Query 042003
Match_columns 248
No_of_seqs 130 out of 1342
Neff 10.6
Searched_HMMs 46136
Date Fri Mar 29 12:59:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042003.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042003hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0331 ATP-dependent RNA heli 100.0 5E-48 1.1E-52 316.7 18.7 245 1-248 177-429 (519)
2 KOG0328 Predicted ATP-dependen 100.0 1.1E-47 2.4E-52 287.3 16.3 245 1-248 107-354 (400)
3 KOG0330 ATP-dependent RNA heli 100.0 1.5E-47 3.3E-52 297.6 13.7 245 1-248 141-388 (476)
4 COG0513 SrmB Superfamily II DN 100.0 6.5E-46 1.4E-50 314.4 22.4 245 1-248 111-361 (513)
5 KOG0333 U5 snRNP-like RNA heli 100.0 2.4E-45 5.2E-50 294.9 18.2 246 1-248 334-605 (673)
6 PRK04837 ATP-dependent RNA hel 100.0 3.9E-43 8.5E-48 293.7 23.3 245 1-248 95-343 (423)
7 PRK11776 ATP-dependent RNA hel 100.0 1.1E-42 2.3E-47 294.0 22.8 244 1-248 84-330 (460)
8 KOG0326 ATP-dependent RNA heli 100.0 6.3E-44 1.4E-48 271.3 13.0 243 1-248 165-410 (459)
9 PRK11192 ATP-dependent RNA hel 100.0 2.2E-42 4.7E-47 290.4 23.3 245 1-248 85-333 (434)
10 PRK10590 ATP-dependent RNA hel 100.0 2.1E-42 4.4E-47 291.3 22.3 245 1-248 87-333 (456)
11 PTZ00110 helicase; Provisional 100.0 1.3E-42 2.8E-47 296.9 20.5 244 1-248 215-465 (545)
12 PRK04537 ATP-dependent RNA hel 100.0 2.8E-42 6.2E-47 295.8 21.4 245 1-248 96-345 (572)
13 PLN00206 DEAD-box ATP-dependen 100.0 1.4E-41 3.1E-46 289.6 22.4 244 1-248 208-456 (518)
14 PRK11634 ATP-dependent RNA hel 100.0 1.4E-41 3E-46 293.2 21.7 245 1-248 86-333 (629)
15 KOG0338 ATP-dependent RNA heli 100.0 5.1E-43 1.1E-47 280.8 11.1 245 1-248 264-514 (691)
16 PRK01297 ATP-dependent RNA hel 100.0 1.3E-40 2.8E-45 282.1 22.9 246 1-248 174-423 (475)
17 PTZ00424 helicase 45; Provisio 100.0 2.8E-40 6.2E-45 275.5 23.6 246 1-248 108-355 (401)
18 KOG0335 ATP-dependent RNA heli 100.0 7E-41 1.5E-45 270.6 18.0 246 1-248 164-425 (482)
19 KOG0342 ATP-dependent RNA heli 100.0 1.3E-40 2.7E-45 266.0 15.1 244 1-248 166-418 (543)
20 KOG0343 RNA Helicase [RNA proc 100.0 2.3E-40 5E-45 267.8 16.1 244 1-248 153-403 (758)
21 KOG0339 ATP-dependent RNA heli 100.0 8.7E-40 1.9E-44 262.2 18.2 246 1-248 308-556 (731)
22 KOG0336 ATP-dependent RNA heli 100.0 1.4E-39 2.9E-44 255.3 15.3 244 1-248 306-553 (629)
23 KOG0345 ATP-dependent RNA heli 100.0 4.4E-39 9.6E-44 255.9 15.4 245 1-248 91-345 (567)
24 KOG0332 ATP-dependent RNA heli 100.0 1.5E-38 3.1E-43 246.5 17.1 246 1-248 172-424 (477)
25 KOG0340 ATP-dependent RNA heli 100.0 1.3E-38 2.9E-43 245.2 15.4 244 1-248 87-342 (442)
26 KOG0341 DEAD-box protein abstr 100.0 5.3E-40 1.1E-44 256.1 5.4 244 1-248 258-509 (610)
27 KOG4284 DEAD box protein [Tran 100.0 2.1E-37 4.6E-42 254.8 14.5 247 1-248 105-360 (980)
28 KOG0348 ATP-dependent RNA heli 100.0 3.3E-37 7.2E-42 248.7 13.2 246 1-248 223-535 (708)
29 KOG0347 RNA helicase [RNA proc 100.0 1.2E-37 2.5E-42 252.0 10.1 243 1-247 275-550 (731)
30 KOG0327 Translation initiation 100.0 5.5E-36 1.2E-40 233.2 16.4 242 1-248 106-351 (397)
31 TIGR03817 DECH_helic helicase/ 100.0 7.9E-35 1.7E-39 255.9 19.1 239 1-248 93-367 (742)
32 TIGR00614 recQ_fam ATP-depende 100.0 5.7E-34 1.2E-38 240.9 17.7 208 34-248 98-314 (470)
33 KOG0346 RNA helicase [RNA proc 100.0 1.3E-34 2.9E-39 228.8 12.1 245 1-248 105-391 (569)
34 KOG0337 ATP-dependent RNA heli 100.0 2E-34 4.3E-39 226.7 12.1 244 1-248 102-349 (529)
35 PRK09751 putative ATP-dependen 100.0 1.8E-33 4E-38 256.7 19.7 241 1-248 49-365 (1490)
36 KOG0334 RNA helicase [RNA proc 100.0 6.5E-34 1.4E-38 245.6 14.1 245 1-248 450-701 (997)
37 KOG0344 ATP-dependent RNA heli 100.0 3E-34 6.6E-39 234.2 11.0 248 1-248 221-476 (593)
38 PRK11057 ATP-dependent DNA hel 100.0 3.4E-33 7.4E-38 242.0 16.9 207 34-248 112-324 (607)
39 TIGR01389 recQ ATP-dependent D 100.0 3E-33 6.6E-38 242.7 16.5 209 34-248 100-312 (591)
40 PLN03137 ATP-dependent DNA hel 100.0 9.7E-33 2.1E-37 243.7 18.5 208 36-248 551-768 (1195)
41 PRK13767 ATP-dependent helicas 100.0 1.2E-32 2.5E-37 246.5 18.3 224 19-248 125-378 (876)
42 KOG0350 DEAD-box ATP-dependent 100.0 4.9E-33 1.1E-37 223.0 11.5 245 1-248 227-521 (620)
43 PRK02362 ski2-like helicase; P 100.0 5.5E-32 1.2E-36 239.8 18.0 242 1-248 79-376 (737)
44 COG1201 Lhr Lhr-like helicases 100.0 1.9E-31 4.2E-36 230.6 17.3 242 1-248 85-342 (814)
45 TIGR02621 cas3_GSU0051 CRISPR- 100.0 1.3E-30 2.8E-35 226.6 19.6 237 1-248 74-371 (844)
46 COG0514 RecQ Superfamily II DN 100.0 1.4E-31 3E-36 223.9 12.5 212 34-248 104-318 (590)
47 TIGR00580 mfd transcription-re 100.0 2E-30 4.3E-35 230.7 20.2 230 1-248 512-751 (926)
48 PRK00254 ski2-like helicase; P 100.0 7.8E-31 1.7E-35 232.0 17.1 239 1-248 80-367 (720)
49 PRK09401 reverse gyrase; Revie 100.0 2.4E-30 5.1E-35 235.1 19.2 234 1-247 135-424 (1176)
50 PRK10689 transcription-repair 100.0 7E-30 1.5E-34 231.6 19.6 230 1-248 661-900 (1147)
51 PRK10917 ATP-dependent DNA hel 100.0 1.3E-29 2.8E-34 222.0 19.7 230 1-247 322-569 (681)
52 COG1111 MPH1 ERCC4-like helica 100.0 1.9E-29 4.1E-34 203.5 18.3 246 1-248 70-463 (542)
53 KOG0329 ATP-dependent RNA heli 100.0 1.2E-31 2.6E-36 198.8 4.0 211 1-248 122-336 (387)
54 TIGR00643 recG ATP-dependent D 100.0 6.8E-29 1.5E-33 216.1 19.8 232 1-247 296-546 (630)
55 PRK01172 ski2-like helicase; P 100.0 9.9E-30 2.1E-34 223.9 14.7 236 1-248 77-357 (674)
56 TIGR01970 DEAH_box_HrpB ATP-de 100.0 5.7E-29 1.2E-33 219.3 19.2 226 1-240 57-292 (819)
57 PRK11664 ATP-dependent RNA hel 100.0 1.3E-28 2.8E-33 217.5 21.0 227 1-240 60-295 (812)
58 PHA02653 RNA helicase NPH-II; 100.0 1.8E-28 4E-33 211.6 18.8 232 1-248 234-496 (675)
59 PHA02558 uvsW UvsW helicase; P 100.0 2E-28 4.4E-33 208.3 17.2 233 1-248 170-433 (501)
60 TIGR01587 cas3_core CRISPR-ass 100.0 1.9E-28 4.2E-33 201.4 13.3 205 37-248 94-313 (358)
61 PRK14701 reverse gyrase; Provi 100.0 2.3E-27 5.1E-32 220.1 19.9 235 1-247 134-423 (1638)
62 TIGR01054 rgy reverse gyrase. 100.0 3.7E-27 8E-32 214.7 19.8 225 1-240 133-410 (1171)
63 COG1202 Superfamily II helicas 100.0 1.7E-27 3.7E-32 194.6 15.1 238 1-247 273-531 (830)
64 COG1204 Superfamily II helicas 99.9 3.5E-27 7.5E-32 206.2 15.7 241 1-247 88-386 (766)
65 PRK11131 ATP-dependent RNA hel 99.9 1.6E-26 3.5E-31 208.4 19.0 228 1-248 134-393 (1294)
66 PRK13766 Hef nuclease; Provisi 99.9 2.3E-26 5E-31 205.9 19.7 245 1-248 70-461 (773)
67 COG1200 RecG RecG-like helicas 99.9 2.3E-26 4.9E-31 192.8 17.3 223 1-239 323-562 (677)
68 TIGR03158 cas3_cyano CRISPR-as 99.9 7.9E-26 1.7E-30 184.7 19.7 201 36-248 112-353 (357)
69 KOG0349 Putative DEAD-box RNA 99.9 7.3E-27 1.6E-31 185.3 11.9 247 1-248 298-596 (725)
70 TIGR00603 rad25 DNA repair hel 99.9 4.6E-25 1E-29 190.3 14.3 232 1-248 310-581 (732)
71 KOG0351 ATP-dependent DNA heli 99.9 4.9E-25 1.1E-29 194.5 14.4 211 37-248 356-573 (941)
72 PRK04914 ATP-dependent helicas 99.9 4.5E-24 9.7E-29 189.9 17.1 103 146-248 479-584 (956)
73 COG1197 Mfd Transcription-repa 99.9 1.1E-23 2.4E-28 185.8 19.0 219 1-237 655-882 (1139)
74 PRK12898 secA preprotein trans 99.9 7.6E-24 1.6E-28 180.8 15.7 149 95-248 409-567 (656)
75 TIGR01967 DEAH_box_HrpA ATP-de 99.9 9.9E-24 2.2E-28 191.1 16.5 197 31-239 150-359 (1283)
76 KOG0354 DEAD-box like helicase 99.9 1E-23 2.2E-28 179.3 15.4 246 1-248 118-512 (746)
77 PRK09200 preprotein translocas 99.9 1.5E-23 3.3E-28 182.6 16.0 104 143-248 409-522 (790)
78 TIGR00963 secA preprotein tran 99.9 5.3E-23 1.1E-27 176.8 15.6 242 1-248 109-498 (745)
79 TIGR03714 secA2 accessory Sec 99.9 9.7E-23 2.1E-27 176.1 16.2 104 142-248 404-518 (762)
80 KOG0352 ATP-dependent DNA heli 99.9 3.6E-24 7.9E-29 169.7 6.7 210 36-247 112-342 (641)
81 COG1061 SSL2 DNA or RNA helica 99.9 1.1E-22 2.4E-27 170.2 14.2 234 1-248 92-370 (442)
82 COG1205 Distinct helicase fami 99.9 1.9E-21 4.2E-26 172.6 15.7 244 1-248 127-403 (851)
83 KOG0952 DNA/RNA helicase MER3/ 99.9 2.2E-21 4.7E-26 168.2 14.3 230 1-238 176-449 (1230)
84 PRK09694 helicase Cas3; Provis 99.9 6.5E-21 1.4E-25 168.9 16.1 206 38-248 411-656 (878)
85 KOG0353 ATP-dependent DNA heli 99.8 7.8E-21 1.7E-25 149.2 10.4 209 36-246 185-403 (695)
86 COG4098 comFA Superfamily II D 99.8 2.5E-19 5.5E-24 138.8 17.3 197 21-234 173-379 (441)
87 TIGR00595 priA primosomal prot 99.8 4.8E-19 1E-23 150.2 18.9 220 1-239 37-343 (505)
88 KOG0951 RNA helicase BRR2, DEA 99.8 9.3E-20 2E-24 160.4 12.8 227 1-233 376-656 (1674)
89 PRK11448 hsdR type I restricti 99.8 4.8E-19 1.1E-23 161.1 16.9 238 1-248 475-794 (1123)
90 KOG0947 Cytoplasmic exosomal R 99.8 1.8E-18 3.9E-23 149.1 17.2 221 1-233 352-679 (1248)
91 PRK12904 preprotein translocas 99.8 2E-18 4.4E-23 150.6 16.2 222 1-228 134-496 (830)
92 PRK05580 primosome assembly pr 99.8 4.9E-18 1.1E-22 149.0 18.0 224 1-241 202-513 (679)
93 COG1643 HrpA HrpA-like helicas 99.8 2.1E-18 4.5E-23 151.3 14.4 202 31-240 133-343 (845)
94 PRK13104 secA preprotein trans 99.8 2.4E-18 5.2E-23 150.5 14.3 84 142-227 424-509 (896)
95 KOG0948 Nuclear exosomal RNA h 99.8 3.6E-18 7.9E-23 144.0 14.0 217 1-233 184-495 (1041)
96 KOG0950 DNA polymerase theta/e 99.8 2.5E-18 5.4E-23 148.5 13.1 232 8-248 288-590 (1008)
97 PLN03142 Probable chromatin-re 99.8 7E-18 1.5E-22 151.3 14.6 103 146-248 471-578 (1033)
98 PRK12906 secA preprotein trans 99.8 6.5E-18 1.4E-22 146.9 12.4 105 142-248 420-534 (796)
99 cd00079 HELICc Helicase superf 99.8 2.1E-17 4.5E-22 116.5 12.7 103 146-248 12-116 (131)
100 TIGR00631 uvrb excinuclease AB 99.8 1.8E-17 3.9E-22 144.1 13.9 89 160-248 442-535 (655)
101 KOG0922 DEAH-box RNA helicase 99.7 4E-17 8.6E-22 136.6 13.2 196 34-238 137-344 (674)
102 PF00271 Helicase_C: Helicase 99.7 7.2E-18 1.6E-22 107.8 4.3 71 178-248 1-71 (78)
103 COG4581 Superfamily II RNA hel 99.7 5.7E-16 1.2E-20 137.4 16.2 226 1-237 174-496 (1041)
104 PRK05298 excinuclease ABC subu 99.7 3.3E-16 7.1E-21 137.0 13.0 89 160-248 446-539 (652)
105 PRK13107 preprotein translocas 99.7 6.7E-16 1.4E-20 135.1 12.7 84 142-227 429-514 (908)
106 COG1203 CRISPR-associated heli 99.6 8.1E-16 1.7E-20 136.3 9.3 204 38-247 311-528 (733)
107 COG1110 Reverse gyrase [DNA re 99.6 3.6E-15 7.9E-20 130.1 12.7 221 1-240 137-418 (1187)
108 smart00490 HELICc helicase sup 99.6 2.3E-15 5.1E-20 97.0 6.2 74 175-248 2-75 (82)
109 KOG0385 Chromatin remodeling c 99.6 5.1E-14 1.1E-18 119.6 15.8 86 160-245 487-575 (971)
110 cd00268 DEADc DEAD-box helicas 99.6 6.4E-15 1.4E-19 111.8 9.2 119 1-122 81-202 (203)
111 COG0556 UvrB Helicase subunit 99.6 8.4E-14 1.8E-18 114.3 14.9 138 94-237 386-523 (663)
112 PF06862 DUF1253: Protein of u 99.6 3.6E-13 7.7E-18 110.8 18.7 207 36-244 130-386 (442)
113 KOG1123 RNA polymerase II tran 99.6 3.2E-14 7E-19 115.8 11.5 230 2-247 358-627 (776)
114 KOG0920 ATP-dependent RNA heli 99.6 4.1E-14 8.8E-19 124.5 12.5 199 35-238 262-498 (924)
115 COG4096 HsdR Type I site-speci 99.5 6.3E-14 1.4E-18 120.5 12.1 231 1-248 227-519 (875)
116 KOG0923 mRNA splicing factor A 99.5 1E-13 2.2E-18 116.2 11.7 199 32-239 350-561 (902)
117 PRK12900 secA preprotein trans 99.5 2E-13 4.3E-18 120.5 10.7 148 96-248 535-692 (1025)
118 KOG0387 Transcription-coupled 99.5 3.9E-12 8.5E-17 108.8 16.7 101 146-246 530-635 (923)
119 PF00270 DEAD: DEAD/DEAH box h 99.5 7.5E-14 1.6E-18 102.7 5.5 107 1-109 56-167 (169)
120 KOG0924 mRNA splicing factor A 99.5 3.2E-13 7E-18 113.7 8.9 198 31-238 439-651 (1042)
121 TIGR00348 hsdR type I site-spe 99.4 4.9E-12 1.1E-16 111.4 16.6 87 160-247 514-627 (667)
122 KOG0949 Predicted helicase, DE 99.4 3.1E-12 6.6E-17 111.6 13.9 102 1-106 568-673 (1330)
123 KOG0926 DEAH-box RNA helicase 99.4 1.8E-12 3.9E-17 111.0 10.7 200 35-238 347-658 (1172)
124 COG1198 PriA Primosomal protei 99.3 3.9E-11 8.4E-16 104.6 14.7 200 29-237 288-561 (730)
125 KOG0925 mRNA splicing factor A 99.3 4.3E-12 9.3E-17 103.3 7.6 182 42-239 141-342 (699)
126 PRK12899 secA preprotein trans 99.3 4.4E-11 9.5E-16 105.7 13.6 95 145-241 551-655 (970)
127 KOG4150 Predicted ATP-dependen 99.2 2.7E-10 5.8E-15 94.8 10.1 212 32-247 379-620 (1034)
128 KOG0389 SNF2 family DNA-depend 99.2 1.5E-09 3.3E-14 93.3 14.7 97 146-242 761-861 (941)
129 KOG0392 SNF2 family DNA-depend 99.1 9.7E-10 2.1E-14 98.3 13.3 101 146-246 1310-1431(1549)
130 KOG1000 Chromatin remodeling p 99.1 1.2E-08 2.5E-13 83.8 18.0 87 160-246 492-580 (689)
131 PRK12326 preprotein translocas 99.1 1.6E-09 3.5E-14 93.7 13.7 97 143-241 408-521 (764)
132 KOG0953 Mitochondrial RNA heli 99.1 5.9E-10 1.3E-14 92.4 9.6 202 2-238 228-436 (700)
133 KOG0390 DNA repair protein, SN 99.1 2.9E-09 6.3E-14 92.9 14.2 66 181-246 616-684 (776)
134 KOG0384 Chromodomain-helicase 99.1 2.4E-09 5.3E-14 95.9 12.7 84 160-243 699-785 (1373)
135 PRK13103 secA preprotein trans 99.1 1E-09 2.2E-14 97.1 10.3 84 142-227 429-514 (913)
136 smart00487 DEXDc DEAD-like hel 99.0 3.6E-09 7.7E-14 79.4 9.4 122 2-125 67-191 (201)
137 TIGR02562 cas3_yersinia CRISPR 99.0 2.7E-09 5.8E-14 95.5 9.0 74 37-112 562-642 (1110)
138 TIGR01407 dinG_rel DnaQ family 98.9 2E-08 4.3E-13 91.4 14.2 91 150-242 665-760 (850)
139 PRK12903 secA preprotein trans 98.9 1.7E-08 3.7E-13 88.8 12.9 96 143-241 407-513 (925)
140 PRK12902 secA preprotein trans 98.9 2.2E-08 4.8E-13 88.4 12.6 84 142-227 419-506 (939)
141 CHL00122 secA preprotein trans 98.9 2.5E-08 5.4E-13 88.1 11.5 84 142-227 404-491 (870)
142 COG4889 Predicted helicase [Ge 98.8 2.8E-09 6.1E-14 92.8 3.4 85 162-246 462-564 (1518)
143 KOG2340 Uncharacterized conser 98.8 7.9E-09 1.7E-13 85.4 4.4 206 36-244 384-638 (698)
144 KOG0386 Chromatin remodeling c 98.7 1.4E-08 3E-13 89.6 5.7 88 160-247 726-816 (1157)
145 KOG0951 RNA helicase BRR2, DEA 98.7 1.6E-07 3.4E-12 85.0 11.8 221 4-236 1202-1455(1674)
146 cd00046 DEXDc DEAD-like helica 98.7 3.6E-08 7.8E-13 69.6 6.5 99 2-104 43-144 (144)
147 PRK08074 bifunctional ATP-depe 98.7 2.4E-07 5.1E-12 85.1 13.0 91 151-242 744-839 (928)
148 PRK11747 dinG ATP-dependent DN 98.5 3E-06 6.6E-11 75.6 14.7 85 149-239 525-616 (697)
149 TIGR00604 rad3 DNA repair heli 98.5 2.6E-06 5.6E-11 76.4 14.0 90 151-241 514-618 (705)
150 KOG4439 RNA polymerase II tran 98.5 7.7E-07 1.7E-11 76.3 8.9 83 160-242 746-831 (901)
151 TIGR00596 rad1 DNA repair prot 98.5 9.1E-07 2E-11 79.2 9.7 70 34-105 4-73 (814)
152 PF13307 Helicase_C_2: Helicas 98.5 5E-07 1.1E-11 66.2 6.3 85 152-239 2-92 (167)
153 COG1199 DinG Rad3-related DNA 98.4 3E-06 6.4E-11 75.6 12.1 89 147-239 467-559 (654)
154 PRK14873 primosome assembly pr 98.4 8.6E-06 1.9E-10 71.8 14.3 103 1-113 200-312 (665)
155 PRK07246 bifunctional ATP-depe 98.4 4.8E-06 1E-10 75.4 12.2 82 159-243 646-730 (820)
156 TIGR03117 cas_csf4 CRISPR-asso 98.3 2.3E-05 5E-10 68.5 13.9 91 148-241 459-563 (636)
157 KOG0391 SNF2 family DNA-depend 98.3 4.8E-06 1E-10 75.3 9.6 97 146-242 1260-1360(1958)
158 COG0553 HepA Superfamily II DN 98.2 1E-05 2.2E-10 74.5 9.8 101 146-246 692-799 (866)
159 PF04851 ResIII: Type III rest 98.2 2.3E-06 5.1E-11 63.4 4.3 65 34-105 108-183 (184)
160 PF07652 Flavi_DEAD: Flaviviru 98.1 7E-06 1.5E-10 57.4 6.0 71 35-108 70-140 (148)
161 PRK12901 secA preprotein trans 98.0 5.7E-05 1.2E-09 68.4 10.3 141 96-241 565-715 (1112)
162 PF02399 Herpes_ori_bp: Origin 98.0 0.00022 4.8E-09 63.2 12.8 181 37-229 121-345 (824)
163 KOG1015 Transcription regulato 97.9 3.8E-05 8.3E-10 68.4 6.7 100 146-245 1126-1253(1567)
164 KOG0388 SNF2 family DNA-depend 97.8 0.0001 2.3E-09 63.9 8.5 98 146-243 1028-1128(1185)
165 KOG0921 Dosage compensation co 97.7 6.6E-05 1.4E-09 66.6 5.6 78 160-237 643-727 (1282)
166 PF00176 SNF2_N: SNF2 family N 97.6 0.00047 1E-08 55.3 8.4 98 2-105 70-173 (299)
167 KOG1002 Nucleotide excision re 97.5 0.00042 9.1E-09 57.9 6.8 83 160-242 638-722 (791)
168 COG0610 Type I site-specific r 97.4 0.0036 7.8E-08 58.1 12.5 98 1-106 315-415 (962)
169 smart00492 HELICc3 helicase su 97.3 0.0012 2.6E-08 46.8 7.1 67 173-239 4-79 (141)
170 smart00491 HELICc2 helicase su 97.2 0.0012 2.6E-08 46.9 6.3 68 172-239 3-80 (142)
171 PRK10917 ATP-dependent DNA hel 97.2 0.0015 3.3E-08 58.6 8.3 75 160-234 310-389 (681)
172 COG1110 Reverse gyrase [DNA re 97.1 0.0019 4.1E-08 58.6 7.3 73 148-220 113-191 (1187)
173 PRK05580 primosome assembly pr 97.1 0.0076 1.7E-07 54.1 11.0 76 160-236 190-266 (679)
174 TIGR00643 recG ATP-dependent D 97.0 0.0032 6.9E-08 56.1 8.1 74 160-233 284-362 (630)
175 TIGR00595 priA primosomal prot 97.0 0.0062 1.3E-07 52.7 9.6 76 160-236 25-101 (505)
176 TIGR00580 mfd transcription-re 96.8 0.0057 1.2E-07 56.5 8.3 75 160-234 500-579 (926)
177 PRK14873 primosome assembly pr 96.8 0.01 2.2E-07 52.9 9.4 91 146-237 172-266 (665)
178 KOG0952 DNA/RNA helicase MER3/ 96.7 0.00062 1.3E-08 61.6 1.2 183 21-210 1004-1205(1230)
179 COG0653 SecA Preprotein transl 96.5 0.0051 1.1E-07 55.1 5.5 126 97-227 367-494 (822)
180 PF07517 SecA_DEAD: SecA DEAD- 96.5 0.0037 8E-08 49.1 4.1 73 1-74 130-210 (266)
181 PRK10689 transcription-repair 96.4 0.016 3.5E-07 54.9 8.4 75 160-234 649-728 (1147)
182 COG1200 RecG RecG-like helicas 96.3 0.044 9.6E-07 48.1 9.8 75 160-234 311-390 (677)
183 KOG0391 SNF2 family DNA-depend 96.2 0.0045 9.7E-08 57.1 3.2 90 5-104 680-775 (1958)
184 COG1198 PriA Primosomal protei 96.0 0.018 3.9E-07 51.5 6.3 90 145-235 228-320 (730)
185 PF14617 CMS1: U3-containing 9 95.9 0.012 2.5E-07 45.8 4.0 37 36-72 176-212 (252)
186 PRK14701 reverse gyrase; Provi 95.7 0.057 1.2E-06 53.0 8.6 60 160-219 122-187 (1638)
187 KOG1133 Helicase of the DEAD s 95.5 0.54 1.2E-05 41.7 12.7 93 145-240 611-721 (821)
188 COG1197 Mfd Transcription-repa 95.4 0.088 1.9E-06 49.1 8.4 75 160-234 643-722 (1139)
189 COG0513 SrmB Superfamily II DN 95.3 0.15 3.3E-06 44.3 9.3 68 163-234 102-180 (513)
190 TIGR03117 cas_csf4 CRISPR-asso 95.1 0.027 5.9E-07 49.8 4.1 41 35-75 180-220 (636)
191 TIGR01054 rgy reverse gyrase. 95.1 0.047 1E-06 52.0 5.9 60 160-219 121-187 (1171)
192 cd00268 DEADc DEAD-box helicas 95.1 0.27 5.9E-06 36.9 9.1 71 159-233 68-148 (203)
193 PF13872 AAA_34: P-loop contai 95.0 0.017 3.8E-07 45.8 2.3 73 37-111 136-227 (303)
194 TIGR00614 recQ_fam ATP-depende 94.6 0.17 3.8E-06 43.5 7.7 60 160-219 51-110 (470)
195 PRK11634 ATP-dependent RNA hel 94.4 0.29 6.2E-06 43.8 8.7 70 160-233 74-154 (629)
196 KOG1016 Predicted DNA helicase 94.3 0.12 2.7E-06 46.1 6.0 83 160-242 719-822 (1387)
197 PF06733 DEAD_2: DEAD_2; Inte 94.2 0.026 5.6E-07 41.6 1.6 43 34-76 116-160 (174)
198 PRK11776 ATP-dependent RNA hel 94.2 0.32 6.9E-06 41.8 8.4 70 161-234 73-153 (460)
199 KOG0338 ATP-dependent RNA heli 94.0 0.37 8E-06 41.2 7.9 71 160-234 252-333 (691)
200 TIGR01389 recQ ATP-dependent D 93.8 0.31 6.8E-06 43.3 7.8 60 160-219 53-112 (591)
201 KOG0347 RNA helicase [RNA proc 93.7 0.18 3.9E-06 43.4 5.7 53 163-219 266-322 (731)
202 PRK11192 ATP-dependent RNA hel 93.6 0.36 7.8E-06 41.1 7.6 70 160-233 73-152 (434)
203 PRK04537 ATP-dependent RNA hel 93.3 0.33 7.2E-06 42.9 7.0 69 161-233 85-164 (572)
204 smart00488 DEXDc2 DEAD-like he 93.0 0.082 1.8E-06 42.4 2.6 40 35-75 209-250 (289)
205 smart00489 DEXDc3 DEAD-like he 93.0 0.082 1.8E-06 42.4 2.6 40 35-75 209-250 (289)
206 KOG1002 Nucleotide excision re 92.8 0.24 5.2E-06 42.1 5.1 72 3-76 244-331 (791)
207 PRK04837 ATP-dependent RNA hel 92.7 0.68 1.5E-05 39.3 8.0 71 160-234 83-163 (423)
208 TIGR01407 dinG_rel DnaQ family 92.7 0.11 2.5E-06 48.1 3.5 42 34-75 413-454 (850)
209 PRK10590 ATP-dependent RNA hel 92.7 0.65 1.4E-05 39.9 7.8 70 161-234 76-155 (456)
210 PF10593 Z1: Z1 domain; Inter 92.5 0.14 3E-06 39.8 3.2 67 175-247 102-172 (239)
211 KOG1001 Helicase-like transcri 92.4 0.01 2.2E-07 52.7 -3.5 83 162-244 541-625 (674)
212 KOG0701 dsRNA-specific nucleas 92.3 0.039 8.5E-07 53.2 0.0 85 163-247 295-391 (1606)
213 PRK09401 reverse gyrase; Revie 92.0 0.59 1.3E-05 44.9 7.3 74 160-233 123-206 (1176)
214 KOG0330 ATP-dependent RNA heli 91.9 1.2 2.5E-05 36.9 7.8 83 147-233 116-209 (476)
215 PRK11057 ATP-dependent DNA hel 91.5 0.96 2.1E-05 40.4 7.7 59 160-218 65-123 (607)
216 PRK01297 ATP-dependent RNA hel 91.0 1.4 3E-05 38.1 8.1 70 161-233 163-242 (475)
217 PRK08074 bifunctional ATP-depe 91.0 0.26 5.6E-06 46.2 3.8 41 35-75 429-469 (928)
218 KOG0389 SNF2 family DNA-depend 90.8 1.9 4.2E-05 39.0 8.6 75 146-223 434-512 (941)
219 PLN03137 ATP-dependent DNA hel 90.7 1.3 2.8E-05 42.1 7.8 60 160-219 500-561 (1195)
220 TIGR00963 secA preprotein tran 90.5 1.5 3.2E-05 39.8 7.8 59 155-219 92-154 (745)
221 PRK07246 bifunctional ATP-depe 90.3 0.32 6.9E-06 44.9 3.7 40 35-75 411-450 (820)
222 PRK11747 dinG ATP-dependent DN 90.2 0.32 6.9E-06 44.1 3.6 42 35-76 217-261 (697)
223 PRK08727 hypothetical protein; 90.1 0.23 4.9E-06 38.5 2.3 71 36-106 68-138 (233)
224 PTZ00110 helicase; Provisional 90.1 1.2 2.6E-05 39.3 7.0 69 161-233 204-282 (545)
225 cd01524 RHOD_Pyr_redox Member 90.0 0.48 1E-05 30.4 3.5 36 160-195 51-86 (90)
226 KOG0339 ATP-dependent RNA heli 90.0 2 4.4E-05 36.9 7.7 69 162-234 298-376 (731)
227 PRK06893 DNA replication initi 89.7 0.24 5.2E-06 38.2 2.1 70 37-106 67-136 (229)
228 PF00270 DEAD: DEAD/DEAH box h 89.4 3 6.5E-05 30.0 7.7 71 159-233 43-124 (169)
229 PF13871 Helicase_C_4: Helicas 89.0 0.34 7.3E-06 38.4 2.5 47 201-247 52-106 (278)
230 PRK08084 DNA replication initi 88.6 0.39 8.5E-06 37.2 2.6 69 37-106 73-142 (235)
231 PRK05642 DNA replication initi 88.5 0.29 6.2E-06 38.0 1.8 70 36-106 72-141 (234)
232 KOG0331 ATP-dependent RNA heli 88.5 3.8 8.1E-05 35.6 8.4 71 160-234 165-245 (519)
233 KOG1001 Helicase-like transcri 88.5 0.82 1.8E-05 41.1 4.7 69 3-77 202-270 (674)
234 smart00450 RHOD Rhodanese Homo 88.4 1.1 2.4E-05 28.8 4.4 38 158-195 54-92 (100)
235 PF00308 Bac_DnaA: Bacterial d 88.3 0.12 2.5E-06 39.7 -0.5 73 36-108 63-144 (219)
236 COG0514 RecQ Superfamily II DN 88.3 1.6 3.5E-05 38.4 6.3 59 160-218 57-115 (590)
237 COG3973 Superfamily I DNA and 87.7 4.2 9.2E-05 35.9 8.2 77 146-238 641-717 (747)
238 KOG0388 SNF2 family DNA-depend 87.6 0.27 5.8E-06 43.7 1.2 91 8-105 632-734 (1185)
239 PRK12422 chromosomal replicati 87.3 0.69 1.5E-05 39.5 3.5 75 36-110 168-251 (445)
240 cd01523 RHOD_Lact_B Member of 87.3 0.76 1.6E-05 30.1 3.0 36 160-195 61-96 (100)
241 COG1199 DinG Rad3-related DNA 87.0 0.6 1.3E-05 42.1 3.1 41 36-76 193-235 (654)
242 COG1111 MPH1 ERCC4-like helica 86.9 3.7 8E-05 35.3 7.3 79 153-237 52-140 (542)
243 cd01529 4RHOD_Repeats Member o 86.7 1.3 2.9E-05 28.7 4.0 37 159-195 55-92 (96)
244 PF05707 Zot: Zonular occluden 86.5 0.94 2E-05 33.9 3.5 55 61-116 79-137 (193)
245 PRK12898 secA preprotein trans 86.3 4.4 9.6E-05 36.4 7.9 71 156-233 140-214 (656)
246 TIGR03817 DECH_helic helicase/ 85.8 3.4 7.3E-05 38.0 7.2 69 160-233 81-162 (742)
247 KOG3089 Predicted DEAD-box-con 85.7 1.2 2.5E-05 33.8 3.5 33 36-68 195-227 (271)
248 PF09848 DUF2075: Uncharacteri 85.6 0.88 1.9E-05 37.6 3.2 38 39-76 61-98 (352)
249 PRK13766 Hef nuclease; Provisi 85.5 5.7 0.00012 36.7 8.7 73 159-236 57-139 (773)
250 PF13086 AAA_11: AAA domain; P 85.4 0.34 7.4E-06 37.0 0.7 40 34-75 167-206 (236)
251 PRK13104 secA preprotein trans 85.3 4.8 0.0001 37.4 7.8 58 156-219 119-180 (896)
252 KOG0350 DEAD-box ATP-dependent 85.2 3.2 6.9E-05 35.7 6.2 73 162-234 217-301 (620)
253 cd00046 DEXDc DEAD-like helica 85.1 9.1 0.0002 25.9 8.0 57 159-219 29-88 (144)
254 PRK14087 dnaA chromosomal repl 84.8 0.64 1.4E-05 39.8 2.1 70 36-105 170-250 (450)
255 PF13173 AAA_14: AAA domain 84.7 0.96 2.1E-05 31.3 2.7 39 61-104 61-99 (128)
256 cd01518 RHOD_YceA Member of th 84.3 1.7 3.6E-05 28.5 3.6 37 159-195 60-97 (101)
257 cd01534 4RHOD_Repeat_3 Member 83.9 1.4 3E-05 28.6 3.0 36 160-195 56-91 (95)
258 PRK09751 putative ATP-dependen 83.8 5.6 0.00012 39.3 8.0 71 160-234 37-130 (1490)
259 TIGR00604 rad3 DNA repair heli 83.7 0.63 1.4E-05 42.4 1.7 39 36-75 194-234 (705)
260 PRK13103 secA preprotein trans 83.7 7.5 0.00016 36.2 8.3 72 148-226 111-186 (913)
261 PF13401 AAA_22: AAA domain; P 83.6 1.7 3.7E-05 29.8 3.6 36 63-103 89-124 (131)
262 KOG0329 ATP-dependent RNA heli 83.6 2.6 5.5E-05 32.9 4.6 69 162-234 112-191 (387)
263 COG2519 GCD14 tRNA(1-methylade 83.5 12 0.00026 29.3 8.3 50 133-184 163-212 (256)
264 KOG0343 RNA Helicase [RNA proc 83.3 3.1 6.6E-05 36.3 5.4 69 160-233 141-220 (758)
265 PRK14088 dnaA chromosomal repl 83.2 2.1 4.6E-05 36.6 4.6 75 37-111 160-244 (440)
266 cd06533 Glyco_transf_WecG_TagA 82.0 15 0.00033 26.9 8.2 69 147-216 34-105 (171)
267 cd01527 RHOD_YgaP Member of th 81.9 2.4 5.2E-05 27.6 3.6 36 160-195 54-90 (99)
268 cd01449 TST_Repeat_2 Thiosulfa 81.9 3.9 8.4E-05 27.5 4.8 36 160-195 78-114 (118)
269 TIGR00696 wecB_tagA_cpsF bacte 81.6 19 0.0004 26.6 8.5 54 161-214 49-104 (177)
270 PRK05728 DNA polymerase III su 81.5 13 0.00027 26.4 7.3 90 143-244 10-103 (142)
271 PF03808 Glyco_tran_WecB: Glyc 81.3 17 0.00036 26.6 8.2 69 147-216 36-107 (172)
272 cd01521 RHOD_PspE2 Member of t 81.1 2.4 5.1E-05 28.4 3.4 36 160-195 64-101 (110)
273 cd01533 4RHOD_Repeat_2 Member 81.0 3.7 8E-05 27.3 4.3 36 160-195 66-103 (109)
274 cd01526 RHOD_ThiF Member of th 81.0 1.6 3.5E-05 29.9 2.6 36 160-195 72-109 (122)
275 COG3421 Uncharacterized protei 80.7 13 0.00028 33.0 8.2 80 35-115 79-175 (812)
276 PF13604 AAA_30: AAA domain; P 80.7 3.7 8.1E-05 30.8 4.7 40 59-103 91-130 (196)
277 PRK09200 preprotein translocas 80.6 6.8 0.00015 36.1 6.9 58 155-218 114-176 (790)
278 PLN00206 DEAD-box ATP-dependen 80.0 8 0.00017 33.9 7.1 70 160-233 196-275 (518)
279 PRK06646 DNA polymerase III su 79.7 13 0.00028 26.8 6.9 82 143-237 10-93 (154)
280 COG2812 DnaX DNA polymerase II 79.7 1.5 3.3E-05 38.0 2.5 40 59-103 117-156 (515)
281 cd01080 NAD_bind_m-THF_DH_Cycl 79.6 21 0.00045 26.1 8.1 76 160-242 44-122 (168)
282 PRK12900 secA preprotein trans 79.3 1.1 2.4E-05 41.8 1.6 73 1-74 191-271 (1025)
283 cd00158 RHOD Rhodanese Homolog 79.3 3.6 7.7E-05 25.8 3.7 37 159-195 49-86 (89)
284 PF04364 DNA_pol3_chi: DNA pol 78.6 17 0.00037 25.6 7.1 80 148-238 15-96 (137)
285 cd01519 RHOD_HSP67B2 Member of 78.6 3.2 7E-05 27.3 3.4 36 160-195 66-102 (106)
286 PF12683 DUF3798: Protein of u 78.4 7.6 0.00016 30.6 5.7 90 147-242 47-144 (275)
287 PRK14086 dnaA chromosomal repl 77.8 1.8 3.9E-05 38.4 2.4 72 36-107 343-423 (617)
288 TIGR03420 DnaA_homol_Hda DnaA 77.8 2.7 5.9E-05 32.1 3.2 45 60-105 89-133 (226)
289 cd01525 RHOD_Kc Member of the 77.8 3.2 6.9E-05 27.3 3.2 36 160-195 65-101 (105)
290 KOG0346 RNA helicase [RNA proc 77.8 5 0.00011 34.0 4.7 62 160-225 93-165 (569)
291 PRK12904 preprotein translocas 77.6 12 0.00026 34.7 7.5 63 151-219 113-179 (830)
292 cd05212 NAD_bind_m-THF_DH_Cycl 77.3 20 0.00043 25.4 7.1 74 159-239 27-103 (140)
293 cd01444 GlpE_ST GlpE sulfurtra 77.3 3.8 8.2E-05 26.3 3.4 36 160-195 56-92 (96)
294 cd01528 RHOD_2 Member of the R 77.0 3.7 8.1E-05 26.8 3.3 37 160-196 58-95 (101)
295 PRK06835 DNA replication prote 76.9 3.7 8.1E-05 33.6 3.9 72 33-105 207-289 (329)
296 TIGR00362 DnaA chromosomal rep 76.8 1.5 3.3E-05 37.0 1.7 69 37-106 166-243 (405)
297 PF01488 Shikimate_DH: Shikima 76.7 19 0.00042 25.0 7.1 74 161-245 37-118 (135)
298 cd01532 4RHOD_Repeat_1 Member 76.6 4 8.7E-05 26.2 3.3 36 160-195 50-88 (92)
299 cd01520 RHOD_YbbB Member of th 76.6 2.8 6.1E-05 28.9 2.8 36 160-195 86-122 (128)
300 smart00115 CASc Caspase, inter 76.4 21 0.00047 27.7 7.9 62 160-223 8-84 (241)
301 PF12846 AAA_10: AAA-like doma 75.5 2.5 5.5E-05 33.6 2.6 42 60-101 219-260 (304)
302 KOG0340 ATP-dependent RNA heli 75.5 8.4 0.00018 31.7 5.3 55 160-218 75-133 (442)
303 cd01447 Polysulfide_ST Polysul 75.3 2.4 5.3E-05 27.7 2.1 36 160-195 61-97 (103)
304 PRK12899 secA preprotein trans 75.3 15 0.00032 34.6 7.4 54 160-219 135-192 (970)
305 PRK00149 dnaA chromosomal repl 75.2 2.1 4.5E-05 36.8 2.1 69 37-106 178-255 (450)
306 PHA03368 DNA packaging termina 75.2 2 4.3E-05 38.5 1.9 41 59-104 350-390 (738)
307 cd01448 TST_Repeat_1 Thiosulfa 74.9 6.2 0.00014 26.8 4.1 36 160-195 79-116 (122)
308 TIGR00631 uvrb excinuclease AB 74.8 17 0.00036 33.0 7.7 96 146-242 41-167 (655)
309 PHA03372 DNA packaging termina 74.8 7.2 0.00016 34.6 5.1 45 55-104 293-337 (668)
310 PF01751 Toprim: Toprim domain 74.6 5.3 0.00012 26.2 3.6 61 163-223 1-73 (100)
311 PRK14956 DNA polymerase III su 74.1 2.9 6.2E-05 36.1 2.6 39 60-103 120-158 (484)
312 PRK05320 rhodanese superfamily 73.6 6.7 0.00014 30.9 4.4 38 159-196 174-212 (257)
313 PRK02362 ski2-like helicase; P 73.5 6.2 0.00013 36.3 4.8 67 160-233 67-142 (737)
314 COG1205 Distinct helicase fami 73.2 15 0.00033 34.4 7.2 65 151-220 107-177 (851)
315 PRK13767 ATP-dependent helicas 72.9 20 0.00043 33.8 7.9 69 161-233 85-177 (876)
316 PTZ00424 helicase 45; Provisio 72.6 37 0.00081 28.5 9.0 70 160-233 96-175 (401)
317 smart00487 DEXDc DEAD-like hel 72.6 33 0.00072 24.8 8.0 54 160-217 54-112 (201)
318 KOG0345 ATP-dependent RNA heli 72.6 12 0.00027 32.0 5.8 70 162-234 81-163 (567)
319 PF12689 Acid_PPase: Acid Phos 71.9 37 0.00079 24.9 9.7 131 65-208 35-168 (169)
320 PRK12323 DNA polymerase III su 71.7 2.7 5.8E-05 37.7 2.0 39 59-102 122-162 (700)
321 TIGR02621 cas3_GSU0051 CRISPR- 71.4 11 0.00024 35.0 5.8 54 161-218 62-143 (844)
322 KOG0383 Predicted helicase [Ge 71.3 3.2 6.9E-05 37.4 2.3 76 147-223 616-696 (696)
323 PRK07003 DNA polymerase III su 71.3 3 6.5E-05 38.1 2.2 17 60-76 118-134 (830)
324 KOG0342 ATP-dependent RNA heli 71.3 13 0.00028 32.0 5.6 56 160-219 154-214 (543)
325 COG0426 FpaA Uncharacterized f 70.7 55 0.0012 27.5 9.1 81 143-226 229-314 (388)
326 cd00032 CASc Caspase, interleu 70.3 49 0.0011 25.7 8.8 48 160-208 9-68 (243)
327 PF05872 DUF853: Bacterial pro 70.1 4.3 9.3E-05 34.6 2.7 48 58-105 251-301 (502)
328 PRK06526 transposase; Provisio 69.9 2.7 5.9E-05 33.0 1.5 71 34-105 123-202 (254)
329 PRK04296 thymidine kinase; Pro 69.6 7.8 0.00017 28.9 3.8 29 42-73 62-90 (190)
330 PF09419 PGP_phosphatase: Mito 69.6 30 0.00066 25.3 6.7 60 146-209 63-130 (168)
331 cd03031 GRX_GRX_like Glutaredo 69.3 39 0.00084 24.1 7.2 46 162-207 1-53 (147)
332 cd00561 CobA_CobO_BtuR ATP:cor 69.1 5.8 0.00013 28.7 2.9 52 59-112 93-146 (159)
333 KOG0334 RNA helicase [RNA proc 69.0 16 0.00034 34.4 6.2 55 160-218 438-496 (997)
334 PRK03692 putative UDP-N-acetyl 68.9 54 0.0012 25.7 8.5 68 147-215 93-162 (243)
335 KOG0298 DEAD box-containing he 68.9 4.4 9.6E-05 38.8 2.8 102 4-112 434-558 (1394)
336 PHA00350 putative assembly pro 68.7 5.4 0.00012 33.6 3.0 52 63-115 83-155 (399)
337 PRK08903 DnaA regulatory inact 68.6 11 0.00024 28.8 4.7 65 36-106 69-133 (227)
338 COG0593 DnaA ATPase involved i 68.5 9.3 0.0002 32.3 4.4 73 36-109 142-223 (408)
339 KOG1513 Nuclear helicase MOP-3 68.3 4.9 0.00011 36.8 2.8 40 63-104 407-454 (1300)
340 cd01535 4RHOD_Repeat_4 Member 68.1 8.8 0.00019 27.2 3.7 36 160-195 49-85 (145)
341 PRK08116 hypothetical protein; 68.1 9.6 0.00021 30.3 4.2 71 36-106 141-223 (268)
342 smart00493 TOPRIM topoisomeras 67.9 25 0.00053 21.3 6.7 60 162-223 1-60 (76)
343 PF05621 TniB: Bacterial TniB 67.9 3 6.6E-05 33.5 1.4 16 60-75 144-159 (302)
344 PF13177 DNA_pol3_delta2: DNA 67.3 9.3 0.0002 27.7 3.8 68 36-106 66-144 (162)
345 PRK14958 DNA polymerase III su 66.6 4.3 9.3E-05 35.5 2.2 18 60-77 118-135 (509)
346 PRK10287 thiosulfate:cyanide s 66.5 21 0.00046 23.7 5.1 36 160-195 60-95 (104)
347 PRK15483 type III restriction- 66.4 4.1 8.9E-05 38.3 2.1 36 210-245 501-536 (986)
348 KOG1133 Helicase of the DEAD s 66.2 6.2 0.00013 35.4 3.0 40 36-75 322-362 (821)
349 PRK10310 PTS system galactitol 65.8 34 0.00074 22.2 6.0 64 162-232 4-73 (94)
350 PLN02955 8-amino-7-oxononanoat 65.7 32 0.00069 29.9 7.1 47 161-207 393-456 (476)
351 PRK06645 DNA polymerase III su 65.6 13 0.00029 32.5 4.9 17 59-75 126-142 (507)
352 KOG0348 ATP-dependent RNA heli 65.6 10 0.00022 33.1 4.1 71 160-234 211-293 (708)
353 TIGR00708 cobA cob(I)alamin ad 65.4 5.5 0.00012 29.3 2.2 52 59-112 95-148 (173)
354 PRK01415 hypothetical protein; 65.3 11 0.00025 29.4 4.1 38 159-196 170-208 (247)
355 KOG0989 Replication factor C, 65.3 4.2 9E-05 32.8 1.7 43 59-104 127-169 (346)
356 PF08704 GCD14: tRNA methyltra 65.1 12 0.00025 29.4 4.1 53 132-185 112-164 (247)
357 PRK07764 DNA polymerase III su 64.6 4.6 9.9E-05 37.5 2.1 40 59-101 118-157 (824)
358 PRK00254 ski2-like helicase; P 64.5 16 0.00036 33.5 5.6 67 160-233 68-143 (720)
359 PF11496 HDA2-3: Class II hist 64.3 34 0.00074 27.7 6.7 98 145-242 95-219 (297)
360 PLN02160 thiosulfate sulfurtra 64.2 9.3 0.0002 26.8 3.2 36 160-195 81-117 (136)
361 PHA00012 I assembly protein 64.1 17 0.00036 29.9 4.8 55 60-115 80-138 (361)
362 COG1204 Superfamily II helicas 64.1 25 0.00054 32.6 6.5 52 160-218 76-130 (766)
363 PRK05298 excinuclease ABC subu 63.9 39 0.00085 30.7 7.7 96 146-242 44-170 (652)
364 TIGR03714 secA2 accessory Sec 63.9 36 0.00079 31.4 7.4 60 154-219 105-173 (762)
365 COG4588 AcfC Accessory coloniz 63.7 43 0.00093 25.4 6.5 72 5-77 35-110 (252)
366 PRK14974 cell division protein 63.7 8.7 0.00019 31.6 3.3 55 60-115 221-275 (336)
367 KOG0335 ATP-dependent RNA heli 62.7 20 0.00043 30.9 5.2 69 161-233 153-231 (482)
368 PRK15327 type III secretion sy 62.7 95 0.0021 26.3 10.1 67 140-209 164-241 (393)
369 PRK07414 cob(I)yrinic acid a,c 62.6 7.5 0.00016 28.7 2.5 52 59-112 113-166 (178)
370 KOG1132 Helicase of the DEAD s 62.4 7 0.00015 36.0 2.7 42 32-74 217-260 (945)
371 PRK09860 putative alcohol dehy 62.4 56 0.0012 27.5 8.0 72 146-217 17-95 (383)
372 PRK00162 glpE thiosulfate sulf 62.0 11 0.00025 24.8 3.2 36 160-195 58-94 (108)
373 cd01522 RHOD_1 Member of the R 62.0 9.8 0.00021 25.7 2.9 36 160-195 64-100 (117)
374 COG0074 SucD Succinyl-CoA synt 61.9 82 0.0018 25.3 8.6 65 146-210 52-116 (293)
375 TIGR02981 phageshock_pspE phag 61.8 31 0.00068 22.7 5.2 36 160-195 58-93 (101)
376 PF02142 MGS: MGS-like domain 61.8 5.7 0.00012 25.8 1.6 44 177-220 23-70 (95)
377 TIGR02760 TraI_TIGR conjugativ 61.7 2.2E+02 0.0047 30.1 13.6 140 60-210 528-686 (1960)
378 PRK14964 DNA polymerase III su 61.7 11 0.00024 32.7 3.8 18 59-76 114-131 (491)
379 KOG1131 RNA polymerase II tran 61.5 1.2E+02 0.0025 26.9 9.8 81 160-241 530-625 (755)
380 cd01445 TST_Repeats Thiosulfat 61.4 22 0.00048 24.9 4.7 36 160-195 95-134 (138)
381 PF11019 DUF2608: Protein of u 61.3 71 0.0015 25.1 7.9 109 82-191 85-209 (252)
382 PRK07994 DNA polymerase III su 61.0 6.6 0.00014 35.4 2.3 17 60-76 118-134 (647)
383 KOG0341 DEAD-box protein abstr 60.8 14 0.00031 30.9 3.9 55 160-218 246-310 (610)
384 PRK09004 FMN-binding protein M 60.4 56 0.0012 23.2 6.6 55 163-227 5-63 (146)
385 PRK13889 conjugal transfer rel 60.4 18 0.00039 34.5 5.1 40 59-103 431-470 (988)
386 PRK05986 cob(I)alamin adenolsy 60.1 9.1 0.0002 28.6 2.6 52 59-112 113-166 (191)
387 TIGR03865 PQQ_CXXCW PQQ-depend 60.0 13 0.00028 26.9 3.4 37 159-195 115-153 (162)
388 PF15586 Imm47: Immunity prote 59.1 14 0.00031 25.1 3.2 51 35-90 42-92 (116)
389 PRK14949 DNA polymerase III su 58.7 8.5 0.00018 36.0 2.6 16 60-75 118-133 (944)
390 KOG1255 Succinyl-CoA synthetas 58.2 88 0.0019 24.5 8.0 68 148-215 84-151 (329)
391 COG1054 Predicted sulfurtransf 58.1 16 0.00036 29.2 3.8 82 113-194 121-207 (308)
392 PRK01172 ski2-like helicase; P 57.7 28 0.0006 31.8 5.8 67 160-233 65-140 (674)
393 PRK08181 transposase; Validate 57.6 12 0.00025 29.8 3.0 69 35-104 132-209 (269)
394 COG1922 WecG Teichoic acid bio 57.5 94 0.002 24.5 8.1 68 147-215 96-166 (253)
395 COG4098 comFA Superfamily II D 57.4 25 0.00054 29.1 4.7 69 3-77 319-389 (441)
396 PF02572 CobA_CobO_BtuR: ATP:c 57.3 9.6 0.00021 28.0 2.3 52 59-112 94-147 (172)
397 PHA00673 acetyltransferase dom 57.1 10 0.00022 27.3 2.3 54 60-115 86-139 (154)
398 PRK14952 DNA polymerase III su 57.1 23 0.0005 31.7 5.0 18 59-76 116-133 (584)
399 PRK05563 DNA polymerase III su 57.0 13 0.00029 32.9 3.5 18 59-76 117-134 (559)
400 KOG0351 ATP-dependent DNA heli 57.0 33 0.00072 32.5 6.1 57 162-218 306-364 (941)
401 KOG0336 ATP-dependent RNA heli 56.9 1.1E+02 0.0023 26.2 8.3 71 160-234 294-373 (629)
402 PRK00142 putative rhodanese-re 56.8 20 0.00043 29.3 4.2 38 159-196 170-208 (314)
403 PRK14960 DNA polymerase III su 56.8 8.3 0.00018 34.8 2.2 17 60-76 117-133 (702)
404 PRK07940 DNA polymerase III su 56.7 24 0.00052 29.8 4.8 41 36-76 83-132 (394)
405 PHA02558 uvsW UvsW helicase; P 56.3 51 0.0011 28.9 7.0 63 160-233 158-227 (501)
406 cd01530 Cdc25 Cdc25 phosphatas 55.3 13 0.00028 25.4 2.6 36 160-195 68-117 (121)
407 TIGR02768 TraA_Ti Ti-type conj 55.3 23 0.0005 32.7 4.8 38 59-101 437-474 (744)
408 PRK06827 phosphoribosylpyropho 55.2 44 0.00096 28.1 6.1 61 160-221 264-330 (382)
409 cd08172 GlyDH-like1 Glycerol d 55.2 1.1E+02 0.0023 25.3 8.4 29 168-196 60-88 (347)
410 KOG1132 Helicase of the DEAD s 55.1 1.9E+02 0.0041 27.4 12.4 80 160-240 561-657 (945)
411 PRK06620 hypothetical protein; 55.1 8.5 0.00019 29.4 1.8 42 60-106 84-125 (214)
412 PRK12901 secA preprotein trans 55.1 7.1 0.00015 36.9 1.6 73 1-74 222-303 (1112)
413 PRK12326 preprotein translocas 54.8 63 0.0014 29.8 7.2 77 148-231 107-187 (764)
414 PLN02723 3-mercaptopyruvate su 54.4 27 0.00059 28.5 4.7 46 150-195 256-305 (320)
415 PRK08451 DNA polymerase III su 54.2 12 0.00026 33.0 2.7 40 59-101 115-154 (535)
416 cd08191 HHD 6-hydroxyhexanoate 54.0 1.2E+02 0.0025 25.6 8.5 70 147-217 10-86 (386)
417 COG2247 LytB Putative cell wal 53.8 82 0.0018 25.7 7.0 56 151-207 68-123 (337)
418 cd08186 Fe-ADH8 Iron-containin 53.8 1.2E+02 0.0026 25.5 8.5 71 147-217 10-91 (383)
419 PRK00676 hemA glutamyl-tRNA re 53.7 71 0.0015 26.4 6.9 83 160-243 173-268 (338)
420 smart00851 MGS MGS-like domain 53.6 20 0.00043 22.9 3.1 42 177-219 23-64 (90)
421 PRK11493 sseA 3-mercaptopyruva 53.4 28 0.00062 27.7 4.6 36 160-195 231-267 (281)
422 PRK04132 replication factor C 53.3 21 0.00045 33.4 4.2 37 61-100 630-666 (846)
423 PRK14962 DNA polymerase III su 53.1 27 0.00058 30.4 4.6 17 59-75 115-131 (472)
424 COG2927 HolC DNA polymerase II 53.1 81 0.0017 22.4 7.3 78 150-238 17-96 (144)
425 PRK13826 Dtr system oriT relax 53.1 18 0.0004 34.8 3.9 41 58-103 465-505 (1102)
426 TIGR00678 holB DNA polymerase 52.8 12 0.00025 27.8 2.2 18 59-76 94-111 (188)
427 KOG0337 ATP-dependent RNA heli 52.8 61 0.0013 27.7 6.3 71 160-234 90-170 (529)
428 PRK12723 flagellar biosynthesi 52.4 22 0.00047 30.0 3.9 48 59-106 252-299 (388)
429 PF13685 Fe-ADH_2: Iron-contai 52.2 72 0.0016 25.1 6.5 42 149-190 8-52 (250)
430 PF02463 SMC_N: RecF/RecN/SMC 52.1 8.7 0.00019 29.2 1.5 42 60-103 157-198 (220)
431 COG1454 EutG Alcohol dehydroge 51.9 99 0.0021 26.0 7.5 72 146-217 15-93 (377)
432 PHA02544 44 clamp loader, smal 51.9 15 0.00033 29.7 2.9 40 60-101 99-138 (316)
433 PRK05707 DNA polymerase III su 51.8 29 0.00063 28.5 4.5 42 36-77 70-122 (328)
434 PRK04195 replication factor C 51.7 14 0.0003 32.2 2.7 41 61-102 98-138 (482)
435 PRK14951 DNA polymerase III su 51.6 17 0.00037 32.7 3.3 19 59-77 122-140 (618)
436 PRK14969 DNA polymerase III su 51.4 12 0.00027 32.9 2.4 18 59-76 117-134 (527)
437 PRK13107 preprotein translocas 51.4 65 0.0014 30.4 6.9 71 149-226 112-186 (908)
438 PF03853 YjeF_N: YjeF-related 51.4 83 0.0018 22.9 6.5 75 159-234 24-105 (169)
439 PF01637 Arch_ATPase: Archaeal 51.1 13 0.00027 28.2 2.2 42 63-104 120-165 (234)
440 COG0607 PspE Rhodanese-related 51.0 13 0.00028 24.4 2.0 36 160-195 61-97 (110)
441 PRK05723 flavodoxin; Provision 51.0 89 0.0019 22.3 6.5 56 164-227 5-64 (151)
442 PRK07471 DNA polymerase III su 50.9 34 0.00073 28.6 4.8 42 59-103 139-180 (365)
443 PF03969 AFG1_ATPase: AFG1-lik 50.8 6.9 0.00015 32.6 0.7 47 59-107 125-171 (362)
444 PF01695 IstB_IS21: IstB-like 50.4 14 0.00031 27.2 2.3 69 33-102 71-148 (178)
445 cd08194 Fe-ADH6 Iron-containin 50.3 1.5E+02 0.0032 24.8 8.6 71 147-217 10-87 (375)
446 PRK14965 DNA polymerase III su 50.3 12 0.00027 33.3 2.2 18 59-76 117-134 (576)
447 cd08182 HEPD Hydroxyethylphosp 50.2 1.4E+02 0.003 24.9 8.4 71 147-217 10-84 (367)
448 PRK07276 DNA polymerase III su 50.1 34 0.00073 27.6 4.5 65 36-103 70-143 (290)
449 TIGR02881 spore_V_K stage V sp 49.4 21 0.00046 28.1 3.3 13 63-75 107-119 (261)
450 PLN03025 replication factor C 49.4 17 0.00036 29.7 2.8 17 60-76 98-114 (319)
451 PRK09112 DNA polymerase III su 49.4 13 0.00029 30.8 2.2 40 59-101 139-178 (351)
452 PF00581 Rhodanese: Rhodanese- 49.2 15 0.00032 24.2 2.1 36 160-195 67-108 (113)
453 PF10657 RC-P840_PscD: Photosy 48.7 34 0.00073 23.3 3.5 51 187-237 51-107 (144)
454 PRK14953 DNA polymerase III su 48.5 20 0.00044 31.2 3.3 18 59-76 117-134 (486)
455 cd08176 LPO Lactadehyde:propan 48.5 1.4E+02 0.003 25.1 8.1 71 147-217 15-92 (377)
456 PRK08691 DNA polymerase III su 48.5 16 0.00034 33.3 2.6 17 59-75 117-133 (709)
457 PRK08105 flavodoxin; Provision 48.3 69 0.0015 22.8 5.5 46 170-223 16-62 (149)
458 PRK14961 DNA polymerase III su 48.1 13 0.00029 30.9 2.1 18 59-76 117-134 (363)
459 cd08190 HOT Hydroxyacid-oxoaci 48.1 1.6E+02 0.0034 25.1 8.5 71 147-217 10-87 (414)
460 PRK12906 secA preprotein trans 47.8 1.1E+02 0.0023 28.7 7.6 73 147-226 108-184 (796)
461 cd03030 GRX_SH3BGR Glutaredoxi 47.8 75 0.0016 20.6 6.2 38 170-207 16-53 (92)
462 KOG0385 Chromatin remodeling c 47.6 2E+02 0.0042 27.0 8.9 69 148-219 204-276 (971)
463 PRK12377 putative replication 47.2 23 0.00049 27.8 3.1 70 34-103 126-205 (248)
464 PRK09189 uroporphyrinogen-III 47.0 76 0.0017 24.5 6.0 58 160-218 118-178 (240)
465 COG1485 Predicted ATPase [Gene 46.9 8.3 0.00018 31.7 0.6 48 59-108 128-175 (367)
466 COG4087 Soluble P-type ATPase 46.7 74 0.0016 22.4 5.0 55 163-217 46-101 (152)
467 TIGR02746 TraC-F-type type-IV 46.6 9.8 0.00021 35.3 1.1 40 60-99 636-677 (797)
468 cd08185 Fe-ADH1 Iron-containin 46.5 1.7E+02 0.0037 24.5 8.4 70 147-217 13-90 (380)
469 PRK08058 DNA polymerase III su 46.4 40 0.00086 27.7 4.5 40 37-76 77-125 (329)
470 cd01446 DSP_MapKP N-terminal r 46.3 52 0.0011 22.6 4.5 37 159-195 74-122 (132)
471 PF02602 HEM4: Uroporphyrinoge 46.0 43 0.00093 25.5 4.5 68 150-219 106-177 (231)
472 PRK06871 DNA polymerase III su 45.9 39 0.00086 27.7 4.4 63 36-101 72-144 (325)
473 PRK14957 DNA polymerase III su 45.5 17 0.00037 32.1 2.4 18 59-76 117-134 (546)
474 PRK06964 DNA polymerase III su 45.3 44 0.00095 27.7 4.6 19 59-77 130-148 (342)
475 PF00004 AAA: ATPase family as 45.1 28 0.0006 23.5 3.0 15 62-76 59-73 (132)
476 KOG1803 DNA helicase [Replicat 45.0 16 0.00034 32.4 2.0 38 36-77 337-374 (649)
477 KOG1015 Transcription regulato 44.6 13 0.00027 35.1 1.4 96 3-104 741-859 (1567)
478 PHA02653 RNA helicase NPH-II; 44.5 1.1E+02 0.0024 28.0 7.3 69 160-234 222-297 (675)
479 PF00258 Flavodoxin_1: Flavodo 44.3 99 0.0021 21.4 5.8 51 168-223 9-59 (143)
480 PRK07399 DNA polymerase III su 43.5 59 0.0013 26.6 5.0 40 59-102 122-161 (314)
481 PRK07993 DNA polymerase III su 43.4 38 0.00083 27.9 4.0 64 36-102 72-146 (334)
482 cd01400 6PGL 6PGL: 6-Phosphogl 43.4 53 0.0011 25.1 4.5 29 43-71 33-62 (219)
483 cd01422 MGS Methylglyoxal synt 43.3 42 0.0009 22.7 3.5 48 168-219 32-79 (115)
484 TIGR00929 VirB4_CagE type IV s 43.1 12 0.00027 34.6 1.2 42 61-104 629-670 (785)
485 cd08193 HVD 5-hydroxyvalerate 42.9 2E+02 0.0043 24.1 8.3 71 147-217 13-90 (376)
486 cd01132 F1_ATPase_alpha F1 ATP 42.9 1.7E+02 0.0038 23.4 7.4 11 160-170 160-170 (274)
487 TIGR01198 pgl 6-phosphoglucono 42.8 54 0.0012 25.4 4.5 29 43-71 38-66 (233)
488 PF07517 SecA_DEAD: SecA DEAD- 42.7 1.7E+02 0.0037 23.3 8.3 66 147-218 105-174 (266)
489 cd01423 MGS_CPS_I_III Methylgl 42.5 36 0.00077 22.9 3.2 47 169-219 32-80 (116)
490 PRK04841 transcriptional regul 42.3 22 0.00048 33.5 2.8 42 63-106 123-164 (903)
491 PF04273 DUF442: Putative phos 42.3 73 0.0016 21.4 4.6 33 146-179 73-105 (110)
492 PF03354 Terminase_1: Phage Te 42.3 17 0.00038 31.5 1.9 16 61-76 123-138 (477)
493 PRK01189 V-type ATP synthase s 42.2 69 0.0015 21.3 4.3 49 167-215 28-76 (104)
494 PF04763 DUF562: Protein of un 42.1 1.2E+02 0.0026 21.3 7.4 73 154-227 9-94 (146)
495 PF11823 DUF3343: Protein of u 42.1 80 0.0017 19.2 5.6 50 162-211 3-64 (73)
496 COG0553 HepA Superfamily II DN 42.0 18 0.00038 33.8 2.1 72 3-76 403-487 (866)
497 cd08187 BDH Butanol dehydrogen 41.9 2.1E+02 0.0046 24.0 8.5 71 146-217 15-93 (382)
498 PRK05597 molybdopterin biosynt 41.9 34 0.00073 28.5 3.5 36 160-195 314-350 (355)
499 PRK09111 DNA polymerase III su 41.8 20 0.00043 32.1 2.2 18 59-76 130-147 (598)
500 cd08551 Fe-ADH iron-containing 41.8 2.1E+02 0.0045 23.9 8.7 71 147-217 10-87 (370)
No 1
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5e-48 Score=316.73 Aligned_cols=245 Identities=35% Similarity=0.512 Sum_probs=220.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.+..++...+ .+..+++||. .|...+.++.+|+|+||+++.++++.+.+.++++.++|+||||.|++.|
T Consensus 177 LA~QV~~~~~~~~~~~~-~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEADrMldmG 255 (519)
T KOG0331|consen 177 LAVQVQAEAREFGKSLR-LRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEADRMLDMG 255 (519)
T ss_pred HHHHHHHHHHHHcCCCC-ccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHHhhhccc
Confidence 79999999999999999 6666666666 6667788899999999999999999999999999999999999999999
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccc--cccccceeEEEEcCCchhHHHHHHHHH
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKN--TASESIKQKLVFAGSEEGKLLALRQSF 155 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~ 155 (248)
|...+..++.....+..|+++.|||+|...+.+...++.++..+.+.... ....++.+....+. ...|...+..++
T Consensus 256 -Fe~qI~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~~-~~~K~~~l~~lL 333 (519)
T KOG0331|consen 256 -FEPQIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVCD-ETAKLRKLGKLL 333 (519)
T ss_pred -cHHHHHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhcC-HHHHHHHHHHHH
Confidence 99999999999767777999999999999999999999999888877543 44556666666555 556777777766
Q ss_pred hcc---CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEE
Q 042003 156 AES---LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232 (248)
Q Consensus 156 ~~~---~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~V 232 (248)
... .++|+||||++++.|+++...|+..++++..+||+.++.+|..+++.|++|+..|||||+++++|+|+|++++|
T Consensus 334 ~~~~~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~dV~lV 413 (519)
T KOG0331|consen 334 EDISSDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVPDVDLV 413 (519)
T ss_pred HHHhccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCccccEE
Confidence 654 36799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeccCCCCcccceecC
Q 042003 233 INYDFPDSGAAYIHRI 248 (248)
Q Consensus 233 i~~~~p~~~~~~~qri 248 (248)
||||+|.++++|+||+
T Consensus 414 InydfP~~vEdYVHRi 429 (519)
T KOG0331|consen 414 INYDFPNNVEDYVHRI 429 (519)
T ss_pred EeCCCCCCHHHHHhhc
Confidence 9999999999999996
No 2
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-47 Score=287.26 Aligned_cols=245 Identities=31% Similarity=0.429 Sum_probs=232.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.+..++...+ ..++.+.||. +.-..+..+.+++.+||+++.++++++.+..+.++++|+|||+.+++.|
T Consensus 107 La~Qi~~vi~alg~~mn-vq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr~~L~tr~vkmlVLDEaDemL~kg 185 (400)
T KOG0328|consen 107 LAVQIQKVILALGDYMN-VQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRSLRTRAVKMLVLDEADEMLNKG 185 (400)
T ss_pred HHHHHHHHHHHhccccc-ceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHhccccccceeEEEeccHHHHHHhh
Confidence 68899999999999999 6777766666 4445566899999999999999999999999999999999999999998
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|..++..+.++ .++..|++++|||+|.+..+..+.++.+|+.+.+.+.+.+..+++++++.++.+++|.+.|.++...
T Consensus 186 -fk~Qiydiyr~-lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve~EewKfdtLcdLYd~ 263 (400)
T KOG0328|consen 186 -FKEQIYDIYRY-LPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVEKEEWKFDTLCDLYDT 263 (400)
T ss_pred -HHHHHHHHHHh-CCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeechhhhhHhHHHHHhhh
Confidence 99999999999 7889999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..-.+++|||||+..+..+.+.+++.++.|.-.||+|++++|..+++.|++|+.+||++|++.++|+|+|.+++|||||.
T Consensus 264 LtItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLitTDVwaRGiDv~qVslviNYDL 343 (400)
T KOG0328|consen 264 LTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLITTDVWARGIDVQQVSLVINYDL 343 (400)
T ss_pred hehheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEEechhhccCCcceeEEEEecCC
Confidence 87889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
|.+...|+|||
T Consensus 344 P~nre~YIHRI 354 (400)
T KOG0328|consen 344 PNNRELYIHRI 354 (400)
T ss_pred CccHHHHhhhh
Confidence 99999999997
No 3
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.5e-47 Score=297.57 Aligned_cols=245 Identities=29% Similarity=0.448 Sum_probs=228.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhc-CCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRR-KKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~-~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.++.++.+.|+..+.+++|.. .+...+.+.|+|+|+||++|++.+.+ +.+++..++++|+||||.+++..
T Consensus 141 LA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~LVlDEADrlLd~d 220 (476)
T KOG0330|consen 141 LAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFLVLDEADRLLDMD 220 (476)
T ss_pred HHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHHhhchHHhhhhhh
Confidence 7899999999999999955555555555 66777888999999999999999996 67889999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+..+++. .+...|++++|||++.....+.+.-..+|..+.........+.+++.++.++..+ |...|..+++.
T Consensus 221 -F~~~ld~ILk~-ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~k~-K~~yLV~ll~e 297 (476)
T KOG0330|consen 221 -FEEELDYILKV-IPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPGKD-KDTYLVYLLNE 297 (476)
T ss_pred -hHHHHHHHHHh-cCccceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEeccccc-cchhHHHHHHh
Confidence 99999999999 5688999999999999999999999999999999999999999999998887765 88889999998
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..++.+||||++...++.++-.|+..|+.+..+||.|++..|...++.|++|..+||+||+++++|+|+|.+++|||||.
T Consensus 298 ~~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~TDVaSRGLDip~Vd~VVNyDi 377 (476)
T KOG0330|consen 298 LAGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCTDVASRGLDIPHVDVVVNYDI 377 (476)
T ss_pred hcCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEecchhcccCCCCCceEEEecCC
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
|.+..+|+||+
T Consensus 378 P~~skDYIHRv 388 (476)
T KOG0330|consen 378 PTHSKDYIHRV 388 (476)
T ss_pred CCcHHHHHHHc
Confidence 99999999996
No 4
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.5e-46 Score=314.45 Aligned_cols=245 Identities=39% Similarity=0.552 Sum_probs=225.3
Q ss_pred CcchHHHHHHHhhcCC-CcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGN-KFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~-~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~ 76 (248)
||.|+++.++++++.. + ..+..++||. .+...+..+++|+|+||+++++++.++.+.+++++++|+||||.+++.
T Consensus 111 LA~Qi~~~~~~~~~~~~~-~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlDEADrmLd~ 189 (513)
T COG0513 111 LAVQIAEELRKLGKNLGG-LRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLDEADRMLDM 189 (513)
T ss_pred HHHHHHHHHHHHHhhcCC-ccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEeccHhhhhcC
Confidence 7899999999999998 6 4466666665 444556667999999999999999999999999999999999999999
Q ss_pred CcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccccc--ccccceeEEEEcCCchhHHHHHHHH
Q 042003 77 GNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNT--ASESIKQKLVFAGSEEGKLLALRQS 154 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~ 154 (248)
| |...+..+++.+. .+.|++++|||+|.....+.+.++.+|..+.+..... ....+.+.++.+...++|...|..+
T Consensus 190 G-f~~~i~~I~~~~p-~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~~~~k~~~L~~l 267 (513)
T COG0513 190 G-FIDDIEKILKALP-PDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVESEEEKLELLLKL 267 (513)
T ss_pred C-CHHHHHHHHHhCC-cccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCCHHHHHHHHHHH
Confidence 8 9999999999954 4899999999999999999999999998888775555 7888999999888877899999999
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN 234 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~ 234 (248)
++.....++||||+++..++.++..|+..|+++..+||+|++++|.++++.|++|+.+|||||+++++|||+|++++|||
T Consensus 268 l~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTDvaaRGiDi~~v~~Vin 347 (513)
T COG0513 268 LKDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATDVAARGLDIPDVSHVIN 347 (513)
T ss_pred HhcCCCCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEechhhccCCccccceeEE
Confidence 99887778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcccceecC
Q 042003 235 YDFPDSGAAYIHRI 248 (248)
Q Consensus 235 ~~~p~~~~~~~qri 248 (248)
||+|.++..|+|||
T Consensus 348 yD~p~~~e~yvHRi 361 (513)
T COG0513 348 YDLPLDPEDYVHRI 361 (513)
T ss_pred ccCCCCHHHheecc
Confidence 99999999999997
No 5
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=2.4e-45 Score=294.89 Aligned_cols=246 Identities=33% Similarity=0.520 Sum_probs=228.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||+|+++.-.+|++.+++.++.+++|.. ++.-.+..+|+|+|+||++|.+.+.+..+.++.+.++|+|||+.+.+.|
T Consensus 334 LaqqIeeEt~kf~~~lg~r~vsvigg~s~EEq~fqls~gceiviatPgrLid~Lenr~lvl~qctyvvldeadrmiDmg- 412 (673)
T KOG0333|consen 334 LAQQIEEETNKFGKPLGIRTVSVIGGLSFEEQGFQLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEADRMIDMG- 412 (673)
T ss_pred HHHHHHHHHHHhcccccceEEEEecccchhhhhhhhhccceeeecCchHHHHHHHHHHHHhccCceEeccchhhhhccc-
Confidence 6899999999999999977777777776 5555788999999999999999999999999999999999999999998
Q ss_pred ccccchhHhhhCCCcc------------------------ceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccc
Q 042003 79 LLKHIDPVVKACSNPS------------------------IVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESI 134 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~------------------------~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 (248)
|...+..++.++.+.+ .|.+++|||+|+....+++.|+.+|+.+.++....+.+.+
T Consensus 413 fE~dv~~iL~~mPssn~k~~tde~~~~~~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~rv 492 (673)
T KOG0333|consen 413 FEPDVQKILEQMPSSNAKPDTDEKEGEERVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPRV 492 (673)
T ss_pred ccHHHHHHHHhCCccccCCCccchhhHHHHHhhcccccceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccch
Confidence 9888888888765422 6899999999999999999999999999999999999999
Q ss_pred eeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEE
Q 042003 135 KQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVL 214 (248)
Q Consensus 135 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~il 214 (248)
.+.++.+...+ +...|.++++.....++|||+|+++.|+.+++.|.+.++++..+||+-++++|+..++.|++|..+|+
T Consensus 493 eQ~v~m~~ed~-k~kkL~eil~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIl 571 (673)
T KOG0333|consen 493 EQKVEMVSEDE-KRKKLIEILESNFDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDIL 571 (673)
T ss_pred heEEEEecchH-HHHHHHHHHHhCCCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCCEE
Confidence 88887777665 69999999999878899999999999999999999999999999999999999999999999999999
Q ss_pred EEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 215 IATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 215 v~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
|||+++++|||+|++++|||||++.|+.+|+|||
T Consensus 572 VaTDvAgRGIDIpnVSlVinydmaksieDYtHRI 605 (673)
T KOG0333|consen 572 VATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRI 605 (673)
T ss_pred EEecccccCCCCCccceeeecchhhhHHHHHHHh
Confidence 9999999999999999999999999999999997
No 6
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=3.9e-43 Score=293.74 Aligned_cols=245 Identities=33% Similarity=0.492 Sum_probs=212.7
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.++.+.+..+ ..+..++|+. .+...+..+++|+|+||+++.+++..+.+.+++++++|+||||++++++
T Consensus 95 La~Qi~~~~~~l~~~~~-~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~~v~~lViDEad~l~~~~ 173 (423)
T PRK04837 95 LAVQIHADAEPLAQATG-LKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLGAIQVVVLDEADRMFDLG 173 (423)
T ss_pred HHHHHHHHHHHHhccCC-ceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcccccccEEEEecHHHHhhcc
Confidence 68999999999999988 4555555554 3344556789999999999999999888899999999999999999988
Q ss_pred cccccchhHhhhCCC-ccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh
Q 042003 78 NLLKHIDPVVKACSN-PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA 156 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 156 (248)
|...+..++..+.. ...+.+++|||++.....+....+.++..+...........+.+.+.+. ....+...+..++.
