 ~~~~e~~~~~ 156 (866)
T COG0553 147 QWVVELLEKF 156 (866)
T ss_pred HHHHHhhhhc
Confidence 9999988764
No 191
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.38 E-value=0.07 Score=65.42 Aligned_cols=125 Identities=18% Similarity=0.196 Sum_probs=93.6
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
+.+.|+.-...++.++...|-++|-||..+....++-...+.+...-.. .+ --.+..+.|+-..++|.++-...--
T Consensus 506 ~~~~~i~E~s~~~~~~i~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~-~L---V~~i~SYRGGY~A~DRRKIE~~~F~ 581 (1034)
T KOG4150|consen 506 EKSSKVVEVSHLFAEMVQHGLRCIAFCPSRKLCELVLCLTREILAETAP-HL---VEAITSYRGGYIAEDRRKIESDLFG 581 (1034)
T ss_pred hhhhHHHHHHHHHHHHHHcCCcEEEeccHHHHHHHHHHHHHHHHHHhhH-HH---HHHHHhhcCccchhhHHHHHHHhhC
Confidence 3477888888899999999999999999998877765555443211000 00 0112345678888888887666442
Q ss_pred CCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcCCC
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQT 1247 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQk 1247 (1479)
++. .-+|+|.|..+||++.+.+.|+..-.|.+-++..|-.||++|-...
T Consensus 582 ---G~L-~giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~ 630 (1034)
T KOG4150|consen 582 ---GKL-CGIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKP 630 (1034)
T ss_pred ---Cee-eEEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCC
Confidence 333 3589999999999999999999999999999999999999997543
No 192
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=94.29 E-value=0.017 Score=67.39 Aligned_cols=43 Identities=23% Similarity=0.576 Sum_probs=35.6
Q ss_pred cccccCCCCceeecCC--cc-cccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 536 YCVWCGRSSDLVSCKS--CK-TLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~--C~-r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
+|. |...|+.+-||+ || .=||..|+.. . ..+.|.|+|+-|...
T Consensus 223 ~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVGL----~----~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 223 ICN-QVSYGKMIGCDNPGCPIEWFHFTCVGL----K----TKPKGKWYCPRCKAE 268 (274)
T ss_pred Eec-ccccccccccCCCCCCcceEEEecccc----c----cCCCCcccchhhhhh
Confidence 566 779999999999 99 8999999643 3 556789999999654
No 193
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=94.10 E-value=0.46 Score=62.19 Aligned_cols=116 Identities=21% Similarity=0.181 Sum_probs=79.4
Q ss_pred cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCc-cEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeecccc
Q 000464 1132 NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGK-DWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAG 1210 (1479)
Q Consensus 1132 ~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi-~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAG 1210 (1479)
..+.++|||..+-.++..+...+... .. -.+...|..+ +..++++|....+. .|++.+...
T Consensus 477 ~~~~~~lvlF~Sy~~l~~~~~~~~~~------------~~~~~v~~q~~~~---~~~~l~~f~~~~~~---~~lv~~gsf 538 (654)
T COG1199 477 ASPGGVLVLFPSYEYLKRVAERLKDE------------RSTLPVLTQGEDE---REELLEKFKASGEG---LILVGGGSF 538 (654)
T ss_pred hcCCCEEEEeccHHHHHHHHHHHhhc------------CccceeeecCCCc---HHHHHHHHHHhcCC---eEEEeeccc
Confidence 34558999999999999888888752 11 2345556555 55899999985443 589999999
Q ss_pred ccccCccc--cCEEEEEeCCCC-cc-----------------------------hHHHHhHhhhhcCCCCcEEEEEEEeC
Q 000464 1211 SLGINLHS--ANRVIIVDGSWN-PT-----------------------------YDLQAIYRAWRYGQTKPVFAYRLMAH 1258 (1479)
Q Consensus 1211 GeGLNLt~--AnrVIifDp~WN-Pa-----------------------------~d~QAIGRa~RiGQkK~V~VYRLIa~ 1258 (1479)
.+|+|+.+ ...|||.-.||= |. ...||+||+.|--+.+.|.| +..
T Consensus 539 ~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv---llD 615 (654)
T COG1199 539 WEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV---LLD 615 (654)
T ss_pred cCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE---Eec
Confidence 99999996 488888888873 42 33588888888544455443 334
Q ss_pred CCHHHHHHHH
Q 000464 1259 GTMEEKIYKR 1268 (1479)
Q Consensus 1259 gTIEEkI~~r 1268 (1479)
+-+..+-|.+
T Consensus 616 ~R~~~~~y~~ 625 (654)
T COG1199 616 KRYATKRYGK 625 (654)
T ss_pred ccchhhhHHH
Confidence 4444444433
No 194
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.01 E-value=0.02 Score=64.52 Aligned_cols=43 Identities=21% Similarity=0.551 Sum_probs=35.3
Q ss_pred cccccCCCC---ceeecCCcccccchhhhcccCCcccccccccCCCceee--cCCc
Q 000464 536 YCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCC--CCSP 586 (1479)
Q Consensus 536 ~C~~C~~gg---~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~--~C~p 586 (1479)
.|++|++.- +.+-||-|.|.||..| +|-+ ..+.|.|.|- +|..
T Consensus 316 lC~IC~~P~~E~E~~FCD~CDRG~HT~C----VGL~----~lP~G~WICD~~C~~~ 363 (381)
T KOG1512|consen 316 LCRICLGPVIESEHLFCDVCDRGPHTLC----VGLQ----DLPRGEWICDMRCREA 363 (381)
T ss_pred hhhccCCcccchheeccccccCCCCccc----cccc----cccCccchhhhHHHHh
Confidence 699998764 8999999999999999 4655 5578999998 6643
No 195
>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=93.84 E-value=0.3 Score=59.05 Aligned_cols=46 Identities=20% Similarity=0.172 Sum_probs=31.4
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHH
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE 802 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E 802 (1479)
.|+--..|.|||+.++.++..+.... ....++++|+...+.+...+
T Consensus 4 ~~I~G~aGTGKTvla~~l~~~l~~~~--~~~~~~~l~~n~~l~~~l~~ 49 (352)
T PF09848_consen 4 ILITGGAGTGKTVLALNLAKELQNSE--EGKKVLYLCGNHPLRNKLRE 49 (352)
T ss_pred EEEEecCCcCHHHHHHHHHHHhhccc--cCCceEEEEecchHHHHHHH
Confidence 35555789999999999988872221 23577888886666655443
No 196
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=93.75 E-value=0.87 Score=56.15 Aligned_cols=61 Identities=21% Similarity=0.232 Sum_probs=41.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 793 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~ 793 (1479)
..++|-|.. +|.+. +| +-+.++.|+|-.+.|.|||+.-++++..+..+.+. .-.-||-|..
T Consensus 15 ~~iYPEQ~~---YM~el-----Kr--sLDakGh~llEMPSGTGKTvsLLSli~aYq~~~p~-~~~KliYCSR 75 (755)
T KOG1131|consen 15 DYIYPEQYE---YMREL-----KR--SLDAKGHCLLEMPSGTGKTVSLLSLIIAYQLHYPD-EHRKLIYCSR 75 (755)
T ss_pred cccCHHHHH---HHHHH-----HH--hhccCCcEEEECCCCCCcchHHHHHHHHHHHhCCc-ccceEEEecC
Confidence 457888865 55431 11 12566789999999999999999998887765442 2345666653
No 197
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=93.73 E-value=0.41 Score=63.31 Aligned_cols=135 Identities=21% Similarity=0.153 Sum_probs=82.0
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 800 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~ 800 (1479)
...|-+-|+++++.+.. ..-.+|--..|.|||..+-+++..+...+ +..++++++|........
T Consensus 321 ~~~l~~~Q~~Ai~~~~~--------------~~~~iitGgpGTGKTt~l~~i~~~~~~~~--~~~~v~l~ApTg~AA~~L 384 (720)
T TIGR01448 321 RKGLSEEQKQALDTAIQ--------------HKVVILTGGPGTGKTTITRAIIELAEELG--GLLPVGLAAPTGRAAKRL 384 (720)
T ss_pred CCCCCHHHHHHHHHHHh--------------CCeEEEECCCCCCHHHHHHHHHHHHHHcC--CCceEEEEeCchHHHHHH
Confidence 34688999999987631 24688999999999988777766554332 125788899988877655
Q ss_pred HHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 801 QEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 801 ~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
.|.. .. ... ....++ .|.... +. . ... -.....++||||
T Consensus 385 ~e~~---g~-----~a~--------Tih~lL-~~~~~~---------~~---------~----~~~--~~~~~~~llIvD 423 (720)
T TIGR01448 385 GEVT---GL-----TAS--------TIHRLL-GYGPDT---------FR---------H----NHL--EDPIDCDLLIVD 423 (720)
T ss_pred HHhc---CC-----ccc--------cHHHHh-hccCCc---------cc---------h----hhh--hccccCCEEEEe
Confidence 5431 10 000 000111 110000 00 0 000 001267899999
Q ss_pred CCcccCCcchHHHHHHHhcccceEEEeeCCCCcc
Q 000464 881 EAHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 914 (1479)
Q Consensus 881 EAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqN 914 (1479)
||+.+-. ......+..+....|++|-|=|-|-
T Consensus 424 EaSMvd~--~~~~~Ll~~~~~~~rlilvGD~~QL 455 (720)
T TIGR01448 424 ESSMMDT--WLALSLLAALPDHARLLLVGDTDQL 455 (720)
T ss_pred ccccCCH--HHHHHHHHhCCCCCEEEEECccccc
Confidence 9999943 3456666777888899999988763
No 198
>PRK04296 thymidine kinase; Provisional
Probab=93.39 E-value=0.24 Score=54.69 Aligned_cols=34 Identities=18% Similarity=0.242 Sum_probs=25.6
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
.++.-+||.|||..++.++..+... .++++|+-|
T Consensus 5 ~litG~~GsGKTT~~l~~~~~~~~~----g~~v~i~k~ 38 (190)
T PRK04296 5 EFIYGAMNSGKSTELLQRAYNYEER----GMKVLVFKP 38 (190)
T ss_pred EEEECCCCCHHHHHHHHHHHHHHHc----CCeEEEEec
Confidence 4677899999999888888776543 247777755
No 199
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.22 E-value=0.4 Score=65.18 Aligned_cols=83 Identities=13% Similarity=0.154 Sum_probs=50.9
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-H-HH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-N-WK 800 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-q-W~ 800 (1479)
..||-|.+-+..+.+.+. .+.-+++=..+|+|||+--+.-+..... ...++++|-+++..+. | +.
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 678999988877776652 2345667779999999876544332222 1236888888866665 4 34
Q ss_pred HH---HHHhCCCCCCCeEEEEecC
Q 000464 801 QE---FMKWRPSELKPLRVFMLED 821 (1479)
Q Consensus 801 ~E---~~kw~P~~~~~l~V~~l~g 821 (1479)
.+ +.+-++. ++++.++.|
T Consensus 324 kDiP~L~~~~~~---~~~~~~lKG 344 (928)
T PRK08074 324 KDIPLLQKIFPF---PVEAALLKG 344 (928)
T ss_pred hhHHHHHHHcCC---CceEEEEEc
Confidence 43 3444543 355555444
No 200
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=93.18 E-value=0.6 Score=60.50 Aligned_cols=146 Identities=16% Similarity=0.117 Sum_probs=82.0
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHH
Q 000464 725 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 804 (1479)
Q Consensus 725 rPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 804 (1479)
-+.|+.++.-... ..-++|.-..|.|||.++..++..+.........++++++|+.-...=..|-.
T Consensus 154 ~d~Qk~Av~~a~~--------------~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~ 219 (615)
T PRK10875 154 VDWQKVAAAVALT--------------RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESL 219 (615)
T ss_pred CHHHHHHHHHHhc--------------CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHH
Confidence 4899999975532 35688899999999999888888776543222246888899876654443322
Q ss_pred H-hCCCCCCCeEEEEecCcch---hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEc
Q 000464 805 K-WRPSELKPLRVFMLEDVSR---DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCD 880 (1479)
Q Consensus 805 k-w~P~~~~~l~V~~l~g~~~---~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlD 880 (1479)
. -... +.+ .+..+ ......+..+... ... ...+. ........+|+||||
T Consensus 220 ~~~~~~----~~~---~~~~~~~~~~~a~TiHrlLg~------~~~------------~~~~~--~~~~~~l~~dvlIvD 272 (615)
T PRK10875 220 GKALRQ----LPL---TDEQKKRIPEEASTLHRLLGA------QPG------------SQRLR--YHAGNPLHLDVLVVD 272 (615)
T ss_pred Hhhhhc----ccc---chhhhhcCCCchHHHHHHhCc------CCC------------ccchh--hccccCCCCCeEEEC
Confidence 1 1110 000 00000 0001111111000 000 00000 000111267999999
Q ss_pred CCcccCCcchHHHHHHHhcccceEEEeeCCCCc
Q 000464 881 EAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 913 (1479)
Q Consensus 881 EAH~IKN~~Sk~skalk~Lka~rRllLTGTPLq 913 (1479)
||-.+- ....++.+..+....|++|-|=|-|
T Consensus 273 EaSMvd--~~lm~~ll~al~~~~rlIlvGD~~Q 303 (615)
T PRK10875 273 EASMVD--LPMMARLIDALPPHARVIFLGDRDQ 303 (615)
T ss_pred hHhccc--HHHHHHHHHhcccCCEEEEecchhh
Confidence 999984 3456677788888899999998865
No 201
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=93.00 E-value=1.1 Score=59.00 Aligned_cols=157 Identities=17% Similarity=0.156 Sum_probs=88.6
Q ss_pred ccCchhhh----hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEE
Q 000464 715 RIPSSISA----KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIV 790 (1479)
Q Consensus 715 ~vP~~L~~----~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV 790 (1479)
.++|.+.. .|-.-|++|+...+.. .....|++. .|+|||-+..+++..+... .+.+|+.
T Consensus 657 ~~~p~~~~~~~~~LN~dQr~A~~k~L~a------------edy~LI~GM-PGTGKTTtI~~LIkiL~~~----gkkVLLt 719 (1100)
T KOG1805|consen 657 VLIPKIKKIILLRLNNDQRQALLKALAA------------EDYALILGM-PGTGKTTTISLLIKILVAL----GKKVLLT 719 (1100)
T ss_pred ccCchhhHHHHhhcCHHHHHHHHHHHhc------------cchheeecC-CCCCchhhHHHHHHHHHHc----CCeEEEE
Confidence 34455444 8889999998766432 223445544 5999999888888777654 3588888
Q ss_pred ech-hhHHHHHHHHHHhCCCCCCCeEEEEecCcchh------------HHHHHHHHHhhcCCEEEEeccccccccccccc
Q 000464 791 TPV-NVLHNWKQEFMKWRPSELKPLRVFMLEDVSRD------------RRAELLAKWRAKGGVFLIGYTAFRNLSFGKHV 857 (1479)
Q Consensus 791 ~P~-sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~------------~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~ 857 (1479)
+=+ +-|.|-.--+..+--. -+++...+...+. +....+..+.....|+.+|--.+..
T Consensus 720 syThsAVDNILiKL~~~~i~---~lRLG~~~kih~~v~e~~~~~~~s~ks~~~l~~~~~~~~IVa~TClgi~~------- 789 (1100)
T KOG1805|consen 720 SYTHSAVDNILIKLKGFGIY---ILRLGSEEKIHPDVEEFTLTNETSEKSYADLKKFLDQTSIVACTCLGINH------- 789 (1100)
T ss_pred ehhhHHHHHHHHHHhccCcc---eeecCCccccchHHHHHhcccccchhhHHHHHHHhCCCcEEEEEccCCCc-------
Confidence 864 4577776666554211 1222111111111 1112222333333344333221110
Q ss_pred cchhhHHHHHhhh-cCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCc
Q 000464 858 KDRNMAREICHAL-QDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 913 (1479)
Q Consensus 858 kd~~~~~~l~~lL-~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLq 913 (1479)
.++ ...||++|+|||-.|--| -++--|....+++|-|-+.|
T Consensus 790 ----------plf~~R~FD~cIiDEASQI~lP-----~~LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 790 ----------PLFVNRQFDYCIIDEASQILLP-----LCLGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred ----------hhhhccccCEEEEccccccccc-----hhhhhhhhcceEEEeccccc
Confidence 112 237999999999877443 23445567788899898766
No 202
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=92.76 E-value=0.66 Score=59.89 Aligned_cols=148 Identities=18% Similarity=0.153 Sum_probs=81.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhccc-CCCceEEEechhhHHHHHHH-H
Q 000464 726 AHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNL-GLRTALIVTPVNVLHNWKQE-F 803 (1479)
Q Consensus 726 PhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~-~~k~vLIV~P~sLl~qW~~E-~ 803 (1479)
+.|+.++..... ..-++|.-..|.|||.++..++..+...... +..++++++|+.-...=..| +
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 799999877643 3568889999999999988888777654321 11368999998765543333 2
Q ss_pred HHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCc
Q 000464 804 MKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAH 883 (1479)
Q Consensus 804 ~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH 883 (1479)
..-... +... ... .. .-.+-..|...+ +..... ...+.. ..--...+|+||||||-
T Consensus 214 ~~~~~~----l~~~------~~~----~~----~~~~~a~TiHrl--Lg~~~~--~~~~~~--~~~~~l~~dvlIiDEaS 269 (586)
T TIGR01447 214 RKAVKN----LAAA------EAL----IA----ALPSEAVTIHRL--LGIKPD--TKRFRH--HERNPLPLDVLVVDEAS 269 (586)
T ss_pred Hhhhcc----cccc------hhh----hh----ccccccchhhhh--hcccCC--cchhhh--cccCCCcccEEEEcccc
Confidence 221111 1000 000 00 000000111111 000000 000000 00011268999999999
Q ss_pred ccCCcchHHHHHHHhcccceEEEeeCCCCc
Q 000464 884 MIKNTRADTTQALKQVKCQRRIALTGSPLQ 913 (1479)
Q Consensus 884 ~IKN~~Sk~skalk~Lka~rRllLTGTPLq 913 (1479)
.+-. ....+.+..++...|++|.|=|-|
T Consensus 270 Mvd~--~l~~~ll~al~~~~rlIlvGD~~Q 297 (586)
T TIGR01447 270 MVDL--PLMAKLLKALPPNTKLILLGDKNQ 297 (586)
T ss_pred cCCH--HHHHHHHHhcCCCCEEEEECChhh
Confidence 8843 356667777888889999998866
No 203
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=92.57 E-value=2.3 Score=52.30 Aligned_cols=76 Identities=8% Similarity=0.125 Sum_probs=50.0
Q ss_pred CCCCEEEEcCCcccCCcch---HHHHHHHhcc--cceEEEeeCCCCccchhHHHhhhhhhccC-----------CCCChH
Q 000464 872 DGPDILVCDEAHMIKNTRA---DTTQALKQVK--CQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSH 935 (1479)
Q Consensus 872 ~~~dlVIlDEAH~IKN~~S---k~skalk~Lk--a~rRllLTGTPLqNnL~EL~sLL~FL~P~-----------~Lgs~~ 935 (1479)
.++|+||||++.+...... .+...+..+. ....++|+||-=+|.+.+++.-+..+.+. .+|..-
T Consensus 253 ~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~~~~I~TKlDet~~~G~~l 332 (388)
T PRK12723 253 KDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSYKTVIFTKLDETTCVGNLI 332 (388)
T ss_pred CCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeccCCCcchHHH
Confidence 3789999999998754322 2222333332 24679999999999999888877666544 234445
Q ss_pred HHHhhhcCCccc
Q 000464 936 EFRNRFQNPIEN 947 (1479)
Q Consensus 936 eF~~~F~~PI~~ 947 (1479)
.+...+..|+..
T Consensus 333 ~~~~~~~~Pi~y 344 (388)
T PRK12723 333 SLIYEMRKEVSY 344 (388)
T ss_pred HHHHHHCCCEEE
Confidence 566666777654
No 204
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=92.15 E-value=0.77 Score=60.59 Aligned_cols=97 Identities=19% Similarity=0.221 Sum_probs=63.0
Q ss_pred HHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCC
Q 000464 1120 MVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKR 1199 (1479)
Q Consensus 1120 l~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~ 1199 (1479)
...+.+.|..+...+.++|||..+..++..+...|... .++. +.+.|.. .|.++++.|.+.-+..
T Consensus 520 ~~~~~~~i~~l~~~~gg~LVlFtSy~~l~~v~~~l~~~-----------~~~~-ll~Q~~~---~~~~ll~~f~~~~~~~ 584 (697)
T PRK11747 520 TAEMAEFLPELLEKHKGSLVLFASRRQMQKVADLLPRD-----------LRLM-LLVQGDQ---PRQRLLEKHKKRVDEG 584 (697)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHh-----------cCCc-EEEeCCc---hHHHHHHHHHHHhccC
Confidence 34555555554445566888888888889888888641 1222 3445642 5788997776420000
Q ss_pred ceEEEeeccccccccCccc--cCEEEEEeCCC-Cc
Q 000464 1200 VKCTLISTRAGSLGINLHS--ANRVIIVDGSW-NP 1231 (1479)
Q Consensus 1200 v~VfLISTkAGGeGLNLt~--AnrVIifDp~W-NP 1231 (1479)
-.-+|+.+....+|||+.+ ...|||.-.|+ +|
T Consensus 585 ~~~VL~g~~sf~EGVD~pGd~l~~vII~kLPF~~p 619 (697)
T PRK11747 585 EGSVLFGLQSFAEGLDLPGDYLTQVIITKIPFAVP 619 (697)
T ss_pred CCeEEEEeccccccccCCCCceEEEEEEcCCCCCC
Confidence 0124777788999999986 68899988776 45
No 205
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=92.11 E-value=1.4 Score=50.92 Aligned_cols=27 Identities=22% Similarity=0.032 Sum_probs=21.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..+.+|.-+.|+|||..|-++...+..
T Consensus 42 ~~~vll~GppGtGKTtlA~~ia~~l~~ 68 (261)
T TIGR02881 42 VLHMIFKGNPGTGKTTVARILGKLFKE 68 (261)
T ss_pred cceEEEEcCCCCCHHHHHHHHHHHHHh
Confidence 456789999999999888777665543
No 206
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=91.98 E-value=1.7 Score=43.80 Aligned_cols=26 Identities=23% Similarity=0.085 Sum_probs=19.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
.+...++.-+.|.|||..+-.++..+
T Consensus 18 ~~~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 18 PPKNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 45678999999999997666665554
No 207
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=91.98 E-value=0.095 Score=66.16 Aligned_cols=48 Identities=27% Similarity=0.662 Sum_probs=37.6
Q ss_pred ccccccCCCC---ceeecCCcccc-cchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 535 CYCVWCGRSS---DLVSCKSCKTL-FCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 535 ~~C~~C~~gg---~L~~Cd~C~r~-Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
.-|.+|+-.- -||.||.|..+ ||..||++.+... +.++|+|..|.-..
T Consensus 216 ~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~ei------P~~eWYC~NC~dL~ 267 (1134)
T KOG0825|consen 216 VKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSES------PVNEWYCTNCSLLE 267 (1134)
T ss_pred ccceeeccCChHHhheeecccccceeeccccCcccccc------cccceecCcchhhh
Confidence 3499998443 57899999999 9999998876544 44699999996543
No 208
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=91.01 E-value=0.084 Score=69.10 Aligned_cols=58 Identities=21% Similarity=0.249 Sum_probs=46.0
Q ss_pred cccccCCCCceeecCC-cccccch-hhhcccCCcccccccccCCCceeecCCch---hHHHHHHHHH
Q 000464 536 YCVWCGRSSDLVSCKS-CKTLFCT-TCVKRNISEACLSDEVQASCWQCCCCSPS---LLKRLTSELG 597 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~-C~r~Fc~-~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~---~l~~L~~~~~ 597 (1479)
.|++|+.-|.++||+. ||..||. .||+ ..++..-..++.|.|.-|... +...|.++++
T Consensus 430 rl~Ie~~det~l~yysT~pqly~ll~cLd----~~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R 492 (1414)
T KOG1473|consen 430 RLRIEGMDETLLWYYSTCPQLYHLLRCLD----RTYVEMYLCDGIWERREEIIRQMGLTEELTNELR 492 (1414)
T ss_pred eeEEecCCCcEEEEecCcHHHHHHHHHhc----hHHHHHhhccchhhhHHHHHHhccchhhhhhhhh
Confidence 3999999999999999 9999998 9964 445555667899999999533 4466666665
No 209
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=90.79 E-value=1 Score=44.76 Aligned_cols=44 Identities=16% Similarity=0.098 Sum_probs=29.8
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 799 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW 799 (1479)
+...+|.-.+|.|||..+..++..+.... ..++++.+......+
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~~----~~~~~~~~~~~~~~~ 45 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPPG----GGVIYIDGEDILEEV 45 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCCC----CCEEEECCEEccccC
Confidence 35678999999999988888776653221 256777766554443
No 210
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=90.64 E-value=0.63 Score=55.66 Aligned_cols=37 Identities=27% Similarity=0.436 Sum_probs=27.1
Q ss_pred CEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCc
Q 000464 875 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQ 913 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLq 913 (1479)
.+||+|||+++-.+ .+-..+.+.-...+|+|||-|-|
T Consensus 353 ~FiIIDEaQNLTph--eikTiltR~G~GsKIVl~gd~aQ 389 (436)
T COG1875 353 SFIIIDEAQNLTPH--ELKTILTRAGEGSKIVLTGDPAQ 389 (436)
T ss_pred ceEEEehhhccCHH--HHHHHHHhccCCCEEEEcCCHHH
Confidence 35999999988432 33344556677889999999965
No 211
>PRK08116 hypothetical protein; Validated
Probab=90.03 E-value=8.4 Score=45.10 Aligned_cols=46 Identities=20% Similarity=0.290 Sum_probs=32.4
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
+.|.+|.-+.|.|||..+.|++..+...+ .+++++.-..++.....
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l~~~~----~~v~~~~~~~ll~~i~~ 159 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANELIEKG----VPVIFVNFPQLLNRIKS 159 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHHHcC----CeEEEEEHHHHHHHHHH
Confidence 45799999999999999999888876542 35655554444444433
No 212
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=89.77 E-value=1.8 Score=51.04 Aligned_cols=41 Identities=20% Similarity=0.078 Sum_probs=28.0
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 791 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~ 791 (1479)
++.+.+|.-+.|.|||..|-++...+...+....++++.+.
T Consensus 57 ~~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~ 97 (284)
T TIGR02880 57 PTLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT 97 (284)
T ss_pred CCceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec
Confidence 45578899999999999988877776554333223444444
No 213
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=89.73 E-value=1.4 Score=57.67 Aligned_cols=94 Identities=19% Similarity=0.309 Sum_probs=52.7
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccC--CccEEEecCCCCHHHHHHHHHHHh----CCCCCCceEEEeec
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKK--GKDWYRLDGRTESSERQKLVERFN----EPLNKRVKCTLIST 1207 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~--Gi~y~rLdGsts~~eRq~lI~~FN----~~~n~~v~VfLIST 1207 (1479)
.+.+|||-.+-.+++-+..+... ..+|.. +..-+.+-- .+..+=.+++.+|. ++....+-.|-+.-
T Consensus 561 p~G~L~FfPSY~vmdk~~tfw~~-------~~~we~~~~vk~l~vEP-r~k~~f~e~m~~y~~~i~~pes~ga~~~aVcR 632 (945)
T KOG1132|consen 561 PYGLLIFFPSYPVMDKLITFWQN-------RGLWERMEKVKKLVVEP-RSKSEFTEVMSRYYNAIADPESSGAVFFAVCR 632 (945)
T ss_pred ccceEEeccchHHHHHHHHHHHc-------chHHHHhhcccCceecc-CCccchHHHHHHHHHHhhCccccceEEEEEec
Confidence 45599999998888888666653 112321 111111111 12223334445553 22222232455666
Q ss_pred cccccccCcc--ccCEEEEEeCCCCcchHH
Q 000464 1208 RAGSLGINLH--SANRVIIVDGSWNPTYDL 1235 (1479)
Q Consensus 1208 kAGGeGLNLt--~AnrVIifDp~WNPa~d~ 1235 (1479)
...++||++. .+.-||+.-.++=|..|.
T Consensus 633 GKVSEGlDFsD~~~RaVI~tGlPyP~~~D~ 662 (945)
T KOG1132|consen 633 GKVSEGLDFSDDNGRAVIITGLPYPPVMDP 662 (945)
T ss_pred ccccCCCCccccCCceeEEecCCCCCCCCH
Confidence 6788999997 467778888887666554
No 214
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.31 E-value=0.16 Score=63.57 Aligned_cols=45 Identities=27% Similarity=0.634 Sum_probs=36.7
Q ss_pred ccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 535 CYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 535 ~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
.-|++|..||.++||+.||-+||..|.+..+.+. .....|.|-.|
T Consensus 48 ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~-----~~~~~~~~~~~ 92 (613)
T KOG4299|consen 48 TSCGICKSGGNLLCCDHCPASFHLECDKPPLSPD-----LKGSEINCSRC 92 (613)
T ss_pred hhcchhhhcCCccccccCccccchhccCcccCcc-----cccccccccCC
Confidence 4799999999999999999999999988777633 23355766666
No 215
>CHL00181 cbbX CbbX; Provisional
Probab=89.22 E-value=2.7 Score=49.64 Aligned_cols=46 Identities=20% Similarity=0.165 Sum_probs=29.8
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 796 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl 796 (1479)
.+...+|.-+.|.|||..|-++...+...+....++++.|.+..++
T Consensus 58 ~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~ 103 (287)
T CHL00181 58 PGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLV 103 (287)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHH
Confidence 3445789999999999999888776654433333444444434333
No 216
>PRK06526 transposase; Provisional
Probab=88.94 E-value=2.1 Score=49.73 Aligned_cols=29 Identities=21% Similarity=0.196 Sum_probs=24.2
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.+.+.+|.-..|.|||..+.++...+...
T Consensus 97 ~~~nlll~Gp~GtGKThLa~al~~~a~~~ 125 (254)
T PRK06526 97 GKENVVFLGPPGTGKTHLAIGLGIRACQA 125 (254)
T ss_pred cCceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence 45789999999999999999988776543
No 217
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=88.41 E-value=3.1 Score=46.54 Aligned_cols=27 Identities=22% Similarity=-0.018 Sum_probs=21.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
.+...+|.-+.|.|||..+.++.....