T Consensus 174 -f~~~i~~i~~~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~~~-~~~~k~~~l~~ll~ 251 (423)
T PRK04837 174 -FIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELFYP-SNEEKMRLLQTLIE 251 (423)
T ss_pred -cHHHHHHHHHhCCCccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEEeC-CHHHHHHHHHHHHH
Confidence 88888888887544 3567789999999989888888888888877766655555666655544 44568888888888
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.....++||||+++..|+.+++.|+..++++..+||+|++++|..+++.|++|+.+|||||+++++|+|+|++++||+||
T Consensus 252 ~~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~~~vLVaTdv~~rGiDip~v~~VI~~d 331 (423)
T PRK04837 252 EEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGDLDILVATDVAARGLHIPAVTHVFNYD 331 (423)
T ss_pred hcCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCCCcEEEEechhhcCCCccccCEEEEeC
Confidence 77678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
+|.|+..|+||+
T Consensus 332 ~P~s~~~yiqR~ 343 (423)
T PRK04837 332 LPDDCEDYVHRI 343 (423)
T ss_pred CCCchhheEecc
Confidence 999999999996
No 7
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=1.1e-42 Score=293.99 Aligned_cols=244 Identities=29% Similarity=0.441 Sum_probs=214.0
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.++.+++......+..++|+. .+...+..+++|+|+||+++.+++.++.+.+++++++|+||||++++.+
T Consensus 84 La~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDEad~~l~~g 163 (460)
T PRK11776 84 LADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDEADRMLDMG 163 (460)
T ss_pred HHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEECHHHHhCcC
Confidence 6899999999998765335666667665 3334456789999999999999999988889999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+..++.. .+...|++++|||+++....+...++.++..+...... ....+.+.++.+... .+...+..++..
T Consensus 164 -~~~~l~~i~~~-~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~-~~~~i~~~~~~~~~~-~k~~~l~~ll~~ 239 (460)
T PRK11776 164 -FQDAIDAIIRQ-APARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTH-DLPAIEQRFYEVSPD-ERLPALQRLLLH 239 (460)
T ss_pred -cHHHHHHHHHh-CCcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCC-CCCCeeEEEEEeCcH-HHHHHHHHHHHh
Confidence 88889988888 56678999999999999999999999998887765544 344466666655554 488899999988
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..+.++||||++++.++.+++.|...++.+..+||+|++.+|+.+++.|++|+.++||||+++++|+|+|++++||+||+
T Consensus 240 ~~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~rGiDi~~v~~VI~~d~ 319 (460)
T PRK11776 240 HQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAARGLDIKALEAVINYEL 319 (460)
T ss_pred cCCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEecccccccchhcCCeEEEecC
Confidence 77789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
|.++..|+||+
T Consensus 320 p~~~~~yiqR~ 330 (460)
T PRK11776 320 ARDPEVHVHRI 330 (460)
T ss_pred CCCHhHhhhhc
Confidence 99999999996
No 8
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.3e-44 Score=271.33 Aligned_cols=243 Identities=28% Similarity=0.399 Sum_probs=221.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.|..+++..+ ..+....||. +....+....+++|+||++++++...+--.++++.++|+||||.+++..
T Consensus 165 lALQtSqvc~~lskh~~-i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEADKlLs~~ 243 (459)
T KOG0326|consen 165 LALQTSQVCKELSKHLG-IKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEADKLLSVD 243 (459)
T ss_pred hhHHHHHHHHHHhcccC-eEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhcccccchhceEEEechhhhhhchh
Confidence 78999999999999999 7777777777 3333355678999999999999999998889999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+..++.. .+.+.|+++.|||+|-........++.+|+.+... ++....++.+++.++... +|...|..++.+
T Consensus 244 -F~~~~e~li~~-lP~~rQillySATFP~tVk~Fm~~~l~kPy~INLM-~eLtl~GvtQyYafV~e~-qKvhCLntLfsk 319 (459)
T KOG0326|consen 244 -FQPIVEKLISF-LPKERQILLYSATFPLTVKGFMDRHLKKPYEINLM-EELTLKGVTQYYAFVEER-QKVHCLNTLFSK 319 (459)
T ss_pred -hhhHHHHHHHh-CCccceeeEEecccchhHHHHHHHhccCcceeehh-hhhhhcchhhheeeechh-hhhhhHHHHHHH
Confidence 99999999998 78899999999999999999999999999887554 455667888888777654 588999999998
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..-++.+|||||...++.+++.+.+.|++|.++|+.|.+++|..+++.|++|.++.||||+.+.+|||++.+++||+||+
T Consensus 320 LqINQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGIDiqavNvVINFDf 399 (459)
T KOG0326|consen 320 LQINQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGIDIQAVNVVINFDF 399 (459)
T ss_pred hcccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhcccccceeeEEEecCC
Confidence 88889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
|++..+|+|||
T Consensus 400 pk~aEtYLHRI 410 (459)
T KOG0326|consen 400 PKNAETYLHRI 410 (459)
T ss_pred CCCHHHHHHHc
Confidence 99999999997
No 9
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=2.2e-42 Score=290.44 Aligned_cols=245 Identities=31% Similarity=0.449 Sum_probs=216.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.++.+++..+ ..+..+.|+. .+.....++++|+|+||++|.+.+..+.+.++++++||+||||++++++
T Consensus 85 La~Q~~~~~~~l~~~~~-~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lViDEah~~l~~~ 163 (434)
T PRK11192 85 LAMQVADQARELAKHTH-LDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLILDEADRMLDMG 163 (434)
T ss_pred HHHHHHHHHHHHHccCC-cEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEEEECHHHHhCCC
Confidence 68999999999999988 5566666655 3444566789999999999999999988889999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCc-hHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPD-FVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA 156 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 156 (248)
|...+..+... .+...|++++|||++. ....+...++.++..+...........+.+.+......+.+...+..+++
T Consensus 164 -~~~~~~~i~~~-~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~~~~~k~~~l~~l~~ 241 (434)
T PRK11192 164 -FAQDIETIAAE-TRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYRADDLEHKTALLCHLLK 241 (434)
T ss_pred -cHHHHHHHHHh-CccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEEeCCHHHHHHHHHHHHh
Confidence 88888888776 4567899999999985 47777888888888887776666666777777777777889999999998
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.....++||||++++.++.+++.|+..++.+..+||+|++++|..+++.|++|+.+|||||+++++|+|+|++++||+||
T Consensus 242 ~~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaTd~~~~GiDip~v~~VI~~d 321 (434)
T PRK11192 242 QPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVATDVAARGIDIDDVSHVINFD 321 (434)
T ss_pred cCCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEccccccCccCCCCCEEEEEC
Confidence 76678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
+|.|...|+||+
T Consensus 322 ~p~s~~~yiqr~ 333 (434)
T PRK11192 322 MPRSADTYLHRI 333 (434)
T ss_pred CCCCHHHHhhcc
Confidence 999999999996
No 10
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=2.1e-42 Score=291.33 Aligned_cols=245 Identities=33% Similarity=0.502 Sum_probs=210.2
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|+.+.++.+.+..++....+++|.. .+...+.++++|+|+||++|++++....+.+++++++|+||||++++++
T Consensus 87 La~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~lViDEah~ll~~~- 165 (456)
T PRK10590 87 LAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEILVLDEADRMLDMG- 165 (456)
T ss_pred HHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCCcccccceEEEeecHHHHhccc-
Confidence 6899999999999988844444444433 3334456789999999999999999888889999999999999999988
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES 158 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 158 (248)
|...+..++.. .+...|++++|||+++....+..+++.++..+...........+.+.+.... ...+...+..++...
T Consensus 166 ~~~~i~~il~~-l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~-~~~k~~~l~~l~~~~ 243 (456)
T PRK10590 166 FIHDIRRVLAK-LPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFVD-KKRKRELLSQMIGKG 243 (456)
T ss_pred cHHHHHHHHHh-CCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEcC-HHHHHHHHHHHHHcC
Confidence 88888888877 4567899999999999889999999889888777666655566666665444 445667777777776
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
...++||||+++..++.+++.|++.++.+..+||+|++++|..+++.|++|+.+|||||+++++|+|+|++++||+|++|
T Consensus 244 ~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaTdv~~rGiDip~v~~VI~~~~P 323 (456)
T PRK10590 244 NWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVATDIAARGLDIEELPHVVNYELP 323 (456)
T ss_pred CCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEccHHhcCCCcccCCEEEEeCCC
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccceecC
Q 042003 239 DSGAAYIHRI 248 (248)
Q Consensus 239 ~~~~~~~qri 248 (248)
.++.+|+||+
T Consensus 324 ~~~~~yvqR~ 333 (456)
T PRK10590 324 NVPEDYVHRI 333 (456)
T ss_pred CCHHHhhhhc
Confidence 9999999996
No 11
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=1.3e-42 Score=296.86 Aligned_cols=244 Identities=36% Similarity=0.518 Sum_probs=207.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.+++++...+ ..+.+++|+. .+...+..+++|+|+||++|.+++..+...+++++++|+||||++++++
T Consensus 215 La~Qi~~~~~~~~~~~~-i~~~~~~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l~~v~~lViDEAd~mld~g 293 (545)
T PTZ00110 215 LAEQIREQCNKFGASSK-IRNTVAYGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNLRRVTYLVLDEADRMLDMG 293 (545)
T ss_pred HHHHHHHHHHHHhcccC-ccEEEEeCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCChhhCcEEEeehHHhhhhcc
Confidence 78999999999999888 4455555554 3334456789999999999999999888889999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcC-CcEEEEEcccc-cccccceeEEEEcCCchhHHHHHHHHH
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMH-DAVRVIVGRKN-TASESIKQKLVFAGSEEGKLLALRQSF 155 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~~ 155 (248)
|...+..++.. ..+..|++++|||+|.....+...++. ++..+...... .....+.+.+..+. ...|...+..++
T Consensus 294 -f~~~i~~il~~-~~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~~~~~-~~~k~~~L~~ll 370 (545)
T PTZ00110 294 -FEPQIRKIVSQ-IRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEVFVVE-EHEKRGKLKMLL 370 (545)
T ss_pred -hHHHHHHHHHh-CCCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEEEEEe-chhHHHHHHHHH
Confidence 88889999887 456789999999999999999888775 46666555433 23345556655444 345677777777
Q ss_pred hcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE
Q 042003 156 AES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI 233 (248)
Q Consensus 156 ~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi 233 (248)
... .+.++||||++++.|+.+++.|+..++.+..+||++++++|..+++.|++|+.+|||||+++++|+|+|++++||
T Consensus 371 ~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~~~ILVaTdv~~rGIDi~~v~~VI 450 (545)
T PTZ00110 371 QRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGKSPIMIATDVASRGLDVKDVKYVI 450 (545)
T ss_pred HHhcccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCCCcEEEEcchhhcCCCcccCCEEE
Confidence 654 367999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCcccceecC
Q 042003 234 NYDFPDSGAAYIHRI 248 (248)
Q Consensus 234 ~~~~p~~~~~~~qri 248 (248)
+||+|.++.+|+||+
T Consensus 451 ~~d~P~s~~~yvqRi 465 (545)
T PTZ00110 451 NFDFPNQIEDYVHRI 465 (545)
T ss_pred EeCCCCCHHHHHHHh
Confidence 999999999999996
No 12
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=2.8e-42 Score=295.76 Aligned_cols=245 Identities=31% Similarity=0.478 Sum_probs=211.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcC-CcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRK-KIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~-~~~~~~~~~lIiDEah~~~~~ 76 (248)
||.|+++.+++++...+ ..+..++|+. .+...+..+++|+|+||++|++++.+. .+.+++++++|+||||+++++
T Consensus 96 La~Qi~~~~~~l~~~~~-i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v~~lViDEAh~lld~ 174 (572)
T PRK04537 96 LAIQIHKDAVKFGADLG-LRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHACEICVLDEADRMFDL 174 (572)
T ss_pred HHHHHHHHHHHHhccCC-ceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhccccchhheeeeEecCHHHHhhc
Confidence 68999999999999988 5566666655 334456668999999999999999775 467899999999999999998
Q ss_pred CcccccchhHhhhCCC-ccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHH
Q 042003 77 GNLLKHIDPVVKACSN-PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSF 155 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 155 (248)
+ |...+..+++.+.. ...|++++|||++.....+...++.++..+...........+.+.+... ....+...+..++
T Consensus 175 g-f~~~i~~il~~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~-~~~~k~~~L~~ll 252 (572)
T PRK04537 175 G-FIKDIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFP-ADEEKQTLLLGLL 252 (572)
T ss_pred c-hHHHHHHHHHhcccccCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEec-CHHHHHHHHHHHH
Confidence 8 88888888887543 3679999999999988898888888887776655555555566665544 4556888888888
Q ss_pred hccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEec
Q 042003 156 AESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235 (248)
Q Consensus 156 ~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~ 235 (248)
....+.++||||+++..++.+++.|.+.++.+..+||+|++.+|+.+++.|++|+.+|||||+++++|||+|++++||+|
T Consensus 253 ~~~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~VLVaTdv~arGIDip~V~~VIny 332 (572)
T PRK04537 253 SRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLEILVATDVAARGLHIDGVKYVYNY 332 (572)
T ss_pred hcccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCeEEEEehhhhcCCCccCCCEEEEc
Confidence 88778899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcccceecC
Q 042003 236 DFPDSGAAYIHRI 248 (248)
Q Consensus 236 ~~p~~~~~~~qri 248 (248)
|+|.+..+|+||+
T Consensus 333 d~P~s~~~yvqRi 345 (572)
T PRK04537 333 DLPFDAEDYVHRI 345 (572)
T ss_pred CCCCCHHHHhhhh
Confidence 9999999999996
No 13
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=1.4e-41 Score=289.57 Aligned_cols=244 Identities=29% Similarity=0.443 Sum_probs=208.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|+++.++.+++..++..+..++|.. .+...+..+++|+|+||++|.+++.++...+++++++|+||||++++++
T Consensus 208 La~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~l~~v~~lViDEad~ml~~g- 286 (518)
T PLN00206 208 LCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIELDNVSVLVLDEVDCMLERG- 286 (518)
T ss_pred HHHHHHHHHHHHhCCCCceEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCCccchheeEEEeecHHHHhhcc-
Confidence 6889999999999998854444444443 3333456689999999999999999988889999999999999999988
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES 158 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 158 (248)
|...+..++..+ +..|++++|||+++....+...+..++..+...........+.+...++... .+...+.+++...
T Consensus 287 f~~~i~~i~~~l--~~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~~~~~~-~k~~~l~~~l~~~ 363 (518)
T PLN00206 287 FRDQVMQIFQAL--SQPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVETK-QKKQKLFDILKSK 363 (518)
T ss_pred hHHHHHHHHHhC--CCCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEEeccch-hHHHHHHHHHHhh
Confidence 888888887764 3579999999999999999999988888888777666666677777666554 4566677776643
Q ss_pred C--CCCEEEEecchHHHHHHHHHhhc-CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEec
Q 042003 159 L--NPPVLIFVQSKERAKELYGELAF-DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINY 235 (248)
Q Consensus 159 ~--~~~~liF~~~~~~~~~l~~~L~~-~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~ 235 (248)
. ..++||||+++..++.+++.|.. .++++..+||+|++++|..+++.|++|+.+|||||+++++|+|+|++++||+|
T Consensus 364 ~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~~~ILVaTdvl~rGiDip~v~~VI~~ 443 (518)
T PLN00206 364 QHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGEVPVIVATGVLGRGVDLLRVRQVIIF 443 (518)
T ss_pred cccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCCCCEEEEecHhhccCCcccCCEEEEe
Confidence 2 46899999999999999999975 58899999999999999999999999999999999999999999999999999
Q ss_pred cCCCCcccceecC
Q 042003 236 DFPDSGAAYIHRI 248 (248)
Q Consensus 236 ~~p~~~~~~~qri 248 (248)
|+|.++.+|+||+
T Consensus 444 d~P~s~~~yihRi 456 (518)
T PLN00206 444 DMPNTIKEYIHQI 456 (518)
T ss_pred CCCCCHHHHHHhc
Confidence 9999999999996
No 14
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=1.4e-41 Score=293.23 Aligned_cols=245 Identities=27% Similarity=0.402 Sum_probs=212.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.+.++.+...-..+..++|+. .+...+..+++|+|+||+++.+++.++.+.+++++++|+||||.+++.+
T Consensus 86 La~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd~ml~~g 165 (629)
T PRK11634 86 LAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEADEMLRMG 165 (629)
T ss_pred HHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHHHHhhcc
Confidence 6899999999998776324455555554 3334456789999999999999999988899999999999999999988
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+..++.. .+...|++++|||+|+....+...++.++..+.+.......+.+.+.++.+. ...|...+..++..
T Consensus 166 -f~~di~~Il~~-lp~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v~-~~~k~~~L~~~L~~ 242 (629)
T PRK11634 166 -FIEDVETIMAQ-IPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTVW-GMRKNEALVRFLEA 242 (629)
T ss_pred -cHHHHHHHHHh-CCCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEec-hhhHHHHHHHHHHh
Confidence 88888888887 5667899999999999999999999999988877666655566666665444 34578888888887
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
....++||||+++..++.+++.|...++.+..+||+|++.+|+.+++.|++|+.+|||||+++++|+|+|++++||+||+
T Consensus 243 ~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arGIDip~V~~VI~~d~ 322 (629)
T PRK11634 243 EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARGLDVERISLVVNYDI 322 (629)
T ss_pred cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcCCCcccCCEEEEeCC
Confidence 76789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
|.+..+|+||+
T Consensus 323 P~~~e~yvqRi 333 (629)
T PRK11634 323 PMDSESYVHRI 333 (629)
T ss_pred CCCHHHHHHHh
Confidence 99999999995
No 15
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.1e-43 Score=280.76 Aligned_cols=245 Identities=31% Similarity=0.482 Sum_probs=222.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcC-CcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRK-KIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~-~~~~~~~~~lIiDEah~~~~~ 76 (248)
||.|++...++++.... +.++++.||. .|+..+..+|||+|+||++|.+++.+. .+.++++.++|+|||+++++.
T Consensus 264 LaiQv~sV~~qlaqFt~-I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEADRMLee 342 (691)
T KOG0338|consen 264 LAIQVHSVTKQLAQFTD-ITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEADRMLEE 342 (691)
T ss_pred HHHHHHHHHHHHHhhcc-ceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHHHHHHH
Confidence 68999999999999999 6666666666 777889999999999999999999985 678999999999999999999
Q ss_pred CcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCC--chhHHHHHHHH
Q 042003 77 GNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS--EEGKLLALRQS 154 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~~~ 154 (248)
+ |...+.++.+.| +.+.|.+++|||++....+++.--+.+|+.+.+.......+.+.+.++.... .-.+-..+..+
T Consensus 343 g-FademnEii~lc-pk~RQTmLFSATMteeVkdL~slSL~kPvrifvd~~~~~a~~LtQEFiRIR~~re~dRea~l~~l 420 (691)
T KOG0338|consen 343 G-FADEMNEIIRLC-PKNRQTMLFSATMTEEVKDLASLSLNKPVRIFVDPNKDTAPKLTQEFIRIRPKREGDREAMLASL 420 (691)
T ss_pred H-HHHHHHHHHHhc-cccccceeehhhhHHHHHHHHHhhcCCCeEEEeCCccccchhhhHHHheeccccccccHHHHHHH
Confidence 9 999999999995 5688999999999999999999999999999999988888888777765543 33456677777
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN 234 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~ 234 (248)
+......+++||+.|+++|.++.-.|.-.|.+++.+||.+++++|.+.++.|+++++++||||+++++|+||+++..|||
T Consensus 421 ~~rtf~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI~gV~tVIN 500 (691)
T KOG0338|consen 421 ITRTFQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDIEGVQTVIN 500 (691)
T ss_pred HHHhcccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCccceeEEEe
Confidence 77776789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCcccceecC
Q 042003 235 YDFPDSGAAYIHRI 248 (248)
Q Consensus 235 ~~~p~~~~~~~qri 248 (248)
|.+|.+...|+|||
T Consensus 501 y~mP~t~e~Y~HRV 514 (691)
T KOG0338|consen 501 YAMPKTIEHYLHRV 514 (691)
T ss_pred ccCchhHHHHHHHh
Confidence 99999999999997
No 16
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=1.3e-40 Score=282.06 Aligned_cols=246 Identities=30% Similarity=0.482 Sum_probs=209.2
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||+|+++.++.+.+..++......+|.. .........++|+|+||++|..+..+....+++++++||||||.+.+.+
T Consensus 174 La~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah~l~~~~ 253 (475)
T PRK01297 174 LVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEADRMLDMG 253 (475)
T ss_pred HHHHHHHHHHHhhccCCCEEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHHHHHhcc
Confidence 6899999999999988844444444433 2223345578999999999999988888889999999999999999887
Q ss_pred cccccchhHhhhCCC-ccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh
Q 042003 78 NLLKHIDPVVKACSN-PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA 156 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 156 (248)
|...+..+++.+.. ...|++++|||++.....+...+..++..+...........+.+.+.... ..++...+..++.
T Consensus 254 -~~~~l~~i~~~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~-~~~k~~~l~~ll~ 331 (475)
T PRK01297 254 -FIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVA-GSDKYKLLYNLVT 331 (475)
T ss_pred -cHHHHHHHHHhCCCCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEec-chhHHHHHHHHHH
Confidence 88888888887543 35799999999999889999988888887776666555555666655444 3457788888888
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.....++||||+++++++.+++.|...++.+..+||+++.++|.++++.|++|+.++||||+++++|+|+|++++||+||
T Consensus 332 ~~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GIDi~~v~~VI~~~ 411 (475)
T PRK01297 332 QNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIHIDGISHVINFT 411 (475)
T ss_pred hcCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCcccCCCEEEEeC
Confidence 77678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
+|.|..+|+||+
T Consensus 412 ~P~s~~~y~Qr~ 423 (475)
T PRK01297 412 LPEDPDDYVHRI 423 (475)
T ss_pred CCCCHHHHHHhh
Confidence 999999999995
No 17
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=2.8e-40 Score=275.52 Aligned_cols=246 Identities=30% Similarity=0.452 Sum_probs=210.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|+++.++.++...+.....+.+|.. ........+++|+|+||+++.+++.++...+++++++|+||||++.+++
T Consensus 108 L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvViDEah~~~~~~- 186 (401)
T PTZ00424 108 LAQQIQKVVLALGDYLKVRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFILDEADEMLSRG- 186 (401)
T ss_pred HHHHHHHHHHHHhhhcCceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEEecHHHHHhcc-
Confidence 6889999999998877744333333333 3333455678999999999999999888889999999999999999887
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES 158 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 158 (248)
+...+..+++. .+...|++++|||+++....+...++.++..+..........++.+.+......+.+...+..+++..
T Consensus 187 ~~~~~~~i~~~-~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 265 (401)
T PTZ00424 187 FKGQIYDVFKK-LPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVEKEEWKFDTLCDLYETL 265 (401)
T ss_pred hHHHHHHHHhh-CCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecChHHHHHHHHHHHHHhc
Confidence 77777777776 45678999999999998888888888888777666655556667777777766667778888888776
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
...+++|||++++.++.+++.|+..++++..+||+|++++|+.+++.|++|+.+|||||+++++|+|+|++++||++|+|
T Consensus 266 ~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~l~~GiDip~v~~VI~~~~p 345 (401)
T PTZ00424 266 TITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDLLARGIDVQQVSLVINYDLP 345 (401)
T ss_pred CCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEcccccCCcCcccCCEEEEECCC
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcccceecC
Q 042003 239 DSGAAYIHRI 248 (248)
Q Consensus 239 ~~~~~~~qri 248 (248)
.|...|+||+
T Consensus 346 ~s~~~y~qr~ 355 (401)
T PTZ00424 346 ASPENYIHRI 355 (401)
T ss_pred CCHHHEeecc
Confidence 9999999996
No 18
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7e-41 Score=270.59 Aligned_cols=246 Identities=37% Similarity=0.517 Sum_probs=217.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.++++.-... ......||+. .+......+|+|+|+||++|.+++..+.+.+++++++|+|||+++++.-
T Consensus 164 L~~Qi~nea~k~~~~s~-~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k~~vLDEADrMlD~m 242 (482)
T KOG0335|consen 164 LVDQIYNEARKFSYLSG-MKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDLIERGKISLDNCKFLVLDEADRMLDEM 242 (482)
T ss_pred HhhHHHHHHHhhccccc-ceeeeeeCCcchhhhhhhhccCccEEEecCchhhhhhhcceeehhhCcEEEecchHHhhhhc
Confidence 78999999999999988 5555566665 5556677899999999999999999999999999999999999999943
Q ss_pred cccccchhHhhhCCC---ccceeEEEEeecCchHHHHHHHhcCC-cEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 78 NLLKHIDPVVKACSN---PSIVRSLFSATLPDFVEELARSIMHD-AVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~---~~~~~i~~SAT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
.|...+.++...... ...|.+++|||+|.....+...+..+ -..+.+.+-.....++.+.+.++...+ |.+.|.+
T Consensus 243 gF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~rvg~~~~ni~q~i~~V~~~~-kr~~Lld 321 (482)
T KOG0335|consen 243 GFEPQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGRVGSTSENITQKILFVNEME-KRSKLLD 321 (482)
T ss_pred cccccHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEEeeeccccccceeEeeeecchh-hHHHHHH
Confidence 499999999887544 47899999999999999988887776 456777888888899999998888876 6666666
Q ss_pred HHhccC----CC-----CEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC
Q 042003 154 SFAESL----NP-----PVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM 224 (248)
Q Consensus 154 ~~~~~~----~~-----~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi 224 (248)
++.... .. +++|||++++.|..++..|...++++..+||..++.+|.+.++.|++|+..+||||+++++|+
T Consensus 322 ll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGl 401 (482)
T KOG0335|consen 322 LLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGKAPVLVATNVAARGL 401 (482)
T ss_pred HhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCCcceEEEehhhhcCC
Confidence 665332 22 899999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcEEEeccCCCCcccceecC
Q 042003 225 DFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 225 dip~~~~Vi~~~~p~~~~~~~qri 248 (248)
|+|+++|||+||+|.+..+|+|||
T Consensus 402 Di~~V~hVInyDmP~d~d~YvHRI 425 (482)
T KOG0335|consen 402 DIPNVKHVINYDMPADIDDYVHRI 425 (482)
T ss_pred CCCCCceeEEeecCcchhhHHHhc
Confidence 999999999999999999999997
No 19
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=1.3e-40 Score=265.95 Aligned_cols=244 Identities=30% Similarity=0.405 Sum_probs=212.7
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hhcccccCCCcEEEeChHHHHHHHhcC-CcccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RSTDLSKFSCDILISTPLRLRLAIRRK-KIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~i~v~Tp~~l~~~~~~~-~~~~~~~~~lIiDEah~~~~ 75 (248)
||.|++..++.+.+....+.+..+.||. .+..+.+ +++|+|+||++|.+.+.+. .+.+++++++|+||||++++
T Consensus 166 LA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~~kl~k-~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEADrlLd 244 (543)
T KOG0342|consen 166 LAMQIFAEAKELLKYHESITVGIVIGGNNFSVEADKLVK-GCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEADRLLD 244 (543)
T ss_pred HHHHHHHHHHHHHhhCCCcceEEEeCCccchHHHHHhhc-cccEEEeCCchHHhHhhcCCcchhhccceeEeecchhhhh
Confidence 7899999999999999448888888877 3344444 9999999999999999984 45678889999999999999
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcC-CcEEEEEccc--ccccccceeEEEEcCCchhHHHHHH
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMH-DAVRVIVGRK--NTASESIKQKLVFAGSEEGKLLALR 152 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~ 152 (248)
.| |...+..+.+. .+...|..++|||.++..+++.+-.+. ++..+.+... ......+.+.++-++... ++..+.
T Consensus 245 ~G-F~~di~~Ii~~-lpk~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgyvv~~~~~-~f~ll~ 321 (543)
T KOG0342|consen 245 IG-FEEDVEQIIKI-LPKQRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPSDS-RFSLLY 321 (543)
T ss_pred cc-cHHHHHHHHHh-ccccceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceEEeccccc-hHHHHH
Confidence 99 99999999999 568899999999999999999987554 4666654433 344456777676555554 588888
Q ss_pred HHHhccCC-CCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 153 QSFAESLN-PPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 153 ~~~~~~~~-~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
.+++++.. .|++|||+|-.....+++.|+..+.+|..+||+.++..|..+...|.+.+..||+||+++++|+|+|+++.
T Consensus 322 ~~LKk~~~~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGlD~P~V~~ 401 (543)
T KOG0342|consen 322 TFLKKNIKRYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGLDIPDVDW 401 (543)
T ss_pred HHHHHhcCCceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccCCCCCceE
Confidence 88888876 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccCCCCcccceecC
Q 042003 232 VINYDFPDSGAAYIHRI 248 (248)
Q Consensus 232 Vi~~~~p~~~~~~~qri 248 (248)
||+||+|.++.+|+|||
T Consensus 402 VvQ~~~P~d~~~YIHRv 418 (543)
T KOG0342|consen 402 VVQYDPPSDPEQYIHRV 418 (543)
T ss_pred EEEeCCCCCHHHHHHHh
Confidence 99999999999999997
No 20
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=2.3e-40 Score=267.81 Aligned_cols=244 Identities=30% Similarity=0.398 Sum_probs=215.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcC-CcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRK-KIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~-~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+++.+++.++...+. ..++.||. ..+....++.+|+||||++|+.++... .+.-+++.++|+|||+++++-|
T Consensus 153 LA~QtFevL~kvgk~h~fS-aGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmLvLDEADR~LDMG 231 (758)
T KOG0343|consen 153 LALQTFEVLNKVGKHHDFS-AGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDENPNFSTSNLQMLVLDEADRMLDMG 231 (758)
T ss_pred HHHHHHHHHHHHhhccccc-cceeecCchhHHHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEEEeccHHHHHHHh
Confidence 7899999999999999954 44555555 333344567999999999999999775 5678999999999999999999
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccc--ccccccceeEEEEcCCchhHHHHHHHHH
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRK--NTASESIKQKLVFAGSEEGKLLALRQSF 155 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 155 (248)
|...+..++.. .+...|++++|||.+.....+++--+.+|..+.+... ...+.++.++++.+.. .+|++.|..++
T Consensus 232 -Fk~tL~~Ii~~-lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~v~l-~~Ki~~L~sFI 308 (758)
T KOG0343|consen 232 -FKKTLNAIIEN-LPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVIVPL-EDKIDMLWSFI 308 (758)
T ss_pred -HHHHHHHHHHh-CChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEEEeh-hhHHHHHHHHH
Confidence 99999999999 6788999999999999999999988899988877633 4556677777765554 46999999999
Q ss_pred hccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE
Q 042003 156 AESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI 233 (248)
Q Consensus 156 ~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi 233 (248)
..+...+.|||++|-+++..+|+.+.+. |+++..+||+|++..|.+++..|-+.+-.||+||+++++|+|+|.+++||
T Consensus 309 ~shlk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~vLF~TDv~aRGLDFpaVdwVi 388 (758)
T KOG0343|consen 309 KSHLKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVVLFCTDVAARGLDFPAVDWVI 388 (758)
T ss_pred HhccccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceEEEeehhhhccCCCcccceEE
Confidence 9998899999999999999999999875 78899999999999999999999999999999999999999999999999
Q ss_pred eccCCCCcccceecC
Q 042003 234 NYDFPDSGAAYIHRI 248 (248)
Q Consensus 234 ~~~~p~~~~~~~qri 248 (248)
++|.|.++++|+||+
T Consensus 389 Q~DCPedv~tYIHRv 403 (758)
T KOG0343|consen 389 QVDCPEDVDTYIHRV 403 (758)
T ss_pred EecCchhHHHHHHHh
Confidence 999999999999996
No 21
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=8.7e-40 Score=262.19 Aligned_cols=246 Identities=36% Similarity=0.520 Sum_probs=228.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|++..+++|++..++.++.+++|+. .|...+..++.|+||||++|.+++.....++.+..++|+|||+.+++-|
T Consensus 308 la~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~rvS~LV~DEadrmfdmG- 386 (731)
T KOG0339|consen 308 LASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLSRVSYLVLDEADRMFDMG- 386 (731)
T ss_pred HHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccceeeeEEEEechhhhhccc-
Confidence 6899999999999999977777777777 6667777999999999999999999999999999999999999999999
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES 158 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ 158 (248)
|...+..|... -++..|.+++|||++.....+++..+.+|+.+..+.-......+.+.+.-+.+.+.|+++|..-+-..
T Consensus 387 fe~qVrSI~~h-irpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~V~V~~s~~~Kl~wl~~~L~~f 465 (731)
T KOG0339|consen 387 FEPQVRSIKQH-IRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVCPSEEKKLNWLLRHLVEF 465 (731)
T ss_pred cHHHHHHHHhh-cCCcceEEEeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhheeeeccCcHHHHHHHHHHhhhh
Confidence 99999999998 67899999999999999999999999999999888777777778888888999999999988766544
Q ss_pred -CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 159 -LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 159 -~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..+++|+|+.-+..++.++..|.-++++|..+||+|.+.+|.+++..|+.+...|+|+|+++.+|+|+|+++.||+||+
T Consensus 466 ~S~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~VlvatDvaargldI~~ikTVvnyD~ 545 (731)
T KOG0339|consen 466 SSEGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLVATDVAARGLDIPSIKTVVNYDF 545 (731)
T ss_pred ccCCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEEEeeHhhcCCCccccceeecccc
Confidence 3689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
.++++.|.|||
T Consensus 546 ardIdththri 556 (731)
T KOG0339|consen 546 ARDIDTHTHRI 556 (731)
T ss_pred cchhHHHHHHh
Confidence 99999999996
No 22
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.4e-39 Score=255.29 Aligned_cols=244 Identities=32% Similarity=0.477 Sum_probs=215.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|++-.+.+..-. ++..+++++|+. .+...++.+.+|+++||++|.++...+.++++++.++|+|||+++++-|
T Consensus 306 Lalqie~e~~kysyn-g~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~i~l~siTYlVlDEADrMLDMg- 383 (629)
T KOG0336|consen 306 LALQIEGEVKKYSYN-GLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNVINLASITYLVLDEADRMLDMG- 383 (629)
T ss_pred HHHHHHhHHhHhhhc-CcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCeeeeeeeEEEEecchhhhhccc-
Confidence 677888887775443 435566666666 6777788999999999999999999999999999999999999999999
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccc-cccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTA-SESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+.+++-. -.+..|+++.|||+|+..+.+...|+++|..+.++..+.. ...+++.+ .+....+|.+....+++.
T Consensus 384 FEpqIrkilld-iRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~i-~v~~d~~k~~~~~~f~~~ 461 (629)
T KOG0336|consen 384 FEPQIRKILLD-IRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQNI-IVTTDSEKLEIVQFFVAN 461 (629)
T ss_pred ccHHHHHHhhh-cCCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeeeE-EecccHHHHHHHHHHHHh
Confidence 99999888777 6788999999999999999999999999998888766544 44566666 677777899988888876
Q ss_pred cC-CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 158 SL-NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 158 ~~-~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.. ..|+||||.++..|..+..-|--.|+...-+||...+.+|+..++.|++|+.+|||+|+.+++|+|+|+++||++||
T Consensus 462 ms~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILvaTDlaSRGlDv~DiTHV~NyD 541 (629)
T KOG0336|consen 462 MSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILVATDLASRGLDVPDITHVYNYD 541 (629)
T ss_pred cCCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEEEechhhcCCCchhcceeeccC
Confidence 54 57999999999999888888888899999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
+|.++..|.|||
T Consensus 542 FP~nIeeYVHRv 553 (629)
T KOG0336|consen 542 FPRNIEEYVHRV 553 (629)
T ss_pred CCccHHHHHHHh
Confidence 999999999996
No 23
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=4.4e-39 Score=255.87 Aligned_cols=245 Identities=26% Similarity=0.341 Sum_probs=212.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hhcccccCCCcEEEeChHHHHHHHhcC--CcccCceeEEEEecccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RSTDLSKFSCDILISTPLRLRLAIRRK--KIDLSRVEYLVLDEADKLF 74 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~i~v~Tp~~l~~~~~~~--~~~~~~~~~lIiDEah~~~ 74 (248)
||.|+.+.+..|...+....+.++.||. +......++++|+||||++|.+++.+. .+++++++++|+||||+++
T Consensus 91 La~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEADrLl 170 (567)
T KOG0345|consen 91 LARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEADRLL 170 (567)
T ss_pred HHHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchHhHh
Confidence 6899999999998885445566666655 334446678999999999999999984 4556799999999999999
Q ss_pred ccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccccc--ccccceeEEEEcCCchhHHHHHH
Q 042003 75 EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNT--ASESIKQKLVFAGSEEGKLLALR 152 (248)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~ 152 (248)
+-| |...+..|++. .+...++=++|||......++.+..+.+|+.+.+..... .+..+..++. ....+.|...+.
T Consensus 171 dmg-Fe~~~n~ILs~-LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~-v~~a~eK~~~lv 247 (567)
T KOG0345|consen 171 DMG-FEASVNTILSF-LPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYL-VCEADEKLSQLV 247 (567)
T ss_pred ccc-HHHHHHHHHHh-cccccccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceee-EecHHHHHHHHH
Confidence 999 99999999999 677778889999999999999999999999998877664 4455555554 444556999999
Q ss_pred HHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCc
Q 042003 153 QSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVN 230 (248)
Q Consensus 153 ~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~ 230 (248)
+++.....+|++||++|=..++..+..+... ...+..+||.|.+.+|..+++.|.+....+|+||+++++|+|+|+++
T Consensus 248 ~~L~~~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARGlDip~iD 327 (567)
T KOG0345|consen 248 HLLNNNKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARGLDIPGID 327 (567)
T ss_pred HHHhccccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhccCCCCCce
Confidence 9999988899999999999999988888764 66899999999999999999999998889999999999999999999
Q ss_pred EEEeccCCCCcccceecC
Q 042003 231 CVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 231 ~Vi~~~~p~~~~~~~qri 248 (248)
+||+||+|.+++.|.||.
T Consensus 328 ~VvQ~DpP~~~~~FvHR~ 345 (567)
T KOG0345|consen 328 LVVQFDPPKDPSSFVHRC 345 (567)
T ss_pred EEEecCCCCChhHHHhhc
Confidence 999999999999999994
No 24
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.5e-38 Score=246.47 Aligned_cols=246 Identities=31% Similarity=0.420 Sum_probs=221.7
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhc-CCcccCceeEEEEeccccccccCcc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRR-KKIDLSRVEYLVLDEADKLFEVGNL 79 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~-~~~~~~~~~~lIiDEah~~~~~~~~ 79 (248)
||.|+-+.+.++++..+ ++...+..+....+-..-..+|+|+||+.+.+++.. ..+.+..++.+|+|||+.+.+...|
T Consensus 172 LA~Q~~eVv~eMGKf~~-ita~yair~sk~~rG~~i~eqIviGTPGtv~Dlm~klk~id~~kikvfVlDEAD~Mi~tqG~ 250 (477)
T KOG0332|consen 172 LAPQTGEVVEEMGKFTE-LTASYAIRGSKAKRGNKLTEQIVIGTPGTVLDLMLKLKCIDLEKIKVFVLDEADVMIDTQGF 250 (477)
T ss_pred HHHHHHHHHHHhcCcee-eeEEEEecCcccccCCcchhheeeCCCccHHHHHHHHHhhChhhceEEEecchhhhhhcccc
Confidence 68899999999999997 555544444333333333578999999999999988 8888999999999999998876558
Q ss_pred cccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccC
Q 042003 80 LKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL 159 (248)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 159 (248)
......+.+. .+.++|++++|||+.......+....+++..+...+++....+++++++.|...++|++.+.+++....
T Consensus 251 ~D~S~rI~~~-lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~~~~K~~~l~~lyg~~t 329 (477)
T KOG0332|consen 251 QDQSIRIMRS-LPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCACRDDKYQALVNLYGLLT 329 (477)
T ss_pred cccchhhhhh-cCCcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeeccchhhHHHHHHHHHhhhh
Confidence 8888888887 568999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD 239 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~ 239 (248)
-++.+|||.+++.|+.+++.+.+.|+.|..+||.|..++|..+++.|++|..+|||+|+++++|||++.+++|||||+|.
T Consensus 330 igqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLitTnV~ARGiDv~qVs~VvNydlP~ 409 (477)
T KOG0332|consen 330 IGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLITTNVCARGIDVAQVSVVVNYDLPV 409 (477)
T ss_pred hhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEEEechhhcccccceEEEEEecCCcc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred ------CcccceecC
Q 042003 240 ------SGAAYIHRI 248 (248)
Q Consensus 240 ------~~~~~~qri 248 (248)
+..+|+|||
T Consensus 410 ~~~~~pD~etYlHRi 424 (477)
T KOG0332|consen 410 KYTGEPDYETYLHRI 424 (477)
T ss_pred ccCCCCCHHHHHHHh
Confidence 567999997
No 25
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.3e-38 Score=245.21 Aligned_cols=244 Identities=25% Similarity=0.308 Sum_probs=204.0
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcC----CcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRK----KIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~----~~~~~~~~~lIiDEah~~ 73 (248)
||.|+.+.|..+++..+ .++..++||. .+...+..++|++|+||+++...+..+ ...+++++++|+|||+.+
T Consensus 87 LA~QiaEQF~alGk~l~-lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkflVlDEADrv 165 (442)
T KOG0340|consen 87 LALQIAEQFIALGKLLN-LKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFLVLDEADRV 165 (442)
T ss_pred HHHHHHHHHHHhccccc-ceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeEEecchhhh
Confidence 68999999999999999 7777777776 666778889999999999999999875 235899999999999999
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCC--cEEEEEcccccccccceeEEEEcCCchhHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHD--AVRVIVGRKNTASESIKQKLVFAGSEEGKLLAL 151 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 151 (248)
.+.. |-..+..+.+. .+...|.+++|||+++...++...-..+ ...+...........+.+.++.++.. .+...+
T Consensus 166 L~~~-f~d~L~~i~e~-lP~~RQtLlfSATitd~i~ql~~~~i~k~~a~~~e~~~~vstvetL~q~yI~~~~~-vkdaYL 242 (442)
T KOG0340|consen 166 LAGC-FPDILEGIEEC-LPKPRQTLLFSATITDTIKQLFGCPITKSIAFELEVIDGVSTVETLYQGYILVSID-VKDAYL 242 (442)
T ss_pred hccc-hhhHHhhhhcc-CCCccceEEEEeehhhHHHHhhcCCcccccceEEeccCCCCchhhhhhheeecchh-hhHHHH
Confidence 9877 88888888777 5666899999999988666665443333 33344445555566677777665554 355555
Q ss_pred HHHHhcc---CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC
Q 042003 152 RQSFAES---LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG 228 (248)
Q Consensus 152 ~~~~~~~---~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~ 228 (248)
...+... +.+.++||+++-.+|+.++..|+..++.+..+||.|++.+|...+..|+++..+|||||+++++|+|||.
T Consensus 243 v~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~iliaTDVAsRGLDIP~ 322 (442)
T KOG0340|consen 243 VHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIATDVASRGLDIPT 322 (442)
T ss_pred HHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEEechhhcCCCCCc
Confidence 5555543 3568999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcEEEeccCCCCcccceecC
Q 042003 229 VNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 229 ~~~Vi~~~~p~~~~~~~qri 248 (248)
++.|||||.|.++.+|+||+
T Consensus 323 V~LVvN~diPr~P~~yiHRv 342 (442)
T KOG0340|consen 323 VELVVNHDIPRDPKDYIHRV 342 (442)
T ss_pred eeEEEecCCCCCHHHHHHhh
Confidence 99999999999999999996
No 26
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=5.3e-40 Score=256.05 Aligned_cols=244 Identities=33% Similarity=0.513 Sum_probs=219.2
Q ss_pred CcchHHHHHHHhhcC-----CCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKG-----NKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~-----~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~ 72 (248)
||.|++..+..+... .+..+..++.||. ++-+..+.+.+|+|+||++|.+++....++++-++++.+|||++
T Consensus 258 LArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL~DmL~KK~~sLd~CRyL~lDEADR 337 (610)
T KOG0341|consen 258 LARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRLMDMLAKKIMSLDACRYLTLDEADR 337 (610)
T ss_pred HHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchHHHHHHHhhccHHHHHHhhhhhHHH
Confidence 678888888876443 3345666666666 55666788999999999999999999999999999999999999
Q ss_pred ccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHH
Q 042003 73 LFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALR 152 (248)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 152 (248)
+.+-| |...+..++..+ ....|++++|||+|...+.+.+.-+-+|+++.+++.....-++.+..-|+.... |+..++
T Consensus 338 miDmG-FEddir~iF~~F-K~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRAGAAsldViQevEyVkqEa-KiVylL 414 (610)
T KOG0341|consen 338 MIDMG-FEDDIRTIFSFF-KGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGAASLDVIQEVEYVKQEA-KIVYLL 414 (610)
T ss_pred Hhhcc-chhhHHHHHHHH-hhhhheeeeeccccHHHHHHHHhhcccceEEecccccccchhHHHHHHHHHhhh-hhhhHH
Confidence 99999 999999999985 456899999999999999999999999999999999888888877776666654 888888
Q ss_pred HHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEE
Q 042003 153 QSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232 (248)
Q Consensus 153 ~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~V 232 (248)
+.+.+. ..+++|||..+.++..++++|.-+|..+..+|||-++++|...++.|+.|+.+|||+|++++.|+|+|++.||
T Consensus 415 eCLQKT-~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkKDVLVATDVASKGLDFp~iqHV 493 (610)
T KOG0341|consen 415 ECLQKT-SPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKKDVLVATDVASKGLDFPDIQHV 493 (610)
T ss_pred HHhccC-CCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCCceEEEecchhccCCCccchhh
Confidence 888887 5799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeccCCCCcccceecC
Q 042003 233 INYDFPDSGAAYIHRI 248 (248)
Q Consensus 233 i~~~~p~~~~~~~qri 248 (248)
||||+|..+..|.|||
T Consensus 494 INyDMP~eIENYVHRI 509 (610)
T KOG0341|consen 494 INYDMPEEIENYVHRI 509 (610)
T ss_pred ccCCChHHHHHHHHHh
Confidence 9999999999999997
No 27
>KOG4284 consensus DEAD box protein [Transcription]
Probab=100.00 E-value=2.1e-37 Score=254.75 Aligned_cols=247 Identities=28% Similarity=0.342 Sum_probs=226.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
||.|+.++++++++.+.-..+..+.||. .......+.++|+|+||+++..++..+-++.++++++|+||||.+.+.++
T Consensus 105 iaVQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEADkL~~t~s 184 (980)
T KOG4284|consen 105 IAVQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEADKLMDTES 184 (980)
T ss_pred hhhHHHHHHHHhcccccCcceEEEecCchhhhhhhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHHhhhchhh
Confidence 5789999999999987557777777777 33344456799999999999999999999999999999999999999888
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCc-------hhHHHHH
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSE-------EGKLLAL 151 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~l 151 (248)
|...+..+... .+...|++++|||.|..+.+....++.+|..+.........-+++++++..... ..|+..|
T Consensus 185 fq~~In~ii~s-lP~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s~nnsveemrlklq~L 263 (980)
T KOG4284|consen 185 FQDDINIIINS-LPQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCSPNNSVEEMRLKLQKL 263 (980)
T ss_pred HHHHHHHHHHh-cchhheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccCCcchHHHHHHHHHHH
Confidence 99999999998 678899999999999999999999999999999988888888999988766654 3577888
Q ss_pred HHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 152 RQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 152 ~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
..+++..+..++||||+....|+-++..|...|+.|-.++|.|++.+|..+++.++.-..+|||+|+..++|||-|.++.
T Consensus 264 ~~vf~~ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~~rILVsTDLtaRGIDa~~vNL 343 (980)
T KOG4284|consen 264 THVFKSIPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFRVRILVSTDLTARGIDADNVNL 343 (980)
T ss_pred HHHHhhCchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhceEEEEEecchhhccCCccccce
Confidence 88888888889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccCCCCcccceecC
Q 042003 232 VINYDFPDSGAAYIHRI 248 (248)
Q Consensus 232 Vi~~~~p~~~~~~~qri 248 (248)
|||.|+|.+..+|+|||
T Consensus 344 VVNiD~p~d~eTY~HRI 360 (980)
T KOG4284|consen 344 VVNIDAPADEETYFHRI 360 (980)
T ss_pred EEecCCCcchHHHHHHh
Confidence 99999999999999997
No 28
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.3e-37 Score=248.69 Aligned_cols=246 Identities=29% Similarity=0.405 Sum_probs=201.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhc-CCcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRR-KKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~-~~~~~~~~~~lIiDEah~~~~~ 76 (248)
||.|+|+.++++.+.+-|++.+.+.||. ...-.+..+++|+|+||++|.+.+.+ ..+.+++++++|+||+|++++-
T Consensus 223 L~~Q~y~~~qKLl~~~hWIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s~LRwlVlDEaDrlleL 302 (708)
T KOG0348|consen 223 LALQIYETVQKLLKPFHWIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFSRLRWLVLDEADRLLEL 302 (708)
T ss_pred HHHHHHHHHHHHhcCceEEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccchheeeeeeEEEecchhHHHhc
Confidence 7899999999999999999888877776 44445778999999999999999998 4677899999999999999999
Q ss_pred CcccccchhHhhhCCC------------ccceeEEEEeecCchHHHHHHHhcCCcEEEEEccc-----------------
Q 042003 77 GNLLKHIDPVVKACSN------------PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRK----------------- 127 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~------------~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~----------------- 127 (248)
| |...+..|++...+ ...|.+++|||++....++...-+.||..+..+..
T Consensus 303 G-fekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~ld~s~~~~~p~~~a~~ev~~~ 381 (708)
T KOG0348|consen 303 G-FEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISLDKSHSQLNPKDKAVQEVDDG 381 (708)
T ss_pred c-chhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeeccchhhhcCcchhhhhhcCCc
Confidence 9 99999888877522 13677899999999999999888888887762110
Q ss_pred --------ccccccceeEEEEcCCchhHHHHHHHHH----hccCCCCEEEEecchHHHHHHHHHhhc-------------
Q 042003 128 --------NTASESIKQKLVFAGSEEGKLLALRQSF----AESLNPPVLIFVQSKERAKELYGELAF------------- 182 (248)
Q Consensus 128 --------~~~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~~liF~~~~~~~~~l~~~L~~------------- 182 (248)
...+.++.+.+.-++..- ++-.|..++ +.....|+|||+++.+.++.-|..|..
T Consensus 382 ~~~~~l~~~~iPeqL~qry~vVPpKL-RLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~ 460 (708)
T KOG0348|consen 382 PAGDKLDSFAIPEQLLQRYTVVPPKL-RLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAP 460 (708)
T ss_pred ccccccccccCcHHhhhceEecCCch-hHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCc
Confidence 112233445555454443 444444433 444467999999999999988888753
Q ss_pred ---------CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 183 ---------DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 183 ---------~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.+.++..+||+|++++|..+++.|...+-.||+||+++++|+|+|++++||+||+|.+..+|+|||
T Consensus 461 ~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRv 535 (708)
T KOG0348|consen 461 DSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRV 535 (708)
T ss_pred ccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceEEEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHh
Confidence 135789999999999999999999999999999999999999999999999999999999999997
No 29
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.2e-37 Score=252.03 Aligned_cols=243 Identities=28% Similarity=0.358 Sum_probs=192.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCc---ccCceeEEEEecccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKI---DLSRVEYLVLDEADKLF 74 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~---~~~~~~~lIiDEah~~~ 74 (248)
||.|+.+-+..+.+..+ +++..+.||. .|..++...++|+|+||++||.++..+.. .++++.++|+||||++.
T Consensus 275 La~QV~~Hl~ai~~~t~-i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRmv 353 (731)
T KOG0347|consen 275 LAHQVKQHLKAIAEKTQ-IRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMV 353 (731)
T ss_pred HHHHHHHHHHHhccccC-eEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHhhhhhhhhhhhceEEEEccHHHHh
Confidence 68999999999999999 6666666665 56677888999999999999999988654 57889999999999999
Q ss_pred ccCcccccchhHhhhCC----CccceeEEEEeecCc---------------------hHHHHHHH--hcCCcEEEEEccc
Q 042003 75 EVGNLLKHIDPVVKACS----NPSIVRSLFSATLPD---------------------FVEELARS--IMHDAVRVIVGRK 127 (248)
Q Consensus 75 ~~~~~~~~~~~~~~~~~----~~~~~~i~~SAT~~~---------------------~~~~~~~~--~~~~~~~~~~~~~ 127 (248)
+.| .+..+..+++.+. ....|.+.+|||++- .++.+... +.++|..+...+.
T Consensus 354 ekg-hF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~kiq~Lmk~ig~~~kpkiiD~t~q 432 (731)
T KOG0347|consen 354 EKG-HFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNAKIQHLMKKIGFRGKPKIIDLTPQ 432 (731)
T ss_pred hhc-cHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhHHHHHHHHHhCccCCCeeEecCcc
Confidence 999 7777777776644 345799999999852 12222222 2234555555444
Q ss_pred ccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh
Q 042003 128 NTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR 207 (248)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~ 207 (248)
......+....+.| ...+|--.|..++..+ +++++||||+++.+.+++-.|+..++....+|+.|.+..|...++.|+
T Consensus 433 ~~ta~~l~Es~I~C-~~~eKD~ylyYfl~ry-PGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~ 510 (731)
T KOG0347|consen 433 SATASTLTESLIEC-PPLEKDLYLYYFLTRY-PGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFK 510 (731)
T ss_pred hhHHHHHHHHhhcC-CccccceeEEEEEeec-CCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHh
Confidence 44444443333333 2222333333344444 789999999999999999999999999999999999999999999999
Q ss_pred cCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceec
Q 042003 208 AGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 208 ~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qr 247 (248)
+....|||||+++++|+|||++.|||||-.|.+..-|+||
T Consensus 511 ~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPrtseiYVHR 550 (731)
T KOG0347|consen 511 QSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTSEIYVHR 550 (731)
T ss_pred cCCCeEEEeehhhhccCCCCCcceEEEeecCCccceeEec
Confidence 9999999999999999999999999999999999999998
No 30
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.5e-36 Score=233.22 Aligned_cols=242 Identities=30% Similarity=0.455 Sum_probs=221.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~ 76 (248)
||.|+.+....++...+ ..+..+.|+. ....+....++|+++||+++..++....+..+.++++++|||+.++..
T Consensus 106 La~qi~~v~~~lg~~~~-~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDEaDEmLs~ 184 (397)
T KOG0327|consen 106 LAQQIQKVVRALGDHMD-VSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDEADEMLSR 184 (397)
T ss_pred HHHHHHHHHHhhhcccc-eeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhccccccccceeEEeecchHhhhcc
Confidence 68899999999999998 5566554444 223345557999999999999999999888899999999999999999
Q ss_pred CcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh
Q 042003 77 GNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA 156 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 156 (248)
| |...+..+... .+++.|++++|||.|.+..+..+.++.+|..+.....+.....+++++......+ |+..+..+..
T Consensus 185 g-fkdqI~~if~~-lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k~~-k~~~l~dl~~ 261 (397)
T KOG0327|consen 185 G-FKDQIYDIFQE-LPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEKEE-KLDTLCDLYR 261 (397)
T ss_pred c-hHHHHHHHHHH-cCcchhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccccc-cccHHHHHHH
Confidence 9 99999999999 6778899999999999999999999999999999999988899999998887776 9999999998
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.-...+||||+++.+..+...|...+..+..+||.|.+.+|..+.+.|+.|..++||+|+.+++|+|+.+++.||+|+
T Consensus 262 --~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~argidv~~~slvinyd 339 (397)
T KOG0327|consen 262 --RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLARGIDVQQVSLVVNYD 339 (397)
T ss_pred --hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccccccchhhcceeeeec
Confidence 368999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
.|.+...|+||+
T Consensus 340 lP~~~~~yihR~ 351 (397)
T KOG0327|consen 340 LPARKENYIHRI 351 (397)
T ss_pred cccchhhhhhhc
Confidence 999999999996
No 31
>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=100.00 E-value=7.9e-35 Score=255.87 Aligned_cols=239 Identities=19% Similarity=0.219 Sum_probs=177.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCC----cccCceeEEEEecccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKK----IDLSRVEYLVLDEADKLF 74 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~----~~~~~~~~lIiDEah~~~ 74 (248)
||.|+.+.+++++ ..+ ..+..+.|+. .+......+++|+|+||+++...+.... ..+++++++|+||||.+.
T Consensus 93 La~q~~~~l~~l~-~~~-i~v~~~~Gdt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah~~~ 170 (742)
T TIGR03817 93 LAADQLRAVRELT-LRG-VRPATYDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECHSYR 170 (742)
T ss_pred HHHHHHHHHHHhc-cCC-eEEEEEeCCCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChhhcc
Confidence 6899999999987 334 5566666665 3334456679999999999875443221 237899999999999986
Q ss_pred ccCcccccchhHhhh----C--CCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCC-----
Q 042003 75 EVGNLLKHIDPVVKA----C--SNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS----- 143 (248)
Q Consensus 75 ~~~~~~~~~~~~~~~----~--~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----- 143 (248)
+ . |...+..+++. + ...++|++++|||+++.. +...++++.+..+. .....+... .+...+...
T Consensus 171 g-~-fg~~~~~il~rL~ri~~~~g~~~q~i~~SATi~n~~-~~~~~l~g~~~~~i-~~~~~~~~~-~~~~~~~p~~~~~~ 245 (742)
T TIGR03817 171 G-V-FGSHVALVLRRLRRLCARYGASPVFVLASATTADPA-AAASRLIGAPVVAV-TEDGSPRGA-RTVALWEPPLTELT 245 (742)
T ss_pred C-c-cHHHHHHHHHHHHHHHHhcCCCCEEEEEecCCCCHH-HHHHHHcCCCeEEE-CCCCCCcCc-eEEEEecCCccccc
Confidence 5 2 44443333222 1 235689999999999864 46677777775543 222222221 222222111
Q ss_pred -----------chhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--------CCeeEEEecCCCHHHHHHHHH
Q 042003 144 -----------EEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--------GIRAGVIHSDLSQTQRENAVD 204 (248)
Q Consensus 144 -----------~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--------~~~v~~~~~~~~~~~r~~~~~ 204 (248)
...+...+..+++. +.++||||+|++.++.+++.|++. +.++..+||++++++|.++++
T Consensus 246 ~~~~~~~r~~~~~~~~~~l~~l~~~--~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~ 323 (742)
T TIGR03817 246 GENGAPVRRSASAEAADLLADLVAE--GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELER 323 (742)
T ss_pred cccccccccchHHHHHHHHHHHHHC--CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHH
Confidence 12455566666664 579999999999999999988653 567899999999999999999
Q ss_pred HhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 205 DFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 205 ~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.|++|+.++||||+++++|||+|++++||++|.|.+..+|+||+
T Consensus 324 ~f~~G~i~vLVaTd~lerGIDI~~vd~VI~~~~P~s~~~y~qRi 367 (742)
T TIGR03817 324 ALRDGELLGVATTNALELGVDISGLDAVVIAGFPGTRASLWQQA 367 (742)
T ss_pred HHHcCCceEEEECchHhccCCcccccEEEEeCCCCCHHHHHHhc
Confidence 99999999999999999999999999999999999999999996
No 32
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=5.7e-34 Score=240.87 Aligned_cols=208 Identities=18% Similarity=0.233 Sum_probs=156.4
Q ss_pred ccCCCcEEEeChHHHHHHH-hcCCc-ccCceeEEEEeccccccccC-cccccchhH---hhhCCCccceeEEEEeecCch
Q 042003 34 SKFSCDILISTPLRLRLAI-RRKKI-DLSRVEYLVLDEADKLFEVG-NLLKHIDPV---VKACSNPSIVRSLFSATLPDF 107 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~-~~~~~-~~~~~~~lIiDEah~~~~~~-~~~~~~~~~---~~~~~~~~~~~i~~SAT~~~~ 107 (248)
..+.++++++||+++.... ....+ ...+++++||||||++.+|| .|+..+..+ ... .+..+++++|||+++.
T Consensus 98 ~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~i~~~g~~fr~~~~~l~~l~~~--~~~~~~l~lTAT~~~~ 175 (470)
T TIGR00614 98 KDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHCISQWGHDFRPDYKALGSLKQK--FPNVPIMALTATASPS 175 (470)
T ss_pred hcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcccCccccccHHHHHHHHHHHHH--cCCCceEEEecCCCHH
Confidence 3456899999999875432 11122 46789999999999999987 355554443 333 2467899999999987
Q ss_pred HHHHHHHhc--CCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh-ccCCCCEEEEecchHHHHHHHHHhhcCC
Q 042003 108 VEELARSIM--HDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA-ESLNPPVLIFVQSKERAKELYGELAFDG 184 (248)
Q Consensus 108 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~liF~~~~~~~~~l~~~L~~~~ 184 (248)
........+ .++..+.... ..+++..... .........+..++. ...++++||||+++++++.+++.|++.+
T Consensus 176 ~~~di~~~l~l~~~~~~~~s~---~r~nl~~~v~--~~~~~~~~~l~~~l~~~~~~~~~IIF~~s~~~~e~la~~L~~~g 250 (470)
T TIGR00614 176 VREDILRQLNLKNPQIFCTSF---DRPNLYYEVR--RKTPKILEDLLRFIRKEFKGKSGIIYCPSRKKSEQVTASLQNLG 250 (470)
T ss_pred HHHHHHHHcCCCCCcEEeCCC---CCCCcEEEEE--eCCccHHHHHHHHHHHhcCCCceEEEECcHHHHHHHHHHHHhcC
Confidence 765554433 2333332211 1222222221 122235556666665 3445667999999999999999999999
Q ss_pred CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 185 IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 185 ~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+++..+||+|++++|+.+++.|++|+.+|||||+++++|+|+|++++||++++|.|+..|+||+
T Consensus 251 ~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P~s~~~y~Qr~ 314 (470)
T TIGR00614 251 IAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLPKSMESYYQES 314 (470)
T ss_pred CCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCCCCHHHHHhhh
Confidence 9999999999999999999999999999999999999999999999999999999999999996
No 33
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.3e-34 Score=228.82 Aligned_cols=245 Identities=28% Similarity=0.358 Sum_probs=209.3
Q ss_pred CcchHHHHHHHhhcCCC-cEEEEccc-ch--hhhcccccCCCcEEEeChHHHHHHHhcCC-cccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKGNK-FQIKLMKK-EL--VRSTDLSKFSCDILISTPLRLRLAIRRKK-IDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~-~~~~~~~~-~~--~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~-~~~~~~~~lIiDEah~~~~ 75 (248)
||+|++..+.++....+ .+.+.-+. .. ......+...|+|+|+||+.+++++..+. ..++.+.++|+||||.+++
T Consensus 105 L~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l~~LVvDEADLlls 184 (569)
T KOG0346|consen 105 LAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSLSFLVVDEADLLLS 184 (569)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhheeeEEechhhhhhh
Confidence 68999999999877664 22222222 11 23445677789999999999999999877 6789999999999999999
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccc-cccceeEEEEcCCchhHHHHHHHH
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTA-SESIKQKLVFAGSEEGKLLALRQS 154 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~ 154 (248)
-| |...+..+.+. .++..|-++||||++..+..+...++.+|..+.....+.+ ..++.++.+.|+ ..+|...+..+
T Consensus 185 fG-Yeedlk~l~~~-LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cs-e~DKflllyal 261 (569)
T KOG0346|consen 185 FG-YEEDLKKLRSH-LPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCS-EEDKFLLLYAL 261 (569)
T ss_pred cc-cHHHHHHHHHh-CCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEec-cchhHHHHHHH
Confidence 99 99999999999 6788999999999999999999999999998877665554 456778888787 55577766666
Q ss_pred Hhc-cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec---------------
Q 042003 155 FAE-SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD--------------- 218 (248)
Q Consensus 155 ~~~-~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~--------------- 218 (248)
++- ...+|++||+|+.+.|.++.-.|+..|++..+++|.||..-|..++++|..|-.+++|||+
T Consensus 262 lKL~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~YdivIAtD~s~~~~~~eee~kgk 341 (569)
T KOG0346|consen 262 LKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYDIVIATDDSADGDKLEEEVKGK 341 (569)
T ss_pred HHHHHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcceeEEEEccCccchhhhhcccccc
Confidence 653 3478999999999999999999999999999999999999999999999999999999999
Q ss_pred --------------------ccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 219 --------------------VIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 219 --------------------~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
..++|||+..+..|+|||+|.+...|+|||
T Consensus 342 ~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRv 391 (569)
T KOG0346|consen 342 SDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRV 391 (569)
T ss_pred ccccCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhc
Confidence 235899999999999999999999999996
No 34
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-34 Score=226.67 Aligned_cols=244 Identities=33% Similarity=0.410 Sum_probs=217.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+.++.++++.+ ..+.+.+|+. ++...+..++||+++||+++..+...-.+.++.+.++|+||++.++..|
T Consensus 102 La~qtlkvvkdlgrgt~-lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEadrlfemg 180 (529)
T KOG0337|consen 102 LALQTLKVVKDLGRGTK-LRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEADRLFEMG 180 (529)
T ss_pred HHHHHHHHHHHhccccc-hhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehheeccccceeeeeehhhhHHHhhh
Confidence 68999999999999999 5555555544 6777788899999999999998888777889999999999999999998
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
|...+.+++.. .+...|.++||||+|..+-...++.+.+|..+..+.+......++..+..+ ..++|...|+.++..
T Consensus 181 -fqeql~e~l~r-l~~~~QTllfSatlp~~lv~fakaGl~~p~lVRldvetkise~lk~~f~~~-~~a~K~aaLl~il~~ 257 (529)
T KOG0337|consen 181 -FQEQLHEILSR-LPESRQTLLFSATLPRDLVDFAKAGLVPPVLVRLDVETKISELLKVRFFRV-RKAEKEAALLSILGG 257 (529)
T ss_pred -hHHHHHHHHHh-CCCcceEEEEeccCchhhHHHHHccCCCCceEEeehhhhcchhhhhheeee-ccHHHHHHHHHHHhc
Confidence 99999999999 555669999999999999999999989998888777666666666666544 455699999998887
Q ss_pred cC-CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 158 SL-NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 158 ~~-~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
.. +++++||+.+..+++.+.+.|++.|+.+..+.|+|+++.|..-...|+.++..++|.|+.+++|+|+|-.+.||+||
T Consensus 258 ~~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG~diplldnvinyd 337 (529)
T KOG0337|consen 258 RIKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARGLDIPLLDNVINYD 337 (529)
T ss_pred cccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhccCCCcccccccccc
Confidence 64 35899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
.|.+..-|+||+
T Consensus 338 ~p~~~klFvhRV 349 (529)
T KOG0337|consen 338 FPPDDKLFVHRV 349 (529)
T ss_pred CCCCCceEEEEe
Confidence 999999999996
No 35
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=100.00 E-value=1.8e-33 Score=256.67 Aligned_cols=241 Identities=22% Similarity=0.235 Sum_probs=172.5
Q ss_pred CcchHHHHHHHhhc------------CCCcEEEEcccchhhhc---ccccCCCcEEEeChHHHHHHHhcC-CcccCceeE
Q 042003 1 LATQTTRECKKLAK------------GNKFQIKLMKKELVRST---DLSKFSCDILISTPLRLRLAIRRK-KIDLSRVEY 64 (248)
Q Consensus 1 L~~Q~~~~~~~~~~------------~~~~~~~~~~~~~~~~~---~~~~~~~~i~v~Tp~~l~~~~~~~-~~~~~~~~~ 64 (248)
|+.|+++.++.... ..+ +++....|+.... .+..+.++|+|+||+++..++.+. ...++++++
T Consensus 49 La~Dv~~~L~~pl~~i~~~~~~~g~~~~~-i~V~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~ 127 (1490)
T PRK09751 49 LGTDVQRNLQIPLKGIADERRRRGETEVN-LRVGIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVET 127 (1490)
T ss_pred HHHHHHHHHHHHHHhhhhhhhhcccccCc-eEEEEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCE
Confidence 57788887764221 234 6777777776332 345668999999999999887653 346899999
Q ss_pred EEEeccccccccC--c-ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCC-cEEEEEcccccccccceeEEEE
Q 042003 65 LVLDEADKLFEVG--N-LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHD-AVRVIVGRKNTASESIKQKLVF 140 (248)
Q Consensus 65 lIiDEah~~~~~~--~-~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 140 (248)
|||||+|.+.+.. . +...+.++... ...+.|+|++|||+++ .+++..++.++ +..+.. ........+. ....
T Consensus 128 VIVDE~H~L~g~kRG~~Lel~LeRL~~l-~~~~~QrIgLSATI~n-~eevA~~L~g~~pv~Iv~-~~~~r~~~l~-v~vp 203 (1490)
T PRK09751 128 VIIDEVHAVAGSKRGAHLALSLERLDAL-LHTSAQRIGLSATVRS-ASDVAAFLGGDRPVTVVN-PPAMRHPQIR-IVVP 203 (1490)
T ss_pred EEEecHHHhcccccccHHHHHHHHHHHh-CCCCCeEEEEEeeCCC-HHHHHHHhcCCCCEEEEC-CCCCcccceE-EEEe
Confidence 9999999998643 1 22244444444 4567899999999988 56777766543 444432 2222222222 1222
Q ss_pred cCCch-------------------h----HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCC-------------
Q 042003 141 AGSEE-------------------G----KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG------------- 184 (248)
Q Consensus 141 ~~~~~-------------------~----~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~------------- 184 (248)
..+.. . ....+...+. .++++||||||++.|+.++..|++..
T Consensus 204 ~~d~~~~~~~~~~~~~~~~~~r~~~i~~~v~~~il~~i~--~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~ 281 (1490)
T PRK09751 204 VANMDDVSSVASGTGEDSHAGREGSIWPYIETGILDEVL--RHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVD 281 (1490)
T ss_pred cCchhhccccccccccccchhhhhhhhHHHHHHHHHHHh--cCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccch
Confidence 21110 0 0011222222 25799999999999999999987531
Q ss_pred --------------------CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccc
Q 042003 185 --------------------IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAY 244 (248)
Q Consensus 185 --------------------~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~ 244 (248)
..+..+||+|++++|..+++.|++|++++||||++++.|||+|++++||+++.|.|+.+|
T Consensus 282 ~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP~sVas~ 361 (1490)
T PRK09751 282 AAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPLSVASG 361 (1490)
T ss_pred hhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCCCCHHHH
Confidence 126789999999999999999999999999999999999999999999999999999999
Q ss_pred eecC
Q 042003 245 IHRI 248 (248)
Q Consensus 245 ~qri 248 (248)
+||+
T Consensus 362 LQRi 365 (1490)
T PRK09751 362 LQRI 365 (1490)
T ss_pred HHHh
Confidence 9996
No 36
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.5e-34 Score=245.59 Aligned_cols=245 Identities=32% Similarity=0.510 Sum_probs=221.0
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcc---cCceeEEEEecccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKID---LSRVEYLVLDEADKLF 74 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~---~~~~~~lIiDEah~~~ 74 (248)
||.|+.+++++|.+.++ +.+.++||+. .+...++.++.|+||||+++.+++..+.-. +++..++|+||||+++
T Consensus 450 la~QI~r~~~kf~k~l~-ir~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~grvtnlrR~t~lv~deaDrmf 528 (997)
T KOG0334|consen 450 LAMQIHREVRKFLKLLG-IRVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSGRVTNLRRVTYLVLDEADRMF 528 (997)
T ss_pred HHHHHHHHHHHHHhhcC-ceEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCCccccccccceeeechhhhhh
Confidence 68999999999999999 6777777776 445557778999999999999999876554 4455599999999999
Q ss_pred ccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHH
Q 042003 75 EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQS 154 (248)
Q Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 154 (248)
+-+ |.+....++.. ..+..|++++|||+|..++.+.+..+..|..+.++........+.+.+.-+...++|+..|.++
T Consensus 529 dmg-fePq~~~Ii~n-lrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~q~v~V~~~e~eKf~kL~eL 606 (997)
T KOG0334|consen 529 DMG-FEPQITRILQN-LRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVTQVVRVCAIENEKFLKLLEL 606 (997)
T ss_pred eec-cCcccchHHhh-cchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccceEEEEEecCchHHHHHHHHH
Confidence 777 99988888888 5888999999999999999999998889999999988888888988888888788899999988
Q ss_pred HhccC-CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE
Q 042003 155 FAESL-NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI 233 (248)
Q Consensus 155 ~~~~~-~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi 233 (248)
+.... ..+++|||.+.+.|..+.+.|.+.++.|..+||+.++.+|..++++|++|..++||+|+.+++|+|++++..||
T Consensus 607 l~e~~e~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~~~~LLvaTsvvarGLdv~~l~Lvv 686 (997)
T KOG0334|consen 607 LGERYEDGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNGVVNLLVATSVVARGLDVKELILVV 686 (997)
T ss_pred HHHHhhcCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhccCceEEEehhhhhcccccccceEEE
Confidence 87544 67999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCCcccceecC
Q 042003 234 NYDFPDSGAAYIHRI 248 (248)
Q Consensus 234 ~~~~p~~~~~~~qri 248 (248)
||++|....+|.||+
T Consensus 687 nyd~pnh~edyvhR~ 701 (997)
T KOG0334|consen 687 NYDFPNHYEDYVHRV 701 (997)
T ss_pred EcccchhHHHHHHHh
Confidence 999999999999985
No 37
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3e-34 Score=234.19 Aligned_cols=248 Identities=53% Similarity=0.810 Sum_probs=221.4
Q ss_pred CcchHHHHHHHhh--cCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCC--cccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLA--KGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKK--IDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~--~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~--~~~~~~~~lIiDEah~~ 73 (248)
||.|++..++++. ++.++.....-+... .........++++|+||.++...+..+. ++++++.++|+||++++
T Consensus 221 La~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~~~~~~idl~~V~~lV~dEaD~l 300 (593)
T KOG0344|consen 221 LAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLGLGKLNIDLSKVEWLVVDEADLL 300 (593)
T ss_pred HHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhcCCCccchhheeeeEeechHHhh
Confidence 6889999999998 666633333322222 1122233468999999999999998875 68999999999999999
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
+++..|..++..+...|.++...+-++|||.+...+++......++..+.++..+.....+.+..+++.....|+-.+.+
T Consensus 301 fe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~~~sa~~~V~QelvF~gse~~K~lA~rq 380 (593)
T KOG0344|consen 301 FEPEFFVEQLADIYSACQSPDIRVALFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVDQELVFCGSEKGKLLALRQ 380 (593)
T ss_pred hChhhHHHHHHHHHHHhcCcchhhhhhhccccHHHHHHHHHhhccceeEEEecchhHhhhhhhhheeeecchhHHHHHHH
Confidence 99833999999999999888888889999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHh-hcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEE
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGEL-AFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L-~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~V 232 (248)
++......+++||+.+.+.|.++++.| ...++.+.++||+.++.+|.+.+++|+.|++++|+||+++++|+|+.+++.|
T Consensus 381 ~v~~g~~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~g~IwvLicTdll~RGiDf~gvn~V 460 (593)
T KOG0344|consen 381 LVASGFKPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRIGKIWVLICTDLLARGIDFKGVNLV 460 (593)
T ss_pred HHhccCCCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhccCeeEEEehhhhhccccccCcceE
Confidence 999988899999999999999999999 6778999999999999999999999999999999999999999999999999
Q ss_pred EeccCCCCcccceecC
Q 042003 233 INYDFPDSGAAYIHRI 248 (248)
Q Consensus 233 i~~~~p~~~~~~~qri 248 (248)
|+||.|.+..+|+|||
T Consensus 461 InyD~p~s~~syihrI 476 (593)
T KOG0344|consen 461 INYDFPQSDLSYIHRI 476 (593)
T ss_pred EecCCCchhHHHHHHh
Confidence 9999999999999997
No 38
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=3.4e-33 Score=242.03 Aligned_cols=207 Identities=18% Similarity=0.247 Sum_probs=158.0
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC-cccccchhH---hhhCCCccceeEEEEeecCchHH
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPV---VKACSNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~---~~~~~~~~~~~i~~SAT~~~~~~ 109 (248)
..+..+++++||+++........+...+++++||||||++.+|| +|+..+..+ ... .+..+++++|||+++...