T Consensus 37 ~~~~lll~G~~G~GKT~la~~~~~~~~ 63 (226)
T TIGR03420 37 GDRFLYLWGESGSGKSHLLQAACAAAE 63 (226)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 456788999999999998888776553
No 218
>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=86.81 E-value=5.4 Score=43.09 Aligned_cols=48 Identities=23% Similarity=0.247 Sum_probs=35.4
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHHh
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 806 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 806 (1479)
.+++-+.|.|||..++.|++..... ..++++|.......+....+..+
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~~~----g~~v~~~s~e~~~~~~~~~~~~~ 49 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGLAR----GEPGLYVTLEESPEELIENAESL 49 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHHHC----CCcEEEEECCCCHHHHHHHHHHc
Confidence 3678899999999999988877643 25888998766666655555544
No 219
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=85.81 E-value=1.3 Score=56.86 Aligned_cols=173 Identities=16% Similarity=0.148 Sum_probs=99.6
Q ss_pred cCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechh-
Q 000464 716 IPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVN- 794 (1479)
Q Consensus 716 vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~s- 794 (1479)
.|........|||++-+..|-. .......+.-..-+|||..++.++.+.+... ..|+|+|.|.-
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 4555677889999987766522 2346788888899999998777776654432 36999999954
Q ss_pred hHHHHHHH-HHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCC
Q 000464 795 VLHNWKQE-FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDG 873 (1479)
Q Consensus 795 Ll~qW~~E-~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~ 873 (1479)
....|..+ |...+... ..++-.+.....+........+....+.+.+++..+-..+ -...
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 55567643 43332110 0011011110001111111122223344555555443222 1226
Q ss_pred CCEEEEcCCccc----CCcchHHHHHHHhc---ccceEEEeeCCCCccchhHHHhh
Q 000464 874 PDILVCDEAHMI----KNTRADTTQALKQV---KCQRRIALTGSPLQNNLMEYYCM 922 (1479)
Q Consensus 874 ~dlVIlDEAH~I----KN~~Sk~skalk~L---ka~rRllLTGTPLqNnL~EL~sL 922 (1479)
.++|++||...+ ++....+..+..+. ...+++++..||....-.-++.+
T Consensus 135 ~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~ 190 (557)
T PF05876_consen 135 ARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERL 190 (557)
T ss_pred cCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHH
Confidence 789999999987 34455666666554 46689999999987654444443
No 220
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=85.66 E-value=0.4 Score=60.42 Aligned_cols=43 Identities=28% Similarity=0.722 Sum_probs=34.3
Q ss_pred cccccC---CCCceeecCCcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 536 YCVWCG---RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 536 ~C~~C~---~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
.|-.|+ +.+.++.|+.|-=+||-.|++|..- ..+.++|.|.-|
T Consensus 70 vCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~------~v~sg~~~ckk~ 115 (694)
T KOG4443|consen 70 VCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPND------KVPSGPWLCKKC 115 (694)
T ss_pred eeeeccccCCcccccccccccccccccccCCccc------cccCcccccHHH
Confidence 566776 4457899999999999999887653 457899998777
No 221
>PF13245 AAA_19: Part of AAA domain
Probab=85.52 E-value=2.5 Score=39.94 Aligned_cols=46 Identities=15% Similarity=0.130 Sum_probs=34.5
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 799 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW 799 (1479)
-.++--..|.|||.+++..+..+........+++|||+|.....+.
T Consensus 12 ~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~ 57 (76)
T PF13245_consen 12 LFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADE 57 (76)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHH
Confidence 3555889999999999998888875422225689999997765543
No 222
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.36 E-value=1.1 Score=54.83 Aligned_cols=34 Identities=32% Similarity=0.447 Sum_probs=27.4
Q ss_pred CcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHH
Q 000464 1230 NPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEE 1263 (1479)
Q Consensus 1230 NPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEE 1263 (1479)
.|..-.||.-|++|.|.++|-.-+||.++..++.
T Consensus 358 ~PISkasA~qR~gragrt~pGkcfrLYte~~~~~ 391 (699)
T KOG0925|consen 358 SPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEK 391 (699)
T ss_pred ccchHhHHHHHhhhccCCCCCceEEeecHHhhhh
Confidence 4666778888999999999999999998765543
No 223
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=85.29 E-value=0.39 Score=54.35 Aligned_cols=46 Identities=33% Similarity=0.803 Sum_probs=34.6
Q ss_pred CCCcccccccC--CCCceeecCC--ccc-ccchhhhcccCCcccccccccCCCceeecCC
Q 000464 531 DCSECYCVWCG--RSSDLVSCKS--CKT-LFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 531 d~~~~~C~~C~--~gg~L~~Cd~--C~r-~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
.|..-||- |. .=|+.+-||+ |+| =||..|+ |-. ..|.|.|+|.-|.
T Consensus 218 e~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CV----GLk----~pPKG~WYC~eCk 268 (271)
T COG5034 218 EGEELYCF-CQQVSYGQMVACDNANCKREWFHLECV----GLK----EPPKGKWYCPECK 268 (271)
T ss_pred cCceeEEE-ecccccccceecCCCCCchhheecccc----ccC----CCCCCcEeCHHhH
Confidence 34555663 44 4489999999 998 7999995 444 5677999999884
No 224
>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=85.09 E-value=13 Score=42.73 Aligned_cols=22 Identities=23% Similarity=0.274 Sum_probs=16.8
Q ss_pred ceEEEcCCCchHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYT 775 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ 775 (1479)
-.+|.-+.|.|||..+-.++..
T Consensus 45 ~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 45 FILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred EEEEEcCCCCCHHHHHHHHHHh
Confidence 3678899999999777665443
No 225
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=84.94 E-value=10 Score=50.69 Aligned_cols=46 Identities=15% Similarity=0.171 Sum_probs=29.6
Q ss_pred cHHHHHHHHHHHHHHHHhhhhhcCCCCCcceE-EEcCCCchHHHHHHHHHHHHH
Q 000464 725 KAHQVVGIRFMWENIIQSIRKVKSGDKGLGCI-LAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 725 rPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgI-LADeMGLGKTLQaIAlL~~ll 777 (1479)
|.-|+.-|...+...+. +....++| +.-..|.|||.++-.++..+.
T Consensus 760 REeEIeeLasfL~paIk-------gsgpnnvLYIyG~PGTGKTATVK~VLrELq 806 (1164)
T PTZ00112 760 REKEIKEVHGFLESGIK-------QSGSNQILYISGMPGTGKTATVYSVIQLLQ 806 (1164)
T ss_pred hHHHHHHHHHHHHHHHh-------cCCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence 45566666555443331 12233454 899999999999988876654
No 226
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=84.71 E-value=0.54 Score=57.12 Aligned_cols=50 Identities=22% Similarity=0.630 Sum_probs=38.6
Q ss_pred cccccCCCC---ceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 536 YCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~gg---~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
.|.+|...- -|+.||+|...||.-||++++-+- ++-...-.|+|.-|+-.
T Consensus 546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~--Pkk~kn~gWqCsECdk~ 598 (707)
T KOG0957|consen 546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRL--PKKNKNFGWQCSECDKN 598 (707)
T ss_pred eeeeeccchhhHHHhhcchhhceeeccccCCccccC--cccccCcceeecccccc
Confidence 499997655 589999999999999999887554 22334567999999543
No 227
>PHA02533 17 large terminase protein; Provisional
Probab=84.62 E-value=13 Score=47.89 Aligned_cols=55 Identities=18% Similarity=0.077 Sum_probs=35.7
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
-.|.|+|+.-+..|+. ++-.++.-.=..|||..+.+++....... +...+++++|
T Consensus 58 f~L~p~Q~~i~~~~~~--------------~R~~ii~~aRq~GKStl~a~~al~~a~~~--~~~~v~i~A~ 112 (534)
T PHA02533 58 VQMRDYQKDMLKIMHK--------------NRFNACNLSRQLGKTTVVAIFLLHYVCFN--KDKNVGILAH 112 (534)
T ss_pred cCCcHHHHHHHHHHhc--------------CeEEEEEEcCcCChHHHHHHHHHHHHHhC--CCCEEEEEeC
Confidence 5688999988777631 12235666678999988776554433322 2347888888
No 228
>PRK07952 DNA replication protein DnaC; Validated
Probab=84.47 E-value=9 Score=44.31 Aligned_cols=43 Identities=19% Similarity=0.242 Sum_probs=30.8
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEF 803 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~ 803 (1479)
.|.+|.-..|.|||..+.+++..+...+ .+++++. +..|...+
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l~~~g----~~v~~it----~~~l~~~l 142 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNELLLRG----KSVLIIT----VADIMSAM 142 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHHhcC----CeEEEEE----HHHHHHHH
Confidence 5789999999999999999988876532 3555552 34455444
No 229
>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=83.95 E-value=0.61 Score=46.90 Aligned_cols=48 Identities=23% Similarity=0.694 Sum_probs=34.1
Q ss_pred cccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 538 VWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 538 ~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
++|..-+..--|..|...||..||....|.. +.++.....|.||.|.-
T Consensus 22 ~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~-~~ev~~~~~W~CP~Crg 69 (105)
T PF10497_consen 22 TICTGHWKNSSCRGCRGKFCGGCLRNRYGEN-VEEVLEDPNWKCPKCRG 69 (105)
T ss_pred eEcCCCCCCCCCccCcceehHhHHHHHHhhh-HHHHhcCCceECCCCCC
Confidence 4443334444455569999999999988875 33466788999999854
No 230
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=83.83 E-value=4 Score=43.22 Aligned_cols=57 Identities=26% Similarity=0.472 Sum_probs=36.0
Q ss_pred EEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccc--cccccCccc--cCEEEEEeCCC-Ccc
Q 000464 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRA--GSLGINLHS--ANRVIIVDGSW-NPT 1232 (1479)
Q Consensus 1174 ~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkA--GGeGLNLt~--AnrVIifDp~W-NPa 1232 (1479)
+.+.+..+ .+...+++.|+...+.. ..+|+++.. .++||||++ +..||+.-.|+ ||.
T Consensus 23 i~~e~~~~-~~~~~~l~~f~~~~~~~-g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPfp~~~ 84 (142)
T smart00491 23 VFIEGKDS-GETEELLEKYSAACEAR-GALLLAVARGKVSEGIDFPDDLGRAVIIVGIPFPNPD 84 (142)
T ss_pred EEEECCCC-chHHHHHHHHHHhcCCC-CEEEEEEeCCeeecceecCCCccEEEEEEecCCCCCC
Confidence 34444432 34578999998743311 124555544 799999986 67888888775 443
No 231
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=83.65 E-value=21 Score=43.10 Aligned_cols=56 Identities=16% Similarity=0.200 Sum_probs=37.5
Q ss_pred cccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 714 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 714 v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
-++|+.+.. |..|+..+...+..... +..+.+.++.-+.|.|||..+-+++..+..
T Consensus 11 ~~~p~~l~g--Re~e~~~l~~~l~~~~~-------~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~ 66 (365)
T TIGR02928 11 DYVPDRIVH--RDEQIEELAKALRPILR-------GSRPSNVFIYGKTGTGKTAVTKYVMKELEE 66 (365)
T ss_pred CCCCCCCCC--cHHHHHHHHHHHHHHHc-------CCCCCcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 456665543 67777777655543321 234467888999999999988888776643
No 232
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=83.20 E-value=37 Score=42.17 Aligned_cols=75 Identities=15% Similarity=0.088 Sum_probs=42.9
Q ss_pred CCCEEEEcCCcccCCcchHHHH---HHHhcc-cceEEEeeCCCCccchhHHHhhhhhhccC-----------CCCChHHH
Q 000464 873 GPDILVCDEAHMIKNTRADTTQ---ALKQVK-CQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSHEF 937 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~sk---alk~Lk-a~rRllLTGTPLqNnL~EL~sLL~FL~P~-----------~Lgs~~eF 937 (1479)
++|+||||-+=+..+....+.. .+.... ....++|++|--.+.+.++...++.+... .+|..-..
T Consensus 320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~~idglI~TKLDET~k~G~iLni 399 (436)
T PRK11889 320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVFTKFDETASSGELLKI 399 (436)
T ss_pred CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCCCCCEEEEEcccCCCCccHHHHH
Confidence 6899999988665433222222 222222 22346677887777777777766655433 23444455
Q ss_pred HhhhcCCccc
Q 000464 938 RNRFQNPIEN 947 (1479)
Q Consensus 938 ~~~F~~PI~~ 947 (1479)
...+..||..
T Consensus 400 ~~~~~lPIsy 409 (436)
T PRK11889 400 PAVSSAPIVL 409 (436)
T ss_pred HHHHCcCEEE
Confidence 6666777654
No 233
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=83.06 E-value=16 Score=45.57 Aligned_cols=56 Identities=14% Similarity=0.192 Sum_probs=37.9
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc------ccceEEEeeCCCCccchhHHHhhhhhhccC
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV------KCQRRIALTGSPLQNNLMEYYCMVDFVREG 929 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L------ka~rRllLTGTPLqNnL~EL~sLL~FL~P~ 929 (1479)
++|+||||-+-+...... ....+..+ .....++|++|+=.+.+.+++..+..+.+.
T Consensus 299 ~~DlVlIDt~G~~~~d~~-~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~~ 360 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKR-LIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPLD 360 (424)
T ss_pred CCCEEEEeCCCCCCCCHH-HHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCCC
Confidence 689999999876543222 22222222 234579999999888999888888877653
No 234
>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=82.49 E-value=17 Score=40.97 Aligned_cols=52 Identities=21% Similarity=0.331 Sum_probs=37.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh-cccCCCceEEEechhhHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS-VNLGLRTALIVTPVNVLHNWKQEFMKW 806 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~-~~~~~k~vLIV~P~sLl~qW~~E~~kw 806 (1479)
.|.-.+++-+.|.|||+-++-|++..... +. +++.|.-.....++.+.+..+
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge----~vlyvs~ee~~~~l~~~~~s~ 70 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGE----KVLYVSFEEPPEELIENMKSF 70 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT------EEEEESSS-HHHHHHHHHTT
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCC----cEEEEEecCCHHHHHHHHHHc
Confidence 34557889999999999999999887665 43 788888655566666666654
No 235
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=82.44 E-value=12 Score=49.60 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....||.-.-|+|||..+..|...+..
T Consensus 38 ~HAyLFtGPpGvGKTTlAriLAKaLnC 64 (830)
T PRK07003 38 HHAYLFTGTRGVGKTTLSRIFAKALNC 64 (830)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345688999999999988888877653
No 236
>PLN03025 replication factor C subunit; Provisional
Probab=82.39 E-value=9.1 Score=45.77 Aligned_cols=26 Identities=27% Similarity=0.290 Sum_probs=21.6
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
....||.-+.|.|||..+.+++..+.
T Consensus 34 ~~~lll~Gp~G~GKTtla~~la~~l~ 59 (319)
T PLN03025 34 MPNLILSGPPGTGKTTSILALAHELL 59 (319)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHHh
Confidence 34689999999999999888877764
No 237
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=82.23 E-value=6 Score=41.84 Aligned_cols=55 Identities=25% Similarity=0.394 Sum_probs=37.4
Q ss_pred EEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccccCccc--cCEEEEEeCCC-Ccc
Q 000464 1174 YRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLGINLHS--ANRVIIVDGSW-NPT 1232 (1479)
Q Consensus 1174 ~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeGLNLt~--AnrVIifDp~W-NPa 1232 (1479)
+.+-|. ...+...+++.|...... .+|+++...++|||+++ +..||+.-.|+ ||.
T Consensus 26 i~~e~~-~~~~~~~~l~~f~~~~~~---~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~~~ 83 (141)
T smart00492 26 LLVQGE-DGKETGKLLEKYVEACEN---AILLATARFSEGVDFPGDYLRAVIIDGLPFPYPD 83 (141)
T ss_pred EEEeCC-ChhHHHHHHHHHHHcCCC---EEEEEccceecceecCCCCeeEEEEEecCCCCCC
Confidence 344443 334578899999874222 25777766999999986 57788888665 444
No 238
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=82.02 E-value=7.2 Score=49.17 Aligned_cols=25 Identities=20% Similarity=0.101 Sum_probs=20.8
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
...|+.-+.|.|||..|..|+..+.
T Consensus 41 ha~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 41 HAYIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhcC
Confidence 3469999999999998888877664
No 239
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=81.86 E-value=7.1 Score=46.46 Aligned_cols=24 Identities=25% Similarity=0.182 Sum_probs=20.9
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
..+|.-+.|.|||..+.++...+.
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 688999999999999988887764
No 240
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=81.37 E-value=0.59 Score=65.17 Aligned_cols=53 Identities=23% Similarity=0.621 Sum_probs=40.8
Q ss_pred CCCCcccccccCCCC---ceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 530 ADCSECYCVWCGRSS---DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 530 ~d~~~~~C~~C~~gg---~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
..-..-.|.+|...+ .++.||.|-.+||..|+++-+.. .+.+.|.|+-|.+..
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~------~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSS------VPPGDWMCPSCRKEH 1159 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhcc------CCcCCccCCccchhh
Confidence 333344799997555 57999999999999998766543 355679999999885
No 241
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=81.36 E-value=5.6 Score=47.94 Aligned_cols=46 Identities=13% Similarity=0.074 Sum_probs=34.1
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
++|+|....+-+... +......++.-+.|+|||..|.+|...++..
T Consensus 4 ~yPWl~~~~~~~~~~----------~r~~ha~Lf~G~~G~GK~~~A~~~A~~llC~ 49 (328)
T PRK05707 4 IYPWQQSLWQQLAGR----------GRHPHAYLLHGPAGIGKRALAERLAAALLCE 49 (328)
T ss_pred CCCCcHHHHHHHHHC----------CCcceeeeeECCCCCCHHHHHHHHHHHHcCC
Confidence 588888776655431 2334567788899999999999999888754
No 242
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=81.26 E-value=5.5 Score=54.13 Aligned_cols=107 Identities=21% Similarity=0.293 Sum_probs=71.3
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-----HHHHHHHHhCCCCCCCeEEEEecCcch
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-----NWKQEFMKWRPSELKPLRVFMLEDVSR 824 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-----qW~~E~~kw~P~~~~~l~V~~l~g~~~ 824 (1479)
..+...+++...|.|||+.| -++.+. +....++.-|+|...+. -|...|.+-.. +.+..+.|...
T Consensus 1157 ~~nd~v~vga~~gsgkt~~a--e~a~l~---~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~~G-----~~~~~l~ge~s 1226 (1674)
T KOG0951|consen 1157 NTNDNVLVGAPNGSGKTACA--ELALLR---PDTIGRAVYIAPLEEIADEQYRDWEKKFSKLLG-----LRIVKLTGETS 1226 (1674)
T ss_pred cccceEEEecCCCCchhHHH--HHHhcC---CccceEEEEecchHHHHHHHHHHHHHhhccccC-----ceEEecCCccc
Confidence 45678999999999999654 343332 33456899999977654 48777766532 55555555332
Q ss_pred hHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCc
Q 000464 825 DRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNT 888 (1479)
Q Consensus 825 ~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~ 888 (1479)
.. . +....++|+|.+.+.+..+. .....++.|+||.|.|...
T Consensus 1227 ~~-l----kl~~~~~vii~tpe~~d~lq-----------------~iQ~v~l~i~d~lh~igg~ 1268 (1674)
T KOG0951|consen 1227 LD-L----KLLQKGQVIISTPEQWDLLQ-----------------SIQQVDLFIVDELHLIGGV 1268 (1674)
T ss_pred cc-h----HHhhhcceEEechhHHHHHh-----------------hhhhcceEeeehhhhhccc
Confidence 11 1 12356889999998876541 1125788999999999754
No 243
>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=81.20 E-value=8.5 Score=51.42 Aligned_cols=60 Identities=13% Similarity=0.016 Sum_probs=43.1
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 798 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~q 798 (1479)
..|-+-|+.++..+.. ...-.+|-...|.|||..+-+++..+... ..++++++|......
T Consensus 351 ~~Ls~~Q~~Av~~i~~-------------s~~~~il~G~aGTGKTtll~~i~~~~~~~----g~~V~~~ApTg~Aa~ 410 (744)
T TIGR02768 351 YRLSEEQYEAVRHVTG-------------SGDIAVVVGRAGTGKSTMLKAAREAWEAA----GYRVIGAALSGKAAE 410 (744)
T ss_pred CCCCHHHHHHHHHHhc-------------CCCEEEEEecCCCCHHHHHHHHHHHHHhC----CCeEEEEeCcHHHHH
Confidence 4578999999987642 12357888999999998877766554332 247888899876553
No 244
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=80.72 E-value=8.2 Score=46.38 Aligned_cols=52 Identities=19% Similarity=0.241 Sum_probs=38.8
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
...++|+|....+.+...+. .+.-....++.-.-|+||+..|.+|+..++..
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~-------~~rl~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~ 53 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALD-------AGRLGHGLLICGPEGLGKRAVALALAEHVLAS 53 (319)
T ss_pred CccccccHHHHHHHHHHHHH-------cCCcceeEeeECCCCCCHHHHHHHHHHHHhCC
Confidence 45689999988776654432 22334567888999999999999999888754
No 245
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=80.35 E-value=14 Score=46.55 Aligned_cols=48 Identities=10% Similarity=-0.077 Sum_probs=29.6
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
..+.+|.-+.|+|||..+-|+...+..... ...++.|.+..++.....
T Consensus 141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~--~~~v~yv~~~~f~~~~~~ 188 (450)
T PRK14087 141 YNPLFIYGESGMGKTHLLKAAKNYIESNFS--DLKVSYMSGDEFARKAVD 188 (450)
T ss_pred cCceEEECCCCCcHHHHHHHHHHHHHHhCC--CCeEEEEEHHHHHHHHHH
Confidence 356889999999999887777665543221 234555555444433333
No 246
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=80.33 E-value=16 Score=47.99 Aligned_cols=26 Identities=19% Similarity=0.111 Sum_probs=21.5
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...|+.-+.|.|||..+..|...+..
T Consensus 39 hAyLf~Gp~GvGKTTlAr~lAk~L~c 64 (647)
T PRK07994 39 HAYLFSGTRGVGKTTIARLLAKGLNC 64 (647)
T ss_pred eEEEEECCCCCCHHHHHHHHHHhhhh
Confidence 44688999999999999888877754
No 247
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=80.20 E-value=0.75 Score=54.73 Aligned_cols=145 Identities=18% Similarity=0.195 Sum_probs=70.4
Q ss_pred CcceEEEcCCCchHHHHHHH-HHHHHHHh-cc----cCCCc-eEEEechhhHH-HHHHHHHHhCC----CCCCCeEEEE-
Q 000464 752 GLGCILAHTMGLGKTFQVIA-FLYTAMRS-VN----LGLRT-ALIVTPVNVLH-NWKQEFMKWRP----SELKPLRVFM- 818 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIA-lL~~ll~~-~~----~~~k~-vLIV~P~sLl~-qW~~E~~kw~P----~~~~~l~V~~- 818 (1479)
|+-.|=-.-+|.|||++-+. ++...+.+ .. .+-+| -|||||..-+. |-..-+..|+. .....++...
T Consensus 207 GRDmIGIAfTGSGKTlvFvLP~imf~LeqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~Lc 286 (610)
T KOG0341|consen 207 GRDMIGIAFTGSGKTLVFVLPVIMFALEQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLC 286 (610)
T ss_pred cCceeeEEeecCCceEEEeHHHHHHHHHHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhh
Confidence 34445455689999986322 22222221 11 12244 59999976544 44333333321 1111232221
Q ss_pred ecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCC--cchHHHHHH
Q 000464 819 LEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKN--TRADTTQAL 896 (1479)
Q Consensus 819 l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN--~~Sk~skal 896 (1479)
+.|......... ....-++++.|...+..+...+ .+ ...-..++.+|||.++-. ..-.+...+
T Consensus 287 iGG~~v~eql~~---v~~GvHivVATPGRL~DmL~KK-----~~-------sLd~CRyL~lDEADRmiDmGFEddir~iF 351 (610)
T KOG0341|consen 287 IGGVPVREQLDV---VRRGVHIVVATPGRLMDMLAKK-----IM-------SLDACRYLTLDEADRMIDMGFEDDIRTIF 351 (610)
T ss_pred hcCccHHHHHHH---HhcCeeEEEcCcchHHHHHHHh-----hc-------cHHHHHHhhhhhHHHHhhccchhhHHHHH
Confidence 223332222222 2344567788887765431111 00 011345689999999853 333344444
Q ss_pred Hhcccc-eEEEeeCCC
Q 000464 897 KQVKCQ-RRIALTGSP 911 (1479)
Q Consensus 897 k~Lka~-rRllLTGTP 911 (1479)
.-+++. ..++.|||-
T Consensus 352 ~~FK~QRQTLLFSATM 367 (610)
T KOG0341|consen 352 SFFKGQRQTLLFSATM 367 (610)
T ss_pred HHHhhhhheeeeeccc
Confidence 444544 468889885
No 248
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=79.94 E-value=0.56 Score=53.59 Aligned_cols=48 Identities=21% Similarity=0.528 Sum_probs=37.4
Q ss_pred CCCcccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchhH
Q 000464 531 DCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLL 589 (1479)
Q Consensus 531 d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~l 589 (1479)
|... .|++|..-=..-|=-.|...||.-||++++|.. =+|++|...|.
T Consensus 23 Ds~l-rC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~q----------p~CP~Cr~~~~ 70 (391)
T COG5432 23 DSML-RCRICDCRISIPCETTCGHTFCSLCIRRHLGTQ----------PFCPVCREDPC 70 (391)
T ss_pred hhHH-HhhhhhheeecceecccccchhHHHHHHHhcCC----------CCCccccccHH
Confidence 4444 788887776666666699999999999999876 25999987763
No 249
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.92 E-value=1.4 Score=55.35 Aligned_cols=41 Identities=22% Similarity=0.327 Sum_probs=29.9
Q ss_pred cCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHH
Q 000464 759 HTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQE 802 (1479)
Q Consensus 759 DeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E 802 (1479)
..+|.|||+++.++|...+..+ .+.+|..|- ++++..-..-
T Consensus 4 matgsgkt~~ma~lil~~y~kg---yr~flffvnq~nilekt~~n 45 (812)
T COG3421 4 MATGSGKTLVMAGLILECYKKG---YRNFLFFVNQANILEKTKLN 45 (812)
T ss_pred cccCCChhhHHHHHHHHHHHhc---hhhEEEEecchhHHHHHHhh
Confidence 3589999999999998887653 467777765 7777654443
No 250
>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=79.88 E-value=21 Score=44.64 Aligned_cols=113 Identities=16% Similarity=0.160 Sum_probs=86.2
Q ss_pred hhHHHHHH-HHHHhh--cCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1118 GKMVLLLD-ILTMCS--NMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1118 ~Kl~~L~e-IL~~~~--~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
.++..+.+ +|..+. ....++|||..+---.=.|..+|++ .++.|..++=-++.++-.++-..|..
T Consensus 281 ~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~------------~~~sF~~i~EYts~~~isRAR~~F~~ 348 (442)
T PF06862_consen 281 ARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKK------------ENISFVQISEYTSNSDISRARSQFFH 348 (442)
T ss_pred HHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHh------------cCCeEEEecccCCHHHHHHHHHHHHc
Confidence 45666555 444444 3457899998877666678888885 78999999999999999999999996
Q ss_pred CCCCCceEEEeeccccc-cccCccccCEEEEEeCCCCcchHHHHhHhhhhcC
Q 000464 1195 PLNKRVKCTLISTRAGS-LGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1245 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGG-eGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiG 1245 (1479)
++.+++|+|-++-= .=..+-++.+||+|.||-+|.-+...+.-+..-.
T Consensus 349 ---G~~~iLL~TER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~ 397 (442)
T PF06862_consen 349 ---GRKPILLYTERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESS 397 (442)
T ss_pred ---CCceEEEEEhHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccc
Confidence 56778888877532 2345778999999999999998887775554433
No 251
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=79.76 E-value=0.85 Score=57.17 Aligned_cols=60 Identities=30% Similarity=0.574 Sum_probs=40.7
Q ss_pred CCCcccccccCCCCceeecCC--------cccccchhhhcccCCccc----------ccccccCCCceeecCCchhHH
Q 000464 531 DCSECYCVWCGRSSDLVSCKS--------CKTLFCTTCVKRNISEAC----------LSDEVQASCWQCCCCSPSLLK 590 (1479)
Q Consensus 531 d~~~~~C~~C~~gg~L~~Cd~--------C~r~Fc~~Cl~~~~g~~~----------~~~~~~~~~W~C~~C~p~~l~ 590 (1479)
.-..++|.+|.+||.+++|+. |+.++|..|+.+...... +......-.|-|++|.+..+.
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~~~~~c~~~~~d~~~~~~~~~~~~vw~~vg~~~~~~c~vc~~~~~~ 163 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPAQLEKCSKRCTDCRAFKKREVGDLVWSKVGEYPWWPCMVCHDPLLP 163 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcCccCcccccCCcceeeeccccceeEEeEEcCcccccccceecCcccc
Confidence 344569999999999999993 888888888776322222 222223345779999876544
No 252
>PRK08084 DNA replication initiation factor; Provisional
Probab=79.75 E-value=14 Score=42.30 Aligned_cols=26 Identities=15% Similarity=-0.049 Sum_probs=20.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
+...+|.-+.|.|||--+.++...+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~~~~~ 70 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAACAELS 70 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHH
Confidence 45789999999999987777665543
No 253
>PRK14974 cell division protein FtsY; Provisional
Probab=79.69 E-value=16 Score=44.15 Aligned_cols=46 Identities=13% Similarity=0.219 Sum_probs=28.9
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec----hhhHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP----VNVLHNWKQE 802 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P----~sLl~qW~~E 802 (1479)
.-.++.-..|.|||.++..++..+... ..+++++.. ...+.||..-
T Consensus 141 ~vi~~~G~~GvGKTTtiakLA~~l~~~----g~~V~li~~Dt~R~~a~eqL~~~ 190 (336)
T PRK14974 141 VVIVFVGVNGTGKTTTIAKLAYYLKKN----GFSVVIAAGDTFRAGAIEQLEEH 190 (336)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHHHHc----CCeEEEecCCcCcHHHHHHHHHH
Confidence 446778899999998877777655432 135666654 2344566443
No 254
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=79.68 E-value=10 Score=51.08 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=22.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....||.-.-|+|||..+..|...++.
T Consensus 37 ~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C 63 (824)
T PRK07764 37 NHAYLFSGPRGCGKTSSARILARSLNC 63 (824)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhCc
Confidence 345689999999999999888877754
No 255
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=79.59 E-value=10 Score=46.20 Aligned_cols=27 Identities=11% Similarity=0.180 Sum_probs=22.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+...++.-+.|+|||..+..|+..++.
T Consensus 45 ~ha~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 45 HHALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred CeeEeeECCCCCCHHHHHHHHHHHHcC
Confidence 446888999999999999988887765
No 256
>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=79.34 E-value=0.88 Score=48.21 Aligned_cols=27 Identities=26% Similarity=0.625 Sum_probs=22.2
Q ss_pred ccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 555 LFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 555 ~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
.||..||++++- ..+.+.|+|+.|...
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 489999998873 457799999999755
No 257
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=79.25 E-value=11 Score=47.20 Aligned_cols=27 Identities=22% Similarity=0.170 Sum_probs=21.9
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
...+|.-..|+|||..+-++...+...
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~ 175 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEK 175 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHh
Confidence 568899999999999888887776543
No 258
>PRK08727 hypothetical protein; Validated
Probab=78.96 E-value=18 Score=41.39 Aligned_cols=26 Identities=27% Similarity=0.193 Sum_probs=21.1
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...+|.-..|+|||--+.|+...+..
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~~~~ 67 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAAAEQ 67 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 45899999999999888887776543
No 259
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=78.83 E-value=10 Score=39.11 Aligned_cols=87 Identities=18% Similarity=0.215 Sum_probs=65.5
Q ss_pred CCHHHHHHHHHHHHHhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHhc-----CCCchHHHHHHHHHHHHHHH----HHHH
Q 000464 49 LTEEEIEELIAEFLEVESKAAEAQEALELESLVKLKNEVREELAQAL-----HGDDLEAAVEDEMTVYKEQW----EAAL 119 (1479)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~----~~~~ 119 (1479)
+|.|+.+.++++|++-=....+.--.+=++.+++++.+|+..+.+.. +=++|+.++.+.+..+...- ...+
T Consensus 19 ~~~ek~~k~~~~LVkkGe~~~ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~le~~~~~~v~~~L~~lg~~tk~ev 98 (118)
T TIGR01837 19 RVQEEGSKFFNRLVKEGELAEKRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKLEKAFDERVEQALNRLNIPSREEI 98 (118)
T ss_pred HHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCCCCHHHH
Confidence 68899999999999864444444444556788888888877666553 33789999999998887765 3778
Q ss_pred hhHHhHHHHHHHhhhc
Q 000464 120 DELETESAHLLEQLDG 135 (1479)
Q Consensus 120 ~~~~~~~~~~~~~~~~ 135 (1479)
++|+..++.|-.+|+.
T Consensus 99 ~~L~~RI~~Le~~l~~ 114 (118)
T TIGR01837 99 EALSAKIEQLAVQVEE 114 (118)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 8888888888777654
No 260
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.14 E-value=0.79 Score=56.70 Aligned_cols=61 Identities=11% Similarity=0.212 Sum_probs=46.6
Q ss_pred CCCCcccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchhHHHHHHH
Q 000464 530 ADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSLLKRLTSE 595 (1479)
Q Consensus 530 ~d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~l~~L~~~ 595 (1479)
..+.+.||.-|.-.|..+.|+.|-|+||..|+.+-.-.. ..+.+|.|+.|.+.+-+.+.++
T Consensus 56 ~~N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r-----~~s~p~~~p~p~s~k~~~~~nq 116 (588)
T KOG3612|consen 56 SSNIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKR-----NYSVPSDKPQPYSFKVNELDNQ 116 (588)
T ss_pred ccCCCcccccccCCcceeeeehhhccccccccCcchhhc-----cccccccCCcccccCCCccccc
Confidence 346677999999999999999999999999976443222 2458899999987654444443
No 261
>PRK08181 transposase; Validated
Probab=78.12 E-value=19 Score=42.31 Aligned_cols=29 Identities=24% Similarity=0.250 Sum_probs=24.3
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.+.+.+|.-..|.|||.-+.|+...+...
T Consensus 105 ~~~nlll~Gp~GtGKTHLa~Aia~~a~~~ 133 (269)
T PRK08181 105 KGANLLLFGPPGGGKSHLAAAIGLALIEN 133 (269)
T ss_pred cCceEEEEecCCCcHHHHHHHHHHHHHHc
Confidence 45789999999999999999988776543
No 262
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=77.99 E-value=23 Score=43.50 Aligned_cols=30 Identities=10% Similarity=0.111 Sum_probs=25.3
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhc
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSV 780 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~ 780 (1479)
-+..-++.-.-|+|||..|.+|+..++...
T Consensus 40 l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~ 69 (365)
T PRK07471 40 LHHAWLIGGPQGIGKATLAYRMARFLLATP 69 (365)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHhCCC
Confidence 345688899999999999999999988643
No 263
>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=77.95 E-value=8 Score=47.21 Aligned_cols=62 Identities=21% Similarity=0.299 Sum_probs=45.7
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
|-+-|...+.++++.+.. ..+....+--.-|.|||...=+++..+.. ..+.+++++|+.+..
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 567799998888766532 35567788889999999887776665533 235899999987765
No 264
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.87 E-value=14 Score=47.88 Aligned_cols=26 Identities=15% Similarity=0.100 Sum_probs=21.3
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...|+.-.-|+|||..|.+|+..+..
T Consensus 36 ha~Lf~Gp~G~GKTt~A~~lAk~l~c 61 (584)
T PRK14952 36 HAYLFSGPRGCGKTSSARILARSLNC 61 (584)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcc
Confidence 34588999999999999888877653
No 265
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=77.75 E-value=21 Score=42.33 Aligned_cols=40 Identities=10% Similarity=0.131 Sum_probs=24.7
Q ss_pred CCCEEEEcCCcccCCcc--hHHHHHHHhcccceEEEeeCCCC
Q 000464 873 GPDILVCDEAHMIKNTR--ADTTQALKQVKCQRRIALTGSPL 912 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~--Sk~skalk~Lka~rRllLTGTPL 912 (1479)
.+++||+||+|.+.... ..+...+.......++++|++..
T Consensus 100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~ 141 (316)
T PHA02544 100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNK 141 (316)
T ss_pred CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCCh
Confidence 56789999999983322 11222233345566788888653
No 266
>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=77.57 E-value=9.1 Score=42.06 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=24.3
Q ss_pred EEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech
Q 000464 756 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 793 (1479)
Q Consensus 756 ILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~ 793 (1479)
+..-+|+.|||...|..+..+... .++++++-|.
T Consensus 5 ~i~GpM~sGKS~eLi~~~~~~~~~----~~~v~~~kp~ 38 (176)
T PF00265_consen 5 FITGPMFSGKSTELIRRIHRYEIA----GKKVLVFKPA 38 (176)
T ss_dssp EEEESTTSSHHHHHHHHHHHHHHT----T-EEEEEEES
T ss_pred EEECCcCChhHHHHHHHHHHHHhC----CCeEEEEEec
Confidence 455789999999888877665433 3578887775
No 267
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=77.45 E-value=6.9 Score=51.41 Aligned_cols=72 Identities=17% Similarity=0.171 Sum_probs=51.3
Q ss_pred hhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHH
Q 000464 721 SAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNW 799 (1479)
Q Consensus 721 ~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW 799 (1479)
....||+|.+.+..+.+.+ ..+.++++=..+|+|||+-.|+.+........ ++++|.+++.. ..|-
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~----------~~~~~~~iEapTGtGKTl~yL~~al~~~~~~~---~~viist~t~~lq~q~ 79 (654)
T COG1199 13 GFEPRPEQREMAEAVAEAL----------KGGEGLLIEAPTGTGKTLAYLLPALAYAREEG---KKVIISTRTKALQEQL 79 (654)
T ss_pred CCCCCHHHHHHHHHHHHHH----------cCCCcEEEECCCCccHHHHHHHHHHHHHHHcC---CcEEEECCCHHHHHHH
Confidence 3567999999888776443 34566999999999999998887777655432 57888888664 4455
Q ss_pred HHHHHH
Q 000464 800 KQEFMK 805 (1479)
Q Consensus 800 ~~E~~k 805 (1479)
..+...
T Consensus 80 ~~~~~~ 85 (654)
T COG1199 80 LEEDLP 85 (654)
T ss_pred HHhhcc
Confidence 555443
No 268
>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=77.29 E-value=14 Score=45.70 Aligned_cols=28 Identities=21% Similarity=0.147 Sum_probs=22.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
..+.+|.-..|+|||..+-++...+...
T Consensus 136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~ 163 (405)
T TIGR00362 136 YNPLFIYGGVGLGKTHLLHAIGNEILEN 163 (405)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHHHHh
Confidence 3457899999999999988887776543
No 269
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=77.12 E-value=16 Score=49.15 Aligned_cols=25 Identities=24% Similarity=0.197 Sum_probs=20.6
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..||.-+.|.|||..+-+|+..+..
T Consensus 40 AyLFtGPpGtGKTTLARiLAk~Lnc 64 (944)
T PRK14949 40 AYLFTGTRGVGKTSLARLFAKGLNC 64 (944)
T ss_pred EEEEECCCCCCHHHHHHHHHHhccC
Confidence 3489999999999998888877643
No 270
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.83 E-value=17 Score=47.64 Aligned_cols=26 Identities=19% Similarity=0.128 Sum_probs=21.4
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
....|+.-..|.|||..|.+++..+.
T Consensus 37 ~HAyLF~GPpGvGKTTlAriLAK~Ln 62 (702)
T PRK14960 37 HHAYLFTGTRGVGKTTIARILAKCLN 62 (702)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence 45669999999999988888877664
No 271
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=76.76 E-value=1.3 Score=56.45 Aligned_cols=45 Identities=24% Similarity=0.691 Sum_probs=34.9
Q ss_pred CcccccccCC-----CCceeecCCcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 533 SECYCVWCGR-----SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 533 ~~~~C~~C~~-----gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
++-.|-+|.- +.+++-||.|.-|-|+.|- |.. ..+.++|.|--|.
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCy----GIl----e~p~gpWlCr~Ca 319 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACY----GIL----EVPEGPWLCRTCA 319 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhh----cee----ecCCCCeeehhcc
Confidence 3346777764 5799999999999999994 333 4466999999994
No 272
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=76.76 E-value=11 Score=48.90 Aligned_cols=29 Identities=17% Similarity=0.123 Sum_probs=23.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.....||.-.-|+|||..|..|...+...
T Consensus 45 i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~ 73 (598)
T PRK09111 45 IAQAFMLTGVRGVGKTTTARILARALNYE 73 (598)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHhhCcC
Confidence 34578888999999999999888877543
No 273
>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=76.75 E-value=32 Score=37.10 Aligned_cols=30 Identities=20% Similarity=0.164 Sum_probs=22.8
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhc
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSV 780 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~ 780 (1479)
-+...|+..+-|.||+-.|.+|+..++...
T Consensus 18 l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~ 47 (162)
T PF13177_consen 18 LPHALLFHGPSGSGKKTLALAFARALLCSN 47 (162)
T ss_dssp --SEEEEECSTTSSHHHHHHHHHHHHC-TT
T ss_pred cceeEEEECCCCCCHHHHHHHHHHHHcCCC
Confidence 344568888899999999999998886554
No 274
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=76.73 E-value=26 Score=45.96 Aligned_cols=27 Identities=19% Similarity=0.111 Sum_probs=22.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....||.-.-|+|||..+..|...+..
T Consensus 38 pHA~LFtGP~GvGKTTLAriLAkaLnC 64 (700)
T PRK12323 38 HHAYLFTGTRGVGKTTLSRILAKSLNC 64 (700)
T ss_pred ceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345688899999999999888887754
No 275
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=76.18 E-value=8.6 Score=45.51 Aligned_cols=43 Identities=16% Similarity=0.118 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 727 HQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 727 hQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
+|...|+-+.+.+.. ......++--+.|+|||-++.+|...+.
T Consensus 40 gQe~vV~~L~~a~~~--------~~lp~~LFyGPpGTGKTStalafar~L~ 82 (346)
T KOG0989|consen 40 GQEHVVQVLKNALLR--------RILPHYLFYGPPGTGKTSTALAFARALN 82 (346)
T ss_pred chHHHHHHHHHHHhh--------cCCceEEeeCCCCCcHhHHHHHHHHHhc
Confidence 677777777655432 2345678888999999999999988874
No 276
>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=76.11 E-value=5.4 Score=46.49 Aligned_cols=44 Identities=16% Similarity=0.105 Sum_probs=33.7
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 796 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl 796 (1479)
+..++-...|.|||.+++.-+..++.........+|+|+++...
T Consensus 14 ~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~a 57 (315)
T PF00580_consen 14 GPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAA 57 (315)
T ss_dssp SEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHH
T ss_pred CCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHH
Confidence 45566667999999999998888877665556789999997654
No 277
>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=75.74 E-value=2.3 Score=46.14 Aligned_cols=42 Identities=14% Similarity=0.362 Sum_probs=25.2
Q ss_pred hhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccC
Q 000464 835 RAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIK 886 (1479)
Q Consensus 835 ~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IK 886 (1479)
....+|+|++|..+-.. .....+. .+...-.+||+||||+|-
T Consensus 117 ~~~adivi~~y~yl~~~---------~~~~~~~-~~~~~~~ivI~DEAHNL~ 158 (174)
T PF06733_consen 117 AKNADIVICNYNYLFDP---------SIRKSLF-GIDLKDNIVIFDEAHNLE 158 (174)
T ss_dssp GGG-SEEEEETHHHHSH---------HHHHHHC-T--CCCEEEEETTGGGCG
T ss_pred cccCCEEEeCHHHHhhH---------HHHhhhc-cccccCcEEEEecccchH
Confidence 35679999999876421 1111111 123466789999999984
No 278
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=75.72 E-value=2.2 Score=57.76 Aligned_cols=48 Identities=21% Similarity=0.510 Sum_probs=37.5
Q ss_pred CcccccccCCC-----CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 533 SECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 533 ~~~~C~~C~~g-----g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
.|..|.+|-+| ...+-||.|.-+.|+.|-.+. -.+++.|.|..|.-+|
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~--------~ipeg~WlCr~Cl~s~ 270 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP--------FIPEGQWLCRRCLQSP 270 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcchhhhhccCCC--------CCCCCcEeehhhccCc
Confidence 34578888766 467999999999999995422 3467999999997765
No 279
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=75.22 E-value=19 Score=40.16 Aligned_cols=58 Identities=21% Similarity=0.245 Sum_probs=36.6
Q ss_pred hcCCCCEEEEcCCcccCCc----chHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhc
Q 000464 870 LQDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 927 (1479)
Q Consensus 870 L~~~~dlVIlDEAH~IKN~----~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~ 927 (1479)
....||+||+||.=..-+. ...+...+..-...--++|||-=....+.|+..++.-+.
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 3458999999998665443 234444444444555799999866555555555554443
No 280
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=75.11 E-value=7.4 Score=47.06 Aligned_cols=50 Identities=12% Similarity=0.038 Sum_probs=36.0
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.++|+|...-+.+...+. .+.-+..-+++-+-|+||+..|.+|...++..
T Consensus 2 ~~yPWl~~~~~~l~~~~~-------~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~ 51 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQ-------AGRGHHALLIQALPGMGDDALIYALSRWLMCQ 51 (334)
T ss_pred CCCCCChHHHHHHHHHHH-------cCCcceEEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 367888877666544332 22344567788999999999999999888754
No 281
>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=75.11 E-value=26 Score=38.00 Aligned_cols=56 Identities=20% Similarity=0.205 Sum_probs=36.2
Q ss_pred cCCCCEEEEcCCcccCCc----chHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhh
Q 000464 871 QDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV 926 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~----~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL 926 (1479)
...+|+||+||.=..-+. ...+...+..-...--++|||-=.+..+.|+..++.-+
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 348999999998765332 23444555554555679999987666666655554433
No 282
>PRK06835 DNA replication protein DnaC; Validated
Probab=74.92 E-value=57 Score=39.53 Aligned_cols=28 Identities=18% Similarity=0.192 Sum_probs=24.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
+.+.+|.-.+|+|||..+.|++..+...
T Consensus 183 ~~~Lll~G~~GtGKThLa~aIa~~l~~~ 210 (329)
T PRK06835 183 NENLLFYGNTGTGKTFLSNCIAKELLDR 210 (329)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHHHHHC
Confidence 4789999999999999999988887654
No 283
>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=74.84 E-value=33 Score=35.44 Aligned_cols=33 Identities=15% Similarity=0.128 Sum_probs=23.3
Q ss_pred EEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 756 ILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 756 ILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
++.-..|.|||..+..++...... .++++++..
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 566678999999988887766442 346666654
No 284
>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=74.75 E-value=14 Score=41.26 Aligned_cols=59 Identities=14% Similarity=0.180 Sum_probs=34.9
Q ss_pred cCCCCEEEEcCCcccCCcch---HHHHHHHhc-ccceEEEeeCCCCccchhHHHhhhhhhccC
Q 000464 871 QDGPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTGSPLQNNLMEYYCMVDFVREG 929 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~~S---k~skalk~L-ka~rRllLTGTPLqNnL~EL~sLL~FL~P~ 929 (1479)
..++|+|++|-+.+.-+... .+.+.+..+ ....-++|++|--+..+..+......+.+.
T Consensus 81 ~~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~~~~ 143 (196)
T PF00448_consen 81 KKGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAFGID 143 (196)
T ss_dssp HTTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHSSTC
T ss_pred hcCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcccCc
Confidence 34789999999876644322 222222233 455678889888777666665555555433
No 285
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=73.74 E-value=21 Score=45.31 Aligned_cols=75 Identities=21% Similarity=0.172 Sum_probs=48.3
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
...+....+.+.|.+...-. +.+. .-....|.+|+-..|.|||+.|-++.... ..+++-|-...++..|.-
T Consensus 248 ~~~k~~l~e~v~~~~~~~e~-~~~~-~~~~~~giLl~GpPGtGKT~lAkava~~~-------~~~fi~v~~~~l~sk~vG 318 (494)
T COG0464 248 EEAKEELKEAIETPLKRPEL-FRKL-GLRPPKGVLLYGPPGTGKTLLAKAVALES-------RSRFISVKGSELLSKWVG 318 (494)
T ss_pred HHHHHHHHHHHHhHhhChHH-HHhc-CCCCCCeeEEECCCCCCHHHHHHHHHhhC-------CCeEEEeeCHHHhccccc
Confidence 34566677777777653221 1110 11345699999999999999988876532 235555554588888877
Q ss_pred HHHH
Q 000464 802 EFMK 805 (1479)
Q Consensus 802 E~~k 805 (1479)
|..+
T Consensus 319 esek 322 (494)
T COG0464 319 ESEK 322 (494)
T ss_pred hHHH
Confidence 7655
No 286
>KOG2807 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription; Replication, recombination and repair]
Probab=73.64 E-value=1.8 Score=50.67 Aligned_cols=88 Identities=28% Similarity=0.564 Sum_probs=52.8
Q ss_pred ccCCCCceeeccCCcccccccccccccccccccchhhhhhc--------------Cccc---CCCCCcccccccC---CC
Q 000464 484 SQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKK--------------MHVK---DADCSECYCVWCG---RS 543 (1479)
Q Consensus 484 ~~~~~~~~~C~~Cg~~~~~~~~HP~l~v~~C~~C~~~~~~~--------------~~~~---d~d~~~~~C~~C~---~g 543 (1479)
+......++|+-|+.. ++.=| +.|+-|.-.+-.. .|.. .......+|..|+ .+
T Consensus 270 ~~~~~~Gy~CP~Ckak---vCsLP----~eCpiC~ltLVss~hLARSyhhL~PL~~F~Eip~~~~~~~~~Cf~C~~~~~~ 342 (378)
T KOG2807|consen 270 SELSGGGYFCPQCKAK---VCSLP----IECPICSLTLVSSPHLARSYHHLFPLKPFVEIPETEYNGSRFCFACQGELLS 342 (378)
T ss_pred cccccCceeCCcccCe---eecCC----ccCCccceeEecchHHHHHHHhhcCCcchhhccccccCCCcceeeeccccCC
Confidence 4455667899998743 22223 3455564333222 2322 2333445799993 45
Q ss_pred CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 544 SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 544 g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
+.-+-|..|...||..|- ..+. +.--.|+-|..+|
T Consensus 343 ~~~y~C~~Ck~~FCldCD-v~iH---------esLh~CpgCeh~~ 377 (378)
T KOG2807|consen 343 SGRYRCESCKNVFCLDCD-VFIH---------ESLHNCPGCEHKP 377 (378)
T ss_pred CCcEEchhccceeeccch-HHHH---------hhhhcCCCcCCCC
Confidence 677899999999999992 2221 2234699998654
No 287
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=72.95 E-value=27 Score=48.08 Aligned_cols=131 Identities=16% Similarity=0.156 Sum_probs=73.9
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE 802 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E 802 (1479)
.|-+-|+++|..+.. ...-++|--.-|.|||.+.-+++.. +... ...+++++|+.....=..+
T Consensus 346 ~Ls~eQr~Av~~il~-------------s~~v~vv~G~AGTGKTT~l~~~~~~-~e~~---G~~V~~~ApTGkAA~~L~e 408 (988)
T PRK13889 346 VLSGEQADALAHVTD-------------GRDLGVVVGYAGTGKSAMLGVAREA-WEAA---GYEVRGAALSGIAAENLEG 408 (988)
T ss_pred CCCHHHHHHHHHHhc-------------CCCeEEEEeCCCCCHHHHHHHHHHH-HHHc---CCeEEEecCcHHHHHHHhh
Confidence 488999999887642 1224678888999999865444333 3321 2478888898765532221
Q ss_pred HHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCC
Q 000464 803 FMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEA 882 (1479)
Q Consensus 803 ~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEA 882 (1479)
- . +.. ...+..|... +.. + .......++|||||+
T Consensus 409 ~---t-------------Gi~----a~TI~sll~~----------~~~---~-------------~~~l~~~~vlIVDEA 442 (988)
T PRK13889 409 G---S-------------GIA----SRTIASLEHG----------WGQ---G-------------RDLLTSRDVLVIDEA 442 (988)
T ss_pred c---c-------------Ccc----hhhHHHHHhh----------hcc---c-------------ccccccCcEEEEECc
Confidence 0 0 000 0112222100 000 0 001125689999999
Q ss_pred cccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhH
Q 000464 883 HMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLME 918 (1479)
Q Consensus 883 H~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~E 918 (1479)
-.+... ...+.+... ...-+++|.|=|-|-...+
T Consensus 443 SMv~~~--~m~~LL~~a~~~garvVLVGD~~QLpsV~ 477 (988)
T PRK13889 443 GMVGTR--QLERVLSHAADAGAKVVLVGDPQQLQAIE 477 (988)
T ss_pred ccCCHH--HHHHHHHhhhhCCCEEEEECCHHHcCCCC
Confidence 988433 344445443 6678999999997755443
No 288
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.81 E-value=25 Score=42.92 Aligned_cols=25 Identities=24% Similarity=0.199 Sum_probs=20.7
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
...++.-+.|+|||..|-+++..+.
T Consensus 39 h~~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 39 HAWLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred eEEEEecCCCCCHHHHHHHHHHHhc
Confidence 4468999999999988888877664
No 289
>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=72.74 E-value=45 Score=38.60 Aligned_cols=39 Identities=21% Similarity=0.146 Sum_probs=28.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
.+.-.+|+-..|.|||..++.++..+.... ..+++++.-
T Consensus 29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~---g~~vl~iS~ 67 (271)
T cd01122 29 KGELIILTAGTGVGKTTFLREYALDLITQH---GVRVGTISL 67 (271)
T ss_pred CCcEEEEEcCCCCCHHHHHHHHHHHHHHhc---CceEEEEEc
Confidence 345678999999999999988887765431 247777765
No 290
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=72.52 E-value=1.8 Score=54.85 Aligned_cols=54 Identities=24% Similarity=0.535 Sum_probs=35.2
Q ss_pred CCCcccccccCCC--------CceeecCC--cccccchhhhccc--CCcccccccccCCCceeecCCc
Q 000464 531 DCSECYCVWCGRS--------SDLVSCKS--CKTLFCTTCVKRN--ISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 531 d~~~~~C~~C~~g--------g~L~~Cd~--C~r~Fc~~Cl~~~--~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
|-+.-.|-+|.+- |-.+-|.. |.+.||+.|-.+. +..+.- ...+..=+|.+|.-
T Consensus 114 dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~g--n~~dNVKYCGYCk~ 179 (900)
T KOG0956|consen 114 DRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEG--NISDNVKYCGYCKY 179 (900)
T ss_pred hhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceeccc--cccccceechhHHH
Confidence 3344469999766 46677865 9999999997643 333311 12345578999943
No 291
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=72.44 E-value=23 Score=44.48 Aligned_cols=26 Identities=19% Similarity=0.172 Sum_probs=21.3
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...+|.-+.|+|||.-+-++...+..
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~ 156 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQ 156 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHH
Confidence 46889999999999888887776654
No 292
>PRK11054 helD DNA helicase IV; Provisional
Probab=72.37 E-value=10 Score=50.10 Aligned_cols=82 Identities=11% Similarity=-0.014 Sum_probs=56.0
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
..|-|-|..+|..- . ...++-...|.|||.++++-+.+++.........+|+++...-..+...
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 45788898888522 2 3345555689999999999998888765444568999999888877666
Q ss_pred H-HHHhCCCCCCCeEEEEecC
Q 000464 802 E-FMKWRPSELKPLRVFMLED 821 (1479)
Q Consensus 802 E-~~kw~P~~~~~l~V~~l~g 821 (1479)
+ +...++. ..+.+..+|+
T Consensus 259 eRL~~~lg~--~~v~v~TFHS 277 (684)
T PRK11054 259 ERIRERLGT--EDITARTFHA 277 (684)
T ss_pred HHHHHhcCC--CCcEEEeHHH
Confidence 5 5555431 2344444444
No 293
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=72.36 E-value=30 Score=44.35 Aligned_cols=27 Identities=19% Similarity=0.083 Sum_probs=21.5
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+...|+.-..|.|||..|-+|...+..
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 344689999999999888888877653
No 294
>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=72.28 E-value=19 Score=45.97 Aligned_cols=97 Identities=16% Similarity=0.183 Sum_probs=69.9
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
...|||-.+.+.++......|.++||.+........+...|+.. .|..+..++|.++..+|.+...+..
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 45799999999999888888999999999998888888888752 3667889999999999887776665
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEe
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1226 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifD 1226 (1479)
. +..+| ++.|+..- =+-+.....||+-+
T Consensus 74 ~---g~~~I-VVGTrsal-f~p~~~l~lIIVDE 101 (505)
T TIGR00595 74 N---GEILV-VIGTRSAL-FLPFKNLGLIIVDE 101 (505)
T ss_pred c---CCCCE-EECChHHH-cCcccCCCEEEEEC
Confidence 4 33443 55665422 12344455555443
No 295
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.87 E-value=31 Score=43.91 Aligned_cols=28 Identities=18% Similarity=0.056 Sum_probs=22.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
-....|+.-..|+|||..|..+...+..
T Consensus 34 i~ha~Lf~Gp~G~GKTT~ArilAk~LnC 61 (491)
T PRK14964 34 IPQSILLVGASGVGKTTCARIISLCLNC 61 (491)
T ss_pred CCceEEEECCCCccHHHHHHHHHHHHcC
Confidence 3457899999999999888877766543
No 296
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=71.76 E-value=31 Score=41.72 Aligned_cols=49 Identities=14% Similarity=0.040 Sum_probs=34.9
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
++|+|...-+-+...+. .+.-+.+-++.-..|+||+..|.+|...++..
T Consensus 3 ~yPW~~~~~~~l~~~~~-------~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~ 51 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQ-------QGLGHHALLFKADSGLGTEQLIRALAQWLMCQ 51 (325)
T ss_pred CCcchHHHHHHHHHHHH-------cCCcceeEEeECCCCCCHHHHHHHHHHHHcCC
Confidence 47888776655544332 12334567788899999999999999888754
No 297
>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=71.68 E-value=36 Score=41.92 Aligned_cols=46 Identities=15% Similarity=0.138 Sum_probs=31.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
|.-.+|.-++|.|||..++.++..+... .+++|.|.-.-...|...
T Consensus 82 GslvLI~G~pG~GKStLllq~a~~~a~~----g~~VlYvs~EEs~~qi~~ 127 (372)
T cd01121 82 GSVILIGGDPGIGKSTLLLQVAARLAKR----GGKVLYVSGEESPEQIKL 127 (372)
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhc----CCeEEEEECCcCHHHHHH
Confidence 4457889999999999888887766432 247777765433444433
No 298
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=71.62 E-value=14 Score=42.84 Aligned_cols=50 Identities=26% Similarity=0.351 Sum_probs=39.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 804 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 804 (1479)
.+.|.+|--..|.|||..++|+...+... ..+++++.=+.++.+++..+.
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 57899999999999999999999888733 247777777777777766653
No 299
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=71.30 E-value=24 Score=44.43 Aligned_cols=26 Identities=23% Similarity=0.061 Sum_probs=21.4
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
.+.+|.-+.|+|||.-+-++...+..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~~ 167 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALRE 167 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence 56888999999999888887777654
No 300
>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=71.00 E-value=40 Score=40.19 Aligned_cols=39 Identities=26% Similarity=0.296 Sum_probs=25.2
Q ss_pred CCCEEEEcCCccc-CCcchHHHHHH---Hhcc--cceEEEeeCCC
Q 000464 873 GPDILVCDEAHMI-KNTRADTTQAL---KQVK--CQRRIALTGSP 911 (1479)
Q Consensus 873 ~~dlVIlDEAH~I-KN~~Sk~skal---k~Lk--a~rRllLTGTP 911 (1479)
+..++||||.|++ .+...+.-..+ +.|. -+--+++.||+
T Consensus 145 ~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 145 GVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred CCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 8899999999996 44444443333 4442 23347788887
No 301
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=70.85 E-value=49 Score=40.78 Aligned_cols=27 Identities=22% Similarity=0.239 Sum_probs=21.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
.+.-.+|.-..|.|||.++..++..+.
T Consensus 136 ~g~ii~lvGptGvGKTTtiakLA~~~~ 162 (374)
T PRK14722 136 RGGVFALMGPTGVGKTTTTAKLAARCV 162 (374)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence 356678889999999999888877653
No 302
>PRK12377 putative replication protein; Provisional
Probab=70.82 E-value=50 Score=38.35 Aligned_cols=43 Identities=19% Similarity=0.236 Sum_probs=29.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 798 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~q 798 (1479)
..+.+|.-..|.|||..+.|+...+...+ .+++++.-..++..
T Consensus 101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g----~~v~~i~~~~l~~~ 143 (248)
T PRK12377 101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKG----RSVIVVTVPDVMSR 143 (248)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHHHHcC----CCeEEEEHHHHHHH
Confidence 35788999999999999999988876432 34544433444443
No 303
>PRK06921 hypothetical protein; Provisional
Probab=70.70 E-value=37 Score=39.77 Aligned_cols=29 Identities=28% Similarity=0.205 Sum_probs=24.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.+.+.+|.-..|+|||..+.|++..+...
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l~~~ 144 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANELMRK 144 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHHhhh
Confidence 35789999999999999999988777543
No 304
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.61 E-value=29 Score=44.03 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.0
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
+.+.||.-+.|.|||..|-+++..+.