T Consensus 112 ~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~fr~~y~~L~~l~~~--~p~~~~v~lTAT~~~~~~ 189 (607)
T PRK11057 112 RTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDFRPEYAALGQLRQR--FPTLPFMALTATADDTTR 189 (607)
T ss_pred hCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcccHHHHHHHHHHHh--CCCCcEEEEecCCChhHH
Confidence 34568999999999874333333445678999999999999987 355444433 333 246789999999998765
Q ss_pred HHHHHhc--CCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCee
Q 042003 110 ELARSIM--HDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRA 187 (248)
Q Consensus 110 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v 187 (248)
......+ .++.... ... ..+++.... .....+...+..++....++++||||+|+++|+.+++.|++.++++
T Consensus 190 ~di~~~l~l~~~~~~~-~~~--~r~nl~~~v---~~~~~~~~~l~~~l~~~~~~~~IIFc~tr~~~e~la~~L~~~g~~v 263 (607)
T PRK11057 190 QDIVRLLGLNDPLIQI-SSF--DRPNIRYTL---VEKFKPLDQLMRYVQEQRGKSGIIYCNSRAKVEDTAARLQSRGISA 263 (607)
T ss_pred HHHHHHhCCCCeEEEE-CCC--CCCcceeee---eeccchHHHHHHHHHhcCCCCEEEEECcHHHHHHHHHHHHhCCCCE
Confidence 5443332 3333222 211 122222221 1222345666777776667899999999999999999999999999
Q ss_pred EEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 188 GVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 188 ~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
..+||+|++++|..+++.|++|+.+|||||+++++|||+|++++||+||+|.|...|+||+
T Consensus 264 ~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~VI~~d~P~s~~~y~Qr~ 324 (607)
T PRK11057 264 AAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIESYYQET 324 (607)
T ss_pred EEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCEEEEeCCCCCHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999985
No 39
>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=100.00 E-value=3e-33 Score=242.75 Aligned_cols=209 Identities=21% Similarity=0.277 Sum_probs=162.3
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC-cccccchhHhhhCC-CccceeEEEEeecCchHHHH
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPVVKACS-NPSIVRSLFSATLPDFVEEL 111 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~~~~~~-~~~~~~i~~SAT~~~~~~~~ 111 (248)
..+..+++++||+++.+....+.+...+++++|+||||++.+|| .|+..+..+..... -+..+++++|||+++.....
T Consensus 100 ~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~~~~~~~~vi~lTAT~~~~~~~~ 179 (591)
T TIGR01389 100 VNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLAERFPQVPRIALTATADAETRQD 179 (591)
T ss_pred hCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHHHhCCCCCEEEEEeCCCHHHHHH
Confidence 44578999999999876554445556789999999999999887 35555544433211 12345899999999877765
Q ss_pred HHHhcC--CcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEE
Q 042003 112 ARSIMH--DAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGV 189 (248)
Q Consensus 112 ~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~ 189 (248)
....++ ++..+. .. ...+++.... .....+...+.+++....+.++||||++++.++.+++.|...++++..
T Consensus 180 i~~~l~~~~~~~~~-~~--~~r~nl~~~v---~~~~~~~~~l~~~l~~~~~~~~IIf~~sr~~~e~la~~L~~~g~~~~~ 253 (591)
T TIGR01389 180 IRELLRLADANEFI-TS--FDRPNLRFSV---VKKNNKQKFLLDYLKKHRGQSGIIYASSRKKVEELAERLESQGISALA 253 (591)
T ss_pred HHHHcCCCCCCeEe-cC--CCCCCcEEEE---EeCCCHHHHHHHHHHhcCCCCEEEEECcHHHHHHHHHHHHhCCCCEEE
Confidence 555443 332222 11 1122222222 223346677777777766789999999999999999999999999999
Q ss_pred EecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 190 IHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 190 ~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+||+|+.++|+.+++.|.+|+++|||||+++++|||+|++++||+|++|.|...|.||+
T Consensus 254 ~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~ 312 (591)
T TIGR01389 254 YHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNLESYYQEA 312 (591)
T ss_pred EECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCCCHHHHhhhh
Confidence 99999999999999999999999999999999999999999999999999999999985
No 40
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=9.7e-33 Score=243.66 Aligned_cols=208 Identities=17% Similarity=0.187 Sum_probs=155.5
Q ss_pred CCCcEEEeChHHHHH--HHhc---CCcccCceeEEEEeccccccccC-cccccchhH--hhhCCCccceeEEEEeecCch
Q 042003 36 FSCDILISTPLRLRL--AIRR---KKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPV--VKACSNPSIVRSLFSATLPDF 107 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~--~~~~---~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~--~~~~~~~~~~~i~~SAT~~~~ 107 (248)
+.++|+++||+++.. .+.+ .......+.++||||||++.+|| +|+..+..+ +.. ..+..+++++|||+++.
T Consensus 551 g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~LslIVIDEAHcVSqWGhDFRpdYr~L~~Lr~-~fp~vPilALTATAT~~ 629 (1195)
T PLN03137 551 SKYKLLYVTPEKVAKSDSLLRHLENLNSRGLLARFVIDEAHCVSQWGHDFRPDYQGLGILKQ-KFPNIPVLALTATATAS 629 (1195)
T ss_pred CCCCEEEEChHHhhcchHHHHHHHhhhhccccceeccCcchhhhhcccchHHHHHHHHHHHH-hCCCCCeEEEEecCCHH
Confidence 568999999999853 1221 11123558899999999999997 566655543 222 22467889999999988
Q ss_pred HHHHHHHhcCCc-EEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc-CCCCEEEEecchHHHHHHHHHhhcCCC
Q 042003 108 VEELARSIMHDA-VRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES-LNPPVLIFVQSKERAKELYGELAFDGI 185 (248)
Q Consensus 108 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~liF~~~~~~~~~l~~~L~~~~~ 185 (248)
....+...++-. ..+... ....+++...+ ..........+..++... .+.+.||||+++++++.+++.|++.|+
T Consensus 630 V~eDI~~~L~l~~~~vfr~--Sf~RpNL~y~V--v~k~kk~le~L~~~I~~~~~~esgIIYC~SRke~E~LAe~L~~~Gi 705 (1195)
T PLN03137 630 VKEDVVQALGLVNCVVFRQ--SFNRPNLWYSV--VPKTKKCLEDIDKFIKENHFDECGIIYCLSRMDCEKVAERLQEFGH 705 (1195)
T ss_pred HHHHHHHHcCCCCcEEeec--ccCccceEEEE--eccchhHHHHHHHHHHhcccCCCceeEeCchhHHHHHHHHHHHCCC
Confidence 777555443322 222221 12223332222 222222345566666543 356899999999999999999999999
Q ss_pred eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 186 RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 186 ~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
++..+||+|++++|..+++.|.+|+.+|||||+++++|||+|++++||||++|.|+..|+||+
T Consensus 706 ka~~YHAGLs~eeR~~vqe~F~~Gei~VLVATdAFGMGIDkPDVR~VIHydlPkSiEsYyQri 768 (1195)
T PLN03137 706 KAAFYHGSMDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQEC 768 (1195)
T ss_pred CeeeeeCCCCHHHHHHHHHHHhcCCCcEEEEechhhcCCCccCCcEEEEcCCCCCHHHHHhhh
Confidence 999999999999999999999999999999999999999999999999999999999999995
No 41
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=1.2e-32 Score=246.53 Aligned_cols=224 Identities=22% Similarity=0.288 Sum_probs=160.4
Q ss_pred EEEEcccchhhh---cccccCCCcEEEeChHHHHHHHhcCCc--ccCceeEEEEeccccccccCcccc----cchhHhhh
Q 042003 19 QIKLMKKELVRS---TDLSKFSCDILISTPLRLRLAIRRKKI--DLSRVEYLVLDEADKLFEVGNLLK----HIDPVVKA 89 (248)
Q Consensus 19 ~~~~~~~~~~~~---~~~~~~~~~i~v~Tp~~l~~~~~~~~~--~~~~~~~lIiDEah~~~~~~~~~~----~~~~~~~~ 89 (248)
..+....|+... .....+.++|+|+||+++..++..... .+++++++|+||+|.+.+.. +.. .+.++...
T Consensus 125 i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~VVIDE~H~l~~~~-RG~~l~~~L~rL~~l 203 (876)
T PRK13767 125 IRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREKLRTVKWVIVDEIHSLAENK-RGVHLSLSLERLEEL 203 (876)
T ss_pred eeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhHHHHHhcCCEEEEechhhhccCc-cHHHHHHHHHHHHHh
Confidence 567777776632 234566899999999999877765433 47899999999999988653 333 23333333
Q ss_pred CCCccceeEEEEeecCchHHHHHHHhcCC-------cEEEEEcccccccccceeE-----EEEcCC---chhHHHHHHHH
Q 042003 90 CSNPSIVRSLFSATLPDFVEELARSIMHD-------AVRVIVGRKNTASESIKQK-----LVFAGS---EEGKLLALRQS 154 (248)
Q Consensus 90 ~~~~~~~~i~~SAT~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~-----~~~~~~---~~~~~~~l~~~ 154 (248)
.....|++++|||+++ ......++.+. +..+..... .....+... ...... .......+.++
T Consensus 204 -~~~~~q~IglSATl~~-~~~va~~L~~~~~~~~~r~~~iv~~~~-~k~~~i~v~~p~~~l~~~~~~~~~~~l~~~L~~~ 280 (876)
T PRK13767 204 -AGGEFVRIGLSATIEP-LEEVAKFLVGYEDDGEPRDCEIVDARF-VKPFDIKVISPVDDLIHTPAEEISEALYETLHEL 280 (876)
T ss_pred -cCCCCeEEEEecccCC-HHHHHHHhcCccccCCCCceEEEccCC-CccceEEEeccCccccccccchhHHHHHHHHHHH
Confidence 3457899999999987 45555555432 122211111 000000000 000011 11223444444
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhhcC------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELAFD------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG 228 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~~~------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~ 228 (248)
++. ++++||||||++.|+.++..|++. +..+..+||++++++|..+++.|++|+.++||||+++++|||+|+
T Consensus 281 i~~--~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~i~vLVaTs~Le~GIDip~ 358 (876)
T PRK13767 281 IKE--HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGELKVVVSSTSLELGIDIGY 358 (876)
T ss_pred Hhc--CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCCCeEEEECChHHhcCCCCC
Confidence 444 579999999999999999999863 468999999999999999999999999999999999999999999
Q ss_pred CcEEEeccCCCCcccceecC
Q 042003 229 VNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 229 ~~~Vi~~~~p~~~~~~~qri 248 (248)
+++||+++.|.|+.+|+||+
T Consensus 359 Vd~VI~~~~P~sv~~ylQRi 378 (876)
T PRK13767 359 IDLVVLLGSPKSVSRLLQRI 378 (876)
T ss_pred CcEEEEeCCCCCHHHHHHhc
Confidence 99999999999999999996
No 42
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=4.9e-33 Score=223.02 Aligned_cols=245 Identities=30% Similarity=0.422 Sum_probs=186.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hhcccccCCC----cEEEeChHHHHHHHhc-CCcccCceeEEEEeccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RSTDLSKFSC----DILISTPLRLRLAIRR-KKIDLSRVEYLVLDEAD 71 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~----~i~v~Tp~~l~~~~~~-~~~~~~~~~~lIiDEah 71 (248)
|+.|++..+.++..+.++. |+...|.. +...+....+ ||+|+||++|.+++.+ ..+.+++++++||||||
T Consensus 227 L~~QV~~~f~~~~~~tgL~-V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDEAD 305 (620)
T KOG0350|consen 227 LALQVYDTFKRLNSGTGLA-VCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDEAD 305 (620)
T ss_pred HHHHHHHHHHHhccCCceE-EEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCCCcchhhceEEEechHH
Confidence 6889999999999999955 66666655 3333333334 9999999999999996 67899999999999999
Q ss_pred cccccCcccccchhHhhhCCC---------------------------------ccceeEEEEeecCchHHHHHHHhcCC
Q 042003 72 KLFEVGNLLKHIDPVVKACSN---------------------------------PSIVRSLFSATLPDFVEELARSIMHD 118 (248)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~---------------------------------~~~~~i~~SAT~~~~~~~~~~~~~~~ 118 (248)
++++.. |..|+..+...+.. ++.+.+.+|||+......+...-...
T Consensus 306 Rll~qs-fQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l~~ 384 (620)
T KOG0350|consen 306 RLLDQS-FQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTLHI 384 (620)
T ss_pred HHHHHH-HHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhhcchhhhcChHHHhhhhcCC
Confidence 998765 55555555444332 22345677777776555555554555
Q ss_pred cEEEEEc----ccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhh----cCCCeeEEE
Q 042003 119 AVRVIVG----RKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELA----FDGIRAGVI 190 (248)
Q Consensus 119 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~----~~~~~v~~~ 190 (248)
|....+. .....+..+.+....++. ..+-..+..++......++|+|+++.+.+.+++..|+ +.+.++-.+
T Consensus 385 Prl~~v~~~~~~ryslp~~l~~~~vv~~~-~~kpl~~~~lI~~~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~ 463 (620)
T KOG0350|consen 385 PRLFHVSKPLIGRYSLPSSLSHRLVVTEP-KFKPLAVYALITSNKLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEF 463 (620)
T ss_pred CceEEeecccceeeecChhhhhceeeccc-ccchHhHHHHHHHhhcceEEEEecchHHHHHHHHHHHHHhccccchhhhh
Confidence 5333333 122233334444433333 3455666677777778899999999999999999887 346677789
Q ss_pred ecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 191 HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 191 ~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.|+++...|...++.|..|++.+||||+++++|+|+-+++.||+||+|.+..+|+||+
T Consensus 464 t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~P~~~ktyVHR~ 521 (620)
T KOG0350|consen 464 TGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDPPASDKTYVHRA 521 (620)
T ss_pred hhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCCCchhhHHHHhh
Confidence 9999999999999999999999999999999999999999999999999999999996
No 43
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=5.5e-32 Score=239.77 Aligned_cols=242 Identities=21% Similarity=0.208 Sum_probs=172.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
||.|.++.++++.+ .+ .++...+|+..........++|+|+||+++..++.++...+++++++|+||+|.+.+.+ +.
T Consensus 79 La~q~~~~~~~~~~-~g-~~v~~~tGd~~~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H~l~d~~-rg 155 (737)
T PRK02362 79 LASEKFEEFERFEE-LG-VRVGISTGDYDSRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVHLIDSAN-RG 155 (737)
T ss_pred HHHHHHHHHHHhhc-CC-CEEEEEeCCcCccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECccccCCCc-ch
Confidence 67899999988764 35 55666677664444344568999999999999988766678999999999999998765 66
Q ss_pred ccchhHhhhC--CCccceeEEEEeecCchHHHHHHHhcCCc-------EEEEEcc--cccccccceeEEEEcCCchhHHH
Q 042003 81 KHIDPVVKAC--SNPSIVRSLFSATLPDFVEELARSIMHDA-------VRVIVGR--KNTASESIKQKLVFAGSEEGKLL 149 (248)
Q Consensus 81 ~~~~~~~~~~--~~~~~~~i~~SAT~~~~~~~~~~~~~~~~-------~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 149 (248)
..+..++..+ .....|++++|||+++ ..++..|+.... ....... .......-.+............+
T Consensus 156 ~~le~il~rl~~~~~~~qii~lSATl~n-~~~la~wl~~~~~~~~~rpv~l~~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (737)
T PRK02362 156 PTLEVTLAKLRRLNPDLQVVALSATIGN-ADELADWLDAELVDSEWRPIDLREGVFYGGAIHFDDSQREVEVPSKDDTLN 234 (737)
T ss_pred HHHHHHHHHHHhcCCCCcEEEEcccCCC-HHHHHHHhCCCcccCCCCCCCCeeeEecCCeeccccccccCCCccchHHHH
Confidence 6665554432 2456899999999986 556666653221 1100000 00000000001111111123444
Q ss_pred HHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC------------------------------------CCeeEEEecC
Q 042003 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFD------------------------------------GIRAGVIHSD 193 (248)
Q Consensus 150 ~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~------------------------------------~~~v~~~~~~ 193 (248)
.+.+.+. .++++||||++++.|+.+++.|... ..+++++||+
T Consensus 235 ~~~~~~~--~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHag 312 (737)
T PRK02362 235 LVLDTLE--EGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAG 312 (737)
T ss_pred HHHHHHH--cCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCC
Confidence 4544444 3689999999999999988877532 1378999999
Q ss_pred CCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe----cc-----CCCCcccceecC
Q 042003 194 LSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN----YD-----FPDSGAAYIHRI 248 (248)
Q Consensus 194 ~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~----~~-----~p~~~~~~~qri 248 (248)
|++++|+.+++.|++|.++|||||+++++|+|+|+.++||+ |+ .|.+..+|+||+
T Consensus 313 l~~~eR~~ve~~Fr~G~i~VLvaT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~ 376 (737)
T PRK02362 313 LSREHRELVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMA 376 (737)
T ss_pred CCHHHHHHHHHHHHcCCCeEEEechhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHh
Confidence 99999999999999999999999999999999999999997 66 588999999985
No 44
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.98 E-value=1.9e-31 Score=230.58 Aligned_cols=242 Identities=21% Similarity=0.215 Sum_probs=185.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhh---cccccCCCcEEEeChHHHHHHHhcCCc--ccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRS---TDLSKFSCDILISTPLRLRLAIRRKKI--DLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~i~v~Tp~~l~~~~~~~~~--~~~~~~~lIiDEah~~~~ 75 (248)
|+..+...++.+++..| ..+....|...+ ..+.++-|||+|+|||+|.-++..... .+++++++||||.|.+.+
T Consensus 85 Ln~Di~~rL~~~~~~~G-~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~ 163 (814)
T COG1201 85 LNNDIRRRLEEPLRELG-IEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE 163 (814)
T ss_pred HHHHHHHHHHHHHHHcC-CccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhhhc
Confidence 45667788888888888 555677776633 355667799999999999988877533 589999999999999876
Q ss_pred cC--cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCc--EEEEEcccccccccceeEEEE------cCCch
Q 042003 76 VG--NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDA--VRVIVGRKNTASESIKQKLVF------AGSEE 145 (248)
Q Consensus 76 ~~--~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~------~~~~~ 145 (248)
.. ......-+.+..+.. +.|.|++|||..+ .....+++.+.. ..+. .........++-.... -....
T Consensus 164 sKRG~~Lsl~LeRL~~l~~-~~qRIGLSATV~~-~~~varfL~g~~~~~~Iv-~~~~~k~~~i~v~~p~~~~~~~~~~~~ 240 (814)
T COG1201 164 SKRGVQLALSLERLRELAG-DFQRIGLSATVGP-PEEVAKFLVGFGDPCEIV-DVSAAKKLEIKVISPVEDLIYDEELWA 240 (814)
T ss_pred cccchhhhhhHHHHHhhCc-ccEEEeehhccCC-HHHHHHHhcCCCCceEEE-EcccCCcceEEEEecCCccccccchhH
Confidence 53 222222233333333 8999999999986 777777777664 3332 2222121211111100 11113
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCC-CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG-IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM 224 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~-~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi 224 (248)
.....+.++++++ +.++||+||+..++.++..|++.+ ..+..+||+++.+.|..+.+.|++|+.+.+|||+.++.||
T Consensus 241 ~~~~~i~~~v~~~--~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLELGI 318 (814)
T COG1201 241 ALYERIAELVKKH--RTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLELGI 318 (814)
T ss_pred HHHHHHHHHHhhc--CcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchhhcc
Confidence 4567777777775 599999999999999999999886 7999999999999999999999999999999999999999
Q ss_pred CCCCCcEEEeccCCCCcccceecC
Q 042003 225 DFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 225 dip~~~~Vi~~~~p~~~~~~~qri 248 (248)
|+.+++.||+++.|.+++.++|||
T Consensus 319 DiG~vdlVIq~~SP~sV~r~lQRi 342 (814)
T COG1201 319 DIGDIDLVIQLGSPKSVNRFLQRI 342 (814)
T ss_pred ccCCceEEEEeCCcHHHHHHhHhc
Confidence 999999999999999999999997
No 45
>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=99.97 E-value=1.3e-30 Score=226.63 Aligned_cols=237 Identities=15% Similarity=0.169 Sum_probs=174.4
Q ss_pred CcchHHHHHHHhhcCCC----------------------cEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcC
Q 042003 1 LATQTTRECKKLAKGNK----------------------FQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRK 55 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~----------------------~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~ 55 (248)
||.|+++.++++++..+ -.++..++||. .+......+++|+|+|++.+.+.....
T Consensus 74 La~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~sr~L~~ 153 (844)
T TIGR02621 74 VVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIGSRLLFS 153 (844)
T ss_pred HHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHcCCcccc
Confidence 68899999999988652 15566667775 555667778999999975553322210
Q ss_pred ---------Cc---ccCceeEEEEeccccccccCcccccchhHhhhC-CCc---cceeEEEEeecCchHHHHHHHhcCCc
Q 042003 56 ---------KI---DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKAC-SNP---SIVRSLFSATLPDFVEELARSIMHDA 119 (248)
Q Consensus 56 ---------~~---~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~-~~~---~~~~i~~SAT~~~~~~~~~~~~~~~~ 119 (248)
.+ .++++.++|+|||| ++.+ |...+..+.+.. .+. +.|+++||||++.........++.++
T Consensus 154 gYg~~~~~~pi~ag~L~~v~~LVLDEAD--Ld~g-F~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p 230 (844)
T TIGR02621 154 GYGCGFKSRPLHAGFLGQDALIVHDEAH--LEPA-FQELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAED 230 (844)
T ss_pred ccccccccccchhhhhccceEEEEehhh--hccc-cHHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCC
Confidence 01 26889999999999 4555 889999998863 122 36999999999988877777777677
Q ss_pred EEEEEcccccccccceeEEEEcCCchhHHHH----HHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 120 VRVIVGRKNTASESIKQKLVFAGSEEGKLLA----LRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
....+........++.++ +.... +.+... +..... ..++++||||||++.|+.+++.|++.++ ..+||+|+
T Consensus 231 ~~i~V~~~~l~a~ki~q~-v~v~~-e~Kl~~lv~~L~~ll~-e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~ 305 (844)
T TIGR02621 231 YKHPVLKKRLAAKKIVKL-VPPSD-EKFLSTMVKELNLLMK-DSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLR 305 (844)
T ss_pred ceeecccccccccceEEE-EecCh-HHHHHHHHHHHHHHHh-hCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCC
Confidence 665555444444444443 22222 233332 222232 2367999999999999999999998876 89999999
Q ss_pred HHHHH-----HHHHHhhc----CC-------ceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 196 QTQRE-----NAVDDFRA----GK-------TWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 196 ~~~r~-----~~~~~f~~----g~-------~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+.+|. .+++.|++ |+ ..|||||+++++|+|++. ++||++..| .+.|+||+
T Consensus 306 q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~aP--~esyIQRi 371 (844)
T TIGR02621 306 GAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLAP--FESMQQRF 371 (844)
T ss_pred HHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhhcccCCc-ceEEECCCC--HHHHHHHh
Confidence 99999 78899987 44 679999999999999986 888887766 58999996
No 46
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.4e-31 Score=223.95 Aligned_cols=212 Identities=22% Similarity=0.284 Sum_probs=164.8
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC-cccccchhHhhhCCC-ccceeEEEEeecCchHHHH
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPVVKACSN-PSIVRSLFSATLPDFVEEL 111 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~~~ 111 (248)
..+..+++.-+||++..-...+.+..-.+.+++|||||++.+|| +|++.+..+...... +++.++++|||.++.+..-
T Consensus 104 ~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~D 183 (590)
T COG0514 104 KSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRPDYRRLGRLRAGLPNPPVLALTATATPRVRDD 183 (590)
T ss_pred hcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCHhHHHHHHHHhhCCCCCEEEEeCCCChHHHHH
Confidence 34458999999999876655555556778899999999999998 788888777554322 4778899999999988887
Q ss_pred HHHhcCCcE-EEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEE
Q 042003 112 ARSIMHDAV-RVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVI 190 (248)
Q Consensus 112 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~ 190 (248)
+...+.-.. .+... ....+++........+...+...+.+ ......+..||||.|++.++.+++.|+..|+++..+
T Consensus 184 I~~~L~l~~~~~~~~--sfdRpNi~~~v~~~~~~~~q~~fi~~-~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~Y 260 (590)
T COG0514 184 IREQLGLQDANIFRG--SFDRPNLALKVVEKGEPSDQLAFLAT-VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAY 260 (590)
T ss_pred HHHHhcCCCcceEEe--cCCCchhhhhhhhcccHHHHHHHHHh-hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEe
Confidence 766443222 22222 22233343333333333344444443 123336789999999999999999999999999999
Q ss_pred ecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 191 HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 191 ~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
|+||+.++|+.+.++|..++.+|+|||.++++|||-|+++.||||++|.|++.|.|.+
T Consensus 261 HaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfViH~~lP~s~EsYyQE~ 318 (590)
T COG0514 261 HAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVIHYDLPGSIESYYQET 318 (590)
T ss_pred cCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEEEecCCCCHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999964
No 47
>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=99.97 E-value=2e-30 Score=230.70 Aligned_cols=230 Identities=19% Similarity=0.167 Sum_probs=168.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh---hc----ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR---ST----DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~---~~----~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||.|+++.++++.+..+ ..+..+.|+.. .. .+..+.++|+|+||..+ .....+++++++|+||+|++
T Consensus 512 LA~Q~~~~f~~~~~~~~-i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll-----~~~v~f~~L~llVIDEahrf 585 (926)
T TIGR00580 512 LAQQHFETFKERFANFP-VTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLL-----QKDVKFKDLGLLIIDEEQRF 585 (926)
T ss_pred HHHHHHHHHHHHhccCC-cEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHh-----hCCCCcccCCEEEeeccccc
Confidence 78999999999888887 55555555431 11 12234699999999432 34567899999999999995
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
.. .....++. .....++++||||+.++...+......++..+...+... ..+..++.... .......+..
T Consensus 586 gv------~~~~~L~~-~~~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~R--~~V~t~v~~~~-~~~i~~~i~~ 655 (926)
T TIGR00580 586 GV------KQKEKLKE-LRTSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDR--LPVRTFVMEYD-PELVREAIRR 655 (926)
T ss_pred ch------hHHHHHHh-cCCCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCCc--cceEEEEEecC-HHHHHHHHHH
Confidence 32 22333443 345689999999988877666555555555554433221 23444433222 1111233333
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
.+.+ +++++||||+++.++.+++.|++. +.++..+||+|++++|+++++.|++|+.+|||||+++++|+|+|++++
T Consensus 656 el~~--g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~ 733 (926)
T TIGR00580 656 ELLR--GGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANT 733 (926)
T ss_pred HHHc--CCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCE
Confidence 3333 679999999999999999999874 789999999999999999999999999999999999999999999999
Q ss_pred EEeccCCC-CcccceecC
Q 042003 232 VINYDFPD-SGAAYIHRI 248 (248)
Q Consensus 232 Vi~~~~p~-~~~~~~qri 248 (248)
||++++|. +..+|.||+
T Consensus 734 VIi~~a~~~gls~l~Qr~ 751 (926)
T TIGR00580 734 IIIERADKFGLAQLYQLR 751 (926)
T ss_pred EEEecCCCCCHHHHHHHh
Confidence 99999975 567888874
No 48
>PRK00254 ski2-like helicase; Provisional
Probab=99.97 E-value=7.8e-31 Score=231.95 Aligned_cols=239 Identities=21% Similarity=0.184 Sum_probs=169.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
||.|+++.++.+.+ .+ ..+....|+........+.++|+|+||+++..++.++...+++++++|+||+|.+.+.+ +.
T Consensus 80 La~q~~~~~~~~~~-~g-~~v~~~~Gd~~~~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H~l~~~~-rg 156 (720)
T PRK00254 80 LAEEKYREFKDWEK-LG-LRVAMTTGDYDSTDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIHLIGSYD-RG 156 (720)
T ss_pred HHHHHHHHHHHHhh-cC-CEEEEEeCCCCCchhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcCccCCcc-ch
Confidence 57888888887643 45 56666666654433344578999999999999888776778999999999999998776 67
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccc-c-ceeEEEEcCCc------hhHHHHHH
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASE-S-IKQKLVFAGSE------EGKLLALR 152 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~------~~~~~~l~ 152 (248)
..+..++... ....|++++|||+++ ..++..|+.... +.......+.. . ..+......+. ......+.
T Consensus 157 ~~le~il~~l-~~~~qiI~lSATl~n-~~~la~wl~~~~--~~~~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (720)
T PRK00254 157 ATLEMILTHM-LGRAQILGLSATVGN-AEELAEWLNAEL--VVSDWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVY 232 (720)
T ss_pred HHHHHHHHhc-CcCCcEEEEEccCCC-HHHHHHHhCCcc--ccCCCCCCcceeeEecCCeeeccCcchhcchHHHHHHHH
Confidence 7777777773 467899999999987 566666653321 11111111110 0 01111111111 11123333
Q ss_pred HHHhccCCCCEEEEecchHHHHHHHHHhhc---------------------------------CCCeeEEEecCCCHHHH
Q 042003 153 QSFAESLNPPVLIFVQSKERAKELYGELAF---------------------------------DGIRAGVIHSDLSQTQR 199 (248)
Q Consensus 153 ~~~~~~~~~~~liF~~~~~~~~~l~~~L~~---------------------------------~~~~v~~~~~~~~~~~r 199 (248)
+.+.. ++++||||+|++.|+.++..|.+ ...+++++||+|++++|
T Consensus 233 ~~i~~--~~~vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR 310 (720)
T PRK00254 233 DAVKK--GKGALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTER 310 (720)
T ss_pred HHHHh--CCCEEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHH
Confidence 44443 67999999999999887766632 12369999999999999
Q ss_pred HHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe-------ccCCC-CcccceecC
Q 042003 200 ENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN-------YDFPD-SGAAYIHRI 248 (248)
Q Consensus 200 ~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~-------~~~p~-~~~~~~qri 248 (248)
..+++.|++|.++|||||+++++|+|+|+.++||. ++.|. +..+|+||+
T Consensus 311 ~~ve~~F~~G~i~VLvaT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~ 367 (720)
T PRK00254 311 VLIEDAFREGLIKVITATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMM 367 (720)
T ss_pred HHHHHHHHCCCCeEEEeCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhh
Confidence 99999999999999999999999999999999994 56554 456888885
No 49
>PRK09401 reverse gyrase; Reviewed
Probab=99.97 E-value=2.4e-30 Score=235.15 Aligned_cols=234 Identities=20% Similarity=0.242 Sum_probs=172.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh---h----c-ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR---S----T-DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~---~----~-~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~ 72 (248)
||.|+++.+++++...+.....+.+++.. + . .+..++++|+|+||+++.+.+. .+...+++++|+||||+
T Consensus 135 La~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~--~l~~~~~~~lVvDEaD~ 212 (1176)
T PRK09401 135 LVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD--ELPKKKFDFVFVDDVDA 212 (1176)
T ss_pred HHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH--hccccccCEEEEEChHH
Confidence 78999999999999888444444444321 1 1 1123569999999999998876 45556799999999999
Q ss_pred ccccC----------ccc-ccchhHhhhCC-----------------------CccceeEEEEeecCchHHHHHHHhcCC
Q 042003 73 LFEVG----------NLL-KHIDPVVKACS-----------------------NPSIVRSLFSATLPDFVEELARSIMHD 118 (248)
Q Consensus 73 ~~~~~----------~~~-~~~~~~~~~~~-----------------------~~~~~~i~~SAT~~~~~~~~~~~~~~~ 118 (248)
+++++ .|. ..+..++..+. ....|++++|||+++..... .++.+
T Consensus 213 ~L~~~k~id~~l~~lGF~~~~i~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~--~l~~~ 290 (1176)
T PRK09401 213 VLKSSKNIDKLLYLLGFSEEDIEKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRV--KLFRE 290 (1176)
T ss_pred hhhcccchhhHHHhCCCCHHHHHHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHH--HHhhc
Confidence 98642 142 23444443322 12679999999998742211 23344
Q ss_pred cEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHH---HHHHHHHhhcCCCeeEEEecCCC
Q 042003 119 AVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER---AKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 119 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~---~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
+..+.++.......++.+.+.... ++...+.++++.. +.++||||++... ++.+++.|+..|+++..+||+|
T Consensus 291 ll~~~v~~~~~~~rnI~~~yi~~~---~k~~~L~~ll~~l-~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l- 365 (1176)
T PRK09401 291 LLGFEVGSPVFYLRNIVDSYIVDE---DSVEKLVELVKRL-GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF- 365 (1176)
T ss_pred cceEEecCcccccCCceEEEEEcc---cHHHHHHHHHHhc-CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-
Confidence 555666666666677777776554 4666777877766 4689999999777 9999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCceEEEE----ecccccCCCCCC-CcEEEeccCCC------Ccccceec
Q 042003 196 QTQRENAVDDFRAGKTWVLIA----TDVIARGMDFKG-VNCVINYDFPD------SGAAYIHR 247 (248)
Q Consensus 196 ~~~r~~~~~~f~~g~~~ilv~----T~~~~~Gidip~-~~~Vi~~~~p~------~~~~~~qr 247 (248)
+..++.|++|+.+|||| |+++++|+|+|+ +++|||||.|. ....|.||
T Consensus 366 ----~~~l~~F~~G~~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~ 424 (1176)
T PRK09401 366 ----ERKFEKFEEGEVDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFL 424 (1176)
T ss_pred ----HHHHHHHHCCCCCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHH
Confidence 23459999999999999 689999999999 89999999998 44455554
No 50
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=7e-30 Score=231.64 Aligned_cols=230 Identities=19% Similarity=0.130 Sum_probs=167.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhccc----ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDL----SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~----~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||.|+++.+++.....+ ..+..+.|+. .+... ..+.++|+|+||+.+ .....+++++++|+||+|++
T Consensus 661 LA~Q~~~~f~~~~~~~~-v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL-----~~~v~~~~L~lLVIDEahrf 734 (1147)
T PRK10689 661 LAQQHYDNFRDRFANWP-VRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLL-----QSDVKWKDLGLLIVDEEHRF 734 (1147)
T ss_pred HHHHHHHHHHHhhccCC-ceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHH-----hCCCCHhhCCEEEEechhhc
Confidence 68999999998777766 4444444433 22221 235789999999643 23456789999999999996
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
.. . ....++. .+.+.|++++|||+.+....+....+.++..+....... ..+.+..........+...+.+
T Consensus 735 G~----~--~~e~lk~-l~~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r--~~v~~~~~~~~~~~~k~~il~e 805 (1147)
T PRK10689 735 GV----R--HKERIKA-MRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARR--LAVKTFVREYDSLVVREAILRE 805 (1147)
T ss_pred ch----h--HHHHHHh-cCCCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCC--CCceEEEEecCcHHHHHHHHHH
Confidence 22 1 1233444 346789999999998888887777777777665544322 2344444333222223333333
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
+. . +++++||||+++.++.+++.|++. +.++..+||+|++++|+++++.|++|+.+|||||+++++|+|+|++++
T Consensus 806 l~-r--~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~ 882 (1147)
T PRK10689 806 IL-R--GGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANT 882 (1147)
T ss_pred Hh-c--CCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCE
Confidence 33 2 578999999999999999999887 778999999999999999999999999999999999999999999999
Q ss_pred EEeccCC-CCcccceecC
Q 042003 232 VINYDFP-DSGAAYIHRI 248 (248)
Q Consensus 232 Vi~~~~p-~~~~~~~qri 248 (248)
||+.+.. .+..+|.||+
T Consensus 883 VIi~~ad~fglaq~~Qr~ 900 (1147)
T PRK10689 883 IIIERADHFGLAQLHQLR 900 (1147)
T ss_pred EEEecCCCCCHHHHHHHh
Confidence 9955443 3455688874
No 51
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.97 E-value=1.3e-29 Score=222.01 Aligned_cols=230 Identities=16% Similarity=0.202 Sum_probs=160.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhh-------cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRS-------TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||.|+++.++++.+..+ ..+.++.|+... .....+.++|+|+||+.+.. ...+++++++|+||+|++
T Consensus 322 LA~Q~~~~l~~l~~~~~-i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~-----~v~~~~l~lvVIDE~Hrf 395 (681)
T PRK10917 322 LAEQHYENLKKLLEPLG-IRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD-----DVEFHNLGLVIIDEQHRF 395 (681)
T ss_pred HHHHHHHHHHHHHhhcC-cEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc-----cchhcccceEEEechhhh
Confidence 78999999999999888 566666666521 12234469999999986633 345789999999999996
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
... .+. .+.. ....+++++||||+.+....+.. .++...............+...+......+.....+.+
T Consensus 396 g~~--qr~----~l~~-~~~~~~iL~~SATp~prtl~~~~--~g~~~~s~i~~~p~~r~~i~~~~~~~~~~~~~~~~i~~ 466 (681)
T PRK10917 396 GVE--QRL----ALRE-KGENPHVLVMTATPIPRTLAMTA--YGDLDVSVIDELPPGRKPITTVVIPDSRRDEVYERIRE 466 (681)
T ss_pred hHH--HHH----HHHh-cCCCCCEEEEeCCCCHHHHHHHH--cCCCceEEEecCCCCCCCcEEEEeCcccHHHHHHHHHH
Confidence 432 111 2222 23357899999998775544433 33322222221111122344444333322333344444
Q ss_pred HHhccCCCCEEEEecch--------HHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 154 SFAESLNPPVLIFVQSK--------ERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~--------~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
.+.+ +++++|||+.+ ..++.+++.|.+. ++++..+||+|++++|+++++.|++|+.+|||||+++++|
T Consensus 467 ~~~~--g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~G 544 (681)
T PRK10917 467 EIAK--GRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVG 544 (681)
T ss_pred HHHc--CCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeC
Confidence 4433 67999999964 3456777888765 5789999999999999999999999999999999999999
Q ss_pred CCCCCCcEEEeccCCCC-cccceec
Q 042003 224 MDFKGVNCVINYDFPDS-GAAYIHR 247 (248)
Q Consensus 224 idip~~~~Vi~~~~p~~-~~~~~qr 247 (248)
+|+|++++||++++|.. .+++.||
T Consensus 545 iDip~v~~VIi~~~~r~gls~lhQ~ 569 (681)
T PRK10917 545 VDVPNATVMVIENAERFGLAQLHQL 569 (681)
T ss_pred cccCCCcEEEEeCCCCCCHHHHHHH
Confidence 99999999999999974 5666665
No 52
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.9e-29 Score=203.52 Aligned_cols=246 Identities=23% Similarity=0.294 Sum_probs=175.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNL 79 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~ 79 (248)
|+.|+++.|++.....+..++.+.+... +.+...+...+|+|+||+.+.+-+..+.++++++.++|+||||+-.+..+|
T Consensus 70 LV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAHRAvGnyAY 149 (542)
T COG1111 70 LVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAHRAVGNYAY 149 (542)
T ss_pred HHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhhhccCcchH
Confidence 6889999999988887644444444444 446778889999999999999999999999999999999999998776545
Q ss_pred cccchhHhhhCCCccceeEEEEeecCchHHHH---HHHhcCCcEEEEEccccc---------------------------
Q 042003 80 LKHIDPVVKACSNPSIVRSLFSATLPDFVEEL---ARSIMHDAVRVIVGRKNT--------------------------- 129 (248)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~---~~~~~~~~~~~~~~~~~~--------------------------- 129 (248)
.......++. ..++.++++|||+....+.+ +..+.-....+.......
T Consensus 150 v~Va~~y~~~--~k~~~ilgLTASPGs~~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~ 227 (542)
T COG1111 150 VFVAKEYLRS--AKNPLILGLTASPGSDLEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDL 227 (542)
T ss_pred HHHHHHHHHh--ccCceEEEEecCCCCCHHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHH
Confidence 5555555554 34678999999975432222 111111111110000000
Q ss_pred --------------------cc------------------cc-----------------------------ce-------
Q 042003 130 --------------------AS------------------ES-----------------------------IK------- 135 (248)
Q Consensus 130 --------------------~~------------------~~-----------------------------~~------- 135 (248)
.. .+ +.
T Consensus 228 l~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~ 307 (542)
T COG1111 228 LRDALKPRLKPLKELGVIESSSPVSKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLE 307 (542)
T ss_pred HHHHHHHHHHHHHHcCceeccCcccHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence 00 00 00
Q ss_pred ------------------------------eEEEEcCCchhHHHHHHHHH----hccCCCCEEEEecchHHHHHHHHHhh
Q 042003 136 ------------------------------QKLVFAGSEEGKLLALRQSF----AESLNPPVLIFVQSKERAKELYGELA 181 (248)
Q Consensus 136 ------------------------------~~~~~~~~~~~~~~~l~~~~----~~~~~~~~liF~~~~~~~~~l~~~L~ 181 (248)
...........|+..+.+++ ++..+.++|||++.+++|+.+.+.|.
T Consensus 308 ~l~e~~~~~~sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~ 387 (542)
T COG1111 308 KLEEEATKGGSKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLK 387 (542)
T ss_pred HHHHHhcccchHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHH
Confidence 00000111112333344433 34446799999999999999999999
Q ss_pred cCCCeeE-EE--------ecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 182 FDGIRAG-VI--------HSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 182 ~~~~~v~-~~--------~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+.+.++. .+ ..||+++++.++++.|++|..++||||++.++|+|+|+++.||.|++..|..+++||.
T Consensus 388 ~~~~~~~~rFiGQa~r~~~~GMsQkeQ~eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~ 463 (542)
T COG1111 388 KIGIKARVRFIGQASREGDKGMSQKEQKEIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRK 463 (542)
T ss_pred hcCCcceeEEeeccccccccccCHHHHHHHHHHHhcCCceEEEEcccccccCCCCcccEEEEecCCcHHHHHHHhh
Confidence 9887774 33 2579999999999999999999999999999999999999999999999999999994
No 53
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=1.2e-31 Score=198.79 Aligned_cols=211 Identities=28% Similarity=0.417 Sum_probs=183.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||.|+.+...+|.+..+..++...+||. .....+++-|+|+|+||++++.+.+++.+++++++.+|+|||+.++.+-
T Consensus 122 lafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~l 201 (387)
T KOG0329|consen 122 LAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQL 201 (387)
T ss_pred HHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHHH
Confidence 6889999999999999888899888887 4445566789999999999999999999999999999999999999887
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccc-ccccccceeEEEEcCCchhHHHHHHHHHh
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRK-NTASESIKQKLVFAGSEEGKLLALRQSFA 156 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 156 (248)
++++.++++.+. .+...|+.++|||++.+.+...+.++.+|..+.+..+ .....++.++++..+..+ |...+.+++.
T Consensus 202 DMrRDvQEifr~-tp~~KQvmmfsatlskeiRpvC~kFmQdPmEi~vDdE~KLtLHGLqQ~YvkLke~e-KNrkl~dLLd 279 (387)
T KOG0329|consen 202 DMRRDVQEIFRM-TPHEKQVMMFSATLSKEIRPVCHKFMQDPMEIFVDDEAKLTLHGLQQYYVKLKENE-KNRKLNDLLD 279 (387)
T ss_pred HHHHHHHHHhhc-CcccceeeeeeeecchhhHHHHHhhhcCchhhhccchhhhhhhhHHHHHHhhhhhh-hhhhhhhhhh
Confidence 799999999998 7788899999999999999999999999987766544 556777888887777664 7778888888
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
....++++||+.+..... | +.+ +|+|+.+++|+|+..++.|+|||
T Consensus 280 ~LeFNQVvIFvKsv~Rl~-------------------------------f---~kr-~vat~lfgrgmdiervNi~~NYd 324 (387)
T KOG0329|consen 280 VLEFNQVVIFVKSVQRLS-------------------------------F---QKR-LVATDLFGRGMDIERVNIVFNYD 324 (387)
T ss_pred hhhhcceeEeeehhhhhh-------------------------------h---hhh-hHHhhhhccccCcccceeeeccC
Confidence 877889999999877610 2 223 89999999999999999999999
Q ss_pred CCCCcccceecC
Q 042003 237 FPDSGAAYIHRI 248 (248)
Q Consensus 237 ~p~~~~~~~qri 248 (248)
+|.+.++|+||+
T Consensus 325 mp~~~DtYlHrv 336 (387)
T KOG0329|consen 325 MPEDSDTYLHRV 336 (387)
T ss_pred CCCCchHHHHHh
Confidence 999999999996
No 54
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.97 E-value=6.8e-29 Score=216.15 Aligned_cols=232 Identities=16% Similarity=0.186 Sum_probs=156.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhh-------cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRS-------TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||.|+++.++++.+..+ ..+.++.|+... ..+..+.++|+|+||+.+.. ...+.+++++|+||+|++
T Consensus 296 LA~Q~~~~~~~l~~~~g-i~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~-----~~~~~~l~lvVIDEaH~f 369 (630)
T TIGR00643 296 LAEQHYNSLRNLLAPLG-IEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE-----KVEFKRLALVIIDEQHRF 369 (630)
T ss_pred HHHHHHHHHHHHhcccC-cEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc-----cccccccceEEEechhhc
Confidence 78999999999999888 556666666521 12334568999999987643 355789999999999996
Q ss_pred cccCcccccchhHhhhCCC-ccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSN-PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALR 152 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 152 (248)
... .+. .+...... ..+++++||||+.+....+. ..++...............+..........+.....+.
T Consensus 370 g~~--qr~---~l~~~~~~~~~~~~l~~SATp~prtl~l~--~~~~l~~~~i~~~p~~r~~i~~~~~~~~~~~~~~~~i~ 442 (630)
T TIGR00643 370 GVE--QRK---KLREKGQGGFTPHVLVMSATPIPRTLALT--VYGDLDTSIIDELPPGRKPITTVLIKHDEKDIVYEFIE 442 (630)
T ss_pred cHH--HHH---HHHHhcccCCCCCEEEEeCCCCcHHHHHH--hcCCcceeeeccCCCCCCceEEEEeCcchHHHHHHHHH
Confidence 432 111 22222111 25789999999877554443 22332211111111111223333322211112222222
Q ss_pred HHHhccCCCCEEEEecch--------HHHHHHHHHhhc--CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccccc
Q 042003 153 QSFAESLNPPVLIFVQSK--------ERAKELYGELAF--DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222 (248)
Q Consensus 153 ~~~~~~~~~~~liF~~~~--------~~~~~l~~~L~~--~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~ 222 (248)
+.+. .+++++|||+.. ..++.+++.|.+ .++++..+||+|++++|.++++.|++|+.+|||||+++++
T Consensus 443 ~~l~--~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~ 520 (630)
T TIGR00643 443 EEIA--KGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEV 520 (630)
T ss_pred HHHH--hCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeec
Confidence 2222 267999999876 456677777765 3678999999999999999999999999999999999999
Q ss_pred CCCCCCCcEEEeccCCC-Ccccceec
Q 042003 223 GMDFKGVNCVINYDFPD-SGAAYIHR 247 (248)
Q Consensus 223 Gidip~~~~Vi~~~~p~-~~~~~~qr 247 (248)
|+|+|++++||+++.|. +.++|.||
T Consensus 521 GvDiP~v~~VIi~~~~r~gls~lhQ~ 546 (630)
T TIGR00643 521 GVDVPNATVMVIEDAERFGLSQLHQL 546 (630)
T ss_pred CcccCCCcEEEEeCCCcCCHHHHHHH
Confidence 99999999999999997 55666666
No 55
>PRK01172 ski2-like helicase; Provisional
Probab=99.97 E-value=9.9e-30 Score=223.93 Aligned_cols=236 Identities=20% Similarity=0.167 Sum_probs=161.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
||.|+++.++++. ..+ ..+....|+..........++|+|+||+++..++.+....+.+++++|+||+|.+.+.+ +.
T Consensus 77 La~q~~~~~~~l~-~~g-~~v~~~~G~~~~~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~l~d~~-rg 153 (674)
T PRK01172 77 LAMEKYEELSRLR-SLG-MRVKISIGDYDDPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHIIGDED-RG 153 (674)
T ss_pred HHHHHHHHHHHHh-hcC-CeEEEEeCCCCCChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchhccCCC-cc
Confidence 6788999888864 345 44555555543333233568999999999998888776678999999999999988765 55
Q ss_pred ccchhHhhhC--CCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEE-----EcCCch----hHHH
Q 042003 81 KHIDPVVKAC--SNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLV-----FAGSEE----GKLL 149 (248)
Q Consensus 81 ~~~~~~~~~~--~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~----~~~~ 149 (248)
..+..++... ..++.|++++|||+++ ..++..|+.... +..... +..+..... +..... ....
T Consensus 154 ~~le~ll~~~~~~~~~~riI~lSATl~n-~~~la~wl~~~~--~~~~~r---~vpl~~~i~~~~~~~~~~~~~~~~~~~~ 227 (674)
T PRK01172 154 PTLETVLSSARYVNPDARILALSATVSN-ANELAQWLNASL--IKSNFR---PVPLKLGILYRKRLILDGYERSQVDINS 227 (674)
T ss_pred HHHHHHHHHHHhcCcCCcEEEEeCccCC-HHHHHHHhCCCc--cCCCCC---CCCeEEEEEecCeeeecccccccccHHH
Confidence 5555554432 3457899999999986 566666553221 111111 111111111 111111 1122
Q ss_pred HHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC-------------------------CCeeEEEecCCCHHHHHHHHH
Q 042003 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFD-------------------------GIRAGVIHSDLSQTQRENAVD 204 (248)
Q Consensus 150 ~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~-------------------------~~~v~~~~~~~~~~~r~~~~~ 204 (248)
.+.+... .+++++|||++++.++.+++.|... ..+++++||+|++++|..+++
T Consensus 228 ~i~~~~~--~~~~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~ 305 (674)
T PRK01172 228 LIKETVN--DGGQVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEE 305 (674)
T ss_pred HHHHHHh--CCCcEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHH
Confidence 2222222 2679999999999999999888542 125889999999999999999
Q ss_pred HhhcCCceEEEEecccccCCCCCCCcEEEeccC---------CCCcccceecC
Q 042003 205 DFRAGKTWVLIATDVIARGMDFKGVNCVINYDF---------PDSGAAYIHRI 248 (248)
Q Consensus 205 ~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~---------p~~~~~~~qri 248 (248)
.|++|.++|||||+++++|+|+|+. .||+.+. |.++.+|.||+
T Consensus 306 ~f~~g~i~VLvaT~~la~Gvnipa~-~VII~~~~~~~~~~~~~~s~~~~~Qm~ 357 (674)
T PRK01172 306 MFRNRYIKVIVATPTLAAGVNLPAR-LVIVRDITRYGNGGIRYLSNMEIKQMI 357 (674)
T ss_pred HHHcCCCeEEEecchhhccCCCcce-EEEEcCceEeCCCCceeCCHHHHHHHh
Confidence 9999999999999999999999975 5555554 34666778875
No 56
>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=99.97 E-value=5.7e-29 Score=219.32 Aligned_cols=226 Identities=17% Similarity=0.175 Sum_probs=162.4
Q ss_pred CcchHHHHHH-HhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc-ccccCc
Q 042003 1 LATQTTRECK-KLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK-LFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~-~~~~~~ 78 (248)
+|.|+++.+. .++...+ ..+....++ ......+.+|+|+||+.|.+++... ..++++++||+||+|. .++.+
T Consensus 57 aA~qiA~rva~~~~~~~g-~~VGy~vr~---~~~~s~~t~I~v~T~G~Llr~l~~d-~~L~~v~~VIiDEaHER~L~~D- 130 (819)
T TIGR01970 57 AARSAAQRLASQLGEAVG-QTVGYRVRG---ENKVSRRTRLEVVTEGILTRMIQDD-PELDGVGALIFDEFHERSLDAD- 130 (819)
T ss_pred HHHHHHHHHHHHhCCCcC-cEEEEEEcc---ccccCCCCcEEEECCcHHHHHHhhC-cccccCCEEEEeccchhhhccc-
Confidence 4677887764 4555555 333332222 2233456899999999999998764 4689999999999995 45433
Q ss_pred cc-ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhH----HHHHHH
Q 042003 79 LL-KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGK----LLALRQ 153 (248)
Q Consensus 79 ~~-~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~l~~ 153 (248)
+. ..+..+... ...+.|+++||||++... ...+++++..+..... ...+.+++......+.. ...+..
T Consensus 131 l~L~ll~~i~~~-lr~dlqlIlmSATl~~~~---l~~~l~~~~vI~~~gr---~~pVe~~y~~~~~~~~~~~~v~~~l~~ 203 (819)
T TIGR01970 131 LGLALALDVQSS-LREDLKILAMSATLDGER---LSSLLPDAPVVESEGR---SFPVEIRYLPLRGDQRLEDAVSRAVEH 203 (819)
T ss_pred hHHHHHHHHHHh-cCCCceEEEEeCCCCHHH---HHHHcCCCcEEEecCc---ceeeeeEEeecchhhhHHHHHHHHHHH
Confidence 32 233344443 356789999999998643 3456665554443322 22345555444332211 123444
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHhhc---CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCc
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGELAF---DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVN 230 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L~~---~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~ 230 (248)
.++.. .+++|||+++.++++.+++.|++ .++.+..+||+|++++|.++++.|++|+.+|||||+++++|||+|+++
T Consensus 204 ~l~~~-~g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~ 282 (819)
T TIGR01970 204 ALASE-TGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIR 282 (819)
T ss_pred HHHhc-CCcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCce
Confidence 44443 67999999999999999999987 478999999999999999999999999999999999999999999999
Q ss_pred EEEeccCCCC
Q 042003 231 CVINYDFPDS 240 (248)
Q Consensus 231 ~Vi~~~~p~~ 240 (248)
+||++|.|..
T Consensus 283 ~VID~Gl~r~ 292 (819)
T TIGR01970 283 VVIDSGLARV 292 (819)
T ss_pred EEEEcCcccc
Confidence 9999999863
No 57
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.96 E-value=1.3e-28 Score=217.48 Aligned_cols=227 Identities=16% Similarity=0.174 Sum_probs=162.0
Q ss_pred CcchHHHHHH-HhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc-cccCc
Q 042003 1 LATQTTRECK-KLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL-FEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~-~~~~~ 78 (248)
+|.|+++.+. .++...+ ..+....++. .......+|+|+||+.+.+++... ..+++++++|+||+|.. .+.+-
T Consensus 60 aA~qia~rva~~l~~~~g-~~VGy~vr~~---~~~~~~t~I~v~T~G~Llr~l~~d-~~L~~v~~IIlDEaHER~l~~Dl 134 (812)
T PRK11664 60 AARNVAQRLAEQLGEKPG-ETVGYRMRAE---SKVGPNTRLEVVTEGILTRMIQRD-PELSGVGLVILDEFHERSLQADL 134 (812)
T ss_pred HHHHHHHHHHHHhCcccC-ceEEEEecCc---cccCCCCcEEEEChhHHHHHHhhC-CCcCcCcEEEEcCCCccccccch
Confidence 4678888774 4555555 4444333332 223345789999999999988764 46899999999999973 33221
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHH----HHHHHH
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKL----LALRQS 154 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~l~~~ 154 (248)
....+..+.+. ...+.|+++||||++.. . ...+++++..+..... ...+.+++......+... ..+...
T Consensus 135 ~L~ll~~i~~~-lr~~lqlilmSATl~~~--~-l~~~~~~~~~I~~~gr---~~pV~~~y~~~~~~~~~~~~v~~~l~~~ 207 (812)
T PRK11664 135 ALALLLDVQQG-LRDDLKLLIMSATLDND--R-LQQLLPDAPVIVSEGR---SFPVERRYQPLPAHQRFDEAVARATAEL 207 (812)
T ss_pred HHHHHHHHHHh-CCccceEEEEecCCCHH--H-HHHhcCCCCEEEecCc---cccceEEeccCchhhhHHHHHHHHHHHH
Confidence 22333344443 34678999999999863 2 3456665544443322 223555554443322211 234444
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhhc---CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELAF---DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~~---~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
++.. .+.+|||+++.++++.+++.|++ .++.+..+||+|+.++|..+++.|++|+.+|+|||+++++|+|+|++++
T Consensus 208 l~~~-~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~ 286 (812)
T PRK11664 208 LRQE-SGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRL 286 (812)
T ss_pred HHhC-CCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceE
Confidence 4443 68999999999999999999987 5788999999999999999999999999999999999999999999999
Q ss_pred EEeccCCCC
Q 042003 232 VINYDFPDS 240 (248)
Q Consensus 232 Vi~~~~p~~ 240 (248)
||++|.|+.
T Consensus 287 VID~Gl~r~ 295 (812)
T PRK11664 287 VVDSGLERV 295 (812)
T ss_pred EEECCCccc
Confidence 999998764
No 58
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.96 E-value=1.8e-28 Score=211.55 Aligned_cols=232 Identities=15% Similarity=0.113 Sum_probs=161.8
Q ss_pred CcchHHHHHHHhhcC---CCcEEEEcccchhhhc--ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKG---NKFQIKLMKKELVRST--DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~---~~~~~~~~~~~~~~~~--~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
||.|+.+.+.+.... .+ ..+...+|+.... .......+++|+|++. ....+++++++|+||||....
T Consensus 234 La~qi~~~i~~~vg~~~~~g-~~v~v~~Gg~~~~~~~t~~k~~~Ilv~T~~L-------~l~~L~~v~~VVIDEaHEr~~ 305 (675)
T PHA02653 234 LVRLHSITLLKSLGFDEIDG-SPISLKYGSIPDELINTNPKPYGLVFSTHKL-------TLNKLFDYGTVIIDEVHEHDQ 305 (675)
T ss_pred HHHHHHHHHHHHhCccccCC-ceEEEEECCcchHHhhcccCCCCEEEEeCcc-------cccccccCCEEEccccccCcc
Confidence 567888877765433 23 3455556665322 2233367999999752 112478899999999999876
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCC---------chh
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS---------EEG 146 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~ 146 (248)
.+ ..+..+++.......|+++||||++.....+ ..+++++..+.+.. ....++.+.+..... ...
T Consensus 306 ~~---DllL~llk~~~~~~rq~ILmSATl~~dv~~l-~~~~~~p~~I~I~g--rt~~pV~~~yi~~~~~~~~~~~y~~~~ 379 (675)
T PHA02653 306 IG---DIIIAVARKHIDKIRSLFLMTATLEDDRDRI-KEFFPNPAFVHIPG--GTLFPISEVYVKNKYNPKNKRAYIEEE 379 (675)
T ss_pred ch---hHHHHHHHHhhhhcCEEEEEccCCcHhHHHH-HHHhcCCcEEEeCC--CcCCCeEEEEeecCcccccchhhhHHH
Confidence 54 3344444443333458999999998777666 56777887776542 223455555543221 112
Q ss_pred HHHHHHHHHhc--cCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHh-hcCCceEEEEecccc
Q 042003 147 KLLALRQSFAE--SLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDF-RAGKTWVLIATDVIA 221 (248)
Q Consensus 147 ~~~~l~~~~~~--~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f-~~g~~~ilv~T~~~~ 221 (248)
+...+..+... ..++++|||++++++++.+++.|++. ++.+..+||+|++. ++.++.| ++|+.+|||||++++
T Consensus 380 k~~~l~~L~~~~~~~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk~kILVATdIAE 457 (675)
T PHA02653 380 KKNIVTALKKYTPPKGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKNPSIIISTPYLE 457 (675)
T ss_pred HHHHHHHHHHhhcccCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCceeEEeccChhh
Confidence 22222222221 22568999999999999999999877 68999999999974 5666776 789999999999999
Q ss_pred cCCCCCCCcEEEecc---CCC---------CcccceecC
Q 042003 222 RGMDFKGVNCVINYD---FPD---------SGAAYIHRI 248 (248)
Q Consensus 222 ~Gidip~~~~Vi~~~---~p~---------~~~~~~qri 248 (248)
+|+|+|++++||++| .|. |.++|.||.
T Consensus 458 RGIDIp~V~~VID~G~~k~p~~~~g~~~~iSkasa~QRa 496 (675)
T PHA02653 458 SSVTIRNATHVYDTGRVYVPEPFGGKEMFISKSMRTQRK 496 (675)
T ss_pred ccccccCeeEEEECCCccCCCcccCcccccCHHHHHHhc
Confidence 999999999999999 565 777889984
No 59
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.96 E-value=2e-28 Score=208.27 Aligned_cols=233 Identities=13% Similarity=0.109 Sum_probs=159.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|+.|+.+.+++++...+ ..+..+.++... ..+.+|+|+||+++.+... ..+++++++|+||||++.+..
T Consensus 170 L~~Q~~~~l~~~~~~~~-~~~~~i~~g~~~----~~~~~I~VaT~qsl~~~~~---~~~~~~~~iIvDEaH~~~~~~--- 238 (501)
T PHA02558 170 LVTQMIDDFVDYRLFPR-EAMHKIYSGTAK----DTDAPIVVSTWQSAVKQPK---EWFDQFGMVIVDECHLFTGKS--- 238 (501)
T ss_pred HHHHHHHHHHHhccccc-cceeEEecCccc----CCCCCEEEeeHHHHhhchh---hhccccCEEEEEchhcccchh---
Confidence 67899999998876543 233333333321 1357999999999865432 246899999999999987543
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHH--HHhcCCcEEEEEcccc----cccccce-------------------
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELA--RSIMHDAVRVIVGRKN----TASESIK------------------- 135 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~--~~~~~~~~~~~~~~~~----~~~~~~~------------------- 135 (248)
+..++.. .++..+++++|||++....... ..++++.. ......+ .......
T Consensus 239 --~~~il~~-~~~~~~~lGLTATp~~~~~~~~~~~~~fG~i~-~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~ 314 (501)
T PHA02558 239 --LTSIITK-LDNCKFKFGLTGSLRDGKANILQYVGLFGDIF-KPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGE 314 (501)
T ss_pred --HHHHHHh-hhccceEEEEeccCCCccccHHHHHHhhCCce-EEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhccc
Confidence 3444444 2345678999999865322211 11223211 1111000 0000000
Q ss_pred ---eEEEEcCCchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC
Q 042003 136 ---QKLVFAGSEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK 210 (248)
Q Consensus 136 ---~~~~~~~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~ 210 (248)
..+......+.+...+..+.... .+.+++|||++.++++.+++.|++.+.++..+||+|+.++|..+++.|++|+
T Consensus 315 ~~~~~~~~l~~~~~Rn~~I~~~~~~~~~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~ 394 (501)
T PHA02558 315 DYQEEIKYITSHTKRNKWIANLALKLAKKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK 394 (501)
T ss_pred chHHHHHHHhccHHHHHHHHHHHHHHHhcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC
Confidence 00001112223444444443322 2578999999999999999999999999999999999999999999999999
Q ss_pred ceEEEEe-cccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 211 TWVLIAT-DVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 211 ~~ilv~T-~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
..+|||| +.+++|+|+|++++||++.+|.|...|+||+
T Consensus 395 ~~vLvaT~~~l~eG~Dip~ld~vIl~~p~~s~~~~~Qri 433 (501)
T PHA02558 395 GIIIVASYGVFSTGISIKNLHHVIFAHPSKSKIIVLQSI 433 (501)
T ss_pred CeEEEEEcceeccccccccccEEEEecCCcchhhhhhhh
Confidence 9999998 8999999999999999999999999999986
No 60
>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=99.96 E-value=1.9e-28 Score=201.41 Aligned_cols=205 Identities=21% Similarity=0.298 Sum_probs=141.4
Q ss_pred CCcEEEeChHHHHHHHhcCC----cccC--ceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHH
Q 042003 37 SCDILISTPLRLRLAIRRKK----IDLS--RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEE 110 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~~----~~~~--~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~ 110 (248)
.++|+|+||+++...+.... ..+. ..+++|+||+|.+.+++ +. .+..+++.+...+.|+++||||+|....+
T Consensus 94 ~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h~~~~~~-~~-~l~~~l~~l~~~~~~~i~~SATlp~~l~~ 171 (358)
T TIGR01587 94 LDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVHFYDEYT-LA-LILAVLEVLKDNDVPILLMSATLPKFLKE 171 (358)
T ss_pred hCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCCCCCHHH-HH-HHHHHHHHHHHcCCCEEEEecCchHHHHH
Confidence 46899999999988877521 1111 23789999999998754 22 25555554445678999999999976665
Q ss_pred HHHHhcCCcEEEEEcccccccccc-eeEEEE-cCCchhHHHHHHHHHhcc-CCCCEEEEecchHHHHHHHHHhhcCCC--
Q 042003 111 LARSIMHDAVRVIVGRKNTASESI-KQKLVF-AGSEEGKLLALRQSFAES-LNPPVLIFVQSKERAKELYGELAFDGI-- 185 (248)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~~~~~~~~l~~~~~~~-~~~~~liF~~~~~~~~~l~~~L~~~~~-- 185 (248)
........+........ ..... .+.+.. ......+...+..++... .+++++|||+++++++.+++.|++.+.
T Consensus 172 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~ 249 (358)
T TIGR01587 172 YAEKIGYVEFNEPLDLK--EERRFERHRFIKIESDKVGEISSLERLLEFIKKGGKIAIIVNTVDRAQEFYQQLKENAPEE 249 (358)
T ss_pred HHhcCCCcccccCCCCc--cccccccccceeeccccccCHHHHHHHHHHhhCCCeEEEEECCHHHHHHHHHHHHhhcCCC
Confidence 55544322111100100 00011 122211 222223444444444432 368999999999999999999988765
Q ss_pred eeEEEecCCCHHHHHH----HHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 186 RAGVIHSDLSQTQREN----AVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 186 ~v~~~~~~~~~~~r~~----~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.+..+||++++.+|.+ +++.|++|+..+||||+++++|+|+| +++||++..| +.+|+||+
T Consensus 250 ~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~~~--~~~~iqr~ 313 (358)
T TIGR01587 250 EIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITELAP--IDSLIQRL 313 (358)
T ss_pred eEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcCCC--HHHHHHHh
Confidence 5999999999999976 48899999999999999999999996 8888888776 67899985
No 61
>PRK14701 reverse gyrase; Provisional
Probab=99.95 E-value=2.3e-27 Score=220.12 Aligned_cols=235 Identities=18% Similarity=0.213 Sum_probs=172.3
Q ss_pred CcchHHHHHHHhhcCCCc-EEEEcccchhhhc-------ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKF-QIKLMKKELVRST-------DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~-~~~~~~~~~~~~~-------~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~ 72 (248)
|+.|+.+.++.++...++ ..+..++|+.... .+..+.++|+|+||+.+.+.+... ...+++++|+||||+
T Consensus 134 La~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l--~~~~i~~iVVDEAD~ 211 (1638)
T PRK14701 134 LVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEM--KHLKFDFIFVDDVDA 211 (1638)
T ss_pred HHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHH--hhCCCCEEEEECcee
Confidence 688999999999887642 3444555554211 122346999999999988766542 227789999999999
Q ss_pred ccccC----------cccccchh----Hhh-------------------h--CCCccce-eEEEEeecCchHHHHHHHhc
Q 042003 73 LFEVG----------NLLKHIDP----VVK-------------------A--CSNPSIV-RSLFSATLPDFVEELARSIM 116 (248)
Q Consensus 73 ~~~~~----------~~~~~~~~----~~~-------------------~--~~~~~~~-~i~~SAT~~~~~~~~~~~~~ 116 (248)
+++|+ .|...+.. +++ . ..+...| ++.+|||+++.. .. ..++
T Consensus 212 ml~~~knid~~L~llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~-~~-~~l~ 289 (1638)
T PRK14701 212 FLKASKNIDRSLQLLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKG-DR-VKLY 289 (1638)
T ss_pred ccccccccchhhhcCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchh-HH-HHHh
Confidence 98753 14444432 211 0 0122344 677999998742 22 2345
Q ss_pred CCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHH---HHHHHHHhhcCCCeeEEEecC
Q 042003 117 HDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKER---AKELYGELAFDGIRAGVIHSD 193 (248)
Q Consensus 117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~---~~~l~~~L~~~~~~v~~~~~~ 193 (248)
.++..+.++.......++.+.+...... .+ ..+.++++.. +..+||||++++. |+.+++.|+..|+++..+||+
T Consensus 290 ~~~l~f~v~~~~~~lr~i~~~yi~~~~~-~k-~~L~~ll~~~-g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~ 366 (1638)
T PRK14701 290 RELLGFEVGSGRSALRNIVDVYLNPEKI-IK-EHVRELLKKL-GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK 366 (1638)
T ss_pred hcCeEEEecCCCCCCCCcEEEEEECCHH-HH-HHHHHHHHhC-CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch
Confidence 6777777777766667777777655433 23 5677777776 5789999999775 589999999999999999995
Q ss_pred CCHHHHHHHHHHhhcCCceEEEEec----ccccCCCCCC-CcEEEeccCCC---Ccccceec
Q 042003 194 LSQTQRENAVDDFRAGKTWVLIATD----VIARGMDFKG-VNCVINYDFPD---SGAAYIHR 247 (248)
Q Consensus 194 ~~~~~r~~~~~~f~~g~~~ilv~T~----~~~~Gidip~-~~~Vi~~~~p~---~~~~~~qr 247 (248)
|...++.|++|+.+|||||+ .+++|||+|+ +++|||||+|. |...|.|.
T Consensus 367 -----R~~~l~~F~~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~ 423 (1638)
T PRK14701 367 -----NKKGFDLFEEGEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPT 423 (1638)
T ss_pred -----HHHHHHHHHcCCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccc
Confidence 88999999999999999994 7899999999 99999999999 87766653
No 62
>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=99.95 E-value=3.7e-27 Score=214.69 Aligned_cols=225 Identities=18% Similarity=0.232 Sum_probs=163.4
Q ss_pred CcchHHHHHHHhhcCCCcEEE--Ecccchhhhc-------ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccc
Q 042003 1 LATQTTRECKKLAKGNKFQIK--LMKKELVRST-------DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEAD 71 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~--~~~~~~~~~~-------~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah 71 (248)
||.|+++.++.+++..++..+ ..++|+.... ....++++|+|+||+++.+.+.. +.. +++++|+||||
T Consensus 133 La~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~--l~~-~~~~iVvDEaD 209 (1171)
T TIGR01054 133 LVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDE--LGP-KFDFIFVDDVD 209 (1171)
T ss_pred HHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHH--hcC-CCCEEEEeChH
Confidence 689999999999987764333 2344554211 12334699999999999887764 212 89999999999
Q ss_pred cccccC----------ccccc-chhHh----------------------hhCCCccce--eEEEEeec-CchHHHHHHHh
Q 042003 72 KLFEVG----------NLLKH-IDPVV----------------------KACSNPSIV--RSLFSATL-PDFVEELARSI 115 (248)
Q Consensus 72 ~~~~~~----------~~~~~-~~~~~----------------------~~~~~~~~~--~i~~SAT~-~~~~~~~~~~~ 115 (248)
.+++++ .|... +..++ +.. +...| ++++|||. |.... ..+
T Consensus 210 ~~L~~~k~vd~il~llGF~~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~q~~li~~SAT~~p~~~~---~~l 285 (1171)
T TIGR01054 210 ALLKASKNVDKLLKLLGFSEELIEKAWKLIRLRLKLYRALHAKKRLELLEAI-PGKKRGCLIVSSATGRPRGKR---AKL 285 (1171)
T ss_pred hhhhccccHHHHHHHcCCCHHHHHHHHHHhhhccccchHHHHHHHHHHHHhh-hhccCcEEEEEeCCCCccccH---HHH
Confidence 998742 14432 33322 111 22333 56789994 44332 234
Q ss_pred cCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecch---HHHHHHHHHhhcCCCeeEEEec
Q 042003 116 MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSK---ERAKELYGELAFDGIRAGVIHS 192 (248)
Q Consensus 116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~---~~~~~l~~~L~~~~~~v~~~~~ 192 (248)
+.+...+.++.......++.+.+..... +...+.++++.. +.++||||+++ +.|+.+++.|++.|+++..+||
T Consensus 286 ~r~ll~~~v~~~~~~~r~I~~~~~~~~~---~~~~L~~ll~~l-~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg 361 (1171)
T TIGR01054 286 FRELLGFEVGGGSDTLRNVVDVYVEDED---LKETLLEIVKKL-GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHA 361 (1171)
T ss_pred cccccceEecCccccccceEEEEEeccc---HHHHHHHHHHHc-CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeC
Confidence 4555556666666666777777654433 234566777665 57899999999 9999999999999999999999
Q ss_pred CCCHHHHHHHHHHhhcCCceEEEEe----cccccCCCCCC-CcEEEeccCCCC
Q 042003 193 DLSQTQRENAVDDFRAGKTWVLIAT----DVIARGMDFKG-VNCVINYDFPDS 240 (248)
Q Consensus 193 ~~~~~~r~~~~~~f~~g~~~ilv~T----~~~~~Gidip~-~~~Vi~~~~p~~ 240 (248)
+++ +..++.|++|+.+||||| +++++|+|+|+ +++||+||+|..
T Consensus 362 ~~~----~~~l~~Fr~G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~~ 410 (1171)
T TIGR01054 362 TKP----KEDYEKFAEGEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPKF 410 (1171)
T ss_pred CCC----HHHHHHHHcCCCCEEEEeccccCcccccCCCCccccEEEEECCCCE
Confidence 997 368999999999999995 89999999999 899999999975
No 63
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.95 E-value=1.7e-27 Score=194.58 Aligned_cols=238 Identities=21% Similarity=0.247 Sum_probs=183.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hh---cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RS---TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~---~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||+|-++.|+.--..++ .++..-.|.. .+ .-.....+||+|+|.+.+-.+++.+ -.+.+++.+||||+|.+
T Consensus 273 LANQKy~dF~~rYs~Lg-lkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg-~~lgdiGtVVIDEiHtL 350 (830)
T COG1202 273 LANQKYEDFKERYSKLG-LKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTG-KDLGDIGTVVIDEIHTL 350 (830)
T ss_pred hhcchHHHHHHHhhccc-ceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcC-CcccccceEEeeeeeec
Confidence 78999999998767777 5554444443 11 1223457899999999998888776 56899999999999998
Q ss_pred cccC--cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHH
Q 042003 74 FEVG--NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLAL 151 (248)
Q Consensus 74 ~~~~--~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 151 (248)
-+.. +...-+-..+++ ..+..|+|++|||..+ ..+++..+.-+.+.+ +..+.++..+.+.+.+..+|.+.+
T Consensus 351 ~deERG~RLdGLI~RLr~-l~~~AQ~i~LSATVgN-p~elA~~l~a~lV~y-----~~RPVplErHlvf~~~e~eK~~ii 423 (830)
T COG1202 351 EDEERGPRLDGLIGRLRY-LFPGAQFIYLSATVGN-PEELAKKLGAKLVLY-----DERPVPLERHLVFARNESEKWDII 423 (830)
T ss_pred cchhcccchhhHHHHHHH-hCCCCeEEEEEeecCC-hHHHHHHhCCeeEee-----cCCCCChhHeeeeecCchHHHHHH
Confidence 7653 333333333444 3357899999999987 677777775555444 233455667888888888899888
Q ss_pred HHHHhcc--------CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 152 RQSFAES--------LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 152 ~~~~~~~--------~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
..+.+.. ..+++|||++|++.|..++..|..+|+++.++|+|++..+|+.+..+|.++++.++|+|-+++.|
T Consensus 424 ~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l~~VVTTAAL~AG 503 (830)
T COG1202 424 ARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQELAAVVTTAALAAG 503 (830)
T ss_pred HHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCcceEeehhhhhcC
Confidence 8877532 25699999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcEEE---eccCCC-Ccccceec
Q 042003 224 MDFKGVNCVI---NYDFPD-SGAAYIHR 247 (248)
Q Consensus 224 idip~~~~Vi---~~~~p~-~~~~~~qr 247 (248)
+|+|.-.+|+ -+|.-| |+..|.||
T Consensus 504 VDFPASQVIFEsLaMG~~WLs~~EF~QM 531 (830)
T COG1202 504 VDFPASQVIFESLAMGIEWLSVREFQQM 531 (830)
T ss_pred CCCchHHHHHHHHHcccccCCHHHHHHH
Confidence 9999544442 344444 77777776
No 64
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.95 E-value=3.5e-27 Score=206.24 Aligned_cols=241 Identities=22% Similarity=0.223 Sum_probs=173.1
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
||+|.++.+++ ...+| ++|...+|..+.......+++|+|+|||++-+..++.......++++|+||+|.+.+.. ..
T Consensus 88 La~Ek~~~~~~-~~~~G-irV~~~TgD~~~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH~l~d~~-RG 164 (766)
T COG1204 88 LAEEKYEEFSR-LEELG-IRVGISTGDYDLDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIHLLGDRT-RG 164 (766)
T ss_pred HHHHHHHHhhh-HHhcC-CEEEEecCCcccchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeeeecCCcc-cC
Confidence 57788888884 45567 88888888887666667789999999999999999988788999999999999998874 56
Q ss_pred ccchhHhhhCCC--ccceeEEEEeecCchHHHHHHHhcCCcEEEEEccc--ccccccceeEEEEcCCc--------hhHH
Q 042003 81 KHIDPVVKACSN--PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRK--NTASESIKQKLVFAGSE--------EGKL 148 (248)
Q Consensus 81 ~~~~~~~~~~~~--~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~--------~~~~ 148 (248)
+.+..+...... ...|++++|||+|+ ..++..|+-.++......+. ....+.....+...... +..+
T Consensus 165 ~~lE~iv~r~~~~~~~~rivgLSATlpN-~~evA~wL~a~~~~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~ 243 (766)
T COG1204 165 PVLESIVARMRRLNELIRIVGLSATLPN-AEEVADWLNAKLVESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLAL 243 (766)
T ss_pred ceehhHHHHHHhhCcceEEEEEeeecCC-HHHHHHHhCCcccccCCCCcccccCCccceEEEEecCccccccccchHHHH
Confidence 666666554333 23799999999998 77888887666542111111 11111111222111111 1222
Q ss_pred HHHHHHHhccCCCCEEEEecchHHHHHHHHHhhc---------------------C----------------CCeeEEEe
Q 042003 149 LALRQSFAESLNPPVLIFVQSKERAKELYGELAF---------------------D----------------GIRAGVIH 191 (248)
Q Consensus 149 ~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~---------------------~----------------~~~v~~~~ 191 (248)
..+.+.++. +++++|||+|++.+...++.|+. . ..+++++|
T Consensus 244 ~~v~~~~~~--~~qvLvFv~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHh 321 (766)
T COG1204 244 ELVLESLAE--GGQVLVFVHSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHH 321 (766)
T ss_pred HHHHHHHhc--CCeEEEEEecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccc
Confidence 222222333 68999999999999999988872 0 13578999
Q ss_pred cCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE----ecc-----CCCCcccceec
Q 042003 192 SDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI----NYD-----FPDSGAAYIHR 247 (248)
Q Consensus 192 ~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi----~~~-----~p~~~~~~~qr 247 (248)
+|++.++|.-+.+.|+.|+++||+||++++.|+|+|.-++|| -|+ .+.++.+++|+
T Consensus 322 AGL~~~~R~~vE~~Fr~g~ikVlv~TpTLA~GVNLPA~~VIIk~~~~y~~~~g~~~i~~~dv~QM 386 (766)
T COG1204 322 AGLPREDRQLVEDAFRKGKIKVLVSTPTLAAGVNLPARTVIIKDTRRYDPKGGIVDIPVLDVLQM 386 (766)
T ss_pred cCCCHHHHHHHHHHHhcCCceEEEechHHhhhcCCcceEEEEeeeEEEcCCCCeEECchhhHhhc
Confidence 999999999999999999999999999999999999655554 344 34455566665
No 65
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.95 E-value=1.6e-26 Score=208.44 Aligned_cols=228 Identities=18% Similarity=0.238 Sum_probs=156.0
Q ss_pred CcchHHHHHHH-hhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc-ccccCc
Q 042003 1 LATQTTRECKK-LAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK-LFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~-~~~~~~ 78 (248)
||.|+++.+.. ++...|. . ..-.+....+++|+|+||+.|++.+..... +++++++||||||. .++.+
T Consensus 134 LA~RVA~El~~~lG~~VGY-~-------vrf~~~~s~~t~I~v~TpG~LL~~l~~d~~-Ls~~~~IIIDEAHERsLn~D- 203 (1294)
T PRK11131 134 VANRIAEELETELGGCVGY-K-------VRFNDQVSDNTMVKLMTDGILLAEIQQDRL-LMQYDTIIIDEAHERSLNID- 203 (1294)
T ss_pred HHHHHHHHHhhhhcceece-e-------ecCccccCCCCCEEEEChHHHHHHHhcCCc-cccCcEEEecCccccccccc-
Confidence 45666666654 4443331 1 111223346799999999999999987654 89999999999994 66655
Q ss_pred ccc-cchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCc-----hhHHHHHH
Q 042003 79 LLK-HIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSE-----EGKLLALR 152 (248)
Q Consensus 79 ~~~-~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~l~ 152 (248)
|.- .+..++.. .++.|+|+||||++. ..+...+.+.+ .+.+.... ..+...+...... .+....+.