T Consensus 36 ~~~~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 36 SHAYIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34579999999999988888776654
No 305
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=69.40 E-value=13 Score=47.84 Aligned_cols=47 Identities=17% Similarity=0.152 Sum_probs=29.8
Q ss_pred CCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhh----HHHHHHHHHHhCCC
Q 000464 761 MGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNV----LHNWKQEFMKWRPS 809 (1479)
Q Consensus 761 MGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sL----l~qW~~E~~kw~P~ 809 (1479)
=-=|||..++++|..++..-. .-.+..|+= +.+ ...-...+.+|+|.
T Consensus 211 RRHGKTWf~VpiIsllL~s~~--gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~ 262 (668)
T PHA03372 211 RRHGKTWFIIPIISFLLKNII--GISIGYVAHQKHVSQFVLKEVEFRCRRMFPR 262 (668)
T ss_pred ccCCceehHHHHHHHHHHhhc--CceEEEEeeHHHHHHHHHHHHHHHHhhhcCc
Confidence 345999999999888876432 125666654 222 33344556789986
No 306
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.25 E-value=32 Score=44.29 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=21.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
+...|+.-+.|.|||..|-.|...+.
T Consensus 38 ~ha~Lf~Gp~G~GKTt~A~~lAk~l~ 63 (527)
T PRK14969 38 HHAYLFTGTRGVGKTTLARILAKSLN 63 (527)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHhc
Confidence 34568999999999988888877764
No 307
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=68.67 E-value=72 Score=39.04 Aligned_cols=29 Identities=21% Similarity=0.214 Sum_probs=23.1
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..+.+.++.-..|+|||..+-.++..+..
T Consensus 53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~ 81 (394)
T PRK00411 53 SRPLNVLIYGPPGTGKTTTVKKVFEELEE 81 (394)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHHHHHHH
Confidence 34567899999999999988888776544
No 308
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=68.58 E-value=41 Score=43.11 Aligned_cols=28 Identities=21% Similarity=0.162 Sum_probs=23.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
.....||.-+.|.|||..|-+|...+..
T Consensus 42 i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc 69 (507)
T PRK06645 42 LAGGYLLTGIRGVGKTTSARIIAKAVNC 69 (507)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 3467899999999999999888877654
No 309
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=68.48 E-value=57 Score=39.37 Aligned_cols=128 Identities=20% Similarity=0.222 Sum_probs=69.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELL 831 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l 831 (1479)
..-.++.---|.|||-+.-=+.+.+...+ +++|+.+--.- +..-.+.+
T Consensus 139 p~Vil~vGVNG~GKTTTIaKLA~~l~~~g----~~VllaA~DTF----------------------------RAaAiEQL 186 (340)
T COG0552 139 PFVILFVGVNGVGKTTTIAKLAKYLKQQG----KSVLLAAGDTF----------------------------RAAAIEQL 186 (340)
T ss_pred cEEEEEEecCCCchHhHHHHHHHHHHHCC----CeEEEEecchH----------------------------HHHHHHHH
Confidence 34456667889999976655555554332 35555443222 22233344
Q ss_pred HHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcccCCcch------HHHHHHHhc--ccce
Q 000464 832 AKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHMIKNTRA------DTTQALKQV--KCQR 903 (1479)
Q Consensus 832 ~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~IKN~~S------k~skalk~L--ka~r 903 (1479)
..|...-++-+++.. ... . ...-..+.+......++|+||||=|-|+-|... ++.+.++.. .+++
T Consensus 187 ~~w~er~gv~vI~~~-~G~-----D-pAaVafDAi~~Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~ 259 (340)
T COG0552 187 EVWGERLGVPVISGK-EGA-----D-PAAVAFDAIQAAKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPH 259 (340)
T ss_pred HHHHHHhCCeEEccC-CCC-----C-cHHHHHHHHHHHHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCc
Confidence 455444455554432 100 0 001123445566667999999999999987542 233333332 3555
Q ss_pred EEEee--CCCCccchhH
Q 000464 904 RIALT--GSPLQNNLME 918 (1479)
Q Consensus 904 RllLT--GTPLqNnL~E 918 (1479)
.++|+ ||-=||.+.-
T Consensus 260 e~llvlDAttGqnal~Q 276 (340)
T COG0552 260 EILLVLDATTGQNALSQ 276 (340)
T ss_pred eEEEEEEcccChhHHHH
Confidence 55555 7777776553
No 310
>PRK05580 primosome assembly protein PriA; Validated
Probab=68.41 E-value=31 Score=45.82 Aligned_cols=97 Identities=18% Similarity=0.183 Sum_probs=71.3
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
...|||..+.+.++......|.++||.+........+...|+.. .|.....++|+++..+|.+...+..
T Consensus 170 ~TGSGKT~v~l~~i~~~l~~g~~vLvLvPt~~L~~Q~~~~l~~~-----------fg~~v~~~~s~~s~~~r~~~~~~~~ 238 (679)
T PRK05580 170 VTGSGKTEVYLQAIAEVLAQGKQALVLVPEIALTPQMLARFRAR-----------FGAPVAVLHSGLSDGERLDEWRKAK 238 (679)
T ss_pred CCCChHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHH-----------hCCCEEEEECCCCHHHHHHHHHHHH
Confidence 35689999998888887778999999999999888888888752 3678899999999999888777776
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEEe
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIVD 1226 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifD 1226 (1479)
.+ .++ ++++|+.. .=+.+.....||+-+
T Consensus 239 ~g---~~~-IVVgTrsa-l~~p~~~l~liVvDE 266 (679)
T PRK05580 239 RG---EAK-VVIGARSA-LFLPFKNLGLIIVDE 266 (679)
T ss_pred cC---CCC-EEEeccHH-hcccccCCCEEEEEC
Confidence 53 334 46666532 224455555565554
No 311
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.13 E-value=23 Score=46.20 Aligned_cols=27 Identities=22% Similarity=0.196 Sum_probs=22.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....|+.-+-|.|||..|..|...+..
T Consensus 38 ~ha~Lf~GPpG~GKTtiArilAk~L~C 64 (624)
T PRK14959 38 APAYLFSGTRGVGKTTIARIFAKALNC 64 (624)
T ss_pred CceEEEECCCCCCHHHHHHHHHHhccc
Confidence 356778999999999999888877653
No 312
>PRK06893 DNA replication initiation factor; Validated
Probab=67.23 E-value=39 Score=38.49 Aligned_cols=25 Identities=12% Similarity=-0.087 Sum_probs=19.9
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..+|.-..|+|||--+.|+...+..
T Consensus 41 ~l~l~G~~G~GKThL~~ai~~~~~~ 65 (229)
T PRK06893 41 FFYIWGGKSSGKSHLLKAVSNHYLL 65 (229)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHHH
Confidence 4689999999999888877766544
No 313
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=67.20 E-value=3.4 Score=37.79 Aligned_cols=38 Identities=26% Similarity=0.814 Sum_probs=17.3
Q ss_pred ccccCCCCceeec-CCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 537 CVWCGRSSDLVSC-KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 537 C~~C~~gg~L~~C-d~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
|..|.+--.--.| .+|...||..||...+|.+ |++|..
T Consensus 10 Cs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~~------------CPvC~~ 48 (65)
T PF14835_consen 10 CSICFDILKEPVCLGGCEHIFCSSCIRDCIGSE------------CPVCHT 48 (65)
T ss_dssp -SSS-S--SS-B---SSS--B-TTTGGGGTTTB-------------SSS--
T ss_pred CcHHHHHhcCCceeccCccHHHHHHhHHhcCCC------------CCCcCC
Confidence 4444443333333 5699999999997766632 999973
No 314
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=67.00 E-value=21 Score=46.59 Aligned_cols=53 Identities=11% Similarity=0.115 Sum_probs=32.9
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHHH----HHhCCC
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEF----MKWRPS 809 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E~----~kw~P~ 809 (1479)
-+..-.==-|||..+.++|..++.... ...+++++| ..+...-.+|+ ++|+|.
T Consensus 257 tVflVPRR~GKTwivv~iI~~ll~s~~--Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~ 314 (738)
T PHA03368 257 TVFLVPRRHGKTWFLVPLIALALATFR--GIKIGYTAHIRKATEPVFEEIGARLRQWFGA 314 (738)
T ss_pred eEEEecccCCchhhHHHHHHHHHHhCC--CCEEEEEcCcHHHHHHHHHHHHHHHhhhcch
Confidence 444445567999988877766654322 357899998 44444455554 457654
No 315
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=66.57 E-value=20 Score=46.01 Aligned_cols=26 Identities=19% Similarity=0.175 Sum_probs=21.4
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...|+.-+.|.|||-.|-+|+..+..
T Consensus 37 hayLf~Gp~G~GKTt~Ar~LAk~L~c 62 (535)
T PRK08451 37 HAYLFSGLRGSGKTSSARIFARALVC 62 (535)
T ss_pred eeEEEECCCCCcHHHHHHHHHHHhcC
Confidence 34588999999999999888877754
No 316
>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif. They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.
Probab=66.02 E-value=11 Score=41.34 Aligned_cols=42 Identities=29% Similarity=0.384 Sum_probs=29.3
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV 795 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL 795 (1479)
..+.|.+|.-.+|.|||..|.|++..+...+ .+++.+.-..+
T Consensus 45 ~~~~~l~l~G~~G~GKThLa~ai~~~~~~~g----~~v~f~~~~~L 86 (178)
T PF01695_consen 45 ENGENLILYGPPGTGKTHLAVAIANEAIRKG----YSVLFITASDL 86 (178)
T ss_dssp SC--EEEEEESTTSSHHHHHHHHHHHHHHTT------EEEEEHHHH
T ss_pred ccCeEEEEEhhHhHHHHHHHHHHHHHhccCC----cceeEeecCce
Confidence 3567899999999999999999988877642 35666654333
No 317
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=65.87 E-value=7.9 Score=47.62 Aligned_cols=46 Identities=20% Similarity=0.426 Sum_probs=34.2
Q ss_pred ccccccchhhhhhcCcccC-----CCCCc------ccccccCCCCceeecCCccccc
Q 000464 511 VIVCKDCKCLLEKKMHVKD-----ADCSE------CYCVWCGRSSDLVSCKSCKTLF 556 (1479)
Q Consensus 511 v~~C~~C~~~~~~~~~~~d-----~d~~~------~~C~~C~~gg~L~~Cd~C~r~F 556 (1479)
.+-|..|--..++|-|..+ ..|+. .||.-|--|-.|--|..||+-|
T Consensus 136 i~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~ 192 (707)
T KOG0957|consen 136 ILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRF 192 (707)
T ss_pred eeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcC
Confidence 4567777777777777665 22322 3899999999999999999876
No 318
>PRK09183 transposase/IS protein; Provisional
Probab=65.84 E-value=39 Score=39.43 Aligned_cols=27 Identities=33% Similarity=0.465 Sum_probs=22.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
.+.+.+|.-+.|.|||..+.++.....
T Consensus 101 ~~~~v~l~Gp~GtGKThLa~al~~~a~ 127 (259)
T PRK09183 101 RNENIVLLGPSGVGKTHLAIALGYEAV 127 (259)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence 467888999999999999888865544
No 319
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=65.68 E-value=3.4 Score=50.54 Aligned_cols=83 Identities=17% Similarity=0.422 Sum_probs=52.1
Q ss_pred ccccccCCCCceeeccCCccccc-cccccccc--ccccccchh-----------hhhhcCcccCCCCCcc----------
Q 000464 480 NSLHSQSLSEKFYCTACNNVAIE-VHPHPILN--VIVCKDCKC-----------LLEKKMHVKDADCSEC---------- 535 (1479)
Q Consensus 480 ~~~~~~~~~~~~~C~~Cg~~~~~-~~~HP~l~--v~~C~~C~~-----------~~~~~~~~~d~d~~~~---------- 535 (1479)
++...++++-.++|..|.-.++. ..--|++. -.+|+.|-- -=..|.|....||...
T Consensus 200 ~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~~~i~~C~fCps~dGaFkqT~dgrW~H~iCA~~~pe 279 (669)
T COG5141 200 TSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFKQTSDGRWGHVICAMFNPE 279 (669)
T ss_pred cccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccccceeEEEeccCCCCceeeccCCchHhHhHHHhcch
Confidence 44566788899999999755433 12223331 346666520 0123344444555432
Q ss_pred -------------------------cccccC-CCCceeecCC--cccccchhhhc
Q 000464 536 -------------------------YCVWCG-RSSDLVSCKS--CKTLFCTTCVK 562 (1479)
Q Consensus 536 -------------------------~C~~C~-~gg~L~~Cd~--C~r~Fc~~Cl~ 562 (1479)
-|-+|. .||.-+-|.. |.++||..|-.
T Consensus 280 lsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 280 LSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred hccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 288997 7889999976 99999999954
No 320
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=65.61 E-value=39 Score=46.05 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.2
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+.||.-+.|.|||..+-+++..+
T Consensus 193 ~~~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 193 TKNNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred CCCceEEEcCCCCCHHHHHHHHHHHH
Confidence 45678999999999998888776654
No 321
>PRK05642 DNA replication initiation factor; Validated
Probab=65.52 E-value=33 Score=39.22 Aligned_cols=38 Identities=16% Similarity=0.313 Sum_probs=25.1
Q ss_pred CCCEEEEcCCcccCCcch---HHHHHHHhcc-cceEEEeeCC
Q 000464 873 GPDILVCDEAHMIKNTRA---DTTQALKQVK-CQRRIALTGS 910 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~S---k~skalk~Lk-a~rRllLTGT 910 (1479)
..|++|+|+.|.+.+... ..+..+..+. ..+++++|+|
T Consensus 97 ~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 97 QYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred hCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 457899999998865432 2444444443 3567888887
No 322
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=65.38 E-value=25 Score=46.64 Aligned_cols=101 Identities=18% Similarity=0.082 Sum_probs=71.7
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
...|||-.+..-.+......|.+++|.+.....+..+...+..+. ...|+++..++|+++..+|...+....
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 467999887665555555678899999999888777777666532 114788999999999999999999988
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEE
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIV 1225 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIif 1225 (1479)
++ .+.|++.+.......+++.....||+=
T Consensus 362 ~g---~~~IvVgT~~ll~~~v~~~~l~lvVID 390 (681)
T PRK10917 362 SG---EADIVIGTHALIQDDVEFHNLGLVIID 390 (681)
T ss_pred CC---CCCEEEchHHHhcccchhcccceEEEe
Confidence 63 344444444444455667676666553
No 323
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=65.15 E-value=44 Score=43.14 Aligned_cols=26 Identities=19% Similarity=0.073 Sum_probs=21.3
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...|+.-+.|.|||..|-.|+..+..
T Consensus 39 ha~Lf~Gp~GvGKTTlAr~lAk~L~c 64 (546)
T PRK14957 39 HAYLFTGTRGVGKTTLGRLLAKCLNC 64 (546)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence 45788999999999998888877653
No 324
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=64.45 E-value=3.1 Score=46.12 Aligned_cols=56 Identities=16% Similarity=0.335 Sum_probs=36.2
Q ss_pred CCcccccccCCCCceeecCCcccccchhhhcccCCccc--ccc----cccCCCceeecCCch
Q 000464 532 CSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEAC--LSD----EVQASCWQCCCCSPS 587 (1479)
Q Consensus 532 ~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~--~~~----~~~~~~W~C~~C~p~ 587 (1479)
+.+..|.+|.+.-.--.--.|...||..||...+-... ... ........|++|...
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 44568999987665545566999999999976532110 000 013356799999754
No 325
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=64.22 E-value=17 Score=48.35 Aligned_cols=70 Identities=14% Similarity=0.024 Sum_probs=50.1
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW~~ 801 (1479)
.|-|-|+++|.. ..+.+++-...|.|||.+.++-+.+++.........+|+|+.++- ...-..
T Consensus 4 ~Ln~~Q~~av~~----------------~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~ 67 (715)
T TIGR01075 4 GLNDKQREAVAA----------------PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRH 67 (715)
T ss_pred ccCHHHHHHHcC----------------CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHH
Confidence 477889998852 224577777889999999999999888754444567999998554 445555
Q ss_pred HHHHhCC
Q 000464 802 EFMKWRP 808 (1479)
Q Consensus 802 E~~kw~P 808 (1479)
.+.+.++
T Consensus 68 Rl~~~~~ 74 (715)
T TIGR01075 68 RIGALLG 74 (715)
T ss_pred HHHHHhc
Confidence 5655554
No 326
>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=63.93 E-value=40 Score=44.29 Aligned_cols=68 Identities=16% Similarity=0.165 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHHHHHh
Q 000464 728 QVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQEFMKW 806 (1479)
Q Consensus 728 Q~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E~~kw 806 (1479)
|.+-+.++++.+. .+...++-..+|.|||+..+.-+....... ..+++||++| ..|..|+.+++..+
T Consensus 2 Q~~~~~~i~~al~----------~~~~lliEA~TGtGKTlAYLlpal~~~~~~--~~~rvlIstpT~~Lq~Ql~~~l~~l 69 (636)
T TIGR03117 2 QALFYLNCLTSLR----------QKRIGMLEASTGVGKTLAMIMAALTMLKER--PDQKIAIAVPTLALMGQLWSELERL 69 (636)
T ss_pred HHHHHHHHHHHHh----------cCCeEEEEcCCCCcHHHHHHHHHHHHHHhc--cCceEEEECCcHHHHHHHHHHHHHH
Confidence 6666666666542 345677777999999988776554433321 1368999999 45667888887765
Q ss_pred C
Q 000464 807 R 807 (1479)
Q Consensus 807 ~ 807 (1479)
.
T Consensus 70 ~ 70 (636)
T TIGR03117 70 T 70 (636)
T ss_pred H
Confidence 4
No 327
>PF13173 AAA_14: AAA domain
Probab=63.68 E-value=14 Score=37.82 Aligned_cols=37 Identities=30% Similarity=0.365 Sum_probs=26.6
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc---ccceEEEeeCCCCc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQ 913 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L---ka~rRllLTGTPLq 913 (1479)
+..+||+||+|++.+. ...++.+ ....++++||+-..
T Consensus 61 ~~~~i~iDEiq~~~~~----~~~lk~l~d~~~~~~ii~tgS~~~ 100 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPDW----EDALKFLVDNGPNIKIILTGSSSS 100 (128)
T ss_pred CCcEEEEehhhhhccH----HHHHHHHHHhccCceEEEEccchH
Confidence 6788999999999653 3444444 23569999998643
No 328
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=63.64 E-value=1e+02 Score=41.00 Aligned_cols=27 Identities=22% Similarity=0.146 Sum_probs=21.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
.+.+.||.-..|+|||..+.+|...+.
T Consensus 37 l~Ha~Lf~GP~GvGKTTlAriLAk~Ln 63 (709)
T PRK08691 37 LHHAYLLTGTRGVGKTTIARILAKSLN 63 (709)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHhc
Confidence 345679999999999998888877764
No 329
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=63.34 E-value=47 Score=43.41 Aligned_cols=26 Identities=31% Similarity=0.178 Sum_probs=21.0
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...+|.-..|+|||.-+.|+...+..
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~ 340 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARR 340 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHH
Confidence 45888999999999988887776643
No 330
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=63.29 E-value=3 Score=50.94 Aligned_cols=50 Identities=20% Similarity=0.489 Sum_probs=37.8
Q ss_pred CCCcccccccCCC-----CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 531 DCSECYCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 531 d~~~~~C~~C~~g-----g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
|..+..|++|..- ..++-||+|.-+-|++|- |.. -.++|.|.|--|--.+
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CY----GI~----f~peG~WlCrkCi~~~ 244 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCY----GIQ----FLPEGFWLCRKCIYGE 244 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecCcchhhhhhcc----cce----ecCcchhhhhhhcccc
Confidence 4456678888644 569999999999999994 333 3467999999986554
No 331
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=62.72 E-value=17 Score=44.96 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=22.5
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..+.|+.-+.|.|||..|.+|...++.
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 456789999999999999998877654
No 332
>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=62.70 E-value=66 Score=36.75 Aligned_cols=38 Identities=18% Similarity=0.259 Sum_probs=29.4
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
+|.-.+++-+.|.|||+.++-|++.....+ .++|.|.-
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~g----e~~lyvs~ 57 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMG----EPGIYVAL 57 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHHHcC----CcEEEEEe
Confidence 456688899999999999998888765432 47788773
No 333
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=62.68 E-value=5.9 Score=39.78 Aligned_cols=32 Identities=28% Similarity=0.789 Sum_probs=27.3
Q ss_pred CcccccccCC-CCceeecCC--cccccchhhhccc
Q 000464 533 SECYCVWCGR-SSDLVSCKS--CKTLFCTTCVKRN 564 (1479)
Q Consensus 533 ~~~~C~~C~~-gg~L~~Cd~--C~r~Fc~~Cl~~~ 564 (1479)
....|.+|+. +|-++-|.. |.+.||..|....
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 3458999997 689999998 9999999997654
No 334
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=62.63 E-value=3.4 Score=52.44 Aligned_cols=43 Identities=26% Similarity=0.692 Sum_probs=34.0
Q ss_pred ccccCCCC-----ceeecCC--cccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 537 CVWCGRSS-----DLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 537 C~~C~~gg-----~L~~Cd~--C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
|-||.|-. -|+-||. |.-+-|+.| .|.. ..+.++|+|--|...
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaC----YGIv----qVPtGpWfCrKCesq 57 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQAC----YGIV----QVPTGPWFCRKCESQ 57 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhc----ceeE----ecCCCchhhhhhhhh
Confidence 66776543 6999998 999999999 4544 567899999999654
No 335
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=62.44 E-value=3.7 Score=55.81 Aligned_cols=121 Identities=32% Similarity=0.403 Sum_probs=106.9
Q ss_pred CCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhCCCCCCceEEEeeccccccc
Q 000464 1134 GDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNEPLNKRVKCTLISTRAGSLG 1213 (1479)
Q Consensus 1134 G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~~~n~~v~VfLISTkAGGeG 1213 (1479)
..|||||||+...+|.++..+.. .++.+.+..+ +. .-...+..|.. +.|||+-++.|+-|
T Consensus 1221 qekvIvfsqws~~ldV~e~~~~~------------N~I~~~~~~~-t~--d~~dc~~~fk~-----I~clll~~~~~~~G 1280 (1394)
T KOG0298|consen 1221 QEKVIVFSQWSVVLDVKELRYLM------------NLIKKQLDGE-TE--DFDDCIICFKS-----IDCLLLFVSKGSKG 1280 (1394)
T ss_pred CceEEEEEehHHHHHHHHHHHHh------------hhhHhhhccC-Cc--chhhhhhhccc-----ceEEEEEeccCccc
Confidence 46999999999999999999875 5676555444 33 55678888874 77899999999999
Q ss_pred cCccccCEEEEEeCCCCcchHHHHhHhhhhcCCCCcEEEEEEEeCCCHHHHHHHHHHHHHH
Q 000464 1214 INLHSANRVIIVDGSWNPTYDLQAIYRAWRYGQTKPVFAYRLMAHGTMEEKIYKRQVTKEG 1274 (1479)
Q Consensus 1214 LNLt~AnrVIifDp~WNPa~d~QAIGRa~RiGQkK~V~VYRLIa~gTIEEkI~~rq~~K~~ 1274 (1479)
+||..|.||++.+|--||+.+.||+||+|||||++|++||||+..+|+|+.|+.....|..
T Consensus 1281 LNL~eA~Hvfl~ePiLN~~~E~QAigRvhRiGQ~~pT~V~~fiv~~TvEe~Il~l~~~~ee 1341 (1394)
T KOG0298|consen 1281 LNLIEATHVFLVEPILNPGDEAQAIGRVHRIGQKRPTFVHRFIVNETVEENILSLITSKEE 1341 (1394)
T ss_pred ccHHhhhhhheeccccCchHHHhhhhhhhhcccccchhhhhhhhccchHHHHHHHhhhhHH
Confidence 9999999999999999999999999999999999999999999999999999988877743
No 336
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=62.19 E-value=58 Score=47.48 Aligned_cols=69 Identities=17% Similarity=0.153 Sum_probs=45.3
Q ss_pred CchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhH
Q 000464 717 PSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL 796 (1479)
Q Consensus 717 P~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl 796 (1479)
+..+...|-+-|++++..++. +...-.+|----|.|||.+.-+++..+..........++.++|.+-.
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 344455689999999987753 23456788888999999876666555432211122357778897655
Q ss_pred H
Q 000464 797 H 797 (1479)
Q Consensus 797 ~ 797 (1479)
.
T Consensus 1029 A 1029 (1747)
T PRK13709 1029 V 1029 (1747)
T ss_pred H
Confidence 4
No 337
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=62.11 E-value=57 Score=35.92 Aligned_cols=56 Identities=18% Similarity=0.261 Sum_probs=35.2
Q ss_pred cCCCCEEEEcCCcccCCcc----hHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhh
Q 000464 871 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV 926 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~~----Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL 926 (1479)
...+|+||+||.=..-+.. ..+...+..-...--++|||.=....+.|+..++.-+
T Consensus 95 ~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~~l~e~AD~VTEm 154 (173)
T TIGR00708 95 DPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQDLLELADLVTEM 154 (173)
T ss_pred cCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCHHHHHhCceeeee
Confidence 4589999999987543322 3444555444555579999986655555554444433
No 338
>PRK13342 recombination factor protein RarA; Reviewed
Probab=61.93 E-value=31 Score=42.86 Aligned_cols=24 Identities=25% Similarity=0.043 Sum_probs=18.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLY 774 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~ 774 (1479)
.....||.-+.|+|||..+-++..
T Consensus 35 ~~~~ilL~GppGtGKTtLA~~ia~ 58 (413)
T PRK13342 35 RLSSMILWGPPGTGKTTLARIIAG 58 (413)
T ss_pred CCceEEEECCCCCCHHHHHHHHHH
Confidence 345789999999999977766543
No 339
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=61.90 E-value=28 Score=42.46 Aligned_cols=25 Identities=28% Similarity=0.244 Sum_probs=20.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYT 775 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ 775 (1479)
...|.+|.-+.|.|||..+-++...
T Consensus 155 ~p~gvLL~GppGtGKT~lakaia~~ 179 (364)
T TIGR01242 155 PPKGVLLYGPPGTGKTLLAKAVAHE 179 (364)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHh
Confidence 4678999999999999888777554
No 340
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=61.81 E-value=87 Score=36.86 Aligned_cols=24 Identities=25% Similarity=0.231 Sum_probs=19.5
Q ss_pred cceEEEcCCCchHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+|.-+.|.|||..+-++...+
T Consensus 39 ~~~ll~G~~G~GKt~~~~~l~~~l 62 (319)
T PRK00440 39 PHLLFAGPPGTGKTTAALALAREL 62 (319)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 357999999999998887776554
No 341
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=61.54 E-value=2.7 Score=50.90 Aligned_cols=28 Identities=21% Similarity=0.351 Sum_probs=16.7
Q ss_pred ccccccccccccchhhhhhcCcccCCCCCc
Q 000464 505 PHPILNVIVCKDCKCLLEKKMHVKDADCSE 534 (1479)
Q Consensus 505 ~HP~l~v~~C~~C~~~~~~~~~~~d~d~~~ 534 (1479)
.|| .--.|-.|+.-+..-.|..|.+++-
T Consensus 356 yHp--~CF~Cv~C~r~ldgipFtvd~~n~v 383 (468)
T KOG1701|consen 356 YHP--GCFTCVVCARCLDGIPFTVDSQNNV 383 (468)
T ss_pred cCC--CceEEEEeccccCCccccccCCCce
Confidence 466 3334555555555557888877664
No 342
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=61.00 E-value=62 Score=39.02 Aligned_cols=50 Identities=16% Similarity=-0.005 Sum_probs=36.4
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.++|+|...-+.+...+. .+.-....++....|+||+..|.+|+..++..
T Consensus 3 ~~yPWl~~~~~~l~~~~~-------~~rl~hA~L~~G~~G~Gk~~lA~~~a~~llC~ 52 (319)
T PRK06090 3 NDYPWLVPVWQNWKAGLD-------AGRIPGALLLQSDEGLGVESLVELFSRALLCQ 52 (319)
T ss_pred cCcccHHHHHHHHHHHHH-------cCCcceeEeeECCCCCCHHHHHHHHHHHHcCC
Confidence 467888877666544321 22345678889999999999999999888754
No 343
>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=60.75 E-value=31 Score=34.53 Aligned_cols=21 Identities=29% Similarity=0.195 Sum_probs=16.1
Q ss_pred EEEcCCCchHHHHHHHHHHHH
Q 000464 756 ILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 756 ILADeMGLGKTLQaIAlL~~l 776 (1479)
+|--..|.|||..+-+++..+
T Consensus 2 ll~G~~G~GKT~l~~~la~~l 22 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYL 22 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHT
T ss_pred EEECcCCCCeeHHHHHHHhhc
Confidence 566789999998877766554
No 344
>PRK10865 protein disaggregation chaperone; Provisional
Probab=60.74 E-value=47 Score=45.32 Aligned_cols=26 Identities=23% Similarity=0.149 Sum_probs=21.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+.||.-+.|.|||..+-++...+
T Consensus 198 ~~~n~lL~G~pGvGKT~l~~~la~~i 223 (857)
T PRK10865 198 TKNNPVLIGEPGVGKTAIVEGLAQRI 223 (857)
T ss_pred CcCceEEECCCCCCHHHHHHHHHHHh
Confidence 45689999999999998887776654
No 345
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=60.69 E-value=63 Score=46.62 Aligned_cols=143 Identities=17% Similarity=0.142 Sum_probs=78.8
Q ss_pred hhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHH
Q 000464 719 SISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHN 798 (1479)
Q Consensus 719 ~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~q 798 (1479)
.+...|-+-|++++..++. +...-++|--.-|.|||.++-+++..+..........++.++|.+-...
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 4445789999999987753 2334577888899999988655554433211111235777889765543
Q ss_pred HHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEE
Q 000464 799 WKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILV 878 (1479)
Q Consensus 799 W~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVI 878 (1479)
=..+. + + ....+..|..... .+.. .........++||
T Consensus 899 ~L~e~-----G----i------------~A~TIasfL~~~~-------~~~~---------------~~~~~~~~~~llI 935 (1623)
T PRK14712 899 EMRSA-----G----V------------DAQTLASFLHDTQ-------LQQR---------------SGETPDFSNTLFL 935 (1623)
T ss_pred HHHHh-----C----c------------hHhhHHHHhcccc-------chhh---------------cccCCCCCCcEEE
Confidence 22221 0 0 0112222211100 0000 0000001457999
Q ss_pred EcCCcccCCcchHHHHHHHhcc-cceEEEeeCCCCccchhH
Q 000464 879 CDEAHMIKNTRADTTQALKQVK-CQRRIALTGSPLQNNLME 918 (1479)
Q Consensus 879 lDEAH~IKN~~Sk~skalk~Lk-a~rRllLTGTPLqNnL~E 918 (1479)
||||-.+-+. ...+.+..+. ..-|++|.|=|-|....+
T Consensus 936 VDEASMV~~~--~m~~ll~~~~~~garvVLVGD~~QL~sV~ 974 (1623)
T PRK14712 936 LDESSMVGNT--DMARAYALIAAGGGRAVASGDTDQLQAIA 974 (1623)
T ss_pred EEccccccHH--HHHHHHHhhhhCCCEEEEEcchhhcCCCC
Confidence 9999988543 3445555554 357899999987755443
No 346
>PRK13531 regulatory ATPase RavA; Provisional
Probab=60.06 E-value=33 Score=43.56 Aligned_cols=26 Identities=15% Similarity=0.252 Sum_probs=21.8
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
.+...+|-.+.|+|||..|-++....
T Consensus 38 ag~hVLL~GpPGTGKT~LAraLa~~~ 63 (498)
T PRK13531 38 SGESVFLLGPPGIAKSLIARRLKFAF 63 (498)
T ss_pred cCCCEEEECCCChhHHHHHHHHHHHh
Confidence 46789999999999999888876554
No 347
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.04 E-value=88 Score=38.77 Aligned_cols=27 Identities=30% Similarity=0.367 Sum_probs=22.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....|+.-+.|+|||..|.+|...+..
T Consensus 38 ~ha~lf~Gp~G~GKtt~A~~~a~~l~c 64 (397)
T PRK14955 38 GHGYIFSGLRGVGKTTAARVFAKAVNC 64 (397)
T ss_pred ceeEEEECCCCCCHHHHHHHHHHHhcC
Confidence 345788999999999999888877653
No 348
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=59.51 E-value=44 Score=42.84 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=20.9
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
..++.-+.|.|||..+.+|+..+..
T Consensus 38 a~Lf~GppGtGKTTlA~~lA~~l~c 62 (504)
T PRK14963 38 AYLFSGPRGVGKTTTARLIAMAVNC 62 (504)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhc
Confidence 3489999999999999888877654
No 349
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=59.39 E-value=65 Score=39.26 Aligned_cols=47 Identities=13% Similarity=-0.015 Sum_probs=33.1
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
++|+|...-+-+. .. .+.-+.+.++.-..|.|||..|.+|...++..
T Consensus 2 ~yPW~~~~~~~l~----~~-----~~rl~ha~Lf~Gp~G~GK~~lA~~~A~~LlC~ 48 (342)
T PRK06964 2 LYPWQTDDWNRLQ----AL-----RARLPHALLLHGQAGIGKLDFAQHLAQGLLCE 48 (342)
T ss_pred CCcccHHHHHHHH----Hh-----cCCcceEEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 5788776544443 21 12344677788899999999999999888754
No 350
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=59.21 E-value=29 Score=46.40 Aligned_cols=71 Identities=15% Similarity=0.046 Sum_probs=48.9
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhH-HHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVL-HNWK 800 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl-~qW~ 800 (1479)
..|-|-|+++|.+- .+.+++-...|.|||.+.+.-+++++.........+|+|+-++-. ..-.
T Consensus 8 ~~Ln~~Q~~av~~~----------------~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~ 71 (721)
T PRK11773 8 DSLNDKQREAVAAP----------------LGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMR 71 (721)
T ss_pred HhcCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHH
Confidence 45889999988532 245666667899999999999988886544445678999885543 3444
Q ss_pred HHHHHhCC
Q 000464 801 QEFMKWRP 808 (1479)
Q Consensus 801 ~E~~kw~P 808 (1479)
..+.+.++
T Consensus 72 ~Rl~~~~~ 79 (721)
T PRK11773 72 HRIEQLLG 79 (721)
T ss_pred HHHHHHhc
Confidence 44555443
No 351
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=59.13 E-value=1.9e+02 Score=34.19 Aligned_cols=74 Identities=14% Similarity=0.075 Sum_probs=42.5
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc----cc-ceEEEeeCCCCccchhHHHhhhhhhccC-----------CCCChHH
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV----KC-QRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSHE 936 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L----ka-~rRllLTGTPLqNnL~EL~sLL~FL~P~-----------~Lgs~~e 936 (1479)
++|+||+|-+=+.-+... ....+..+ .. ...++|++|--.+...+....++-+.+. .+|..-.
T Consensus 154 ~~D~ViIDt~Gr~~~~~~-~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~~~~~~~I~TKlDet~~~G~~l~ 232 (270)
T PRK06731 154 RVDYILIDTAGKNYRASE-TVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDIHIDGIVFTKFDETASSGELLK 232 (270)
T ss_pred CCCEEEEECCCCCcCCHH-HHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCCCCCCEEEEEeecCCCCccHHHH
Confidence 688999998866533222 22222222 22 3356788887777777777766655443 2344444
Q ss_pred HHhhhcCCccc
Q 000464 937 FRNRFQNPIEN 947 (1479)
Q Consensus 937 F~~~F~~PI~~ 947 (1479)
....+..||..
T Consensus 233 ~~~~~~~Pi~~ 243 (270)
T PRK06731 233 IPAVSSAPIVL 243 (270)
T ss_pred HHHHHCcCEEE
Confidence 55556667653
No 352
>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=58.96 E-value=64 Score=47.93 Aligned_cols=64 Identities=14% Similarity=0.118 Sum_probs=42.4
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
..|-+-|+.++..++. +...-.++--.-|.|||.+..+++..+..........++.++|.+-..
T Consensus 1018 ~~Lt~~Q~~Ai~~il~------------~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa 1081 (1960)
T TIGR02760 1018 ERLTHGQKQAIHLIIS------------TKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAV 1081 (1960)
T ss_pred CCCCHHHHHHHHHHHh------------CCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHH
Confidence 4689999999987743 233456777788999998876554444332222234678888976544
No 353
>PF03354 Terminase_1: Phage Terminase ; InterPro: IPR005021 This entry is represented by Lactococcus phage bIL285, Orf41 (terminase). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=58.88 E-value=62 Score=41.10 Aligned_cols=39 Identities=10% Similarity=-0.129 Sum_probs=24.5
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
-++|.-.=|=|||..+.++..+.+-.......-++++++
T Consensus 24 ~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~ 62 (477)
T PF03354_consen 24 EVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAAN 62 (477)
T ss_pred EEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeC
Confidence 477777889999988777665544322212234666666
No 354
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=58.49 E-value=51 Score=40.96 Aligned_cols=52 Identities=15% Similarity=0.291 Sum_probs=32.6
Q ss_pred CCCEEEEcCCcccCCcc---hHHHHHHHhc-ccceEEEeeC--CCCccc--hhHHHhhhh
Q 000464 873 GPDILVCDEAHMIKNTR---ADTTQALKQV-KCQRRIALTG--SPLQNN--LMEYYCMVD 924 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~---Sk~skalk~L-ka~rRllLTG--TPLqNn--L~EL~sLL~ 924 (1479)
..|++++|-.|.+.+.. -...-.+..+ .....|+||+ +|-+-+ ..+|.+-+.
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~ 234 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLE 234 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHh
Confidence 67889999999987763 3344445555 3444899999 774433 234544443
No 355
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=58.47 E-value=3.3 Score=33.66 Aligned_cols=35 Identities=20% Similarity=0.611 Sum_probs=17.1
Q ss_pred CceeecCCcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 544 SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 544 g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
..|+.|++|.-++|..|-. -. .....+.|.|-.|.
T Consensus 2 n~ll~C~~C~v~VH~~CYG----v~---~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYG----VS---EVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-----S---S--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCC----cc---cCCCCCcEECCcCC
Confidence 3689999999999999943 22 12233469998873
No 356
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=58.40 E-value=30 Score=45.63 Aligned_cols=69 Identities=17% Similarity=0.160 Sum_probs=48.0
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec-hhhHHHHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP-VNVLHNWKQE 802 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P-~sLl~qW~~E 802 (1479)
|-|-|+.+|.+ ....+++-...|.|||.+.+.-+..++.......+.+|+|+. .....+-...
T Consensus 2 Ln~~Q~~av~~----------------~~~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~R 65 (664)
T TIGR01074 2 LNPQQQEAVEY----------------VTGPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKER 65 (664)
T ss_pred CCHHHHHHHhC----------------CCCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHH
Confidence 56778887753 234567777889999999999998888643333456788875 5556666676
Q ss_pred HHHhCC
Q 000464 803 FMKWRP 808 (1479)
Q Consensus 803 ~~kw~P 808 (1479)
+.+.++
T Consensus 66 l~~~l~ 71 (664)
T TIGR01074 66 VAKTLG 71 (664)
T ss_pred HHHHhC
Confidence 766554
No 357
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=57.89 E-value=28 Score=46.10 Aligned_cols=69 Identities=20% Similarity=0.194 Sum_probs=47.2
Q ss_pred ccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH-HHHHH
Q 000464 724 LKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH-NWKQE 802 (1479)
Q Consensus 724 LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~-qW~~E 802 (1479)
|-|-|..+|.+- .+.+++....|.|||.+.++-+.+++.........+|+|+.+.-.. .-...
T Consensus 3 Ln~~Q~~av~~~----------------~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~R 66 (672)
T PRK10919 3 LNPGQQQAVEFV----------------TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKER 66 (672)
T ss_pred CCHHHHHHHhCC----------------CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHH
Confidence 678888888532 2456666779999999999999998865333346799999855443 44444
Q ss_pred HHHhCC
Q 000464 803 FMKWRP 808 (1479)
Q Consensus 803 ~~kw~P 808 (1479)
+.+.++
T Consensus 67 l~~~l~ 72 (672)
T PRK10919 67 VAQTLG 72 (672)
T ss_pred HHHHhC
Confidence 544443
No 358
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=57.89 E-value=33 Score=42.59 Aligned_cols=43 Identities=23% Similarity=0.243 Sum_probs=28.9
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 799 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW 799 (1479)
..+.|.+|.-+.|.|||+.+=++.... ..+++.+.+..++..|
T Consensus 177 ~~pkgvLL~GppGTGKT~LAkalA~~l-------~~~fi~i~~s~l~~k~ 219 (398)
T PTZ00454 177 DPPRGVLLYGPPGTGKTMLAKAVAHHT-------TATFIRVVGSEFVQKY 219 (398)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHHhc-------CCCEEEEehHHHHHHh
Confidence 356899999999999999887765432 1345555555444333
No 359
>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=57.87 E-value=1e+02 Score=33.03 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=19.3
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
.++.-..|.|||..+..++..+...
T Consensus 3 ~~~~G~~G~GKTt~~~~la~~~~~~ 27 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKK 27 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC
Confidence 3567789999999988887766543
No 360
>PHA02929 N1R/p28-like protein; Provisional
Probab=57.84 E-value=5.1 Score=46.02 Aligned_cols=46 Identities=20% Similarity=0.474 Sum_probs=30.8
Q ss_pred CCcccccccCCCCce--------eecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 532 CSECYCVWCGRSSDL--------VSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 532 ~~~~~C~~C~~gg~L--------~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
..+..|.+|.+.-.- ..=..|..+||..||.+.+... . .||+|.-.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~--------~--tCPlCR~~ 225 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEK--------N--TCPVCRTP 225 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcC--------C--CCCCCCCE
Confidence 345689999886321 1223689999999997765322 1 69999643
No 361
>CHL00206 ycf2 Ycf2; Provisional
Probab=57.79 E-value=42 Score=48.62 Aligned_cols=44 Identities=16% Similarity=0.221 Sum_probs=32.7
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWK 800 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~ 800 (1479)
....|.+|.-++|+|||+.|=|++... .-|.+-|....++..|.
T Consensus 1628 ~pPKGILLiGPPGTGKTlLAKALA~es-------~VPFIsISgs~fl~~~~ 1671 (2281)
T CHL00206 1628 SPSRGILVIGSIGTGRSYLVKYLATNS-------YVPFITVFLNKFLDNKP 1671 (2281)
T ss_pred CCCCceEEECCCCCCHHHHHHHHHHhc-------CCceEEEEHHHHhhccc
Confidence 346799999999999999888776543 13666666777777663
No 362
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=57.59 E-value=63 Score=45.03 Aligned_cols=133 Identities=18% Similarity=0.154 Sum_probs=75.3
Q ss_pred hhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHH
Q 000464 722 AKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQ 801 (1479)
Q Consensus 722 ~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~ 801 (1479)
..|-+-|..+|..+. ....-++|--.-|.|||...-++...+... ..+++.++|..-..+=..
T Consensus 380 ~~Ls~eQ~~Av~~i~-------------~~~r~~~v~G~AGTGKTt~l~~~~~~~e~~----G~~V~g~ApTgkAA~~L~ 442 (1102)
T PRK13826 380 ARLSDEQKTAIEHVA-------------GPARIAAVVGRAGAGKTTMMKAAREAWEAA----GYRVVGGALAGKAAEGLE 442 (1102)
T ss_pred CCCCHHHHHHHHHHh-------------ccCCeEEEEeCCCCCHHHHHHHHHHHHHHc----CCeEEEEcCcHHHHHHHH
Confidence 358889999987652 123346777788999998776655444322 247888888765543222
Q ss_pred HHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcC
Q 000464 802 EFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDE 881 (1479)
Q Consensus 802 E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDE 881 (1479)
+ -+. +....++ .++..|.. + ......-++|||||
T Consensus 443 e---~~G-----i~a~TIa--------s~ll~~~~-~-----------------------------~~~l~~~~vlVIDE 476 (1102)
T PRK13826 443 K---EAG-----IQSRTLS--------SWELRWNQ-G-----------------------------RDQLDNKTVFVLDE 476 (1102)
T ss_pred H---hhC-----CCeeeHH--------HHHhhhcc-C-----------------------------ccCCCCCcEEEEEC
Confidence 2 111 0000000 00011100 0 00011457899999
Q ss_pred CcccCCcchHHHHHHHhc-ccceEEEeeCCCCccchhHH
Q 000464 882 AHMIKNTRADTTQALKQV-KCQRRIALTGSPLQNNLMEY 919 (1479)
Q Consensus 882 AH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqNnL~EL 919 (1479)
|..+-. ......+..+ ....+++|.|=|-|-...+-
T Consensus 477 AsMv~~--~~m~~Ll~~~~~~garvVLVGD~~QL~~V~a 513 (1102)
T PRK13826 477 AGMVAS--RQMALFVEAVTRAGAKLVLVGDPEQLQPIEA 513 (1102)
T ss_pred cccCCH--HHHHHHHHHHHhcCCEEEEECCHHHcCCCCC
Confidence 998843 2344555555 46789999999987654443
No 363
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=57.44 E-value=89 Score=35.73 Aligned_cols=39 Identities=13% Similarity=0.128 Sum_probs=29.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEech
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPV 793 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~ 793 (1479)
.+.-.++.-+.|.|||..++.+++.....+ .+++.|+..
T Consensus 23 ~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g----~~~~yi~~e 61 (230)
T PRK08533 23 AGSLILIEGDESTGKSILSQRLAYGFLQNG----YSVSYVSTQ 61 (230)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHhCC----CcEEEEeCC
Confidence 355688899999999999888888765432 466777653
No 364
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=57.40 E-value=68 Score=42.75 Aligned_cols=27 Identities=19% Similarity=0.142 Sum_probs=22.0
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....|+.-+.|.|||..|-+|+..+..
T Consensus 40 ~HAYLF~GP~GtGKTt~AriLAk~LnC 66 (725)
T PRK07133 40 SHAYLFSGPRGTGKTSVAKIFANALNC 66 (725)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHhcc
Confidence 445689999999999999888877654
No 365
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=57.30 E-value=40 Score=44.35 Aligned_cols=101 Identities=15% Similarity=0.079 Sum_probs=69.3
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHh
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFN 1193 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN 1193 (1479)
...|||-.+..-.+......|.+++|-+.....+..+...+..+.. ..|+++..++|+++..+|..+++...
T Consensus 264 ~TGSGKT~va~l~il~~~~~g~qvlilaPT~~LA~Q~~~~~~~l~~--------~~gi~v~lltg~~~~~~r~~~~~~i~ 335 (630)
T TIGR00643 264 DVGSGKTLVAALAMLAAIEAGYQVALMAPTEILAEQHYNSLRNLLA--------PLGIEVALLTGSLKGKRRKELLETIA 335 (630)
T ss_pred CCCCcHHHHHHHHHHHHHHcCCcEEEECCHHHHHHHHHHHHHHHhc--------ccCcEEEEEecCCCHHHHHHHHHHHh
Confidence 4678998765544444455688999999988877777776665311 13789999999999999999998887
Q ss_pred CCCCCCceEEEeeccccccccCccccCEEEEE
Q 000464 1194 EPLNKRVKCTLISTRAGSLGINLHSANRVIIV 1225 (1479)
Q Consensus 1194 ~~~n~~v~VfLISTkAGGeGLNLt~AnrVIif 1225 (1479)
+ +.+.|++.+....-..+.+.....||+=
T Consensus 336 ~---g~~~IiVgT~~ll~~~~~~~~l~lvVID 364 (630)
T TIGR00643 336 S---GQIHLVVGTHALIQEKVEFKRLALVIID 364 (630)
T ss_pred C---CCCCEEEecHHHHhccccccccceEEEe
Confidence 5 3344445444444445666666655543
No 366
>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=57.27 E-value=1.8e+02 Score=33.68 Aligned_cols=39 Identities=21% Similarity=0.330 Sum_probs=27.9
Q ss_pred CchHHHHHHHHHHHHHHhcccCCCceEEEe--chhhHHHHHHHHH
Q 000464 762 GLGKTFQVIAFLYTAMRSVNLGLRTALIVT--PVNVLHNWKQEFM 804 (1479)
Q Consensus 762 GLGKTLQaIAlL~~ll~~~~~~~k~vLIV~--P~sLl~qW~~E~~ 804 (1479)
|.|||-.++++...+...+ +++.||= |..-+..|.+-..
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 8899998888887775543 3566653 7777889966543
No 367
>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=56.95 E-value=65 Score=34.55 Aligned_cols=53 Identities=17% Similarity=0.129 Sum_probs=34.7
Q ss_pred CCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhcc
Q 000464 872 DGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVRE 928 (1479)
Q Consensus 872 ~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~P 928 (1479)
..+|+||+|=...+-+ ....+..+.....+++..+|-..++.+...++.++..
T Consensus 66 ~~yD~VIiD~pp~~~~----~~~~~~~~~~ad~viiV~~p~~~s~~~~~~~~~~l~~ 118 (169)
T cd02037 66 GELDYLVIDMPPGTGD----EHLTLAQSLPIDGAVIVTTPQEVALDDVRKAIDMFKK 118 (169)
T ss_pred CCCCEEEEeCCCCCcH----HHHHHHhccCCCeEEEEECCchhhHHHHHHHHHHHHh
Confidence 4899999998775421 1111222234455666668888888888888888764
No 368
>PRK11823 DNA repair protein RadA; Provisional
Probab=56.74 E-value=1e+02 Score=38.95 Aligned_cols=49 Identities=14% Similarity=0.101 Sum_probs=33.0
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 804 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 804 (1479)
+.-.+|.-++|.|||..++.++...... ..++|.|.-.....|......
T Consensus 80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~----g~~vlYvs~Ees~~qi~~ra~ 128 (446)
T PRK11823 80 GSVVLIGGDPGIGKSTLLLQVAARLAAA----GGKVLYVSGEESASQIKLRAE 128 (446)
T ss_pred CEEEEEECCCCCCHHHHHHHHHHHHHhc----CCeEEEEEccccHHHHHHHHH
Confidence 3446789999999999988888766432 247777775444445444333
No 369
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=56.41 E-value=82 Score=39.64 Aligned_cols=95 Identities=22% Similarity=0.288 Sum_probs=71.1
Q ss_pred CCCCCCCCccccccCCHHHHHHHHHHHHHhhhHHHHHHH-----HHhHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHH
Q 000464 35 SISGQDDGLHLEEHLTEEEIEELIAEFLEVESKAAEAQE-----ALELESLVKLKNEVREELAQALHGDDLEAAVEDEMT 109 (1479)
Q Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (1479)
..++....+.+|..=..+-|..||+.+-+++.+.+++.. .-|-|.|.+-|+-|.+-+.+.|++. ..|+.
T Consensus 42 ltpee~kalGiegDTP~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~------~~~~~ 115 (472)
T TIGR03752 42 LSPEELKALGIEGDTPADTLRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQAVQSE------TQELT 115 (472)
T ss_pred CCcchhHhcCCCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh------hHHHH
Confidence 445556677788877888899999999999999888764 3466788888888888888887762 23444
Q ss_pred HHHHHHHHHHhhHHhHHHHHHHhhhc
Q 000464 110 VYKEQWEAALDELETESAHLLEQLDG 135 (1479)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 (1479)
.=+++-+.++..|...+..|+.||++
T Consensus 116 ~~~~ql~~~~~~~~~~l~~l~~~l~~ 141 (472)
T TIGR03752 116 KEIEQLKSERQQLQGLIDQLQRRLAG 141 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44444556677888888888999875
No 370
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=55.95 E-value=49 Score=44.21 Aligned_cols=25 Identities=28% Similarity=0.174 Sum_probs=19.2
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLY 774 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~ 774 (1479)
......||.-+.|+|||..|-++..
T Consensus 50 ~~~~slLL~GPpGtGKTTLA~aIA~ 74 (725)
T PRK13341 50 DRVGSLILYGPPGVGKTTLARIIAN 74 (725)
T ss_pred CCCceEEEECCCCCCHHHHHHHHHH
Confidence 3445789999999999977666553
No 371
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=55.87 E-value=9.1 Score=36.88 Aligned_cols=51 Identities=14% Similarity=0.299 Sum_probs=35.4
Q ss_pred CCcccccccCCC-CceeecCC--cccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 532 CSECYCVWCGRS-SDLVSCKS--CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 532 ~~~~~C~~C~~g-g~L~~Cd~--C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
+....|.+|+.. |-.+.|.. |.+.||..|-...-..-. ......|...+|.
T Consensus 34 ~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~---~~~~~~~~~~~C~ 87 (90)
T PF13771_consen 34 RRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIE---FDEDNGKFRIFCP 87 (90)
T ss_pred HhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEE---EccCCCceEEECh
Confidence 444579999998 99999977 999999999654322221 1123457777773
No 372
>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=55.76 E-value=29 Score=44.39 Aligned_cols=26 Identities=27% Similarity=0.244 Sum_probs=21.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...|.+|.-+.|.|||..+-++...+
T Consensus 215 ~p~GILLyGPPGTGKT~LAKAlA~eL 240 (512)
T TIGR03689 215 PPKGVLLYGPPGCGKTLIAKAVANSL 240 (512)
T ss_pred CCcceEEECCCCCcHHHHHHHHHHhh
Confidence 46789999999999999888776654
No 373
>CHL00095 clpC Clp protease ATP binding subunit
Probab=55.46 E-value=30 Score=46.92 Aligned_cols=26 Identities=23% Similarity=0.119 Sum_probs=21.4
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+.||.-+.|.|||..+-++...+
T Consensus 199 ~~~n~lL~G~pGvGKTal~~~la~~i 224 (821)
T CHL00095 199 TKNNPILIGEPGVGKTAIAEGLAQRI 224 (821)
T ss_pred ccCCeEEECCCCCCHHHHHHHHHHHH
Confidence 45689999999999998887776654
No 374
>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=55.45 E-value=54 Score=38.05 Aligned_cols=32 Identities=28% Similarity=0.452 Sum_probs=25.2
Q ss_pred CchHHHHHHHHHHHHHHhcccCCCceEEE--echhhHH
Q 000464 762 GLGKTFQVIAFLYTAMRSVNLGLRTALIV--TPVNVLH 797 (1479)
Q Consensus 762 GLGKTLQaIAlL~~ll~~~~~~~k~vLIV--~P~sLl~ 797 (1479)
|.|||-.+.++...+.+.+ +++|+| +|.+++.
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 8999999999888886653 478877 6887774
No 375
>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=55.33 E-value=2.4 Score=39.12 Aligned_cols=16 Identities=38% Similarity=1.562 Sum_probs=13.4
Q ss_pred cccccchhhhcccCCcccccccccCCCceeecC
Q 000464 552 CKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 552 C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
|.++||+.| .|+|.+|
T Consensus 27 Cn~CyCK~C-----------------cyHCqlC 42 (68)
T PF00539_consen 27 CNKCYCKKC-----------------CYHCQLC 42 (68)
T ss_dssp SSSSSSTTS-----------------TSSSSCC
T ss_pred cCCcccCcc-----------------eeeceee
Confidence 677899999 5888888
No 376
>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=55.12 E-value=40 Score=45.15 Aligned_cols=42 Identities=24% Similarity=0.297 Sum_probs=29.4
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNW 799 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW 799 (1479)
...|.+|.-..|.|||..|-++.... ..+++.|-+..++..|
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 45789999999999998887766543 1356666666555544
No 377
>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=55.01 E-value=42 Score=45.78 Aligned_cols=27 Identities=26% Similarity=0.249 Sum_probs=20.9
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
....+.||.-+.|.|||..+=++...+
T Consensus 206 ~~~~n~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 206 RRQNNPILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred CCcCceeEECCCCCCHHHHHHHHHHHH
Confidence 345689999999999997776665544
No 378
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=54.99 E-value=96 Score=35.18 Aligned_cols=51 Identities=16% Similarity=0.260 Sum_probs=34.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
.+.-.+++-+.|.|||.-+..|++..... ..+++.|.=.....+..+.+..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~----g~~~~y~~~e~~~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALKQ----GKKVYVITTENTSKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHhC----CCEEEEEEcCCCHHHHHHHHHH
Confidence 34557888999999999999998766543 2477777654444444444444
No 379
>PHA02926 zinc finger-like protein; Provisional
Probab=54.80 E-value=4.7 Score=45.35 Aligned_cols=50 Identities=24% Similarity=0.468 Sum_probs=31.8
Q ss_pred cccccccCCCC---ceee------cCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 534 ECYCVWCGRSS---DLVS------CKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 534 ~~~C~~C~~gg---~L~~------Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
+..|.+|.+.- .+.- =+.|..+||..||....... ........||+|.-.
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 35788888641 1111 13589999999998765432 123346789999643
No 380
>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=54.80 E-value=3.7 Score=34.32 Aligned_cols=38 Identities=24% Similarity=0.614 Sum_probs=25.2
Q ss_pred cccccCC----CCceeecCCcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 536 YCVWCGR----SSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 536 ~C~~C~~----gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
.|.+|.+ +..++... |...||..||...+... -.||+|
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 4666753 34555555 99999999997765332 288888
No 381
>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]
Probab=54.72 E-value=1.3e+02 Score=35.24 Aligned_cols=41 Identities=27% Similarity=0.424 Sum_probs=26.0
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc----ccceEEEeeCCCCc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV----KCQRRIALTGSPLQ 913 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L----ka~rRllLTGTPLq 913 (1479)
.+-.+++||||.+..+.=..-+.+.++ ...-+++|-|-|--
T Consensus 131 r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L 175 (269)
T COG3267 131 RPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKL 175 (269)
T ss_pred CCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCccc
Confidence 456799999999855433333333333 33456899999843
No 382
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=54.60 E-value=7.8 Score=41.89 Aligned_cols=48 Identities=27% Similarity=0.632 Sum_probs=32.4
Q ss_pred ccccC------CCCceeecCCcccccchhhhcccCCcccccccccCCC--ceeecC
Q 000464 537 CVWCG------RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASC--WQCCCC 584 (1479)
Q Consensus 537 C~~C~------~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~--W~C~~C 584 (1479)
|.+|+ .-|-||-|-.|..+||+.||..--.+.-+-.-...+. -+|-+|
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~C 57 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRC 57 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhh
Confidence 66664 4579999999999999999875555554432223333 346666
No 383
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=54.52 E-value=89 Score=33.95 Aligned_cols=56 Identities=13% Similarity=0.039 Sum_probs=36.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcc------cCCCceEEEechhhHHHHHHHHHHhC
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVN------LGLRTALIVTPVNVLHNWKQEFMKWR 807 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~------~~~k~vLIV~P~sLl~qW~~E~~kw~ 807 (1479)
|.=++++-..|.|||.-++.++..+..... ....++|+|..-.-..++..-+..+.
T Consensus 32 g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~ 93 (193)
T PF13481_consen 32 GELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL 93 (193)
T ss_dssp TSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred CeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence 344888999999999999998887764211 12358888887666666666666554
No 384
>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=54.47 E-value=9.3 Score=35.65 Aligned_cols=44 Identities=25% Similarity=0.535 Sum_probs=31.0
Q ss_pred CceeeccCCcccc--cccccccccccccccchhhhhhcCcccCCCC
Q 000464 489 EKFYCTACNNVAI--EVHPHPILNVIVCKDCKCLLEKKMHVKDADC 532 (1479)
Q Consensus 489 ~~~~C~~Cg~~~~--~~~~HP~l~v~~C~~C~~~~~~~~~~~d~d~ 532 (1479)
-.|.|++||.... -...-|++.+-+|..|+.||.-..-..|..|
T Consensus 12 v~v~c~s~g~~~~~~St~~~~~~~vdi~s~~HPfytG~~~~~~~~G 57 (69)
T PF01197_consen 12 VKVTCSSCGNTFETRSTKEYPVIKVDICSNCHPFYTGKQKVVDTAG 57 (69)
T ss_dssp EEEEES-SSSCECECSSSSES-EEECSCSSSSCTTCSCSSCSCCCC
T ss_pred EEEEEcCCCCEEEEEECCcceEEEEeecCCCCEEEcCcEEEEcccc
Confidence 4689999997643 2335566899999999999987655555544
No 385
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.28 E-value=1.1e+02 Score=40.23 Aligned_cols=26 Identities=19% Similarity=0.134 Sum_probs=21.3
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
...|+.-.-|.|||..+.+|...+..
T Consensus 39 ha~Lf~Gp~GvGKTtlAr~lAk~LnC 64 (618)
T PRK14951 39 HAYLFTGTRGVGKTTVSRILAKSLNC 64 (618)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhcC
Confidence 44588999999999998888877754
No 386
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=53.30 E-value=3.3e+02 Score=34.30 Aligned_cols=74 Identities=12% Similarity=0.090 Sum_probs=45.5
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc-----ccceEEEeeCCCCccchhHHHhhhhhhccC-----------CCCChHH
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLGSSHE 936 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L-----ka~rRllLTGTPLqNnL~EL~sLL~FL~P~-----------~Lgs~~e 936 (1479)
++++|++|.+=+..+ .......+..+ .....++|++|--.+.+.++...+..+.+. .+|..-.