T Consensus 204 fLLg~Lk~lL~~--rpdlKvILmSATid~--e~fs~~F~~ap-vI~V~Gr~---~pVei~y~p~~~~~~~~~~d~l~~ll 275 (1294)
T PRK11131 204 FILGYLKELLPR--RPDLKVIITSATIDP--ERFSRHFNNAP-IIEVSGRT---YPVEVRYRPIVEEADDTERDQLQAIF 275 (1294)
T ss_pred hHHHHHHHhhhc--CCCceEEEeeCCCCH--HHHHHHcCCCC-EEEEcCcc---ccceEEEeecccccchhhHHHHHHHH
Confidence 432 23333322 246899999999975 34554444444 34333222 2344444443221 12223332
Q ss_pred HHH---hccCCCCEEEEecchHHHHHHHHHhhcCCCe---eEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCC
Q 042003 153 QSF---AESLNPPVLIFVQSKERAKELYGELAFDGIR---AGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDF 226 (248)
Q Consensus 153 ~~~---~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~---v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidi 226 (248)
..+ .....+++|||+++..+++.+++.|++.+.+ +..+||++++++|..+++. .|..+|+|||+++++|+|+
T Consensus 276 ~~V~~l~~~~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~--~g~rkIIVATNIAEtSITI 353 (1294)
T PRK11131 276 DAVDELGREGPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQS--HSGRRIVLATNVAETSLTV 353 (1294)
T ss_pred HHHHHHhcCCCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhcc--cCCeeEEEeccHHhhcccc
Confidence 222 1233679999999999999999999987654 7789999999999999886 5778999999999999999
Q ss_pred CCCcEEEeccC---------------C---CCcccceecC
Q 042003 227 KGVNCVINYDF---------------P---DSGAAYIHRI 248 (248)
Q Consensus 227 p~~~~Vi~~~~---------------p---~~~~~~~qri 248 (248)
|++++||++|. | .|..+|.||.
T Consensus 354 pgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRa 393 (1294)
T PRK11131 354 PGIKYVIDPGTARISRYSYRTKVQRLPIEPISQASANQRK 393 (1294)
T ss_pred CcceEEEECCCccccccccccCcccCCeeecCHhhHhhhc
Confidence 99999999973 3 4557899984
No 66
>PRK13766 Hef nuclease; Provisional
Probab=99.95 E-value=2.3e-26 Score=205.93 Aligned_cols=245 Identities=22% Similarity=0.243 Sum_probs=168.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
|+.|+.+.++++....+ ..+..+.|+. ........+++|+|+||+.+.+.+..+.+.+.+++++|+||||++.+...
T Consensus 70 L~~Q~~~~~~~~~~~~~-~~v~~~~g~~~~~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH~~~~~~~ 148 (773)
T PRK13766 70 LVEQHAEFFRKFLNIPE-EKIVVFTGEVSPEKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAHRAVGNYA 148 (773)
T ss_pred HHHHHHHHHHHHhCCCC-ceEEEEeCCCCHHHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCcccccccc
Confidence 57888888888765443 3445555544 22333455789999999999998888888899999999999999876542
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHH---HHHHhcCCcEEEE--------------------Eccc--------
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEE---LARSIMHDAVRVI--------------------VGRK-------- 127 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~---~~~~~~~~~~~~~--------------------~~~~-------- 127 (248)
+.... ..... ....+.++++|||+...... ....+......+. ....
T Consensus 149 ~~~i~-~~~~~-~~~~~~il~lTaTP~~~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~ 226 (773)
T PRK13766 149 YVYIA-ERYHE-DAKNPLVLGLTASPGSDEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRD 226 (773)
T ss_pred HHHHH-HHHHh-cCCCCEEEEEEcCCCCCHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHH
Confidence 33222 22222 23456789999997533221 1222111100000 0000
Q ss_pred ----------------c-c--cc------------ccceeEE--------------------------------------
Q 042003 128 ----------------N-T--AS------------ESIKQKL-------------------------------------- 138 (248)
Q Consensus 128 ----------------~-~--~~------------~~~~~~~-------------------------------------- 138 (248)
. . .. ..+....
T Consensus 227 ~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y 306 (773)
T PRK13766 227 LLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRY 306 (773)
T ss_pred HHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHH
Confidence 0 0 00 0000000
Q ss_pred ---------------------------------EEcCCchhHHHHHHHHHhc----cCCCCEEEEecchHHHHHHHHHhh
Q 042003 139 ---------------------------------VFAGSEEGKLLALRQSFAE----SLNPPVLIFVQSKERAKELYGELA 181 (248)
Q Consensus 139 ---------------------------------~~~~~~~~~~~~l~~~~~~----~~~~~~liF~~~~~~~~~l~~~L~ 181 (248)
..+.....|...+.+++.. ..+.++||||++++.++.+++.|.
T Consensus 307 ~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~ 386 (773)
T PRK13766 307 LERLREEARSSGGSKASKRLVEDPRFRKAVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLE 386 (773)
T ss_pred HHHHHhhccccCCcHHHHHHHhCHHHHHHHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHH
Confidence 0001112345555555543 457899999999999999999999
Q ss_pred cCCCeeEEEecC--------CCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 182 FDGIRAGVIHSD--------LSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 182 ~~~~~v~~~~~~--------~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
..++++..+||. |++.+|.++++.|++|+.++||||+++++|+|+|++++||+||+|+|+.+|+||+
T Consensus 387 ~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~ 461 (773)
T PRK13766 387 KEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRK 461 (773)
T ss_pred hCCCceEEEEccccccccCCCCHHHHHHHHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCCCCHHHHHHHh
Confidence 999999999886 9999999999999999999999999999999999999999999999999999985
No 67
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.95 E-value=2.3e-26 Score=192.78 Aligned_cols=223 Identities=18% Similarity=0.236 Sum_probs=171.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-------hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-------RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||.|+++.+.++.+.++ +.|.+..|.. ....+..+..+++|+| +.+..+...+.++.++|+||-|++
T Consensus 323 LA~QH~~~~~~~l~~~~-i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGT-----HALiQd~V~F~~LgLVIiDEQHRF 396 (677)
T COG1200 323 LAEQHYESLRKWLEPLG-IRVALLTGSLKGKARKEILEQLASGEIDIVVGT-----HALIQDKVEFHNLGLVIIDEQHRF 396 (677)
T ss_pred HHHHHHHHHHHHhhhcC-CeEEEeecccchhHHHHHHHHHhCCCCCEEEEc-----chhhhcceeecceeEEEEeccccc
Confidence 79999999999999999 6677666665 2234455669999999 677778888999999999999994
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
.-.-...+.......+.++.||||+-|+. ++...++|...-.+.........+....+.....++-++.+..
T Consensus 397 ------GV~QR~~L~~KG~~~Ph~LvMTATPIPRT--LAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~~~~v~e~i~~ 468 (677)
T COG1200 397 ------GVHQRLALREKGEQNPHVLVMTATPIPRT--LALTAFGDLDVSIIDELPPGRKPITTVVIPHERRPEVYERIRE 468 (677)
T ss_pred ------cHHHHHHHHHhCCCCCcEEEEeCCCchHH--HHHHHhccccchhhccCCCCCCceEEEEeccccHHHHHHHHHH
Confidence 33333334432222577899999988744 4445566765555555554555666777666666666677776
Q ss_pred HHhccCCCCEEEEecchHH--------HHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 154 SFAESLNPPVLIFVQSKER--------AKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~--------~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
.+.+ +.++.+.|+-+++ |...++.|+.. +++++.+||.|+.+++.+++++|++|+.+|||||.+++.|
T Consensus 469 ei~~--GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVG 546 (677)
T COG1200 469 EIAK--GRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVG 546 (677)
T ss_pred HHHc--CCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEec
Confidence 6664 7899999987654 45666777643 5679999999999999999999999999999999999999
Q ss_pred CCCCCCcEEEeccCCC
Q 042003 224 MDFKGVNCVINYDFPD 239 (248)
Q Consensus 224 idip~~~~Vi~~~~p~ 239 (248)
||+|++++.|+.++-+
T Consensus 547 VdVPnATvMVIe~AER 562 (677)
T COG1200 547 VDVPNATVMVIENAER 562 (677)
T ss_pred ccCCCCeEEEEechhh
Confidence 9999999999987643
No 68
>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=99.95 E-value=7.9e-26 Score=184.66 Aligned_cols=201 Identities=18% Similarity=0.124 Sum_probs=135.3
Q ss_pred CCCcEEEeChHHHHHHHhcC----C----cccCceeEEEEeccccccccCc-ccc---cchhHhhhCCCccceeEEEEee
Q 042003 36 FSCDILISTPLRLRLAIRRK----K----IDLSRVEYLVLDEADKLFEVGN-LLK---HIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~----~----~~~~~~~~lIiDEah~~~~~~~-~~~---~~~~~~~~~~~~~~~~i~~SAT 103 (248)
..++++++||+.+..++... . ..+.+++++|+||+|.+..+.. ... ....+.+. .....++++||||
T Consensus 112 ~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~i~lSAT 190 (357)
T TIGR03158 112 STPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHLYDAKQLVGMLFLLAYMQLIRF-FECRRKFVFLSAT 190 (357)
T ss_pred CCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEecccccCcccchhhhhhhHHHHHHHh-hhcCCcEEEEecC
Confidence 36889999999997665431 1 1257899999999999875430 111 11122222 1234689999999
Q ss_pred cCchHHHHHHHh--cCCcEEEEEccccc------------------ccccceeEEEEcCCchhHHHHH-------HHHHh
Q 042003 104 LPDFVEELARSI--MHDAVRVIVGRKNT------------------ASESIKQKLVFAGSEEGKLLAL-------RQSFA 156 (248)
Q Consensus 104 ~~~~~~~~~~~~--~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~l-------~~~~~ 156 (248)
+++......... ++.+.....+..-. ..+.+...+.. ....+...+ .+.++
T Consensus 191 ~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--~~~~~~~~l~~l~~~i~~~~~ 268 (357)
T TIGR03158 191 PDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSFRPVLPPVELELIP--APDFKEEELSELAEEVIERFR 268 (357)
T ss_pred CCHHHHHHHHhccccCceeeeecCcccccCCChhhhccccccccceeccceEEEEEe--CCchhHHHHHHHHHHHHHHHh
Confidence 998777766654 45554333333100 00234444433 222222222 22222
Q ss_pred ccCCCCEEEEecchHHHHHHHHHhhcCC--CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe
Q 042003 157 ESLNPPVLIFVQSKERAKELYGELAFDG--IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN 234 (248)
Q Consensus 157 ~~~~~~~liF~~~~~~~~~l~~~L~~~~--~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~ 234 (248)
...+++++|||+|++.++.+++.|++.+ ..+..+||.+++.+|++. ++.+|||||+++++|+|+|.. +||
T Consensus 269 ~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~------~~~~iLVaTdv~~rGiDi~~~-~vi- 340 (357)
T TIGR03158 269 QLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERA------MQFDILLGTSTVDVGVDFKRD-WLI- 340 (357)
T ss_pred ccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHh------ccCCEEEEecHHhcccCCCCc-eEE-
Confidence 3346799999999999999999999764 578899999999988654 368899999999999999986 555
Q ss_pred ccCCCCcccceecC
Q 042003 235 YDFPDSGAAYIHRI 248 (248)
Q Consensus 235 ~~~p~~~~~~~qri 248 (248)
++ |.+...|+||+
T Consensus 341 ~~-p~~~~~yiqR~ 353 (357)
T TIGR03158 341 FS-ARDAAAFWQRL 353 (357)
T ss_pred EC-CCCHHHHhhhc
Confidence 45 89999999996
No 69
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.94 E-value=7.3e-27 Score=185.32 Aligned_cols=247 Identities=24% Similarity=0.318 Sum_probs=184.5
Q ss_pred CcchHHHHHHHhhcCCCc--EEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKGNKF--QIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~--~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
||+|++..+++|-..... .+..++.|+. ++...+..+.+|+|+||+++...+..+.+.++.+.++++||++.++.
T Consensus 298 laEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~g~~~lt~crFlvlDead~lL~ 377 (725)
T KOG0349|consen 298 LAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPISKGLVTLTHCRFLVLDEADLLLG 377 (725)
T ss_pred HHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhhccceeeeeeEEEEecchhhhhh
Confidence 578999877766554422 2333555554 77788889999999999999999999999999999999999999998
Q ss_pred cCcccccchhHhhhCCC-----ccceeEEEEeecCc-hHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCC------
Q 042003 76 VGNLLKHIDPVVKACSN-----PSIVRSLFSATLPD-FVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS------ 143 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~-----~~~~~i~~SAT~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------ 143 (248)
.+ +-..+.++...... ...|.+.+|||+.. +...+....+..|..+....++..+..+.+....+..
T Consensus 378 qg-y~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvHhvv~lv~p~~d~sw 456 (725)
T KOG0349|consen 378 QG-YDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVKLVCPSVDGSW 456 (725)
T ss_pred cc-cHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhccceeecCCccCccH
Confidence 77 55555555444321 46789999999853 2233444455566666554444333333222211110
Q ss_pred -----------------------chhHHHHHH---------HHHhccCCCCEEEEecchHHHHHHHHHhhcCC---CeeE
Q 042003 144 -----------------------EEGKLLALR---------QSFAESLNPPVLIFVQSKERAKELYGELAFDG---IRAG 188 (248)
Q Consensus 144 -----------------------~~~~~~~l~---------~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~---~~v~ 188 (248)
+.+..+... ..++++.-.++||||.++.+|..+.+.++.+| ++|.
T Consensus 457 ~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~qkgg~~~scv 536 (725)
T KOG0349|consen 457 CDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCV 536 (725)
T ss_pred HHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHHHcCCccceeE
Confidence 111111111 12233445689999999999999999998764 6899
Q ss_pred EEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 189 VIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 189 ~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.+||+..+.+|++.++.|+.+..+.||||+++++|+||..+-++|+..+|.+...|.|||
T Consensus 537 clhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlpd~k~nyvhri 596 (725)
T KOG0349|consen 537 CLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLPDDKTNYVHRI 596 (725)
T ss_pred EEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecCcccchhhhhh
Confidence 999999999999999999999999999999999999999999999999999999999997
No 70
>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=99.93 E-value=4.6e-25 Score=190.28 Aligned_cols=232 Identities=13% Similarity=0.054 Sum_probs=151.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcC--------CcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRK--------KIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~--------~~~~~~~~~lIiDEah~ 72 (248)
|+.||.+.+.++....+ ..+..++|+. ........+|+|+|++++.+...+. .+.-..++++|+||||+
T Consensus 310 Lv~QW~~ef~~~~~l~~-~~I~~~tg~~--k~~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH~ 386 (732)
T TIGR00603 310 SVEQWKQQFKMWSTIDD-SQICRFTSDA--KERFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVHV 386 (732)
T ss_pred HHHHHHHHHHHhcCCCC-ceEEEEecCc--ccccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEcccc
Confidence 46799999998865433 3344444432 1122235789999999876443221 12235788999999999
Q ss_pred ccccCcccccchhHhhhCCCccceeEEEEeecCchHHH--HHHHhcCCcEEEEEcccc----cccccceeEEEE------
Q 042003 73 LFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEE--LARSIMHDAVRVIVGRKN----TASESIKQKLVF------ 140 (248)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~--~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~------ 140 (248)
+.+.. |.. ++..+. ....+++|||+...... ....+++. ..+.....+ .....+...-++
T Consensus 387 lpA~~-fr~----il~~l~--a~~RLGLTATP~ReD~~~~~L~~LiGP-~vye~~~~eLi~~G~LA~~~~~ev~v~~t~~ 458 (732)
T TIGR00603 387 VPAAM-FRR----VLTIVQ--AHCKLGLTATLVREDDKITDLNFLIGP-KLYEANWMELQKKGFIANVQCAEVWCPMTPE 458 (732)
T ss_pred ccHHH-HHH----HHHhcC--cCcEEEEeecCcccCCchhhhhhhcCC-eeeecCHHHHHhCCccccceEEEEEecCCHH
Confidence 86643 333 333321 23468999998642221 12233332 111111100 000011100001
Q ss_pred ----------------cCCchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHH
Q 042003 141 ----------------AGSEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENA 202 (248)
Q Consensus 141 ----------------~~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~ 202 (248)
...++.|...+..+++.+ .+.++||||++...+..+++.|. +..+||+++..+|+.+
T Consensus 459 ~~~~yl~~~~~~k~~l~~~np~K~~~~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----~~~I~G~ts~~ER~~i 533 (732)
T TIGR00603 459 FYREYLRENSRKRMLLYVMNPNKFRACQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQQERMQI 533 (732)
T ss_pred HHHHHHHhcchhhhHHhhhChHHHHHHHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----CceEECCCCHHHHHHH
Confidence 112235666666666644 47899999999999999998883 5678999999999999
Q ss_pred HHHhhcC-CceEEEEecccccCCCCCCCcEEEeccCC-CCcccceecC
Q 042003 203 VDDFRAG-KTWVLIATDVIARGMDFKGVNCVINYDFP-DSGAAYIHRI 248 (248)
Q Consensus 203 ~~~f~~g-~~~ilv~T~~~~~Gidip~~~~Vi~~~~p-~~~~~~~qri 248 (248)
++.|++| .+++||+|+++++|+|+|++++||+++.| .|..+|+||+
T Consensus 534 l~~Fr~~~~i~vLv~SkVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRl 581 (732)
T TIGR00603 534 LQNFQHNPKVNTIFLSKVGDTSIDLPEANVLIQISSHYGSRRQEAQRL 581 (732)
T ss_pred HHHHHhCCCccEEEEecccccccCCCCCCEEEEeCCCCCCHHHHHHHh
Confidence 9999875 77999999999999999999999999998 5999999995
No 71
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.93 E-value=4.9e-25 Score=194.53 Aligned_cols=211 Identities=20% Similarity=0.201 Sum_probs=162.7
Q ss_pred CCcEEEeChHHHHHHHhcC--CcccCc---eeEEEEeccccccccC-cccccchhHhhhCC-CccceeEEEEeecCchHH
Q 042003 37 SCDILISTPLRLRLAIRRK--KIDLSR---VEYLVLDEADKLFEVG-NLLKHIDPVVKACS-NPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~--~~~~~~---~~~lIiDEah~~~~~~-~~~~~~~~~~~~~~-~~~~~~i~~SAT~~~~~~ 109 (248)
.++|+..||+++...-.-. ...+.. +-++||||||++.+|| +|++...++..... .+.+.++++|||.+..++
T Consensus 356 ~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHdFRp~Yk~l~~l~~~~~~vP~iALTATAT~~v~ 435 (941)
T KOG0351|consen 356 IIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHDFRPSYKRLGLLRIRFPGVPFIALTATATERVR 435 (941)
T ss_pred eEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhcccccHHHHHHHHHHhhCCCCCeEEeehhccHHHH
Confidence 5799999999886544321 122333 7899999999999997 67777777654432 344789999999998888
Q ss_pred HHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEE
Q 042003 110 ELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGV 189 (248)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~ 189 (248)
.-+...++-.... ........+++...+..-...+.....+...-..+..+..||||.++.+|+.+...|++.+.++..
T Consensus 436 ~DIi~~L~l~~~~-~~~~sfnR~NL~yeV~~k~~~~~~~~~~~~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~ 514 (941)
T KOG0351|consen 436 EDVIRSLGLRNPE-LFKSSFNRPNLKYEVSPKTDKDALLDILEESKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAF 514 (941)
T ss_pred HHHHHHhCCCCcc-eecccCCCCCceEEEEeccCccchHHHHHHhhhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHh
Confidence 7666644322211 222333344555555433333334444444445556789999999999999999999999999999
Q ss_pred EecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 190 IHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 190 ~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
||+||+..+|+.+-+.|-.++++|+|||=++++|||-||++.||||+.|.|+..|.|.+
T Consensus 515 YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR~ViH~~lPks~E~YYQE~ 573 (941)
T KOG0351|consen 515 YHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVRFVIHYSLPKSFEGYYQEA 573 (941)
T ss_pred hhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCceeEEEECCCchhHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999999999999853
No 72
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.92 E-value=4.5e-24 Score=189.89 Aligned_cols=103 Identities=23% Similarity=0.329 Sum_probs=95.8
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHh-hcCCCeeEEEecCCCHHHHHHHHHHhhcC--CceEEEEeccccc
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGEL-AFDGIRAGVIHSDLSQTQRENAVDDFRAG--KTWVLIATDVIAR 222 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L-~~~~~~v~~~~~~~~~~~r~~~~~~f~~g--~~~ilv~T~~~~~ 222 (248)
.|...+.++++...+.|+||||+++..+..+++.| ...|+++..+||+|+..+|..+++.|+++ ...|||||+++++
T Consensus 479 ~Ki~~L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvgse 558 (956)
T PRK04914 479 PRVEWLIDFLKSHRSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSE 558 (956)
T ss_pred HHHHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhhcc
Confidence 46778888888777889999999999999999999 46699999999999999999999999974 5899999999999
Q ss_pred CCCCCCCcEEEeccCCCCcccceecC
Q 042003 223 GMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 223 Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
|+|++.+++||+||+|+|+..|.|||
T Consensus 559 GlNlq~a~~VInfDlP~nP~~~eQRI 584 (956)
T PRK04914 559 GRNFQFASHLVLFDLPFNPDLLEQRI 584 (956)
T ss_pred CCCcccccEEEEecCCCCHHHHHHHh
Confidence 99999999999999999999999997
No 73
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.92 E-value=1.1e-23 Score=185.82 Aligned_cols=219 Identities=18% Similarity=0.154 Sum_probs=175.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh---hh----cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV---RS----TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~----~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
||+|++++|+.-.++++ .++.....-. ++ ..+..+..||+||| +.+.+..+.+++++++||||-|+
T Consensus 655 LA~QHy~tFkeRF~~fP-V~I~~LSRF~s~kE~~~il~~la~G~vDIvIGT-----HrLL~kdv~FkdLGLlIIDEEqR- 727 (1139)
T COG1197 655 LAQQHYETFKERFAGFP-VRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGT-----HRLLSKDVKFKDLGLLIIDEEQR- 727 (1139)
T ss_pred hHHHHHHHHHHHhcCCC-eeEEEecccCCHHHHHHHHHHHhcCCccEEEec-----hHhhCCCcEEecCCeEEEechhh-
Confidence 79999999999999999 6666555444 22 23455678999999 67778888999999999999999
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHH
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 153 (248)
|.-.-++-++. ...+..++.||||+-|++..+.....++...+.+++.++.+ ++.++ .-.+..--..++..
T Consensus 728 -----FGVk~KEkLK~-Lr~~VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~p--V~T~V-~~~d~~~ireAI~R 798 (1139)
T COG1197 728 -----FGVKHKEKLKE-LRANVDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLP--VKTFV-SEYDDLLIREAILR 798 (1139)
T ss_pred -----cCccHHHHHHH-HhccCcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcc--eEEEE-ecCChHHHHHHHHH
Confidence 55556666666 45678899999999999999988887777666666555443 23333 22333334455555
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
.+.. ++++....|.++..+++++.|+.. ..++++.||.|+..+-++++..|.+|+.+|||||.+++.|||||++|.
T Consensus 799 El~R--gGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANT 876 (1139)
T COG1197 799 ELLR--GGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANT 876 (1139)
T ss_pred HHhc--CCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCce
Confidence 5555 689999999999999999999986 568999999999999999999999999999999999999999999999
Q ss_pred EEeccC
Q 042003 232 VINYDF 237 (248)
Q Consensus 232 Vi~~~~ 237 (248)
+|.-+.
T Consensus 877 iIIe~A 882 (1139)
T COG1197 877 IIIERA 882 (1139)
T ss_pred EEEecc
Confidence 986554
No 74
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=7.6e-24 Score=180.84 Aligned_cols=149 Identities=22% Similarity=0.202 Sum_probs=115.3
Q ss_pred ceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccC--CCCEEEEecchHH
Q 042003 95 IVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL--NPPVLIFVQSKER 172 (248)
Q Consensus 95 ~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~liF~~~~~~ 172 (248)
..+.+||||.+....++...|..++..+....... ....+.+++ ....+|...+.+.+.... ++++||||+|++.
T Consensus 409 ~kl~GmTGTa~~~~~El~~~y~l~vv~IPt~kp~~--r~~~~~~v~-~t~~~K~~aL~~~i~~~~~~~~pvLIft~t~~~ 485 (656)
T PRK12898 409 LRLAGMTGTAREVAGELWSVYGLPVVRIPTNRPSQ--RRHLPDEVF-LTAAAKWAAVAARVRELHAQGRPVLVGTRSVAA 485 (656)
T ss_pred HHHhcccCcChHHHHHHHHHHCCCeEEeCCCCCcc--ceecCCEEE-eCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHH
Confidence 34568999998887788887877765554444332 122233333 345668888888886532 5789999999999
Q ss_pred HHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC---CCc-----EEEeccCCCCcccc
Q 042003 173 AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK---GVN-----CVINYDFPDSGAAY 244 (248)
Q Consensus 173 ~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip---~~~-----~Vi~~~~p~~~~~~ 244 (248)
++.+++.|.+.++++..+||.++ +|+..+..+..++..|+|||+.+++|+||+ +++ +||+++.|.|...|
T Consensus 486 se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y 563 (656)
T PRK12898 486 SERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQRGRITVATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARID 563 (656)
T ss_pred HHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCCCCcEEEEccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHH
Confidence 99999999999999999999865 455555556655667999999999999999 666 99999999999999
Q ss_pred eecC
Q 042003 245 IHRI 248 (248)
Q Consensus 245 ~qri 248 (248)
.||+
T Consensus 564 ~hr~ 567 (656)
T PRK12898 564 RQLA 567 (656)
T ss_pred HHhc
Confidence 9985
No 75
>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=99.91 E-value=9.9e-24 Score=191.09 Aligned_cols=197 Identities=18% Similarity=0.236 Sum_probs=138.2
Q ss_pred cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc-ccccCcccccchhHhhhCCCccceeEEEEeecCchHH
Q 042003 31 TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK-LFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 31 ~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~-~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~ 109 (248)
.+....+..|.++||+.|++.+..... ++++++||+||||. .++.+-....+..++.. .++.++|+||||++. .
T Consensus 150 ~~~~s~~T~I~~~TdGiLLr~l~~d~~-L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~--rpdLKlIlmSATld~--~ 224 (1283)
T TIGR01967 150 HDQVSSNTLVKLMTDGILLAETQQDRF-LSRYDTIIIDEAHERSLNIDFLLGYLKQLLPR--RPDLKIIITSATIDP--E 224 (1283)
T ss_pred CcccCCCceeeeccccHHHHHhhhCcc-cccCcEEEEcCcchhhccchhHHHHHHHHHhh--CCCCeEEEEeCCcCH--H
Confidence 334456789999999999999877543 79999999999994 66655122335555443 356899999999974 4
Q ss_pred HHHHHhcCCcEEEEEcccccccccceeEEEEcCCc-----hhHHHH----HHHHHhccCCCCEEEEecchHHHHHHHHHh
Q 042003 110 ELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSE-----EGKLLA----LRQSFAESLNPPVLIFVQSKERAKELYGEL 180 (248)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~----l~~~~~~~~~~~~liF~~~~~~~~~l~~~L 180 (248)
.+...+...+ .+.+.... ..+...+...... ..+... +.++... ..+.+|||+++..+++.+++.|
T Consensus 225 ~fa~~F~~ap-vI~V~Gr~---~PVev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~~~-~~GdILVFLpg~~EI~~l~~~L 299 (1283)
T TIGR01967 225 RFSRHFNNAP-IIEVSGRT---YPVEVRYRPLVEEQEDDDLDQLEAILDAVDELFAE-GPGDILIFLPGEREIRDAAEIL 299 (1283)
T ss_pred HHHHHhcCCC-EEEECCCc---ccceeEEecccccccchhhhHHHHHHHHHHHHHhh-CCCCEEEeCCCHHHHHHHHHHH
Confidence 4554443334 33333222 2233333322211 122222 3333333 3689999999999999999999
Q ss_pred hcCC---CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCC
Q 042003 181 AFDG---IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD 239 (248)
Q Consensus 181 ~~~~---~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~ 239 (248)
++.+ ..+..+||+|+.++|..+++.+ +..+|++||+++++|+|+|++++||++|.++
T Consensus 300 ~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~--~~rkIVLATNIAEtSLTIpgV~yVIDsGl~r 359 (1283)
T TIGR01967 300 RKRNLRHTEILPLYARLSNKEQQRVFQPH--SGRRIVLATNVAETSLTVPGIHYVIDTGTAR 359 (1283)
T ss_pred HhcCCCCcEEEeccCCCCHHHHHHHhCCC--CCceEEEeccHHHhccccCCeeEEEeCCCcc
Confidence 8764 4688999999999999987654 3468999999999999999999999999653
No 76
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.91 E-value=1e-23 Score=179.32 Aligned_cols=246 Identities=22% Similarity=0.262 Sum_probs=160.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHHHHHHhcCCcc-cCceeEEEEeccccccccCc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRLRLAIRRKKID-LSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~-~~~~~~lIiDEah~~~~~~~ 78 (248)
|+.|..+.++.++.... .+..+.+... ..........+|+|+||+.+.+.+..+... ++.+.++||||||+-....+
T Consensus 118 Lv~QQ~a~~~~~~~~~~-~T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~Hra~kn~~ 196 (746)
T KOG0354|consen 118 LVNQQIACFSIYLIPYS-VTGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECHRTSKNHP 196 (746)
T ss_pred HHHHHHHHHhhccCccc-ceeeccCccCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEccccccccccc
Confidence 34455577777776633 2222222111 444456678999999999999999886443 69999999999999887766
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcC-----------------------------------------
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMH----------------------------------------- 117 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~----------------------------------------- 117 (248)
|...+...+.. +....|++++|||++..+.....-..+
T Consensus 197 Y~~Vmr~~l~~-k~~~~qILgLTASpG~~~~~v~~~I~~L~asldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f 275 (746)
T KOG0354|consen 197 YNNIMREYLDL-KNQGNQILGLTASPGSKLEQVQNVIDNLCASLDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPF 275 (746)
T ss_pred HHHHHHHHHHh-hhccccEEEEecCCCccHHHHHHHHHhhheecccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhH
Confidence 77777676665 334449999999986433222111100
Q ss_pred --------------------CcE---EE-EEccccccccc--------------------------ce--eEEEE-----
Q 042003 118 --------------------DAV---RV-IVGRKNTASES--------------------------IK--QKLVF----- 140 (248)
Q Consensus 118 --------------------~~~---~~-~~~~~~~~~~~--------------------------~~--~~~~~----- 140 (248)
+.. .. ..........+ ++ ..+.+
T Consensus 276 ~~~i~p~l~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~ 355 (746)
T KOG0354|consen 276 GMIIEPLLQQLQEEGLIEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFY 355 (746)
T ss_pred HHHHHHHHHHHHhcCccccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhc
Confidence 000 00 00000000000 00 00000
Q ss_pred ----------------------------------cCCchhHHHHHHHHH----hccCCCCEEEEecchHHHHHHHHHhhc
Q 042003 141 ----------------------------------AGSEEGKLLALRQSF----AESLNPPVLIFVQSKERAKELYGELAF 182 (248)
Q Consensus 141 ----------------------------------~~~~~~~~~~l~~~~----~~~~~~~~liF~~~~~~~~~l~~~L~~ 182 (248)
.+....|+..+.+++ ......++|||+.+++.|..+...|..
T Consensus 356 ~e~~~~k~~~~~~e~~~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~ 435 (746)
T KOG0354|consen 356 EEVALKKYLKLELEARLIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQ 435 (746)
T ss_pred cccchhHHHHHHhcchhhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHh
Confidence 000112333333332 333367899999999999999999973
Q ss_pred ---CCCeeEEEe--------cCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 183 ---DGIRAGVIH--------SDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 183 ---~~~~v~~~~--------~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.+++...+- .+|++.+++++++.|+.|+.++||||+++++|+||+.+++||.||...|+.+++||.
T Consensus 436 ~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrr 512 (746)
T KOG0354|consen 436 LHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYSSNPIRMVQRR 512 (746)
T ss_pred hhhcccccceeeeccccccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecCCccHHHHHHHh
Confidence 233333333 489999999999999999999999999999999999999999999999999999984
No 77
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.91 E-value=1.5e-23 Score=182.58 Aligned_cols=104 Identities=23% Similarity=0.272 Sum_probs=92.9
Q ss_pred CchhHHHHHHHHHhc--cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 143 SEEGKLLALRQSFAE--SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~--~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
....|...+...+.. ..+.++||||+|++.++.+++.|.+.++++..+||.++..++..+..+++.| .|+|||+.+
T Consensus 409 ~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmA 486 (790)
T PRK09200 409 TLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATNMA 486 (790)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCCC--eEEEEccch
Confidence 445688888887754 2478999999999999999999999999999999999988888888887766 699999999
Q ss_pred ccCCCC---CCCc-----EEEeccCCCCcccceecC
Q 042003 221 ARGMDF---KGVN-----CVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 221 ~~Gidi---p~~~-----~Vi~~~~p~~~~~~~qri 248 (248)
++|+|+ |+++ +||++++|.|...|.||+
T Consensus 487 gRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~ 522 (790)
T PRK09200 487 GRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLR 522 (790)
T ss_pred hcCcCCCcccccccccCcEEEeccCCCCHHHHHHhh
Confidence 999999 6998 999999999999999985
No 78
>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=99.90 E-value=5.3e-23 Score=176.83 Aligned_cols=242 Identities=20% Similarity=0.132 Sum_probs=166.2
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHH-HHHHhcC------CcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRL-RLAIRRK------KIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l-~~~~~~~------~~~~~~~~~lIiDEah~ 72 (248)
||.|.++++.++.+.+| +++.++.|+. .+.......++|+++||+.| .+++..+ ...++++.++|+||+|.
T Consensus 109 LA~qdae~~~~l~~~LG-Lsv~~i~g~~~~~~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs 187 (745)
T TIGR00963 109 LAQRDAEWMGQVYRFLG-LSVGLILSGMSPEERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDS 187 (745)
T ss_pred HHHHHHHHHHHHhccCC-CeEEEEeCCCCHHHHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHH
Confidence 79999999999999999 5666666654 44444555799999999999 7777665 34679999999999998
Q ss_pred ccccC---------c------ccccchhHhhhCCCc-------c------------------------------------
Q 042003 73 LFEVG---------N------LLKHIDPVVKACSNP-------S------------------------------------ 94 (248)
Q Consensus 73 ~~~~~---------~------~~~~~~~~~~~~~~~-------~------------------------------------ 94 (248)
++-+. + .......+.+.+... .
T Consensus 188 ~LIDeaRtpLiisg~~~~~~~ly~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~ 267 (745)
T TIGR00963 188 ILIDEARTPLIISGPAEKSTELYLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYIN 267 (745)
T ss_pred HhHHhhhhHHhhcCCCCCchHHHHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHH
Confidence 86311 0 000000011110000 0
Q ss_pred -------------------------------------------------------------------------ceeEEEE
Q 042003 95 -------------------------------------------------------------------------IVRSLFS 101 (248)
Q Consensus 95 -------------------------------------------------------------------------~~~i~~S 101 (248)
..+.+||
T Consensus 268 ~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmT 347 (745)
T TIGR00963 268 NALKAKELFEKDVDYIVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMT 347 (745)
T ss_pred HHHHHHHHHhcCCcEEEECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccC
Confidence 2233555
Q ss_pred eecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh--ccCCCCEEEEecchHHHHHHHHH
Q 042003 102 ATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA--ESLNPPVLIFVQSKERAKELYGE 179 (248)
Q Consensus 102 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~liF~~~~~~~~~l~~~ 179 (248)
+|...+..++...|.-+...+. ...+...............+|...+.+.+. ...+.|+||||+|++.++.+.+.
T Consensus 348 GTa~te~~E~~~iY~l~vv~IP---tnkp~~R~d~~d~i~~t~~~k~~ai~~~i~~~~~~grpvLV~t~si~~se~ls~~ 424 (745)
T TIGR00963 348 GTAKTEEEEFEKIYNLEVVVVP---TNRPVIRKDLSDLVYKTEEEKWKAVVDEIKERHAKGQPVLVGTTSVEKSELLSNL 424 (745)
T ss_pred CCcHHHHHHHHHHhCCCEEEeC---CCCCeeeeeCCCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHH
Confidence 5554433333333322211111 111111111111223344567777766552 22378999999999999999999
Q ss_pred hhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC-------CcEEEeccCCCCcccceecC
Q 042003 180 LAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG-------VNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 180 L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~-------~~~Vi~~~~p~~~~~~~qri 248 (248)
|.+.++++..+|+. +.+|+..+..|..+...|+|||+.+++|.||+. ..+||+++.|.|...|.||+
T Consensus 425 L~~~gi~~~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~ 498 (745)
T TIGR00963 425 LKERGIPHNVLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLR 498 (745)
T ss_pred HHHcCCCeEEeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHh
Confidence 99999999999998 889999999999999999999999999999998 55999999999999999984
No 79
>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=99.90 E-value=9.7e-23 Score=176.15 Aligned_cols=104 Identities=21% Similarity=0.268 Sum_probs=90.6
Q ss_pred CCchhHHHHHHHHHhc--cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 142 GSEEGKLLALRQSFAE--SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~--~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
....+|...+.+.+.. ..+.++||||+|++.++.+.+.|.+.++++..+||.++..++..+.++++.| .|+|||+.
T Consensus 404 ~~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdm 481 (762)
T TIGR03714 404 ATLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSM 481 (762)
T ss_pred ECHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCCC--eEEEEccc
Confidence 3445688888877754 3478999999999999999999999999999999999998888887777777 59999999
Q ss_pred cccCCCCC---------CCcEEEeccCCCCcccceecC
Q 042003 220 IARGMDFK---------GVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 220 ~~~Gidip---------~~~~Vi~~~~p~~~~~~~qri 248 (248)
+++|+|+| ++.+|+++++|..... .||+
T Consensus 482 AgRGtDI~l~~~v~~~GGL~vIit~~~ps~rid-~qr~ 518 (762)
T TIGR03714 482 AGRGTDIKLGKGVAELGGLAVIGTERMENSRVD-LQLR 518 (762)
T ss_pred cccccCCCCCccccccCCeEEEEecCCCCcHHH-HHhh
Confidence 99999999 9999999999998766 7874
No 80
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.90 E-value=3.6e-24 Score=169.68 Aligned_cols=210 Identities=17% Similarity=0.167 Sum_probs=156.5
Q ss_pred CCCcEEEeChHHHHHHHhc----CCcccCceeEEEEeccccccccC-cccccchhHhhhC-CCccceeEEEEeecCchHH
Q 042003 36 FSCDILISTPLRLRLAIRR----KKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPVVKAC-SNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~----~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~~~~~-~~~~~~~i~~SAT~~~~~~ 109 (248)
....++.-||++....... +...-..+.++++||||++.+|| +|++....+-.+. .-+....+++|||.++...
T Consensus 112 p~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS~~~~vpwvALTATA~~~Vq 191 (641)
T KOG0352|consen 112 PTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSVCPGVPWVALTATANAKVQ 191 (641)
T ss_pred CceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchhhhhhHHhhCCCCceEEeecccChhHH
Confidence 4568999999876544433 22234567899999999999997 6777666553331 1245677899999998887
Q ss_pred HHHHH--hcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccC-------------CCCEEEEecchHHHH
Q 042003 110 ELARS--IMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESL-------------NPPVLIFVQSKERAK 174 (248)
Q Consensus 110 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------------~~~~liF~~~~~~~~ 174 (248)
+-+-. -+.+|+.+.- ......++.+...+-....+.+..|.++....- .+-.||||.|+++|+
T Consensus 192 EDi~~qL~L~~PVAiFk--TP~FR~NLFYD~~~K~~I~D~~~~LaDF~~~~LG~~~~~~~~~K~~~GCGIVYCRTR~~cE 269 (641)
T KOG0352|consen 192 EDIAFQLKLRNPVAIFK--TPTFRDNLFYDNHMKSFITDCLTVLADFSSSNLGKHEKASQNKKTFTGCGIVYCRTRNECE 269 (641)
T ss_pred HHHHHHHhhcCcHHhcc--CcchhhhhhHHHHHHHHhhhHhHhHHHHHHHhcCChhhhhcCCCCcCcceEEEeccHHHHH
Confidence 75544 2345544322 222223333333233333445555555543221 345899999999999
Q ss_pred HHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceec
Q 042003 175 ELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 175 ~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qr 247 (248)
+++-.|...|++...+|.|+...+|.++-+.|-+++..|+++|..+++|+|-|+++.|||+++|.|+.-|.|.
T Consensus 270 q~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VRFViHW~~~qn~AgYYQE 342 (641)
T KOG0352|consen 270 QVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWSPSQNLAGYYQE 342 (641)
T ss_pred HHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEeccccccCCcceeEEEecCchhhhHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999874
No 81
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.89 E-value=1.1e-22 Score=170.20 Aligned_cols=234 Identities=19% Similarity=0.161 Sum_probs=153.2
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|+.|+++.+.+..... .....++|+..... . ..|.|+|.+++.+.-.......+.+++||+||||++.++. +.
T Consensus 92 L~~Qw~~~~~~~~~~~--~~~g~~~~~~~~~~---~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~Hh~~a~~-~~ 164 (442)
T COG1061 92 LLDQWAEALKKFLLLN--DEIGIYGGGEKELE---P-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVHHLPAPS-YR 164 (442)
T ss_pred HHHHHHHHHHHhcCCc--cccceecCceeccC---C-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccccCCcHH-HH
Confidence 4567765555443332 12333344332221 1 5799999998877532223333579999999999988765 44
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHH---HHhcCCcEEEEEcccc----cccccceeEEEEc------------
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELA---RSIMHDAVRVIVGRKN----TASESIKQKLVFA------------ 141 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~---~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~------------ 141 (248)
.....+.... + ++++|||++....... ..+.+ +..+.....+ ....+........
T Consensus 165 ~~~~~~~~~~-~----~LGLTATp~R~D~~~~~~l~~~~g-~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~ 238 (442)
T COG1061 165 RILELLSAAY-P----RLGLTATPEREDGGRIGDLFDLIG-PIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAK 238 (442)
T ss_pred HHHHhhhccc-c----eeeeccCceeecCCchhHHHHhcC-CeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhh
Confidence 4333333321 1 7999999864331211 12222 2222222110 0111111111111
Q ss_pred -------------------------CCchhHHHHHHHHHhcc-CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 142 -------------------------GSEEGKLLALRQSFAES-LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 142 -------------------------~~~~~~~~~l~~~~~~~-~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
...+.+...+...+..+ .+.+++||+.+..++..++..+...+. +..+.|.++
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~ 317 (442)
T COG1061 239 ESARFRELLRARGTLRAENEARRIAIASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETP 317 (442)
T ss_pred hhhhhhhhhhhhhhhhHHHHHHHHhhccHHHHHHHHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCC
Confidence 11123334444445444 367999999999999999999998887 899999999
Q ss_pred HHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 196 QTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 196 ~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
..+|+++++.|+.|.+++||++.++.+|+|+|+++++|+..++.|+..|+||+
T Consensus 318 ~~eR~~il~~fr~g~~~~lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~l 370 (442)
T COG1061 318 KEEREAILERFRTGGIKVLVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRL 370 (442)
T ss_pred HHHHHHHHHHHHcCCCCEEEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999985
No 82
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.87 E-value=1.9e-21 Score=172.57 Aligned_cols=244 Identities=20% Similarity=0.255 Sum_probs=173.7
Q ss_pred CcchHHHHHHHhhcCCCc-EEEEcccchhhhc---ccccCCCcEEEeChHHHHHHHhcCC----cccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKF-QIKLMKKELVRST---DLSKFSCDILISTPLRLRLAIRRKK----IDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~-~~~~~~~~~~~~~---~~~~~~~~i~v~Tp~~l~~~~~~~~----~~~~~~~~lIiDEah~ 72 (248)
||+-+.+.++++....+. .+...+.|..... .+..+.++|++++|.++..++.+.. ..++++++||+||+|.
T Consensus 127 La~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHt 206 (851)
T COG1205 127 LANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHT 206 (851)
T ss_pred hHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEeccee
Confidence 677778888888877763 3444455555222 4467889999999999988665532 2478899999999998
Q ss_pred ccccCcccccc----hhHhhhC--CCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCC---
Q 042003 73 LFEVGNLLKHI----DPVVKAC--SNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS--- 143 (248)
Q Consensus 73 ~~~~~~~~~~~----~~~~~~~--~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 143 (248)
+-+. |...+ .+++..+ ...+.|+|++|||+.. ..+....+.+......+..... +...++...+...
T Consensus 207 YrGv--~GS~vA~llRRL~~~~~~~~~~~q~i~~SAT~~n-p~e~~~~l~~~~f~~~v~~~g~-~~~~~~~~~~~p~~~~ 282 (851)
T COG1205 207 YRGV--QGSEVALLLRRLLRRLRRYGSPLQIICTSATLAN-PGEFAEELFGRDFEVPVDEDGS-PRGLRYFVRREPPIRE 282 (851)
T ss_pred cccc--chhHHHHHHHHHHHHHhccCCCceEEEEeccccC-hHHHHHHhcCCcceeeccCCCC-CCCceEEEEeCCcchh
Confidence 7542 33333 3332222 2357899999999987 6666777766665553332222 2233333333330
Q ss_pred -----chhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHH----HHhhcCC----CeeEEEecCCCHHHHHHHHHHhhc
Q 042003 144 -----EEGKLLALRQSFAES--LNPPVLIFVQSKERAKELY----GELAFDG----IRAGVIHSDLSQTQRENAVDDFRA 208 (248)
Q Consensus 144 -----~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~----~~L~~~~----~~v~~~~~~~~~~~r~~~~~~f~~ 208 (248)
-.++...+..+.... .+-++++|+.++..++.++ ..+...+ ..+..++++|..++|..+...|++
T Consensus 283 ~~~~~r~s~~~~~~~~~~~~~~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~ 362 (851)
T COG1205 283 LAESIRRSALAELATLAALLVRNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKE 362 (851)
T ss_pred hhhhcccchHHHHHHHHHHHHHcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhc
Confidence 112333333333322 2679999999999999997 4444444 578899999999999999999999
Q ss_pred CCceEEEEecccccCCCCCCCcEEEeccCCC-CcccceecC
Q 042003 209 GKTWVLIATDVIARGMDFKGVNCVINYDFPD-SGAAYIHRI 248 (248)
Q Consensus 209 g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~-~~~~~~qri 248 (248)
|+..++++|++++.|+|+.+++.||..+.|. +..+|.||.
T Consensus 363 g~~~~~~st~AlelgidiG~ldavi~~g~P~~s~~~~~Q~~ 403 (851)
T COG1205 363 GELLGVIATNALELGIDIGSLDAVIAYGYPGVSVLSFRQRA 403 (851)
T ss_pred CCccEEecchhhhhceeehhhhhHhhcCCCCchHHHHHHhh
Confidence 9999999999999999999999999999999 899999983
No 83
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.87 E-value=2.2e-21 Score=168.19 Aligned_cols=230 Identities=20% Similarity=0.209 Sum_probs=158.7
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcC---CcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRK---KIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~---~~~~~~~~~lIiDEah~~~~~~ 77 (248)
||....+.+.+-....| +.|.-++|...-..-....++|+|+|||++--.-++. .-.++.++++|+||+|.+.++
T Consensus 176 La~Em~~~~~kkl~~~g-i~v~ELTGD~ql~~tei~~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVHlLhd~- 253 (1230)
T KOG0952|consen 176 LAAEMVDKFSKKLAPLG-ISVRELTGDTQLTKTEIADTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVHLLHDD- 253 (1230)
T ss_pred HHHHHHHHHhhhccccc-ceEEEecCcchhhHHHHHhcCEEEecccceeeeeeeeccchhhhhheeeEEeeeehhhcCc-
Confidence 34455555555455556 7788888877433333557999999999884333332 224788999999999998775
Q ss_pred cccccchhHhhhC------CCccceeEEEEeecCchHHHHHHHhcCCcEE--EEEcccccccccceeEEEEcCCc-----
Q 042003 78 NLLKHIDPVVKAC------SNPSIVRSLFSATLPDFVEELARSIMHDAVR--VIVGRKNTASESIKQKLVFAGSE----- 144 (248)
Q Consensus 78 ~~~~~~~~~~~~~------~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~----- 144 (248)
..+.++.++... .....+++++|||+|+ ..+.+.++.-++.. ........ +..+.+.++-.+..
T Consensus 254 -RGpvlEtiVaRtlr~vessqs~IRivgLSATlPN-~eDvA~fL~vn~~~glfsFd~~yR-PvpL~~~~iG~k~~~~~~~ 330 (1230)
T KOG0952|consen 254 -RGPVLETIVARTLRLVESSQSMIRIVGLSATLPN-YEDVARFLRVNPYAGLFSFDQRYR-PVPLTQGFIGIKGKKNRQQ 330 (1230)
T ss_pred -ccchHHHHHHHHHHHHHhhhhheEEEEeeccCCC-HHHHHHHhcCCCccceeeeccccc-ccceeeeEEeeecccchhh
Confidence 455555554332 2356899999999998 77777777665432 22222222 22233333332222
Q ss_pred -----hhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC-----------------------CCeeEEEecCCCH
Q 042003 145 -----EGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD-----------------------GIRAGVIHSDLSQ 196 (248)
Q Consensus 145 -----~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~-----------------------~~~v~~~~~~~~~ 196 (248)
+.....+.+++.. +.+++|||.+++.+.+.++.|.+. ....+++|+||..
T Consensus 331 ~~~~d~~~~~kv~e~~~~--g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r 408 (1230)
T KOG0952|consen 331 KKNIDEVCYDKVVEFLQE--GHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLR 408 (1230)
T ss_pred hhhHHHHHHHHHHHHHHc--CCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccch
Confidence 1223344444444 689999999999999999888541 1467899999999
Q ss_pred HHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 197 TQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 197 ~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
.+|.-+.+.|..|.++||+||..++.|+|+| +.+||+-|.+
T Consensus 409 ~DR~l~E~~F~~G~i~vL~cTaTLAwGVNLP-A~aViIKGT~ 449 (1230)
T KOG0952|consen 409 SDRQLVEKEFKEGHIKVLCCTATLAWGVNLP-AYAVIIKGTQ 449 (1230)
T ss_pred hhHHHHHHHHhcCCceEEEecceeeeccCCc-ceEEEecCCc
Confidence 9999999999999999999999999999999 6777766655
No 84
>PRK09694 helicase Cas3; Provisional
Probab=99.86 E-value=6.5e-21 Score=168.87 Aligned_cols=206 Identities=18% Similarity=0.250 Sum_probs=133.8
Q ss_pred CcEEEeChHHHHHHHhcC-CcccCcee----EEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 38 CDILISTPLRLRLAIRRK-KIDLSRVE----YLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 38 ~~i~v~Tp~~l~~~~~~~-~~~~~~~~----~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
.+|+|||+.+++..+... ...++.++ +|||||+|.+.. . +...+..+++.+......+|+||||+|...++..
T Consensus 411 api~V~TiDQlL~a~l~~kh~~lR~~~La~svvIiDEVHAyD~-y-m~~lL~~~L~~l~~~g~~vIllSATLP~~~r~~L 488 (878)
T PRK09694 411 GQIGVCTIDQVLISVLPVKHRFIRGFGLGRSVLIVDEVHAYDA-Y-MYGLLEAVLKAQAQAGGSVILLSATLPATLKQKL 488 (878)
T ss_pred CCEEEcCHHHHHHHHHccchHHHHHHhhccCeEEEechhhCCH-H-HHHHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHH
Confidence 799999998888655442 22233333 899999999743 2 4556677777655566789999999998776543
Q ss_pred H-HhcCC-c------EEEEE--c--------cccccc-ccceeEE----EEcCCchhHHHHHHHHHhc-cCCCCEEEEec
Q 042003 113 R-SIMHD-A------VRVIV--G--------RKNTAS-ESIKQKL----VFAGSEEGKLLALRQSFAE-SLNPPVLIFVQ 168 (248)
Q Consensus 113 ~-~~~~~-~------~~~~~--~--------~~~~~~-~~~~~~~----~~~~~~~~~~~~l~~~~~~-~~~~~~liF~~ 168 (248)
. .+.+. + +.... . ...... ....+.+ ............+..+.+. ..+++++||||
T Consensus 489 ~~a~~~~~~~~~~~~YPlvt~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~~~~g~~vLVf~N 568 (878)
T PRK09694 489 LDTYGGHDPVELSSAYPLITWRGVNGAQRFDLSAHPEQLPARFTIQLEPICLADMLPDLTLLQRMIAAANAGAQVCLICN 568 (878)
T ss_pred HHHhccccccccccccccccccccccceeeeccccccccCcceEEEEEeeccccccCHHHHHHHHHHHHhcCCEEEEEEC
Confidence 3 33211 0 00000 0 000000 0011111 1111111112222333322 23678999999
Q ss_pred chHHHHHHHHHhhcCC---CeeEEEecCCCHHHHH----HHHHHh-hcCC---ceEEEEecccccCCCCCCCcEEEeccC
Q 042003 169 SKERAKELYGELAFDG---IRAGVIHSDLSQTQRE----NAVDDF-RAGK---TWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 169 ~~~~~~~l~~~L~~~~---~~v~~~~~~~~~~~r~----~~~~~f-~~g~---~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
|++.|+.+++.|++.. .++..+||+++..+|+ ++++.| ++|+ ..|||||+++++|+|+ +.+++|....
T Consensus 569 TV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~DvlItdla 647 (878)
T PRK09694 569 LVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFDWLITQLC 647 (878)
T ss_pred CHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCCeEEECCC
Confidence 9999999999998764 6899999999999994 567778 5565 4799999999999999 4899999888
Q ss_pred CCCcccceecC
Q 042003 238 PDSGAAYIHRI 248 (248)
Q Consensus 238 p~~~~~~~qri 248 (248)
| .+.++||+
T Consensus 648 P--idsLiQRa 656 (878)
T PRK09694 648 P--VDLLFQRL 656 (878)
T ss_pred C--HHHHHHHH
Confidence 8 56888884
No 85
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=99.85 E-value=7.8e-21 Score=149.21 Aligned_cols=209 Identities=19% Similarity=0.253 Sum_probs=158.2
Q ss_pred CCCcEEEeChHHHHHHHh---c--CCcccCceeEEEEeccccccccC-cccccchhH--hhhCCCccceeEEEEeecCch
Q 042003 36 FSCDILISTPLRLRLAIR---R--KKIDLSRVEYLVLDEADKLFEVG-NLLKHIDPV--VKACSNPSIVRSLFSATLPDF 107 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~---~--~~~~~~~~~~lIiDEah~~~~~~-~~~~~~~~~--~~~~~~~~~~~i~~SAT~~~~ 107 (248)
....++..||+.+...-. + ..+....+.++-+||+|+..+|| +|+.....+ ++. .-+...+++++||.+..
T Consensus 185 se~kliyvtpekiaksk~~mnkleka~~~~~~~~iaidevhccsqwghdfr~dy~~l~ilkr-qf~~~~iigltatatn~ 263 (695)
T KOG0353|consen 185 SEFKLIYVTPEKIAKSKKFMNKLEKALEAGFFKLIAIDEVHCCSQWGHDFRPDYKALGILKR-QFKGAPIIGLTATATNH 263 (695)
T ss_pred ceeEEEEecHHHHHHHHHHHHHHHHHhhcceeEEEeecceeehhhhCcccCcchHHHHHHHH-hCCCCceeeeehhhhcc
Confidence 357899999998864321 1 34456778899999999999997 566655443 222 23567789999999876
Q ss_pred HHHHHHHhcCCcEEEEEcccccccccceeEEEEc-CCchhHHHHHHHHHhc-cCCCCEEEEecchHHHHHHHHHhhcCCC
Q 042003 108 VEELARSIMHDAVRVIVGRKNTASESIKQKLVFA-GSEEGKLLALRQSFAE-SLNPPVLIFVQSKERAKELYGELAFDGI 185 (248)
Q Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~-~~~~~~liF~~~~~~~~~l~~~L~~~~~ 185 (248)
...-+...+.-...+. .+..-..+++++....- .+.++....+..+++. ..++..||||-+.++|++++..|+..|+
T Consensus 264 vl~d~k~il~ie~~~t-f~a~fnr~nl~yev~qkp~n~dd~~edi~k~i~~~f~gqsgiiyc~sq~d~ekva~alkn~gi 342 (695)
T KOG0353|consen 264 VLDDAKDILCIEAAFT-FRAGFNRPNLKYEVRQKPGNEDDCIEDIAKLIKGDFAGQSGIIYCFSQKDCEKVAKALKNHGI 342 (695)
T ss_pred hhhHHHHHHhHHhhhe-eecccCCCCceeEeeeCCCChHHHHHHHHHHhccccCCCcceEEEeccccHHHHHHHHHhcCc
Confidence 6655554433222111 11222334444444333 3445566666666653 4477899999999999999999999999
Q ss_pred eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCccccee
Q 042003 186 RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 186 ~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~q 246 (248)
....+|.-|.+++|..+-+.|..|++.|+|+|-++++|||-|+++.|||..+|.|+..|.|
T Consensus 343 ~a~~yha~lep~dks~~hq~w~a~eiqvivatvafgmgidkpdvrfvihhsl~ksienyyq 403 (695)
T KOG0353|consen 343 HAGAYHANLEPEDKSGAHQGWIAGEIQVIVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQ 403 (695)
T ss_pred cccccccccCccccccccccccccceEEEEEEeeecccCCCCCeeEEEecccchhHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999987
No 86
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.84 E-value=2.5e-19 Score=138.75 Aligned_cols=197 Identities=21% Similarity=0.242 Sum_probs=136.8
Q ss_pred EEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEE
Q 042003 21 KLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLF 100 (248)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 100 (248)
..+.+|+.++.- ..+++|+|..++++.. +.+|++||||+|.+.-.. -..+....+.........|.+
T Consensus 173 I~~Lyg~S~~~f----r~plvVaTtHQLlrFk-------~aFD~liIDEVDAFP~~~--d~~L~~Av~~ark~~g~~Iyl 239 (441)
T COG4098 173 IDLLYGDSDSYF----RAPLVVATTHQLLRFK-------QAFDLLIIDEVDAFPFSD--DQSLQYAVKKARKKEGATIYL 239 (441)
T ss_pred eeeEecCCchhc----cccEEEEehHHHHHHH-------hhccEEEEeccccccccC--CHHHHHHHHHhhcccCceEEE
Confidence 445555443322 3789999999998776 577899999999975322 234445555545566778999
Q ss_pred EeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHH------HHHHHHHhccC--CCCEEEEecchHH
Q 042003 101 SATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKL------LALRQSFAESL--NPPVLIFVQSKER 172 (248)
Q Consensus 101 SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~l~~~~~~~~--~~~~liF~~~~~~ 172 (248)
|||.+...+..+.. ++...+..+..-...+-..-.+.+..+-..++ ..+..++++.. +.+++||+++++.
T Consensus 240 TATp~k~l~r~~~~--g~~~~~klp~RfH~~pLpvPkf~w~~~~~k~l~r~kl~~kl~~~lekq~~~~~P~liF~p~I~~ 317 (441)
T COG4098 240 TATPTKKLERKILK--GNLRILKLPARFHGKPLPVPKFVWIGNWNKKLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEIET 317 (441)
T ss_pred ecCChHHHHHHhhh--CCeeEeecchhhcCCCCCCCceEEeccHHHHhhhccCCHHHHHHHHHHHhcCCcEEEEecchHH
Confidence 99998766665543 23333433333222222222233444444333 24556665443 5799999999999
Q ss_pred HHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe
Q 042003 173 AKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN 234 (248)
Q Consensus 173 ~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~ 234 (248)
.+++++.|++. ...++.+|+. ...|.+..++|++|++++|++|.++++|+.+|++++.+.
T Consensus 318 ~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vl 379 (441)
T COG4098 318 MEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVL 379 (441)
T ss_pred HHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEe
Confidence 99999999543 3356788886 567999999999999999999999999999999998774
No 87
>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=99.83 E-value=4.8e-19 Score=150.24 Aligned_cols=220 Identities=20% Similarity=0.155 Sum_probs=137.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh-------hcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR-------STDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
|+.|+++.+++... ..+..+.++.. ......+.++|+|+|+..+. ..+.+++++||||+|..
T Consensus 37 L~~Q~~~~l~~~f~----~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-------~p~~~l~lIIVDEeh~~ 105 (505)
T TIGR00595 37 LTPQMIQRFKYRFG----SQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-------LPFKNLGLIIVDEEHDS 105 (505)
T ss_pred HHHHHHHHHHHHhC----CcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-------CcccCCCEEEEECCCcc
Confidence 56788888876432 22333444331 12234456899999997662 35789999999999987
Q ss_pred cccCccccc-----chhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccc--ccccccceeEEEEcCCc--
Q 042003 74 FEVGNLLKH-----IDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRK--NTASESIKQKLVFAGSE-- 144 (248)
Q Consensus 74 ~~~~~~~~~-----~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~-- 144 (248)
.-++.-... +..... ...+.+++++|||++.+..... ..+.......... ....+.+ .++.....
T Consensus 106 sykq~~~p~y~ar~~a~~ra--~~~~~~vil~SATPsles~~~~--~~g~~~~~~l~~r~~~~~~p~v--~vid~~~~~~ 179 (505)
T TIGR00595 106 SYKQEEGPRYHARDVAVYRA--KKFNCPVVLGSATPSLESYHNA--KQKAYRLLVLTRRVSGRKPPEV--KLIDMRKEPR 179 (505)
T ss_pred ccccccCCCCcHHHHHHHHH--HhcCCCEEEEeCCCCHHHHHHH--hcCCeEEeechhhhcCCCCCeE--EEEecccccc
Confidence 643311111 112222 2357889999999765443333 2222222222111 1111111 11112111
Q ss_pred -----hhHHHHHHHHHhccCCCCEEEEecchHH-----------------------------------------------
Q 042003 145 -----EGKLLALRQSFAESLNPPVLIFVQSKER----------------------------------------------- 172 (248)
Q Consensus 145 -----~~~~~~l~~~~~~~~~~~~liF~~~~~~----------------------------------------------- 172 (248)
+...+.+.+.+++ +++++||+|++..
T Consensus 180 ~~~ls~~l~~~i~~~l~~--g~qvLvflnrrGya~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp 257 (505)
T TIGR00595 180 QSFLSPELITAIEQTLAA--GEQSILFLNRRGYSKNLLCRSCGYILCCPNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCP 257 (505)
T ss_pred cCCccHHHHHHHHHHHHc--CCcEEEEEeCCcCCCeeEhhhCcCccCCCCCCCceEEecCCCeEEcCCCcCcCCCCCCCC
Confidence 1223344444444 5799999887654
Q ss_pred -------------HHHHHHHhhcC--CCeeEEEecCCCHHHH--HHHHHHhhcCCceEEEEecccccCCCCCCCcEEE--
Q 042003 173 -------------AKELYGELAFD--GIRAGVIHSDLSQTQR--ENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI-- 233 (248)
Q Consensus 173 -------------~~~l~~~L~~~--~~~v~~~~~~~~~~~r--~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi-- 233 (248)
.+++++.|++. +.++..+|++++...+ +++++.|++|+.+|||+|+.+++|+|+|++++|+
T Consensus 258 ~C~s~~l~~~g~Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl 337 (505)
T TIGR00595 258 QCGSEDLVYKGYGTEQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGKADILIGTQMIAKGHHFPNVTLVGVL 337 (505)
T ss_pred CCCCCeeEeecccHHHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCCCCEEEeCcccccCCCCCcccEEEEE
Confidence 47788888776 6789999999987665 8899999999999999999999999999999885
Q ss_pred eccCCC
Q 042003 234 NYDFPD 239 (248)
Q Consensus 234 ~~~~p~ 239 (248)
++|..-
T Consensus 338 ~aD~~l 343 (505)
T TIGR00595 338 DADSGL 343 (505)
T ss_pred cCcccc
Confidence 555543
No 88
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.82 E-value=9.3e-20 Score=160.43 Aligned_cols=227 Identities=18% Similarity=0.179 Sum_probs=154.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCc---ccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKI---DLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~---~~~~~~~lIiDEah~~~~~~ 77 (248)
|++.+-..+.+....+| ++|.-.+|..........+.+|+|+||+.. +.+.++.. ...-++++|+||.|.+.+.
T Consensus 376 LvqE~VgsfSkRla~~G-I~V~ElTgD~~l~~~qieeTqVIV~TPEK~-DiITRk~gdraY~qlvrLlIIDEIHLLhDd- 452 (1674)
T KOG0951|consen 376 LVQEMVGSFSKRLAPLG-ITVLELTGDSQLGKEQIEETQVIVTTPEKW-DIITRKSGDRAYEQLVRLLIIDEIHLLHDD- 452 (1674)
T ss_pred HHHHHHHHHHhhccccC-cEEEEecccccchhhhhhcceeEEeccchh-hhhhcccCchhHHHHHHHHhhhhhhhcccc-
Confidence 34455555666677778 888888887766666667899999999988 44444322 2345779999999998664
Q ss_pred cccccchhHhh----hC--CCccceeEEEEeecCchHHHHHHHhcCCcE-EEEEcccccccccceeEEEEcCC--chhHH
Q 042003 78 NLLKHIDPVVK----AC--SNPSIVRSLFSATLPDFVEELARSIMHDAV-RVIVGRKNTASESIKQKLVFAGS--EEGKL 148 (248)
Q Consensus 78 ~~~~~~~~~~~----~~--~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ 148 (248)
..+.+..+.. .. ....++.+++|||+|+.. .....+.-++. .+..++..++ .++++.++-+.. ...+.
T Consensus 453 -RGpvLESIVaRt~r~ses~~e~~RlVGLSATLPNy~-DV~~Fl~v~~~glf~fd~syRp-vPL~qq~Igi~ek~~~~~~ 529 (1674)
T KOG0951|consen 453 -RGPVLESIVARTFRRSESTEEGSRLVGLSATLPNYE-DVASFLRVDPEGLFYFDSSYRP-VPLKQQYIGITEKKPLKRF 529 (1674)
T ss_pred -cchHHHHHHHHHHHHhhhcccCceeeeecccCCchh-hhHHHhccCcccccccCcccCc-CCccceEeccccCCchHHH
Confidence 3444433322 21 124688999999999843 33332333332 2333333333 334444433322 22222
Q ss_pred H-----HHHHHHhccCCCCEEEEecchHHHHHHHHHhhc-------------------------------------CCCe
Q 042003 149 L-----ALRQSFAESLNPPVLIFVQSKERAKELYGELAF-------------------------------------DGIR 186 (248)
Q Consensus 149 ~-----~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~-------------------------------------~~~~ 186 (248)
. ....+++....++++||+-+++++.+.++.+++ ..++
T Consensus 530 qamNe~~yeKVm~~agk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpyg 609 (1674)
T KOG0951|consen 530 QAMNEACYEKVLEHAGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYG 609 (1674)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhcc
Confidence 2 223344555467999999999999888888863 2468
Q ss_pred eEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE
Q 042003 187 AGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI 233 (248)
Q Consensus 187 v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi 233 (248)
++++|+||+..+|..+.+.|+.|.+.++|+|..++.|+|+|+-+++|
T Consensus 610 faIHhAGl~R~dR~~~EdLf~~g~iqvlvstatlawgvnlpahtVii 656 (1674)
T KOG0951|consen 610 FAIHHAGLNRKDRELVEDLFADGHIQVLVSTATLAWGVNLPAHTVII 656 (1674)
T ss_pred ceeeccCCCcchHHHHHHHHhcCceeEEEeehhhhhhcCCCcceEEe
Confidence 99999999999999999999999999999999999999999666665
No 89
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.82 E-value=4.8e-19 Score=161.12 Aligned_cols=238 Identities=14% Similarity=0.158 Sum_probs=144.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh-hcccccCCCcEEEeChHHHHHHHhcC-----CcccCceeEEEEecccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR-STDLSKFSCDILISTPLRLRLAIRRK-----KIDLSRVEYLVLDEADKLF 74 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~v~Tp~~l~~~~~~~-----~~~~~~~~~lIiDEah~~~ 74 (248)
|+.|+.+.+..+....+ .....+++... .........+|+|+|.+++.+.+... ...+..+++||+||||+..
T Consensus 475 L~~Qa~~~F~~~~~~~~-~~~~~i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaHRs~ 553 (1123)
T PRK11448 475 LGEQAEDAFKDTKIEGD-QTFASIYDIKGLEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAHRGY 553 (1123)
T ss_pred HHHHHHHHHHhcccccc-cchhhhhchhhhhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCCCCC
Confidence 56788888887643222 11111222111 11122346899999999998776432 2356789999999999963
Q ss_pred c------cC--------cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEE-------------------
Q 042003 75 E------VG--------NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVR------------------- 121 (248)
Q Consensus 75 ~------~~--------~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~------------------- 121 (248)
. .+ .+...+..++.++ +...|++|||+..... .+++.+..
T Consensus 554 ~~d~~~~~~~~~~~~~~~~~~~yr~iL~yF---dA~~IGLTATP~r~t~----~~FG~pv~~Ysl~eAI~DG~Lv~~~~p 626 (1123)
T PRK11448 554 TLDKEMSEGELQFRDQLDYVSKYRRVLDYF---DAVKIGLTATPALHTT----EIFGEPVYTYSYREAVIDGYLIDHEPP 626 (1123)
T ss_pred ccccccccchhccchhhhHHHHHHHHHhhc---CccEEEEecCCccchh----HHhCCeeEEeeHHHHHhcCCcccCcCC
Confidence 2 00 0123444455543 3457999999864222 22333221
Q ss_pred --EEEcccc--cc---c---cccee---EE--EEcCC----c----------hhHH----HHHHHHHhccCCCCEEEEec
Q 042003 122 --VIVGRKN--TA---S---ESIKQ---KL--VFAGS----E----------EGKL----LALRQSFAESLNPPVLIFVQ 168 (248)
Q Consensus 122 --~~~~~~~--~~---~---~~~~~---~~--~~~~~----~----------~~~~----~~l~~~~~~~~~~~~liF~~ 168 (248)
+...... .. . ..... .+ ...++ . +... ..+.+.+....++|+||||.
T Consensus 627 ~~i~t~~~~~gi~~~~~e~~~~~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~ 706 (1123)
T PRK11448 627 IRIETRLSQEGIHFEKGEEVEVINTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAA 706 (1123)
T ss_pred EEEEEEeccccccccccchhhhcchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEc
Confidence 1110000 00 0 00000 00 00000 0 0011 11222333333579999999
Q ss_pred chHHHHHHHHHhhcC------C---CeeEEEecCCCHHHHHHHHHHhhcCCc-eEEEEecccccCCCCCCCcEEEeccCC
Q 042003 169 SKERAKELYGELAFD------G---IRAGVIHSDLSQTQRENAVDDFRAGKT-WVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 169 ~~~~~~~l~~~L~~~------~---~~v~~~~~~~~~~~r~~~~~~f~~g~~-~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
++++|+.+++.|++. + ..+..++|+++ ++.++++.|+++.. .|+|+++.+.+|+|+|.+++||++.++
T Consensus 707 s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpv 784 (1123)
T PRK11448 707 TDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLRRV 784 (1123)
T ss_pred CHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEecCC
Confidence 999999999887652 1 24667899875 46789999999876 699999999999999999999999999
Q ss_pred CCcccceecC
Q 042003 239 DSGAAYIHRI 248 (248)
Q Consensus 239 ~~~~~~~qri 248 (248)
.|...|+|||
T Consensus 785 kS~~lf~QmI 794 (1123)
T PRK11448 785 RSRILYEQML 794 (1123)
T ss_pred CCHHHHHHHH
Confidence 9999999986
No 90
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.81 E-value=1.8e-18 Score=149.07 Aligned_cols=221 Identities=24% Similarity=0.191 Sum_probs=152.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|.+|-+..|+.-....| +++|.. .+...+.++|+|.+.|.+++.++.--.++++++|+||+|.+.+.. ..
T Consensus 352 LSNQKfRDFk~tF~Dvg-----LlTGDv----qinPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVHYiND~e-RG 421 (1248)
T KOG0947|consen 352 LSNQKFRDFKETFGDVG-----LLTGDV----QINPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVHYINDVE-RG 421 (1248)
T ss_pred hccchHHHHHHhccccc-----eeecce----eeCCCcceEeehHHHHHHHHhcccchhhccceEEEeeeeeccccc-cc
Confidence 44566666666555554 344432 334468899999999999999988778999999999999988776 66
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCC-cEEEEEcccccccccceeEEEEcC-----------------
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHD-AVRVIVGRKNTASESIKQKLVFAG----------------- 142 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~----------------- 142 (248)
-.+++++-. .+...++|++|||.|+ ..+++.|..+- ...+.+......+.++.++++.-.
T Consensus 422 vVWEEViIM-lP~HV~~IlLSATVPN-~~EFA~WIGRtK~K~IyViST~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~ 499 (1248)
T KOG0947|consen 422 VVWEEVIIM-LPRHVNFILLSATVPN-TLEFADWIGRTKQKTIYVISTSKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGI 499 (1248)
T ss_pred ccceeeeee-ccccceEEEEeccCCC-hHHHHHHhhhccCceEEEEecCCCccceEEEEEeccceehhhcccchhhhhcc
Confidence 677777777 6788999999999998 66666665431 111111111111111212211100
Q ss_pred -----------------------------------------------CchhH---HHHHHHHHhccCCCCEEEEecchHH
Q 042003 143 -----------------------------------------------SEEGK---LLALRQSFAESLNPPVLIFVQSKER 172 (248)
Q Consensus 143 -----------------------------------------------~~~~~---~~~l~~~~~~~~~~~~liF~~~~~~ 172 (248)
.+..+ ...+...+.+..--|+||||-+++.
T Consensus 500 ~~a~~~~~~~ak~~~~~~~~~~~~rgs~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~k~~lLP~VvFvFSkkr 579 (1248)
T KOG0947|consen 500 KDAKDSLKKEAKFVDVEKSDARGGRGSQKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLRKKNLLPVVVFVFSKKR 579 (1248)
T ss_pred hhhhhhhcccccccccccccccccccccccCCcCCCCCCCcccccccccccccchHHHHHHHHhhcccCceEEEEEcccc
Confidence 00011 1122222333334589999999999
Q ss_pred HHHHHHHhhcC---------------------------------------CCeeEEEecCCCHHHHHHHHHHhhcCCceE
Q 042003 173 AKELYGELAFD---------------------------------------GIRAGVIHSDLSQTQRENAVDDFRAGKTWV 213 (248)
Q Consensus 173 ~~~l~~~L~~~---------------------------------------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~i 213 (248)
|+..++.|... ..+++++|||+-+--++-+...|..|-.+|
T Consensus 580 Cde~a~~L~~~nL~~~~EKseV~lfl~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKV 659 (1248)
T KOG0947|consen 580 CDEYADYLTNLNLTDSKEKSEVHLFLSKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKV 659 (1248)
T ss_pred HHHHHHHHhccCcccchhHHHHHHHHHHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCceEE
Confidence 99999999531 136899999999999999999999999999
Q ss_pred EEEecccccCCCCCCCcEEE
Q 042003 214 LIATDVIARGMDFKGVNCVI 233 (248)
Q Consensus 214 lv~T~~~~~Gidip~~~~Vi 233 (248)
|+||.++++|+|+|.-.+|+
T Consensus 660 LFATETFAMGVNMPARtvVF 679 (1248)
T KOG0947|consen 660 LFATETFAMGVNMPARTVVF 679 (1248)
T ss_pred EeehhhhhhhcCCCceeEEe
Confidence 99999999999999655555
No 91
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.80 E-value=2e-18 Score=150.61 Aligned_cols=222 Identities=20% Similarity=0.165 Sum_probs=150.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHH-HHHHhcCC------cccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRL-RLAIRRKK------IDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l-~~~~~~~~------~~~~~~~~lIiDEah~ 72 (248)
||.|.++++..+.+.+| +++.++.|+. .........++|+++||+.| .+.+..+. ..++.+.++|+||||.
T Consensus 134 LA~rd~e~~~~l~~~LG-lsv~~i~~~~~~~er~~~y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDs 212 (830)
T PRK12904 134 LAKRDAEWMGPLYEFLG-LSVGVILSGMSPEERREAYAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDS 212 (830)
T ss_pred HHHHHHHHHHHHHhhcC-CeEEEEcCCCCHHHHHHhcCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhh
Confidence 78999999999999999 6666666655 33333335699999999999 77776653 2468899999999997
Q ss_pred cc-ccC--------------cccccchhHhhhCCCc-------c------------------------------------
Q 042003 73 LF-EVG--------------NLLKHIDPVVKACSNP-------S------------------------------------ 94 (248)
Q Consensus 73 ~~-~~~--------------~~~~~~~~~~~~~~~~-------~------------------------------------ 94 (248)
++ +.. ..+..+..+...+... .