T Consensus 269 ~~d~VLIDTaGrsqr-d~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~~~f~~~~~~~~I~TKlDEt~~~G~~l~ 347 (420)
T PRK14721 269 GKHMVLIDTVGMSQR-DQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVISAYQGHGIHGCIITKVDEAASLGIALD 347 (420)
T ss_pred CCCEEEecCCCCCcc-hHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHHHHhcCCCCCEEEEEeeeCCCCccHHHH
Confidence 678899998643332 22233444444 234568899998888888887777665543 2344455
Q ss_pred HHhhhcCCccc
Q 000464 937 FRNRFQNPIEN 947 (1479)
Q Consensus 937 F~~~F~~PI~~ 947 (1479)
+...+..|+..
T Consensus 348 ~~~~~~lPi~y 358 (420)
T PRK14721 348 AVIRRKLVLHY 358 (420)
T ss_pred HHHHhCCCEEE
Confidence 66666667654
No 387
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=53.22 E-value=1.2e+02 Score=38.14 Aligned_cols=37 Identities=19% Similarity=0.133 Sum_probs=25.9
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
..-.+++-..|.|||.++..++..+... + .++++|+.
T Consensus 95 p~vI~lvG~~GsGKTTtaakLA~~L~~~---g-~kV~lV~~ 131 (437)
T PRK00771 95 PQTIMLVGLQGSGKTTTAAKLARYFKKK---G-LKVGLVAA 131 (437)
T ss_pred CeEEEEECCCCCcHHHHHHHHHHHHHHc---C-CeEEEecC
Confidence 4457788899999999988887766542 2 35555543
No 388
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=53.14 E-value=79 Score=41.08 Aligned_cols=27 Identities=19% Similarity=0.166 Sum_probs=21.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
.+...|+.-+-|+|||..|-.|...+.
T Consensus 37 ~~hayLf~Gp~GtGKTt~Ak~lAkal~ 63 (559)
T PRK05563 37 ISHAYLFSGPRGTGKTSAAKIFAKAVN 63 (559)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence 345567899999999998888877664
No 389
>PRK14873 primosome assembly protein PriA; Provisional
Probab=52.74 E-value=55 Score=43.34 Aligned_cols=80 Identities=18% Similarity=0.123 Sum_probs=66.7
Q ss_pred cChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCC-ccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1116 YSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKG-KDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1116 ~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~G-i~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
.|+|.+++++++......|..+||...-......+...|+.. .| ..+..+++..+..+|.+.-.+..+
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 589999999999999999999999999999988888888863 34 678899999999999988888775
Q ss_pred CCCCCceEEEeecccc
Q 000464 1195 PLNKRVKCTLISTRAG 1210 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAG 1210 (1479)
+.++ ++|.|+++
T Consensus 239 ---G~~~-IViGtRSA 250 (665)
T PRK14873 239 ---GQAR-VVVGTRSA 250 (665)
T ss_pred ---CCCc-EEEEccee
Confidence 4444 47777754
No 390
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=52.65 E-value=22 Score=44.30 Aligned_cols=49 Identities=20% Similarity=0.159 Sum_probs=37.3
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
....|.+|+-+.|.|||+.+.|+.... .-++.=|.|.+|...|.-|-++
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 456789999999999999888876543 1356677888888888666544
No 391
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.64 E-value=1e+02 Score=39.46 Aligned_cols=25 Identities=24% Similarity=0.125 Sum_probs=19.9
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
...++.-+.|.|||..|-.+...+.
T Consensus 39 hayLf~Gp~G~GKTtlAr~lAk~L~ 63 (486)
T PRK14953 39 HAYIFAGPRGTGKTTIARILAKVLN 63 (486)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3457899999999988888776654
No 392
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.58 E-value=89 Score=40.76 Aligned_cols=27 Identities=15% Similarity=0.122 Sum_probs=21.8
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....|+.-+-|.|||..+.+|...+..
T Consensus 38 ~hayLf~Gp~G~GKtt~A~~lak~l~c 64 (576)
T PRK14965 38 AHAFLFTGARGVGKTSTARILAKALNC 64 (576)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhhcC
Confidence 345688899999999999888877653
No 393
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.48 E-value=3.1 Score=46.22 Aligned_cols=86 Identities=26% Similarity=0.471 Sum_probs=48.1
Q ss_pred cccccccchhhhhhc-------CcccCCCCCcccccccCCCCceeecC--CcccccchhhhcccCCcccccccccCCCce
Q 000464 510 NVIVCKDCKCLLEKK-------MHVKDADCSECYCVWCGRSSDLVSCK--SCKTLFCTTCVKRNISEACLSDEVQASCWQ 580 (1479)
Q Consensus 510 ~v~~C~~C~~~~~~~-------~~~~d~d~~~~~C~~C~~gg~L~~Cd--~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~ 580 (1479)
+|.+|..|----+.+ .+..|.| |+..|+.|+-.=.---|- .|-..||-+|++- ....++....-...+
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 577787774322222 2334555 555899997432222222 2889999999862 122222233345699
Q ss_pred eecCCch--hHHHHHHHHHH
Q 000464 581 CCCCSPS--LLKRLTSELGR 598 (1479)
Q Consensus 581 C~~C~p~--~l~~L~~~~~~ 598 (1479)
|++|.-. |.-.|++-.-.
T Consensus 97 CP~Cs~eiFPp~NlvsPva~ 116 (299)
T KOG3970|consen 97 CPCCSQEIFPPINLVSPVAE 116 (299)
T ss_pred CCCCCCccCCCccccchhHH
Confidence 9999733 44444444333
No 394
>PRK04328 hypothetical protein; Provisional
Probab=52.23 E-value=1.2e+02 Score=35.08 Aligned_cols=36 Identities=19% Similarity=0.274 Sum_probs=27.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 791 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~ 791 (1479)
|.-.+++-+.|.|||..++-|++.....+ .++++|.
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 45577899999999999999888765443 3666665
No 395
>CHL00176 ftsH cell division protein; Validated
Probab=52.18 E-value=60 Score=42.82 Aligned_cols=25 Identities=28% Similarity=0.243 Sum_probs=20.6
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYT 775 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ 775 (1479)
...|.+|.-+.|.|||..|=++...
T Consensus 215 ~p~gVLL~GPpGTGKT~LAralA~e 239 (638)
T CHL00176 215 IPKGVLLVGPPGTGKTLLAKAIAGE 239 (638)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHH
Confidence 4578999999999999988777543
No 396
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.99 E-value=1.2e+02 Score=40.12 Aligned_cols=27 Identities=15% Similarity=0.090 Sum_probs=22.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+...|+.-+.|+|||..|.+|+..+..
T Consensus 38 ~~a~Lf~Gp~G~GKttlA~~lAk~L~c 64 (620)
T PRK14948 38 APAYLFTGPRGTGKTSSARILAKSLNC 64 (620)
T ss_pred CceEEEECCCCCChHHHHHHHHHHhcC
Confidence 356788999999999999999888754
No 397
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=51.57 E-value=71 Score=43.02 Aligned_cols=26 Identities=19% Similarity=0.235 Sum_probs=20.8
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+.||.-+.|.|||..+-++...+
T Consensus 206 ~~~n~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 206 RKNNPLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred CCCCeEEECCCCCCHHHHHHHHHHHH
Confidence 35688999999999998877766544
No 398
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=51.56 E-value=5.2 Score=49.39 Aligned_cols=71 Identities=21% Similarity=0.433 Sum_probs=49.0
Q ss_pred ccccccccccccccchhhhhhcCcccCCCCCcccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceee
Q 000464 503 VHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCC 582 (1479)
Q Consensus 503 ~~~HP~l~v~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~ 582 (1479)
..-||-|.... ......|++-+.-.|..|.+..+-..=..|...||..||.--+ ........-.|+
T Consensus 514 ~aDHP~LVl~S---------~~~n~~~enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv-----~~f~~~~nvtCP 579 (791)
T KOG1002|consen 514 AADHPDLVLYS---------ANANLPDENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYV-----ESFMENNNVTCP 579 (791)
T ss_pred hccCcceeeeh---------hhcCCCccccCceeecccCChhhhhHhhhhhHHHHHHHHHHHH-----HhhhcccCCCCc
Confidence 34699875542 2223345555566899999999988888999999999985332 222334447899
Q ss_pred cCCch
Q 000464 583 CCSPS 587 (1479)
Q Consensus 583 ~C~p~ 587 (1479)
.|...
T Consensus 580 ~C~i~ 584 (791)
T KOG1002|consen 580 VCHIG 584 (791)
T ss_pred ccccc
Confidence 99654
No 399
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=51.47 E-value=93 Score=36.52 Aligned_cols=84 Identities=29% Similarity=0.380 Sum_probs=51.0
Q ss_pred CCHHHHHHHHHHHHHhhh-------------HHHHHHHHHh--------HHHHHHHHHHHHHHHHHhcCCCchHHHHHH-
Q 000464 49 LTEEEIEELIAEFLEVES-------------KAAEAQEALE--------LESLVKLKNEVREELAQALHGDDLEAAVED- 106 (1479)
Q Consensus 49 ~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 106 (1479)
||+.++.++++-+.++|+ ++++|.+... ++...+.=...++||.+.+. +|. ..+.
T Consensus 146 LS~~dl~e~~~~l~DLesa~vkV~WLR~~L~Ei~Ea~e~~~~~~~~e~eke~~~r~l~~~~~ELe~~~E--eL~-~~Eke 222 (269)
T PF05278_consen 146 LSESDLKEMIATLKDLESAKVKVDWLRSKLEEILEAKEIYDQHETREEEKEEKDRKLELKKEELEELEE--ELK-QKEKE 222 (269)
T ss_pred hhHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHH-HHHHH
Confidence 999999999888888874 4555544332 22222222233455544421 221 1233
Q ss_pred --HHHHHHHHHHHHHhhHHhHHHHHHHhhhc
Q 000464 107 --EMTVYKEQWEAALDELETESAHLLEQLDG 135 (1479)
Q Consensus 107 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 (1479)
|+.+=..+|.+.|.+||.+++.|-..+..
T Consensus 223 ~~e~~~~i~e~~~rl~~l~~~~~~l~k~~~~ 253 (269)
T PF05278_consen 223 VKEIKERITEMKGRLGELEMESTRLSKTIKS 253 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444568999999999999998876543
No 400
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.06 E-value=69 Score=41.85 Aligned_cols=25 Identities=16% Similarity=0.169 Sum_probs=20.6
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
...|+.-+.|+|||..+.+|+..+.
T Consensus 39 ~a~Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 39 HAYLFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred eEEEEECCCCCCHHHHHHHHHHHhc
Confidence 3358899999999999988887764
No 401
>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=50.73 E-value=5.5 Score=32.19 Aligned_cols=41 Identities=22% Similarity=0.600 Sum_probs=28.3
Q ss_pred ccccCCCC-ceeecCCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 537 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 537 C~~C~~gg-~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
|.+|.+.- ..+.-..|...||..|+...+.. +...|+.|..
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 66776654 55555669999999998755332 4567998853
No 402
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=50.65 E-value=87 Score=35.22 Aligned_cols=34 Identities=18% Similarity=0.235 Sum_probs=23.6
Q ss_pred CCEEEEcCCcccCCcchHHHHHHHhccc--ceEEEeeCC
Q 000464 874 PDILVCDEAHMIKNTRADTTQALKQVKC--QRRIALTGS 910 (1479)
Q Consensus 874 ~dlVIlDEAH~IKN~~Sk~skalk~Lka--~rRllLTGT 910 (1479)
.+.|.+||||-+.. .+...+..|.. ..++++.|.
T Consensus 83 ~~~v~IDEaQF~~~---~~v~~l~~lad~lgi~Vi~~GL 118 (201)
T COG1435 83 VDCVLIDEAQFFDE---ELVYVLNELADRLGIPVICYGL 118 (201)
T ss_pred cCEEEEehhHhCCH---HHHHHHHHHHhhcCCEEEEecc
Confidence 68999999998843 45556666633 566676663
No 403
>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=50.29 E-value=1.3e+02 Score=34.27 Aligned_cols=37 Identities=14% Similarity=0.416 Sum_probs=24.8
Q ss_pred CCCEEEEcCCcccCCcch---HHHHHHHhc-ccceEEEeeC
Q 000464 873 GPDILVCDEAHMIKNTRA---DTTQALKQV-KCQRRIALTG 909 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~S---k~skalk~L-ka~rRllLTG 909 (1479)
..|++|+|..|.+.+... .++..+..+ ....++++|+
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 233333443 3455677776
No 404
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=50.19 E-value=2.5e+02 Score=33.76 Aligned_cols=26 Identities=23% Similarity=0.052 Sum_probs=20.1
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
...+.+|.-+.|+|||..+-++...+
T Consensus 50 ~~~~~ll~GppG~GKT~la~~ia~~l 75 (328)
T PRK00080 50 ALDHVLLYGPPGLGKTTLANIIANEM 75 (328)
T ss_pred CCCcEEEECCCCccHHHHHHHHHHHh
Confidence 34678999999999998777665443
No 405
>TIGR00678 holB DNA polymerase III, delta' subunit. At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.
Probab=50.12 E-value=48 Score=36.21 Aligned_cols=28 Identities=18% Similarity=0.274 Sum_probs=22.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
.....+|.-+.|.|||-.+.+++..+..
T Consensus 13 ~~~~~L~~G~~G~gkt~~a~~~~~~l~~ 40 (188)
T TIGR00678 13 LAHAYLFAGPEGVGKELLALALAKALLC 40 (188)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHcC
Confidence 3456888899999999999888877754
No 406
>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=50.07 E-value=4.8 Score=31.28 Aligned_cols=29 Identities=21% Similarity=0.613 Sum_probs=21.8
Q ss_pred ccccCCCCceeecCCcccccchhhhcccC
Q 000464 537 CVWCGRSSDLVSCKSCKTLFCTTCVKRNI 565 (1479)
Q Consensus 537 C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~ 565 (1479)
|.+|.+......--.|...||..|+...+
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~ 29 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWL 29 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHH
Confidence 67777775555556699999999987554
No 407
>PRK08939 primosomal protein DnaI; Reviewed
Probab=49.56 E-value=53 Score=39.32 Aligned_cols=43 Identities=16% Similarity=0.227 Sum_probs=30.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~ 797 (1479)
.+.|.+|.-.+|.|||..+.|+...+...+ .++++|.-+.++.
T Consensus 155 ~~~gl~L~G~~G~GKThLa~Aia~~l~~~g----~~v~~~~~~~l~~ 197 (306)
T PRK08939 155 KVKGLYLYGDFGVGKSYLLAAIANELAKKG----VSSTLLHFPEFIR 197 (306)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHHHHcC----CCEEEEEHHHHHH
Confidence 467888999999999999999988876432 3555554444443
No 408
>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=49.53 E-value=1.6e+02 Score=33.24 Aligned_cols=49 Identities=16% Similarity=0.143 Sum_probs=34.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe----chhhHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT----PVNVLHNWKQE 802 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~----P~sLl~qW~~E 802 (1479)
+|.=.+|+-..|.|||.-++.++....... ..++|++. |..++..+...
T Consensus 12 ~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~---g~~vly~s~E~~~~~~~~r~~~~ 64 (242)
T cd00984 12 PGDLIIIAARPSMGKTAFALNIAENIAKKQ---GKPVLFFSLEMSKEQLLQRLLAS 64 (242)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHHhC---CCceEEEeCCCCHHHHHHHHHHH
Confidence 344578999999999999988887776542 24888888 45555555433
No 409
>PRK05973 replicative DNA helicase; Provisional
Probab=49.48 E-value=1.5e+02 Score=34.29 Aligned_cols=38 Identities=32% Similarity=0.327 Sum_probs=29.3
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
+|.-.+++-..|.|||+-++-|+......+ .+++++.-
T Consensus 63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~G----e~vlyfSl 100 (237)
T PRK05973 63 PGDLVLLGARPGHGKTLLGLELAVEAMKSG----RTGVFFTL 100 (237)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHHhcC----CeEEEEEE
Confidence 455679999999999999998887765432 47888873
No 410
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=49.27 E-value=51 Score=38.81 Aligned_cols=27 Identities=19% Similarity=0.218 Sum_probs=22.7
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhc
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSV 780 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~ 780 (1479)
-.+|.-+.|.|||..|.++...+....
T Consensus 26 alL~~Gp~G~Gktt~a~~lA~~l~~~~ 52 (325)
T COG0470 26 ALLFYGPPGVGKTTAALALAKELLCEN 52 (325)
T ss_pred eeeeeCCCCCCHHHHHHHHHHHHhCCC
Confidence 478888999999999999998886543
No 411
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=48.59 E-value=89 Score=39.52 Aligned_cols=39 Identities=23% Similarity=0.249 Sum_probs=26.5
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc-ccceEEEeeCCCCcc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV-KCQRRIALTGSPLQN 914 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L-ka~rRllLTGTPLqN 914 (1479)
-+|+|.+||++-+ |. ..+..+..+ +.+.|++--+--+||
T Consensus 295 ~yD~ilIDE~QDF--P~-~F~~Lcf~~tkd~KrlvyAyDelQn 334 (660)
T COG3972 295 AYDYILIDESQDF--PQ-SFIDLCFMVTKDKKRLVYAYDELQN 334 (660)
T ss_pred cccEEEecccccC--CH-HHHHHHHHHhcCcceEEEehHhhhc
Confidence 7899999999977 32 344544444 556778776655554
No 412
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=48.51 E-value=5.8 Score=50.55 Aligned_cols=47 Identities=28% Similarity=0.733 Sum_probs=33.7
Q ss_pred cccccCCCC-----ceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 536 YCVWCGRSS-----DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~gg-----~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
-|.+|+.+| .++-|..|...||..|+...+-... -...|+|+-|..-
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~-----l~~gWrC~~crvC 71 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAV-----LSGGWRCPSCRVC 71 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHH-----hcCCcccCCceee
Confidence 466776554 6899999999999999875443332 2355999988643
No 413
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=47.83 E-value=4.4 Score=52.89 Aligned_cols=54 Identities=9% Similarity=0.047 Sum_probs=46.2
Q ss_pred CCCCCcccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 529 DADCSECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 529 d~d~~~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
-++.++..|+.|.+++.++.|+.|.|.++.+|+++ +++. ....+.|.|.-|+-+
T Consensus 501 ~e~~~d~~~~~~~~~l~~l~~p~~lrr~k~d~l~~-~P~K----te~i~~~~~~~~Q~~ 554 (696)
T KOG0383|consen 501 LEEFHDISCEEQIKKLHLLLCPHMLRRLKLDVLKP-MPLK----TELIGRVELSPCQKK 554 (696)
T ss_pred hhhcchhhHHHHHHhhccccCchhhhhhhhhhccC-CCcc----ceeEEEEecCHHHHH
Confidence 46788889999999999999999999999999987 5555 456788999999654
No 414
>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=47.60 E-value=33 Score=39.32 Aligned_cols=17 Identities=29% Similarity=0.145 Sum_probs=13.2
Q ss_pred CcceEEEcCCCchHHHH
Q 000464 752 GLGCILAHTMGLGKTFQ 768 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQ 768 (1479)
-..+||.-+.|+|||--
T Consensus 50 l~h~lf~GPPG~GKTTL 66 (233)
T PF05496_consen 50 LDHMLFYGPPGLGKTTL 66 (233)
T ss_dssp --EEEEESSTTSSHHHH
T ss_pred cceEEEECCCccchhHH
Confidence 35799999999999943
No 415
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=47.38 E-value=1.1e+02 Score=39.97 Aligned_cols=27 Identities=26% Similarity=0.220 Sum_probs=22.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+...|+.-+.|.|||..|-+++..+..
T Consensus 38 ~hayLf~Gp~G~GKTt~Ar~lAk~L~c 64 (563)
T PRK06647 38 ANAYIFSGPRGVGKTSSARAFARCLNC 64 (563)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHhhcc
Confidence 345789999999999999988877753
No 416
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=47.24 E-value=1.2e+02 Score=37.26 Aligned_cols=57 Identities=18% Similarity=0.198 Sum_probs=38.0
Q ss_pred cccCchhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 714 VRIPSSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 714 v~vP~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
-++|.. ..-|.-|+.-+...+...+ .+..+.++++.-.+|.|||.++--++..+...
T Consensus 13 ~~iP~~--l~~Re~ei~~l~~~l~~~~-------~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~ 69 (366)
T COG1474 13 DYIPEE--LPHREEEINQLASFLAPAL-------RGERPSNIIIYGPTGTGKTATVKFVMEELEES 69 (366)
T ss_pred CCCccc--ccccHHHHHHHHHHHHHHh-------cCCCCccEEEECCCCCCHhHHHHHHHHHHHhh
Confidence 345555 3446677777766554433 23455669999999999999887777666543
No 417
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=47.22 E-value=6.6 Score=45.69 Aligned_cols=41 Identities=27% Similarity=0.632 Sum_probs=33.4
Q ss_pred cccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 536 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
.|..|-+...--.|--|...||-.||.-..+... .||.|.-
T Consensus 241 kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~----------eCPlCR~ 281 (293)
T KOG0317|consen 241 KCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA----------ECPLCRE 281 (293)
T ss_pred ceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc----------CCCcccc
Confidence 7899999998889999999999999976655441 1999963
No 418
>COG5151 SSL1 RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit SSL1 [Transcription / DNA replication, recombination, and repair]
Probab=46.87 E-value=11 Score=43.82 Aligned_cols=91 Identities=26% Similarity=0.541 Sum_probs=55.9
Q ss_pred cccccCCCCceeeccCCcccccccccccccccccccchhhhhh--------------cCcccCCCCC---cccccccCCC
Q 000464 481 SLHSQSLSEKFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEK--------------KMHVKDADCS---ECYCVWCGRS 543 (1479)
Q Consensus 481 ~~~~~~~~~~~~C~~Cg~~~~~~~~HP~l~v~~C~~C~~~~~~--------------~~~~~d~d~~---~~~C~~C~~g 543 (1479)
.-.++.....++|..|... |+.-| +.|+.|.-.+.. ++|..-+.+. -..|.+|...
T Consensus 299 aCHs~~~~gGy~CP~Cktk---VCsLP----i~CP~Csl~LilsthLarSyhhL~PLk~f~E~p~~~~~ks~~Cf~CQ~~ 371 (421)
T COG5151 299 ACHSEVKGGGYECPVCKTK---VCSLP----ISCPICSLQLILSTHLARSYHHLYPLKPFVEKPEGTNPKSTHCFVCQGP 371 (421)
T ss_pred eeeeeeccCceeCCcccce---eecCC----ccCcchhHHHHHHHHHHHHHHhhccCcccccccCCCCCCCccceeccCC
Confidence 3456777788999999543 33334 467777644332 2344333332 3479999771
Q ss_pred --------------CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCchh
Q 000464 544 --------------SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPSL 588 (1479)
Q Consensus 544 --------------g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~~ 588 (1479)
..-+-|..|...||..|-. .+ -+---+|+-|..++
T Consensus 372 fp~~~~~~~~~~~ss~rY~Ce~CK~~FC~dCdv-fi---------He~Lh~C~gCe~~~ 420 (421)
T COG5151 372 FPKPPVSPFDESTSSGRYQCELCKSTFCSDCDV-FI---------HETLHFCIGCELPH 420 (421)
T ss_pred CCCCCCCcccccccccceechhhhhhhhhhhHH-HH---------HHHHhhCCCCcCCC
Confidence 3446799999999999921 11 11124699997654
No 419
>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=46.63 E-value=78 Score=43.57 Aligned_cols=99 Identities=8% Similarity=-0.015 Sum_probs=70.0
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
..|||-.+.+..+-.....|.+++|.+..+..+..+...+..+.. ..++....++|.++..++.+++..+..
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 458898776655544555688999999999988888877775321 136778889999999999999999885
Q ss_pred CCCCCceEEEeeccccccccCccccCEEEE
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVII 1224 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVIi 1224 (1479)
+.+.|++.+.......+.+.....||+
T Consensus 553 ---g~~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 553 ---GKIDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred ---CCceEEEchHHHhhCCCCcccCCEEEe
Confidence 344555545444444566666666555
No 420
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=46.57 E-value=26 Score=42.22 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=26.4
Q ss_pred CEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCcc
Q 000464 875 DILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQN 914 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqN 914 (1479)
-+||+||||+ ..-.+.-..+.+|-...+..+||.+.|=
T Consensus 245 AfVIlDEaQN--tT~~QmKMfLTRiGf~skmvItGD~tQi 282 (348)
T COG1702 245 AFVILDEAQN--TTVGQMKMFLTRIGFESKMVITGDITQI 282 (348)
T ss_pred eEEEEecccc--cchhhhceeeeeecCCceEEEEcCcccc
Confidence 4699999996 1222333345566788899999999773
No 421
>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=46.33 E-value=4.3e+02 Score=33.39 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=24.2
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
-..|+--.|.|||-++.-+...+... + +++++|+-
T Consensus 102 vi~lvG~~GvGKTTtaaKLA~~l~~~---G-~kV~lV~~ 136 (429)
T TIGR01425 102 VIMFVGLQGSGKTTTCTKLAYYYQRK---G-FKPCLVCA 136 (429)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHC---C-CCEEEEcC
Confidence 35677789999998888777765432 2 36666654
No 422
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=45.74 E-value=42 Score=43.23 Aligned_cols=69 Identities=20% Similarity=0.250 Sum_probs=44.5
Q ss_pred hhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhc--ccCCCceEEEechhhHH
Q 000464 720 ISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSV--NLGLRTALIVTPVNVLH 797 (1479)
Q Consensus 720 L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~--~~~~k~vLIV~P~sLl~ 797 (1479)
+..++.+-|-+.+++ ..+.-.|+--..|.|||-.|+-=+++++-.. ....+++||+.|..+..
T Consensus 209 IV~TIQkEQneIIR~---------------ek~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFl 273 (747)
T COG3973 209 IVETIQKEQNEIIRF---------------EKNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFL 273 (747)
T ss_pred HHHHhhHhHHHHHhc---------------cCCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHH
Confidence 344555666665543 2344466667899999988775555554322 23457899999998887
Q ss_pred HHHHHH
Q 000464 798 NWKQEF 803 (1479)
Q Consensus 798 qW~~E~ 803 (1479)
-....+
T Consensus 274 eYis~V 279 (747)
T COG3973 274 EYISRV 279 (747)
T ss_pred HHHHHh
Confidence 665443
No 423
>PRK08760 replicative DNA helicase; Provisional
Probab=45.53 E-value=2.1e+02 Score=36.44 Aligned_cols=52 Identities=13% Similarity=-0.011 Sum_probs=38.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHHh
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMKW 806 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~kw 806 (1479)
|.=.|||.-.|.|||.-++.++....... ..+++++..---..+|...+...
T Consensus 229 G~LivIaarPg~GKTafal~iA~~~a~~~---g~~V~~fSlEMs~~ql~~Rl~a~ 280 (476)
T PRK08760 229 TDLIILAARPAMGKTTFALNIAEYAAIKS---KKGVAVFSMEMSASQLAMRLISS 280 (476)
T ss_pred CceEEEEeCCCCChhHHHHHHHHHHHHhc---CCceEEEeccCCHHHHHHHHHHh
Confidence 44479999999999998888876654221 24899998877777887776544
No 424
>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=45.45 E-value=1.6e+02 Score=37.36 Aligned_cols=50 Identities=16% Similarity=0.227 Sum_probs=34.7
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
|.-.+|+-++|.|||..++.++..+... .+++|.|..-....|......+
T Consensus 94 GsvilI~G~pGsGKTTL~lq~a~~~a~~----g~kvlYvs~EEs~~qi~~ra~r 143 (454)
T TIGR00416 94 GSLILIGGDPGIGKSTLLLQVACQLAKN----QMKVLYVSGEESLQQIKMRAIR 143 (454)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHHHhc----CCcEEEEECcCCHHHHHHHHHH
Confidence 4457889999999999888887766443 2478888875555555544433
No 425
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=45.42 E-value=3.3e+02 Score=34.36 Aligned_cols=75 Identities=13% Similarity=0.277 Sum_probs=46.3
Q ss_pred CCCCEEEEcCCcccCCcchHHHHHHHhc--------ccceEEEeeCCCCccchhHHHhhhhhhccC-----------CCC
Q 000464 872 DGPDILVCDEAHMIKNTRADTTQALKQV--------KCQRRIALTGSPLQNNLMEYYCMVDFVREG-----------FLG 932 (1479)
Q Consensus 872 ~~~dlVIlDEAH~IKN~~Sk~skalk~L--------ka~rRllLTGTPLqNnL~EL~sLL~FL~P~-----------~Lg 932 (1479)
.++|+||||=+-+.-+.. .....+..+ .....++|++|-=++.+.+....+..+.+. .+|
T Consensus 298 ~~~D~VLIDTaGr~~rd~-~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~~~f~~~~~~glIlTKLDEt~~~G 376 (432)
T PRK12724 298 DGSELILIDTAGYSHRNL-EQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVLKAYESLNYRRILLTKLDEADFLG 376 (432)
T ss_pred CCCCEEEEeCCCCCccCH-HHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHHHHhcCCCCCEEEEEcccCCCCcc
Confidence 478999999876553222 222233222 224678999998888888887777666544 234
Q ss_pred ChHHHHhhhcCCccc
Q 000464 933 SSHEFRNRFQNPIEN 947 (1479)
Q Consensus 933 s~~eF~~~F~~PI~~ 947 (1479)
..-.....+..||..
T Consensus 377 ~il~i~~~~~lPI~y 391 (432)
T PRK12724 377 SFLELADTYSKSFTY 391 (432)
T ss_pred HHHHHHHHHCCCEEE
Confidence 444555566777653
No 426
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=45.38 E-value=1.6e+02 Score=35.38 Aligned_cols=29 Identities=14% Similarity=0.353 Sum_probs=24.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
-...-++.-+.|.||+..|.+|+..++..
T Consensus 25 l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~ 53 (314)
T PRK07399 25 IAPAYLFAGPEGVGRKLAALCFIEGLLSQ 53 (314)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHcCC
Confidence 34678899999999999999999888654
No 427
>COG0254 RpmE Ribosomal protein L31 [Translation, ribosomal structure and biogenesis]
Probab=45.21 E-value=13 Score=35.36 Aligned_cols=46 Identities=22% Similarity=0.444 Sum_probs=33.6
Q ss_pred CCCceeeccCCcccc--cccccccccccccccchhhhhhcCcccCCCC
Q 000464 487 LSEKFYCTACNNVAI--EVHPHPILNVIVCKDCKCLLEKKMHVKDADC 532 (1479)
Q Consensus 487 ~~~~~~C~~Cg~~~~--~~~~HP~l~v~~C~~C~~~~~~~~~~~d~d~ 532 (1479)
..-.|.|.+||.... -...++.+.+-+|..|+.||.-..-..|..|
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 2445678899999999999985555555444
No 428
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=45.13 E-value=3.9e+02 Score=32.31 Aligned_cols=52 Identities=19% Similarity=0.197 Sum_probs=30.9
Q ss_pred hcCCCCEEEEcCCcccCCcchH---HHHHHH---hc----ccceEEEeeCCCCccchhHHHh
Q 000464 870 LQDGPDILVCDEAHMIKNTRAD---TTQALK---QV----KCQRRIALTGSPLQNNLMEYYC 921 (1479)
Q Consensus 870 L~~~~dlVIlDEAH~IKN~~Sk---~skalk---~L----ka~rRllLTGTPLqNnL~EL~s 921 (1479)
...++|+||+|=+-+.-+.... +.+..+ .+ .....++|.+|-=+|.+.....
T Consensus 193 ~~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~ 254 (318)
T PRK10416 193 KARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKA 254 (318)
T ss_pred HhCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHH
Confidence 4458999999999887654432 112111 11 2234588899966666665433
No 429
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=45.08 E-value=1.1e+02 Score=41.18 Aligned_cols=27 Identities=22% Similarity=0.161 Sum_probs=21.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAM 777 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll 777 (1479)
...+.||.-+.|.|||..+-++...+.
T Consensus 202 ~~~n~lL~G~pG~GKT~l~~~la~~~~ 228 (731)
T TIGR02639 202 KKNNPLLVGEPGVGKTAIAEGLALRIA 228 (731)
T ss_pred CCCceEEECCCCCCHHHHHHHHHHHHH
Confidence 456899999999999988877766553
No 430
>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=44.95 E-value=94 Score=38.98 Aligned_cols=25 Identities=16% Similarity=0.089 Sum_probs=21.2
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYT 775 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ 775 (1479)
.+.+.|+--..|+|||-.+.++...
T Consensus 208 ~~~Nli~lGp~GTGKThla~~l~~~ 232 (449)
T TIGR02688 208 PNYNLIELGPKGTGKSYIYNNLSPY 232 (449)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhHH
Confidence 4689999999999999888886655
No 431
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=44.67 E-value=1.1e+02 Score=36.93 Aligned_cols=52 Identities=10% Similarity=0.082 Sum_probs=32.4
Q ss_pred HHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHh
Q 000464 863 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYC 921 (1479)
Q Consensus 863 ~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~s 921 (1479)
..-+...+..+||++|++|.+- -...-+++.+.+-+ .-=+|....++...+.
T Consensus 207 ~dll~aalR~rPd~IivgEvrg-----~e~~~~~~a~~tGh--~~isT~ha~s~~~~~~ 258 (312)
T COG0630 207 EDLLRAALRQRPDYIIVGELRG-----REAFVLFQAMQTGH--GTISTIHADSPELVLD 258 (312)
T ss_pred HHHHHHHHhcCCCeEEEeeeec-----HHHHHHHHHHhcCC--CceeEEecCCHHHHHH
Confidence 3445566777999999999873 23455556666666 3334555555555443
No 432
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=44.58 E-value=2.7e+02 Score=36.09 Aligned_cols=27 Identities=22% Similarity=0.149 Sum_probs=19.1
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+.-.+|.-..|.|||..+..++..+..
T Consensus 350 G~vIaLVGPtGvGKTTtaakLAa~la~ 376 (559)
T PRK12727 350 GGVIALVGPTGAGKTTTIAKLAQRFAA 376 (559)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence 444556677999999888777665543
No 433
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=44.45 E-value=59 Score=43.53 Aligned_cols=69 Identities=17% Similarity=0.114 Sum_probs=45.8
Q ss_pred hccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-HHHHHH
Q 000464 723 KLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-LHNWKQ 801 (1479)
Q Consensus 723 ~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l~qW~~ 801 (1479)
.|-|-|+.+|... .+.+++-...|.|||.+.+.-+.+++.........+|+|+-++- ...-..
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 4788999988632 24467777889999999999998888654333456888877533 233334
Q ss_pred HHHHhC
Q 000464 802 EFMKWR 807 (1479)
Q Consensus 802 E~~kw~ 807 (1479)
.+.+.+
T Consensus 68 Rl~~~~ 73 (726)
T TIGR01073 68 RVEKLL 73 (726)
T ss_pred HHHHHh
Confidence 444433
No 434
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=44.32 E-value=95 Score=39.26 Aligned_cols=27 Identities=19% Similarity=0.128 Sum_probs=22.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
....|+.-+.|.|||..|.+++..+..
T Consensus 39 ~ha~Lf~Gp~G~GKtt~A~~lAk~l~c 65 (451)
T PRK06305 39 AHAYLFSGIRGTGKTTLARIFAKALNC 65 (451)
T ss_pred ceEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence 355788899999999999998887754
No 435
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=44.22 E-value=98 Score=33.48 Aligned_cols=43 Identities=12% Similarity=0.120 Sum_probs=38.8
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhc
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSK 1156 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~ 1156 (1479)
+..+++...+.+++.+....|.||+|++.....+..|-++|=.
T Consensus 9 L~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWt 51 (154)
T PRK06646 9 TSDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWT 51 (154)
T ss_pred eCCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcC
Confidence 3678999999999999999999999999999999999888743
No 436
>KOG2231 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.00 E-value=8.7 Score=49.83 Aligned_cols=91 Identities=15% Similarity=0.334 Sum_probs=60.3
Q ss_pred eeeccCCcccccccccccccccccccchhhhhhcCcccC---CCCCcccccccCCCCceeecC---------------Cc
Q 000464 491 FYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKD---ADCSECYCVWCGRSSDLVSCK---------------SC 552 (1479)
Q Consensus 491 ~~C~~Cg~~~~~~~~HP~l~v~~C~~C~~~~~~~~~~~d---~d~~~~~C~~C~~gg~L~~Cd---------------~C 552 (1479)
-.|..|+...- -+++..-|..| ..|..-++.++ .-....+|..|-++-.++.|. +|
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 57888876521 22344457777 44434333332 223334889998888887772 24
Q ss_pred c-------cccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 553 K-------TLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 553 ~-------r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
| .--|..|..+.++...+-+-..-+.|.|.+|+-.
T Consensus 174 ~d~~s~rGhp~C~~C~~~fld~~el~rH~~~~h~~chfC~~~ 215 (669)
T KOG2231|consen 174 PDDESCRGHPLCKFCHERFLDDDELYRHLRFDHEFCHFCDYK 215 (669)
T ss_pred CccccccCCccchhhhhhhccHHHHHHhhccceeheeecCcc
Confidence 4 3457888889999998888888899999999743
No 437
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=43.95 E-value=2.1e+02 Score=34.61 Aligned_cols=29 Identities=10% Similarity=0.088 Sum_probs=23.3
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
-....++.-+-|.|||..|.+|+..++..
T Consensus 27 l~ha~Lf~G~~G~gk~~~a~~la~~l~c~ 55 (329)
T PRK08058 27 LSHAYLFEGAKGTGKKATALWLAKSLFCL 55 (329)
T ss_pred CCceEEEECCCCCCHHHHHHHHHHHHCCC
Confidence 34456899999999999999988877643
No 438
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=43.35 E-value=8.1 Score=40.54 Aligned_cols=30 Identities=33% Similarity=0.889 Sum_probs=24.4
Q ss_pred ccccccCCCCceeecCCcccccc-hhhhcccC
Q 000464 535 CYCVWCGRSSDLVSCKSCKTLFC-TTCVKRNI 565 (1479)
Q Consensus 535 ~~C~~C~~gg~L~~Cd~C~r~Fc-~~Cl~~~~ 565 (1479)
-+|.||| --...+|-+|...|| +.|+..+-
T Consensus 119 ~fCaVCG-~~S~ysC~~CG~kyCsv~C~~~Hn 149 (156)
T KOG3362|consen 119 KFCAVCG-YDSKYSCVNCGTKYCSVRCLKTHN 149 (156)
T ss_pred hhhhhcC-CCchhHHHhcCCceeechhhhhcc
Confidence 4899999 556899999999999 78876553
No 439
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=43.34 E-value=68 Score=43.04 Aligned_cols=25 Identities=28% Similarity=0.292 Sum_probs=19.7
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLY 774 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~ 774 (1479)
..+.|.+|.-+.|.|||..+-++..
T Consensus 210 ~~~~giLL~GppGtGKT~laraia~ 234 (733)
T TIGR01243 210 EPPKGVLLYGPPGTGKTLLAKAVAN 234 (733)
T ss_pred CCCceEEEECCCCCChHHHHHHHHH
Confidence 3567899999999999977666543
No 440
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=43.33 E-value=2.9e+02 Score=37.35 Aligned_cols=74 Identities=14% Similarity=0.204 Sum_probs=41.2
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc-----ccceEEEeeCCCCccchhHHHhhhhhh---ccC-----------CCCC
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFV---REG-----------FLGS 933 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L-----ka~rRllLTGTPLqNnL~EL~sLL~FL---~P~-----------~Lgs 933 (1479)
++|+||||=+=+..+. ......+..+ .....++|++|--...+.++...++.+ .+. .+|.
T Consensus 263 ~~D~VLIDTAGRs~~d-~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~~~~i~glIlTKLDEt~~~G~ 341 (767)
T PRK14723 263 DKHLVLIDTVGMSQRD-RNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGAGEDVDGCIITKLDEATHLGP 341 (767)
T ss_pred CCCEEEEeCCCCCccC-HHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcccCCCCEEEEeccCCCCCccH
Confidence 5688888887765433 2244444443 334567888886555566665555432 111 2344
Q ss_pred hHHHHhhhcCCccc
Q 000464 934 SHEFRNRFQNPIEN 947 (1479)
Q Consensus 934 ~~eF~~~F~~PI~~ 947 (1479)
.-.+...+..||..
T Consensus 342 iL~i~~~~~lPI~y 355 (767)
T PRK14723 342 ALDTVIRHRLPVHY 355 (767)
T ss_pred HHHHHHHHCCCeEE
Confidence 44566666677654
No 441
>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=43.20 E-value=11 Score=44.70 Aligned_cols=27 Identities=22% Similarity=0.588 Sum_probs=20.8
Q ss_pred CcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 551 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 551 ~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
.|...||..|+.+.+..+ +=.|+.|.-
T Consensus 25 ~CGH~~C~sCv~~l~~~~---------~~~CP~C~~ 51 (309)
T TIGR00570 25 VCGHTLCESCVDLLFVRG---------SGSCPECDT 51 (309)
T ss_pred CCCCcccHHHHHHHhcCC---------CCCCCCCCC
Confidence 799999999998876433 237999953
No 442
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=42.91 E-value=82 Score=34.90 Aligned_cols=54 Identities=15% Similarity=0.224 Sum_probs=33.5
Q ss_pred cCCCCEEEEcCCcccCCcc----hHHHHHHHhcccceEEEeeCCCCccchhHHHhhhh
Q 000464 871 QDGPDILVCDEAHMIKNTR----ADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVD 924 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~~----Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~ 924 (1479)
...||+||+||.-..-+.. ..+...+..-...--++|||-=....+.|+..++.
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 4589999999986654432 33444444445555799999755544444444433
No 443
>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=42.82 E-value=6.3 Score=32.16 Aligned_cols=38 Identities=26% Similarity=0.706 Sum_probs=23.6
Q ss_pred ccccCCCC-ceeecCCcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 537 CVWCGRSS-DLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 537 C~~C~~gg-~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
|.+|.+.- +.+....|..+||..|+...+.. ...|++|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~----------~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK----------NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC----------TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC----------cCCCcCC
Confidence 45555332 33467789999999998654321 2678877
No 444
>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=42.23 E-value=47 Score=37.20 Aligned_cols=40 Identities=28% Similarity=0.342 Sum_probs=26.3
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNN 915 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNn 915 (1479)
.++.+|+||++.+-.. .+ ..+..+.....++|-|=|.|-.
T Consensus 62 ~~~~liiDE~~~~~~g--~l-~~l~~~~~~~~~~l~GDp~Q~~ 101 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPG--YL-LLLLSLSPAKNVILFGDPLQIP 101 (234)
T ss_pred cCCEEEEeccccCChH--HH-HHHHhhccCcceEEEECchhcc
Confidence 4789999999987321 12 2244444445688889998853
No 445
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=41.72 E-value=1.7e+02 Score=29.19 Aligned_cols=81 Identities=27% Similarity=0.448 Sum_probs=58.4
Q ss_pred HHHHHHHHhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHhhh
Q 000464 56 ELIAEFLEVESKAAEAQEALELESLVKLKNEVREELAQALH-GDDLEAAVEDEMTVYKEQWEAALDELETESAHLLEQLD 134 (1479)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 (1479)
..|++++++-.+-.+++-.+ +.|..-..++..++++... |.+.+..++ |+. +....+.+||.+...+.++|+
T Consensus 26 ~~vd~i~~ld~~~r~l~~~~--e~lr~~rN~~sk~I~~~~~~~~~~~~l~~-e~~----~lk~~i~~le~~~~~~e~~l~ 98 (108)
T PF02403_consen 26 EDVDEIIELDQERRELQQEL--EELRAERNELSKEIGKLKKAGEDAEELKA-EVK----ELKEEIKELEEQLKELEEELN 98 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHCHTTCCTHHHHH-HHH----HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHH--HHHHHHHhHHHHHHHHHhhCcccHHHHHH-HHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888887766 4688888999999998875 455554443 444 456678888888888888888
Q ss_pred ccCCCchhH
Q 000464 135 GAGIELPSL 143 (1479)
Q Consensus 135 ~~~~~~~~~ 143 (1479)
..-..||.|
T Consensus 99 ~~l~~iPNi 107 (108)
T PF02403_consen 99 ELLLSIPNI 107 (108)
T ss_dssp HHHCTS---
T ss_pred HHHHcCCCC
Confidence 877777765
No 446
>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=41.60 E-value=4.4e+02 Score=29.98 Aligned_cols=52 Identities=12% Similarity=0.149 Sum_probs=32.4
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhc--------ccCCCceEEEe---chhhHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSV--------NLGLRTALIVT---PVNVLHNWKQEFMK 805 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~--------~~~~k~vLIV~---P~sLl~qW~~E~~k 805 (1479)
=++|+-.-|.|||.-++.+++...... ....+++|+++ |...+.+-...+..
T Consensus 3 ~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~ 65 (239)
T cd01125 3 VSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQ 65 (239)
T ss_pred eeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHh
Confidence 478899999999999988877653211 11234677777 44444444444443
No 447
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=41.52 E-value=5.6 Score=51.71 Aligned_cols=43 Identities=21% Similarity=0.552 Sum_probs=28.5
Q ss_pred cccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 536 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
+|.+|...=.=..=-.|..+||..|+.+-++.. .=.||-|...
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 577766433333334699999999998766544 2359999643
No 448
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=41.42 E-value=1.6e+02 Score=39.12 Aligned_cols=35 Identities=11% Similarity=0.021 Sum_probs=23.9
Q ss_pred eEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 755 CILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 755 gILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
-++.-+=|-|||..+..++..+.... ...++|.+|
T Consensus 190 tV~taPRqrGKS~iVgi~l~~La~f~---Gi~IlvTAH 224 (752)
T PHA03333 190 TAATVPRRCGKTTIMAIILAAMISFL---EIDIVVQAQ 224 (752)
T ss_pred eEEEeccCCCcHHHHHHHHHHHHHhc---CCeEEEECC
Confidence 34445679999998876666554321 257999999
No 449
>PRK06904 replicative DNA helicase; Validated
Probab=41.09 E-value=2.7e+02 Score=35.51 Aligned_cols=52 Identities=13% Similarity=0.057 Sum_probs=36.7
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
+|.=.|||.-.|+|||.-++.++...... ...|++++..---..++...+..
T Consensus 220 ~G~LiiIaarPg~GKTafalnia~~~a~~---~g~~Vl~fSlEMs~~ql~~Rlla 271 (472)
T PRK06904 220 PSDLIIVAARPSMGKTTFAMNLCENAAMA---SEKPVLVFSLEMPAEQIMMRMLA 271 (472)
T ss_pred CCcEEEEEeCCCCChHHHHHHHHHHHHHh---cCCeEEEEeccCCHHHHHHHHHH
Confidence 34457999999999998887776554322 13589999887666777666543
No 450
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=40.86 E-value=8.1 Score=44.51 Aligned_cols=40 Identities=28% Similarity=0.638 Sum_probs=30.2
Q ss_pred CCCceeecCCcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 542 RSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 542 ~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
....+|||..|-.++|..||..... +..+..--+|+|.-|
T Consensus 275 r~~S~I~C~~C~~~~HP~Ci~M~~e---lv~~~KTY~W~C~~C 314 (381)
T KOG1512|consen 275 RRNSWIVCKPCATRPHPYCVAMIPE---LVGQYKTYFWKCSSC 314 (381)
T ss_pred hhccceeecccccCCCCcchhcCHH---HHhHHhhcchhhccc
Confidence 4457999999999999999874421 222445678999988
No 451
>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]
Probab=40.81 E-value=2.3e+02 Score=32.69 Aligned_cols=38 Identities=29% Similarity=0.475 Sum_probs=31.0
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
.+.-.++.-.+|.|||+-++-|++.....+ .|+|.|.-
T Consensus 22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~g----e~vlyvs~ 59 (260)
T COG0467 22 RGSVVLITGPPGTGKTIFALQFLYEGAREG----EPVLYVST 59 (260)
T ss_pred CCcEEEEEcCCCCcHHHHHHHHHHHHHhcC----CcEEEEEe
Confidence 456688899999999999999998887763 47888874
No 452
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=40.50 E-value=7.5 Score=36.25 Aligned_cols=52 Identities=23% Similarity=0.378 Sum_probs=19.7
Q ss_pred cccccCC----CCc--eeecC--CcccccchhhhcccCCcccccc-cccCCCceeecCCch
Q 000464 536 YCVWCGR----SSD--LVSCK--SCKTLFCTTCVKRNISEACLSD-EVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~----gg~--L~~Cd--~C~r~Fc~~Cl~~~~g~~~~~~-~~~~~~W~C~~C~p~ 587 (1479)
.|.+|-. .++ .+.|+ .|...||..||...+-...-.+ ....-.+.||.|...
T Consensus 4 ~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~ 64 (70)
T PF11793_consen 4 ECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSP 64 (70)
T ss_dssp S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SE
T ss_pred CCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCe
Confidence 4666643 232 47898 5999999999986542211110 111233789999643
No 453
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=39.97 E-value=1e+02 Score=38.28 Aligned_cols=22 Identities=27% Similarity=0.076 Sum_probs=17.3
Q ss_pred CCCcceEEEcCCCchHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIA 771 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIA 771 (1479)
..-...||.-+.|.|||-.|-.
T Consensus 46 ~~l~SmIl~GPPG~GKTTlA~l 67 (436)
T COG2256 46 GHLHSMILWGPPGTGKTTLARL 67 (436)
T ss_pred CCCceeEEECCCCCCHHHHHHH
Confidence 4567899999999999954433
No 454
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=39.77 E-value=15 Score=47.36 Aligned_cols=24 Identities=21% Similarity=0.368 Sum_probs=19.3
Q ss_pred cccccCCCCceeecCCcccccchhhh
Q 000464 536 YCVWCGRSSDLVSCKSCKTLFCTTCV 561 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~C~r~Fc~~Cl 561 (1479)
+|..|..+|+ -||+|.+.+|..|+
T Consensus 147 ~cg~~~arGD--~Ce~Cg~~~~P~~l 170 (558)
T COG0143 147 KCGGEDARGD--QCENCGRTLDPTEL 170 (558)
T ss_pred CcCccccCcc--hhhhccCcCCchhc
Confidence 5566667777 79999999999995
No 455
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=39.63 E-value=2.4e+02 Score=37.22 Aligned_cols=28 Identities=29% Similarity=0.334 Sum_probs=22.5
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
-....|+.-.-|.|||..|..|...+..
T Consensus 37 i~ha~Lf~Gp~GvGKttlA~~lAk~L~c 64 (620)
T PRK14954 37 VGHGYIFSGLRGVGKTTAARVFAKAVNC 64 (620)
T ss_pred CCeeEEEECCCCCCHHHHHHHHHHHhCC
Confidence 3456789999999999999888877643
No 456
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.61 E-value=8.1 Score=42.08 Aligned_cols=41 Identities=24% Similarity=0.707 Sum_probs=26.8
Q ss_pred ccccCCC--CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 537 CVWCGRS--SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 537 C~~C~~g--g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
|.+|.+. -.+..--+|..+||..||+..+... =.|+.|.-+
T Consensus 134 CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~----------~~CP~C~kk 176 (187)
T KOG0320|consen 134 CPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNT----------NKCPTCRKK 176 (187)
T ss_pred CCceecchhhccccccccchhHHHHHHHHHHHhC----------CCCCCcccc
Confidence 4555432 2344456699999999998665433 459999754
No 457
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=39.53 E-value=10 Score=31.82 Aligned_cols=28 Identities=32% Similarity=0.812 Sum_probs=17.2
Q ss_pred CcccccchhhhcccCCcccccccccCCCceeecC
Q 000464 551 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCC 584 (1479)
Q Consensus 551 ~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C 584 (1479)
.|..+||..||.+..... ....+.|+.|
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 389999999998765433 2223889887
No 458
>COG2109 BtuR ATP:corrinoid adenosyltransferase [Coenzyme metabolism]
Probab=39.37 E-value=4.5e+02 Score=29.63 Aligned_cols=57 Identities=19% Similarity=0.222 Sum_probs=36.2
Q ss_pred cCCCCEEEEcCCcccCCc----chHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhhc
Q 000464 871 QDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFVR 927 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~----~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL~ 927 (1479)
...||+||+||--..-.. -...-.++..-....-+++||.-.+..+.|+..++.=++
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 348999999998654332 223334444445666799999766666666666655443
No 459
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=39.36 E-value=76 Score=42.38 Aligned_cols=84 Identities=19% Similarity=0.231 Sum_probs=70.0
Q ss_pred ccccccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHH
Q 000464 1111 YKELDYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVE 1190 (1479)
Q Consensus 1111 ~~~i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~ 1190 (1479)
+..+..|||.++.++++......|+.+||-..-......+...|+. ..|.++..++.+.+..+|...-.
T Consensus 222 l~GvTGSGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~-----------rFg~~v~vlHS~Ls~~er~~~W~ 290 (730)
T COG1198 222 LDGVTGSGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKA-----------RFGAKVAVLHSGLSPGERYRVWR 290 (730)
T ss_pred EeCCCCCcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHH-----------HhCCChhhhcccCChHHHHHHHH
Confidence 4557889999999999999999999999999999888888888876 25788999999999999998888
Q ss_pred HHhCCCCCCceEEEeeccc
Q 000464 1191 RFNEPLNKRVKCTLISTRA 1209 (1479)
Q Consensus 1191 ~FN~~~n~~v~VfLISTkA 1209 (1479)
+..+ +.++| +|.|+.
T Consensus 291 ~~~~---G~~~v-VIGtRS 305 (730)
T COG1198 291 RARR---GEARV-VIGTRS 305 (730)
T ss_pred HHhc---CCceE-EEEech
Confidence 8885 45554 555553
No 460
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=38.73 E-value=2.1e+02 Score=31.89 Aligned_cols=23 Identities=17% Similarity=0.216 Sum_probs=17.9
Q ss_pred ceEEEcCCCchHHHHHHHHHHHH
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~l 776 (1479)
-.+++-.+|.|||..+-+++..+
T Consensus 3 lilI~GptGSGKTTll~~ll~~~ 25 (198)
T cd01131 3 LVLVTGPTGSGKSTTLAAMIDYI 25 (198)
T ss_pred EEEEECCCCCCHHHHHHHHHHHh
Confidence 35788899999998877766554
No 461
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=38.59 E-value=2.9e+02 Score=36.31 Aligned_cols=27 Identities=22% Similarity=0.180 Sum_probs=22.3
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMR 778 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~ 778 (1479)
+...|+.-+.|.|||..|.+|...+..
T Consensus 38 ~hA~Lf~GP~GvGKTTlA~~lAk~L~C 64 (605)
T PRK05896 38 THAYIFSGPRGIGKTSIAKIFAKAINC 64 (605)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHhcC
Confidence 456788999999999999888877753
No 462
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=37.98 E-value=18 Score=32.62 Aligned_cols=49 Identities=18% Similarity=0.473 Sum_probs=31.5
Q ss_pred ceeeccCCcccccccccccccccccccchhhhhhcCcccCCCCCcccccccCCCCceeecCCcc
Q 000464 490 KFYCTACNNVAIEVHPHPILNVIVCKDCKCLLEKKMHVKDADCSECYCVWCGRSSDLVSCKSCK 553 (1479)
Q Consensus 490 ~~~C~~Cg~~~~~~~~HP~l~v~~C~~C~~~~~~~~~~~d~d~~~~~C~~C~~gg~L~~Cd~C~ 553 (1479)
.-.||+||..+...- ....-.|++|- .-.--.|.-|..-|..+-|.+|.
T Consensus 9 ~~~CtSCg~~i~p~e---~~v~F~CPnCG------------e~~I~Rc~~CRk~g~~Y~Cp~CG 57 (61)
T COG2888 9 PPVCTSCGREIAPGE---TAVKFPCPNCG------------EVEIYRCAKCRKLGNPYRCPKCG 57 (61)
T ss_pred CceeccCCCEeccCC---ceeEeeCCCCC------------ceeeehhhhHHHcCCceECCCcC
Confidence 358999998742210 11233588881 11122699999999999999885
No 463
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.87 E-value=10 Score=43.66 Aligned_cols=49 Identities=22% Similarity=0.503 Sum_probs=30.8
Q ss_pred CCCcccccccCCCCceeec-----C-----CcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 531 DCSECYCVWCGRSSDLVSC-----K-----SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 531 d~~~~~C~~C~~gg~L~~C-----d-----~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
..+|.-|.+||+.=+.-.= + .|..+||..||+-..--+ ..=.||.|..+
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivG--------KkqtCPYCKek 279 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVG--------KKQTCPYCKEK 279 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeec--------CCCCCchHHHH
Confidence 4556789999865443331 1 299999999997442222 11249999765
No 464
>PRK10689 transcription-repair coupling factor; Provisional
Probab=37.24 E-value=1.3e+02 Score=42.36 Aligned_cols=98 Identities=7% Similarity=-0.043 Sum_probs=64.7
Q ss_pred ccChhHHHHHHHHHHhhcCCCeEEEEcCchhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHHhC
Q 000464 1115 DYSGKMVLLLDILTMCSNMGDKSLVFSQSIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERFNE 1194 (1479)
Q Consensus 1115 ~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~FN~ 1194 (1479)
..+||-.+.+..+......|.+++|.+..+..+..+...+..... ..++.+..+.|.++.+++..++.....
T Consensus 630 TGsGKT~val~aa~~~~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~--------~~~v~i~~l~g~~s~~e~~~il~~l~~ 701 (1147)
T PRK10689 630 VGFGKTEVAMRAAFLAVENHKQVAVLVPTTLLAQQHYDNFRDRFA--------NWPVRIEMLSRFRSAKEQTQILAEAAE 701 (1147)
T ss_pred CCcCHHHHHHHHHHHHHHcCCeEEEEeCcHHHHHHHHHHHHHhhc--------cCCceEEEEECCCCHHHHHHHHHHHHh
Confidence 457898766554444455688999999999888777777764210 125677788999999999998888874
Q ss_pred CCCCCceEEEeeccccccccCccccCEEE
Q 000464 1195 PLNKRVKCTLISTRAGSLGINLHSANRVI 1223 (1479)
Q Consensus 1195 ~~n~~v~VfLISTkAGGeGLNLt~AnrVI 1223 (1479)
+.+.|++.|.......+++.....||
T Consensus 702 ---g~~dIVVgTp~lL~~~v~~~~L~lLV 727 (1147)
T PRK10689 702 ---GKIDILIGTHKLLQSDVKWKDLGLLI 727 (1147)
T ss_pred ---CCCCEEEECHHHHhCCCCHhhCCEEE
Confidence 33445555544444445554444443
No 465
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=36.85 E-value=1.3e+02 Score=42.80 Aligned_cols=113 Identities=14% Similarity=0.148 Sum_probs=63.4
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHH-HHHhCCCCCCCeEEEEecCcchhHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQE-FMKWRPSELKPLRVFMLEDVSRDRRAE 829 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E-~~kw~P~~~~~l~V~~l~g~~~~~r~~ 829 (1479)
.+.+.++...-|.|||.+.+.-+..++..+ .....+|||+=+....++..+ +.+-+..... ... ....
T Consensus 13 ~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~-~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~--------~~p--~~~~ 81 (1232)
T TIGR02785 13 RGQNILVSASAGSGKTAVLVERIIKKILRG-VDIDRLLVVTFTNAAAREMKERIEEALQKALQ--------QEP--NSKH 81 (1232)
T ss_pred CCCCEEEEecCCCcHHHHHHHHHHHHHhcC-CCHhhEEEEeccHHHHHHHHHHHHHHHHHHHh--------cCc--hhHH
Confidence 467889999999999999988777665543 234579999977776655333 3322211000 000 1111
Q ss_pred HHHHHhhcCCEEEEeccccccccccccccchhhHHHHHhhhcCCCCEEEEcCCcc
Q 000464 830 LLAKWRAKGGVFLIGYTAFRNLSFGKHVKDRNMAREICHALQDGPDILVCDEAHM 884 (1479)
Q Consensus 830 ~l~~w~~~~~VvItsYe~fr~l~~~k~~kd~~~~~~l~~lL~~~~dlVIlDEAH~ 884 (1479)
+......-....|.|+..|-. .+.+.....+...|..=|+||.-.
T Consensus 82 L~~q~~~~~~~~i~Tihsf~~----------~~~~~~~~~l~ldP~F~i~de~e~ 126 (1232)
T TIGR02785 82 LRRQLALLNTANISTLHSFCL----------KVIRKHYYLLDLDPSFRILTDTEQ 126 (1232)
T ss_pred HHHHHhhccCCeEeeHHHHHH----------HHHHHhhhhcCCCCCceeCCHHHH
Confidence 222222334667888887743 122333333444566666787653
No 466
>PHA02542 41 41 helicase; Provisional
Probab=36.76 E-value=3.2e+02 Score=34.89 Aligned_cols=35 Identities=11% Similarity=0.159 Sum_probs=27.3
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP 792 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P 792 (1479)
=.|+|..+|+|||.-++.++...... .+++|++.-
T Consensus 192 LiiIaarPgmGKTtfalniA~~~a~~----g~~Vl~fSL 226 (473)
T PHA02542 192 LNVLLAGVNVGKSLGLCSLAADYLQQ----GYNVLYISM 226 (473)
T ss_pred EEEEEcCCCccHHHHHHHHHHHHHhc----CCcEEEEec
Confidence 37999999999999998888766432 358888863
No 467
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=36.71 E-value=2.1e+02 Score=36.54 Aligned_cols=51 Identities=20% Similarity=0.154 Sum_probs=35.9
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
+|.-.++.-+.|.|||.-++-|++.....+ .++|+|.---...|-...+..