T Consensus 213 iLIDeArtpLiiSg~~~~~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~i~ 292 (830)
T PRK12904 213 ILIDEARTPLIISGPAEDSSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHLN 292 (830)
T ss_pred heeccCCCceeeECCCCcccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHHHH
Confidence 76 211 0111111122211100 0
Q ss_pred -------------------------------------------------------------------------ceeEEEE
Q 042003 95 -------------------------------------------------------------------------IVRSLFS 101 (248)
Q Consensus 95 -------------------------------------------------------------------------~~~i~~S 101 (248)
..+.+||
T Consensus 293 ~AL~A~~l~~~d~dYiV~dg~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmT 372 (830)
T PRK12904 293 QALRAHELFKRDVDYIVKDGEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMT 372 (830)
T ss_pred HHHHHHHHHhcCCcEEEECCEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcccC
Confidence 2233555
Q ss_pred eecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc--cCCCCEEEEecchHHHHHHHHH
Q 042003 102 ATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE--SLNPPVLIFVQSKERAKELYGE 179 (248)
Q Consensus 102 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~liF~~~~~~~~~l~~~ 179 (248)
+|...+..++...|.-+...+ +...+...............+|...+.+.+.. ..+.|+||||+|++.++.+++.
T Consensus 373 GTa~te~~E~~~iY~l~vv~I---Ptnkp~~r~d~~d~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~ 449 (830)
T PRK12904 373 GTADTEAEEFREIYNLDVVVI---PTNRPMIRIDHPDLIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKL 449 (830)
T ss_pred CCcHHHHHHHHHHhCCCEEEc---CCCCCeeeeeCCCeEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHH
Confidence 555444333333332221111 11222222221222233555788888888755 4478999999999999999999
Q ss_pred hhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC
Q 042003 180 LAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG 228 (248)
Q Consensus 180 L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~ 228 (248)
|.+.++++..+|+. +.+|+..+..|..+...|+|||+.+++|.||+-
T Consensus 450 L~~~gi~~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~L 496 (830)
T PRK12904 450 LKKAGIPHNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKL 496 (830)
T ss_pred HHHCCCceEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccC
Confidence 99999999999995 789999999999999999999999999999984
No 92
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.80 E-value=4.9e-18 Score=149.01 Aligned_cols=224 Identities=17% Similarity=0.135 Sum_probs=137.0
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhh-------cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRS-------TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
|+.|+.+.+++.. + ..+..+.|+... .....+.++|+|+||+.+. ..+++++++|+||+|..
T Consensus 202 L~~Q~~~~l~~~f---g-~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-------~p~~~l~liVvDEeh~~ 270 (679)
T PRK05580 202 LTPQMLARFRARF---G-APVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-------LPFKNLGLIIVDEEHDS 270 (679)
T ss_pred HHHHHHHHHHHHh---C-CCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-------ccccCCCEEEEECCCcc
Confidence 5778888887643 2 234444444311 1234456899999997653 45789999999999986
Q ss_pred cccCcccc--cchhHh-hhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccc--cccccceeEEEEcCC-----
Q 042003 74 FEVGNLLK--HIDPVV-KACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKN--TASESIKQKLVFAGS----- 143 (248)
Q Consensus 74 ~~~~~~~~--~~~~~~-~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~----- 143 (248)
.-+..-.. ....+. ......+.+++++|||++.+....+. .++...+...... ...+.+ .++....
T Consensus 271 s~~~~~~p~y~~r~va~~ra~~~~~~~il~SATps~~s~~~~~--~g~~~~~~l~~r~~~~~~p~v--~~id~~~~~~~~ 346 (679)
T PRK05580 271 SYKQQEGPRYHARDLAVVRAKLENIPVVLGSATPSLESLANAQ--QGRYRLLRLTKRAGGARLPEV--EIIDMRELLRGE 346 (679)
T ss_pred ccccCcCCCCcHHHHHHHHhhccCCCEEEEcCCCCHHHHHHHh--ccceeEEEeccccccCCCCeE--EEEechhhhhhc
Confidence 53321111 111111 11134578999999998765554443 2222222222111 111111 1111111
Q ss_pred -----chhHHHHHHHHHhccCCCCEEEEecchH-----------------------------------------------
Q 042003 144 -----EEGKLLALRQSFAESLNPPVLIFVQSKE----------------------------------------------- 171 (248)
Q Consensus 144 -----~~~~~~~l~~~~~~~~~~~~liF~~~~~----------------------------------------------- 171 (248)
.....+.+.+.+++ ++++++|+|++.
T Consensus 347 ~~~~ls~~l~~~i~~~l~~--g~qvll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~C 424 (679)
T PRK05580 347 NGSFLSPPLLEAIKQRLER--GEQVLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKAC 424 (679)
T ss_pred ccCCCCHHHHHHHHHHHHc--CCeEEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCC
Confidence 11122233333332 568999887632
Q ss_pred -------------HHHHHHHHhhcC--CCeeEEEecCCC--HHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEE-
Q 042003 172 -------------RAKELYGELAFD--GIRAGVIHSDLS--QTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVI- 233 (248)
Q Consensus 172 -------------~~~~l~~~L~~~--~~~v~~~~~~~~--~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi- 233 (248)
-++++++.|++. +.++..+|+++. .++++.+++.|++|+.+|||+|+.+++|+|+|++++|+
T Consensus 425 p~Cg~~~l~~~g~G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~i 504 (679)
T PRK05580 425 PECGSTDLVPVGPGTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGV 504 (679)
T ss_pred CCCcCCeeEEeeccHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEE
Confidence 446777777765 778999999986 46789999999999999999999999999999999995
Q ss_pred -eccCCCCc
Q 042003 234 -NYDFPDSG 241 (248)
Q Consensus 234 -~~~~p~~~ 241 (248)
++|.+-+.
T Consensus 505 l~aD~~l~~ 513 (679)
T PRK05580 505 LDADLGLFS 513 (679)
T ss_pred EcCchhccC
Confidence 44555444
No 93
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=99.79 E-value=2.1e-18 Score=151.27 Aligned_cols=202 Identities=16% Similarity=0.202 Sum_probs=146.8
Q ss_pred cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccc-ccCcccccchhHhhhCCCccceeEEEEeecCchHH
Q 042003 31 TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLF-EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 31 ~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~ 109 (248)
.+....+..|-+.|.+.|++.+.+... ++.++++|+||+|.-. +.+-....+..++.. .+...++|.||||+.. +
T Consensus 133 e~~~s~~Trik~mTdGiLlrei~~D~~-Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~-rr~DLKiIimSATld~--~ 208 (845)
T COG1643 133 ESKVSPRTRIKVMTDGILLREIQNDPL-LSGYSVVIIDEAHERSLNTDILLGLLKDLLAR-RRDDLKLIIMSATLDA--E 208 (845)
T ss_pred eccCCCCceeEEeccHHHHHHHhhCcc-cccCCEEEEcchhhhhHHHHHHHHHHHHHHhh-cCCCceEEEEecccCH--H
Confidence 344556789999999999999998766 7999999999999644 322223344444444 4446899999999975 3
Q ss_pred HHHHHhcCCcEEEEEcccccccccceeEEEEcCCch----hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhc---
Q 042003 110 ELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEE----GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAF--- 182 (248)
Q Consensus 110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~--- 182 (248)
.+ ..++++...+.+.... ..+..++......+ ..+.....+......+.++||.+..++.+..++.|++
T Consensus 209 rf-s~~f~~apvi~i~GR~---fPVei~Y~~~~~~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~~~~~~L~~~~l 284 (845)
T COG1643 209 RF-SAYFGNAPVIEIEGRT---YPVEIRYLPEAEADYILLDAIVAAVDIHLREGSGSILVFLPGQREIERTAEWLEKAEL 284 (845)
T ss_pred HH-HHHcCCCCEEEecCCc---cceEEEecCCCCcchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHHHHHHHHHhccc
Confidence 33 3455554444433322 22333332222222 2333333344444578999999999999999999998
Q ss_pred -CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCC
Q 042003 183 -DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDS 240 (248)
Q Consensus 183 -~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~ 240 (248)
....+.++||.++.+++..+++.-..|+.+|+++|++++.++.||++++||+-|..+.
T Consensus 285 ~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~ 343 (845)
T COG1643 285 GDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKE 343 (845)
T ss_pred cCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccc
Confidence 3578999999999999999999888888789999999999999999999999888653
No 94
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.79 E-value=2.4e-18 Score=150.47 Aligned_cols=84 Identities=25% Similarity=0.307 Sum_probs=74.0
Q ss_pred CCchhHHHHHHHHHhc--cCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 142 GSEEGKLLALRQSFAE--SLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~--~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.....|..++.+.+.. ..+.|+||||+|++.++.+++.|.+.++++.++|+.+...+++.+.++|+.|. |+|||+.
T Consensus 424 ~t~~~k~~av~~~i~~~~~~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G~--VtIATNm 501 (896)
T PRK13104 424 LTQADKFQAIIEDVRECGVRKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPGA--VTIATNM 501 (896)
T ss_pred cCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCCc--EEEeccC
Confidence 3445677776666532 23789999999999999999999999999999999999999999999999996 9999999
Q ss_pred cccCCCCC
Q 042003 220 IARGMDFK 227 (248)
Q Consensus 220 ~~~Gidip 227 (248)
+++|+||.
T Consensus 502 AGRGtDI~ 509 (896)
T PRK13104 502 AGRGTDIV 509 (896)
T ss_pred ccCCccee
Confidence 99999986
No 95
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.78 E-value=3.6e-18 Score=144.00 Aligned_cols=217 Identities=19% Similarity=0.210 Sum_probs=149.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|.+|-|+.+..-.++.| +.+|..+. ..++.++|.|.+.|.+++.++..-++.+.++|+||+|.+-+.. ..
T Consensus 184 LSNQKYREl~~EF~DVG-----LMTGDVTI----nP~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIHYMRDkE-RG 253 (1041)
T KOG0948|consen 184 LSNQKYRELLEEFKDVG-----LMTGDVTI----NPDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIHYMRDKE-RG 253 (1041)
T ss_pred hcchhHHHHHHHhcccc-----eeecceee----CCCCceeeeHHHHHHHHHhccchHhheeeeEEeeeehhccccc-cc
Confidence 34565655555444444 44443322 2367899999999999999999989999999999999998765 44
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhc---CCcEE-EEEcccccccccceeEEEEcCCc------------
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIM---HDAVR-VIVGRKNTASESIKQKLVFAGSE------------ 144 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~~~~~~~~~------------ 144 (248)
-.+++-.-. .+.+.+.+++|||+|+ ..+.+.|.+ +-|-. +.+... +.+++++++.....
T Consensus 254 VVWEETIIl-lP~~vr~VFLSATiPN-A~qFAeWI~~ihkQPcHVVYTdyR---PTPLQHyifP~ggdGlylvVDek~~F 328 (1041)
T KOG0948|consen 254 VVWEETIIL-LPDNVRFVFLSATIPN-ARQFAEWICHIHKQPCHVVYTDYR---PTPLQHYIFPAGGDGLYLVVDEKGKF 328 (1041)
T ss_pred eeeeeeEEe-ccccceEEEEeccCCC-HHHHHHHHHHHhcCCceEEeecCC---CCcceeeeecCCCCeeEEEEeccccc
Confidence 444443333 6778899999999998 555555543 33322 222222 22333443221110
Q ss_pred -h---------------------------------------hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC-
Q 042003 145 -E---------------------------------------GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD- 183 (248)
Q Consensus 145 -~---------------------------------------~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~- 183 (248)
+ +-...+..++.+. ..++|||+-++++|+.++-.+.+.
T Consensus 329 rednF~~am~~l~~~~~~~~~~~~~~k~~kG~~~~~~~~~s~i~kiVkmi~~~~-~~PVIvFSFSkkeCE~~Alqm~kld 407 (1041)
T KOG0948|consen 329 REDNFQKAMSVLRKAGESDGKKKANKKGRKGGTGGKGPGDSDIYKIVKMIMERN-YLPVIVFSFSKKECEAYALQMSKLD 407 (1041)
T ss_pred chHHHHHHHHHhhccCCCccccccccccccCCcCCCCCCcccHHHHHHHHHhhc-CCceEEEEecHhHHHHHHHhhccCc
Confidence 0 1112222223332 568999999999999999888541
Q ss_pred --------------------------------------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCC
Q 042003 184 --------------------------------------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMD 225 (248)
Q Consensus 184 --------------------------------------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gid 225 (248)
..+++++|||+-+--++.+.-.|++|-+++|+||.+++.|+|
T Consensus 408 fN~deEk~~V~~iF~nAi~~LseeDr~LPqie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLN 487 (1041)
T KOG0948|consen 408 FNTDEEKELVETIFNNAIDQLSEEDRELPQIENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLN 487 (1041)
T ss_pred CCChhHHHHHHHHHHHHHHhcChhhccchHHHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhccC
Confidence 236799999999999999999999999999999999999999
Q ss_pred CCCCcEEE
Q 042003 226 FKGVNCVI 233 (248)
Q Consensus 226 ip~~~~Vi 233 (248)
+|.-++|+
T Consensus 488 MPAkTVvF 495 (1041)
T KOG0948|consen 488 MPAKTVVF 495 (1041)
T ss_pred CcceeEEE
Confidence 99666554
No 96
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.78 E-value=2.5e-18 Score=148.50 Aligned_cols=232 Identities=18% Similarity=0.178 Sum_probs=150.2
Q ss_pred HHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhc--CCcccCceeEEEEeccccccccCcccccchh
Q 042003 8 ECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRR--KKIDLSRVEYLVLDEADKLFEVGNLLKHIDP 85 (248)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~--~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~ 85 (248)
.+..+....| ..+..++|... .....+.-.+.|||.++...++.. +.-.++.+++|||||.|++++.+ ....++.
T Consensus 288 ~l~~~~~~~G-~~ve~y~g~~~-p~~~~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElhmi~d~~-rg~~lE~ 364 (1008)
T KOG0950|consen 288 ALSPFSIDLG-FPVEEYAGRFP-PEKRRKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELHMIGDKG-RGAILEL 364 (1008)
T ss_pred hhhhhccccC-CcchhhcccCC-CCCcccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeeeeeeccc-cchHHHH
Confidence 3445666677 55666664433 333444678999999988776655 33456889999999999999877 5555555
Q ss_pred Hhh----hCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEccccccccc-c-eeEEEEcCCchhHHHHHHHHH----
Q 042003 86 VVK----ACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASES-I-KQKLVFAGSEEGKLLALRQSF---- 155 (248)
Q Consensus 86 ~~~----~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~l~~~~---- 155 (248)
++. .+.....|+|+||||+++ ...+..|+ .... +.......+... + .-...+..+ +...+.++-
T Consensus 365 ~l~k~~y~~~~~~~~iIGMSATi~N-~~lL~~~L-~A~~-y~t~fRPv~L~E~ik~G~~i~~~~---r~~~lr~ia~l~~ 438 (1008)
T KOG0950|consen 365 LLAKILYENLETSVQIIGMSATIPN-NSLLQDWL-DAFV-YTTRFRPVPLKEYIKPGSLIYESS---RNKVLREIANLYS 438 (1008)
T ss_pred HHHHHHHhccccceeEeeeecccCC-hHHHHHHh-hhhh-eecccCcccchhccCCCcccccch---hhHHHHHhhhhhh
Confidence 544 334455789999999987 44444443 2111 111111111000 0 000111111 222222221
Q ss_pred ---------------hcc--CCCCEEEEecchHHHHHHHHHhhc------------------------------------
Q 042003 156 ---------------AES--LNPPVLIFVQSKERAKELYGELAF------------------------------------ 182 (248)
Q Consensus 156 ---------------~~~--~~~~~liF~~~~~~~~~l~~~L~~------------------------------------ 182 (248)
.+. .+.++||||++++-|+.++..+..
T Consensus 439 ~~~g~~dpD~~v~L~tet~~e~~~~lvfc~sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~ 518 (1008)
T KOG0950|consen 439 SNLGDEDPDHLVGLCTETAPEGSSVLVFCPSKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLA 518 (1008)
T ss_pred hhcccCCCcceeeehhhhhhcCCeEEEEcCcccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHh
Confidence 111 145699999999999988855521
Q ss_pred --CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEe---ccCC-CCcccceecC
Q 042003 183 --DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVIN---YDFP-DSGAAYIHRI 248 (248)
Q Consensus 183 --~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~---~~~p-~~~~~~~qri 248 (248)
..++++++|.|++.++|+.+...|++|...|++||++++.|+|+|..+++|- ++.+ -+.-+|.||+
T Consensus 519 ~ti~~GvAyHhaGLT~eER~~iE~afr~g~i~vl~aTSTlaaGVNLPArRVIiraP~~g~~~l~~~~YkQM~ 590 (1008)
T KOG0950|consen 519 KTIPYGVAYHHAGLTSEEREIIEAAFREGNIFVLVATSTLAAGVNLPARRVIIRAPYVGREFLTRLEYKQMV 590 (1008)
T ss_pred eeccccceecccccccchHHHHHHHHHhcCeEEEEecchhhccCcCCcceeEEeCCccccchhhhhhHHhhh
Confidence 1257899999999999999999999999999999999999999998888873 3333 4667888874
No 97
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.77 E-value=7e-18 Score=151.33 Aligned_cols=103 Identities=22% Similarity=0.284 Sum_probs=88.9
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC---CceEEEEeccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG---KTWVLIATDVI 220 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g---~~~ilv~T~~~ 220 (248)
.|+..+..++... .+.++|||+........+.+.|...+++...++|+++..+|..+++.|+.. .+.+|++|.++
T Consensus 471 gKl~lLdkLL~~Lk~~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAG 550 (1033)
T PLN03142 471 GKMVLLDKLLPKLKERDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAG 550 (1033)
T ss_pred hHHHHHHHHHHHHHhcCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEecccc
Confidence 4555555555432 267999999999999999999999999999999999999999999999753 34678999999
Q ss_pred ccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 221 ARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 221 ~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+.|+|++.+++||+||+|||+....|++
T Consensus 551 GlGINLt~Ad~VIiyD~dWNP~~d~QAi 578 (1033)
T PLN03142 551 GLGINLATADIVILYDSDWNPQVDLQAQ 578 (1033)
T ss_pred ccCCchhhCCEEEEeCCCCChHHHHHHH
Confidence 9999999999999999999999988874
No 98
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.76 E-value=6.5e-18 Score=146.90 Aligned_cols=105 Identities=26% Similarity=0.278 Sum_probs=92.5
Q ss_pred CCchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 142 GSEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.....|...+.+.+... .+.|+||||+|+..++.+++.|.+.++++..+|+.+...++..+.++++.|. |+|||+.
T Consensus 420 ~t~~~K~~al~~~i~~~~~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnm 497 (796)
T PRK12906 420 PTLDSKFNAVVKEIKERHAKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNM 497 (796)
T ss_pred cCHHHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEecc
Confidence 34456888888777433 4789999999999999999999999999999999999888888888888777 9999999
Q ss_pred cccCCCCC---CCc-----EEEeccCCCCcccceecC
Q 042003 220 IARGMDFK---GVN-----CVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 220 ~~~Gidip---~~~-----~Vi~~~~p~~~~~~~qri 248 (248)
+++|.||+ ++. |||+++.|.|...|.||+
T Consensus 498 AGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~ 534 (796)
T PRK12906 498 AGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLR 534 (796)
T ss_pred ccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHh
Confidence 99999995 889 999999999999999974
No 99
>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=99.76 E-value=2.1e-17 Score=116.46 Aligned_cols=103 Identities=48% Similarity=0.669 Sum_probs=96.4
Q ss_pred hHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 146 GKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 146 ~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
.+...+..++.+.. ++++||||++...++.+++.|.+.+.++..+||+++..+|..+.+.|.+|...++++|+.+++|
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G 91 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARG 91 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcC
Confidence 67777777777654 6899999999999999999999888899999999999999999999999999999999999999
Q ss_pred CCCCCCcEEEeccCCCCcccceecC
Q 042003 224 MDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 224 idip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+|+|.+++||++++|++...|+|++
T Consensus 92 ~d~~~~~~vi~~~~~~~~~~~~Q~~ 116 (131)
T cd00079 92 IDLPNVSVVINYDLPWSPSSYLQRI 116 (131)
T ss_pred cChhhCCEEEEeCCCCCHHHheecc
Confidence 9999999999999999999999985
No 100
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.75 E-value=1.8e-17 Score=144.09 Aligned_cols=89 Identities=29% Similarity=0.428 Sum_probs=86.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc---
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD--- 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~--- 236 (248)
+.+++|||++++.++.+++.|.+.|+++..+||+++..+|.++++.|+.|++.|+|||+.+++|+|+|++++||+++
T Consensus 442 g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGfDiP~v~lVvi~Dadi 521 (655)
T TIGR00631 442 NERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADK 521 (655)
T ss_pred CCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCeeeCCCcEEEEeCccc
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred --CCCCcccceecC
Q 042003 237 --FPDSGAAYIHRI 248 (248)
Q Consensus 237 --~p~~~~~~~qri 248 (248)
.|.+..+|+||+
T Consensus 522 fG~p~~~~~~iqri 535 (655)
T TIGR00631 522 EGFLRSERSLIQTI 535 (655)
T ss_pred ccCCCCHHHHHHHh
Confidence 799999999986
No 101
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=99.74 E-value=4e-17 Score=136.61 Aligned_cols=196 Identities=18% Similarity=0.223 Sum_probs=143.1
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccc-ccCcccccchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLF-EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
......|.+.|.+.|++.+..+.. ++.+++||+||||.-. ..+-....++.+.+. .+..++|.||||+.. +..
T Consensus 137 ts~~TrikymTDG~LLRE~l~Dp~-LskYsvIIlDEAHERsl~TDiLlGlLKki~~~--R~~LklIimSATlda---~kf 210 (674)
T KOG0922|consen 137 TSKDTRIKYMTDGMLLREILKDPL-LSKYSVIILDEAHERSLHTDILLGLLKKILKK--RPDLKLIIMSATLDA---EKF 210 (674)
T ss_pred CCCceeEEEecchHHHHHHhcCCc-cccccEEEEechhhhhhHHHHHHHHHHHHHhc--CCCceEEEEeeeecH---HHH
Confidence 344688999999999999987665 6999999999999633 222244455555543 456789999999974 344
Q ss_pred HHhcCCcEEEEEcccccccccceeEEEEcCCch---hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC----CC
Q 042003 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSEE---GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD----GI 185 (248)
Q Consensus 113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~----~~ 185 (248)
..|+.....+.+..... ++...+...+..+ ..+....++-...+++-++||.+..++.+.+++.|.+. +.
T Consensus 211 S~yF~~a~i~~i~GR~f---PVei~y~~~p~~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~~~~l~e~~~~~~~ 287 (674)
T KOG0922|consen 211 SEYFNNAPILTIPGRTF---PVEILYLKEPTADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAACELLRERAKSLPE 287 (674)
T ss_pred HHHhcCCceEeecCCCC---ceeEEeccCCchhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHHHHHHHHHhhhccc
Confidence 44555544444333322 2333443333332 33444445555556789999999999999999999764 11
Q ss_pred ----eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 186 ----RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 186 ----~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
-+.++||+++.+++..+++.-..|..+++++|++++..+.||++.+||+-|.-
T Consensus 288 ~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~v 344 (674)
T KOG0922|consen 288 DCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFV 344 (674)
T ss_pred cCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCce
Confidence 35789999999999999999999999999999999999999999999988874
No 102
>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=99.71 E-value=7.2e-18 Score=107.81 Aligned_cols=71 Identities=41% Similarity=0.665 Sum_probs=68.1
Q ss_pred HHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 178 GELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 178 ~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+.|++.++++..+||+++..+|+.+++.|+++...+||||+++++|+|+|++++||++++|+|+..|.||+
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~ 71 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPPWSPEEYIQRI 71 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSESSHHHHHHHH
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccCCCHHHHHHHh
Confidence 36788899999999999999999999999999999999999999999999999999999999999999974
No 103
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.70 E-value=5.7e-16 Score=137.36 Aligned_cols=226 Identities=19% Similarity=0.181 Sum_probs=150.2
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|.+|.+..+....... ...+.+.+|.. ...+++.|+|.|.+-|.+++.++...+..+.+||+||+|.+.+.. ..
T Consensus 174 LsNQKyrdl~~~fgdv-~~~vGL~TGDv----~IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvHyi~D~e-RG 247 (1041)
T COG4581 174 LSNQKYRDLLAKFGDV-ADMVGLMTGDV----SINPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVHYIGDRE-RG 247 (1041)
T ss_pred hhhhHHHHHHHHhhhh-hhhccceecce----eeCCCCceEEeeHHHHHHHhccCcccccccceEEEEeeeeccccc-cc
Confidence 4567776666544433 23345555533 233468899999999999999999999999999999999988765 44
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhc---CCcEEEEEcccccccccceeEEEEc------CCchh-----
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIM---HDAVRVIVGRKNTASESIKQKLVFA------GSEEG----- 146 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~----- 146 (248)
-..++..-. .+...+++++|||+|+ ..++..|+. +.+..++ .-...+ .++.++++.- -+...
T Consensus 248 ~VWEE~Ii~-lP~~v~~v~LSATv~N-~~EF~~Wi~~~~~~~~~vv-~t~~Rp-vPL~~~~~~~~~l~~lvde~~~~~~~ 323 (1041)
T COG4581 248 VVWEEVIIL-LPDHVRFVFLSATVPN-AEEFAEWIQRVHSQPIHVV-STEHRP-VPLEHFVYVGKGLFDLVDEKKKFNAE 323 (1041)
T ss_pred hhHHHHHHh-cCCCCcEEEEeCCCCC-HHHHHHHHHhccCCCeEEE-eecCCC-CCeEEEEecCCceeeeecccccchhh
Confidence 455555555 6778899999999988 555555553 2222221 111111 1222222111 00000
Q ss_pred ----HH--------------------------------------HHHHHHHhccCCCCEEEEecchHHHHHHHHHhhc--
Q 042003 147 ----KL--------------------------------------LALRQSFAESLNPPVLIFVQSKERAKELYGELAF-- 182 (248)
Q Consensus 147 ----~~--------------------------------------~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~-- 182 (248)
.. ..+...+.....-++++|+-++..|+..+..+..
T Consensus 324 ~~~~a~~~l~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~iv~~l~~~~~lP~I~F~FSr~~Ce~~a~~~~~ld 403 (1041)
T COG4581 324 NFPSANRSLSCFSEKVRETDDGDVGRYARRTKALRGSAKGPAGRPEIVNKLDKDNLLPAIVFSFSRRGCEEAAQILSTLD 403 (1041)
T ss_pred cchhhhhhhhccchhccccCccccccccccccccCCcccccccchHHHhhhhhhcCCceEEEEEchhhHHHHHHHhcccc
Confidence 00 0111122222245899999999999988877742
Q ss_pred --------------------------CC-------------CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 183 --------------------------DG-------------IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 183 --------------------------~~-------------~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
.+ ..++++|+||-+..|+.+.+.|..|-.+++++|.+++.|
T Consensus 404 l~~~~~~e~~i~~ii~~~i~~L~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~G 483 (1041)
T COG4581 404 LVLTEEKERAIREIIDHAIGDLAEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIG 483 (1041)
T ss_pred cccCCcHHHHHHHHHHHHHhhcChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhhhhhh
Confidence 11 135789999999999999999999999999999999999
Q ss_pred CCCCCCcEEEeccC
Q 042003 224 MDFKGVNCVINYDF 237 (248)
Q Consensus 224 idip~~~~Vi~~~~ 237 (248)
+|+| ++.|+..+.
T Consensus 484 iNmP-artvv~~~l 496 (1041)
T COG4581 484 INMP-ARTVVFTSL 496 (1041)
T ss_pred cCCc-ccceeeeee
Confidence 9999 555554443
No 104
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.69 E-value=3.3e-16 Score=137.03 Aligned_cols=89 Identities=28% Similarity=0.382 Sum_probs=85.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC--
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF-- 237 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~-- 237 (248)
+.+++|||++.+.++.+++.|.+.|+++..+||+++..+|..+++.|+.|+..++|||+.+++|+|+|++++||+++.
T Consensus 446 g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGfdlp~v~lVii~d~ei 525 (652)
T PRK05298 446 GERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDADK 525 (652)
T ss_pred CCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCccccCCcEEEEeCCcc
Confidence 678999999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred ---CCCcccceecC
Q 042003 238 ---PDSGAAYIHRI 248 (248)
Q Consensus 238 ---p~~~~~~~qri 248 (248)
|.+..+|+||+
T Consensus 526 fG~~~~~~~yiqr~ 539 (652)
T PRK05298 526 EGFLRSERSLIQTI 539 (652)
T ss_pred cccCCCHHHHHHHh
Confidence 78999999985
No 105
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.67 E-value=6.7e-16 Score=135.08 Aligned_cols=84 Identities=24% Similarity=0.296 Sum_probs=73.7
Q ss_pred CCchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 142 GSEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.....|..++.+.+... .+.|+||||+|++.++.++..|...++++.++|+.++..++..+.++|+.|. |+|||+.
T Consensus 429 ~t~~~K~~Aii~ei~~~~~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnm 506 (908)
T PRK13107 429 LTADEKYQAIIKDIKDCRERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNM 506 (908)
T ss_pred eCHHHHHHHHHHHHHHHHHcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCC
Confidence 33456776666655422 3789999999999999999999999999999999999999999999999999 9999999
Q ss_pred cccCCCCC
Q 042003 220 IARGMDFK 227 (248)
Q Consensus 220 ~~~Gidip 227 (248)
+++|.||.
T Consensus 507 AGRGTDIk 514 (908)
T PRK13107 507 AGRGTDIV 514 (908)
T ss_pred cCCCccee
Confidence 99999987
No 106
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.63 E-value=8.1e-16 Score=136.35 Aligned_cols=204 Identities=22% Similarity=0.346 Sum_probs=131.5
Q ss_pred CcEEEeChHHHHHHHhcC-Ccc-c--CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHH
Q 042003 38 CDILISTPLRLRLAIRRK-KID-L--SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELAR 113 (248)
Q Consensus 38 ~~i~v~Tp~~l~~~~~~~-~~~-~--~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~ 113 (248)
..+.++||-+........ ... + =....+|+||+|.+.... ....+..+..........+++||||+|+...+...
T Consensus 311 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h~~~~~~-~~~~l~~~i~~l~~~g~~ill~SATlP~~~~~~l~ 389 (733)
T COG1203 311 LALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVHLYADET-MLAALLALLEALAEAGVPVLLMSATLPPFLKEKLK 389 (733)
T ss_pred ccccccCHhHhhhhhccccchHHHHHHHhhchhhccHHhhcccc-hHHHHHHHHHHHHhCCCCEEEEecCCCHHHHHHHH
Confidence 456666665554422211 111 1 123589999999988765 55556666665566678899999999999998888
Q ss_pred HhcCCcEEEEEccc---cccccccee-EEEEcCCch--hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCee
Q 042003 114 SIMHDAVRVIVGRK---NTASESIKQ-KLVFAGSEE--GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRA 187 (248)
Q Consensus 114 ~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~--~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v 187 (248)
....+...+..... ......+.+ ......... ........ ....+++++|.|||+..|..+|+.|+..+.++
T Consensus 390 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v 467 (733)
T COG1203 390 KALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIELISE--EVKEGKKVLVIVNTVDRAIELYEKLKEKGPKV 467 (733)
T ss_pred HHHhcccceeccccccccccccccccccchhhhhhhhHhhhhcchh--hhccCCcEEEEEecHHHHHHHHHHHHhcCCCE
Confidence 77665544433211 000111111 111111110 01111111 12226899999999999999999999988789
Q ss_pred EEEecCCCHHHHHHHHHHh----hcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceec
Q 042003 188 GVIHSDLSQTQRENAVDDF----RAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 188 ~~~~~~~~~~~r~~~~~~f----~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qr 247 (248)
..+||.+...+|.+.++.+ +.+...|+|||++++.|+|+. .+.+| .-+..++..+||
T Consensus 468 ~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~mI--Te~aPidSLIQR 528 (733)
T COG1203 468 LLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVLI--TELAPIDSLIQR 528 (733)
T ss_pred EEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-cCeee--ecCCCHHHHHHH
Confidence 9999999999998887754 456778999999999999986 44443 444455555565
No 107
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.63 E-value=3.6e-15 Score=130.11 Aligned_cols=221 Identities=24% Similarity=0.309 Sum_probs=155.0
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh--------hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV--------RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~ 72 (248)
|+.|+++.+++++...+...+...|.+. ....+..++.||+|+|.+-|...+.. +.--+++++++|++|.
T Consensus 137 Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~--L~~~kFdfifVDDVDA 214 (1187)
T COG1110 137 LVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEE--LSKLKFDFIFVDDVDA 214 (1187)
T ss_pred HHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHH--hcccCCCEEEEccHHH
Confidence 6899999999999777633333324433 12344556899999998766555542 2224688999999998
Q ss_pred ccccCcccccchhHhhhC-------------------------------------------CCccceeEEEEeecCchH-
Q 042003 73 LFEVGNLLKHIDPVVKAC-------------------------------------------SNPSIVRSLFSATLPDFV- 108 (248)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~-------------------------------------------~~~~~~~i~~SAT~~~~~- 108 (248)
++..+ +.+.+++..+ .....+++..|||..+.-
T Consensus 215 ~Lkas---kNvDriL~LlGf~eE~i~~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~ 291 (1187)
T COG1110 215 ILKAS---KNVDRLLRLLGFSEEVIESAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGS 291 (1187)
T ss_pred HHhcc---ccHHHHHHHcCCCHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCc
Confidence 87532 1111111110 123468899999986633
Q ss_pred -HHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecc---hHHHHHHHHHhhcCC
Q 042003 109 -EELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQS---KERAKELYGELAFDG 184 (248)
Q Consensus 109 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~---~~~~~~l~~~L~~~~ 184 (248)
..+.+.+++ +.++.......++...+... .......+++++. +.-.|||++. ++.++.+++.|+..|
T Consensus 292 R~~LfReLlg----FevG~~~~~LRNIvD~y~~~----~~~e~~~elvk~l-G~GgLIfV~~d~G~e~aeel~e~Lr~~G 362 (1187)
T COG1110 292 RLKLFRELLG----FEVGSGGEGLRNIVDIYVES----ESLEKVVELVKKL-GDGGLIFVPIDYGREKAEELAEYLRSHG 362 (1187)
T ss_pred hHHHHHHHhC----CccCccchhhhheeeeeccC----ccHHHHHHHHHHh-CCCeEEEEEcHHhHHHHHHHHHHHHhcC
Confidence 234444443 33444555555565555433 4555666777777 5689999999 999999999999999
Q ss_pred CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec----ccccCCCCCC-CcEEEeccCCCC
Q 042003 185 IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD----VIARGMDFKG-VNCVINYDFPDS 240 (248)
Q Consensus 185 ~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~----~~~~Gidip~-~~~Vi~~~~p~~ 240 (248)
+++..+|++ ++..++.|..|++++||+.. .+-+|+|+|. ++++|.+|.|+-
T Consensus 363 i~a~~~~a~-----~~~~le~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvPk~ 418 (1187)
T COG1110 363 INAELIHAE-----KEEALEDFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVPKF 418 (1187)
T ss_pred ceEEEeecc-----chhhhhhhccCceeEEEEecccccceeecCCchhheeEEEEecCCce
Confidence 999999994 47789999999999998774 5789999996 899999999953
No 108
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.60 E-value=2.3e-15 Score=96.98 Aligned_cols=74 Identities=49% Similarity=0.704 Sum_probs=70.3
Q ss_pred HHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 175 ELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 175 ~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
.+++.|++.++.+..+||+++.++|..+++.|+++...++++|+.+++|+|+|.+++||++++|++...|.||+
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~ 75 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRI 75 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhh
Confidence 46778888899999999999999999999999999999999999999999999999999999999999999985
No 109
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.60 E-value=5.1e-14 Score=119.64 Aligned_cols=86 Identities=24% Similarity=0.279 Sum_probs=73.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC---CceEEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG---KTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g---~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
+.+++||..=-....-+.++..-+++....+.|+++.++|.+.++.|... .+-+|++|-+.+.|||+..++.||.||
T Consensus 487 GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyD 566 (971)
T KOG0385|consen 487 GHRVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYD 566 (971)
T ss_pred CCeEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEec
Confidence 78999997665666666666666799999999999999999999999864 456889999999999999999999999
Q ss_pred CCCCcccce
Q 042003 237 FPDSGAAYI 245 (248)
Q Consensus 237 ~p~~~~~~~ 245 (248)
.-|||..=+
T Consensus 567 SDWNPQ~DL 575 (971)
T KOG0385|consen 567 SDWNPQVDL 575 (971)
T ss_pred CCCCchhhh
Confidence 999996433
No 110
>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=99.59 E-value=6.4e-15 Score=111.76 Aligned_cols=119 Identities=34% Similarity=0.463 Sum_probs=95.8
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh---hcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR---STDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
|+.|+.+.++.+....+ ..+....|+.. ......++++|+|+||+++.+.+.+....+.+++++|+||+|.+.+.+
T Consensus 81 L~~q~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h~~~~~~ 159 (203)
T cd00268 81 LALQIAEVARKLGKHTN-LKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEADRMLDMG 159 (203)
T ss_pred HHHHHHHHHHHHhccCC-ceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChHHhhccC
Confidence 57899999999988777 55555655552 223344589999999999999998888888999999999999988666
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEE
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRV 122 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~ 122 (248)
+...+..+.+. ....++++++|||+++........++.++..+
T Consensus 160 -~~~~~~~~~~~-l~~~~~~~~~SAT~~~~~~~~~~~~~~~~~~~ 202 (203)
T cd00268 160 -FEDQIREILKL-LPKDRQTLLFSATMPKEVRDLARKFLRNPVRI 202 (203)
T ss_pred -hHHHHHHHHHh-CCcccEEEEEeccCCHHHHHHHHHHCCCCEEe
Confidence 77777777777 45689999999999999988888888877654
No 111
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.58 E-value=8.4e-14 Score=114.26 Aligned_cols=138 Identities=25% Similarity=0.300 Sum_probs=100.4
Q ss_pred cceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHH
Q 042003 94 SIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERA 173 (248)
Q Consensus 94 ~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~ 173 (248)
..|+|+.|||+.+...+... +......+.+....-+.+. ..-.....++-+..+....++ +.+++|-+-|++.|
T Consensus 386 ~~q~i~VSATPg~~E~e~s~---~~vveQiIRPTGLlDP~ie-vRp~~~QvdDL~~EI~~r~~~--~eRvLVTtLTKkmA 459 (663)
T COG0556 386 IPQTIYVSATPGDYELEQSG---GNVVEQIIRPTGLLDPEIE-VRPTKGQVDDLLSEIRKRVAK--NERVLVTTLTKKMA 459 (663)
T ss_pred cCCEEEEECCCChHHHHhcc---CceeEEeecCCCCCCCcee-eecCCCcHHHHHHHHHHHHhc--CCeEEEEeehHHHH
Confidence 47999999998864333322 2223333333222222111 110111122233333333333 57999999999999
Q ss_pred HHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 174 KELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 174 ~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
+.+.++|.+.|+++..+|++...-+|.++++.++.|.++|||+-+.+-+|+|+|.+..|-++|.
T Consensus 460 EdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDA 523 (663)
T COG0556 460 EDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDA 523 (663)
T ss_pred HHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeec
Confidence 9999999999999999999999999999999999999999999999999999999999998876
No 112
>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=99.58 E-value=3.6e-13 Score=110.77 Aligned_cols=207 Identities=22% Similarity=0.259 Sum_probs=152.3
Q ss_pred CCCcEEEeChHHHHHHHhc------CCcccCceeEEEEeccccccccCcccccchhHhhh-------------------C
Q 042003 36 FSCDILISTPLRLRLAIRR------KKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKA-------------------C 90 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~------~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~-------------------~ 90 (248)
.++|||||||-.|...+.. ..-.++++.++|+|.||.+...+ +..+..+++. +
T Consensus 130 y~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQN--W~Hv~~v~~~lN~~P~~~~~~DfsRVR~w~ 207 (442)
T PF06862_consen 130 YSSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQN--WEHVLHVFEHLNLQPKKSHDTDFSRVRPWY 207 (442)
T ss_pred ccCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhh--HHHHHHHHHHhccCCCCCCCCCHHHHHHHH
Confidence 3689999999999888874 22358999999999999987543 1112222111 1
Q ss_pred C----CccceeEEEEeecCchHHHHHHHhcCCcE---EEEEccc-----ccccccceeEEEEcCCc------hhHHHH--
Q 042003 91 S----NPSIVRSLFSATLPDFVEELARSIMHDAV---RVIVGRK-----NTASESIKQKLVFAGSE------EGKLLA-- 150 (248)
Q Consensus 91 ~----~~~~~~i~~SAT~~~~~~~~~~~~~~~~~---~~~~~~~-----~~~~~~~~~~~~~~~~~------~~~~~~-- 150 (248)
. ..-.|+|++|+...|+...+....+.+-. .+..... .....++.|.+...+.. +.+.+.
T Consensus 208 Ldg~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~~~s~~~~~d~Rf~yF~ 287 (442)
T PF06862_consen 208 LDGQAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFDCSSPADDPDARFKYFT 287 (442)
T ss_pred HcCcchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEecCCCcchhhhHHHHHHH
Confidence 1 12279999999999999999988665532 1211111 23445566766553332 233322
Q ss_pred --HHHHHh-ccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccc--cCCC
Q 042003 151 --LRQSFA-ESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIA--RGMD 225 (248)
Q Consensus 151 --l~~~~~-~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~--~Gid 225 (248)
++.-+. ....+.++||++|.-+--++.+.|++.++....+|..++..+.......|..|+.++|+-|.-+. +-..
T Consensus 288 ~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~HFfrRy~ 367 (442)
T PF06862_consen 288 KKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERFHFFRRYR 367 (442)
T ss_pred HHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHhhhhhce
Confidence 222233 44467999999999999999999999999999999999999999999999999999999998753 6678
Q ss_pred CCCCcEEEeccCCCCcccc
Q 042003 226 FKGVNCVINYDFPDSGAAY 244 (248)
Q Consensus 226 ip~~~~Vi~~~~p~~~~~~ 244 (248)
+.++++||.|++|.++.-|
T Consensus 368 irGi~~viFY~~P~~p~fY 386 (442)
T PF06862_consen 368 IRGIRHVIFYGPPENPQFY 386 (442)
T ss_pred ecCCcEEEEECCCCChhHH
Confidence 8999999999999998755
No 113
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.57 E-value=3.2e-14 Score=115.84 Aligned_cols=230 Identities=16% Similarity=0.134 Sum_probs=150.7
Q ss_pred cchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCC--------cccCceeEEEEeccccc
Q 042003 2 ATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKK--------IDLSRVEYLVLDEADKL 73 (248)
Q Consensus 2 ~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~--------~~~~~~~~lIiDEah~~ 73 (248)
+.||.+.+..|...-+-..+.+... ..+....++.|+|+|..++...-+++. +.-+.++++++||+|.+
T Consensus 358 VeQWkqQfk~wsti~d~~i~rFTsd---~Ke~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEVHvv 434 (776)
T KOG1123|consen 358 VEQWKQQFKQWSTIQDDQICRFTSD---AKERFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEVHVV 434 (776)
T ss_pred HHHHHHHHHhhcccCccceEEeecc---ccccCCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehhccc
Confidence 5799999999887766444444333 334455689999999977755444321 23567999999999999
Q ss_pred cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHH-------------H--hc--CCcEEE---EEccc------
Q 042003 74 FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELAR-------------S--IM--HDAVRV---IVGRK------ 127 (248)
Q Consensus 74 ~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~-------------~--~~--~~~~~~---~~~~~------ 127 (248)
.... |++.+..+...| -+++|||+-.+.+.+.. | +. +....+ .+...
T Consensus 435 PA~M-FRRVlsiv~aHc------KLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpMt~eFy 507 (776)
T KOG1123|consen 435 PAKM-FRRVLSIVQAHC------KLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPMTPEFY 507 (776)
T ss_pred hHHH-HHHHHHHHHHHh------hccceeEEeeccccccccceeecchhhhccHHHHHhCCceeEEeeeeeecCCCHHHH
Confidence 8876 777777766665 37999997443222211 1 00 011111 11110
Q ss_pred --ccccccceeEEEEcCCchhHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHH
Q 042003 128 --NTASESIKQKLVFAGSEEGKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAV 203 (248)
Q Consensus 128 --~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~ 203 (248)
......-++..+++-+.. |.....-+++.++ +.|+|||..++......+-.|.+ .++.|.+++.+|..++
T Consensus 508 ~eYL~~~t~kr~lLyvMNP~-KFraCqfLI~~HE~RgDKiIVFsDnvfALk~YAikl~K-----pfIYG~Tsq~ERm~IL 581 (776)
T KOG1123|consen 508 REYLRENTRKRMLLYVMNPN-KFRACQFLIKFHERRGDKIIVFSDNVFALKEYAIKLGK-----PFIYGPTSQNERMKIL 581 (776)
T ss_pred HHHHhhhhhhhheeeecCcc-hhHHHHHHHHHHHhcCCeEEEEeccHHHHHHHHHHcCC-----ceEECCCchhHHHHHH
Confidence 111111223344444433 4444444444332 78999999999888888877754 3689999999999999
Q ss_pred HHhhcC-CceEEEEecccccCCCCCCCcEEEeccCC-CCcccceec
Q 042003 204 DDFRAG-KTWVLIATDVIARGMDFKGVNCVINYDFP-DSGAAYIHR 247 (248)
Q Consensus 204 ~~f~~g-~~~ilv~T~~~~~Gidip~~~~Vi~~~~p-~~~~~~~qr 247 (248)
+.|+-+ .++-++-+.+....+|+|.++++|+...- -|..+=.||
T Consensus 582 qnFq~n~~vNTIFlSKVgDtSiDLPEAnvLIQISSH~GSRRQEAQR 627 (776)
T KOG1123|consen 582 QNFQTNPKVNTIFLSKVGDTSIDLPEANVLIQISSHGGSRRQEAQR 627 (776)
T ss_pred HhcccCCccceEEEeeccCccccCCcccEEEEEcccccchHHHHHH
Confidence 999964 67899999999999999999999987654 244443443
No 114
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=99.56 E-value=4.1e-14 Score=124.50 Aligned_cols=199 Identities=17% Similarity=0.168 Sum_probs=134.5
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHH
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARS 114 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~ 114 (248)
.....+++||.+.|++.+.. .-.+.++.++|+||+|.-.-..+|.-.+.+.+-. ..+..++|+||||+.. +....
T Consensus 262 s~~t~L~fcTtGvLLr~L~~-~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~-~~p~LkvILMSAT~da---e~fs~ 336 (924)
T KOG0920|consen 262 SRETRLLFCTTGVLLRRLQS-DPTLSGVTHIIVDEVHERSINTDFLLILLKDLLP-RNPDLKVILMSATLDA---ELFSD 336 (924)
T ss_pred CCceeEEEecHHHHHHHhcc-CcccccCceeeeeeEEEccCCcccHHHHHHHHhh-hCCCceEEEeeeecch---HHHHH
Confidence 33488999999999999988 3447899999999999865444343333332222 3478899999999873 33333
Q ss_pred hcCCcEEEEEccccccccc----------------ceeEE-----------EEcCCch---hHHHHHHH-HHhccCCCCE
Q 042003 115 IMHDAVRVIVGRKNTASES----------------IKQKL-----------VFAGSEE---GKLLALRQ-SFAESLNPPV 163 (248)
Q Consensus 115 ~~~~~~~~~~~~~~~~~~~----------------~~~~~-----------~~~~~~~---~~~~~l~~-~~~~~~~~~~ 163 (248)
|++....+.+....-+... ..+.. ..+-..+ +-+..+.. +......+.+
T Consensus 337 YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~Li~~li~~I~~~~~~GaI 416 (924)
T KOG0920|consen 337 YFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEIDYDLIEDLIEYIDEREFEGAI 416 (924)
T ss_pred HhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhccccccHHHHHHHHHhcccCCCCceE
Confidence 4444333322211000000 00000 0000111 12222222 2333337899
Q ss_pred EEEecchHHHHHHHHHhhcC-------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 164 LIFVQSKERAKELYGELAFD-------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 164 liF~~~~~~~~~l~~~L~~~-------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
|||.+...+...+++.|... ..-+.++|+.|+..+++.+......|..+|+++|++++.+|.|+++-+||+.|
T Consensus 417 LVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIlaTNIAETSITIdDVvyVIDsG 496 (924)
T KOG0920|consen 417 LVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILATNIAETSITIDDVVYVIDSG 496 (924)
T ss_pred EEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhhhhhhhHhhcccccCeEEEEecC
Confidence 99999999999999999642 24678889999999999999999999999999999999999999999999876
Q ss_pred CC
Q 042003 237 FP 238 (248)
Q Consensus 237 ~p 238 (248)
..
T Consensus 497 ~~ 498 (924)
T KOG0920|consen 497 LV 498 (924)
T ss_pred ee
Confidence 53
No 115
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.55 E-value=6.3e-14 Score=120.45 Aligned_cols=231 Identities=15% Similarity=0.155 Sum_probs=143.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcC-----CcccCceeEEEEeccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRK-----KIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~-----~~~~~~~~~lIiDEah~~~~ 75 (248)
|+.|.++.+.++.+... ++..+.+.. ....++|.++|.+++....... .+....+++||+||||+-.
T Consensus 227 Lv~QA~~af~~~~P~~~--~~n~i~~~~-----~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaHRgi- 298 (875)
T COG4096 227 LVDQAYGAFEDFLPFGT--KMNKIEDKK-----GDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAHRGI- 298 (875)
T ss_pred HHHHHHHHHHHhCCCcc--ceeeeeccc-----CCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhhhhH-
Confidence 45677777777777653 222222211 1125889999999999888764 3445679999999999943
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhc-CCcEEEE--------------------E--cccccccc
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIM-HDAVRVI--------------------V--GRKNTASE 132 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~-~~~~~~~--------------------~--~~~~~~~~ 132 (248)
......++.++. .-.+++|||+........-.++ +.|.... . ......+.
T Consensus 299 ----~~~~~~I~dYFd---A~~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~ 371 (875)
T COG4096 299 ----YSEWSSILDYFD---AATQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPD 371 (875)
T ss_pred ----HhhhHHHHHHHH---HHHHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcC
Confidence 333335555532 1235679998664443333344 3332211 0 00000000
Q ss_pred cc-----------------------eeEEEEcCCchhHHHHHHHHHhc--cC--CCCEEEEecchHHHHHHHHHhhcC--
Q 042003 133 SI-----------------------KQKLVFAGSEEGKLLALRQSFAE--SL--NPPVLIFVQSKERAKELYGELAFD-- 183 (248)
Q Consensus 133 ~~-----------------------~~~~~~~~~~~~~~~~l~~~~~~--~~--~~~~liF~~~~~~~~~l~~~L~~~-- 183 (248)
.. ..........+.-...+.+.+.. .. .+|+||||.+..+|+.+.+.|...
T Consensus 372 ~~serek~~g~~i~~dd~~~~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~yp 451 (875)
T COG4096 372 AGSEREKLQGEAIDEDDQNFEARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYP 451 (875)
T ss_pred ccchhhhhhccccCcccccccccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCc
Confidence 00 00011111122233455666665 32 469999999999999999999764
Q ss_pred ---CCeeEEEecCCCHHHHHHHHHHhhc--CCceEEEEecccccCCCCCCCcEEEeccCCCCcccceecC
Q 042003 184 ---GIRAGVIHSDLSQTQRENAVDDFRA--GKTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHRI 248 (248)
Q Consensus 184 ---~~~v~~~~~~~~~~~r~~~~~~f~~--g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qri 248 (248)
+--+..+.|+-. +-+..+..|.. .-..|.++.+.+..|+|+|.+..++.+..-.|...|.||+
T Consensus 452 e~~~~~a~~IT~d~~--~~q~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~VrSktkF~QMv 519 (875)
T COG4096 452 EYNGRYAMKITGDAE--QAQALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVRSKTKFKQMV 519 (875)
T ss_pred cccCceEEEEeccch--hhHHHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhhhhhHHHHHHHh
Confidence 234666666533 33444555544 3457999999999999999999999999999999999985
No 116
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.53 E-value=1e-13 Score=116.22 Aligned_cols=199 Identities=16% Similarity=0.172 Sum_probs=141.0
Q ss_pred ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc-cccCcccccchhHhhhCCCccceeEEEEeecCchHHH
Q 042003 32 DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL-FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEE 110 (248)
Q Consensus 32 ~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~ 110 (248)
+-..+..-+-+.|.++|++.+..+. .+.++.++||||||.- +..+.....++.+.+. .+...++++|||+.. +
T Consensus 350 dcTSekTvlKYMTDGmLlREfL~ep-dLasYSViiiDEAHERTL~TDILfgLvKDIar~--RpdLKllIsSAT~DA---e 423 (902)
T KOG0923|consen 350 DCTSEKTVLKYMTDGMLLREFLSEP-DLASYSVIIVDEAHERTLHTDILFGLVKDIARF--RPDLKLLISSATMDA---E 423 (902)
T ss_pred cccCcceeeeeecchhHHHHHhccc-cccceeEEEeehhhhhhhhhhHHHHHHHHHHhh--CCcceEEeeccccCH---H
Confidence 3344567788999999998887654 4799999999999953 3333355566666664 367889999999874 3
Q ss_pred HHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh---ccCCCCEEEEecchHHHHHHHHHhhcC----
Q 042003 111 LARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA---ESLNPPVLIFVQSKERAKELYGELAFD---- 183 (248)
Q Consensus 111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~liF~~~~~~~~~l~~~L~~~---- 183 (248)
....++.+...+.++... .++..++.....-+---.++..++. ..+.+-+|||....++.+...+.|.+.
T Consensus 424 kFS~fFDdapIF~iPGRR---yPVdi~Yt~~PEAdYldAai~tVlqIH~tqp~GDILVFltGQeEIEt~~e~l~~~~~~L 500 (902)
T KOG0923|consen 424 KFSAFFDDAPIFRIPGRR---YPVDIFYTKAPEADYLDAAIVTVLQIHLTQPLGDILVFLTGQEEIETVKENLKERCRRL 500 (902)
T ss_pred HHHHhccCCcEEeccCcc---cceeeecccCCchhHHHHHHhhheeeEeccCCccEEEEeccHHHHHHHHHHHHHHHHHh
Confidence 334566665544443322 2233333322222222223333333 334688999999988888777777542
Q ss_pred -----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCC
Q 042003 184 -----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPD 239 (248)
Q Consensus 184 -----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~ 239 (248)
.+-+.++|+.+|.+.+..+++.-..|..+|++||++++..+.|+++.+||+-|...
T Consensus 501 Gski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K 561 (902)
T KOG0923|consen 501 GSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVK 561 (902)
T ss_pred ccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCcccc
Confidence 34577889999999999999999999999999999999999999999999887754
No 117
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.49 E-value=2e-13 Score=120.51 Aligned_cols=148 Identities=22% Similarity=0.158 Sum_probs=113.5
Q ss_pred eeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc--CCCCEEEEecchHHH
Q 042003 96 VRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES--LNPPVLIFVQSKERA 173 (248)
Q Consensus 96 ~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~ 173 (248)
.+-+||+|...+..++..-|..+...+ +...+...............+|.+.+.+.+... .+.|+||||+|++.+
T Consensus 535 kLaGMTGTA~te~~Ef~~iY~L~Vv~I---PTnrP~~R~D~~d~vy~t~~eK~~Ali~~I~~~~~~grpVLIft~Sve~s 611 (1025)
T PRK12900 535 KLAGMTGTAETEASEFFEIYKLDVVVI---PTNKPIVRKDMDDLVYKTRREKYNAIVLKVEELQKKGQPVLVGTASVEVS 611 (1025)
T ss_pred hhcccCCCChhHHHHHHHHhCCcEEEC---CCCCCcceecCCCeEecCHHHHHHHHHHHHHHHhhCCCCEEEEeCcHHHH
Confidence 456899998776666655553333222 222222222222222355567888888888543 478999999999999
Q ss_pred HHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC---CCc-----EEEeccCCCCcccce
Q 042003 174 KELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK---GVN-----CVINYDFPDSGAAYI 245 (248)
Q Consensus 174 ~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip---~~~-----~Vi~~~~p~~~~~~~ 245 (248)
+.+.+.|...++++.++|+ .+.+|+..+..|..+...|+|||+.+++|.||+ .+. +||.+..|.|...|.
T Consensus 612 E~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~ 689 (1025)
T PRK12900 612 ETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDR 689 (1025)
T ss_pred HHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHH
Confidence 9999999999999999997 588999999999999999999999999999999 454 449999999999999
Q ss_pred ecC
Q 042003 246 HRI 248 (248)
Q Consensus 246 qri 248 (248)
||+
T Consensus 690 Ql~ 692 (1025)
T PRK12900 690 QLR 692 (1025)
T ss_pred HHh
Confidence 984
No 118
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=99.47 E-value=3.9e-12 Score=108.75 Aligned_cols=101 Identities=24% Similarity=0.270 Sum_probs=86.4
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhh-cCCCeeEEEecCCCHHHHHHHHHHhhcCCc--eEEEEeccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELA-FDGIRAGVIHSDLSQTQRENAVDDFRAGKT--WVLIATDVI 220 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~-~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~--~ilv~T~~~ 220 (248)
.|+..+..++... .+.++++|..++....-+...|. ..+|++..+.|.++...|...++.|.++.. -+|++|.+.
T Consensus 530 GKm~vl~~ll~~W~kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvG 609 (923)
T KOG0387|consen 530 GKMKVLAKLLKDWKKQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVG 609 (923)
T ss_pred chHHHHHHHHHHHhhCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEeccc
Confidence 4555555555432 26799999999999999999998 689999999999999999999999997753 478999999
Q ss_pred ccCCCCCCCcEEEeccCCCCccccee
Q 042003 221 ARGMDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 221 ~~Gidip~~~~Vi~~~~p~~~~~~~q 246 (248)
+-|+|+..++-||+|||-|||++=.|
T Consensus 610 GLGlNLTgAnRVIIfDPdWNPStD~Q 635 (923)
T KOG0387|consen 610 GLGLNLTGANRVIIFDPDWNPSTDNQ 635 (923)
T ss_pred ccccccccCceEEEECCCCCCccchH
Confidence 99999999999999999999986444
No 119
>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=99.46 E-value=7.5e-14 Score=102.72 Aligned_cols=107 Identities=27% Similarity=0.337 Sum_probs=80.9
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh----hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV----RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~ 76 (248)
|+.|+.+.++.+....+ ..+...+|+. .......++++|+|+||+++.+.+......+.+++++|+||+|.+..+
T Consensus 56 l~~q~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~l~~~ 134 (169)
T PF00270_consen 56 LAEQQFERLRKFFSNTN-VRVVLLHGGQSISEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHHLSDE 134 (169)
T ss_dssp HHHHHHHHHHHHTTTTT-SSEEEESTTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHHHHHT
T ss_pred ccccccccccccccccc-cccccccccccccccccccccccccccccCcchhhccccccccccccceeeccCcccccccc
Confidence 57889999999888765 3344444444 222334567999999999999999986557777999999999999887
Q ss_pred CcccccchhHhhhCCC-ccceeEEEEeecCchHH
Q 042003 77 GNLLKHIDPVVKACSN-PSIVRSLFSATLPDFVE 109 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~-~~~~~i~~SAT~~~~~~ 109 (248)
+ +...+..+...... .+.+++++|||+++..+
T Consensus 135 ~-~~~~~~~i~~~~~~~~~~~~i~~SAT~~~~~~ 167 (169)
T PF00270_consen 135 T-FRAMLKSILRRLKRFKNIQIILLSATLPSNVE 167 (169)
T ss_dssp T-HHHHHHHHHHHSHTTTTSEEEEEESSSTHHHH
T ss_pred c-HHHHHHHHHHHhcCCCCCcEEEEeeCCChhHh
Confidence 5 77777777776533 36889999999985443
No 120
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.45 E-value=3.2e-13 Score=113.67 Aligned_cols=198 Identities=16% Similarity=0.186 Sum_probs=135.2
Q ss_pred cccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccc-ccCcccccchhHhhhCCCccceeEEEEeecCchHH
Q 042003 31 TDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLF-EVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 31 ~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~ 109 (248)
++.......|-+.|.+.|++....... ++++..+|+||||.-. +.......++..++. ..+..+|.+|||+.. +
T Consensus 439 EdvT~~~T~IkymTDGiLLrEsL~d~~-L~kYSviImDEAHERslNtDilfGllk~~lar--RrdlKliVtSATm~a--~ 513 (1042)
T KOG0924|consen 439 EDVTSEDTKIKYMTDGILLRESLKDRD-LDKYSVIIMDEAHERSLNTDILFGLLKKVLAR--RRDLKLIVTSATMDA--Q 513 (1042)
T ss_pred eecCCCceeEEEeccchHHHHHhhhhh-hhheeEEEechhhhcccchHHHHHHHHHHHHh--hccceEEEeeccccH--H
Confidence 344456678999999988877665433 6899999999999643 333344445554443 357889999999974 4
Q ss_pred HHHHHhcCC-cEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHh---ccCCCCEEEEecchHHHHHHHHHhh----
Q 042003 110 ELARSIMHD-AVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFA---ESLNPPVLIFVQSKERAKELYGELA---- 181 (248)
Q Consensus 110 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~liF~~~~~~~~~l~~~L~---- 181 (248)
.+.. ++++ |...+.++ . .++...+......+---.++...+. ....+.++||....+..+..+..+.
T Consensus 514 kf~n-fFgn~p~f~IpGR-T---yPV~~~~~k~p~eDYVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t~~~i~~~l~ 588 (1042)
T KOG0924|consen 514 KFSN-FFGNCPQFTIPGR-T---YPVEIMYTKTPVEDYVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECTCDIIKEKLE 588 (1042)
T ss_pred HHHH-HhCCCceeeecCC-c---cceEEEeccCchHHHHHHHHhhheEeeccCCCCCEEEecCCCcchhHHHHHHHHHHH
Confidence 4444 4454 44333322 2 2233334333333322223333332 2235789999988776665554443
Q ss_pred c------CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 182 F------DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 182 ~------~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
. .+..+..+++.+|..-+..+++.-..|..+++|||++++..+.+|++.+||+.|..
T Consensus 589 ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~ 651 (1042)
T KOG0924|consen 589 QLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYC 651 (1042)
T ss_pred hhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCce
Confidence 2 25689999999999999999999899999999999999999999999999998874
No 121
>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=99.45 E-value=4.9e-12 Score=111.42 Aligned_cols=87 Identities=15% Similarity=0.113 Sum_probs=67.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC-----CCeeEEEecCCCHH---------------------HHHHHHHHhhc-CCce
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD-----GIRAGVIHSDLSQT---------------------QRENAVDDFRA-GKTW 212 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~-----~~~v~~~~~~~~~~---------------------~r~~~~~~f~~-g~~~ 212 (248)
+.|++|||.++..|..+++.|.+. +....+++++.+.+ ...++++.|++ +.++
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ 593 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPK 593 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCce
Confidence 479999999999999999998654 23455666654332 12367888876 6789
Q ss_pred EEEEecccccCCCCCCCcEEEeccCCCCcccceec
Q 042003 213 VLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 213 ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qr 247 (248)
|+|.++.+.+|+|.|.+++++...+..+.. ++|.
T Consensus 594 ilIVvdmllTGFDaP~l~tLyldKplk~h~-LlQa 627 (667)
T TIGR00348 594 LLIVVDMLLTGFDAPILNTLYLDKPLKYHG-LLQA 627 (667)
T ss_pred EEEEEcccccccCCCccceEEEeccccccH-HHHH
Confidence 999999999999999999999988877654 5664
No 122
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.43 E-value=3.1e-12 Score=111.58 Aligned_cols=102 Identities=15% Similarity=0.158 Sum_probs=67.4
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHHHHHHhc---CCcccCceeEEEEecccccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRLRLAIRR---KKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l~~~~~~---~~~~~~~~~~lIiDEah~~~~~ 76 (248)
|+.|+...+.......-+......-|.. ....+..-+|+|+|+-|+-+.+++.. ...+..+++++|+||+|.+++.
T Consensus 568 LVnQvsa~VyaRF~~~t~~rg~sl~g~ltqEYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ 647 (1330)
T KOG0949|consen 568 LVNQVSANVYARFDTKTFLRGVSLLGDLTQEYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNE 647 (1330)
T ss_pred HhhhhhHHHHHhhccCccccchhhHhhhhHHhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhcccc
Confidence 4567777777655333223333333333 34444445799999999999999987 4556789999999999998865
Q ss_pred CcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 77 GNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
. -.-....++-. -+|.++++|||+.+
T Consensus 648 e-d~l~~Eqll~l---i~CP~L~LSATigN 673 (1330)
T KOG0949|consen 648 E-DGLLWEQLLLL---IPCPFLVLSATIGN 673 (1330)
T ss_pred c-cchHHHHHHHh---cCCCeeEEecccCC
Confidence 3 12222222222 46778999999876
No 123
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.41 E-value=1.8e-12 Score=110.97 Aligned_cols=200 Identities=16% Similarity=0.156 Sum_probs=134.5
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccc-ccCcccccchhHhhh--------CCCccceeEEEEeecC
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLF-EVGNLLKHIDPVVKA--------CSNPSIVRSLFSATLP 105 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~-~~~~~~~~~~~~~~~--------~~~~~~~~i~~SAT~~ 105 (248)
.....|.++|.+.|++.+.+..+ ++.+..||+||||.-. ..+.....+.++... +...+...|+||||+-
T Consensus 347 ~e~T~IkFMTDGVLLrEi~~Dfl-L~kYSvIIlDEAHERSvnTDILiGmLSRiV~LR~k~~ke~~~~kpLKLIIMSATLR 425 (1172)
T KOG0926|consen 347 GEDTSIKFMTDGVLLREIENDFL-LTKYSVIILDEAHERSVNTDILIGMLSRIVPLRQKYYKEQCQIKPLKLIIMSATLR 425 (1172)
T ss_pred CCCceeEEecchHHHHHHHHhHh-hhhceeEEechhhhccchHHHHHHHHHHHHHHHHHHhhhhcccCceeEEEEeeeEE
Confidence 34678999999999999987654 7999999999999643 222234444444332 2234678899999985
Q ss_pred chHHHHHHHhcCCcE-EEEEcccccccccceeEEE---EcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhh
Q 042003 106 DFVEELARSIMHDAV-RVIVGRKNTASESIKQKLV---FAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELA 181 (248)
Q Consensus 106 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~ 181 (248)
-....--..++..+. .+.+....-+ +.-++. ......+.+.....+-++.+.+.++||+....++.++++.|+
T Consensus 426 VsDFtenk~LFpi~pPlikVdARQfP---VsIHF~krT~~DYi~eAfrKtc~IH~kLP~G~ILVFvTGQqEV~qL~~kLR 502 (1172)
T KOG0926|consen 426 VSDFTENKRLFPIPPPLIKVDARQFP---VSIHFNKRTPDDYIAEAFRKTCKIHKKLPPGGILVFVTGQQEVDQLCEKLR 502 (1172)
T ss_pred ecccccCceecCCCCceeeeecccCc---eEEEeccCCCchHHHHHHHHHHHHhhcCCCCcEEEEEeChHHHHHHHHHHH
Confidence 322221122333322 2222221111 111111 112233555666667778888999999999999999999997
Q ss_pred cC------------------------------------------------------------------------------
Q 042003 182 FD------------------------------------------------------------------------------ 183 (248)
Q Consensus 182 ~~------------------------------------------------------------------------------ 183 (248)
+.
T Consensus 503 K~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~~~~~~~~raa~~~~~De~~~~nge~ 582 (1172)
T KOG0926|consen 503 KRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELVDSGFASLRAAFNALADENGSVNGEP 582 (1172)
T ss_pred hhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhhcccchhhhhhhhccccccccccCCc
Confidence 51
Q ss_pred ---------------------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCC
Q 042003 184 ---------------------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFP 238 (248)
Q Consensus 184 ---------------------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p 238 (248)
..-|.++++-++.+.+..+++.-..|..-++|+|++++..+.||++++||+.|..
T Consensus 583 e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~ 658 (1172)
T KOG0926|consen 583 EKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRV 658 (1172)
T ss_pred ccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEeccchhcccccCCeeEEEeccch
Confidence 0124556666777778888888888998899999999999999999999987764
No 124
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.34 E-value=3.9e-11 Score=104.64 Aligned_cols=200 Identities=22% Similarity=0.210 Sum_probs=117.3
Q ss_pred hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccccc--cc-CcccccchhHhhhCCCccceeEEEEeecC
Q 042003 29 RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLF--EV-GNLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 29 ~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~--~~-~~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
.......+...|+|||--.+ ...++++++||+||-|.-. +. +.++..-.-........++++|+-|||++
T Consensus 288 ~W~~~~~G~~~vVIGtRSAl-------F~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~~~pvvLgSATPS 360 (730)
T COG1198 288 VWRRARRGEARVVIGTRSAL-------FLPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKENAPVVLGSATPS 360 (730)
T ss_pred HHHHHhcCCceEEEEechhh-------cCchhhccEEEEeccccccccCCcCCCcCHHHHHHHHHHHhCCCEEEecCCCC
Confidence 33455667899999994322 3458999999999999754 21 21222111112221346789999999976
Q ss_pred chHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHH-----HHHHHHHhcc--CCCCEEEEecchHHH-----
Q 042003 106 DFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKL-----LALRQSFAES--LNPPVLIFVQSKERA----- 173 (248)
Q Consensus 106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~--~~~~~liF~~~~~~~----- 173 (248)
++...+...+.-..+...............++.+....... ..+.+.+++. .+.++|+|.|.+..+
T Consensus 361 --LES~~~~~~g~y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l~~geQ~llflnRRGys~~l~C 438 (730)
T COG1198 361 --LESYANAESGKYKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTLERGEQVLLFLNRRGYAPLLLC 438 (730)
T ss_pred --HHHHHhhhcCceEEEEccccccccCCCcceEEeccccccccCccCCHHHHHHHHHHHhcCCeEEEEEccCCccceeec
Confidence 45555443332122222221111111122222333322222 2333333221 167899998877654
Q ss_pred -------------------------------------------------------HHHHHHhhcC--CCeeEEEecCCCH
Q 042003 174 -------------------------------------------------------KELYGELAFD--GIRAGVIHSDLSQ 196 (248)
Q Consensus 174 -------------------------------------------------------~~l~~~L~~~--~~~v~~~~~~~~~ 196 (248)
+++.+.|++. +.++..+.++.+.
T Consensus 439 ~~Cg~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~ 518 (730)
T COG1198 439 RDCGYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFPGARIIRIDSDTTR 518 (730)
T ss_pred ccCCCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHHCCCCcEEEEcccccc
Confidence 4444444432 4566666666554
Q ss_pred --HHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccC
Q 042003 197 --TQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 197 --~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
..-+..+..|.+|+.+|||+|+.+..|.|.|+++.|...+.
T Consensus 519 ~k~~~~~~l~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~a 561 (730)
T COG1198 519 RKGALEDLLDQFANGEADILIGTQMIAKGHDFPNVTLVGVLDA 561 (730)
T ss_pred chhhHHHHHHHHhCCCCCeeecchhhhcCCCcccceEEEEEec
Confidence 23467899999999999999999999999999998865554
No 125
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.32 E-value=4.3e-12 Score=103.27 Aligned_cols=182 Identities=18% Similarity=0.250 Sum_probs=123.6
Q ss_pred EeChHHHHHHHhcCCcccCceeEEEEeccccc-cccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcE
Q 042003 42 ISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL-FEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAV 120 (248)
Q Consensus 42 v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~ 120 (248)
.+|.++|++....... +..++++|+||||.- +..+.....++..... . +...+|.||||+. ....+.|++++.
T Consensus 141 y~tDgmLlrEams~p~-l~~y~viiLDeahERtlATDiLmGllk~v~~~-r-pdLk~vvmSatl~---a~Kfq~yf~n~P 214 (699)
T KOG0925|consen 141 YCTDGMLLREAMSDPL-LGRYGVIILDEAHERTLATDILMGLLKEVVRN-R-PDLKLVVMSATLD---AEKFQRYFGNAP 214 (699)
T ss_pred HhcchHHHHHHhhCcc-cccccEEEechhhhhhHHHHHHHHHHHHHHhh-C-CCceEEEeecccc---hHHHHHHhCCCC
Confidence 4555555555544433 689999999999953 3333456667777665 2 5889999999985 445566777776
Q ss_pred EEEEcccccccccceeEEEEcCCc-----hhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC---------CCe
Q 042003 121 RVIVGRKNTASESIKQKLVFAGSE-----EGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD---------GIR 186 (248)
Q Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~---------~~~ 186 (248)
.+.+.. . ..+..+ |.... +..+..+.++-....++-+++|....++.+..++.+... ..+
T Consensus 215 ll~vpg-~---~PvEi~--Yt~e~erDylEaairtV~qih~~ee~GDilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~ 288 (699)
T KOG0925|consen 215 LLAVPG-T---HPVEIF--YTPEPERDYLEAAIRTVLQIHMCEEPGDILVFLTGEEEIEDACRKISREVDNLGPQVGPLK 288 (699)
T ss_pred eeecCC-C---CceEEE--ecCCCChhHHHHHHHHHHHHHhccCCCCEEEEecCHHHHHHHHHHHHHHHHhhccccCCce
Confidence 665554 1 122222 22222 233445555555556889999999999999998888642 357
Q ss_pred eEEEecCCCHHHHHHHHHHhhc---C--CceEEEEecccccCCCCCCCcEEEeccCCC
Q 042003 187 AGVIHSDLSQTQRENAVDDFRA---G--KTWVLIATDVIARGMDFKGVNCVINYDFPD 239 (248)
Q Consensus 187 v~~~~~~~~~~~r~~~~~~f~~---g--~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~ 239 (248)
|.++| ++++..+++.... | ..+|+|+|++++..+.++++.+||+-|+..
T Consensus 289 v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniaetsltidgiv~VIDpGf~k 342 (699)
T KOG0925|consen 289 VVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAETSLTIDGIVFVIDPGFSK 342 (699)
T ss_pred EEecC----chhhccccCCCCcccCCCccceEEEEecchheeeeeccEEEEecCchhh
Confidence 88888 3445555544332 2 347999999999999999999999988764
No 126
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.31 E-value=4.4e-11 Score=105.68 Aligned_cols=95 Identities=24% Similarity=0.197 Sum_probs=68.8
Q ss_pred hhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccccc
Q 042003 145 EGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222 (248)
Q Consensus 145 ~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~ 222 (248)
..|..++.+.+... .+.|+||-|.|++..+.+...|.+.+++..+++..-...+.+-+.++-+. ..|.|||+.+++
T Consensus 551 ~~k~~ai~~ei~~~~~~grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~~~Ea~iia~AG~~--g~VTIATNmAGR 628 (970)
T PRK12899 551 REKYHAIVAEIASIHRKGNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNHAQEAEIIAGAGKL--GAVTVATNMAGR 628 (970)
T ss_pred HHHHHHHHHHHHHHHhCCCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchhhhHHHHHHhcCCC--CcEEEeeccccC
Confidence 45666655544432 37899999999999999999999999999999987443333333333222 359999999999
Q ss_pred CCCCCCCc--------EEEeccCCCCc
Q 042003 223 GMDFKGVN--------CVINYDFPDSG 241 (248)
Q Consensus 223 Gidip~~~--------~Vi~~~~p~~~ 241 (248)
|-||.--. |||....|+|.
T Consensus 629 GTDIkl~~~v~~~GGLhVIgTer~es~ 655 (970)
T PRK12899 629 GTDIKLDEEAVAVGGLYVIGTSRHQSR 655 (970)
T ss_pred CcccccCchHHhcCCcEEEeeccCchH
Confidence 99987322 77777777665
No 127
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.16 E-value=2.7e-10 Score=94.80 Aligned_cols=212 Identities=12% Similarity=0.061 Sum_probs=146.4
Q ss_pred ccccCCCcEEEeChHHHHHHHhcCCc----ccCceeEEEEeccccccccC--cccccchhHhhhC----CCccceeEEEE
Q 042003 32 DLSKFSCDILISTPLRLRLAIRRKKI----DLSRVEYLVLDEADKLFEVG--NLLKHIDPVVKAC----SNPSIVRSLFS 101 (248)
Q Consensus 32 ~~~~~~~~i~v~Tp~~l~~~~~~~~~----~~~~~~~lIiDEah~~~~~~--~~~~~~~~~~~~~----~~~~~~~i~~S 101 (248)
.....+.+++++.|.+......-+.. .+-...+.++||+|...... .....+.++++.+ .+.+.|++-.|
T Consensus 379 A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R~L~~L~~~F~~~~~~~~~~~~ 458 (1034)
T KOG4150|consen 379 ALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLRALSDLIKGFEASINMGVYDGD 458 (1034)
T ss_pred HHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHHHHHHHHHHHHhhcCcceEeCC
Confidence 34556899999999888766654433 24456789999999876542 0112333333332 24678999999
Q ss_pred eecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCch-----h---HH----HHHHHHHhccCCCCEEEEecc
Q 042003 102 ATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEE-----G---KL----LALRQSFAESLNPPVLIFVQS 169 (248)
Q Consensus 102 AT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~---~~----~~l~~~~~~~~~~~~liF~~~ 169 (248)
||+-...+.....+.-+........ ..+..-++..++.+... + +. ..+.+++.. +-++|.||++
T Consensus 459 ~~~K~~~~~~~~~~~~~E~~Li~~D--GSPs~~K~~V~WNP~~~P~~~~~~~~~i~E~s~~~~~~i~~--~~R~IAFC~~ 534 (1034)
T KOG4150|consen 459 TPYKDRTRLRSELANLSELELVTID--GSPSSEKLFVLWNPSAPPTSKSEKSSKVVEVSHLFAEMVQH--GLRCIAFCPS 534 (1034)
T ss_pred CCcCCHHHHHHHhcCCcceEEEEec--CCCCccceEEEeCCCCCCcchhhhhhHHHHHHHHHHHHHHc--CCcEEEeccH
Confidence 9998766666554444444443332 22334456666655431 1 11 222233332 5699999999
Q ss_pred hHHHHHHHHHhhcC----C----CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEeccCCCCc
Q 042003 170 KERAKELYGELAFD----G----IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYDFPDSG 241 (248)
Q Consensus 170 ~~~~~~l~~~L~~~----~----~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~ 241 (248)
++-|+.+....+.- + -.+.-+.||...++|..+....-.|+..-+|+|++++.||||.+.+.|++.|+|.|+
T Consensus 535 R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALELGIDIG~LDAVl~~GFP~S~ 614 (1034)
T KOG4150|consen 535 RKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALELGIDIGHLDAVLHLGFPGSI 614 (1034)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhhccccccceeEEEccCchhH
Confidence 99999776555431 1 145667899999999999999999999999999999999999999999999999999
Q ss_pred ccceec
Q 042003 242 AAYIHR 247 (248)
Q Consensus 242 ~~~~qr 247 (248)
..+.|.
T Consensus 615 aNl~QQ 620 (1034)
T KOG4150|consen 615 ANLWQQ 620 (1034)
T ss_pred HHHHHH
Confidence 887764
No 128
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=99.15 E-value=1.5e-09 Score=93.26 Aligned_cols=97 Identities=23% Similarity=0.221 Sum_probs=79.8
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC--ceEEEEecccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK--TWVLIATDVIA 221 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~--~~ilv~T~~~~ 221 (248)
.|...|..++.+. .+.+++||.---....-+...|...+++...+.|++.-.+|+.+++.|...+ +-+|++|.+.+
T Consensus 761 gK~r~L~~LLp~~k~~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG 840 (941)
T KOG0389|consen 761 GKCRKLKELLPKIKKKGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGG 840 (941)
T ss_pred hhHhHHHHHHHHHhhcCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCc
Confidence 3445555555432 2679999987766667777788888999999999999999999999998765 35789999999
Q ss_pred cCCCCCCCcEEEeccCCCCcc
Q 042003 222 RGMDFKGVNCVINYDFPDSGA 242 (248)
Q Consensus 222 ~Gidip~~~~Vi~~~~p~~~~ 242 (248)
.|||+..+++||++|..-||.
T Consensus 841 ~GINLt~An~VIihD~dFNP~ 861 (941)
T KOG0389|consen 841 FGINLTCANTVIIHDIDFNPY 861 (941)
T ss_pred ceecccccceEEEeecCCCCc
Confidence 999999999999999988774
No 129
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=99.14 E-value=9.7e-10 Score=98.29 Aligned_cols=101 Identities=22% Similarity=0.244 Sum_probs=83.3
Q ss_pred hHHHHHHHHHhccC----------------CCCEEEEecchHHHHHHHHHhhcC-C--CeeEEEecCCCHHHHHHHHHHh
Q 042003 146 GKLLALRQSFAESL----------------NPPVLIFVQSKERAKELYGELAFD-G--IRAGVIHSDLSQTQRENAVDDF 206 (248)
Q Consensus 146 ~~~~~l~~~~~~~~----------------~~~~liF~~~~~~~~~l~~~L~~~-~--~~v~~~~~~~~~~~r~~~~~~f 206 (248)
.|+.+|.+++.... +.+++|||.-+....-+.+-|.+. - +.-..+.|+.++.+|.++.+.|
T Consensus 1310 pKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~F 1389 (1549)
T KOG0392|consen 1310 PKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERF 1389 (1549)
T ss_pred hhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHh
Confidence 56777777775432 458999999999999988888654 2 3344889999999999999999
Q ss_pred hcC-CceEE-EEecccccCCCCCCCcEEEeccCCCCccccee
Q 042003 207 RAG-KTWVL-IATDVIARGMDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 207 ~~g-~~~il-v~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~q 246 (248)
+++ .+++| .+|.+.+.|+|+.+++.||.++--|||..=+|
T Consensus 1390 N~DptIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQ 1431 (1549)
T KOG0392|consen 1390 NEDPTIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQ 1431 (1549)
T ss_pred cCCCceeEEEEeeeccccccccCCCceEEEEecCCCchhhHH
Confidence 998 67766 77899999999999999999999999975444
No 130
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=99.13 E-value=1.2e-08 Score=83.83 Aligned_cols=87 Identities=10% Similarity=0.168 Sum_probs=78.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC-ceE-EEEecccccCCCCCCCcEEEeccC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK-TWV-LIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~-~~i-lv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
+.|.+||+.-..-.+.+...+.++++....+.|..+..+|+...+.|+.++ ..| +++-.+++.|+++..++.|+....
T Consensus 492 ~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL 571 (689)
T KOG1000|consen 492 PRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAEL 571 (689)
T ss_pred CceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEe
Confidence 679999999999999999999999999999999999999999999998764 343 466688999999999999999999
Q ss_pred CCCccccee
Q 042003 238 PDSGAAYIH 246 (248)
Q Consensus 238 p~~~~~~~q 246 (248)
+||+.-.+|
T Consensus 572 ~wnPgvLlQ 580 (689)
T KOG1000|consen 572 HWNPGVLLQ 580 (689)
T ss_pred cCCCceEEe
Confidence 999987665
No 131
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.12 E-value=1.6e-09 Score=93.72 Aligned_cols=97 Identities=23% Similarity=0.214 Sum_probs=70.7
Q ss_pred CchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 143 SEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
....|..++.+.+... .+.|+||.+.|++.++.+.+.|.+.+++..++++.-...+-+-+.++=+.| .|.|||+.+
T Consensus 408 t~~~k~~Aii~ei~~~~~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~~~EA~IIa~AG~~g--aVTIATNMA 485 (764)
T PRK12326 408 TAAEKNDAIVEHIAEVHETGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKNDAEEARIIAEAGKYG--AVTVSTQMA 485 (764)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCchHhHHHHHHhcCCCC--cEEEEecCC
Confidence 3456776666655432 378999999999999999999999999999999874433333333433333 489999999
Q ss_pred ccCCCCCCC---------------cEEEeccCCCCc
Q 042003 221 ARGMDFKGV---------------NCVINYDFPDSG 241 (248)
Q Consensus 221 ~~Gidip~~---------------~~Vi~~~~p~~~ 241 (248)
++|-||.-- =|||-...|+|.
T Consensus 486 GRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSr 521 (764)
T PRK12326 486 GRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSE 521 (764)
T ss_pred CCccCeecCCCcccchHHHHHcCCcEEEeccCCchH
Confidence 999998722 277777777664
No 132
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.10 E-value=5.9e-10 Score=92.36 Aligned_cols=202 Identities=17% Similarity=0.102 Sum_probs=122.3
Q ss_pred cchHHHHHHHhhcCCCcEEEEcccchhhhcccc-cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCccc
Q 042003 2 ATQTTRECKKLAKGNKFQIKLMKKELVRSTDLS-KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLL 80 (248)
Q Consensus 2 ~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~ 80 (248)
|..+++.++..+ +.+.+++|.......- ...++.+=||.|+. .. ...+++.|+||++++.++.+-+
T Consensus 228 A~EV~~r~na~g-----ipCdL~TGeE~~~~~~~~~~a~hvScTVEM~-------sv-~~~yeVAViDEIQmm~Dp~RGw 294 (700)
T KOG0953|consen 228 AHEVYDRLNALG-----IPCDLLTGEERRFVLDNGNPAQHVSCTVEMV-------SV-NTPYEVAVIDEIQMMRDPSRGW 294 (700)
T ss_pred HHHHHHHhhhcC-----CCccccccceeeecCCCCCcccceEEEEEEe-------ec-CCceEEEEehhHHhhcCcccch
Confidence 444444444433 3355555543221111 12367777776544 11 2668899999999998876445
Q ss_pred ccchhHhhhCCCccceeEEEEeecCchHHHHHHHh---cCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc
Q 042003 81 KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI---MHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE 157 (248)
Q Consensus 81 ~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 157 (248)
.+-..++.. ......+.+ .+..-.+++.. .++...+.....-.+.. -.+.+..-++.
T Consensus 295 AWTrALLGl-~AdEiHLCG-----epsvldlV~~i~k~TGd~vev~~YeRl~pL~--------------v~~~~~~sl~n 354 (700)
T KOG0953|consen 295 AWTRALLGL-AADEIHLCG-----EPSVLDLVRKILKMTGDDVEVREYERLSPLV--------------VEETALGSLSN 354 (700)
T ss_pred HHHHHHHhh-hhhhhhccC-----CchHHHHHHHHHhhcCCeeEEEeecccCcce--------------ehhhhhhhhcc
Confidence 555555554 222233221 12233344433 34444443222221111 01122233333
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCCHHHHHHHHHHhhc--CCceEEEEecccccCCCCCCCcEEEe
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLSQTQRENAVDDFRA--GKTWVLIATDVIARGMDFKGVNCVIN 234 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~~~~r~~~~~~f~~--g~~~ilv~T~~~~~Gidip~~~~Vi~ 234 (248)
..++-++|-+ |++..-.+...+++.+.. +++++|++|++.|.+....|.+ ++.+|||||+++++|+|+. ++-||.
T Consensus 355 lk~GDCvV~F-Skk~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~-IrRiiF 432 (700)
T KOG0953|consen 355 LKPGDCVVAF-SKKDIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVASDAIGMGLNLN-IRRIIF 432 (700)
T ss_pred CCCCCeEEEe-ehhhHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEeecccccccccc-eeEEEE
Confidence 3345554432 667888888889887665 9999999999999999999987 8899999999999999996 888888
Q ss_pred ccCC
Q 042003 235 YDFP 238 (248)
Q Consensus 235 ~~~p 238 (248)
++.-
T Consensus 433 ~sl~ 436 (700)
T KOG0953|consen 433 YSLI 436 (700)
T ss_pred eecc
Confidence 8764
No 133
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=99.10 E-value=2.9e-09 Score=92.89 Aligned_cols=66 Identities=20% Similarity=0.250 Sum_probs=57.2
Q ss_pred hcCCCeeEEEecCCCHHHHHHHHHHhhcCC---ceEEEEecccccCCCCCCCcEEEeccCCCCccccee
Q 042003 181 AFDGIRAGVIHSDLSQTQRENAVDDFRAGK---TWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 181 ~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~---~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~q 246 (248)
+-.|+.+..+||.|+..+|+.+++.|.+.. .-.|.+|.+.+.|||+-+++.||+||+.|||+.=.|
T Consensus 616 ~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~Q 684 (776)
T KOG0390|consen 616 RWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQ 684 (776)
T ss_pred hhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHH
Confidence 335899999999999999999999998643 346788899999999999999999999999975433
No 134
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=99.07 E-value=2.4e-09 Score=95.86 Aligned_cols=84 Identities=23% Similarity=0.255 Sum_probs=78.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc---CCceEEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA---GKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~---g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
+.++|||..=+....-++++|..++|+.-.+.|+++.+.|++.++.|.. ..+.+|+||-+.+.|||+-.++.||+||
T Consensus 699 GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFD 778 (1373)
T KOG0384|consen 699 GHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFD 778 (1373)
T ss_pred CceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEEeC
Confidence 6799999999999999999999999999999999999999999999975 4577999999999999999999999999
Q ss_pred CCCCccc
Q 042003 237 FPDSGAA 243 (248)
Q Consensus 237 ~p~~~~~ 243 (248)
.-|||..
T Consensus 779 SDWNPQN 785 (1373)
T KOG0384|consen 779 SDWNPQN 785 (1373)
T ss_pred CCCCcch
Confidence 9999964
No 135
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.07 E-value=1e-09 Score=97.07 Aligned_cols=84 Identities=26% Similarity=0.336 Sum_probs=62.8
Q ss_pred CCchhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 142 GSEEGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.....|..++.+.+... .+.|+||-+.|++..+.+.+.|.+.+++..+++......+-+-+.++-+.| .|.|||+.
T Consensus 429 ~t~~eK~~Ai~~ei~~~~~~GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~~~EA~IIa~AG~~G--aVTIATNM 506 (913)
T PRK13103 429 LTAEEKYAAIITDIKECMALGRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYHEKEAEIIAQAGRPG--ALTIATNM 506 (913)
T ss_pred cCHHHHHHHHHHHHHHHHhCCCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccchhHHHHHHcCCCCC--cEEEeccC
Confidence 34456777776665532 378999999999999999999999999998888875444333333332333 48999999
Q ss_pred cccCCCCC
Q 042003 220 IARGMDFK 227 (248)
Q Consensus 220 ~~~Gidip 227 (248)
+++|-||.
T Consensus 507 AGRGTDIk 514 (913)
T PRK13103 507 AGRGTDIL 514 (913)
T ss_pred CCCCCCEe
Confidence 99999984
No 136
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=98.99 E-value=3.6e-09 Score=79.42 Aligned_cols=122 Identities=28% Similarity=0.345 Sum_probs=85.3
Q ss_pred cchHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCC-cEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 2 ATQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSC-DILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 2 ~~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~-~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
+.|+.+.+..+.............+.. ........+. +++++|++.+.+.+.........++++|+||+|.+....
T Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~~~~- 145 (201)
T smart00487 67 AEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLLDGG- 145 (201)
T ss_pred HHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHhcCC-
Confidence 456777777766554323333333322 1122223334 999999999999998877777889999999999988643
Q ss_pred ccccchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEc
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVG 125 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~ 125 (248)
+...+..+.... ....+++++|||++.........++.+...+...
T Consensus 146 ~~~~~~~~~~~~-~~~~~~v~~saT~~~~~~~~~~~~~~~~~~~~~~ 191 (201)
T smart00487 146 FGDQLEKLLKLL-PKNVQLLLLSATPPEEIENLLELFLNDPVFIDVG 191 (201)
T ss_pred cHHHHHHHHHhC-CccceEEEEecCCchhHHHHHHHhcCCCEEEeCC
Confidence 666666776663 5678889999999988888888887766555444
No 137
>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=98.97 E-value=2.7e-09 Score=95.48 Aligned_cols=74 Identities=23% Similarity=0.095 Sum_probs=51.8
Q ss_pred CCcEEEeChHHHHHHHhc---CCcccCc----eeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHH
Q 042003 37 SCDILISTPLRLRLAIRR---KKIDLSR----VEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVE 109 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~---~~~~~~~----~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~ 109 (248)
..+++|||+.+++..... +...+.- =+.+|+||+|.+-.. ....+..++.........+++||||+|+...
T Consensus 562 ~apv~V~TIDQlL~a~~~~r~~~~~l~ll~La~svlVlDEVHaYD~~--~~~~L~rlL~w~~~lG~~VlLmSATLP~~l~ 639 (1110)
T TIGR02562 562 AAPVLVCTIDHLIPATESHRGGHHIAPMLRLMSSDLILDEPDDYEPE--DLPALLRLVQLAGLLGSRVLLSSATLPPALV 639 (1110)
T ss_pred cCCeEEecHHHHHHHhhhcccchhHHHHHHhcCCCEEEECCccCCHH--HHHHHHHHHHHHHHcCCCEEEEeCCCCHHHH
Confidence 479999999999877732 1111111 247999999996543 4556777777655667889999999998665
Q ss_pred HHH
Q 042003 110 ELA 112 (248)
Q Consensus 110 ~~~ 112 (248)
...
T Consensus 640 ~~L 642 (1110)
T TIGR02562 640 KTL 642 (1110)
T ss_pred HHH
Confidence 533
No 138
>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=98.95 E-value=2e-08 Score=91.43 Aligned_cols=91 Identities=21% Similarity=0.294 Sum_probs=69.0
Q ss_pred HHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC
Q 042003 150 ALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK 227 (248)
Q Consensus 150 ~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip 227 (248)
.+.+++... +++++||++|.+..+.+++.|... .....++..+.. ..|.++++.|++|+..||+||+.+++|||+|
T Consensus 665 ~i~~l~~~~-~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~l~q~~~-~~r~~ll~~F~~~~~~iLlgt~sf~EGVD~~ 742 (850)
T TIGR01407 665 YIIEITAIT-SPKILVLFTSYEMLHMVYDMLNELPEFEGYEVLAQGIN-GSRAKIKKRFNNGEKAILLGTSSFWEGVDFP 742 (850)
T ss_pred HHHHHHHhc-CCCEEEEeCCHHHHHHHHHHHhhhccccCceEEecCCC-ccHHHHHHHHHhCCCeEEEEcceeecccccC
Confidence 334444444 679999999999999999999752 112233444433 5788999999999999999999999999999
Q ss_pred CCc--EEEeccCCC-Ccc
Q 042003 228 GVN--CVINYDFPD-SGA 242 (248)
Q Consensus 228 ~~~--~Vi~~~~p~-~~~ 242 (248)
+.. .||+.+.|. ++.
T Consensus 743 g~~l~~viI~~LPf~~p~ 760 (850)
T TIGR01407 743 GNGLVCLVIPRLPFANPK 760 (850)
T ss_pred CCceEEEEEeCCCCCCCC
Confidence 865 778899884 443
No 139
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.94 E-value=1.7e-08 Score=88.84 Aligned_cols=96 Identities=25% Similarity=0.294 Sum_probs=71.6
Q ss_pred CchhHHHHHHHHHhc-c-CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC-ceEEEEecc
Q 042003 143 SEEGKLLALRQSFAE-S-LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK-TWVLIATDV 219 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~-~-~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~-~~ilv~T~~ 219 (248)
....|..++.+.+.. + .++|+||.|.|++.++.+.+.|.+.+++..++++.-. +++.-+-+ +.|+ ..|.|||+.
T Consensus 407 t~~~K~~Aii~ei~~~~~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~--e~EA~IIa-~AG~~GaVTIATNM 483 (925)
T PRK12903 407 TKHAKWKAVVKEVKRVHKKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQN--AREAEIIA-KAGQKGAITIATNM 483 (925)
T ss_pred cHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccch--hhHHHHHH-hCCCCCeEEEeccc
Confidence 344566666655442 2 3789999999999999999999999999999998633 33333222 3443 358999999
Q ss_pred cccCCCCCCCc--------EEEeccCCCCc
Q 042003 220 IARGMDFKGVN--------CVINYDFPDSG 241 (248)
Q Consensus 220 ~~~Gidip~~~--------~Vi~~~~p~~~ 241 (248)
+++|-||.--. |||....|+|.
T Consensus 484 AGRGTDI~Lg~~V~~~GGLhVIgTerheSr 513 (925)
T PRK12903 484 AGRGTDIKLSKEVLELGGLYVLGTDKAESR 513 (925)
T ss_pred ccCCcCccCchhHHHcCCcEEEecccCchH
Confidence 99999998433 89988888775
No 140
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=98.91 E-value=2.2e-08 Score=88.44 Aligned_cols=84 Identities=31% Similarity=0.376 Sum_probs=61.4
Q ss_pred CCchhHHHHHHHHHhc-c-CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHH-HHHHHhhcCCc-eEEEEe
Q 042003 142 GSEEGKLLALRQSFAE-S-LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRE-NAVDDFRAGKT-WVLIAT 217 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~~-~-~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~-~~~~~f~~g~~-~ilv~T 217 (248)
.....|..++.+.+.. + .+.|+||-+.|++..+.+.+.|.+.+++..+++..-...+++ +++.. .|+. .|-|||
T Consensus 419 ~t~~~K~~Ai~~ei~~~~~~GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~--AG~~GaVTIAT 496 (939)
T PRK12902 419 KTEIAKWRAVANETAEMHKQGRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQ--AGRKGAVTIAT 496 (939)
T ss_pred cCHHHHHHHHHHHHHHHHhCCCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHh--cCCCCcEEEec
Confidence 3445677666654442 2 378999999999999999999999999999999973322332 33332 3332 488999
Q ss_pred cccccCCCCC
Q 042003 218 DVIARGMDFK 227 (248)
Q Consensus 218 ~~~~~Gidip 227 (248)
+.+++|-||.
T Consensus 497 NMAGRGTDIk 506 (939)
T PRK12902 497 NMAGRGTDII 506 (939)
T ss_pred cCCCCCcCEe
Confidence 9999999975
No 141
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=98.87 E-value=2.5e-08 Score=88.07 Aligned_cols=84 Identities=20% Similarity=0.186 Sum_probs=60.5
Q ss_pred CCchhHHHHHHHHHh-cc-CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC--HHHHHHHHHHhhcCCceEEEEe
Q 042003 142 GSEEGKLLALRQSFA-ES-LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS--QTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 142 ~~~~~~~~~l~~~~~-~~-~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~--~~~r~~~~~~f~~g~~~ilv~T 217 (248)
.....|..++.+.+. .+ .+.|+||-+.|++..+.+.+.|.+.+++..++++.-. ..|-+-+.++=+. ..|.|||
T Consensus 404 ~t~~~K~~AI~~ei~~~~~~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~AG~~--G~VTIAT 481 (870)
T CHL00122 404 KDELSKWRAIADECLQMHQTGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQAGRK--GSITIAT 481 (870)
T ss_pred eCHHHHHHHHHHHHHHHHhcCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHhcCCC--CcEEEec
Confidence 344456665555443 22 2789999999999999999999999999999999732 2333333333222 3489999
Q ss_pred cccccCCCCC
Q 042003 218 DVIARGMDFK 227 (248)
Q Consensus 218 ~~~~~Gidip 227 (248)
+.+++|-||.
T Consensus 482 NMAGRGTDI~ 491 (870)
T CHL00122 482 NMAGRGTDII 491 (870)
T ss_pred cccCCCcCee
Confidence 9999999975
No 142
>COG4889 Predicted helicase [General function prediction only]
Probab=98.81 E-value=2.8e-09 Score=92.83 Aligned_cols=85 Identities=14% Similarity=0.278 Sum_probs=69.1
Q ss_pred CEEEEecchHHHHHHHHHhhc-------------C--CCeeEEEecCCCHHHHHHHHHH---hhcCCceEEEEecccccC
Q 042003 162 PVLIFVQSKERAKELYGELAF-------------D--GIRAGVIHSDLSQTQRENAVDD---FRAGKTWVLIATDVIARG 223 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~-------------~--~~~v~~~~~~~~~~~r~~~~~~---f~~g~~~ilv~T~~~~~G 223 (248)
++|-||.++++.+++++.+.. . .+++..+.|.|+-.+|.+.+.. |...+++||----.+++|
T Consensus 462 RAIaF~k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEG 541 (1518)
T COG4889 462 RAIAFAKDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEG 541 (1518)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcC
Confidence 688999999998888877642 1 2456677899999999666543 566788898888899999
Q ss_pred CCCCCCcEEEeccCCCCccccee
Q 042003 224 MDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 224 idip~~~~Vi~~~~p~~~~~~~q 246 (248)
+|+|.++.||.+++-.++.+-+|
T Consensus 542 VDVPaLDsViFf~pr~smVDIVQ 564 (1518)
T COG4889 542 VDVPALDSVIFFDPRSSMVDIVQ 564 (1518)
T ss_pred CCccccceEEEecCchhHHHHHH
Confidence 99999999999999988877666
No 143
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.76 E-value=7.9e-09 Score=85.40 Aligned_cols=206 Identities=19% Similarity=0.233 Sum_probs=139.1
Q ss_pred CCCcEEEeChHHHHHHHhcC------CcccCceeEEEEeccccccccCcccccchhHhhhC---C---------------
Q 042003 36 FSCDILISTPLRLRLAIRRK------KIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKAC---S--------------- 91 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~------~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~---~--------------- 91 (248)
...||+||+|-.|.-++.+. .-.++++.++|||-||.+...+ +.. +..++..+ +
T Consensus 384 y~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QN-wEh-l~~ifdHLn~~P~k~h~~DfSRVR~wy 461 (698)
T KOG2340|consen 384 YKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQN-WEH-LLHIFDHLNLQPSKQHDVDFSRVRMWY 461 (698)
T ss_pred cccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhh-HHH-HHHHHHHhhcCcccccCCChhheehhe
Confidence 36899999999887666632 1247899999999999887544 222 22222211 1
Q ss_pred -C----ccceeEEEEeecCchHHHHHHHhcCCcEEEEEc----------ccccccccceeEEEEcCCc----hhHHHHHH
Q 042003 92 -N----PSIVRSLFSATLPDFVEELARSIMHDAVRVIVG----------RKNTASESIKQKLVFAGSE----EGKLLALR 152 (248)
Q Consensus 92 -~----~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~----~~~~~~l~ 152 (248)
. .=.|++++|+--.+....+...++.+..-.... ....+..++.+.+ .+.+. +.+.+...
T Consensus 462 L~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri-~~~si~~~~D~RFkyFv 540 (698)
T KOG2340|consen 462 LDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRI-EVKSIIETPDARFKYFV 540 (698)
T ss_pred eccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhhe-eccCcccCchHHHHHHH
Confidence 0 015778888888887777777776653221111 1112222222332 22222 23333332
Q ss_pred HHH----hccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc--ccCCCC
Q 042003 153 QSF----AESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI--ARGMDF 226 (248)
Q Consensus 153 ~~~----~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~--~~Gidi 226 (248)
.-+ .+....-++||.++..+--++.+++++.+++...+|.-.+...-.+..+.|-.|+..+|+-|.-+ -+-.++
T Consensus 541 ~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vlLyTER~hffrR~~i 620 (698)
T KOG2340|consen 541 DKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVLLYTERAHFFRRYHI 620 (698)
T ss_pred HhhchhhcccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEEEEehhhhhhhhhee
Confidence 222 22224568999999999999999999999888888887777777788899999999999999875 477899
Q ss_pred CCCcEEEeccCCCCcccc
Q 042003 227 KGVNCVINYDFPDSGAAY 244 (248)
Q Consensus 227 p~~~~Vi~~~~p~~~~~~ 244 (248)
.+++.||+|.+|.+|--|
T Consensus 621 kGVk~vVfYqpP~~P~FY 638 (698)
T KOG2340|consen 621 KGVKNVVFYQPPNNPHFY 638 (698)
T ss_pred cceeeEEEecCCCCcHHH
Confidence 999999999999998644
No 144
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=98.75 E-value=1.4e-08 Score=89.58 Aligned_cols=88 Identities=17% Similarity=0.173 Sum_probs=79.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC---ceEEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK---TWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~---~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
+++++.|+.--.-..-+..+|.-.+++-..+.|.+..++|-..++.|.... +.+|.+|.+.+.|+|+..++.||+||
T Consensus 726 gHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifd 805 (1157)
T KOG0386|consen 726 GHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFD 805 (1157)
T ss_pred CcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEec
Confidence 789999998877777888888888999999999999999999999998644 46889999999999999999999999
Q ss_pred CCCCcccceec
Q 042003 237 FPDSGAAYIHR 247 (248)
Q Consensus 237 ~p~~~~~~~qr 247 (248)
.-|++-.+.|+
T Consensus 806 sdwnp~~d~qa 816 (1157)
T KOG0386|consen 806 SDWNPHQDLQA 816 (1157)
T ss_pred CCCCchhHHHH
Confidence 99999888775
No 145
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.73 E-value=1.6e-07 Score=84.96 Aligned_cols=221 Identities=17% Similarity=0.148 Sum_probs=141.0
Q ss_pred hHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC-ccccc
Q 042003 4 QTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG-NLLKH 82 (248)
Q Consensus 4 Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~-~~~~~ 82 (248)
|...+.+++.+..| ..+...+|.......+....+|+|+||+++..+ + .....++.|.||+|.+++.. .....
T Consensus 1202 ~~~~w~~~f~~~~G-~~~~~l~ge~s~~lkl~~~~~vii~tpe~~d~l-q----~iQ~v~l~i~d~lh~igg~~g~v~ev 1275 (1674)
T KOG0951|consen 1202 QYRDWEKKFSKLLG-LRIVKLTGETSLDLKLLQKGQVIISTPEQWDLL-Q----SIQQVDLFIVDELHLIGGVYGAVYEV 1275 (1674)
T ss_pred HHHHHHHhhccccC-ceEEecCCccccchHHhhhcceEEechhHHHHH-h----hhhhcceEeeehhhhhcccCCceEEE
Confidence 45667778888888 677777777777777788899999999998666 2 45788899999999988432 11111
Q ss_pred ---chhHhhhCCCccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEE-EEcCCchhHHHH-----HHH
Q 042003 83 ---IDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKL-VFAGSEEGKLLA-----LRQ 153 (248)
Q Consensus 83 ---~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-----l~~ 153 (248)
+..+..+ ..++.+++++|..+.+ .+.+ ..+.....+...+..++.+...+.- +.....+..... ...
T Consensus 1276 i~S~r~ia~q-~~k~ir~v~ls~~lan-a~d~--ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~a 1351 (1674)
T KOG0951|consen 1276 ICSMRYIASQ-LEKKIRVVALSSSLAN-ARDL--IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTA 1351 (1674)
T ss_pred EeeHHHHHHH-HHhheeEEEeehhhcc-chhh--ccccccceeecCcccCCCceeEEEEEeccchhHHHHHHhhhhHHHH
Confidence 2223333 3457889999999876 3333 2222333333344444433332222 222222222211 111
Q ss_pred HHh-ccCCCCEEEEecchHHHHHHHHHhhc----------------------CCCeeEEEecCCCHHHHHHHHHHhhcCC
Q 042003 154 SFA-ESLNPPVLIFVQSKERAKELYGELAF----------------------DGIRAGVIHSDLSQTQRENAVDDFRAGK 210 (248)
Q Consensus 154 ~~~-~~~~~~~liF~~~~~~~~~l~~~L~~----------------------~~~~v~~~~~~~~~~~r~~~~~~f~~g~ 210 (248)
+.+ ...+++++||+++++.|..++..|-. ...+.++=|.+++..+..-+-..|+.|.
T Consensus 1352 i~~~a~~~k~~~vf~p~rk~~~~~a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg~e~~s~~d~~iv~~l~e~g~ 1431 (1674)
T KOG0951|consen 1352 IVRHAGNRKPAIVFLPTRKHARLVAVDLVTFSHADEPDYLLSELEECDETLRESLKHGVGHEGLSSNDQEIVQQLFEAGA 1431 (1674)
T ss_pred HHHHhcCCCCeEEEeccchhhhhhhhccchhhccCcHHHHHHHHhcchHhhhhcccccccccccCcchHHHHHHHHhcCc
Confidence 121 12367999999999999888766622 1123333499999999999999999999
Q ss_pred ceEEEEecccccCCCCCCCcEEEecc
Q 042003 211 TWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 211 ~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
+.++|.+.. ..|+-.. .+.||-+|
T Consensus 1432 i~v~v~s~~-~~~~~~~-~~lVvvmg 1455 (1674)
T KOG0951|consen 1432 IQVCVMSRD-CYGTKLK-AHLVVVMG 1455 (1674)
T ss_pred EEEEEEEcc-ccccccc-ceEEEEec
Confidence 999999887 7887765 45555433
No 146
>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=98.72 E-value=3.6e-08 Score=69.64 Aligned_cols=99 Identities=25% Similarity=0.165 Sum_probs=64.7
Q ss_pred cchHHHHHHHhhcCCCcEEEEcccchhhhc---ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 2 ATQTTRECKKLAKGNKFQIKLMKKELVRST---DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 2 ~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
+.|..+.+...... + ..+....+..... .....+.+++++|++.+...+.........++++|+||+|.+....
T Consensus 43 ~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h~~~~~~- 119 (144)
T cd00046 43 ANQVAERLKELFGE-G-IKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAHRLLNQG- 119 (144)
T ss_pred HHHHHHHHHHHhhC-C-cEEEEEecCcchhHHHHHhcCCCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHHHHhhcc-
Confidence 45666666666653 3 3334444433222 2235679999999999998888776667789999999999987654
Q ss_pred ccccchhHhhhCCCccceeEEEEeec
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
..... ...........+++++|||+
T Consensus 120 ~~~~~-~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 120 FGLLG-LKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred hHHHH-HHHHhhCCccceEEEEeccC
Confidence 22211 11223245677899999995
No 147
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.72 E-value=2.4e-07 Score=85.06 Aligned_cols=91 Identities=18% Similarity=0.272 Sum_probs=70.2
Q ss_pred HHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCC--eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC
Q 042003 151 LRQSFAESLNPPVLIFVQSKERAKELYGELAFDGI--RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG 228 (248)
Q Consensus 151 l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~--~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~ 228 (248)
+.+++... +++++||++|.+..+.+++.|..... ...++.-+++...|..+++.|++++..||++|..+++|||+|+
T Consensus 744 i~~l~~~~-~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~sFwEGVD~pg 822 (928)
T PRK08074 744 IAKIAKAT-KGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTSSFWEGIDIPG 822 (928)
T ss_pred HHHHHHhC-CCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecCcccCccccCC
Confidence 33443343 67999999999999999999975422 2333444554456888999999988889999999999999997
Q ss_pred --CcEEEeccCCC-Ccc
Q 042003 229 --VNCVINYDFPD-SGA 242 (248)
Q Consensus 229 --~~~Vi~~~~p~-~~~ 242 (248)
+++||+.+.|- ++.
T Consensus 823 ~~l~~viI~kLPF~~p~ 839 (928)
T PRK08074 823 DELSCLVIVRLPFAPPD 839 (928)
T ss_pred CceEEEEEecCCCCCCC
Confidence 58999999885 454
No 148
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.54 E-value=3e-06 Score=75.55 Aligned_cols=85 Identities=20% Similarity=0.329 Sum_probs=63.8
Q ss_pred HHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC-CCeeEEEecCCCHHHHHHHHHHhh----cCCceEEEEecccccC
Q 042003 149 LALRQSFAESLNPPVLIFVQSKERAKELYGELAFD-GIRAGVIHSDLSQTQRENAVDDFR----AGKTWVLIATDVIARG 223 (248)
Q Consensus 149 ~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~-~~~v~~~~~~~~~~~r~~~~~~f~----~g~~~ilv~T~~~~~G 223 (248)
..+.+++. . ++.++||++|.+..+.+++.|... +..+ ..+|.. .+..+++.|+ .|+..||++|..+++|
T Consensus 525 ~~i~~l~~-~-~gg~LVlFtSy~~l~~v~~~l~~~~~~~l-l~Q~~~---~~~~ll~~f~~~~~~~~~~VL~g~~sf~EG 598 (697)
T PRK11747 525 EFLPELLE-K-HKGSLVLFASRRQMQKVADLLPRDLRLML-LVQGDQ---PRQRLLEKHKKRVDEGEGSVLFGLQSFAEG 598 (697)
T ss_pred HHHHHHHh-c-CCCEEEEeCcHHHHHHHHHHHHHhcCCcE-EEeCCc---hHHHHHHHHHHHhccCCCeEEEEecccccc
Confidence 34444555 3 556999999999999999999743 3333 335542 4566776665 4677899999999999
Q ss_pred CCCCC--CcEEEeccCCC
Q 042003 224 MDFKG--VNCVINYDFPD 239 (248)
Q Consensus 224 idip~--~~~Vi~~~~p~ 239 (248)
||+|+ +++||+.+.|-
T Consensus 599 VD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 599 LDLPGDYLTQVIITKIPF 616 (697)
T ss_pred ccCCCCceEEEEEEcCCC
Confidence 99996 78999999984
No 149
>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=98.53 E-value=2.6e-06 Score=76.38 Aligned_cols=90 Identities=17% Similarity=0.249 Sum_probs=66.0
Q ss_pred HHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCC------eeEEEecCCCHHHHHHHHHHhhc----CCceEEEEe--c
Q 042003 151 LRQSFAESLNPPVLIFVQSKERAKELYGELAFDGI------RAGVIHSDLSQTQRENAVDDFRA----GKTWVLIAT--D 218 (248)
Q Consensus 151 l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~------~v~~~~~~~~~~~r~~~~~~f~~----g~~~ilv~T--~ 218 (248)
+.++.+.. ++.++||++|....+.+++.+.+.+. .-.++..+-...++.++++.|++ |+..||+|+ .
T Consensus 514 i~~~~~~~-pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~~~~~~~~l~~f~~~~~~~~gavL~av~gG 592 (705)
T TIGR00604 514 LVEFSKII-PDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKDAQETSDALERYKQAVSEGRGAVLLSVAGG 592 (705)
T ss_pred HHHHhhcC-CCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCCcchHHHHHHHHHHHHhcCCceEEEEecCC
Confidence 33444444 68999999999999999998876432 11233322223577889999964 456799998 7
Q ss_pred ccccCCCCCC--CcEEEeccCCC-Cc
Q 042003 219 VIARGMDFKG--VNCVINYDFPD-SG 241 (248)
Q Consensus 219 ~~~~Gidip~--~~~Vi~~~~p~-~~ 241 (248)
.+++|||+++ ++.||..|+|- ++
T Consensus 593 k~sEGIDf~~~~~r~ViivGlPf~~~ 618 (705)
T TIGR00604 593 KVSEGIDFCDDLGRAVIMVGIPYEYT 618 (705)
T ss_pred cccCccccCCCCCcEEEEEccCCCCC
Confidence 8999999997 78999999996 44
No 150
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=98.49 E-value=7.7e-07 Score=76.25 Aligned_cols=83 Identities=20% Similarity=0.238 Sum_probs=67.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc--CCce-EEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA--GKTW-VLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~--g~~~-ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
..+++|...=.....-+...|.+.|....-+||....++|+++++.|.. |... .|++-.+.+.|+|+-+.+|+|++|
T Consensus 746 keK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvD 825 (901)
T KOG4439|consen 746 KEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVD 825 (901)
T ss_pred cceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEe
Confidence 4566666544555566677888888899999999999999999999974 4344 456668899999999999999999
Q ss_pred CCCCcc
Q 042003 237 FPDSGA 242 (248)
Q Consensus 237 ~p~~~~ 242 (248)
+-||+.
T Consensus 826 lHWNPa 831 (901)
T KOG4439|consen 826 LHWNPA 831 (901)
T ss_pred cccCHH
Confidence 999984
No 151
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.48 E-value=9.1e-07 Score=79.21 Aligned_cols=70 Identities=16% Similarity=0.083 Sum_probs=54.6
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecC
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
+.....|+++||..+..-+..+.+.++.+..+||||||++.+.. ....+-++.+. .....-+.++||.+.
T Consensus 4 ly~~ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ahr~~~~~-~eaFI~rlyr~-~n~~gfIkafSdsP~ 73 (814)
T TIGR00596 4 VYLEGGIFSITSRILVVDLLTGIIPPELITGILVLRADRIIESS-QEAFILRLYRQ-KNKTGFIKAFSDNPE 73 (814)
T ss_pred HhhcCCEEEEechhhHhHHhcCCCCHHHccEEEEeecccccccc-cHHHHHHHHHH-hCCCcceEEecCCCc
Confidence 34457899999999999999999999999999999999987654 34444455554 345566788999864
No 152
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=98.46 E-value=5e-07 Score=66.18 Aligned_cols=85 Identities=24% Similarity=0.385 Sum_probs=63.5
Q ss_pred HHHHhccCCCCEEEEecchHHHHHHHHHhhcCCC--eeEEEecCCCHHHHHHHHHHhhcCCceEEEEec--ccccCCCCC
Q 042003 152 RQSFAESLNPPVLIFVQSKERAKELYGELAFDGI--RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD--VIARGMDFK 227 (248)
Q Consensus 152 ~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~--~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~--~~~~Gidip 227 (248)
.++++.. +++++||++|.+..+.+++.++.... ...++.. +..++...++.|++++..||+++. .+++|+|+|
T Consensus 2 ~~l~~~~-~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q--~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~ 78 (167)
T PF13307_consen 2 LELISAV-PGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ--GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFP 78 (167)
T ss_dssp HHHHHCC-SSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES--TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--E
T ss_pred hHHHhcC-CCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec--CcchHHHHHHHHHhccCeEEEEEecccEEEeecCC
Confidence 4455555 68999999999999999999987642 2233333 255788999999999999999999 999999999
Q ss_pred C--CcEEEeccCCC
Q 042003 228 G--VNCVINYDFPD 239 (248)
Q Consensus 228 ~--~~~Vi~~~~p~ 239 (248)
+ ++.||..+.|.
T Consensus 79 ~~~~r~vii~glPf 92 (167)
T PF13307_consen 79 GDLLRAVIIVGLPF 92 (167)
T ss_dssp CESEEEEEEES---
T ss_pred CchhheeeecCCCC
Confidence 6 88999999995
No 153
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.44 E-value=3e-06 Score=75.59 Aligned_cols=89 Identities=22% Similarity=0.299 Sum_probs=68.9
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCCHHHHHHHHHHhhcCCc-eEEEEecccccCC
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLSQTQRENAVDDFRAGKT-WVLIATDVIARGM 224 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~~~~r~~~~~~f~~g~~-~ilv~T~~~~~Gi 224 (248)
....+.++++.. +++++||++|.+..+.+++.++..... ....+|..+ +.+.++.|..+.- .++|+|..+++|+
T Consensus 467 ~~~~i~~~~~~~-~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~---~~~~l~~f~~~~~~~~lv~~gsf~EGV 542 (654)
T COG1199 467 LAAYLREILKAS-PGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDE---REELLEKFKASGEGLILVGGGSFWEGV 542 (654)
T ss_pred HHHHHHHHHhhc-CCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCc---HHHHHHHHHHhcCCeEEEeeccccCcc
Confidence 344555666665 569999999999999999999877653 344455444 4477788876654 8999999999999
Q ss_pred CCCC--CcEEEeccCCC
Q 042003 225 DFKG--VNCVINYDFPD 239 (248)
Q Consensus 225 dip~--~~~Vi~~~~p~ 239 (248)
|+|+ .+.||+.+.|.
T Consensus 543 D~~g~~l~~vvI~~lPf 559 (654)
T COG1199 543 DFPGDALRLVVIVGLPF 559 (654)
T ss_pred cCCCCCeeEEEEEecCC
Confidence 9997 48999999995
No 154
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.43 E-value=8.6e-06 Score=71.82 Aligned_cols=103 Identities=5% Similarity=-0.036 Sum_probs=57.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-------hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-------RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
|+.|+.+.++....... +..+.++. .......+..+|+|||...+ ...+.++++||+||-|.-
T Consensus 200 lt~q~~~rl~~~f~~~~---v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAv-------FaP~~~LgLIIvdEEhd~ 269 (665)
T PRK14873 200 DVDRLEAALRALLGAGD---VAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAV-------FAPVEDLGLVAIWDDGDD 269 (665)
T ss_pred hHHHHHHHHHHHcCCCc---EEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeE-------EeccCCCCEEEEEcCCch
Confidence 34567777766543222 22232222 22334556689999995322 245789999999999964
Q ss_pred c--cc-CcccccchhHhhhCCCccceeEEEEeecCchHHHHHH
Q 042003 74 F--EV-GNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELAR 113 (248)
Q Consensus 74 ~--~~-~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~ 113 (248)
. +. +++...-.-........++.+|+.|||++-+......
T Consensus 270 sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTPSles~~~~~ 312 (665)
T PRK14873 270 LLAEPRAPYPHAREVALLRAHQHGCALLIGGHARTAEAQALVE 312 (665)
T ss_pred hhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHh
Confidence 3 11 1121111111122134578899999998865554443
No 155
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=98.39 E-value=4.8e-06 Score=75.45 Aligned_cols=82 Identities=18% Similarity=0.251 Sum_probs=64.4
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC--CCcEEEecc
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK--GVNCVINYD 236 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip--~~~~Vi~~~ 236 (248)
.+++++|+++|.+..+.+++.|......+ ...|... .+..+++.|++++..||++|..+++|+|+| +...||+.+
T Consensus 646 ~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~~vLlG~~sFwEGVD~p~~~~~~viI~k 722 (820)
T PRK07246 646 LQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQQILLGLGSFWEGVDFVQADRMIEVITR 722 (820)
T ss_pred cCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCCeEEEecchhhCCCCCCCCCeEEEEEec
Confidence 36899999999999999999997665444 4444222 246689999998889999999999999997 466788899
Q ss_pred CC-CCccc
Q 042003 237 FP-DSGAA 243 (248)
Q Consensus 237 ~p-~~~~~ 243 (248)
.| .++.+
T Consensus 723 LPF~~P~d 730 (820)
T PRK07246 723 LPFDNPED 730 (820)
T ss_pred CCCCCCCC
Confidence 88 44543
No 156
>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=98.31 E-value=2.3e-05 Score=68.52 Aligned_cols=91 Identities=20% Similarity=0.114 Sum_probs=68.2
Q ss_pred HHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc----CCceEEEEecccccC
Q 042003 148 LLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA----GKTWVLIATDVIARG 223 (248)
Q Consensus 148 ~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~----g~~~ilv~T~~~~~G 223 (248)
...+..++... +++++|.+.|....+.+++.|...-.-...+.|..+ .+.+.++.|++ |...||++|+.+.+|
T Consensus 459 ~~~~~~~~~~~-~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~--~~~~l~~~f~~~~~~~~~~vL~gt~sfweG 535 (636)
T TIGR03117 459 SLSTAAILRKA-QGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKN--RLASAEQQFLALYANGIQPVLIAAGGAWTG 535 (636)
T ss_pred HHHHHHHHHHc-CCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCc--cHHHHHHHHHHhhcCCCCcEEEeCCccccc
Confidence 35556666655 679999999999999999999764223345556443 34567778876 467899999999999
Q ss_pred CCC--------C--CCcEEEeccCCCCc
Q 042003 224 MDF--------K--GVNCVINYDFPDSG 241 (248)
Q Consensus 224 idi--------p--~~~~Vi~~~~p~~~ 241 (248)
||+ | .+++||+...|-.+
T Consensus 536 vDv~~~~~~p~~G~~Ls~ViI~kLPF~~ 563 (636)
T TIGR03117 536 IDLTHKPVSPDKDNLLTDLIITCAPFGL 563 (636)
T ss_pred cccCCccCCCCCCCcccEEEEEeCCCCc
Confidence 999 2 48999999988443
No 157
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=98.30 E-value=4.8e-06 Score=75.26 Aligned_cols=97 Identities=24% Similarity=0.292 Sum_probs=83.0
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC--ceEEEEecccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK--TWVLIATDVIA 221 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~--~~ilv~T~~~~ 221 (248)
.|+..|.-++.+. ++.+++||+.-.+...-+...|+..|+--..+.|....++|+..++.|+... ++.|++|...+
T Consensus 1260 GKLQtLAiLLqQLk~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSgg 1339 (1958)
T KOG0391|consen 1260 GKLQTLAILLQQLKSEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGG 1339 (1958)
T ss_pred chHHHHHHHHHHHHhcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCc
Confidence 4555555444432 2789999998888888888899999999999999999999999999999765 47889999999
Q ss_pred cCCCCCCCcEEEeccCCCCcc
Q 042003 222 RGMDFKGVNCVINYDFPDSGA 242 (248)
Q Consensus 222 ~Gidip~~~~Vi~~~~p~~~~ 242 (248)
.|||+-+++.||.||.-||+.
T Consensus 1340 vGiNLtgADTVvFYDsDwNPt 1360 (1958)
T KOG0391|consen 1340 VGINLTGADTVVFYDSDWNPT 1360 (1958)
T ss_pred cccccccCceEEEecCCCCch
Confidence 999999999999999999984
No 158
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=98.19 E-value=1e-05 Score=74.55 Aligned_cols=101 Identities=25% Similarity=0.263 Sum_probs=87.1
Q ss_pred hHHHHHHHHH-h--ccCCC--CEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC--CceEEEEec
Q 042003 146 GKLLALRQSF-A--ESLNP--PVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG--KTWVLIATD 218 (248)
Q Consensus 146 ~~~~~l~~~~-~--~~~~~--~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g--~~~ilv~T~ 218 (248)
.|...+.+++ . ...+. ++++|+.-.....-+...++..++....++|+++.+.|...++.|.++ ...+++++.
T Consensus 692 ~k~~~l~~ll~~~~~~~~~~~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~k 771 (866)
T COG0553 692 GKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLK 771 (866)
T ss_pred hHHHHHHHHHHHHHHhhcccccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEec
Confidence 4566666666 2 22255 999999999999999999999998999999999999999999999986 456778889
Q ss_pred ccccCCCCCCCcEEEeccCCCCccccee
Q 042003 219 VIARGMDFKGVNCVINYDFPDSGAAYIH 246 (248)
Q Consensus 219 ~~~~Gidip~~~~Vi~~~~p~~~~~~~q 246 (248)
+.+.|+|+..+++||++|+.|++....|
T Consensus 772 agg~glnLt~a~~vi~~d~~wnp~~~~Q 799 (866)
T COG0553 772 AGGLGLNLTGADTVILFDPWWNPAVELQ 799 (866)
T ss_pred ccccceeecccceEEEeccccChHHHHH
Confidence 9999999999999999999999987665
No 159
>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=98.17 E-value=2.3e-06 Score=63.44 Aligned_cols=65 Identities=17% Similarity=0.193 Sum_probs=44.6
Q ss_pred ccCCCcEEEeChHHHHHHHhcCC-----------cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEe
Q 042003 34 SKFSCDILISTPLRLRLAIRRKK-----------IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSA 102 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~-----------~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA 102 (248)
.....+++++|.+++........ ......+++|+||||+...... ...+.. .....+++|||
T Consensus 108 ~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH~~~~~~~----~~~i~~---~~~~~~l~lTA 180 (184)
T PF04851_consen 108 DNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAHHYPSDSS----YREIIE---FKAAFILGLTA 180 (184)
T ss_dssp CBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGGCTHHHHH----HHHHHH---SSCCEEEEEES
T ss_pred ccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhhhcCCHHH----HHHHHc---CCCCeEEEEEe
Confidence 44578999999999988876421 2345788999999999765432 333333 34566899999
Q ss_pred ecC
Q 042003 103 TLP 105 (248)
Q Consensus 103 T~~ 105 (248)
|+.
T Consensus 181 Tp~ 183 (184)
T PF04851_consen 181 TPF 183 (184)
T ss_dssp S-S
T ss_pred Ccc
Confidence 975
No 160
>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=98.15 E-value=7e-06 Score=57.41 Aligned_cols=71 Identities=11% Similarity=-0.013 Sum_probs=43.7
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchH
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFV 108 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~ 108 (248)
.++.-|-++|...+.+.+.+ .....+++++|+||||..-... ......+..........+|+||||+|...
T Consensus 70 ~g~~~i~vMc~at~~~~~~~-p~~~~~yd~II~DEcH~~Dp~s--IA~rg~l~~~~~~g~~~~i~mTATPPG~~ 140 (148)
T PF07652_consen 70 FGSSIIDVMCHATYGHFLLN-PCRLKNYDVIIMDECHFTDPTS--IAARGYLRELAESGEAKVIFMTATPPGSE 140 (148)
T ss_dssp -SSSSEEEEEHHHHHHHHHT-SSCTTS-SEEEECTTT--SHHH--HHHHHHHHHHHHTTS-EEEEEESS-TT--
T ss_pred cCCCcccccccHHHHHHhcC-cccccCccEEEEeccccCCHHH--HhhheeHHHhhhccCeeEEEEeCCCCCCC
Confidence 34677889999998888876 5557899999999999954332 22222232222234467899999998744
No 161
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.00 E-value=5.7e-05 Score=68.42 Aligned_cols=141 Identities=23% Similarity=0.210 Sum_probs=94.7
Q ss_pred eeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhcc--CCCCEEEEecchHHH
Q 042003 96 VRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAES--LNPPVLIFVQSKERA 173 (248)
Q Consensus 96 ~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~liF~~~~~~~ 173 (248)
.+-+||+|...+..++..-|..+...+ +...+................|.+++.+.+... .++|+||-+.|++..
T Consensus 565 kLsGMTGTA~tea~Ef~~IY~L~Vv~I---PTnrP~~R~D~~D~vy~t~~eK~~Aii~ei~~~~~~GrPVLVGT~SVe~S 641 (1112)
T PRK12901 565 KLAGMTGTAETEAGEFWDIYKLDVVVI---PTNRPIARKDKEDLVYKTKREKYNAVIEEITELSEAGRPVLVGTTSVEIS 641 (1112)
T ss_pred hhcccCCCCHHHHHHHHHHhCCCEEEC---CCCCCcceecCCCeEecCHHHHHHHHHHHHHHHHHCCCCEEEEeCcHHHH
Confidence 345899998877676655554343222 222232222222222345556777766655533 378999999999999
Q ss_pred HHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC--------CCcEEEeccCCCCc
Q 042003 174 KELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK--------GVNCVINYDFPDSG 241 (248)
Q Consensus 174 ~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip--------~~~~Vi~~~~p~~~ 241 (248)
+.+.+.|...+++..++++.....+-+-+.++=+.|. |-|||+.+++|-||. +==|||-...++|.
T Consensus 642 E~lS~~L~~~gI~H~VLNAK~h~~EAeIVA~AG~~Ga--VTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSr 715 (1112)
T PRK12901 642 ELLSRMLKMRKIPHNVLNAKLHQKEAEIVAEAGQPGT--VTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESR 715 (1112)
T ss_pred HHHHHHHHHcCCcHHHhhccchhhHHHHHHhcCCCCc--EEEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcH
Confidence 9999999999999988888755444444445444444 889999999999997 22377777777664
No 162
>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=97.95 E-value=0.00022 Score=63.19 Aligned_cols=181 Identities=18% Similarity=0.107 Sum_probs=112.8
Q ss_pred CCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC-----cccccchhHhhhCCCccceeEEEEeecCchHHHH
Q 042003 37 SCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG-----NLLKHIDPVVKACSNPSIVRSLFSATLPDFVEEL 111 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~-----~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~ 111 (248)
..+-+++..++|.+.. ...+.++|+||+||+--++..- ........++..+..+...+|+|-|+++...-++
T Consensus 121 ~~~rLivqIdSL~R~~---~~~l~~yDvVIIDEv~svL~qL~S~Tm~~~~~v~~~L~~lI~~ak~VI~~DA~ln~~tvdF 197 (824)
T PF02399_consen 121 PYDRLIVQIDSLHRLD---GSLLDRYDVVIIDEVMSVLNQLFSPTMRQREEVDNLLKELIRNAKTVIVMDADLNDQTVDF 197 (824)
T ss_pred ccCeEEEEehhhhhcc---cccccccCEEEEehHHHHHHHHhHHHHhhHHHHHHHHHHHHHhCCeEEEecCCCCHHHHHH
Confidence 3577888877775554 2346779999999997665431 1112223334444556778999999999989888
Q ss_pred HHHhcCCc-EEEEEcccccccc-c------------------------------------ceeEEEEcCCchhHHHHHHH
Q 042003 112 ARSIMHDA-VRVIVGRKNTASE-S------------------------------------IKQKLVFAGSEEGKLLALRQ 153 (248)
Q Consensus 112 ~~~~~~~~-~~~~~~~~~~~~~-~------------------------------------~~~~~~~~~~~~~~~~~l~~ 153 (248)
.....++. ..++......+.. + ......... +.......
T Consensus 198 l~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~tF~~~ 274 (824)
T PF02399_consen 198 LASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISN---DETTFFSE 274 (824)
T ss_pred HHHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCcccccccccc---chhhHHHH
Confidence 88875543 2232221100000 0 000000011 12222333
Q ss_pred HHhccC-CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCC
Q 042003 154 SFAESL-NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGV 229 (248)
Q Consensus 154 ~~~~~~-~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~ 229 (248)
+..... ++++-||++|...++.+++..+..+.++..++|..+.++ +.. =++.+|++=|+++..|+++...
T Consensus 275 L~~~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d---v~~---W~~~~VviYT~~itvG~Sf~~~ 345 (824)
T PF02399_consen 275 LLARLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED---VES---WKKYDVVIYTPVITVGLSFEEK 345 (824)
T ss_pred HHHHHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc---ccc---ccceeEEEEeceEEEEeccchh
Confidence 333322 567889999999999999999888899999988766653 221 2457899999999999998743
No 163
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=97.86 E-value=3.8e-05 Score=68.38 Aligned_cols=100 Identities=19% Similarity=0.204 Sum_probs=80.6
Q ss_pred hHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhc----------------------CCCeeEEEecCCCHHHHHH
Q 042003 146 GKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAF----------------------DGIRAGVIHSDLSQTQREN 201 (248)
Q Consensus 146 ~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~----------------------~~~~v~~~~~~~~~~~r~~ 201 (248)
.|+-.|++++.... +.|+|||..+......+...|.. .|..-..+.|+.....|+.
T Consensus 1126 gKmiLLleIL~mceeIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k 1205 (1567)
T KOG1015|consen 1126 GKMILLLEILRMCEEIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKK 1205 (1567)
T ss_pred cceehHHHHHHHHHHhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHH
Confidence 45556666666443 78999999999888888877752 1345677889999999999
Q ss_pred HHHHhhcCC----ceEEEEecccccCCCCCCCcEEEeccCCCCcccce
Q 042003 202 AVDDFRAGK----TWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYI 245 (248)
Q Consensus 202 ~~~~f~~g~----~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~ 245 (248)
+.+.|.+-. ...||+|-+.+.|||+-.++-||+||..|||+-=.
T Consensus 1206 ~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDt 1253 (1567)
T KOG1015|consen 1206 WAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDT 1253 (1567)
T ss_pred HHHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCCccch
Confidence 999998632 24899999999999999999999999999997433
No 164
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=97.83 E-value=0.0001 Score=63.87 Aligned_cols=98 Identities=21% Similarity=0.299 Sum_probs=83.1
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCc-eEEEEeccccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKT-WVLIATDVIAR 222 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~-~ilv~T~~~~~ 222 (248)
.|+..|-+++.+. .+.++++|+.--+....+.++|.-++|....+.|+..-.+|.++++.|+...+ -+|++|-+.+.
T Consensus 1028 gKL~~LDeLL~kLkaegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGL 1107 (1185)
T KOG0388|consen 1028 GKLVVLDELLPKLKAEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGL 1107 (1185)
T ss_pred cceeeHHHHHHHhhcCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcc
Confidence 3444444444332 27899999988888999999999999999999999999999999999998654 57899999999
Q ss_pred CCCCCCCcEEEeccCCCCccc
Q 042003 223 GMDFKGVNCVINYDFPDSGAA 243 (248)
Q Consensus 223 Gidip~~~~Vi~~~~p~~~~~ 243 (248)
|||+..++.||.||.-|++..
T Consensus 1108 GINLTAADTViFYdSDWNPT~ 1128 (1185)
T KOG0388|consen 1108 GINLTAADTVIFYDSDWNPTA 1128 (1185)
T ss_pred cccccccceEEEecCCCCcch
Confidence 999999999999999999853
No 165
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=97.71 E-value=6.6e-05 Score=66.56 Aligned_cols=78 Identities=18% Similarity=0.268 Sum_probs=66.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhc-------CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEE
Q 042003 160 NPPVLIFVQSKERAKELYGELAF-------DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~-------~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~V 232 (248)
.+.+++|.+-=...-.+...|.. ..+.+..+|+.....+..++.+....|..+++++|++++..+.+.++.+|
T Consensus 643 ~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~v 722 (1282)
T KOG0921|consen 643 DGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYV 722 (1282)
T ss_pred ccceeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHhhhhccCcccccccccccccceeeEeeeecceeEE
Confidence 67889999888888788777753 24688899999999999999999999999999999999999999998888
Q ss_pred EeccC
Q 042003 233 INYDF 237 (248)
Q Consensus 233 i~~~~ 237 (248)
|+...
T Consensus 723 id~ck 727 (1282)
T KOG0921|consen 723 IDSCK 727 (1282)
T ss_pred Eeeee
Confidence 76554
No 166
>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=97.56 E-value=0.00047 Score=55.27 Aligned_cols=98 Identities=18% Similarity=0.145 Sum_probs=56.2
Q ss_pred cchHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhc---CCcccCceeEEEEeccccccc
Q 042003 2 ATQTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRR---KKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 2 ~~Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~---~~~~~~~~~~lIiDEah~~~~ 75 (248)
..|+.+.+.++..... ..+....|.. ..........+++|+|.+.+...... +.+..-+++.+|+||+|.+-+
T Consensus 70 ~~~W~~E~~~~~~~~~-~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~ 148 (299)
T PF00176_consen 70 LSQWKEEIEKWFDPDS-LRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKN 148 (299)
T ss_dssp HHHHHHHHHHHSGT-T-S-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTT
T ss_pred hhhhhhhhcccccccc-ccccccccccccccccccccccceeeeccccccccccccccccccccccceeEEEeccccccc
Confidence 4688888888886534 2444444443 22233445689999999988711111 112224589999999999854
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecC
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
.. ......+..+. ....+++|||+-
T Consensus 149 ~~---s~~~~~l~~l~--~~~~~lLSgTP~ 173 (299)
T PF00176_consen 149 KD---SKRYKALRKLR--ARYRWLLSGTPI 173 (299)
T ss_dssp TT---SHHHHHHHCCC--ECEEEEE-SS-S
T ss_pred cc---ccccccccccc--cceEEeeccccc
Confidence 32 22333333322 455688999974
No 167
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.46 E-value=0.00042 Score=57.85 Aligned_cols=83 Identities=13% Similarity=0.117 Sum_probs=73.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC-ce-EEEEecccccCCCCCCCcEEEeccC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK-TW-VLIATDVIARGMDFKGVNCVINYDF 237 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~-~~-ilv~T~~~~~Gidip~~~~Vi~~~~ 237 (248)
.-|.|||..--.....+.-.|.+.|++|..+-|+|++..|...++.|.+.- +. .|++-.+.+..+|+..+++|+++||
T Consensus 638 t~KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDP 717 (791)
T KOG1002|consen 638 TAKSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDP 717 (791)
T ss_pred chhhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecc
Confidence 348999987777777888889999999999999999999999999999864 44 5677799999999999999999999
Q ss_pred CCCcc
Q 042003 238 PDSGA 242 (248)
Q Consensus 238 p~~~~ 242 (248)
.||+.
T Consensus 718 WWNpa 722 (791)
T KOG1002|consen 718 WWNPA 722 (791)
T ss_pred cccHH
Confidence 99985
No 168
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.37 E-value=0.0036 Score=58.12 Aligned_cols=98 Identities=15% Similarity=0.105 Sum_probs=59.3
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhhhccccc-CCCcEEEeChHHHHHHHhcC-Cc-ccCceeEEEEeccccccccC
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVRSTDLSK-FSCDILISTPLRLRLAIRRK-KI-DLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~v~Tp~~l~~~~~~~-~~-~~~~~~~lIiDEah~~~~~~ 77 (248)
|-.|+.+.++.++.... ... -.-........+. ....|+|+|.++|....... .. .-++=-++|+||||+ .
T Consensus 315 Ld~Q~~~~f~~~~~~~~-~~~-~~~s~~~Lk~~l~~~~~~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaHR-S--- 388 (962)
T COG0610 315 LDDQTSDEFQSFGKVAF-NDP-KAESTSELKELLEDGKGKIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAHR-S--- 388 (962)
T ss_pred HHHHHHHHHHHHHHhhh-hcc-cccCHHHHHHHHhcCCCcEEEEEecccchhhhcccccccCCCcEEEEEechhh-c---
Confidence 45688899998888765 222 2222222233333 34589999999998888664 11 122333799999999 2
Q ss_pred cccccchhHhhhCCCccceeEEEEeecCc
Q 042003 78 NLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
..+.+...++... ++...+++|+|+-.
T Consensus 389 -Q~G~~~~~~~~~~-~~a~~~gFTGTPi~ 415 (962)
T COG0610 389 -QYGELAKLLKKAL-KKAIFIGFTGTPIF 415 (962)
T ss_pred -cccHHHHHHHHHh-ccceEEEeeCCccc
Confidence 3333333333322 23678999999743
No 169
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=97.33 E-value=0.0012 Score=46.76 Aligned_cols=67 Identities=18% Similarity=0.268 Sum_probs=48.5
Q ss_pred HHHHHHHhhcCCC------eeEEEecCCCHHHHHHHHHHhhcCC-ceEEEEecccccCCCCCC--CcEEEeccCCC
Q 042003 173 AKELYGELAFDGI------RAGVIHSDLSQTQRENAVDDFRAGK-TWVLIATDVIARGMDFKG--VNCVINYDFPD 239 (248)
Q Consensus 173 ~~~l~~~L~~~~~------~v~~~~~~~~~~~r~~~~~~f~~g~-~~ilv~T~~~~~Gidip~--~~~Vi~~~~p~ 239 (248)
.+++++.+...+. ...++..+.+..+...+++.|++.. ..||+++..+++|+|+|+ ++.||..+.|.
T Consensus 4 m~~v~~~~~~~~~~~~l~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 4 MESFVQYWKENGILENINKNLLLLVQGEDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred HHHHHHHHHHcCchhhHhcCCeEEEeCCChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCC
Confidence 4455555554432 2344555556656788999998754 379999988999999997 57999999985
No 170
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=97.24 E-value=0.0012 Score=46.85 Aligned_cols=68 Identities=19% Similarity=0.262 Sum_probs=46.4
Q ss_pred HHHHHHHHhhcCCC---eeEEEecCCCHHHHHHHHHHhhcCCc---eEEEEecc--cccCCCCCC--CcEEEeccCCC
Q 042003 172 RAKELYGELAFDGI---RAGVIHSDLSQTQRENAVDDFRAGKT---WVLIATDV--IARGMDFKG--VNCVINYDFPD 239 (248)
Q Consensus 172 ~~~~l~~~L~~~~~---~v~~~~~~~~~~~r~~~~~~f~~g~~---~ilv~T~~--~~~Gidip~--~~~Vi~~~~p~ 239 (248)
..+.+++.+++.+. ...++..+....+..++++.|+++.- .||+++.. +++|||+|+ ++.||..+.|.
T Consensus 3 ~m~~v~~~~~~~~~~~~~~~i~~e~~~~~~~~~~l~~f~~~~~~~g~iL~~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 3 YLEQVVEYWKENGILEINKPVFIEGKDSGETEELLEKYSAACEARGALLLAVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred HHHHHHHHHHhcCccccCceEEEECCCCchHHHHHHHHHHhcCCCCEEEEEEeCCeeecceecCCCccEEEEEEecCC
Confidence 34566666665432 22334333333455778888886543 68888887 999999997 68999999995
No 171
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=97.24 E-value=0.0015 Score=58.58 Aligned_cols=75 Identities=20% Similarity=0.354 Sum_probs=65.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-cccCCCCCCCcEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-IARGMDFKGVNCVIN 234 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-~~~Gidip~~~~Vi~ 234 (248)
+.++++.++|+.-|.+.++.+++ .++++..++|+++..+|.++++.+.+|+.+|+|+|.. +...+.++++.+||.
T Consensus 310 g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lvVI 389 (681)
T PRK10917 310 GYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLVII 389 (681)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceEEE
Confidence 56899999999999988888765 3689999999999999999999999999999999975 455677888888773
No 172
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=97.10 E-value=0.0019 Score=58.57 Aligned_cols=73 Identities=22% Similarity=0.292 Sum_probs=58.9
Q ss_pred HHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCC-----CeeEE-EecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 148 LLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG-----IRAGV-IHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 148 ~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~-----~~v~~-~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
.-.+..+.-...++++++.+||..-+.++++.|++.. ..+.. +||.++..++++.++.|.+|.++|+|+|+.+
T Consensus 113 fg~~~sl~~a~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gdfdIlitTs~F 191 (1187)
T COG1110 113 FGLLMSLYLAKKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGDFDILITTSQF 191 (1187)
T ss_pred HHHHHHHHHHhcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCCccEEEEeHHH
Confidence 3344445555557999999999999999999997642 33333 9999999999999999999999999999865
No 173
>PRK05580 primosome assembly protein PriA; Validated
Probab=97.07 E-value=0.0076 Score=54.09 Aligned_cols=76 Identities=20% Similarity=0.301 Sum_probs=64.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC-CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD-GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~-~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
+++++|.+++++.+.++++.|++. +..+..+||+++..+|.+......+|+.+|+|+|...-. ..++++..||.-+
T Consensus 190 g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-~p~~~l~liVvDE 266 (679)
T PRK05580 190 GKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-LPFKNLGLIIVDE 266 (679)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-ccccCCCEEEEEC
Confidence 678999999999999999999764 778999999999999999999999999999999975432 5567788887544
No 174
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=97.02 E-value=0.0032 Score=56.10 Aligned_cols=74 Identities=19% Similarity=0.372 Sum_probs=64.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc-ccCCCCCCCcEEE
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI-ARGMDFKGVNCVI 233 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~-~~Gidip~~~~Vi 233 (248)
+.++++.++|+.-|.+.++.+++ .+.++..++|+++..+|...++...+|+.+|+|+|... ...+++.++.+||
T Consensus 284 g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~~~~~~~l~lvV 362 (630)
T TIGR00643 284 GYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQEKVEFKRLALVI 362 (630)
T ss_pred CCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhccccccccceEE
Confidence 56899999999999998887764 37899999999999999999999999999999999764 4567777888777
No 175
>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=97.01 E-value=0.0062 Score=52.66 Aligned_cols=76 Identities=22% Similarity=0.381 Sum_probs=63.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC-CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD-GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~-~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~Vi~~~ 236 (248)
++++++.++++.-+.++++.|++. +..+.++||+++..+|.+......+|+.+|+|+|...-. .-++++..||.-+
T Consensus 25 g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-~p~~~l~lIIVDE 101 (505)
T TIGR00595 25 GKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-LPFKNLGLIIVDE 101 (505)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-CcccCCCEEEEEC
Confidence 678999999999999999999764 678999999999999999999999999999999975432 4566788777443
No 176
>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=96.84 E-value=0.0057 Score=56.47 Aligned_cols=75 Identities=16% Similarity=0.255 Sum_probs=64.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-cccCCCCCCCcEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-IARGMDFKGVNCVIN 234 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-~~~Gidip~~~~Vi~ 234 (248)
+.+++|.++|..-|.+.++.+++ .+.++..++|+.+..++.++++.+.+|+.+|+|+|.. +...+.+.++.++|.
T Consensus 500 g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 500 GKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHhhCCCCcccCCEEEe
Confidence 56899999999999999988765 3678889999999999999999999999999999974 455677888888774
No 177
>PRK14873 primosome assembly protein PriA; Provisional
Probab=96.81 E-value=0.01 Score=52.95 Aligned_cols=91 Identities=16% Similarity=0.123 Sum_probs=72.7
Q ss_pred hHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcC-C-CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccc
Q 042003 146 GKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFD-G-IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIA 221 (248)
Q Consensus 146 ~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~-~-~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~ 221 (248)
.|.+....+++.. .++.+||.++.+..+.++.+.|++. + ..+..+|+++++.+|.+......+|+.+|+|+|-.+-
T Consensus 172 GKTevyl~~i~~~l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAv 251 (665)
T PRK14873 172 DWARRLAAAAAATLRAGRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAV 251 (665)
T ss_pred cHHHHHHHHHHHHHHcCCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeE
Confidence 4555555555432 2678999999999999999999865 3 5799999999999999999999999999999997663
Q ss_pred cCCCCCCCcEEEeccC
Q 042003 222 RGMDFKGVNCVINYDF 237 (248)
Q Consensus 222 ~Gidip~~~~Vi~~~~ 237 (248)
. .=+++...||..+-
T Consensus 252 F-aP~~~LgLIIvdEE 266 (665)
T PRK14873 252 F-APVEDLGLVAIWDD 266 (665)
T ss_pred E-eccCCCCEEEEEcC
Confidence 3 45667777776554
No 178
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=96.71 E-value=0.00062 Score=61.58 Aligned_cols=183 Identities=19% Similarity=0.138 Sum_probs=96.1
Q ss_pred EEcccchhhhcccccCCCcEEEeChHHHHHHHhc--CCcccCceeEEEEeccccccccCcccccchhHhhhC------CC
Q 042003 21 KLMKKELVRSTDLSKFSCDILISTPLRLRLAIRR--KKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKAC------SN 92 (248)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~--~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~------~~ 92 (248)
+.-..|.....-.....++++|+||+++-...+. ....+.++..+|+||.|++... +.+.++.+.... ..
T Consensus 1004 ~ie~tgd~~pd~~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~--rgPVle~ivsr~n~~s~~t~ 1081 (1230)
T KOG0952|consen 1004 VIELTGDVTPDVKAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGED--RGPVLEVIVSRMNYISSQTE 1081 (1230)
T ss_pred eEeccCccCCChhheecCceEEcccccccCccccccchhhhccccceeecccccccCC--CcceEEEEeeccccCccccC
Confidence 3333443322233445789999999998777663 4455789999999999998764 333333332211 12
Q ss_pred ccceeEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeE------EEEcCCchhHHH-HHHHHHhccCCCCEEE
Q 042003 93 PSIVRSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQK------LVFAGSEEGKLL-ALRQSFAESLNPPVLI 165 (248)
Q Consensus 93 ~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~-~l~~~~~~~~~~~~li 165 (248)
...+.+++|.-+. ....+..|+.-.+. + ..+....+...... ..++........ .+..+....+.++++|
T Consensus 1082 ~~vr~~glsta~~-na~dla~wl~~~~~-~-nf~~svrpvp~~~~i~gfp~~~~cprm~smnkpa~qaik~~sp~~p~li 1158 (1230)
T KOG0952|consen 1082 EPVRYLGLSTALA-NANDLADWLNIKDM-Y-NFRPSVRPVPLEVHIDGFPGQHYCPRMMSMNKPAFQAIKTHSPIKPVLI 1158 (1230)
T ss_pred cchhhhhHhhhhh-ccHHHHHHhCCCCc-C-CCCcccccCCceEeecCCCchhcchhhhhcccHHHHHHhcCCCCCceEE
Confidence 3456666654443 36777777655443 1 11111111111111 123333333333 3444444555689999
Q ss_pred EecchHHHHH----HHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC
Q 042003 166 FVQSKERAKE----LYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK 210 (248)
Q Consensus 166 F~~~~~~~~~----l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~ 210 (248)
|+.++++... +...+.....+...++.+ ..+-+.++...++..
T Consensus 1159 fv~srrqtrlta~~li~~~~~~~~p~~fl~~d--e~e~e~~~~~~~d~~ 1205 (1230)
T KOG0952|consen 1159 FVSSRRQTRLTALDLIASCATEDNPKQFLNMD--ELELEIIMSKVRDTN 1205 (1230)
T ss_pred EeecccccccchHhHHhhccCCCCchhccCCC--HHHHHHHHHHhcccc
Confidence 9998775543 333333333344444443 444455555544443
No 179
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=96.52 E-value=0.0051 Score=55.14 Aligned_cols=126 Identities=25% Similarity=0.216 Sum_probs=80.2
Q ss_pred eEEEEeecCchHHHHHHHhcCCcEEEEEcccccccccceeEEEEcCCchhHHHHHHHHHhc-c-CCCCEEEEecchHHHH
Q 042003 97 RSLFSATLPDFVEELARSIMHDAVRVIVGRKNTASESIKQKLVFAGSEEGKLLALRQSFAE-S-LNPPVLIFVQSKERAK 174 (248)
Q Consensus 97 ~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~-~~~~~liF~~~~~~~~ 174 (248)
+.+||+|...+..++..-|..+...+.+ ..+.......-........|..++.+.+.. + .++|+||-+.+++..+
T Consensus 367 l~gmTGTa~te~~EF~~iY~l~vv~iPT---nrp~~R~D~~D~vy~t~~~K~~Aiv~~I~~~~~~gqPvLvgT~sie~SE 443 (822)
T COG0653 367 LAGMTGTADTEEEEFDVIYGLDVVVIPT---NRPIIRLDEPDLVYKTEEEKFKAIVEDIKERHEKGQPVLVGTVSIEKSE 443 (822)
T ss_pred hcCCCCcchhhhhhhhhccCCceeeccC---CCcccCCCCccccccchHHHHHHHHHHHHHHHhcCCCEEEcCcceecch
Confidence 3467777666555555544333333322 222222323322233445666666555543 2 2789999999999999
Q ss_pred HHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC
Q 042003 175 ELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK 227 (248)
Q Consensus 175 ~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip 227 (248)
.+.+.|++.+++..++...-...+-+.+.++-+.| -+-|||+.+++|-||.
T Consensus 444 ~ls~~L~~~~i~h~VLNAk~h~~EA~Iia~AG~~g--aVTiATNMAGRGTDIk 494 (822)
T COG0653 444 LLSKLLRKAGIPHNVLNAKNHAREAEIIAQAGQPG--AVTIATNMAGRGTDIK 494 (822)
T ss_pred hHHHHHHhcCCCceeeccccHHHHHHHHhhcCCCC--ccccccccccCCcccc
Confidence 99999999999998888875544434444433333 3779999999999986
No 180
>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=96.49 E-value=0.0037 Score=49.10 Aligned_cols=73 Identities=14% Similarity=0.188 Sum_probs=48.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchhh-hcccccCCCcEEEeChHHHHHHHhcCCc-------ccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELVR-STDLSKFSCDILISTPLRLRLAIRRKKI-------DLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~v~Tp~~l~~~~~~~~~-------~~~~~~~lIiDEah~ 72 (248)
||..=++++..+.+.+| +.+....++.+ ........++|+.+|...+.--+.+..+ ..+.++++||||+|-
T Consensus 130 LA~RD~~~~~~~y~~LG-lsv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs 208 (266)
T PF07517_consen 130 LAKRDAEEMRPFYEFLG-LSVGIITSDMSSEERREAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDS 208 (266)
T ss_dssp HHHHHHHHHHHHHHHTT---EEEEETTTEHHHHHHHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHH
T ss_pred HhhccHHHHHHHHHHhh-hccccCccccCHHHHHHHHhCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccce
Confidence 45556778888888889 66666666553 2233344689999999887653332211 257899999999996
Q ss_pred cc
Q 042003 73 LF 74 (248)
Q Consensus 73 ~~ 74 (248)
++
T Consensus 209 ~L 210 (266)
T PF07517_consen 209 IL 210 (266)
T ss_dssp HT
T ss_pred EE
Confidence 65
No 181
>PRK10689 transcription-repair coupling factor; Provisional
Probab=96.41 E-value=0.016 Score=54.89 Aligned_cols=75 Identities=17% Similarity=0.257 Sum_probs=63.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-cccCCCCCCCcEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-IARGMDFKGVNCVIN 234 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-~~~Gidip~~~~Vi~ 234 (248)
+.+++|.++|..-|.++++.+++. +.++..++|+.+..++.++++.+.+|..+|+|+|.. +...+++.++.++|.
T Consensus 649 g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL~~~v~~~~L~lLVI 728 (1147)
T PRK10689 649 HKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLLQSDVKWKDLGLLIV 728 (1147)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHHhCCCCHhhCCEEEE
Confidence 678999999999999999888753 467888999999999999999999999999999964 445566777887763
No 182
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=96.30 E-value=0.044 Score=48.08 Aligned_cols=75 Identities=17% Similarity=0.336 Sum_probs=63.7
Q ss_pred CCCEEEEecchHHHHHHHHHh----hcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc-ccCCCCCCCcEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGEL----AFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI-ARGMDFKGVNCVIN 234 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L----~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~-~~Gidip~~~~Vi~ 234 (248)
+.++..-++|.=-|++-++.+ ...|+.+..+.|++....|+++++...+|+++++|+|.++ ...++..+.-+||.
T Consensus 311 G~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V~F~~LgLVIi 390 (677)
T COG1200 311 GYQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKVEFHNLGLVII 390 (677)
T ss_pred CCeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcceeecceeEEEE
Confidence 668999999976666555554 5568999999999999999999999999999999999875 67888888888874
No 183
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=96.15 E-value=0.0045 Score=57.07 Aligned_cols=90 Identities=20% Similarity=0.144 Sum_probs=59.5
Q ss_pred HHHHHHHhhcCCCcEEEEcccchhhhc------ccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCc
Q 042003 5 TTRECKKLAKGNKFQIKLMKKELVRST------DLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGN 78 (248)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~ 78 (248)
|+=.+++|.++++ +..++|...+. ....+..+|+|++...+..-+. .+..++++++|+||||.+-++.