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~~g----e~~~y~s~eEs~~~i~~~~~~ 312 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACANK----ERAILFAYEESRAQLLRNAYS 312 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHCC----CeEEEEEeeCCHHHHHHHHHH
Confidence 345588999999999999999888776543 367777755445555554444
No 468
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=36.68 E-value=35 Score=41.82 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=32.1
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe-chhhHHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT-PVNVLHNWKQEFMK 805 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~-P~sLl~qW~~E~~k 805 (1479)
.|.+|+-..|.|||+.|=|+... ++++.+=+ -..|...|.-|=+|
T Consensus 246 kgvLm~GPPGTGKTlLAKAvATE--------c~tTFFNVSsstltSKwRGeSEK 291 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVATE--------CGTTFFNVSSSTLTSKWRGESEK 291 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHHh--------hcCeEEEechhhhhhhhccchHH
Confidence 58999999999999988776533 33555544 56666788766554
No 469
>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=36.13 E-value=19 Score=27.83 Aligned_cols=26 Identities=23% Similarity=0.613 Sum_probs=12.4
Q ss_pred cccccCCCC---ceeecCCcccccchhhh
Q 000464 536 YCVWCGRSS---DLVSCKSCKTLFCTTCV 561 (1479)
Q Consensus 536 ~C~~C~~gg---~L~~Cd~C~r~Fc~~Cl 561 (1479)
.|.+|+..+ -...|..|...+|..|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 588888555 58999999999999994
No 470
>PRK10867 signal recognition particle protein; Provisional
Probab=35.99 E-value=4e+02 Score=33.67 Aligned_cols=36 Identities=17% Similarity=0.128 Sum_probs=25.7
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 791 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~ 791 (1479)
.-.++.-..|.|||.++.-++..+.... .+++++|+
T Consensus 101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~---G~kV~lV~ 136 (433)
T PRK10867 101 TVIMMVGLQGAGKTTTAGKLAKYLKKKK---KKKVLLVA 136 (433)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhc---CCcEEEEE
Confidence 4467888999999999988887765441 23566665
No 471
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=35.90 E-value=1.1e+02 Score=38.77 Aligned_cols=35 Identities=17% Similarity=0.235 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhhHHhHHHHHHHhhhccCCCch
Q 000464 107 EMTVYKEQWEAALDELETESAHLLEQLDGAGIELP 141 (1479)
Q Consensus 107 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 141 (1479)
+|......=++.|.+||+|.+.|.+|++.+|..++
T Consensus 94 ~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~~~~ 128 (475)
T PRK13729 94 VLNKQRGDDQRRIEKLGQDNAALAEQVKALGANPV 128 (475)
T ss_pred HHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcCCC
Confidence 45577777789999999999999999988888766
No 472
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=35.76 E-value=2.7e+02 Score=36.02 Aligned_cols=189 Identities=12% Similarity=0.027 Sum_probs=90.4
Q ss_pred chhhhhccHHHHHHHHHHHHHHHHhhhhhcCCCCCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhh-H
Q 000464 718 SSISAKLKAHQVVGIRFMWENIIQSIRKVKSGDKGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNV-L 796 (1479)
Q Consensus 718 ~~L~~~LrPhQ~eGV~~M~~~~~esl~r~k~~~~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sL-l 796 (1479)
++..-.|-|||...+.-++.- .........-.-+++.-.=|=|||-.+.+++.+..--.......++|++|.-- .
T Consensus 56 ~~~p~~l~PwQkFiia~l~G~----~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~~l~~~~~~~~~~i~A~s~~qa 131 (546)
T COG4626 56 PGFPESLEPWQKFIVAALFGF----YDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTALLLNWRSGAGIYILAPSVEQA 131 (546)
T ss_pred CCCccccchHHHHHHHHHhce----eecCCCceEEEEEEEEEecCCchHHHHHHHHHHHHHhhhhcCCcEEEEeccHHHH
Confidence 556678999999877655421 11000000112367788889999987766655544322244567888888532 2
Q ss_pred HHHHHHHHHhCCCCCCCeEEEEecCcchhHHHHHHHHHhhcCCEEEEeccc---cccccccccccchhhHHHHHhhhcCC
Q 000464 797 HNWKQEFMKWRPSELKPLRVFMLEDVSRDRRAELLAKWRAKGGVFLIGYTA---FRNLSFGKHVKDRNMAREICHALQDG 873 (1479)
Q Consensus 797 ~qW~~E~~kw~P~~~~~l~V~~l~g~~~~~r~~~l~~w~~~~~VvItsYe~---fr~l~~~k~~kd~~~~~~l~~lL~~~ 873 (1479)
.+=.+++..-+-.. .++. ..... ....+.|+.-.+ ++-++. .-...-...
T Consensus 132 ~~~F~~ar~mv~~~-~~l~--------------~~~~~-q~~s~~i~~~~~~s~ik~~aa-----------~~~~~Dg~~ 184 (546)
T COG4626 132 ANSFNPARDMVKRD-DDLR--------------DLCNV-QTHSRTITHRKTDSTIKAVAA-----------DPNTVDGLN 184 (546)
T ss_pred HHhhHHHHHHHHhC-cchh--------------hhhcc-ccceeEEEecccceeeeeecc-----------CCCcccCCC
Confidence 23333333221110 0000 00010 111222221111 111110 001122237
Q ss_pred CCEEEEcCCcccCCcchHHHHHHHhc---ccceEEEe--eCCCCccchhHHHhhhhhhccCCCCChHHH
Q 000464 874 PDILVCDEAHMIKNTRADTTQALKQV---KCQRRIAL--TGSPLQNNLMEYYCMVDFVREGFLGSSHEF 937 (1479)
Q Consensus 874 ~dlVIlDEAH~IKN~~Sk~skalk~L---ka~rRllL--TGTPLqNnL~EL~sLL~FL~P~~Lgs~~eF 937 (1479)
+..+|+||-|...++...++.+...+ +-...+.. +|-|...-+.+.+..+.-+..+...+...|
T Consensus 185 ~~~~I~DEih~f~~~~~~~~~~~~g~~ar~~~l~~~ITT~g~~~~g~~~q~~~y~k~vl~g~~~d~~~f 253 (546)
T COG4626 185 SVGAIIDELHLFGKQEDMYSEAKGGLGARPEGLVVYITTSGDPPAGVFKQKLQYAKDVLDGKIKDPHFF 253 (546)
T ss_pred cceEEEehhhhhcCHHHHHHHHHhhhccCcCceEEEEecCCCCCccHHHHHHHHHHHHhcCCcCCcceE
Confidence 88999999999988763333333334 22233433 355555556666665555555544444333
No 473
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=35.63 E-value=4.3e+02 Score=33.04 Aligned_cols=47 Identities=17% Similarity=0.219 Sum_probs=30.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEec----hhhHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTP----VNVLHNWKQE 802 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P----~sLl~qW~~E 802 (1479)
+.-.+++-..|.|||-++..+...+...+ +++.+|.- ..-+.||..-
T Consensus 206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g----~~V~lItaDtyR~gAveQLk~y 256 (407)
T PRK12726 206 HRIISLIGQTGVGKTTTLVKLGWQLLKQN----RTVGFITTDTFRSGAVEQFQGY 256 (407)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHcC----CeEEEEeCCccCccHHHHHHHH
Confidence 34456778899999998888776654432 35666653 2236677553
No 474
>PHA00350 putative assembly protein
Probab=35.62 E-value=69 Score=39.80 Aligned_cols=15 Identities=47% Similarity=0.569 Sum_probs=12.4
Q ss_pred CEEEEcCCcccCCcc
Q 000464 875 DILVCDEAHMIKNTR 889 (1479)
Q Consensus 875 dlVIlDEAH~IKN~~ 889 (1479)
.+|||||||++-+..
T Consensus 83 aLIViDEaq~~~p~r 97 (399)
T PHA00350 83 ALYVIDEAQMIFPKR 97 (399)
T ss_pred CEEEEECchhhcCCC
Confidence 589999999987653
No 475
>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=35.58 E-value=54 Score=41.78 Aligned_cols=26 Identities=27% Similarity=0.229 Sum_probs=21.0
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLYT 775 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~~ 775 (1479)
....|.+|.-+.|.|||..+=++...
T Consensus 86 ~~~~giLL~GppGtGKT~la~alA~~ 111 (495)
T TIGR01241 86 KIPKGVLLVGPPGTGKTLLAKAVAGE 111 (495)
T ss_pred CCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 34578999999999999888776543
No 476
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=35.34 E-value=21 Score=41.53 Aligned_cols=36 Identities=33% Similarity=0.783 Sum_probs=23.5
Q ss_pred cccccchhhhcccCCcccccccccCCCceeecCCch--hHHHHHHHH
Q 000464 552 CKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS--LLKRLTSEL 596 (1479)
Q Consensus 552 C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~--~l~~L~~~~ 596 (1479)
|...||..||..-+ -+....|+.|.-+ .|.+|+..+
T Consensus 293 C~~~fc~eci~~al---------~dsDf~CpnC~rkdvlld~l~pD~ 330 (427)
T COG5222 293 CGHTFCDECIGTAL---------LDSDFKCPNCSRKDVLLDGLTPDI 330 (427)
T ss_pred ccchHHHHHHhhhh---------hhccccCCCcccccchhhccCccH
Confidence 67899999974222 2346899999864 345554433
No 477
>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=35.29 E-value=1.8e+02 Score=33.80 Aligned_cols=53 Identities=17% Similarity=0.253 Sum_probs=31.3
Q ss_pred HHHHHhhhcCCCCEEEEcCCcccCCcchHHHHHHHhcccceEEEeeCCCCccchhHHHh
Q 000464 863 AREICHALQDGPDILVCDEAHMIKNTRADTTQALKQVKCQRRIALTGSPLQNNLMEYYC 921 (1479)
Q Consensus 863 ~~~l~~lL~~~~dlVIlDEAH~IKN~~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~s 921 (1479)
..-+..++..+||+||++|.- +. ....++....+-+...+| |-..|+..+...
T Consensus 187 ~~~l~~~LR~~pD~iiigEiR---~~--e~~~~~~a~~tGh~~~~t-T~Ha~s~~~~i~ 239 (270)
T PF00437_consen 187 EDLLKSALRQDPDVIIIGEIR---DP--EAAEAIQAANTGHLGSLT-TLHANSAEDAIE 239 (270)
T ss_dssp HHHHHHHTTS--SEEEESCE----SC--HHHHHHHHHHTT-EEEEE-EEE-SSHHHHHH
T ss_pred HHHHHHHhcCCCCcccccccC---CH--hHHHHHHhhccCCceeee-eeecCCHHHHHH
Confidence 344556777899999999954 44 344557777888887664 444555555544
No 478
>PRK04132 replication factor C small subunit; Provisional
Probab=35.26 E-value=1.7e+02 Score=40.00 Aligned_cols=41 Identities=15% Similarity=0.147 Sum_probs=26.3
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc---ccceEEEeeCCCCccc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV---KCQRRIALTGSPLQNN 915 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L---ka~rRllLTGTPLqNn 915 (1479)
++.+||+||+|++-. +.....++.+ ...-+++|+.++...-
T Consensus 630 ~~KVvIIDEaD~Lt~--~AQnALLk~lEep~~~~~FILi~N~~~kI 673 (846)
T PRK04132 630 SFKIIFLDEADALTQ--DAQQALRRTMEMFSSNVRFILSCNYSSKI 673 (846)
T ss_pred CCEEEEEECcccCCH--HHHHHHHHHhhCCCCCeEEEEEeCChhhC
Confidence 467899999999942 2222223333 4567889988775433
No 479
>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=35.26 E-value=16 Score=34.32 Aligned_cols=26 Identities=19% Similarity=0.602 Sum_probs=18.8
Q ss_pred CCcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 550 KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 550 d~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
..|...||..||.+.+... ..||+|.
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 4599999999997665333 3899984
No 480
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=35.19 E-value=2.3e+02 Score=35.65 Aligned_cols=36 Identities=22% Similarity=0.295 Sum_probs=25.3
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEe
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVT 791 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~ 791 (1479)
.-.+++-..|.|||.++.-++..+.... + +++++|.
T Consensus 100 ~vi~~vG~~GsGKTTtaakLA~~l~~~~--g-~kV~lV~ 135 (428)
T TIGR00959 100 TVILMVGLQGSGKTTTCGKLAYYLKKKQ--G-KKVLLVA 135 (428)
T ss_pred EEEEEECCCCCcHHHHHHHHHHHHHHhC--C-CeEEEEe
Confidence 4578899999999999888877754221 2 3555554
No 481
>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=35.18 E-value=19 Score=36.88 Aligned_cols=42 Identities=26% Similarity=0.737 Sum_probs=27.9
Q ss_pred cccccCCC-----CceeecCCcccccchhhhcccCCcccccccccCCCceeecCCc
Q 000464 536 YCVWCGRS-----SDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSP 586 (1479)
Q Consensus 536 ~C~~C~~g-----g~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p 586 (1479)
.|..|+.. +.-..|-.|.+.+|..|-.. ......|.|.+|.-
T Consensus 56 ~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~---------~~~~~~WlC~vC~k 102 (118)
T PF02318_consen 56 HCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY---------SKKEPIWLCKVCQK 102 (118)
T ss_dssp B-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE---------TSSSCCEEEHHHHH
T ss_pred chhhhCCcccccCCCCCcCCcCCccccCccCCc---------CCCCCCEEChhhHH
Confidence 56666542 23367889999999999322 23456899999954
No 482
>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN. Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).
Probab=34.99 E-value=96 Score=36.12 Aligned_cols=24 Identities=25% Similarity=0.238 Sum_probs=20.2
Q ss_pred CCcceEEEcCCCchHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLY 774 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~ 774 (1479)
.+...+|-.+.|.|||..|-++..
T Consensus 20 ~g~~vLL~G~~GtGKT~lA~~la~ 43 (262)
T TIGR02640 20 SGYPVHLRGPAGTGKTTLAMHVAR 43 (262)
T ss_pred cCCeEEEEcCCCCCHHHHHHHHHH
Confidence 356789999999999998887764
No 483
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.59 E-value=20 Score=43.48 Aligned_cols=53 Identities=19% Similarity=0.434 Sum_probs=32.7
Q ss_pred CCcccccccCCCCceee-----c---CCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 532 CSECYCVWCGRSSDLVS-----C---KSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 532 ~~~~~C~~C~~gg~L~~-----C---d~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
..+..|.+|.+++.-.- = -+|..+||.+||...-.-... ...-.=.|++|.-.
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~---~~~~sksCP~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQF---ESKTSKSCPFCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhcc---ccccccCCCcccCc
Confidence 55678999997764333 1 459999999998755321110 01112358999654
No 484
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.52 E-value=14 Score=45.63 Aligned_cols=42 Identities=29% Similarity=0.655 Sum_probs=25.7
Q ss_pred cccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 536 YCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
.|.+|.+.=.--.--.|...||..||...+.. .-.|+.|.-.
T Consensus 28 ~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~----------~~~CP~Cr~~ 69 (397)
T TIGR00599 28 RCHICKDFFDVPVLTSCSHTFCSLCIRRCLSN----------QPKCPLCRAE 69 (397)
T ss_pred CCCcCchhhhCccCCCCCCchhHHHHHHHHhC----------CCCCCCCCCc
Confidence 56666543221122459999999998765432 1279999643
No 485
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.42 E-value=16 Score=45.70 Aligned_cols=49 Identities=16% Similarity=0.476 Sum_probs=35.2
Q ss_pred cccccccCCCCceeecCCcccccchhhhcccCCcccccccccCCCceeecCCch
Q 000464 534 ECYCVWCGRSSDLVSCKSCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCSPS 587 (1479)
Q Consensus 534 ~~~C~~C~~gg~L~~Cd~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~p~ 587 (1479)
+.+|.+|-..-..-+=-.|...||..||-.-+..+ .-...=.|++|-..
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s-----~~~~~~~CPiC~s~ 234 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYS-----AIKGPCSCPICRST 234 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhh-----cccCCccCCchhhh
Confidence 55899998888777777799999999997554433 12233458999544
No 486
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=34.34 E-value=22 Score=46.73 Aligned_cols=23 Identities=26% Similarity=0.723 Sum_probs=12.4
Q ss_pred CCCCcccccccCCCCceeecCCcc
Q 000464 530 ADCSECYCVWCGRSSDLVSCKSCK 553 (1479)
Q Consensus 530 ~d~~~~~C~~C~~gg~L~~Cd~C~ 553 (1479)
+++.. ||.-||....-..|-.|.
T Consensus 12 ~~~ak-FC~~CG~~l~~~~Cp~CG 34 (645)
T PRK14559 12 PNNNR-FCQKCGTSLTHKPCPQCG 34 (645)
T ss_pred CCCCc-cccccCCCCCCCcCCCCC
Confidence 34444 888886654433444444
No 487
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=34.30 E-value=19 Score=41.82 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=24.4
Q ss_pred CcccccchhhhcccCCcccccccccCCCceeecCC
Q 000464 551 SCKTLFCTTCVKRNISEACLSDEVQASCWQCCCCS 585 (1479)
Q Consensus 551 ~C~r~Fc~~Cl~~~~g~~~~~~~~~~~~W~C~~C~ 585 (1479)
.|||++|..|--.++|...... ...-.++|+.|.
T Consensus 122 ~CPRv~C~~q~~LPvGlSd~~g-~~~VKlyCP~C~ 155 (251)
T PTZ00396 122 HCPRVLCEGQNVLPIGLSDVLK-TSRVKVYCPRCQ 155 (251)
T ss_pred CCCCccCCCCcccccccCCCcC-cCceeEeCCCch
Confidence 4999999988777777654431 234558999995
No 488
>PRK05917 DNA polymerase III subunit delta'; Validated
Probab=33.98 E-value=1.7e+02 Score=34.92 Aligned_cols=29 Identities=7% Similarity=-0.098 Sum_probs=23.6
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHh
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRS 779 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~ 779 (1479)
-....++..+-|.||+..|.+|...++..
T Consensus 18 l~HAyLf~G~~G~Gk~~lA~~~A~~llC~ 46 (290)
T PRK05917 18 VPSAIILHGQDLSNLSARAYELASLILKE 46 (290)
T ss_pred cCeeEeeECCCCCcHHHHHHHHHHHHhCC
Confidence 34567788889999999999999888653
No 489
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=33.95 E-value=1.6e+02 Score=35.57 Aligned_cols=26 Identities=31% Similarity=0.361 Sum_probs=20.2
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTA 776 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~l 776 (1479)
.+.+.||+-+-|+|||...|-+...+
T Consensus 88 ~g~~~~~~gdsg~GKttllL~l~Ial 113 (402)
T COG3598 88 KGYVSILYGDSGVGKTTLLLYLCIAL 113 (402)
T ss_pred cCeeEEEecCCcccHhHHHHHHHHHH
Confidence 46789999999999998776655443
No 490
>PRK09165 replicative DNA helicase; Provisional
Probab=33.94 E-value=4.3e+02 Score=33.93 Aligned_cols=52 Identities=13% Similarity=0.057 Sum_probs=34.7
Q ss_pred cceEEEcCCCchHHHHHHHHHHHHHHhcc-----------cCCCceEEEechhhHHHHHHHHH
Q 000464 753 LGCILAHTMGLGKTFQVIAFLYTAMRSVN-----------LGLRTALIVTPVNVLHNWKQEFM 804 (1479)
Q Consensus 753 ~GgILADeMGLGKTLQaIAlL~~ll~~~~-----------~~~k~vLIV~P~sLl~qW~~E~~ 804 (1479)
.=.|||.-.|+|||.-++.++........ ...+++|++..---..++...+.
T Consensus 218 ~livIaarpg~GKT~~al~ia~~~a~~~~~~~~~~~~~~~~~g~~vl~fSlEMs~~ql~~R~l 280 (497)
T PRK09165 218 DLIILAGRPSMGKTALATNIAFNAAKAYRREAQPDGSKKAVNGGVVGFFSLEMSAEQLATRIL 280 (497)
T ss_pred ceEEEEeCCCCChHHHHHHHHHHHHHhhcccccccccccccCCCeEEEEeCcCCHHHHHHHHH
Confidence 34799999999999988887766543211 01357888877555555555543
No 491
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=33.74 E-value=2.2e+02 Score=36.40 Aligned_cols=50 Identities=18% Similarity=0.144 Sum_probs=33.2
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
|.-.++.-+.|.|||.-+..|+......+ .++++|.-.....+-...+..
T Consensus 273 g~~~li~G~~G~GKT~l~~~~~~~~~~~g----~~~~yis~e~~~~~i~~~~~~ 322 (509)
T PRK09302 273 GSIILVSGATGTGKTLLASKFAEAACRRG----ERCLLFAFEESRAQLIRNARS 322 (509)
T ss_pred CcEEEEEcCCCCCHHHHHHHHHHHHHhCC----CcEEEEEecCCHHHHHHHHHH
Confidence 33457788999999999999987765542 477777654444443333433
No 492
>PRK08840 replicative DNA helicase; Provisional
Probab=33.62 E-value=4.3e+02 Score=33.69 Aligned_cols=50 Identities=16% Similarity=0.058 Sum_probs=34.5
Q ss_pred CcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHH
Q 000464 752 GLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFM 804 (1479)
Q Consensus 752 g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~ 804 (1479)
|.=.|||.-.|+|||.-++-++...... ...+++++..---..++...+.
T Consensus 217 g~LiviaarPg~GKTafalnia~~~a~~---~~~~v~~fSlEMs~~ql~~Rll 266 (464)
T PRK08840 217 SDLIIVAARPSMGKTTFAMNLCENAAMD---QDKPVLIFSLEMPAEQLMMRML 266 (464)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHh---CCCeEEEEeccCCHHHHHHHHH
Confidence 4447999999999998887766554322 1358898887655666655543
No 493
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=33.48 E-value=26 Score=44.51 Aligned_cols=21 Identities=24% Similarity=0.833 Sum_probs=17.2
Q ss_pred cccccCCCCceeecCCccccc
Q 000464 536 YCVWCGRSSDLVSCKSCKTLF 556 (1479)
Q Consensus 536 ~C~~C~~gg~L~~Cd~C~r~F 556 (1479)
.|.-|++-|..+-|+.|.+.|
T Consensus 70 ~c~~c~G~gkv~~c~~cG~~~ 90 (715)
T COG1107 70 TCPECGGTGKVLTCDICGDII 90 (715)
T ss_pred ecccCCCceeEEeecccccee
Confidence 688888888888888887665
No 494
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=33.45 E-value=1.1e+02 Score=38.07 Aligned_cols=93 Identities=20% Similarity=0.227 Sum_probs=63.4
Q ss_pred cccChhHHHHHHHHHHhhcCCCeEEEEcC-chhhHHHHHHHHhcCCCCCCCcccccCCccEEEecCCCCHHHHHHHHHHH
Q 000464 1114 LDYSGKMVLLLDILTMCSNMGDKSLVFSQ-SIPTLDLIEFYLSKLPRPGKQGKLWKKGKDWYRLDGRTESSERQKLVERF 1192 (1479)
Q Consensus 1114 i~~S~Kl~~L~eIL~~~~~~G~KVLIFSQ-~~~tLdlLe~~L~~l~~~~~~~~~w~~Gi~y~rLdGsts~~eRq~lI~~F 1192 (1479)
+..++-|.++.-.+....+.|++||+... |-.+..++..+|++ .|+.+..+|..........++.
T Consensus 82 ~afsSGmaAI~~~~l~ll~~GD~vl~~~~~YG~t~~~~~~~l~~------------~gi~~~~~d~~~~~~~~~~~~~-- 147 (396)
T COG0626 82 FAFSSGMAAISTALLALLKAGDHVLLPDDLYGGTYRLFEKILQK------------FGVEVTFVDPGDDEALEAAIKE-- 147 (396)
T ss_pred EEecCcHHHHHHHHHHhcCCCCEEEecCCccchHHHHHHHHHHh------------cCeEEEEECCCChHHHHHHhcc--
Confidence 34577888888877777888999988877 77888888888886 5888888887766433332222
Q ss_pred hCCCCCCceEEEeeccccccccCccccCEEEEEeCCCCcchHHHHhHhhhhcC
Q 000464 1193 NEPLNKRVKCTLISTRAGSLGINLHSANRVIIVDGSWNPTYDLQAIYRAWRYG 1245 (1479)
Q Consensus 1193 N~~~n~~v~VfLISTkAGGeGLNLt~AnrVIifDp~WNPa~d~QAIGRa~RiG 1245 (1479)
++ ..+|+++.|-||...++=|.++-|+-
T Consensus 148 ---~~----------------------tk~v~lEtPsNP~l~v~DI~~i~~~A 175 (396)
T COG0626 148 ---PN----------------------TKLVFLETPSNPLLEVPDIPAIARLA 175 (396)
T ss_pred ---cC----------------------ceEEEEeCCCCcccccccHHHHHHHH
Confidence 12 24567777778876555555444443
No 495
>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=33.13 E-value=1.3e+02 Score=33.12 Aligned_cols=56 Identities=18% Similarity=0.215 Sum_probs=30.9
Q ss_pred cCCCCEEEEcCCcccCCc----chHHHHHHHhcccceEEEeeCCCCccchhHHHhhhhhh
Q 000464 871 QDGPDILVCDEAHMIKNT----RADTTQALKQVKCQRRIALTGSPLQNNLMEYYCMVDFV 926 (1479)
Q Consensus 871 ~~~~dlVIlDEAH~IKN~----~Sk~skalk~Lka~rRllLTGTPLqNnL~EL~sLL~FL 926 (1479)
...||+||+||.=..-+. ...+...+..-...--++|||-=.+-.+.|+..++.-+
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 358999999998654332 23444555544666789999987766666555554443
No 496
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=33.11 E-value=1.1e+03 Score=30.25 Aligned_cols=54 Identities=15% Similarity=0.148 Sum_probs=32.6
Q ss_pred CCCEEEEcCCcccCCcchHHHHHHHhc-----ccceEEEeeCCCCccchhHHHhhhhhhc
Q 000464 873 GPDILVCDEAHMIKNTRADTTQALKQV-----KCQRRIALTGSPLQNNLMEYYCMVDFVR 927 (1479)
Q Consensus 873 ~~dlVIlDEAH~IKN~~Sk~skalk~L-----ka~rRllLTGTPLqNnL~EL~sLL~FL~ 927 (1479)
++++|+||.+=+..+.. .....+..+ .....++|.+|.-++.+.+....++.+.
T Consensus 334 d~d~VLIDTaGr~~~d~-~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~~i~~~f~~~~ 392 (484)
T PRK06995 334 NKHIVLIDTIGMSQRDR-MVSEQIAMLHGAGAPVKRLLLLNATSHGDTLNEVVQAYRGPG 392 (484)
T ss_pred CCCeEEeCCCCcChhhH-HHHHHHHHHhccCCCCeeEEEEeCCCcHHHHHHHHHHhccCC
Confidence 66889999876543322 233333333 2335688899888877777665554443
No 497
>PRK09302 circadian clock protein KaiC; Reviewed
Probab=33.09 E-value=2.9e+02 Score=35.44 Aligned_cols=52 Identities=21% Similarity=0.293 Sum_probs=34.4
Q ss_pred CCcceEEEcCCCchHHHHHHHHHHHHHHhcccCCCceEEEechhhHHHHHHHHHH
Q 000464 751 KGLGCILAHTMGLGKTFQVIAFLYTAMRSVNLGLRTALIVTPVNVLHNWKQEFMK 805 (1479)
Q Consensus 751 ~g~GgILADeMGLGKTLQaIAlL~~ll~~~~~~~k~vLIV~P~sLl~qW~~E~~k 805 (1479)
.|.-.+|+-+.|.|||+-++-|++..+... ..++|.|.=-....+-.+.+..
T Consensus 30 ~Gs~~li~G~pGsGKT~l~~qf~~~~~~~~---ge~~lyis~ee~~~~i~~~~~~ 81 (509)
T PRK09302 30 KGRPTLVSGTAGTGKTLFALQFLVNGIKRF---DEPGVFVTFEESPEDIIRNVAS 81 (509)
T ss_pred CCcEEEEEeCCCCCHHHHHHHHHHHHHHhc---CCCEEEEEccCCHHHHHHHHHH
Confidence 355578899999999999999887665441 2477888744333343333433
No 498
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=33.09 E-value=27 Score=31.12 Aligned_cols=29 Identities=28% Similarity=0.833 Sum_probs=24.4
Q ss_pred cccccCC----CCceeecCCcccccchhhhccc
Q 000464 536 YCVWCGR----SSDLVSCKSCKTLFCTTCVKRN 564 (1479)
Q Consensus 536 ~C~~C~~----gg~L~~Cd~C~r~Fc~~Cl~~~ 564 (1479)
-|.+|++ +++++.|..|...||..|-.+.
T Consensus 7 ~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 7 KCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred cChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 5788874 8899999999999999996443
No 499
>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=32.44 E-value=2e+02 Score=37.56 Aligned_cols=25 Identities=32% Similarity=0.355 Sum_probs=21.2
Q ss_pred CCCcceEEEcCCCchHHHHHHHHHH
Q 000464 750 DKGLGCILAHTMGLGKTFQVIAFLY 774 (1479)
Q Consensus 750 ~~g~GgILADeMGLGKTLQaIAlL~ 774 (1479)
....|.+|+-..|-|||+.|=|+.-
T Consensus 543 ~~PsGvLL~GPPGCGKTLlAKAVAN 567 (802)
T KOG0733|consen 543 DAPSGVLLCGPPGCGKTLLAKAVAN 567 (802)
T ss_pred CCCCceEEeCCCCccHHHHHHHHhh
Confidence 3468999999999999998887653
No 500
>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=32.34 E-value=1.3e+02 Score=34.19 Aligned_cols=27 Identities=19% Similarity=0.220 Sum_probs=22.0
Q ss_pred ceEEEcCCCchHHHHHHHHHHHHHHhc
Q 000464 754 GCILAHTMGLGKTFQVIAFLYTAMRSV 780 (1479)
Q Consensus 754 GgILADeMGLGKTLQaIAlL~~ll~~~ 780 (1479)
-..|+...|.|||..++.-...+...+
T Consensus 7 kIflG~apGVGKTy~ML~ea~~l~~~G 33 (211)
T PF02702_consen 7 KIFLGAAPGVGKTYAMLQEAHRLKEQG 33 (211)
T ss_dssp EEEEESSTTSSHHHHHHHHHHHHHHTT
T ss_pred EEEEecCCCCCHHHHHHHHHHHHHHCC
Confidence 478999999999999888777766543
Done!