T Consensus 680 WEMElKRwcPglK---ILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~--AFkrkrWqyLvLDEaqnIKnfk- 753 (1958)
T KOG0391|consen 680 WEMELKRWCPGLK---ILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLT--AFKRKRWQYLVLDEAQNIKNFK- 753 (1958)
T ss_pred hhHHHhhhCCcce---EeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHH--HHHhhccceeehhhhhhhcchh-
Confidence 5556778888765 66778877333 2334457999999876655443 3345788999999999987753
Q ss_pred ccccchhHhhhCCCccceeEEEEeec
Q 042003 79 LLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
...+..++.. +..+.++++.|+
T Consensus 754 -sqrWQAllnf---nsqrRLLLtgTP 775 (1958)
T KOG0391|consen 754 -SQRWQALLNF---NSQRRLLLTGTP 775 (1958)
T ss_pred -HHHHHHHhcc---chhheeeecCCc
Confidence 1233444443 234567888885
No 184
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=96.02 E-value=0.018 Score=51.52 Aligned_cols=90 Identities=24% Similarity=0.315 Sum_probs=69.6
Q ss_pred hhHHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcC-CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccc
Q 042003 145 EGKLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFD-GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIA 221 (248)
Q Consensus 145 ~~~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~-~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~ 221 (248)
+.|.+...+.+++. .++.+|+.++.+....++.+.++.. +.+++++|+++++.+|.+......+|+.+|+|+|-.+-
T Consensus 228 SGKTEvYl~~i~~~L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G~~~vVIGtRSAl 307 (730)
T COG1198 228 SGKTEVYLEAIAKVLAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRGEARVVIGTRSAL 307 (730)
T ss_pred CcHHHHHHHHHHHHHHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcCCceEEEEechhh
Confidence 35555555555432 2678999999999888888888654 78999999999999999999999999999999996552
Q ss_pred cCCCCCCCcEEEec
Q 042003 222 RGMDFKGVNCVINY 235 (248)
Q Consensus 222 ~Gidip~~~~Vi~~ 235 (248)
. .=+++...||.-
T Consensus 308 F-~Pf~~LGLIIvD 320 (730)
T COG1198 308 F-LPFKNLGLIIVD 320 (730)
T ss_pred c-CchhhccEEEEe
Confidence 2 345567777643
No 185
>PF14617 CMS1: U3-containing 90S pre-ribosomal complex subunit
Probab=95.87 E-value=0.012 Score=45.82 Aligned_cols=37 Identities=27% Similarity=0.317 Sum_probs=33.4
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEecccc
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~ 72 (248)
...+|.||||+++..++..+.+.++++.+||+|--|.
T Consensus 176 ~~~~i~vGTP~Rl~kLle~~~L~l~~l~~ivlD~s~~ 212 (252)
T PF14617_consen 176 TRVHIAVGTPGRLSKLLENGALSLSNLKRIVLDWSYL 212 (252)
T ss_pred CCceEEEeChHHHHHHHHcCCCCcccCeEEEEcCCcc
Confidence 4689999999999999999999999999999996543
No 186
>PRK14701 reverse gyrase; Provisional
Probab=95.69 E-value=0.057 Score=52.98 Aligned_cols=60 Identities=17% Similarity=0.232 Sum_probs=53.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+.+++|.+||+.-+.++++.++.. +..+..+||+++..++.+.++.+.+|+.+|+|+|+-
T Consensus 122 g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPg 187 (1638)
T PRK14701 122 GKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQ 187 (1638)
T ss_pred CCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCc
Confidence 568999999999999999988762 467789999999999999999999999999999975
No 187
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=95.48 E-value=0.54 Score=41.65 Aligned_cols=93 Identities=16% Similarity=0.282 Sum_probs=61.3
Q ss_pred hhHHHHHHHHHhc---cCCCCEEEEecchHHHHHHHHHhhcCCC-------eeEEEecCCCHHHHHHHHHHhh----cCC
Q 042003 145 EGKLLALRQSFAE---SLNPPVLIFVQSKERAKELYGELAFDGI-------RAGVIHSDLSQTQRENAVDDFR----AGK 210 (248)
Q Consensus 145 ~~~~~~l~~~~~~---~~~~~~liF~~~~~~~~~l~~~L~~~~~-------~v~~~~~~~~~~~r~~~~~~f~----~g~ 210 (248)
+.-++.+...+.. ..++-+++|++|.+.-..+.+.++..|+ +-.+.-..-+ -+++++.|. +|.
T Consensus 611 ~~~l~~l~~~~~nL~~~VPgGvV~FfPSy~yL~~v~k~w~~~gil~ri~~kK~vF~E~k~~---~~dvl~~Ya~a~~~g~ 687 (821)
T KOG1133|consen 611 PEMIKDLGSSISNLSNAVPGGVVCFFPSYAYLGQVRKRWEQNGILARIVGKKKVFYEPKDT---VEDVLEGYAEAAERGR 687 (821)
T ss_pred hHHHHHHHHHHHHHHhhCCCcEEEEeccHHHHHHHHHHHHhcchHHHhhccchhhccCccc---HHHHHHHHHHHhhcCC
Confidence 3344444444432 2268899999999999999999986653 1222222222 344555553 466
Q ss_pred ceEEEEe--cccccCCCCCC--CcEEEeccCCCC
Q 042003 211 TWVLIAT--DVIARGMDFKG--VNCVINYDFPDS 240 (248)
Q Consensus 211 ~~ilv~T--~~~~~Gidip~--~~~Vi~~~~p~~ 240 (248)
..+|++. --+++|||+.| .+.|+..|+|..
T Consensus 688 GaiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyP 721 (821)
T KOG1133|consen 688 GAILLAVVGGKLSEGINFSDDLGRAVVVVGLPYP 721 (821)
T ss_pred CeEEEEEeccccccccccccccccEEEEeecCCC
Confidence 5677555 56899999997 789999999964
No 188
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=95.43 E-value=0.088 Score=49.10 Aligned_cols=75 Identities=19% Similarity=0.295 Sum_probs=64.8
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-ccccCCCCCCCcEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-VIARGMDFKGVNCVIN 234 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-~~~~Gidip~~~~Vi~ 234 (248)
++++.|.++|-=-|++-++.+++ ..+++..++.-.+.++..++++..++|+++|+|+|. .+..++-+.+.-.+|.
T Consensus 643 GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTHrLL~kdv~FkdLGLlII 722 (1139)
T COG1197 643 GKQVAVLVPTTLLAQQHYETFKERFAGFPVRIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTHRLLSKDVKFKDLGLLII 722 (1139)
T ss_pred CCeEEEEcccHHhHHHHHHHHHHHhcCCCeeEEEecccCCHHHHHHHHHHHhcCCccEEEechHhhCCCcEEecCCeEEE
Confidence 67899999998777777777765 467889999999999999999999999999999995 5788888888888774
No 189
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=95.33 E-value=0.15 Score=44.34 Aligned_cols=68 Identities=28% Similarity=0.447 Sum_probs=54.5
Q ss_pred EEEEecchHHHHHHHHHhhcC-----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----cccC-CCCCCCcE
Q 042003 163 VLIFVQSKERAKELYGELAFD-----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----IARG-MDFKGVNC 231 (248)
Q Consensus 163 ~liF~~~~~~~~~l~~~L~~~-----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~~~G-idip~~~~ 231 (248)
+||.++|++-|.++++.++.. +..+..+.||++...+.. .++.| .+|+|+|+. +.+| +|+..+++
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~---~l~~~-~~ivVaTPGRllD~i~~~~l~l~~v~~ 177 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIE---ALKRG-VDIVVATPGRLLDLIKRGKLDLSGVET 177 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHH---HHhcC-CCEEEECccHHHHHHHcCCcchhhcCE
Confidence 999999999999999888653 467899999998776654 44446 899999973 4555 88888888
Q ss_pred EEe
Q 042003 232 VIN 234 (248)
Q Consensus 232 Vi~ 234 (248)
+|.
T Consensus 178 lVl 180 (513)
T COG0513 178 LVL 180 (513)
T ss_pred EEe
Confidence 874
No 190
>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=95.12 E-value=0.027 Score=49.81 Aligned_cols=41 Identities=34% Similarity=0.366 Sum_probs=32.6
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
...++|+|++...|...+..+.-.+...+.+||||||++.+
T Consensus 180 a~~AdivItNHalL~~~~~~~~~iLP~~~~lIiDEAH~L~d 220 (636)
T TIGR03117 180 ARRCRILFCTHAMLGLAFRDKWGLLPQPDILIVDEAHLFEQ 220 (636)
T ss_pred cccCCEEEECHHHHHHHhhhhcCCCCCCCEEEEeCCcchHH
Confidence 35789999999988876655433456789999999999874
No 191
>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=95.11 E-value=0.047 Score=52.04 Aligned_cols=60 Identities=17% Similarity=0.279 Sum_probs=51.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCe---eEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIR---AGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~---v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+.+++|.+||+.-+.++++.++.. +.. +..+||+++..+++...+.+.+|..+|+|+|+.
T Consensus 121 g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~ 187 (1171)
T TIGR01054 121 GKRCYIILPTTLLVIQVAEKISSLAEKAGVGTVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTM 187 (1171)
T ss_pred CCeEEEEeCHHHHHHHHHHHHHHHHHhcCCceeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence 678999999999999999888754 332 346899999999999999999999999999974
No 192
>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=95.06 E-value=0.27 Score=36.91 Aligned_cols=71 Identities=17% Similarity=0.206 Sum_probs=50.5
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----c-ccCCCCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----I-ARGMDFKG 228 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~-~~Gidip~ 228 (248)
.+.+++|.+++...+.+.++.++.. +..+..++|+.+..+.....+ +...|+|+|.. + ..-.++++
T Consensus 68 ~~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~iiv~T~~~l~~~l~~~~~~~~~ 143 (203)
T cd00268 68 DGPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLK----RGPHIVVATPGRLLDLLERGKLDLSK 143 (203)
T ss_pred CCceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCCChhh
Confidence 3568999999999998887766543 678888999988765543332 56689999952 2 22256777
Q ss_pred CcEEE
Q 042003 229 VNCVI 233 (248)
Q Consensus 229 ~~~Vi 233 (248)
++++|
T Consensus 144 l~~lI 148 (203)
T cd00268 144 VKYLV 148 (203)
T ss_pred CCEEE
Confidence 77776
No 193
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=94.98 E-value=0.017 Score=45.81 Aligned_cols=73 Identities=18% Similarity=0.048 Sum_probs=43.5
Q ss_pred CCcEEEeChHHHHHHHhcC-----Ccc-------cCceeEEEEeccccccccCcc-------cccchhHhhhCCCcccee
Q 042003 37 SCDILISTPLRLRLAIRRK-----KID-------LSRVEYLVLDEADKLFEVGNL-------LKHIDPVVKACSNPSIVR 97 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~-----~~~-------~~~~~~lIiDEah~~~~~~~~-------~~~~~~~~~~~~~~~~~~ 97 (248)
.-.|+++|...|...-..+ ++. -+.=++||+||||..-+...- ......+.+. . ++.++
T Consensus 136 ~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~-L-P~ARv 213 (303)
T PF13872_consen 136 KEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNR-L-PNARV 213 (303)
T ss_pred CCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchhcCCCCccCccccHHHHHHHHHHHh-C-CCCcE
Confidence 4579999998887775421 110 012248999999998754310 0122222233 2 45678
Q ss_pred EEEEeecCchHHHH
Q 042003 98 SLFSATLPDFVEEL 111 (248)
Q Consensus 98 i~~SAT~~~~~~~~ 111 (248)
+.+|||-..+.+++
T Consensus 214 vY~SATgasep~Nm 227 (303)
T PF13872_consen 214 VYASATGASEPRNM 227 (303)
T ss_pred EEecccccCCCcee
Confidence 99999976655444
No 194
>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=94.59 E-value=0.17 Score=43.55 Aligned_cols=60 Identities=23% Similarity=0.274 Sum_probs=55.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
++.++|.+|+++-+++..+.|...++.+..++++.+..++..++.....|+.+++++|.-
T Consensus 51 ~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe 110 (470)
T TIGR00614 51 DGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPE 110 (470)
T ss_pred CCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHH
Confidence 568999999999999999999999999999999999999999999999999999999963
No 195
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=94.41 E-value=0.29 Score=43.79 Aligned_cols=70 Identities=13% Similarity=0.236 Sum_probs=51.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC-----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----ccc-cCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD-----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIA-RGMDFKG 228 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~-----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~-~Gidip~ 228 (248)
..++||.+++++-|.++++.+... +..+..++|+.+...+...+ + +...|+|+|. .+. ..+++.+
T Consensus 74 ~~~~LIL~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l---~-~~~~IVVgTPgrl~d~l~r~~l~l~~ 149 (629)
T PRK11634 74 APQILVLAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRAL---R-QGPQIVVGTPGRLLDHLKRGTLDLSK 149 (629)
T ss_pred CCeEEEEeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHh---c-CCCCEEEECHHHHHHHHHcCCcchhh
Confidence 457999999999999998887642 67888999998876544433 2 3468999995 222 3467778
Q ss_pred CcEEE
Q 042003 229 VNCVI 233 (248)
Q Consensus 229 ~~~Vi 233 (248)
+.+||
T Consensus 150 l~~lV 154 (629)
T PRK11634 150 LSGLV 154 (629)
T ss_pred ceEEE
Confidence 88776
No 196
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=94.28 E-value=0.12 Score=46.14 Aligned_cols=83 Identities=19% Similarity=0.187 Sum_probs=68.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC------------------eeEEEecCCCHHHHHHHHHHhhcCC---ceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI------------------RAGVIHSDLSQTQRENAVDDFRAGK---TWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~------------------~v~~~~~~~~~~~r~~~~~~f~~g~---~~ilv~T~ 218 (248)
+.++|||..+......+.+.|.+..+ +-.-+.|..+..+|+..+++|.+.. .-++++|.
T Consensus 719 g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~lsWlfllstr 798 (1387)
T KOG1016|consen 719 GEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPGLSWLFLLSTR 798 (1387)
T ss_pred CceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCCceeeeeehhc
Confidence 55899999999888888888876422 2346688889999999999998643 24789999
Q ss_pred ccccCCCCCCCcEEEeccCCCCcc
Q 042003 219 VIARGMDFKGVNCVINYDFPDSGA 242 (248)
Q Consensus 219 ~~~~Gidip~~~~Vi~~~~p~~~~ 242 (248)
+...|||+=.++-+|.|+..|++.
T Consensus 799 ag~lGinLIsanr~~ifda~wnpc 822 (1387)
T KOG1016|consen 799 AGSLGINLISANRCIIFDACWNPC 822 (1387)
T ss_pred cccccceeeccceEEEEEeecCcc
Confidence 999999999999999999999875
No 197
>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=94.20 E-value=0.026 Score=41.59 Aligned_cols=43 Identities=23% Similarity=0.138 Sum_probs=28.0
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcc--cCceeEEEEecccccccc
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKID--LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~--~~~~~~lIiDEah~~~~~ 76 (248)
....++|+|++..-+.+-...+... ..+-.++||||||.+.+.
T Consensus 116 ~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~~ 160 (174)
T PF06733_consen 116 LAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLEDA 160 (174)
T ss_dssp CGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGGG
T ss_pred hcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHHH
Confidence 4456999999987776554332221 233468999999998764
No 198
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=94.18 E-value=0.32 Score=41.82 Aligned_cols=70 Identities=11% Similarity=0.239 Sum_probs=53.0
Q ss_pred CCEEEEecchHHHHHHHHHhhcC-----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----ccc-cCCCCCCC
Q 042003 161 PPVLIFVQSKERAKELYGELAFD-----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIA-RGMDFKGV 229 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~-----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~-~Gidip~~ 229 (248)
.+++|.++|++-+.++++.++.. +..+..++|+.+...+.+.++ +..+|+|+|. .+. ..+++.++
T Consensus 73 ~~~lil~PtreLa~Q~~~~~~~~~~~~~~~~v~~~~Gg~~~~~~~~~l~----~~~~IvV~Tp~rl~~~l~~~~~~l~~l 148 (460)
T PRK11776 73 VQALVLCPTRELADQVAKEIRRLARFIPNIKVLTLCGGVPMGPQIDSLE----HGAHIIVGTPGRILDHLRKGTLDLDAL 148 (460)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHHhhCCCcEEEEEECCCChHHHHHHhc----CCCCEEEEChHHHHHHHHcCCccHHHC
Confidence 47999999999999999887642 578899999998866554443 4568999994 222 45778888
Q ss_pred cEEEe
Q 042003 230 NCVIN 234 (248)
Q Consensus 230 ~~Vi~ 234 (248)
+++|.
T Consensus 149 ~~lVi 153 (460)
T PRK11776 149 NTLVL 153 (460)
T ss_pred CEEEE
Confidence 88873
No 199
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=94.00 E-value=0.37 Score=41.16 Aligned_cols=71 Identities=17% Similarity=0.235 Sum_probs=58.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-------cccCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-------IARGMDFKG 228 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-------~~~Gidip~ 228 (248)
-.++||.|+|++-+-+++...+.. ++.+...-||++-..++.+++. ..+|+|||+- -+.++|+.+
T Consensus 252 ~TRVLVL~PTRELaiQv~sV~~qlaqFt~I~~~L~vGGL~lk~QE~~LRs----~PDIVIATPGRlIDHlrNs~sf~lds 327 (691)
T KOG0338|consen 252 ATRVLVLVPTRELAIQVHSVTKQLAQFTDITVGLAVGGLDLKAQEAVLRS----RPDIVIATPGRLIDHLRNSPSFNLDS 327 (691)
T ss_pred ceeEEEEeccHHHHHHHHHHHHHHHhhccceeeeeecCccHHHHHHHHhh----CCCEEEecchhHHHHhccCCCccccc
Confidence 458999999999888887666543 6889999999999998888875 6799999974 257888888
Q ss_pred CcEEEe
Q 042003 229 VNCVIN 234 (248)
Q Consensus 229 ~~~Vi~ 234 (248)
+.+.|+
T Consensus 328 iEVLvl 333 (691)
T KOG0338|consen 328 IEVLVL 333 (691)
T ss_pred eeEEEe
Confidence 887764
No 200
>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=93.76 E-value=0.31 Score=43.31 Aligned_cols=60 Identities=15% Similarity=0.192 Sum_probs=54.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
++.++|.+|++.-+++-.+.|+..++.+..+|++++..++..+.+....|..++++.|.-
T Consensus 53 ~g~~lVisPl~sL~~dq~~~l~~~gi~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe 112 (591)
T TIGR01389 53 KGLTVVISPLISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPE 112 (591)
T ss_pred CCcEEEEcCCHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChh
Confidence 467899999999999888999999999999999999999999999999999999988853
No 201
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=93.73 E-value=0.18 Score=43.36 Aligned_cols=53 Identities=19% Similarity=0.304 Sum_probs=47.0
Q ss_pred EEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 163 VLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 163 ~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.+||++|++-|-++.+.|.. -++.+..+.|||...-++++++. ...|+|||+-
T Consensus 266 ~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~----~p~IVVATPG 322 (731)
T KOG0347|consen 266 ALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQ----RPDIVVATPG 322 (731)
T ss_pred eEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhc----CCCEEEecch
Confidence 89999999999999999965 48899999999999888888876 6789999973
No 202
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=93.57 E-value=0.36 Score=41.11 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=52.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~~ 229 (248)
..+++|.+++++-+.++++.++. .+.++..++|+.+...+...+. +..+|+|+|.. ....+++.++
T Consensus 73 ~~~~lil~Pt~eLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l~----~~~~IlV~Tp~rl~~~~~~~~~~~~~v 148 (434)
T PRK11192 73 PPRILILTPTRELAMQVADQARELAKHTHLDIATITGGVAYMNHAEVFS----ENQDIVVATPGRLLQYIKEENFDCRAV 148 (434)
T ss_pred CceEEEECCcHHHHHHHHHHHHHHHccCCcEEEEEECCCCHHHHHHHhc----CCCCEEEEChHHHHHHHHcCCcCcccC
Confidence 35799999999999988776654 4678999999998876655443 45689999962 2355677788
Q ss_pred cEEE
Q 042003 230 NCVI 233 (248)
Q Consensus 230 ~~Vi 233 (248)
++||
T Consensus 149 ~~lV 152 (434)
T PRK11192 149 ETLI 152 (434)
T ss_pred CEEE
Confidence 8776
No 203
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.29 E-value=0.33 Score=42.93 Aligned_cols=69 Identities=16% Similarity=0.265 Sum_probs=51.4
Q ss_pred CCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----cccc--CCCCCCC
Q 042003 161 PPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIAR--GMDFKGV 229 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~~--Gidip~~ 229 (248)
.++||.+++++-+.++++.+... ++.+..++|+.+...+...++ +..+|+|+|. .+.. .+++..+
T Consensus 85 ~raLIl~PTreLa~Qi~~~~~~l~~~~~i~v~~l~Gg~~~~~q~~~l~----~~~dIiV~TP~rL~~~l~~~~~~~l~~v 160 (572)
T PRK04537 85 PRALILAPTRELAIQIHKDAVKFGADLGLRFALVYGGVDYDKQRELLQ----QGVDVIIATPGRLIDYVKQHKVVSLHAC 160 (572)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHHh----CCCCEEEECHHHHHHHHHhccccchhhe
Confidence 58999999999999998877653 678999999998776555443 3568999995 2222 3667777
Q ss_pred cEEE
Q 042003 230 NCVI 233 (248)
Q Consensus 230 ~~Vi 233 (248)
+++|
T Consensus 161 ~~lV 164 (572)
T PRK04537 161 EICV 164 (572)
T ss_pred eeeE
Confidence 7665
No 204
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=92.97 E-value=0.082 Score=42.38 Aligned_cols=40 Identities=20% Similarity=0.185 Sum_probs=28.9
Q ss_pred cCCCcEEEeChHHHHHHHhcCC--cccCceeEEEEeccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRRKK--IDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~--~~~~~~~~lIiDEah~~~~ 75 (248)
...++|+|++..-|.+-..++. ..+ .-.++||||||.+.+
T Consensus 209 ~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d 250 (289)
T smart00488 209 IEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDN 250 (289)
T ss_pred hhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCccChHH
Confidence 3579999999988776553322 223 467999999999864
No 205
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=92.97 E-value=0.082 Score=42.38 Aligned_cols=40 Identities=20% Similarity=0.185 Sum_probs=28.9
Q ss_pred cCCCcEEEeChHHHHHHHhcCC--cccCceeEEEEeccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRRKK--IDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~--~~~~~~~~lIiDEah~~~~ 75 (248)
...++|+|++..-|.+-..++. ..+ .-.++||||||.+.+
T Consensus 209 ~~~Adivi~ny~yll~~~~r~~~~~~l-~~~~lIiDEAHnL~d 250 (289)
T smart00489 209 IEFANVVVLPYQYLLDPKIRQALSIEL-KDSIVIFDEAHNLDN 250 (289)
T ss_pred hhcCCEEEECHHHHhcHHHHHHhcccc-cccEEEEeCccChHH
Confidence 3579999999988776553322 223 467999999999864
No 206
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=92.81 E-value=0.24 Score=42.10 Aligned_cols=72 Identities=15% Similarity=0.197 Sum_probs=50.6
Q ss_pred chHHHHHHHhhcCCCcEEEEcccchhhhccc-ccCCCcEEEeChHHHHHHHhcCCcc-------------cCc--eeEEE
Q 042003 3 TQTTRECKKLAKGNKFQIKLMKKELVRSTDL-SKFSCDILISTPLRLRLAIRRKKID-------------LSR--VEYLV 66 (248)
Q Consensus 3 ~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~v~Tp~~l~~~~~~~~~~-------------~~~--~~~lI 66 (248)
.|+.+.+.++.. |..++..++|.....+. .-.++|++.+|...+.+.++....- +-+ +--+|
T Consensus 244 mQW~nEI~~~T~--gslkv~~YhG~~R~~nikel~~YDvVLTty~vvEs~yRk~~~GfrrKngv~ke~SlLHsi~~~RiI 321 (791)
T KOG1002|consen 244 MQWKNEIERHTS--GSLKVYIYHGAKRDKNIKELMNYDVVLTTYAVVESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRII 321 (791)
T ss_pred HHHHHHHHHhcc--CceEEEEEecccccCCHHHhhcCcEEEEecHHHHHHHHhccccccccCCcccccchhhhceeeeee
Confidence 588888888887 44788888887733333 2347999999999888888653211 222 34599
Q ss_pred Eecccccccc
Q 042003 67 LDEADKLFEV 76 (248)
Q Consensus 67 iDEah~~~~~ 76 (248)
+||||-+-+.
T Consensus 322 lDEAH~IK~R 331 (791)
T KOG1002|consen 322 LDEAHNIKDR 331 (791)
T ss_pred hhhhcccccc
Confidence 9999998653
No 207
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=92.71 E-value=0.68 Score=39.33 Aligned_cols=71 Identities=15% Similarity=0.259 Sum_probs=51.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----c-ccCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----I-ARGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~-~~Gidip~~ 229 (248)
+.+++|.+++++-|.++++.+.. .+.++..++|+.+.......+ . +..+|+|+|.. + ...+++.++
T Consensus 83 ~~~~lil~PtreLa~Qi~~~~~~l~~~~~~~v~~~~gg~~~~~~~~~l---~-~~~~IlV~TP~~l~~~l~~~~~~l~~v 158 (423)
T PRK04837 83 QPRALIMAPTRELAVQIHADAEPLAQATGLKLGLAYGGDGYDKQLKVL---E-SGVDILIGTTGRLIDYAKQNHINLGAI 158 (423)
T ss_pred CceEEEECCcHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHh---c-CCCCEEEECHHHHHHHHHcCCcccccc
Confidence 35799999999999998776643 378899999998765544433 2 35689999972 1 245677788
Q ss_pred cEEEe
Q 042003 230 NCVIN 234 (248)
Q Consensus 230 ~~Vi~ 234 (248)
.++|.
T Consensus 159 ~~lVi 163 (423)
T PRK04837 159 QVVVL 163 (423)
T ss_pred cEEEE
Confidence 87773
No 208
>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=92.70 E-value=0.11 Score=48.08 Aligned_cols=42 Identities=21% Similarity=0.210 Sum_probs=31.9
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
....++|+|+.-.-|.+.+......+...+++||||||++.+
T Consensus 413 ~a~~AdivItNHa~L~~~~~~~~~ilp~~~~lIiDEAH~L~d 454 (850)
T TIGR01407 413 NAEQAQILITNHAYLITRLVDNPELFPSFRDLIIDEAHHLPD 454 (850)
T ss_pred HHhcCCEEEecHHHHHHHhhcccccCCCCCEEEEECcchHHH
Confidence 345799999999888777654433345668999999999974
No 209
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=92.66 E-value=0.65 Score=39.89 Aligned_cols=70 Identities=20% Similarity=0.199 Sum_probs=51.9
Q ss_pred CCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCCCc
Q 042003 161 PPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKGVN 230 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~~~ 230 (248)
.++||.+++++-|.++++.++.. +..+..++|+.+.......+ .+..+|+|||.- ....+++..++
T Consensus 76 ~~aLil~PtreLa~Qi~~~~~~~~~~~~~~~~~~~gg~~~~~~~~~l----~~~~~IiV~TP~rL~~~~~~~~~~l~~v~ 151 (456)
T PRK10590 76 VRALILTPTRELAAQIGENVRDYSKYLNIRSLVVFGGVSINPQMMKL----RGGVDVLVATPGRLLDLEHQNAVKLDQVE 151 (456)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHHhccCCCEEEEEECCcCHHHHHHHH----cCCCcEEEEChHHHHHHHHcCCcccccce
Confidence 36999999999999998887653 56788889998876543322 356789999952 24556788888
Q ss_pred EEEe
Q 042003 231 CVIN 234 (248)
Q Consensus 231 ~Vi~ 234 (248)
++|.
T Consensus 152 ~lVi 155 (456)
T PRK10590 152 ILVL 155 (456)
T ss_pred EEEe
Confidence 7763
No 210
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=92.45 E-value=0.14 Score=39.80 Aligned_cols=67 Identities=18% Similarity=0.295 Sum_probs=52.1
Q ss_pred HHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC----ceEEEEecccccCCCCCCCcEEEeccCCCCcccceec
Q 042003 175 ELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK----TWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 175 ~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~----~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~qr 247 (248)
.+.+.+.. ++.+.+++++.+... -.+.++. ..|+|+=+.+++|+.++++.+......|...++++||
T Consensus 102 ~l~~~~~~-~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~LsRGlTleGL~vsYf~R~s~~~DTL~Qm 172 (239)
T PF10593_consen 102 ELPKAISD-GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNKLSRGLTLEGLTVSYFLRNSKQYDTLMQM 172 (239)
T ss_pred HHHHHHhc-CceEEEEeCCCcccc-----ccccccccCCceEEEECCccccCceeECCcEEEEecCCCchHHHHHHH
Confidence 44444444 689999997765543 3333333 7899999999999999999999999999999999887
No 211
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=92.37 E-value=0.01 Score=52.71 Aligned_cols=83 Identities=17% Similarity=0.116 Sum_probs=73.7
Q ss_pred CEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCc-e-EEEEecccccCCCCCCCcEEEeccCCC
Q 042003 162 PVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKT-W-VLIATDVIARGMDFKGVNCVINYDFPD 239 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~-~-ilv~T~~~~~Gidip~~~~Vi~~~~p~ 239 (248)
+++||+.-..-+.-+.-.|...++....+.|.|+...|...+..|..+.. . .+++..+...|+|+..+++|+..|+-|
T Consensus 541 kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~~~~~~vll~Slkag~~glnlt~a~~v~~~d~~w 620 (674)
T KOG1001|consen 541 KIVIFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPCDPLVTALLMSLKAGKVGLNLTAASHVLLMDPWW 620 (674)
T ss_pred ceeeehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhcccccCccHHHHHHHHHHhhhhhchhhhhHHHhhchhc
Confidence 99999999999999998898889999999999999999999999996543 3 457789999999999999999999999
Q ss_pred Ccccc
Q 042003 240 SGAAY 244 (248)
Q Consensus 240 ~~~~~ 244 (248)
|+..-
T Consensus 621 np~~e 625 (674)
T KOG1001|consen 621 NPAVE 625 (674)
T ss_pred ChHHH
Confidence 98643
No 212
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=92.32 E-value=0.039 Score=53.20 Aligned_cols=85 Identities=22% Similarity=0.280 Sum_probs=65.4
Q ss_pred EEEEecchHHHHHHHHHhhcC-CCeeEEEecCCCH-----------HHHHHHHHHhhcCCceEEEEecccccCCCCCCCc
Q 042003 163 VLIFVQSKERAKELYGELAFD-GIRAGVIHSDLSQ-----------TQRENAVDDFRAGKTWVLIATDVIARGMDFKGVN 230 (248)
Q Consensus 163 ~liF~~~~~~~~~l~~~L~~~-~~~v~~~~~~~~~-----------~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~ 230 (248)
.++|++.+..+....+.++.. ...+..+.|.+.+ ..+.+++..|.....++|++|.++.+|+|+|.++
T Consensus 295 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~k~~~~~~~~~~~~vl~~~~~~~ln~L~~~~~~~e~~d~~~~~ 374 (1606)
T KOG0701|consen 295 GIIFVDQRYTAYVLLELLREIFSNDPLFVTGASGANLWKSFKNELELRQAEVLRRFHFHELNLLIATSVLEEGVDVPKCN 374 (1606)
T ss_pred heeecccchHHHHHHHHHHHhhccCcceeeccccCccchhhHHHHHhhhHHHHHHHhhhhhhHHHHHHHHHhhcchhhhh
Confidence 677887777777777666543 1233335554321 2257789999999999999999999999999999
Q ss_pred EEEeccCCCCcccceec
Q 042003 231 CVINYDFPDSGAAYIHR 247 (248)
Q Consensus 231 ~Vi~~~~p~~~~~~~qr 247 (248)
.++.++.|.....|+|+
T Consensus 375 ~~~~~~~~~~~~~~vq~ 391 (1606)
T KOG0701|consen 375 LVVLFDAPTYYRSYVQK 391 (1606)
T ss_pred hheeccCcchHHHHHHh
Confidence 99999999999888875
No 213
>PRK09401 reverse gyrase; Reviewed
Probab=92.05 E-value=0.59 Score=44.88 Aligned_cols=74 Identities=16% Similarity=0.280 Sum_probs=54.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEE--ecCCCHHHHHHHHHHhhcCCceEEEEeccc-c---cCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVI--HSDLSQTQRENAVDDFRAGKTWVLIATDVI-A---RGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~--~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~-~---~Gidip~~ 229 (248)
+.+++|.+||+.-+.++++.++.. +..+..+ +++++..++.+..+.+.+|..+|+|+|.-. . ..+....+
T Consensus 123 g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~~l~~~~~ 202 (1176)
T PRK09401 123 GKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKILYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFDELPKKKF 202 (1176)
T ss_pred CCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEEEEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHHhcccccc
Confidence 679999999999999999998765 3344444 455667788888899999999999999521 1 13444446
Q ss_pred cEEE
Q 042003 230 NCVI 233 (248)
Q Consensus 230 ~~Vi 233 (248)
+++|
T Consensus 203 ~~lV 206 (1176)
T PRK09401 203 DFVF 206 (1176)
T ss_pred CEEE
Confidence 6655
No 214
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=91.92 E-value=1.2 Score=36.92 Aligned_cols=83 Identities=17% Similarity=0.242 Sum_probs=59.7
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc--
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI-- 220 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~-- 220 (248)
.+..+..++.+...-.++|.+++++-|.++++.++.. |..+..+=||++..... ...+ .+..|||||.-.
T Consensus 116 aLPIl~~LL~~p~~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~--~~L~--kkPhilVaTPGrL~ 191 (476)
T KOG0330|consen 116 ALPILQRLLQEPKLFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQA--NQLS--KKPHILVATPGRLW 191 (476)
T ss_pred HHHHHHHHHcCCCCceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHH--HHhh--cCCCEEEeCcHHHH
Confidence 4455666666554567999999999999999888765 66888999998865432 3332 356789999742
Q ss_pred -----ccCCCCCCCcEEE
Q 042003 221 -----ARGMDFKGVNCVI 233 (248)
Q Consensus 221 -----~~Gidip~~~~Vi 233 (248)
..|+++..+++.|
T Consensus 192 dhl~~Tkgf~le~lk~LV 209 (476)
T KOG0330|consen 192 DHLENTKGFSLEQLKFLV 209 (476)
T ss_pred HHHHhccCccHHHhHHHh
Confidence 4677777766654
No 215
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=91.47 E-value=0.96 Score=40.43 Aligned_cols=59 Identities=17% Similarity=0.234 Sum_probs=53.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
.+.++|.++++.-+.+..+.|+..++.+..++++.+.+++..+.+...+|+.+++++|+
T Consensus 65 ~g~tlVisPl~sL~~dqv~~l~~~gi~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tP 123 (607)
T PRK11057 65 DGLTLVVSPLISLMKDQVDQLLANGVAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAP 123 (607)
T ss_pred CCCEEEEecHHHHHHHHHHHHHHcCCcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEECh
Confidence 46899999999999999999999999999999999999999999999999999998884
No 216
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=91.01 E-value=1.4 Score=38.08 Aligned_cols=70 Identities=16% Similarity=0.182 Sum_probs=51.4
Q ss_pred CCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc------ccCCCCCCCc
Q 042003 161 PPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI------ARGMDFKGVN 230 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~------~~Gidip~~~ 230 (248)
.++||.+++++-+.++++.++.. +..+..++|+.+..... +.+..+..+|+|+|.-. ...+.+..++
T Consensus 163 ~~aLil~PtreLa~Q~~~~~~~l~~~~~~~v~~~~gg~~~~~~~---~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~ 239 (475)
T PRK01297 163 PRALIIAPTRELVVQIAKDAAALTKYTGLNVMTFVGGMDFDKQL---KQLEARFCDILVATPGRLLDFNQRGEVHLDMVE 239 (475)
T ss_pred ceEEEEeCcHHHHHHHHHHHHHhhccCCCEEEEEEccCChHHHH---HHHhCCCCCEEEECHHHHHHHHHcCCcccccCc
Confidence 57999999999999988877643 67888999987765433 34556778999999632 2345666777
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
+||
T Consensus 240 ~lV 242 (475)
T PRK01297 240 VMV 242 (475)
T ss_pred eEE
Confidence 766
No 217
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=91.00 E-value=0.26 Score=46.23 Aligned_cols=41 Identities=22% Similarity=0.244 Sum_probs=32.0
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
...++|+|+.-.-|...+..+...+...+++||||||++.+
T Consensus 429 a~~AdivItNHalLl~dl~~~~~ilp~~~~lViDEAH~l~d 469 (928)
T PRK08074 429 AKFADLVITNHALLLTDLTSEEPLLPSYEHIIIDEAHHFEE 469 (928)
T ss_pred HhcCCEEEECHHHHHHHHhhhcccCCCCCeEEEECCchHHH
Confidence 35789999999888777644433456789999999999874
No 218
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=90.82 E-value=1.9 Score=38.99 Aligned_cols=75 Identities=17% Similarity=0.105 Sum_probs=54.6
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcC--CceEEEEecccc
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAG--KTWVLIATDVIA 221 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g--~~~ilv~T~~~~ 221 (248)
+.+..+..+.+...+++-+|.|++ .+.+.+-..+++- ..+|..+||+ +.+|+++...+.++ ..+||++|--+.
T Consensus 434 QvIaFlayLkq~g~~gpHLVVvPs-STleNWlrEf~kwCPsl~Ve~YyGS--q~ER~~lR~~i~~~~~~ydVllTTY~la 510 (941)
T KOG0389|consen 434 QVIAFLAYLKQIGNPGPHLVVVPS-STLENWLREFAKWCPSLKVEPYYGS--QDERRELRERIKKNKDDYDVLLTTYNLA 510 (941)
T ss_pred HHHHHHHHHHHcCCCCCcEEEecc-hhHHHHHHHHHHhCCceEEEeccCc--HHHHHHHHHHHhccCCCccEEEEEeecc
Confidence 344555555666667899999998 4455555555554 4578899997 68999999999887 678999996655
Q ss_pred cC
Q 042003 222 RG 223 (248)
Q Consensus 222 ~G 223 (248)
.|
T Consensus 511 ~~ 512 (941)
T KOG0389|consen 511 AS 512 (941)
T ss_pred cC
Confidence 43
No 219
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=90.70 E-value=1.3 Score=42.08 Aligned_cols=60 Identities=12% Similarity=0.095 Sum_probs=52.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc--CCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA--GKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~--g~~~ilv~T~~ 219 (248)
++.+||.+++++-++.-...|...++++..+.|+++..++.++++.+.. |+.++|++|.-
T Consensus 500 ~GiTLVISPLiSLmqDQV~~L~~~GI~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPE 561 (1195)
T PLN03137 500 PGITLVISPLVSLIQDQIMNLLQANIPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPE 561 (1195)
T ss_pred CCcEEEEeCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChH
Confidence 4679999999999986666677789999999999999999999998877 88999999973
No 220
>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=90.49 E-value=1.5 Score=39.83 Aligned_cols=59 Identities=17% Similarity=0.114 Sum_probs=47.5
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+....+.++.|.++|..-|.+.++.+.. .|.+++.+.|+++.++|...+. .+|+++|+.
T Consensus 92 l~aL~G~~V~VvTpt~~LA~qdae~~~~l~~~LGLsv~~i~g~~~~~~r~~~y~------~dIvyGT~~ 154 (745)
T TIGR00963 92 LNALTGKGVHVVTVNDYLAQRDAEWMGQVYRFLGLSVGLILSGMSPEERREAYA------CDITYGTNN 154 (745)
T ss_pred HHHHhCCCEEEEcCCHHHHHHHHHHHHHHhccCCCeEEEEeCCCCHHHHHHhcC------CCEEEECCC
Confidence 4444577899999999888888776654 5889999999999888776653 689999987
No 221
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.28 E-value=0.32 Score=44.91 Aligned_cols=40 Identities=30% Similarity=0.418 Sum_probs=31.1
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
...++|+|+.-.-|.+.+..+. .+...+.+||||||++.+
T Consensus 411 a~~AdivItNHall~~~~~~~~-~~p~~~~lIiDEAH~l~~ 450 (820)
T PRK07246 411 AKTARLLITNHAYFLTRVQDDK-DFARNKVLVFDEAQKLML 450 (820)
T ss_pred HHhCCEEEEchHHHHHHHhhcc-CCCCCCEEEEECcchhHH
Confidence 3468999999887777664443 257789999999999874
No 222
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=90.21 E-value=0.32 Score=44.12 Aligned_cols=42 Identities=19% Similarity=0.173 Sum_probs=30.1
Q ss_pred cCCCcEEEeChHHHHHHHhc-CCcccC--ceeEEEEecccccccc
Q 042003 35 KFSCDILISTPLRLRLAIRR-KKIDLS--RVEYLVLDEADKLFEV 76 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~-~~~~~~--~~~~lIiDEah~~~~~ 76 (248)
...++|+|+.-.-|...+.. +...+. ..+++||||||++.+.
T Consensus 217 a~~AdivVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d~ 261 (697)
T PRK11747 217 IDEADVVVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPDV 261 (697)
T ss_pred HhhCCEEEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHHH
Confidence 35789999998877766643 222233 4778999999999753
No 223
>PRK08727 hypothetical protein; Validated
Probab=90.14 E-value=0.23 Score=38.51 Aligned_cols=71 Identities=10% Similarity=-0.033 Sum_probs=38.4
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..+++.+.+.+...+......+.+.+++|+||+|.+..+......+..+.........++|+.|...|.
T Consensus 68 ~~~~~~y~~~~~~~~~~~~~~~~l~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~ 138 (233)
T PRK08727 68 AGRSSAYLPLQAAAGRLRDALEALEGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPD 138 (233)
T ss_pred cCCcEEEEeHHHhhhhHHHHHHHHhcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChh
Confidence 45677777765554433322223567789999999988754322233334443322233445555544443
No 224
>PTZ00110 helicase; Provisional
Probab=90.10 E-value=1.2 Score=39.25 Aligned_cols=69 Identities=20% Similarity=0.290 Sum_probs=49.3
Q ss_pred CCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----ccccC-CCCCCCc
Q 042003 161 PPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIARG-MDFKGVN 230 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~~G-idip~~~ 230 (248)
..+||.++|++-|.++++.+++. +..+..++|+.+....... +.+ ..+|+|+|. .+..+ .++..++
T Consensus 204 p~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~~gg~~~~~q~~~---l~~-~~~IlVaTPgrL~d~l~~~~~~l~~v~ 279 (545)
T PTZ00110 204 PIVLVLAPTRELAEQIREQCNKFGASSKIRNTVAYGGVPKRGQIYA---LRR-GVEILIACPGRLIDFLESNVTNLRRVT 279 (545)
T ss_pred cEEEEECChHHHHHHHHHHHHHHhcccCccEEEEeCCCCHHHHHHH---HHc-CCCEEEECHHHHHHHHHcCCCChhhCc
Confidence 46899999999999998888764 4577788888876554333 333 368999996 33333 5677788
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
++|
T Consensus 280 ~lV 282 (545)
T PTZ00110 280 YLV 282 (545)
T ss_pred EEE
Confidence 776
No 225
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=90.05 E-value=0.48 Score=30.45 Aligned_cols=36 Identities=8% Similarity=0.173 Sum_probs=31.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
++++++||++-..+...+..|+..|+.+..+.||+.
T Consensus 51 ~~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~ 86 (90)
T cd01524 51 DKEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK 86 (90)
T ss_pred CCcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence 578999999877888889999999988999999874
No 226
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.00 E-value=2 Score=36.92 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=51.2
Q ss_pred CEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc--c----ccCCCCCCCcE
Q 042003 162 PVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV--I----ARGMDFKGVNC 231 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~--~----~~Gidip~~~~ 231 (248)
-.+|.|+|++-|.+++..-++ .|+.+..+|||++..++..-++ . ...|+|||.- + -.+.|+..+++
T Consensus 298 i~vilvPTrela~Qi~~eaKkf~K~ygl~~v~~ygGgsk~eQ~k~Lk---~-g~EivVaTPgRlid~VkmKatn~~rvS~ 373 (731)
T KOG0339|consen 298 IGVILVPTRELASQIFSEAKKFGKAYGLRVVAVYGGGSKWEQSKELK---E-GAEIVVATPGRLIDMVKMKATNLSRVSY 373 (731)
T ss_pred eEEEEeccHHHHHHHHHHHHHhhhhccceEEEeecCCcHHHHHHhhh---c-CCeEEEechHHHHHHHHhhcccceeeeE
Confidence 466788999999887655443 4788889999999877665555 3 4579999972 2 36888888887
Q ss_pred EEe
Q 042003 232 VIN 234 (248)
Q Consensus 232 Vi~ 234 (248)
.++
T Consensus 374 LV~ 376 (731)
T KOG0339|consen 374 LVL 376 (731)
T ss_pred EEE
Confidence 764
No 227
>PRK06893 DNA replication initiation factor; Validated
Probab=89.68 E-value=0.24 Score=38.25 Aligned_cols=70 Identities=10% Similarity=0.006 Sum_probs=37.9
Q ss_pred CCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 37 SCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
+..+.+.+..........-...+.+.+++++||+|.+.....+...+..+.........+++++|++.++
T Consensus 67 ~~~~~y~~~~~~~~~~~~~~~~~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p 136 (229)
T PRK06893 67 QRTAIYIPLSKSQYFSPAVLENLEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSP 136 (229)
T ss_pred CCCeEEeeHHHhhhhhHHHHhhcccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCCh
Confidence 4566666654322221111113467889999999987643323334444444433334456677777655
No 228
>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=89.43 E-value=3 Score=29.97 Aligned_cols=71 Identities=15% Similarity=0.283 Sum_probs=50.3
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHH-HHHHHHHHhhcCCceEEEEeccc------ccCCCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQT-QRENAVDDFRAGKTWVLIATDVI------ARGMDFK 227 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~-~r~~~~~~f~~g~~~ilv~T~~~------~~Gidip 227 (248)
...++++.++++..+++.++.+... +..+..++++.+.. +....+ .++.+|+|+|... ...+++.
T Consensus 43 ~~~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ilv~T~~~l~~~~~~~~~~~~ 118 (169)
T PF00270_consen 43 KDARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVL----SNQADILVTTPEQLLDLISNGKINIS 118 (169)
T ss_dssp SSSEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHH----HTTSSEEEEEHHHHHHHHHTTSSTGT
T ss_pred CCceEEEEeecccccccccccccccccccccccccccccccccccccccc----cccccccccCcchhhccccccccccc
Confidence 3459999999999999888888654 45788889988854 333333 6678899999631 2234666
Q ss_pred CCcEEE
Q 042003 228 GVNCVI 233 (248)
Q Consensus 228 ~~~~Vi 233 (248)
.+++||
T Consensus 119 ~~~~iV 124 (169)
T PF00270_consen 119 RLSLIV 124 (169)
T ss_dssp TESEEE
T ss_pred cceeec
Confidence 777666
No 229
>PF13871 Helicase_C_4: Helicase_C-like
Probab=88.99 E-value=0.34 Score=38.39 Aligned_cols=47 Identities=21% Similarity=0.290 Sum_probs=39.8
Q ss_pred HHHHHhhcCCceEEEEecccccCCCCCCC--------cEEEeccCCCCcccceec
Q 042003 201 NAVDDFRAGKTWVLIATDVIARGMDFKGV--------NCVINYDFPDSGAAYIHR 247 (248)
Q Consensus 201 ~~~~~f~~g~~~ilv~T~~~~~Gidip~~--------~~Vi~~~~p~~~~~~~qr 247 (248)
...+.|.+|+.+|+|.|++.+.|+.+.+- ++-|.+.+|||.+..+|.
T Consensus 52 ~e~~~F~~g~k~v~iis~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~ 106 (278)
T PF13871_consen 52 AEKQAFMDGEKDVAIISDAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQ 106 (278)
T ss_pred HHHHHHhCCCceEEEEecccccccchhccccCCCCCceEEEEeeCCCCHHHHHHH
Confidence 45678999999999999999999988742 466889999999988874
No 230
>PRK08084 DNA replication initiation factor; Provisional
Probab=88.63 E-value=0.39 Score=37.24 Aligned_cols=69 Identities=6% Similarity=-0.049 Sum_probs=35.5
Q ss_pred CCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCc-cceeEEEEeecCc
Q 042003 37 SCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNP-SIVRSLFSATLPD 106 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~-~~~~i~~SAT~~~ 106 (248)
+..+.+.+.+........-.-.+.+.+++++||+|.+.........+..++...... ..++ ++|++.++
T Consensus 73 ~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~l-i~ts~~~p 142 (235)
T PRK08084 73 GRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRL-LITGDRPP 142 (235)
T ss_pred CCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeE-EEeCCCCh
Confidence 556777666543322211111234568999999999864432334444444443222 2344 44555544
No 231
>PRK05642 DNA replication initiation factor; Validated
Probab=88.49 E-value=0.29 Score=37.96 Aligned_cols=70 Identities=11% Similarity=-0.004 Sum_probs=41.9
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..+++.+.+.+......-.-.+.+.+++++|++|.+.....+...+..+...+.....+ ++++++.++
T Consensus 72 ~~~~v~y~~~~~~~~~~~~~~~~~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~-ilits~~~p 141 (234)
T PRK05642 72 RGEPAVYLPLAELLDRGPELLDNLEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRR-LLLAASKSP 141 (234)
T ss_pred CCCcEEEeeHHHHHhhhHHHHHhhhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCE-EEEeCCCCH
Confidence 3578888888777654321111356678999999998764432444566666554334444 555565444
No 232
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=88.47 E-value=3.8 Score=35.59 Aligned_cols=71 Identities=17% Similarity=0.223 Sum_probs=52.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----cc-cCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----IA-RGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~~-~Gidip~~ 229 (248)
+..+||.++|++-|.++.+...+. +.+...+.|+.+...+..-++ + ..+|+|+|.- ++ --+|+..+
T Consensus 165 ~P~vLVL~PTRELA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~---~-gvdiviaTPGRl~d~le~g~~~l~~v 240 (519)
T KOG0331|consen 165 GPIVLVLAPTRELAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLE---R-GVDVVIATPGRLIDLLEEGSLNLSRV 240 (519)
T ss_pred CCeEEEEcCcHHHHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHh---c-CCcEEEeCChHHHHHHHcCCccccce
Confidence 446999999999999999888765 345788899988765544443 3 4689999973 33 34677788
Q ss_pred cEEEe
Q 042003 230 NCVIN 234 (248)
Q Consensus 230 ~~Vi~ 234 (248)
++++.
T Consensus 241 ~ylVL 245 (519)
T KOG0331|consen 241 TYLVL 245 (519)
T ss_pred eEEEe
Confidence 88873
No 233
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=88.45 E-value=0.82 Score=41.10 Aligned_cols=69 Identities=20% Similarity=0.122 Sum_probs=42.2
Q ss_pred chHHHHHHHhhcCCCcEEEEcccchhhhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 3 TQTTRECKKLAKGNKFQIKLMKKELVRSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 3 ~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
.|+...+.+..+... ..+...+| .....-....++|+++||+.+.. ..+.--.+-.+|+||||.+.+..
T Consensus 202 ~qW~~elek~~~~~~-l~v~v~~g-r~kd~~el~~~dVVltTy~il~~----~~l~~i~w~Riildea~~ikn~~ 270 (674)
T KOG1001|consen 202 TQWKTELEKVTEEDK-LSIYVYHG-RTKDKSELNSYDVVLTTYDILKN----SPLVKIKWLRIVLDEAHTIKNKD 270 (674)
T ss_pred HHHHHHHhccCCccc-eEEEEecc-cccccchhcCCceEEeeHHHhhc----ccccceeEEEEEeccccccCCcc
Confidence 356666644444444 66666666 22222233357899999987764 22222344479999999987754
No 234
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=88.45 E-value=1.1 Score=28.82 Aligned_cols=38 Identities=16% Similarity=0.251 Sum_probs=32.6
Q ss_pred cCCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 158 SLNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 158 ~~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
....++++||.+-..+..++..|+..|+. +..+.||+.
T Consensus 54 ~~~~~iv~~c~~g~~a~~~~~~l~~~G~~~v~~l~GG~~ 92 (100)
T smart00450 54 DKDKPVVVYCRSGNRSAKAAWLLRELGFKNVYLLDGGYK 92 (100)
T ss_pred CCCCeEEEEeCCCcHHHHHHHHHHHcCCCceEEecCCHH
Confidence 33678999999988999999999999886 889999864
No 235
>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=88.35 E-value=0.12 Score=39.71 Aligned_cols=73 Identities=11% Similarity=0.054 Sum_probs=47.4
Q ss_pred CCCcEEEeChHHHHHHHhc----CCc-----ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRR----KKI-----DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~----~~~-----~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..|+..+.+.+.+.+.. +.. .+.+.+++++|++|.+.+.......+-.+...+.....++|+.|...|.
T Consensus 63 ~~~~v~y~~~~~f~~~~~~~~~~~~~~~~~~~~~~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~ 142 (219)
T PF00308_consen 63 PGKRVVYLSAEEFIREFADALRDGEIEEFKDRLRSADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPS 142 (219)
T ss_dssp TTS-EEEEEHHHHHHHHHHHHHTTSHHHHHHHHCTSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TT
T ss_pred ccccceeecHHHHHHHHHHHHHcccchhhhhhhhcCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCc
Confidence 4678999998877655432 221 3678999999999998765434455555555544456677777767665
Q ss_pred hH
Q 042003 107 FV 108 (248)
Q Consensus 107 ~~ 108 (248)
..
T Consensus 143 ~l 144 (219)
T PF00308_consen 143 EL 144 (219)
T ss_dssp TT
T ss_pred cc
Confidence 44
No 236
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=88.31 E-value=1.6 Score=38.41 Aligned_cols=59 Identities=22% Similarity=0.348 Sum_probs=53.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
++-+||..+-..-.+.=.+.|+..|+.+..+++.++.+++..++..+..|..++|.-++
T Consensus 57 ~G~TLVVSPLiSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisP 115 (590)
T COG0514 57 EGLTLVVSPLISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSGQLKLLYISP 115 (590)
T ss_pred CCCEEEECchHHHHHHHHHHHHHcCceeehhhcccCHHHHHHHHHHHhcCceeEEEECc
Confidence 56899999999998888889999999999999999999999999999999999885543
No 237
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=87.69 E-value=4.2 Score=35.90 Aligned_cols=77 Identities=14% Similarity=0.188 Sum_probs=49.2
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCC
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMD 225 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gid 225 (248)
++...+..-+++...+.+.|.|.+..+|.++.+.|+..+ ++......-+.|..|+. |--.....|+.
T Consensus 641 qr~~~ii~~mkk~~~etiaVi~kt~~d~~~~~d~lre~~----------~~r~I~k~nq~f~~~~~---vipvy~aKGlE 707 (747)
T COG3973 641 QRNPDIIPRMKKRGSETIAVICKTDHDCKAVMDSLREKD----------SQRTIAKENQRFHHGSD---VIPVYDAKGLE 707 (747)
T ss_pred HhhHHHHHHHHhcCCCceEEECCcHHHHHHHHHHHhhcc----------hhhHHHhhcccccCCce---EEEeeecccce
Confidence 445555556666656788999999999999999998553 11111222233444442 22234567877
Q ss_pred CCCCcEEEeccCC
Q 042003 226 FKGVNCVINYDFP 238 (248)
Q Consensus 226 ip~~~~Vi~~~~p 238 (248)
.++||.+|+.
T Consensus 708 ---FD~viv~d~s 717 (747)
T COG3973 708 ---FDHVIVVDPS 717 (747)
T ss_pred ---eeeEEEecch
Confidence 5789998885
No 238
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=87.59 E-value=0.27 Score=43.74 Aligned_cols=91 Identities=11% Similarity=0.053 Sum_probs=50.4
Q ss_pred HHHHhhcCCCcEEEEcccchhhhccccc------------CCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 8 ECKKLAKGNKFQIKLMKKELVRSTDLSK------------FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
+.+.+.+.++-.++.-+-|+...+.++. .+.+|+|+|.+.+..--.. +.--++.++|+|||+.+-+
T Consensus 632 WaqEisrFlP~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDeky--~qkvKWQYMILDEAQAIKS 709 (1185)
T KOG0388|consen 632 WAQEISRFLPSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEKY--LQKVKWQYMILDEAQAIKS 709 (1185)
T ss_pred HHHHHHHhCccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHHH--HHhhhhhheehhHHHHhhh
Confidence 3334444444344666666664443332 2579999998766432211 1123567999999999765
Q ss_pred cCcccccchhHhhhCCCccceeEEEEeecC
Q 042003 76 VGNLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
.. ..-++.++.. ...-.+++|+|+-
T Consensus 710 Ss--S~RWKtLLsF---~cRNRLLLTGTPI 734 (1185)
T KOG0388|consen 710 SS--SSRWKTLLSF---KCRNRLLLTGTPI 734 (1185)
T ss_pred hh--hhHHHHHhhh---hccceeeecCCcc
Confidence 43 2223333332 1223578999974
No 239
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=87.27 E-value=0.69 Score=39.54 Aligned_cols=75 Identities=9% Similarity=0.061 Sum_probs=42.3
Q ss_pred CCCcEEEeChHHHHHHHhc----CCc-----ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRR----KKI-----DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~----~~~-----~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..++..+.+.+.+.+.. +.. ..++.+++++||+|.+.........+..++..+.....++++.|.+.|.
T Consensus 168 ~~~~v~yi~~~~f~~~~~~~l~~~~~~~f~~~~~~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~ 247 (445)
T PRK12422 168 SGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQ 247 (445)
T ss_pred cCCCEEEeeHHHHHHHHHHHHhcchHHHHHHHcccCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHH
Confidence 4688999998776544322 111 2567899999999998654322333333433222233455555545454
Q ss_pred hHHH
Q 042003 107 FVEE 110 (248)
Q Consensus 107 ~~~~ 110 (248)
....
T Consensus 248 ~l~~ 251 (445)
T PRK12422 248 DLKA 251 (445)
T ss_pred HHhh
Confidence 4433
No 240
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=87.27 E-value=0.76 Score=30.13 Aligned_cols=36 Identities=11% Similarity=0.139 Sum_probs=31.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
+++++++|.+-..+...+..|+..|+.+..+.||+.
T Consensus 61 ~~~ivv~C~~G~rs~~aa~~L~~~G~~~~~l~GG~~ 96 (100)
T cd01523 61 DQEVTVICAKEGSSQFVAELLAERGYDVDYLAGGMK 96 (100)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHcCceeEEeCCcHH
Confidence 578999999888889999999999999888888874
No 241
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=86.98 E-value=0.6 Score=42.10 Aligned_cols=41 Identities=20% Similarity=0.307 Sum_probs=31.8
Q ss_pred CCCcEEEeChHHHHHHHhcCCcc--cCceeEEEEecccccccc
Q 042003 36 FSCDILISTPLRLRLAIRRKKID--LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~--~~~~~~lIiDEah~~~~~ 76 (248)
..++++|+++..+......+... +..-..+|+||||++.++
T Consensus 193 ~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d~ 235 (654)
T COG1199 193 ENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLPDI 235 (654)
T ss_pred hhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccccchHH
Confidence 46899999999887766554332 346779999999999864
No 242
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=86.86 E-value=3.7 Score=35.27 Aligned_cols=79 Identities=16% Similarity=0.107 Sum_probs=56.3
Q ss_pred HHHhccCCCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec------cccc
Q 042003 153 QSFAESLNPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD------VIAR 222 (248)
Q Consensus 153 ~~~~~~~~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~------~~~~ 222 (248)
..+... ++++|+.+||+=-+.+-++.+++ ..-.+..+.|..++++|+.... +.+|+|+|+ ..+-
T Consensus 52 ~~l~~~-~~kvlfLAPTKPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~-----~~kVfvaTPQvveNDl~~G 125 (542)
T COG1111 52 NRLRWF-GGKVLFLAPTKPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWA-----KKKVFVATPQVVENDLKAG 125 (542)
T ss_pred HHHHhc-CCeEEEecCCchHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHh-----hCCEEEeccHHHHhHHhcC
Confidence 344454 44899999997655555555543 3447889999999999988776 367999995 3344
Q ss_pred CCCCCCCcEEEeccC
Q 042003 223 GMDFKGVNCVINYDF 237 (248)
Q Consensus 223 Gidip~~~~Vi~~~~ 237 (248)
-+|+.++.++|.=..
T Consensus 126 rid~~dv~~lifDEA 140 (542)
T COG1111 126 RIDLDDVSLLIFDEA 140 (542)
T ss_pred ccChHHceEEEechh
Confidence 589989998886443
No 243
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=86.74 E-value=1.3 Score=28.67 Aligned_cols=37 Identities=14% Similarity=-0.002 Sum_probs=31.2
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
.++++++||++-..+...+..|+..|+ ++..+.|++.
T Consensus 55 ~~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~GG~~ 92 (96)
T cd01529 55 RATRYVLTCDGSLLARFAAQELLALGGKPVALLDGGTS 92 (96)
T ss_pred CCCCEEEEeCChHHHHHHHHHHHHcCCCCEEEeCCCHH
Confidence 367899999998888888889988888 6888899874
No 244
>PF05707 Zot: Zonular occludens toxin (Zot); InterPro: IPR008900 This entry consists of bacterial and viral proteins which are very similar to the Zonular occludens toxin (Zot). Zot is elaborated by bacteriophage present in toxigenic strains of Vibrio cholerae. Zot is a single polypeptide chain of 44.8 kDa, with the ability to reversibly alter intestinal epithelial tight junctions, allowing the passage of macromolecules through mucosal barriers.; PDB: 2R2A_B.
Probab=86.52 E-value=0.94 Score=33.92 Aligned_cols=55 Identities=15% Similarity=0.239 Sum_probs=30.1
Q ss_pred ceeEEEEeccccccccCccc----ccchhHhhhCCCccceeEEEEeecCchHHHHHHHhc
Q 042003 61 RVEYLVLDEADKLFEVGNLL----KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSIM 116 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~~~~----~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~ 116 (248)
.=.++|+||||......... ...-..+.........++++|=.+.. +...++.+.
T Consensus 79 ~~~liviDEa~~~~~~r~~~~~~~~~~~~~l~~hRh~g~diiliTQ~~~~-id~~ir~lv 137 (193)
T PF05707_consen 79 KGSLIVIDEAQNFFPSRSWKGKKVPEIIEFLAQHRHYGWDIILITQSPSQ-IDKFIRDLV 137 (193)
T ss_dssp TT-EEEETTGGGTSB---T-T----HHHHGGGGCCCTT-EEEEEES-GGG-B-HHHHCCE
T ss_pred CCcEEEEECChhhcCCCccccccchHHHHHHHHhCcCCcEEEEEeCCHHH-HhHHHHHHH
Confidence 44699999999987654332 12224555556667788888777654 555555443
No 245
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=86.26 E-value=4.4 Score=36.42 Aligned_cols=71 Identities=17% Similarity=0.118 Sum_probs=52.9
Q ss_pred hccCCCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 156 AESLNPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 156 ~~~~~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
....+..++|.++|..-|.+.++.+.. .|.++..+.|+++.++|+... ..+|+++|+. +.|+|.=.-++
T Consensus 140 ~al~G~~v~VvTptreLA~qdae~~~~l~~~lGlsv~~i~gg~~~~~r~~~y------~~dIvygT~~-e~~FDyLrd~~ 212 (656)
T PRK12898 140 AALAGLPVHVITVNDYLAERDAELMRPLYEALGLTVGCVVEDQSPDERRAAY------GADITYCTNK-ELVFDYLRDRL 212 (656)
T ss_pred HhhcCCeEEEEcCcHHHHHHHHHHHHHHHhhcCCEEEEEeCCCCHHHHHHHc------CCCEEEECCC-chhhhhccccc
Confidence 334467999999999999888777754 588999999999987666543 3589999975 46777655554
Q ss_pred EE
Q 042003 232 VI 233 (248)
Q Consensus 232 Vi 233 (248)
+.
T Consensus 213 ~~ 214 (656)
T PRK12898 213 AL 214 (656)
T ss_pred cc
Confidence 43
No 246
>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=85.75 E-value=3.4 Score=37.98 Aligned_cols=69 Identities=16% Similarity=0.266 Sum_probs=50.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC---CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-ccccCC---------CC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD---GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-VIARGM---------DF 226 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~---~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-~~~~Gi---------di 226 (248)
+.++|+.+++++-+.+.++.+++. ++++..++|+.+.++|..+. + +.+|+|+|. .+..++ .+
T Consensus 81 ~~~aL~l~PtraLa~q~~~~l~~l~~~~i~v~~~~Gdt~~~~r~~i~----~-~~~IivtTPd~L~~~~L~~~~~~~~~l 155 (742)
T TIGR03817 81 RATALYLAPTKALAADQLRAVRELTLRGVRPATYDGDTPTEERRWAR----E-HARYVLTNPDMLHRGILPSHARWARFL 155 (742)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHhccCCeEEEEEeCCCCHHHHHHHh----c-CCCEEEEChHHHHHhhccchhHHHHHH
Confidence 468999999999999999888765 57888999999987764332 2 368999995 332221 14
Q ss_pred CCCcEEE
Q 042003 227 KGVNCVI 233 (248)
Q Consensus 227 p~~~~Vi 233 (248)
.++++||
T Consensus 156 ~~l~~vV 162 (742)
T TIGR03817 156 RRLRYVV 162 (742)
T ss_pred hcCCEEE
Confidence 5677776
No 247
>KOG3089 consensus Predicted DEAD-box-containing helicase [General function prediction only]
Probab=85.65 E-value=1.2 Score=33.77 Aligned_cols=33 Identities=24% Similarity=0.478 Sum_probs=30.4
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEe
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLD 68 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiD 68 (248)
+..++-||||+++..+...+.+..+.+.++|+|
T Consensus 195 ~~v~~gIgTp~Ri~~lv~~~~f~~~~lk~iIlD 227 (271)
T KOG3089|consen 195 RVVHLGIGTPGRIKELVKQGGFNLSPLKFIILD 227 (271)
T ss_pred cceeEeecCcHHHHHHHHhcCCCCCcceeEEee
Confidence 457899999999999999998999999999998
No 248
>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=85.57 E-value=0.88 Score=37.63 Aligned_cols=38 Identities=13% Similarity=0.192 Sum_probs=24.0
Q ss_pred cEEEeChHHHHHHHhcCCcccCceeEEEEecccccccc
Q 042003 39 DILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 39 ~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~ 76 (248)
...+..|..+...+.........++++||||||.+...
T Consensus 61 ~~~~~~~~~~i~~~~~~~~~~~~~DviivDEAqrl~~~ 98 (352)
T PF09848_consen 61 KSDFRKPTSFINNYSESDKEKNKYDVIIVDEAQRLRTK 98 (352)
T ss_pred hhhhhhhHHHHhhcccccccCCcCCEEEEehhHhhhhc
Confidence 34444554444433322334578899999999999873
No 249
>PRK13766 Hef nuclease; Provisional
Probab=85.54 E-value=5.7 Score=36.72 Aligned_cols=73 Identities=21% Similarity=0.188 Sum_probs=52.6
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcC-C---CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFD-G---IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKG 228 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~-~---~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~ 228 (248)
.++++|+.++++..+.+.++.+++. + .++..++|+.+..+|.+... +.+|+|+|.- +..-+++.+
T Consensus 57 ~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~-----~~~iiv~T~~~l~~~l~~~~~~~~~ 131 (773)
T PRK13766 57 KGGKVLILAPTKPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWE-----KAKVIVATPQVIENDLIAGRISLED 131 (773)
T ss_pred CCCeEEEEeCcHHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHh-----CCCEEEECHHHHHHHHHcCCCChhh
Confidence 3689999999999888887777653 3 37888999999888765553 2468999963 233456667
Q ss_pred CcEEEecc
Q 042003 229 VNCVINYD 236 (248)
Q Consensus 229 ~~~Vi~~~ 236 (248)
+++||.=.
T Consensus 132 ~~liVvDE 139 (773)
T PRK13766 132 VSLLIFDE 139 (773)
T ss_pred CcEEEEEC
Confidence 77777433
No 250
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=85.35 E-value=0.34 Score=37.02 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=22.6
Q ss_pred ccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccc
Q 042003 34 SKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~ 75 (248)
....++|+++|+....+...... ...++++|||||=.+..
T Consensus 167 ~l~~~~vi~~T~~~~~~~~~~~~--~~~~d~vIvDEAsq~~e 206 (236)
T PF13086_consen 167 ILKEADVIFTTLSSAASPFLSNF--KEKFDVVIVDEASQITE 206 (236)
T ss_dssp HHHT-SEEEEETCGGG-CCGTT-------SEEEETTGGGS-H
T ss_pred hcccccccccccccchhhHhhhh--cccCCEEEEeCCCCcch
Confidence 34478999999876622222111 12789999999987644
No 251
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=85.33 E-value=4.8 Score=37.44 Aligned_cols=58 Identities=22% Similarity=0.176 Sum_probs=46.6
Q ss_pred hccCCCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 156 AESLNPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 156 ~~~~~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
....+..+.|.++|..-|.+.++.+.. .|.++..+.|+++..+|...+ ..+|+++|+.
T Consensus 119 ~al~G~~V~VvTpn~yLA~qd~e~m~~l~~~lGLtv~~i~gg~~~~~r~~~y------~~dIvygT~g 180 (896)
T PRK13104 119 NAISGRGVHIVTVNDYLAKRDSQWMKPIYEFLGLTVGVIYPDMSHKEKQEAY------KADIVYGTNN 180 (896)
T ss_pred HHhcCCCEEEEcCCHHHHHHHHHHHHHHhcccCceEEEEeCCCCHHHHHHHh------CCCEEEECCh
Confidence 333467899999999988888877754 488999999999998887665 3689999975
No 252
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=85.24 E-value=3.2 Score=35.66 Aligned_cols=73 Identities=16% Similarity=0.223 Sum_probs=52.2
Q ss_pred CEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHH-HHHHHHHhhcCCceEEEEecc-------cccCCCCCCC
Q 042003 162 PVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQ-RENAVDDFRAGKTWVLIATDV-------IARGMDFKGV 229 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~-r~~~~~~f~~g~~~ilv~T~~-------~~~Gidip~~ 229 (248)
+++|.++++.-+-+++..+... |..|..+.|.-+-++ ..+....-...+++|||+|+. ...|+|+.+.
T Consensus 217 RavVivPtr~L~~QV~~~f~~~~~~tgL~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~L 296 (620)
T KOG0350|consen 217 RAVVIVPTRELALQVYDTFKRLNSGTGLAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHL 296 (620)
T ss_pred EEEEEeeHHHHHHHHHHHHHHhccCCceEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCCCcchhhc
Confidence 7999999999999999999765 445555555544332 233334444567799999974 2689999998
Q ss_pred cEEEe
Q 042003 230 NCVIN 234 (248)
Q Consensus 230 ~~Vi~ 234 (248)
++.|.
T Consensus 297 rfLVI 301 (620)
T KOG0350|consen 297 RFLVI 301 (620)
T ss_pred eEEEe
Confidence 87764
No 253
>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=85.11 E-value=9.1 Score=25.91 Aligned_cols=57 Identities=25% Similarity=0.264 Sum_probs=41.4
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCC---CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDG---IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~---~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
..+++++++++...+++..+.+.... ..+..+++........ ....+...++++|..
T Consensus 29 ~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~i~i~t~~ 88 (144)
T cd00046 29 KGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQE----KLLSGKTDIVVGTPG 88 (144)
T ss_pred cCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHH----HHhcCCCCEEEECcH
Confidence 46899999999999988887776543 6788888876555444 222345678888865
No 254
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=84.80 E-value=0.64 Score=39.85 Aligned_cols=70 Identities=9% Similarity=0.002 Sum_probs=41.6
Q ss_pred CCCcEEEeChHHHHHHHhcC------Cc-----ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 36 FSCDILISTPLRLRLAIRRK------KI-----DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~------~~-----~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
.+..++..|++.+.+.+... .+ ...+.+++|+||+|.+.........+..++..+.....|+|+.|-..
T Consensus 170 ~~~~v~yv~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~ 249 (450)
T PRK14087 170 SDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKS 249 (450)
T ss_pred CCCeEEEEEHHHHHHHHHHHHHHhhhHHHHHHHHhccCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCC
Confidence 45788889988776655321 11 24678999999999886432233444445444333344655554444
Q ss_pred C
Q 042003 105 P 105 (248)
Q Consensus 105 ~ 105 (248)
|
T Consensus 250 P 250 (450)
T PRK14087 250 P 250 (450)
T ss_pred H
Confidence 4
No 255
>PF13173 AAA_14: AAA domain
Probab=84.73 E-value=0.96 Score=31.26 Aligned_cols=39 Identities=21% Similarity=0.255 Sum_probs=25.7
Q ss_pred ceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
.-.++++||+|.+.+ +...++.+.... ++.++++++...
T Consensus 61 ~~~~i~iDEiq~~~~---~~~~lk~l~d~~--~~~~ii~tgS~~ 99 (128)
T PF13173_consen 61 GKKYIFIDEIQYLPD---WEDALKFLVDNG--PNIKIILTGSSS 99 (128)
T ss_pred CCcEEEEehhhhhcc---HHHHHHHHHHhc--cCceEEEEccch
Confidence 456899999999865 446666666642 456655555443
No 256
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=84.33 E-value=1.7 Score=28.52 Aligned_cols=37 Identities=14% Similarity=0.181 Sum_probs=30.3
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
.++++++||.+-..+...+..|...|+. +..+.||+.
T Consensus 60 ~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~~ 97 (101)
T cd01518 60 KGKKVLMYCTGGIRCEKASAYLKERGFKNVYQLKGGIL 97 (101)
T ss_pred CCCEEEEECCCchhHHHHHHHHHHhCCcceeeechhHH
Confidence 3678999999877778888899888984 888888864
No 257
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=83.88 E-value=1.4 Score=28.57 Aligned_cols=36 Identities=19% Similarity=0.125 Sum_probs=30.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
+.++++||.+-..+...+..|...|+.+..+.||+.
T Consensus 56 ~~~iv~~c~~G~rs~~aa~~L~~~G~~v~~l~GG~~ 91 (95)
T cd01534 56 GARIVLADDDGVRADMTASWLAQMGWEVYVLEGGLA 91 (95)
T ss_pred CCeEEEECCCCChHHHHHHHHHHcCCEEEEecCcHH
Confidence 568999999877778888899989999888888864
No 258
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=83.82 E-value=5.6 Score=39.35 Aligned_cols=71 Identities=21% Similarity=0.321 Sum_probs=53.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----------------CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc----
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----------------DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV---- 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----------------~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~---- 219 (248)
+.++|+.++++.-+.++++.|+. .++.+...||+++..+|...++ +..+|||+|.-
T Consensus 37 ~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V~vrtGDt~~~eR~rll~----~ppdILVTTPEsL~~ 112 (1490)
T PRK09751 37 TSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRVGIRTGDTPAQERSKLTR----NPPDILITTPESLYL 112 (1490)
T ss_pred CCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEEEEEECCCCHHHHHHHhc----CCCCEEEecHHHHHH
Confidence 35799999999999888887752 3678999999999998876543 35689999963
Q ss_pred -cc-cC-CCCCCCcEEEe
Q 042003 220 -IA-RG-MDFKGVNCVIN 234 (248)
Q Consensus 220 -~~-~G-idip~~~~Vi~ 234 (248)
+. .+ -.+.++++||.
T Consensus 113 LLtsk~r~~L~~Vr~VIV 130 (1490)
T PRK09751 113 MLTSRARETLRGVETVII 130 (1490)
T ss_pred HHhhhhhhhhccCCEEEE
Confidence 12 22 35778888873
No 259
>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=83.70 E-value=0.63 Score=42.36 Aligned_cols=39 Identities=23% Similarity=0.202 Sum_probs=26.9
Q ss_pred CCCcEEEeChHHHHHHHhcCC--cccCceeEEEEeccccccc
Q 042003 36 FSCDILISTPLRLRLAIRRKK--IDLSRVEYLVLDEADKLFE 75 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~--~~~~~~~~lIiDEah~~~~ 75 (248)
..++|||+..+-+.+--.++. ..+++ .++||||||.+.+
T Consensus 194 ~~advIi~pYnyl~dp~~r~~~~~~l~~-~ivI~DEAHNL~d 234 (705)
T TIGR00604 194 PFANIVLLPYQYLLDPKIRSAVSIELKD-SIVIFDEAHNLDN 234 (705)
T ss_pred hcCCEEEechHHhcCHHHHHHhhccccc-CEEEEECccchHH
Confidence 468999999876654333322 22333 6899999999875
No 260
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=83.69 E-value=7.5 Score=36.24 Aligned_cols=72 Identities=14% Similarity=0.119 Sum_probs=53.9
Q ss_pred HHHHHHHHhccCCCCEEEEecchHH----HHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 148 LLALRQSFAESLNPPVLIFVQSKER----AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 148 ~~~l~~~~~~~~~~~~liF~~~~~~----~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
...+..++....+..+-|.+++.-- ++.+...++..|.+|+.+.+++++++|+.++. .+|+.+|+.. .|
T Consensus 111 vA~l~a~l~al~G~~VhvvT~ndyLA~RD~e~m~~l~~~lGl~v~~i~~~~~~~err~~Y~------~dI~YGT~~e-~g 183 (913)
T PRK13103 111 VGTLAVYLNALSGKGVHVVTVNDYLARRDANWMRPLYEFLGLSVGIVTPFQPPEEKRAAYA------ADITYGTNNE-FG 183 (913)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCHHHHHHHHHHHHHHhcccCCEEEEECCCCCHHHHHHHhc------CCEEEEcccc-cc
Confidence 4455555666668889999988654 44555555667999999999999999998887 7899999765 44
Q ss_pred CCC
Q 042003 224 MDF 226 (248)
Q Consensus 224 idi 226 (248)
+|.
T Consensus 184 FDY 186 (913)
T PRK13103 184 FDY 186 (913)
T ss_pred cch
Confidence 443
No 261
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=83.64 E-value=1.7 Score=29.81 Aligned_cols=36 Identities=28% Similarity=0.387 Sum_probs=20.9
Q ss_pred eEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 63 EYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 63 ~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
.++|+||+|.+.+ ...+..+.........+ +.++++
T Consensus 89 ~~lviDe~~~l~~----~~~l~~l~~l~~~~~~~-vvl~G~ 124 (131)
T PF13401_consen 89 VLLVIDEADHLFS----DEFLEFLRSLLNESNIK-VVLVGT 124 (131)
T ss_dssp EEEEEETTHHHHT----HHHHHHHHHHTCSCBEE-EEEEES
T ss_pred eEEEEeChHhcCC----HHHHHHHHHHHhCCCCe-EEEEEC
Confidence 6999999999741 23344444433344555 445555
No 262
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=83.60 E-value=2.6 Score=32.93 Aligned_cols=69 Identities=17% Similarity=0.277 Sum_probs=52.0
Q ss_pred CEEEEecchHHHHHHHHHhhc---C--CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCCCc
Q 042003 162 PVLIFVQSKERAKELYGELAF---D--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKGVN 230 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~---~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~~~ 230 (248)
.++|.|.+++-|-++.+.... . +.++.++.||++-+.-++.+.. -..|+|+|+. =+..+++..+.
T Consensus 112 svlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~----~PhivVgTPGrilALvr~k~l~lk~vk 187 (387)
T KOG0329|consen 112 SVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKN----CPHIVVGTPGRILALVRNRSLNLKNVK 187 (387)
T ss_pred EEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhC----CCeEEEcCcHHHHHHHHhccCchhhcc
Confidence 688999999999888665543 2 6789999999997766666554 5679999973 25677887777
Q ss_pred EEEe
Q 042003 231 CVIN 234 (248)
Q Consensus 231 ~Vi~ 234 (248)
+-+.
T Consensus 188 hFvl 191 (387)
T KOG0329|consen 188 HFVL 191 (387)
T ss_pred eeeh
Confidence 7653
No 263
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=83.50 E-value=12 Score=29.26 Aligned_cols=50 Identities=10% Similarity=0.118 Sum_probs=42.5
Q ss_pred cceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCC
Q 042003 133 SIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG 184 (248)
Q Consensus 133 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~ 184 (248)
.++..++-+.+..+.+..+.+.++. ++.+++|+++.+++++..+.|++.|
T Consensus 163 ~vDav~LDmp~PW~~le~~~~~Lkp--gg~~~~y~P~veQv~kt~~~l~~~g 212 (256)
T COG2519 163 DVDAVFLDLPDPWNVLEHVSDALKP--GGVVVVYSPTVEQVEKTVEALRERG 212 (256)
T ss_pred ccCEEEEcCCChHHHHHHHHHHhCC--CcEEEEEcCCHHHHHHHHHHHHhcC
Confidence 5667777788888888888888877 5899999999999999999999874
No 264
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=83.32 E-value=3.1 Score=36.29 Aligned_cols=69 Identities=16% Similarity=0.162 Sum_probs=50.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----c--ccCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----I--ARGMDFKG 228 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~--~~Gidip~ 228 (248)
+=-+||..+|++-|-+.++.|++- +++++.+-||..-+. +.-+-.+++|||||+- + ..+++.++
T Consensus 141 GlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~-----E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~ 215 (758)
T KOG0343|consen 141 GLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKF-----ELERISQMNILVCTPGRLLQHMDENPNFSTSN 215 (758)
T ss_pred CceeEEecchHHHHHHHHHHHHHHhhccccccceeecCchhHH-----HHHhhhcCCeEEechHHHHHHhhhcCCCCCCc
Confidence 347999999999999999999864 568899999866433 2233456899999973 1 34555556
Q ss_pred CcEEE
Q 042003 229 VNCVI 233 (248)
Q Consensus 229 ~~~Vi 233 (248)
+.+.|
T Consensus 216 lQmLv 220 (758)
T KOG0343|consen 216 LQMLV 220 (758)
T ss_pred ceEEE
Confidence 65554
No 265
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=83.21 E-value=2.1 Score=36.59 Aligned_cols=75 Identities=12% Similarity=0.168 Sum_probs=39.7
Q ss_pred CCcEEEeChHHHHHHHhc----CCc-----cc-CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 37 SCDILISTPLRLRLAIRR----KKI-----DL-SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~----~~~-----~~-~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
+..+++.|.+.+.+.+.. +.. .. .+.+++++||+|.+.+.......+..++..+.....++++.|...|.
T Consensus 160 ~~~v~yi~~~~f~~~~~~~~~~~~~~~f~~~~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~ 239 (440)
T PRK14088 160 DLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQ 239 (440)
T ss_pred CCeEEEEEHHHHHHHHHHHHhcccHHHHHHHHHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHH
Confidence 467888888876554422 211 01 25889999999987653212223333333322334455554444444
Q ss_pred hHHHH
Q 042003 107 FVEEL 111 (248)
Q Consensus 107 ~~~~~ 111 (248)
....+
T Consensus 240 ~l~~l 244 (440)
T PRK14088 240 KLSEF 244 (440)
T ss_pred HHHHH
Confidence 33333
No 266
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=82.00 E-value=15 Score=26.86 Aligned_cols=69 Identities=16% Similarity=0.174 Sum_probs=47.4
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeE-EEecCCCHHHHHHHHHHhhcCCceEEEE
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAG-VIHSDLSQTQRENAVDDFRAGKTWVLIA 216 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~-~~~~~~~~~~r~~~~~~f~~g~~~ilv~ 216 (248)
-...+.+..+.. +.++.++-.+.+.++.+++.|++. +..+. .+||.+..++..++++..+....++++.
T Consensus 34 l~~~ll~~~~~~-~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~pdiv~v 105 (171)
T cd06533 34 LMPALLELAAQK-GLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASGADILFV 105 (171)
T ss_pred HHHHHHHHHHHc-CCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcCCCEEEE
Confidence 444455544443 467777778888888888888765 44443 4678888777777888888877776644
No 267
>cd01527 RHOD_YgaP Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases.
Probab=81.93 E-value=2.4 Score=27.59 Aligned_cols=36 Identities=19% Similarity=0.184 Sum_probs=30.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
.++++++|++-..+...+..|.+.|+ .+..+.|++.
T Consensus 54 ~~~iv~~c~~g~~s~~~~~~L~~~g~~~v~~l~gG~~ 90 (99)
T cd01527 54 ANAIIFHCRSGMRTQQNAERLAAISAGEAYVLEGGLD 90 (99)
T ss_pred CCcEEEEeCCCchHHHHHHHHHHcCCccEEEeeCCHH
Confidence 57899999998888888999988777 6888899863
No 268
>cd01449 TST_Repeat_2 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue.
Probab=81.88 E-value=3.9 Score=27.55 Aligned_cols=36 Identities=22% Similarity=0.280 Sum_probs=30.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
++++++||++-..+..++..|+..|+ ++..+.|++.
T Consensus 78 ~~~iv~yc~~g~~s~~~~~~l~~~G~~~v~~l~GG~~ 114 (118)
T cd01449 78 DKPVIVYCGSGVTACVLLLALELLGYKNVRLYDGSWS 114 (118)
T ss_pred CCCEEEECCcHHHHHHHHHHHHHcCCCCeeeeCChHH
Confidence 67899999998888889999999998 5788888763
No 269
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=81.65 E-value=19 Score=26.64 Aligned_cols=54 Identities=11% Similarity=0.191 Sum_probs=35.7
Q ss_pred CCEEEEecchHHHHHHHHHhhcC--CCeeEEEecCCCHHHHHHHHHHhhcCCceEE
Q 042003 161 PPVLIFVQSKERAKELYGELAFD--GIRAGVIHSDLSQTQRENAVDDFRAGKTWVL 214 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~~~~~~~~~r~~~~~~f~~g~~~il 214 (248)
.++.++-.+.+.++++++.|++. +..+.-.||.+++++.+++.+..++...+++
T Consensus 49 ~~vfllG~~~~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~~dil 104 (177)
T TIGR00696 49 LPIFLYGGKPDVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSGAGIV 104 (177)
T ss_pred CeEEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcCCCEE
Confidence 45556666667777777777664 4454444777777776777777776666655
No 270
>PRK05728 DNA polymerase III subunit chi; Validated
Probab=81.54 E-value=13 Score=26.39 Aligned_cols=90 Identities=20% Similarity=0.067 Sum_probs=54.3
Q ss_pred CchhHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 143 SEEGKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
....+...+..++++.. +.+++|.|++.+.++.+=+.|=...-...+=|+..... ......|+++...
T Consensus 10 ~~~~~~~~~c~L~~ka~~~g~rv~I~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~---------~~~~~PV~l~~~~- 79 (142)
T PRK05728 10 TLSALEALLCELAEKALRAGWRVLVQCEDEEQAEALDEALWTFRDESFLPHGLAGEG---------PAAGQPVLLTWPG- 79 (142)
T ss_pred CchhHHHHHHHHHHHHHHCCCEEEEEcCCHHHHHHHHHHhcCCCCCcCCCCCcCCCC---------CCCCCCEEEEcCC-
Confidence 44456666666666543 78999999999999999888855443444445532211 0123468887311
Q ss_pred ccCCCCCCCcEEEeccC--CCCcccc
Q 042003 221 ARGMDFKGVNCVINYDF--PDSGAAY 244 (248)
Q Consensus 221 ~~Gidip~~~~Vi~~~~--p~~~~~~ 244 (248)
.-+.+..+++||.+. |...+.|
T Consensus 80 --~~~~~~~~~LinL~~~~p~~~~~F 103 (142)
T PRK05728 80 --KRNANHRDLLINLDGAVPAFAAAF 103 (142)
T ss_pred --CCCCCCCcEEEECCCCCcchhhcc
Confidence 124455778888765 3344444
No 271
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=81.27 E-value=17 Score=26.65 Aligned_cols=69 Identities=13% Similarity=0.176 Sum_probs=43.4
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeE-EEecCCCHHHHHHHHHHhhcCCceEEEE
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAG-VIHSDLSQTQRENAVDDFRAGKTWVLIA 216 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~-~~~~~~~~~~r~~~~~~f~~g~~~ilv~ 216 (248)
-...+....+.. +.++.++-.+.+.++.+++.|++. +..+. ..||.++.++..++++..+....++++.
T Consensus 36 l~~~l~~~~~~~-~~~ifllG~~~~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~pdiv~v 107 (172)
T PF03808_consen 36 LFPDLLRRAEQR-GKRIFLLGGSEEVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGPDIVFV 107 (172)
T ss_pred HHHHHHHHHHHc-CCeEEEEeCCHHHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCCCEEEE
Confidence 334444444443 456666667777777788888765 44433 4556677777777887777777666543
No 272
>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.
Probab=81.14 E-value=2.4 Score=28.37 Aligned_cols=36 Identities=14% Similarity=0.126 Sum_probs=30.0
Q ss_pred CCCEEEEecch--HHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSK--ERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~--~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
+.++++||++- ..+..++..|+..|+.+..+.|++.
T Consensus 64 ~~~vvvyc~~g~~~~s~~~a~~l~~~G~~v~~l~GG~~ 101 (110)
T cd01521 64 EKLFVVYCDGPGCNGATKAALKLAELGFPVKEMIGGLD 101 (110)
T ss_pred CCeEEEEECCCCCchHHHHHHHHHHcCCeEEEecCCHH
Confidence 57899999875 3678888899999998889999864
No 273
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=81.00 E-value=3.7 Score=27.33 Aligned_cols=36 Identities=11% Similarity=0.202 Sum_probs=30.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe--eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR--AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~--v~~~~~~~~ 195 (248)
+.++++||.+-..+...+..|+..|+. +..+.||++
T Consensus 66 ~~~ivv~C~~G~rs~~a~~~L~~~G~~~~v~~l~gG~~ 103 (109)
T cd01533 66 RTPIVVNCAGRTRSIIGAQSLINAGLPNPVAALRNGTQ 103 (109)
T ss_pred CCeEEEECCCCchHHHHHHHHHHCCCCcceeEecCCHH
Confidence 568999998877777788999999984 888999974
No 274
>cd01526 RHOD_ThiF Member of the Rhodanese Homology Domain superfamily. This CD includes several putative molybdopterin synthase sulfurylases including the molybdenum cofactor biosynthetic protein (CnxF) of Aspergillus nidulans and the molybdenum cofactor synthesis protein 3 (MOCS3) of Homo sapiens. These rhodanese-like domains are found C-terminal of the ThiF and MoeZ_MoeB domains.
Probab=80.95 E-value=1.6 Score=29.88 Aligned_cols=36 Identities=14% Similarity=0.207 Sum_probs=31.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC--eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI--RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~--~v~~~~~~~~ 195 (248)
++++++||.+-..+...+..|+..|+ ++..+.||+.
T Consensus 72 ~~~ivv~C~~G~rs~~aa~~L~~~G~~~~v~~l~GG~~ 109 (122)
T cd01526 72 DSPIYVVCRRGNDSQTAVRKLKELGLERFVRDIIGGLK 109 (122)
T ss_pred CCcEEEECCCCCcHHHHHHHHHHcCCccceeeecchHH
Confidence 67899999988888889999999999 6899999974
No 275
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.72 E-value=13 Score=33.00 Aligned_cols=80 Identities=23% Similarity=0.206 Sum_probs=46.3
Q ss_pred cCCCcEEEeChHHHHHHHhcCCc------ccCcee-EEEEeccccccccC--------cccccchhH--hhhCCCcccee
Q 042003 35 KFSCDILISTPLRLRLAIRRKKI------DLSRVE-YLVLDEADKLFEVG--------NLLKHIDPV--VKACSNPSIVR 97 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~------~~~~~~-~lIiDEah~~~~~~--------~~~~~~~~~--~~~~~~~~~~~ 97 (248)
..+..|.++|.+.|...+.+... ++.+.. +++-||||++-... +....+... +.....+.--+
T Consensus 79 nd~iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahhln~~tkkk~~de~~~~~~we~~v~la~~~nkd~~~ 158 (812)
T COG3421 79 NDAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHHLNTETKKKLNDEASEKRNWESVVKLALEQNKDNLL 158 (812)
T ss_pred CCceEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhhhhhhhhhhcccHHHHHhhHHHHHHHHHhcCCCcee
Confidence 34678999999999888866432 244444 46679999987432 111112221 12212334456
Q ss_pred EEEEeecCchHHHHHHHh
Q 042003 98 SLFSATLPDFVEELARSI 115 (248)
Q Consensus 98 i~~SAT~~~~~~~~~~~~ 115 (248)
+.+|||.|. .......|
T Consensus 159 lef~at~~k-~k~v~~ky 175 (812)
T COG3421 159 LEFSATIPK-EKSVEDKY 175 (812)
T ss_pred ehhhhcCCc-cccHHHHh
Confidence 679999983 44444444
No 276
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=80.70 E-value=3.7 Score=30.81 Aligned_cols=40 Identities=15% Similarity=0.283 Sum_probs=23.6
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
+.+.+++|||||-++.. ..+..++........++|++.-.
T Consensus 91 ~~~~~vliVDEasmv~~-----~~~~~ll~~~~~~~~klilvGD~ 130 (196)
T PF13604_consen 91 LPKKDVLIVDEASMVDS-----RQLARLLRLAKKSGAKLILVGDP 130 (196)
T ss_dssp -TSTSEEEESSGGG-BH-----HHHHHHHHHS-T-T-EEEEEE-T
T ss_pred CCcccEEEEecccccCH-----HHHHHHHHHHHhcCCEEEEECCc
Confidence 45568999999998754 34666666655556666666554
No 277
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=80.57 E-value=6.8 Score=36.12 Aligned_cols=58 Identities=17% Similarity=0.237 Sum_probs=45.0
Q ss_pred HhccCCCCEEEEecchHHHHHHHHHhh----cCCCeeEEEecCCC-HHHHHHHHHHhhcCCceEEEEec
Q 042003 155 FAESLNPPVLIFVQSKERAKELYGELA----FDGIRAGVIHSDLS-QTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 155 ~~~~~~~~~liF~~~~~~~~~l~~~L~----~~~~~v~~~~~~~~-~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
+....+..+.|.++|..-|.+-++.+. ..|++++.+.|+++ .++|+... ..+|+++|+
T Consensus 114 l~al~G~~v~VvTpt~~LA~qd~e~~~~l~~~lGl~v~~i~g~~~~~~~r~~~y------~~dIvygT~ 176 (790)
T PRK09200 114 LNALEGKGVHLITVNDYLAKRDAEEMGQVYEFLGLTVGLNFSDIDDASEKKAIY------EADIIYTTN 176 (790)
T ss_pred HHHHcCCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCcHHHHHHhc------CCCEEEECC
Confidence 344457899999999888877766654 46899999999999 77777543 268999995
No 278
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=80.02 E-value=8 Score=33.95 Aligned_cols=70 Identities=9% Similarity=0.233 Sum_probs=47.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----cc-ccCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VI-ARGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~-~~Gidip~~ 229 (248)
+.+++|.+++++-|.++++.++.. +..+..+.|+.+..+.. ..+.. ..+|+|+|. .+ ..++++.++
T Consensus 196 ~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~~~~~~~gG~~~~~q~---~~l~~-~~~IiV~TPgrL~~~l~~~~~~l~~v 271 (518)
T PLN00206 196 NPLAMVLTPTRELCVQVEDQAKVLGKGLPFKTALVVGGDAMPQQL---YRIQQ-GVELIVGTPGRLIDLLSKHDIELDNV 271 (518)
T ss_pred CceEEEEeCCHHHHHHHHHHHHHHhCCCCceEEEEECCcchHHHH---HHhcC-CCCEEEECHHHHHHHHHcCCccchhe
Confidence 457999999999998887776543 45666777776654432 22333 368999994 22 346777778
Q ss_pred cEEE
Q 042003 230 NCVI 233 (248)
Q Consensus 230 ~~Vi 233 (248)
+++|
T Consensus 272 ~~lV 275 (518)
T PLN00206 272 SVLV 275 (518)
T ss_pred eEEE
Confidence 7776
No 279
>PRK06646 DNA polymerase III subunit chi; Provisional
Probab=79.71 E-value=13 Score=26.79 Aligned_cols=82 Identities=12% Similarity=0.102 Sum_probs=50.7
Q ss_pred CchhHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 143 SEEGKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
....+...+..++++.. +.+++|.|++.+.++.+=+.|=...-...+=|+...... .....|+++++.
T Consensus 10 ~~~~~~~~acrL~~Ka~~~G~rv~I~~~d~~~~~~LD~~LWtf~~~SFlPH~~~~~~~---------~a~~PV~L~~~~- 79 (154)
T PRK06646 10 SDELLLKSILLLIEKCYYSDLKSVILTADADQQEMLNKNLWTYSRKQFIPHGSKLDPQ---------PEKQPIYITDEL- 79 (154)
T ss_pred CCChHHHHHHHHHHHHHHcCCEEEEEcCCHHHHHHHHHHhcCCCCCCCCCCCCCCCCC---------CCCCCEEEecCC-
Confidence 44457777777776543 779999999999999998888554444444455322110 123468887432
Q ss_pred ccCCCCCCCcEEEeccC
Q 042003 221 ARGMDFKGVNCVINYDF 237 (248)
Q Consensus 221 ~~Gidip~~~~Vi~~~~ 237 (248)
.+.+ ..++.||++.
T Consensus 80 -~~p~--~~~vLiNL~~ 93 (154)
T PRK06646 80 -QNPN--NASVLVIISP 93 (154)
T ss_pred -CCCC--CCCEEEECCC
Confidence 1222 5677888866
No 280
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=79.66 E-value=1.5 Score=38.03 Aligned_cols=40 Identities=20% Similarity=0.290 Sum_probs=26.7
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
..+++..||||+|++.... ...+++.+..++..+++.=||
T Consensus 117 ~~ryKVyiIDEvHMLS~~a-----fNALLKTLEEPP~hV~FIlAT 156 (515)
T COG2812 117 EGRYKVYIIDEVHMLSKQA-----FNALLKTLEEPPSHVKFILAT 156 (515)
T ss_pred cccceEEEEecHHhhhHHH-----HHHHhcccccCccCeEEEEec
Confidence 5788999999999986543 455555554444445555555
No 281
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=79.62 E-value=21 Score=26.13 Aligned_cols=76 Identities=16% Similarity=0.062 Sum_probs=45.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCC---CCCCcEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMD---FKGVNCVINYD 236 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gid---ip~~~~Vi~~~ 236 (248)
+++++|.-...--...+++.|...+..+.+.+... ++..+.+. +.+++|++.....=++ ++.-.++|+.+
T Consensus 44 gk~vlViG~G~~~G~~~a~~L~~~g~~V~v~~r~~--~~l~~~l~-----~aDiVIsat~~~~ii~~~~~~~~~viIDla 116 (168)
T cd01080 44 GKKVVVVGRSNIVGKPLAALLLNRNATVTVCHSKT--KNLKEHTK-----QADIVIVAVGKPGLVKGDMVKPGAVVIDVG 116 (168)
T ss_pred CCEEEEECCcHHHHHHHHHHHhhCCCEEEEEECCc--hhHHHHHh-----hCCEEEEcCCCCceecHHHccCCeEEEEcc
Confidence 45555555543345669999999888887777653 23333333 2455544433211233 34456899999
Q ss_pred CCCCcc
Q 042003 237 FPDSGA 242 (248)
Q Consensus 237 ~p~~~~ 242 (248)
.|++++
T Consensus 117 ~prdvd 122 (168)
T cd01080 117 INRVPD 122 (168)
T ss_pred CCCccc
Confidence 999764
No 282
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=79.31 E-value=1.1 Score=41.76 Aligned_cols=73 Identities=14% Similarity=0.149 Sum_probs=48.6
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHHH-HHHhc------CCcccCceeEEEEecccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRLR-LAIRR------KKIDLSRVEYLVLDEADK 72 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l~-~~~~~------~~~~~~~~~~lIiDEah~ 72 (248)
||.-=++++..+...+| .+|.++.... .........|||..+|...|- +.++. +...++.+.+.||||+|-
T Consensus 191 LA~RDaewm~p~y~flG-LtVg~i~~~~~~~~Rr~aY~~DItYgTn~EfGFDYLRDnma~~~~~~vqR~~~faIVDEvDS 269 (1025)
T PRK12900 191 LAQRDKEWMNPVFEFHG-LSVGVILNTMRPEERREQYLCDITYGTNNEFGFDYLRDNMAGTPEEMVQRDFYFAIVDEVDS 269 (1025)
T ss_pred hhhhhHHHHHHHHHHhC-CeeeeeCCCCCHHHHHHhCCCcceecCCCccccccchhccccchhhhhccCCceEEEechhh
Confidence 44445677778888888 6666665544 455556678999999996552 11211 123367888999999996
Q ss_pred cc
Q 042003 73 LF 74 (248)
Q Consensus 73 ~~ 74 (248)
++
T Consensus 270 vL 271 (1025)
T PRK12900 270 VL 271 (1025)
T ss_pred hh
Confidence 65
No 283
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=79.25 E-value=3.6 Score=25.79 Aligned_cols=37 Identities=14% Similarity=0.206 Sum_probs=30.6
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
...+++++|.+-..+..++..|+..|+ ++..+.||+.
T Consensus 49 ~~~~vv~~c~~~~~a~~~~~~l~~~G~~~v~~l~gG~~ 86 (89)
T cd00158 49 KDKPIVVYCRSGNRSARAAKLLRKAGGTNVYNLEGGML 86 (89)
T ss_pred CCCeEEEEeCCCchHHHHHHHHHHhCcccEEEecCChh
Confidence 367899999998899999999999865 5778888764
No 284
>PF04364 DNA_pol3_chi: DNA polymerase III chi subunit, HolC; InterPro: IPR007459 The DNA polymerase III holoenzyme (2.7.7.7 from EC) is the polymerase responsible for the replication of the Escherichia coli chromosome. The holoenzyme is composed of the DNA polymerase III core, the sliding clamp, and the DnaX clamp loading complex. The DnaX complex contains either the tau or gamma product of gene dnax, complexed to delta.delta and to chi psi. Chi forms a 1:1 heterodimer with psi. The chi psi complex functions by increasing the affinity of tau and gamma for delta.delta allowing a functional clamp-loading complex to form at physiological subunit concentrations. Psi is responsible for the interaction with DnaX (gamma/tau), but psi is insoluble unless it is in a complex with chi [].; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3SXU_A 1EM8_C.
Probab=78.62 E-value=17 Score=25.55 Aligned_cols=80 Identities=19% Similarity=0.034 Sum_probs=40.2
Q ss_pred HHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCC
Q 042003 148 LLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMD 225 (248)
Q Consensus 148 ~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gid 225 (248)
...+..++++. .+.+++|+|++.+.++.+-+.|=.......+=|+-.... ......|+++++... -.
T Consensus 15 ~~~~c~L~~k~~~~g~rv~V~~~d~~~a~~lD~~LW~~~~~sFlPH~~~~~~---------~~~~~PV~i~~~~~~--~~ 83 (137)
T PF04364_consen 15 ERFACRLAEKAYRQGQRVLVLCPDEEQAEALDELLWTFSPDSFLPHGLAGEP---------PAARQPVLITWDQEA--NP 83 (137)
T ss_dssp HHHHHHHHHHHHHTT--EEEE-SSHHHHHHHHHHTTTSSTT----EEETT-S---------STT--SEEEE-TTS-----
T ss_pred HHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHCCCCCCCCCCcccCCC---------CCCCCeEEEecCccc--CC
Confidence 34444444432 278999999999999999999965554455556543221 112247899887643 12
Q ss_pred CCCCcEEEeccCC
Q 042003 226 FKGVNCVINYDFP 238 (248)
Q Consensus 226 ip~~~~Vi~~~~p 238 (248)
.+..+++||.+..
T Consensus 84 ~~~~~vLinL~~~ 96 (137)
T PF04364_consen 84 NNHADVLINLSGE 96 (137)
T ss_dssp -S--SEEEE--SS
T ss_pred CCCCCEEEECCCC
Confidence 3347888888764
No 285
>cd01519 RHOD_HSP67B2 Member of the Rhodanese Homology Domain superfamily. This CD includes the heat shock protein 67B2 of Drosophila melanogaster and other similar proteins, many of which are uncharacterized.
Probab=78.57 E-value=3.2 Score=27.29 Aligned_cols=36 Identities=11% Similarity=0.111 Sum_probs=30.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
++++++||.+-..+...+..|...|+ .+..+.|++.
T Consensus 66 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~~~Gg~~ 102 (106)
T cd01519 66 DKELIFYCKAGVRSKAAAELARSLGYENVGNYPGSWL 102 (106)
T ss_pred CCeEEEECCCcHHHHHHHHHHHHcCCccceecCCcHH
Confidence 56899999998888889999999998 4777788763
No 286
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=78.41 E-value=7.6 Score=30.59 Aligned_cols=90 Identities=13% Similarity=0.224 Sum_probs=55.5
Q ss_pred HHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC
Q 042003 147 KLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM 224 (248)
Q Consensus 147 ~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi 224 (248)
.-..+..+.+-. +.-|+||++....-.-...+.+++....+..+.|.... +-..+-+ ..++.+.++...+|.
T Consensus 47 ~EttIskI~~lAdDp~mKaIVv~q~vpGt~~af~kIkekRpDIl~ia~~~~E-Dp~~i~~-----~aDi~~~~D~~~~G~ 120 (275)
T PF12683_consen 47 QETTISKIVSLADDPDMKAIVVSQAVPGTAEAFRKIKEKRPDILLIAGEPHE-DPEVISS-----AADIVVNPDEISRGY 120 (275)
T ss_dssp HHHHHHHHHGGGG-TTEEEEEEE-SS---HHHHHHHHHH-TTSEEEESS--S--HHHHHH-----HSSEEEE--HHHHHH
T ss_pred HHHHHHHHHHhccCCCccEEEEeCCCcchHHHHHHHHhcCCCeEEEcCCCcC-CHHHHhh-----ccCeEeccchhhccH
Confidence 333444444422 24599999999887777788888877788888776432 2222222 468999999999998
Q ss_pred CCC------CCcEEEeccCCCCcc
Q 042003 225 DFK------GVNCVINYDFPDSGA 242 (248)
Q Consensus 225 dip------~~~~Vi~~~~p~~~~ 242 (248)
.++ +++..||+.+|++++
T Consensus 121 ~i~~~Ak~mGAktFVh~sfprhms 144 (275)
T PF12683_consen 121 TIVWAAKKMGAKTFVHYSFPRHMS 144 (275)
T ss_dssp HHHHHHHHTT-S-EEEEEETTGGG
T ss_pred HHHHHHHHcCCceEEEEechhhcc
Confidence 877 478899999999876
No 287
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=77.83 E-value=1.8 Score=38.45 Aligned_cols=72 Identities=11% Similarity=0.032 Sum_probs=43.2
Q ss_pred CCCcEEEeChHHHHHHHhc----CC-----cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRR----KK-----IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~----~~-----~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..+++.|.+.+.+.+.. +. ..+.++++|+|||+|.+.........+..++..+.....++|+.|-..+.
T Consensus 343 ~g~~V~Yitaeef~~el~~al~~~~~~~f~~~y~~~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~ 422 (617)
T PRK14086 343 PGTRVRYVSSEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPK 422 (617)
T ss_pred CCCeEEEeeHHHHHHHHHHHHHhccHHHHHHHhhcCCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChH
Confidence 3678889888776644422 11 12467899999999998654323344445555444445566665554444
Q ss_pred h
Q 042003 107 F 107 (248)
Q Consensus 107 ~ 107 (248)
.
T Consensus 423 e 423 (617)
T PRK14086 423 Q 423 (617)
T ss_pred h
Confidence 3
No 288
>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=77.81 E-value=2.7 Score=32.09 Aligned_cols=45 Identities=7% Similarity=0.092 Sum_probs=24.1
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecC
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
.+.+++++||+|.+.........+..++......... +.+|++.+
T Consensus 89 ~~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~-iIits~~~ 133 (226)
T TIGR03420 89 EQADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGR-LLIAGRAA 133 (226)
T ss_pred ccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCe-EEEECCCC
Confidence 4557999999999765321234444444332222234 44555543
No 289
>cd01525 RHOD_Kc Member of the Rhodanese Homology Domain superfamily. Included in this CD are the rhodanese-like domains found C-terminal of the serine/threonine protein kinases catalytic (S_TKc) domain and the Tre-2, BUB2p, Cdc16p (TBC) domain. The putative active site Cys residue is not present in this CD.
Probab=77.80 E-value=3.2 Score=27.30 Aligned_cols=36 Identities=14% Similarity=0.202 Sum_probs=29.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
+++++++|.+-..+...+..|+..|+. +..+.||++
T Consensus 65 ~~~vv~~c~~g~~s~~~a~~L~~~G~~~v~~l~GG~~ 101 (105)
T cd01525 65 GKIIVIVSHSHKHAALFAAFLVKCGVPRVCILDGGIN 101 (105)
T ss_pred CCeEEEEeCCCccHHHHHHHHHHcCCCCEEEEeCcHH
Confidence 568999998877788888899988884 888999874
No 290
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=77.77 E-value=5 Score=34.01 Aligned_cols=62 Identities=24% Similarity=0.294 Sum_probs=46.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC------CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----cccCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD------GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----IARGMD 225 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~~~Gid 225 (248)
+...+|.++|++-|+++|..+.+. ...+.-+.++|+...... +-.+..+|+|+|+. ++.|+.
T Consensus 93 ~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~----~L~d~pdIvV~TP~~ll~~~~~~~~ 165 (569)
T KOG0346|consen 93 GPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSV----ALMDLPDIVVATPAKLLRHLAAGVL 165 (569)
T ss_pred cceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHH----HHccCCCeEEeChHHHHHHHhhccc
Confidence 457999999999999999988764 445666677777765553 34567899999974 456663
No 291
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=77.56 E-value=12 Score=34.75 Aligned_cols=63 Identities=22% Similarity=0.186 Sum_probs=47.7
Q ss_pred HHHHHhccCCCCEEEEecchHHHHHHHHHhh----cCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 151 LRQSFAESLNPPVLIFVQSKERAKELYGELA----FDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 151 l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~----~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+.-++....+..+-|.++|..-|.+-++.+. ..|.+++.+.|+++.++|...+. .+|+++|+.
T Consensus 113 lpa~l~aL~G~~V~IvTpn~yLA~rd~e~~~~l~~~LGlsv~~i~~~~~~~er~~~y~------~dI~ygT~~ 179 (830)
T PRK12904 113 LPAYLNALTGKGVHVVTVNDYLAKRDAEWMGPLYEFLGLSVGVILSGMSPEERREAYA------ADITYGTNN 179 (830)
T ss_pred HHHHHHHHcCCCEEEEecCHHHHHHHHHHHHHHHhhcCCeEEEEcCCCCHHHHHHhcC------CCeEEECCc
Confidence 3333444456778899999877776666554 45899999999999999888754 689999975
No 292
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=77.27 E-value=20 Score=25.36 Aligned_cols=74 Identities=18% Similarity=0.028 Sum_probs=48.8
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCC---CCCcEEEec
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDF---KGVNCVINY 235 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidi---p~~~~Vi~~ 235 (248)
.+++++|+-.+..-.+.++..|.+.+..+...|.....- ++ ..+ +.+|+|+.-....-++- ..=.+||++
T Consensus 27 ~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t~~l--~~---~v~--~ADIVvsAtg~~~~i~~~~ikpGa~Vidv 99 (140)
T cd05212 27 DGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKTIQL--QS---KVH--DADVVVVGSPKPEKVPTEWIKPGATVINC 99 (140)
T ss_pred CCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCCcCH--HH---HHh--hCCEEEEecCCCCccCHHHcCCCCEEEEc
Confidence 377899999999999999999999999999999765421 11 111 34566554333333432 223477777
Q ss_pred cCCC
Q 042003 236 DFPD 239 (248)
Q Consensus 236 ~~p~ 239 (248)
+...
T Consensus 100 g~~~ 103 (140)
T cd05212 100 SPTK 103 (140)
T ss_pred CCCc
Confidence 7665
No 293
>cd01444 GlpE_ST GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a catalytically active cysteine.
Probab=77.26 E-value=3.8 Score=26.34 Aligned_cols=36 Identities=14% Similarity=0.302 Sum_probs=30.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
+++++++|.+-..+...+..|+..|+ ++..+.|++.
T Consensus 56 ~~~ivv~c~~g~~s~~a~~~l~~~G~~~v~~l~gG~~ 92 (96)
T cd01444 56 DRPVVVYCYHGNSSAQLAQALREAGFTDVRSLAGGFE 92 (96)
T ss_pred CCCEEEEeCCCChHHHHHHHHHHcCCceEEEcCCCHH
Confidence 67999999998899999999999987 4778888753
No 294
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=77.03 E-value=3.7 Score=26.83 Aligned_cols=37 Identities=8% Similarity=0.185 Sum_probs=30.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCCH
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLSQ 196 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~~ 196 (248)
++++++||++-..+...+..|.+.|+ .+..+.||+..
T Consensus 58 ~~~vv~~c~~g~rs~~~~~~l~~~G~~~v~~l~GG~~~ 95 (101)
T cd01528 58 DKDIVVLCHHGGRSMQVAQWLLRQGFENVYNLQGGIDA 95 (101)
T ss_pred CCeEEEEeCCCchHHHHHHHHHHcCCccEEEecCCHHH
Confidence 57899999998888888999988888 48888998653
No 295
>PRK06835 DNA replication protein DnaC; Validated
Probab=76.89 E-value=3.7 Score=33.63 Aligned_cols=72 Identities=13% Similarity=-0.001 Sum_probs=41.6
Q ss_pred cccCCCcEEEeChHHHHHHHhcC----C-------cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 33 LSKFSCDILISTPLRLRLAIRRK----K-------IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 33 ~~~~~~~i~v~Tp~~l~~~~~~~----~-------~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
....+..|++.|...+...+... . -.+.++++||+|+.+...........+..++.........+| +|
T Consensus 207 l~~~g~~V~y~t~~~l~~~l~~~~~~~~~~~~~~~~~l~~~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tI-iT 285 (329)
T PRK06835 207 LLDRGKSVIYRTADELIEILREIRFNNDKELEEVYDLLINCDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMI-IS 285 (329)
T ss_pred HHHCCCeEEEEEHHHHHHHHHHHHhccchhHHHHHHHhccCCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEE-EE
Confidence 34457889988888777766331 1 234688999999998765433123344455444322233444 44
Q ss_pred eecC
Q 042003 102 ATLP 105 (248)
Q Consensus 102 AT~~ 105 (248)
+-++
T Consensus 286 SNl~ 289 (329)
T PRK06835 286 TNLS 289 (329)
T ss_pred CCCC
Confidence 4444
No 296
>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=76.84 E-value=1.5 Score=36.98 Aligned_cols=69 Identities=10% Similarity=0.109 Sum_probs=37.1
Q ss_pred CCcEEEeChHHHHHHHhc----CC-----cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 37 SCDILISTPLRLRLAIRR----KK-----IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~----~~-----~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
+..++..|.+.+.+.+.. +. ..+.+.+++++||+|.+.........+..++..+.....+++ +|++.++
T Consensus 166 ~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~ii-its~~~p 243 (405)
T TIGR00362 166 NAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIV-LTSDRPP 243 (405)
T ss_pred CCcEEEEEHHHHHHHHHHHHHcCCHHHHHHHHHhCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEE-EecCCCH
Confidence 567888888766543321 11 124567899999999876532122223333333222344544 4555443
No 297
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=76.71 E-value=19 Score=25.05 Aligned_cols=74 Identities=20% Similarity=0.187 Sum_probs=36.3
Q ss_pred CCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC----CCCCC----cEE
Q 042003 161 PPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM----DFKGV----NCV 232 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi----dip~~----~~V 232 (248)
+++.|+..+.+.++.+++.+....+.+..+.. ..+.+ .+.+++|+|....+-+ .+... .+|
T Consensus 37 ~~i~i~nRt~~ra~~l~~~~~~~~~~~~~~~~------~~~~~-----~~~DivI~aT~~~~~~i~~~~~~~~~~~~~~v 105 (135)
T PF01488_consen 37 KEITIVNRTPERAEALAEEFGGVNIEAIPLED------LEEAL-----QEADIVINATPSGMPIITEEMLKKASKKLRLV 105 (135)
T ss_dssp SEEEEEESSHHHHHHHHHHHTGCSEEEEEGGG------HCHHH-----HTESEEEE-SSTTSTSSTHHHHTTTCHHCSEE
T ss_pred CEEEEEECCHHHHHHHHHHcCccccceeeHHH------HHHHH-----hhCCeEEEecCCCCcccCHHHHHHHHhhhhce
Confidence 44666666666666666666332222222211 11111 2466777665554322 34444 589
Q ss_pred EeccCCCCcccce
Q 042003 233 INYDFPDSGAAYI 245 (248)
Q Consensus 233 i~~~~p~~~~~~~ 245 (248)
++...|.++..-+
T Consensus 106 ~Dla~Pr~i~~~v 118 (135)
T PF01488_consen 106 IDLAVPRDIDPEV 118 (135)
T ss_dssp EES-SS-SB-TTC
T ss_pred eccccCCCCChhh
Confidence 9999999887443
No 298
>cd01532 4RHOD_Repeat_1 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative catalytic Cys residue.
Probab=76.57 E-value=4 Score=26.21 Aligned_cols=36 Identities=14% Similarity=0.324 Sum_probs=28.4
Q ss_pred CCCEEEEecc--hHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQS--KERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~--~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
..++++||.+ ...+...+..|.+.|+ ++..+.||+.
T Consensus 50 ~~~ivl~c~~G~~~~s~~aa~~L~~~G~~~v~~l~GG~~ 88 (92)
T cd01532 50 DTPIVVYGEGGGEDLAPRAARRLSELGYTDVALLEGGLQ 88 (92)
T ss_pred CCeEEEEeCCCCchHHHHHHHHHHHcCccCEEEccCCHH
Confidence 5689999998 4446788888988887 5788888874
No 299
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=76.55 E-value=2.8 Score=28.94 Aligned_cols=36 Identities=22% Similarity=0.328 Sum_probs=29.7
Q ss_pred CCCEEEEec-chHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQ-SKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~-~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
.+++++||. +-..+...+..|+..|+.+..+.||++
T Consensus 86 ~~~vvvyC~~~G~rs~~a~~~L~~~G~~v~~L~GG~~ 122 (128)
T cd01520 86 DPKLLIYCARGGMRSQSLAWLLESLGIDVPLLEGGYK 122 (128)
T ss_pred CCeEEEEeCCCCccHHHHHHHHHHcCCceeEeCCcHH
Confidence 578999996 456677888888888999999999975
No 300
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=76.41 E-value=21 Score=27.75 Aligned_cols=62 Identities=15% Similarity=0.220 Sum_probs=44.8
Q ss_pred CCCEEEEecc-----------hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC----CceEEEEecccccC
Q 042003 160 NPPVLIFVQS-----------KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG----KTWVLIATDVIARG 223 (248)
Q Consensus 160 ~~~~liF~~~-----------~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g----~~~ilv~T~~~~~G 223 (248)
.+-+||+.|. ..+++.+++.|++.|+.|.. +..++.++-++.++.|.+. ..+.+++. .++-|
T Consensus 8 ~g~alII~n~~f~~~~~r~g~~~D~~~l~~~f~~lgF~V~~-~~dlt~~em~~~l~~~~~~~~~~~~d~~v~~-~~sHG 84 (241)
T smart00115 8 RGLALIINNENFHSLPRRNGTDVDAENLTELFQSLGYEVHV-KNNLTAEEMLEELKEFAERPEHSDSDSFVCV-LLSHG 84 (241)
T ss_pred CcEEEEEECccCCCCcCCCCcHHHHHHHHHHHHHCCCEEEE-ecCCCHHHHHHHHHHHHhccccCCCCEEEEE-EcCCC
Confidence 4567787765 45899999999999999865 6667888888888888753 23444443 55556
No 301
>PF12846 AAA_10: AAA-like domain
Probab=75.54 E-value=2.5 Score=33.63 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=26.5
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
..-.++++||||.+.........+..+.+...+...-+++.|
T Consensus 219 ~~~~~i~iDEa~~~~~~~~~~~~~~~~~~~~Rk~g~~~~l~t 260 (304)
T PF12846_consen 219 GRPKIIVIDEAHNFLSNPSGAEFLDELLREGRKYGVGLILAT 260 (304)
T ss_pred CceEEEEeCCccccccccchhhhhhHHHHHHHhcCCEEEEee
Confidence 455689999999998764355566666665433444433333
No 302
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=75.50 E-value=8.4 Score=31.74 Aligned_cols=55 Identities=15% Similarity=0.207 Sum_probs=42.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
+.=++||++|++-+-++++.+... +.++.++.|+|+.-.....+ ..+..++|+|+
T Consensus 75 giFalvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L----~~rPHvVvatP 133 (442)
T KOG0340|consen 75 GIFALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAIL----SDRPHVVVATP 133 (442)
T ss_pred cceEEEecchHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhc----ccCCCeEecCc
Confidence 446899999999999999999654 67899999998765443333 34667888886
No 303
>cd01447 Polysulfide_ST Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a terminal electron acceptor. The active site contains the same conserved cysteine that is the catalytic residue in other Rhodanese Homology Domain proteins.
Probab=75.34 E-value=2.4 Score=27.66 Aligned_cols=36 Identities=17% Similarity=0.181 Sum_probs=29.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
..++++||.+-..+...+..|+..|+. +..+.|++.
T Consensus 61 ~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~Gg~~ 97 (103)
T cd01447 61 DKPFVFYCASGWRSALAGKTLQDMGLKPVYNIEGGFK 97 (103)
T ss_pred CCeEEEEcCCCCcHHHHHHHHHHcChHHhEeecCcHH
Confidence 578999998877778888999988875 778888764
No 304
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=75.29 E-value=15 Score=34.61 Aligned_cols=54 Identities=19% Similarity=0.156 Sum_probs=43.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+.+++|.++|+.-|.+.++.+.. .+.++..+.|+++.+++.+.+ ..+|+++|+.
T Consensus 135 g~~v~IVTpTrELA~Qdae~m~~L~k~lGLsV~~i~GG~~~~eq~~~y------~~DIVygTPg 192 (970)
T PRK12899 135 GKPVHLVTVNDYLAQRDCEWVGSVLRWLGLTTGVLVSGSPLEKRKEIY------QCDVVYGTAS 192 (970)
T ss_pred cCCeEEEeCCHHHHHHHHHHHHHHHhhcCCeEEEEeCCCCHHHHHHHc------CCCEEEECCC
Confidence 44688889999999988888764 478899999999998876543 3689999975
No 305
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=75.23 E-value=2.1 Score=36.80 Aligned_cols=69 Identities=10% Similarity=0.113 Sum_probs=36.8
Q ss_pred CCcEEEeChHHHHHHHhc----CC-----cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 37 SCDILISTPLRLRLAIRR----KK-----IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 37 ~~~i~v~Tp~~l~~~~~~----~~-----~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
+..++..|...+.+.+.. +. ..+.+.+++++||+|.+.........+..++..+.....++ +++++.++
T Consensus 178 ~~~v~yi~~~~~~~~~~~~~~~~~~~~~~~~~~~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~i-iits~~~p 255 (450)
T PRK00149 178 NAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQI-VLTSDRPP 255 (450)
T ss_pred CCeEEEEEHHHHHHHHHHHHHcCcHHHHHHHHhcCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcE-EEECCCCH
Confidence 567888887766543321 11 12457889999999987553212223333333322233454 44555443
No 306
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=75.20 E-value=2 Score=38.46 Aligned_cols=41 Identities=15% Similarity=0.098 Sum_probs=29.3
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
=.+++++|+|||+-+... .+..++..+...++++|.+|.|-
T Consensus 350 GqtfDLLIVDEAqFIk~~-----al~~ilp~l~~~n~k~I~ISS~N 390 (738)
T PHA03368 350 GQDFNLLFVDEANFIRPD-----AVQTIMGFLNQTNCKIIFVSSTN 390 (738)
T ss_pred CCcccEEEEechhhCCHH-----HHHHHHHHHhccCccEEEEecCC
Confidence 347889999999997653 34444444444588899999884
No 307
>cd01448 TST_Repeat_1 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it is believed to be involved in protein interaction.
Probab=74.93 E-value=6.2 Score=26.76 Aligned_cols=36 Identities=17% Similarity=0.239 Sum_probs=29.7
Q ss_pred CCCEEEEecc-hHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQS-KERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~-~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
++++++||.+ -..+...+..|+..|++ +..+.||+.
T Consensus 79 ~~~vv~~c~~g~~~a~~~~~~l~~~G~~~v~~l~GG~~ 116 (122)
T cd01448 79 DDTVVVYDDGGGFFAARAWWTLRYFGHENVRVLDGGLQ 116 (122)
T ss_pred CCEEEEECCCCCccHHHHHHHHHHcCCCCEEEecCCHH
Confidence 6789999988 47888888899888875 888888874
No 308
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=74.85 E-value=17 Score=33.03 Aligned_cols=96 Identities=17% Similarity=0.192 Sum_probs=60.7
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEE--------------------e-----cCCCHHH
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVI--------------------H-----SDLSQTQ 198 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~--------------------~-----~~~~~~~ 198 (248)
.|.-.+..++++. ++++||.+++...|.+++..|+.. +..|..+ + +.--...
T Consensus 41 ~kt~~~a~~~~~~-~~p~Lvi~~n~~~A~ql~~el~~f~p~~~V~~f~sy~d~y~pe~y~P~~d~~~~k~~~~~~~i~~~ 119 (655)
T TIGR00631 41 GKTFTMANVIAQV-NRPTLVIAHNKTLAAQLYNEFKEFFPENAVEYFVSYYDYYQPEAYVPSKDTYIEKDASINDEIERL 119 (655)
T ss_pred HHHHHHHHHHHHh-CCCEEEEECCHHHHHHHHHHHHHhCCCCeEEEEeeecccCCccccCCCccccccccCCCChHHHHH
Confidence 4555666666665 689999999999999999999765 2224433 0 1111244
Q ss_pred HHHHHHHhhcCCceEEEEecccccCCCCCC----CcEEEeccCCCCcc
Q 042003 199 RENAVDDFRAGKTWVLIATDVIARGMDFKG----VNCVINYDFPDSGA 242 (248)
Q Consensus 199 r~~~~~~f~~g~~~ilv~T~~~~~Gidip~----~~~Vi~~~~p~~~~ 242 (248)
|..++..+.+++..|+|+|-.+-.|+=-|+ ....+-.|...+..
T Consensus 120 R~~al~~L~~~~~~ivVasv~~i~~l~~p~~~~~~~~~l~~G~~i~~~ 167 (655)
T TIGR00631 120 RHSATRSLLERRDVIVVASVSCIYGLGSPEEYLKMVLHLEVGKEIDRR 167 (655)
T ss_pred HHHHHHHHHhCCCeEEEEcHHHhcCCCCHHHHHhccEEEeCCCCcCHH
Confidence 667778877777778888855566654443 33444444444443
No 309
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=74.79 E-value=7.2 Score=34.63 Aligned_cols=45 Identities=16% Similarity=0.165 Sum_probs=33.1
Q ss_pred CCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 55 KKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 55 ~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
+...=.++++++|||||-+-. ..+..++..+...++.+|..|.|-
T Consensus 293 NsiRGQ~fnll~VDEA~FI~~-----~a~~tilgfm~q~~~KiIfISS~N 337 (668)
T PHA03372 293 NSIRGQNFHLLLVDEAHFIKK-----DAFNTILGFLAQNTTKIIFISSTN 337 (668)
T ss_pred ccccCCCCCEEEEehhhccCH-----HHHHHhhhhhcccCceEEEEeCCC
Confidence 344456788999999998643 446666777677788888998883
No 310
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=74.64 E-value=5.3 Score=26.18 Aligned_cols=61 Identities=20% Similarity=0.168 Sum_probs=40.6
Q ss_pred EEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHH------------HHHHHHHHhhcCCceEEEEecccccC
Q 042003 163 VLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQT------------QRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 163 ~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~------------~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
.|+.+.....+..+++.|...++.+....|-+-.. .+.+.+...-.+.-.|+++||.-.+|
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~iiiatD~D~EG 73 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLLKKADEIIIATDPDREG 73 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHHHSCSEEEEEC-SSHHH
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHhhhccEeeecCCCChHH
Confidence 47889999999999999986666777776644211 11333333334556899999987666
No 311
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=74.08 E-value=2.9 Score=36.07 Aligned_cols=39 Identities=18% Similarity=0.317 Sum_probs=22.7
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
...+++||||+|.+.... ...+++.+..+...++++-||
T Consensus 120 g~~KV~IIDEah~Ls~~A-----~NALLKtLEEPp~~viFILaT 158 (484)
T PRK14956 120 GKYKVYIIDEVHMLTDQS-----FNALLKTLEEPPAHIVFILAT 158 (484)
T ss_pred CCCEEEEEechhhcCHHH-----HHHHHHHhhcCCCceEEEeec
Confidence 467899999999986533 333444443333344443333
No 312
>PRK05320 rhodanese superfamily protein; Provisional
Probab=73.59 E-value=6.7 Score=30.93 Aligned_cols=38 Identities=13% Similarity=0.111 Sum_probs=33.4
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCCH
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLSQ 196 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~~ 196 (248)
.++++++||.+-..++..+..|++.|+. +..+.||+..
T Consensus 174 kdk~IvvyC~~G~Rs~~Aa~~L~~~Gf~~V~~L~GGi~~ 212 (257)
T PRK05320 174 AGKTVVSFCTGGIRCEKAAIHMQEVGIDNVYQLEGGILK 212 (257)
T ss_pred CCCeEEEECCCCHHHHHHHHHHHHcCCcceEEeccCHHH
Confidence 4678999999999999999999999984 8889999754
No 313
>PRK02362 ski2-like helicase; Provisional
Probab=73.51 E-value=6.2 Score=36.32 Aligned_cols=67 Identities=22% Similarity=0.386 Sum_probs=47.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC---CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----ccccC-CCCCCCc
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD---GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIARG-MDFKGVN 230 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~---~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~~G-idip~~~ 230 (248)
++++++.+|++.-|.+.++.++.. +.++..++|+.+.... . -+..+|+|||. .+..+ ..+.+++
T Consensus 67 ~~kal~i~P~raLa~q~~~~~~~~~~~g~~v~~~tGd~~~~~~-----~--l~~~~IiV~Tpek~~~llr~~~~~l~~v~ 139 (737)
T PRK02362 67 GGKALYIVPLRALASEKFEEFERFEELGVRVGISTGDYDSRDE-----W--LGDNDIIVATSEKVDSLLRNGAPWLDDIT 139 (737)
T ss_pred CCcEEEEeChHHHHHHHHHHHHHhhcCCCEEEEEeCCcCcccc-----c--cCCCCEEEECHHHHHHHHhcChhhhhhcC
Confidence 679999999999999999888765 7889999998765331 1 13468999994 22222 2245677
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
+||
T Consensus 140 lvV 142 (737)
T PRK02362 140 CVV 142 (737)
T ss_pred EEE
Confidence 776
No 314
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=73.21 E-value=15 Score=34.43 Aligned_cols=65 Identities=12% Similarity=0.169 Sum_probs=46.8
Q ss_pred HHHHHhccCCCCEEEEecchH----HHHHHHHHhhcCC--CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 151 LRQSFAESLNPPVLIFVQSKE----RAKELYGELAFDG--IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 151 l~~~~~~~~~~~~liF~~~~~----~~~~l~~~L~~~~--~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
+..++... ..++|++.+++. +.+++.+.+.+.+ ..+..++|+.++++|++ +..+..+||+++..+
T Consensus 107 ld~~l~~~-~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~----~~~~pp~IllTNpdM 177 (851)
T COG1205 107 LDHLLRDP-SARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRA----IIRNPPDILLTNPDM 177 (851)
T ss_pred HHHHhhCc-CccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHH----HHhCCCCEEEeCHHH
Confidence 33334433 457899989964 5567777776666 78999999999999884 445688999998643
No 315
>PRK13767 ATP-dependent helicase; Provisional
Probab=72.88 E-value=20 Score=33.84 Aligned_cols=69 Identities=19% Similarity=0.199 Sum_probs=47.8
Q ss_pred CCEEEEecchHHHHHHHHHhhc---------------C-CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-ccc-
Q 042003 161 PPVLIFVQSKERAKELYGELAF---------------D-GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-IAR- 222 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~---------------~-~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-~~~- 222 (248)
.++++.++++.-+.++++.|.. . +..+...||+.+..++...+. ...+|+|+|.- +..
T Consensus 85 ~~~LyIsPtraLa~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~----~~p~IlVtTPE~L~~l 160 (876)
T PRK13767 85 VYCLYVSPLRALNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLK----KPPHILITTPESLAIL 160 (876)
T ss_pred eEEEEEcCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHh----CCCCEEEecHHHHHHH
Confidence 3699999999998887765431 1 567899999999888766554 24689999962 211
Q ss_pred ----C--CCCCCCcEEE
Q 042003 223 ----G--MDFKGVNCVI 233 (248)
Q Consensus 223 ----G--idip~~~~Vi 233 (248)
. -.+.++++||
T Consensus 161 l~~~~~~~~l~~l~~VV 177 (876)
T PRK13767 161 LNSPKFREKLRTVKWVI 177 (876)
T ss_pred hcChhHHHHHhcCCEEE
Confidence 1 1345677776
No 316
>PTZ00424 helicase 45; Provisional
Probab=72.62 E-value=37 Score=28.46 Aligned_cols=70 Identities=14% Similarity=0.207 Sum_probs=47.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccc------ccCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVI------ARGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~------~~Gidip~~ 229 (248)
..++++++++++-+.++++.++.. +..+....|+....+. .+.+.++ .+|+|+|.-. ...+.+.++
T Consensus 96 ~~~~lil~Pt~~L~~Q~~~~~~~~~~~~~~~~~~~~g~~~~~~~---~~~~~~~-~~Ivv~Tp~~l~~~l~~~~~~l~~i 171 (401)
T PTZ00424 96 ACQALILAPTRELAQQIQKVVLALGDYLKVRCHACVGGTVVRDD---INKLKAG-VHMVVGTPGRVYDMIDKRHLRVDDL 171 (401)
T ss_pred CceEEEECCCHHHHHHHHHHHHHHhhhcCceEEEEECCcCHHHH---HHHHcCC-CCEEEECcHHHHHHHHhCCcccccc
Confidence 468999999999999888877654 3466677787765432 2333343 5799999632 234567777
Q ss_pred cEEE
Q 042003 230 NCVI 233 (248)
Q Consensus 230 ~~Vi 233 (248)
++||
T Consensus 172 ~lvV 175 (401)
T PTZ00424 172 KLFI 175 (401)
T ss_pred cEEE
Confidence 7776
No 317
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=72.60 E-value=33 Score=24.76 Aligned_cols=54 Identities=28% Similarity=0.376 Sum_probs=35.6
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCC-----CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDG-----IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~-----~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..++++.+++...+.++++.+.... .....+++... .+..+.+.++...++++|
T Consensus 54 ~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~v~~~t 112 (201)
T smart00487 54 GKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSK----REQLRKLESGKTDILVTT 112 (201)
T ss_pred CCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcch----HHHHHHHhcCCCCEEEeC
Confidence 4789999999988888888776543 34445555433 233344455555888888
No 318
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=72.60 E-value=12 Score=32.03 Aligned_cols=70 Identities=14% Similarity=0.267 Sum_probs=52.1
Q ss_pred CEEEEecchHHHHHHHHHhhc-----CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----c---ccCCCCCC
Q 042003 162 PVLIFVQSKERAKELYGELAF-----DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----I---ARGMDFKG 228 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~-----~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~---~~Gidip~ 228 (248)
-++|.++|++-|.++.+.+.. .+.++..+-||++.++ =+..|++...+|+|+|+- + ..++|+.+
T Consensus 81 galIIsPTRELa~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~---Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rs 157 (567)
T KOG0345|consen 81 GALIISPTRELARQIREVAQPFLEHLPNLNCELLVGGRSVEE---DIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRS 157 (567)
T ss_pred eEEEecCcHHHHHHHHHHHHHHHHhhhccceEEEecCccHHH---HHHHHHHhCCcEEEeCchhHHHHHhchhhhccccc
Confidence 479999999999888776643 3678889999966543 566778888899999973 2 34567667
Q ss_pred CcEEEe
Q 042003 229 VNCVIN 234 (248)
Q Consensus 229 ~~~Vi~ 234 (248)
++++|.
T Consensus 158 Le~LVL 163 (567)
T KOG0345|consen 158 LEILVL 163 (567)
T ss_pred cceEEe
Confidence 777763
No 319
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=71.94 E-value=37 Score=24.92 Aligned_cols=131 Identities=14% Similarity=0.132 Sum_probs=60.0
Q ss_pred EEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchH-HHHHHHhcCCcEEEEEcccccccccceeEEEEcCC
Q 042003 65 LVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFV-EELARSIMHDAVRVIVGRKNTASESIKQKLVFAGS 143 (248)
Q Consensus 65 lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 143 (248)
.|+|-...-. .+.+....++..+......+...|.|-.|.. ++....+.-+ ..............+.....
T Consensus 35 ~v~D~~g~~v---~lypdv~~iL~~L~~~gv~lavASRt~~P~~A~~~L~~l~i~----~~~~~~~~~~~~F~~~eI~~- 106 (169)
T PF12689_consen 35 VVVDSRGEEV---SLYPDVPEILQELKERGVKLAVASRTDEPDWARELLKLLEID----DADGDGVPLIEYFDYLEIYP- 106 (169)
T ss_dssp -EEETT--EE------TTHHHHHHHHHHCT--EEEEE--S-HHHHHHHHHHTT-C--------------CCECEEEESS-
T ss_pred EEEeCCCCEE---EeCcCHHHHHHHHHHCCCEEEEEECCCChHHHHHHHHhcCCC----ccccccccchhhcchhheec-
Confidence 5666544333 2667777777776667888888898865533 3333333222 11111111122222222222
Q ss_pred chhHHHHHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc
Q 042003 144 EEGKLLALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA 208 (248)
Q Consensus 144 ~~~~~~~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~ 208 (248)
..|...+..+.++.. ....+.|=+.....+.+ ++.|..+..+-.||+.+.-++-++.|++
T Consensus 107 -gsK~~Hf~~i~~~tgI~y~eMlFFDDe~~N~~~v----~~lGV~~v~v~~Glt~~~~~~gL~~~~~ 168 (169)
T PF12689_consen 107 -GSKTTHFRRIHRKTGIPYEEMLFFDDESRNIEVV----SKLGVTCVLVPDGLTWDEFERGLEKFRK 168 (169)
T ss_dssp -S-HHHHHHHHHHHH---GGGEEEEES-HHHHHHH----HTTT-EEEE-SSS--HHHHHHHHHHHHH
T ss_pred -CchHHHHHHHHHhcCCChhHEEEecCchhcceee----EecCcEEEEeCCCCCHHHHHHHHHHHhh
Confidence 257777777776553 33555554444444433 3368888888899999988888888764
No 320
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.74 E-value=2.7 Score=37.69 Aligned_cols=39 Identities=15% Similarity=0.225 Sum_probs=23.8
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCC--CccceeEEEEe
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACS--NPSIVRSLFSA 102 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~--~~~~~~i~~SA 102 (248)
..+++++||||+|++.... + +.+++.+. +..+.+|+.|-
T Consensus 122 ~gr~KViIIDEah~Ls~~A-a----NALLKTLEEPP~~v~FILaTt 162 (700)
T PRK12323 122 AGRFKVYMIDEVHMLTNHA-F----NAMLKTLEEPPEHVKFILATT 162 (700)
T ss_pred cCCceEEEEEChHhcCHHH-H----HHHHHhhccCCCCceEEEEeC
Confidence 4568899999999986543 3 33444432 34455555543
No 321
>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=71.36 E-value=11 Score=35.02 Aligned_cols=54 Identities=11% Similarity=0.121 Sum_probs=35.5
Q ss_pred CCEEEEe-cchHHHHHHHHHhhcC---------------------------CCeeEEEecCCCHHHHHHHHHHhhcCCce
Q 042003 161 PPVLIFV-QSKERAKELYGELAFD---------------------------GIRAGVIHSDLSQTQRENAVDDFRAGKTW 212 (248)
Q Consensus 161 ~~~liF~-~~~~~~~~l~~~L~~~---------------------------~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ 212 (248)
.+.+||+ ++++-+.++++.+++. ++++..+.||.+..... +... ....
T Consensus 62 ~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~---~~l~-~~p~ 137 (844)
T TIGR02621 62 PRRLVYVVNRRTVVDQVTEEAEKIGERLPDVPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEW---MLDP-HRPA 137 (844)
T ss_pred cceEEEeCchHHHHHHHHHHHHHHHHHhcccchhhhhhhhhhccccccccCCeEEEEEECCCChHHHH---HhcC-CCCc
Confidence 4567766 8888777776665432 36788889998865432 2223 3458
Q ss_pred EEEEec
Q 042003 213 VLIATD 218 (248)
Q Consensus 213 ilv~T~ 218 (248)
|+|+|-
T Consensus 138 IIVgT~ 143 (844)
T TIGR02621 138 VIVGTV 143 (844)
T ss_pred EEEECH
Confidence 999993
No 322
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=71.33 E-value=3.2 Score=37.40 Aligned_cols=76 Identities=25% Similarity=0.325 Sum_probs=59.8
Q ss_pred HHHHHHHHHhcc--CCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh---cCCceEEEEecccc
Q 042003 147 KLLALRQSFAES--LNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR---AGKTWVLIATDVIA 221 (248)
Q Consensus 147 ~~~~l~~~~~~~--~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~---~g~~~ilv~T~~~~ 221 (248)
|...|..++.+. .+.+++||..-....+-+...+...+ ....+.|.....+|++.+..|. +.++..|.+|.+.+
T Consensus 616 k~~~l~~~~~~l~~~ghrvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cfllstra~g 694 (696)
T KOG0383|consen 616 KLTLLLKMLKKLKSSGHRVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCFLLSTRAGG 694 (696)
T ss_pred HHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEEEeeccccc
Confidence 444444444432 26799999888888888888887777 8889999999999999999998 35678999999887
Q ss_pred cC
Q 042003 222 RG 223 (248)
Q Consensus 222 ~G 223 (248)
.|
T Consensus 695 ~g 696 (696)
T KOG0383|consen 695 LG 696 (696)
T ss_pred CC
Confidence 66
No 323
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=71.32 E-value=3 Score=38.07 Aligned_cols=17 Identities=24% Similarity=0.364 Sum_probs=14.2
Q ss_pred CceeEEEEecccccccc
Q 042003 60 SRVEYLVLDEADKLFEV 76 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~ 76 (248)
.+++++||||+|.+...
T Consensus 118 gr~KVIIIDEah~LT~~ 134 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNH 134 (830)
T ss_pred CCceEEEEeChhhCCHH
Confidence 46789999999998654
No 324
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=71.27 E-value=13 Score=32.02 Aligned_cols=56 Identities=23% Similarity=0.293 Sum_probs=40.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhc----C-CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 160 NPPVLIFVQSKERAKELYGELAF----D-GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~----~-~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
+-.++|.|+|++-|-+.+..+++ . ++.+..+-||.+...-+ +.... .+.+||||+-
T Consensus 154 ~~~vlIi~PTRELA~Q~~~eak~Ll~~h~~~~v~~viGG~~~~~e~---~kl~k-~~niliATPG 214 (543)
T KOG0342|consen 154 GTGVLIICPTRELAMQIFAEAKELLKYHESITVGIVIGGNNFSVEA---DKLVK-GCNILIATPG 214 (543)
T ss_pred CeeEEEecccHHHHHHHHHHHHHHHhhCCCcceEEEeCCccchHHH---HHhhc-cccEEEeCCc
Confidence 45799999999998887766654 2 67888999986643322 33334 6789999973
No 325
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=70.69 E-value=55 Score=27.54 Aligned_cols=81 Identities=15% Similarity=0.174 Sum_probs=54.6
Q ss_pred CchhHHHHHHHHHhccCCCCEEEEe-----cchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 143 SEEGKLLALRQSFAESLNPPVLIFV-----QSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 143 ~~~~~~~~l~~~~~~~~~~~~liF~-----~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
+...-.....++.+....+++.||- +|..-++.+++.|.+.|..+.+++=... +..++.+.....+ .++|++
T Consensus 229 ~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~--~~~eI~~~i~~a~-~~vvGs 305 (388)
T COG0426 229 NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDA--DPSEIVEEILDAK-GLVVGS 305 (388)
T ss_pred CHHHHHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccC--CHHHHHHHHhhcc-eEEEec
Confidence 3344455555555555444555544 5688899999999999998887765443 5666776665555 589999
Q ss_pred cccccCCCC
Q 042003 218 DVIARGMDF 226 (248)
Q Consensus 218 ~~~~~Gidi 226 (248)
++...+.-.
T Consensus 306 PT~~~~~~p 314 (388)
T COG0426 306 PTINGGAHP 314 (388)
T ss_pred CcccCCCCc
Confidence 988776543
No 326
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=70.32 E-value=49 Score=25.75 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=37.3
Q ss_pred CCCEEEEecc------------hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc
Q 042003 160 NPPVLIFVQS------------KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA 208 (248)
Q Consensus 160 ~~~~liF~~~------------~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~ 208 (248)
.+.+||+.|. ..+++.+++.|++.|+.|.. +...+..+-++.++.|.+
T Consensus 9 ~g~aLII~n~~f~~~~~~r~g~~~D~~~l~~~f~~lgF~V~~-~~nlt~~~~~~~l~~f~~ 68 (243)
T cd00032 9 RGLALIINNENFDKGLKDRDGTDVDAENLTKLFESLGYEVEV-KNNLTAEEILEELKEFAS 68 (243)
T ss_pred CCEEEEEechhcCCCCCCCCChHHHHHHHHHHHHHCCCEEEE-eCCCCHHHHHHHHHHHHh
Confidence 4567777763 47799999999999999865 666777788888888874
No 327
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=70.14 E-value=4.3 Score=34.62 Aligned_cols=48 Identities=25% Similarity=0.380 Sum_probs=34.8
Q ss_pred ccCceeE-EEEeccccccccC--cccccchhHhhhCCCccceeEEEEeecC
Q 042003 58 DLSRVEY-LVLDEADKLFEVG--NLLKHIDPVVKACSNPSIVRSLFSATLP 105 (248)
Q Consensus 58 ~~~~~~~-lIiDEah~~~~~~--~~~~~~~~~~~~~~~~~~~~i~~SAT~~ 105 (248)
++++-++ +.+||||.+++.. .+...+..+.+...++.+=++++|=.+.
T Consensus 251 D~dkPklVfFfDEAHLLF~da~kall~~ieqvvrLIRSKGVGv~fvTQ~P~ 301 (502)
T PF05872_consen 251 DLDKPKLVFFFDEAHLLFNDAPKALLDKIEQVVRLIRSKGVGVYFVTQNPT 301 (502)
T ss_pred CCCCceEEEEEechhhhhcCCCHHHHHHHHHHHHHhhccCceEEEEeCCCC
Confidence 3566666 5599999998754 4666777778877777777777777753
No 328
>PRK06526 transposase; Provisional
Probab=69.88 E-value=2.7 Score=33.03 Aligned_cols=71 Identities=13% Similarity=0.069 Sum_probs=40.1
Q ss_pred ccCCCcEEEeChHHHHHHHhcC----C-----cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 34 SKFSCDILISTPLRLRLAIRRK----K-----IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~~----~-----~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
...+..+++.|...+.+.+... . ..+.+.+++|+||+|...........+..++..... ...+|+.|...
T Consensus 123 ~~~g~~v~f~t~~~l~~~l~~~~~~~~~~~~l~~l~~~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~-~~s~IitSn~~ 201 (254)
T PRK06526 123 CQAGHRVLFATAAQWVARLAAAHHAGRLQAELVKLGRYPLLIVDEVGYIPFEPEAANLFFQLVSSRYE-RASLIVTSNKP 201 (254)
T ss_pred HHCCCchhhhhHHHHHHHHHHHHhcCcHHHHHHHhccCCEEEEcccccCCCCHHHHHHHHHHHHHHHh-cCCEEEEcCCC
Confidence 3356788888887776666421 1 125678999999999875322122334444433111 23456666664
Q ss_pred C
Q 042003 105 P 105 (248)
Q Consensus 105 ~ 105 (248)
+
T Consensus 202 ~ 202 (254)
T PRK06526 202 F 202 (254)
T ss_pred H
Confidence 3
No 329
>PRK04296 thymidine kinase; Provisional
Probab=69.59 E-value=7.8 Score=28.91 Aligned_cols=29 Identities=21% Similarity=0.347 Sum_probs=20.2
Q ss_pred EeChHHHHHHHhcCCcccCceeEEEEeccccc
Q 042003 42 ISTPLRLRLAIRRKKIDLSRVEYLVLDEADKL 73 (248)
Q Consensus 42 v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~ 73 (248)
+..+..+++.+.. .-.++++||+||+|.+
T Consensus 62 ~~~~~~~~~~~~~---~~~~~dvviIDEaq~l 90 (190)
T PRK04296 62 VSSDTDIFELIEE---EGEKIDCVLIDEAQFL 90 (190)
T ss_pred eCChHHHHHHHHh---hCCCCCEEEEEccccC
Confidence 4556666666554 2357889999999875
No 330
>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases. All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.
Probab=69.57 E-value=30 Score=25.31 Aligned_cols=60 Identities=23% Similarity=0.117 Sum_probs=38.3
Q ss_pred hHHHHHHHHHhccCCCCEEEEecc--------hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQS--------KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG 209 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~--------~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g 209 (248)
+...++.++.+.....+++|+.|+ ..+++.+.+.| ++++. .|+...+....++++.|+..
T Consensus 63 ~~~~~~~~l~~~~~~~~v~IvSNsaGs~~d~~~~~a~~~~~~l---gIpvl-~h~~kKP~~~~~i~~~~~~~ 130 (168)
T PF09419_consen 63 EYAEWLNELKKQFGKDRVLIVSNSAGSSDDPDGERAEALEKAL---GIPVL-RHRAKKPGCFREILKYFKCQ 130 (168)
T ss_pred HHHHHHHHHHHHCCCCeEEEEECCCCcccCccHHHHHHHHHhh---CCcEE-EeCCCCCccHHHHHHHHhhc
Confidence 444555555555434589999998 46666666666 34443 36555557777888888643
No 331
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=69.30 E-value=39 Score=24.14 Aligned_cols=46 Identities=13% Similarity=0.109 Sum_probs=35.8
Q ss_pred CEEEEecc-------hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh
Q 042003 162 PVLIFVQS-------KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR 207 (248)
Q Consensus 162 ~~liF~~~-------~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~ 207 (248)
+++||+.| -..+..+...|+..++.+....=+|+.+.++++.+.+.
T Consensus 1 ~VvlYttsl~giR~t~~~C~~ak~iL~~~~V~~~e~DVs~~~~~~~EL~~~~g 53 (147)
T cd03031 1 RVVLYTTSLRGVRKTFEDCNNVRAILESFRVKFDERDVSMDSGFREELRELLG 53 (147)
T ss_pred CEEEEEcCCcCCCCcChhHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhC
Confidence 46778776 78888999999999888888877788777777666544
No 332
>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=69.12 E-value=5.8 Score=28.71 Aligned_cols=52 Identities=23% Similarity=0.295 Sum_probs=34.7
Q ss_pred cCceeEEEEeccccccccCcccc--cchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLK--HIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
...++++|+||+=.....+ +.. .+..+++. .+...-+|+.+..+|+++.+.+
T Consensus 93 ~~~~dLlVLDEi~~a~~~g-li~~~~v~~ll~~-rp~~~evIlTGr~~p~~l~e~A 146 (159)
T cd00561 93 SGEYDLVILDEINYALGYG-LLDVEEVVDLLKA-KPEDLELVLTGRNAPKELIEAA 146 (159)
T ss_pred cCCCCEEEEechHhHhhCC-CCCHHHHHHHHHc-CCCCCEEEEECCCCCHHHHHhC
Confidence 4678999999998776655 322 34445554 4556677777777777665554
No 333
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=68.99 E-value=16 Score=34.40 Aligned_cols=55 Identities=20% Similarity=0.335 Sum_probs=42.8
Q ss_pred CCCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
+.-++|.++|++.+.++.+.+++. ++.+..+.|+...+ +-+...++| ..|+|||.
T Consensus 438 GPi~li~aPtrela~QI~r~~~kf~k~l~ir~v~vygg~~~~---~qiaelkRg-~eIvV~tp 496 (997)
T KOG0334|consen 438 GPIALILAPTRELAMQIHREVRKFLKLLGIRVVCVYGGSGIS---QQIAELKRG-AEIVVCTP 496 (997)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHHHhhcCceEEEecCCccHH---HHHHHHhcC-CceEEecc
Confidence 345889999999999999888653 77888888886654 455566778 78999986
No 334
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=68.90 E-value=54 Score=25.66 Aligned_cols=68 Identities=15% Similarity=0.169 Sum_probs=44.7
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC-CCee-EEEecCCCHHHHHHHHHHhhcCCceEEE
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD-GIRA-GVIHSDLSQTQRENAVDDFRAGKTWVLI 215 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~-~~~v-~~~~~~~~~~~r~~~~~~f~~g~~~ilv 215 (248)
-...+.+..... +.++.++-.+...++++++.|++. +..+ +.+||-+++++.+++.+.....+.++|+
T Consensus 93 l~~~ll~~~~~~-~~~v~llG~~~~v~~~a~~~l~~~y~l~i~g~~~Gyf~~~e~~~i~~~I~~s~~dil~ 162 (243)
T PRK03692 93 LWEALMARAGKE-GTPVFLVGGKPEVLAQTEAKLRTQWNVNIVGSQDGYFTPEQRQALFERIHASGAKIVT 162 (243)
T ss_pred HHHHHHHHHHhc-CCeEEEECCCHHHHHHHHHHHHHHhCCEEEEEeCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 333444444332 346666667777788888888654 4553 4667888777777788888887777664
No 335
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=68.88 E-value=4.4 Score=38.77 Aligned_cols=102 Identities=16% Similarity=0.049 Sum_probs=0.0
Q ss_pred hHHHHHHHhhcCCCcEEEEcccchh---hhcccccCCCcEEEeChHHHHHHHhcC--CcccCceeE--------------
Q 042003 4 QTTRECKKLAKGNKFQIKLMKKELV---RSTDLSKFSCDILISTPLRLRLAIRRK--KIDLSRVEY-------------- 64 (248)
Q Consensus 4 Q~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~i~v~Tp~~l~~~~~~~--~~~~~~~~~-------------- 64 (248)
||.+.+.+-.... +++..+-|-. -.....--.+||+++|...|..-+... .-.-+++++
T Consensus 434 QW~~EI~kH~~~~--lKv~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~qsr~~~~~SPL~~v 511 (1394)
T KOG0298|consen 434 QWFEEIHKHISSL--LKVLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRHQSRYMRPNSPLLMV 511 (1394)
T ss_pred HHHHHHHHhcccc--ceEEEEechhhhcccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhcccCCCCCCCchHHH
Q ss_pred ----EEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 65 ----LVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 65 ----lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
|++|||+++-...+....+...+-....+ +.|+|+-.....+.
T Consensus 512 ~wWRIclDEaQMvesssS~~a~M~~rL~~in~W-----~VTGTPiq~Iddl~ 558 (1394)
T KOG0298|consen 512 NWWRICLDEAQMVESSSSAAAEMVRRLHAINRW-----CVTGTPIQKIDDLF 558 (1394)
T ss_pred HHHHHhhhHHHhhcchHHHHHHHHHHhhhhcee-----eecCCchhhhhhhH
No 336
>PHA00350 putative assembly protein
Probab=68.69 E-value=5.4 Score=33.56 Aligned_cols=52 Identities=13% Similarity=0.110 Sum_probs=30.7
Q ss_pred eEEEEeccccccccCcc---------------------cccchhHhhhCCCccceeEEEEeecCchHHHHHHHh
Q 042003 63 EYLVLDEADKLFEVGNL---------------------LKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115 (248)
Q Consensus 63 ~~lIiDEah~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~ 115 (248)
.++||||||.++..... .......+....+....++++|=-+.. +...++.+
T Consensus 83 aLIViDEaq~~~p~r~~~~~~~~~~~p~~~~~~~~~~~p~~~i~~l~~HRH~G~DIiliTQ~~~~-Id~~iR~l 155 (399)
T PHA00350 83 ALYVIDEAQMIFPKRLGFKMANIFKRPFTDFEPHLPEGPENFLEAFMRHRHYNWDIILLTPNIRK-IHSDIRAM 155 (399)
T ss_pred CEEEEECchhhcCCCccccccccccccccccccccccCCHHHHHHHHHhcccCceEEEEeCCHHH-hhHHHHHh
Confidence 59999999998754211 112233333335667888888877543 44444444
No 337
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=68.60 E-value=11 Score=28.80 Aligned_cols=65 Identities=9% Similarity=-0.051 Sum_probs=34.4
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+..+++.+...+.... ....+.+++|+||+|.+..+. ...+..++.........+++++++.++
T Consensus 69 ~~~~~~~i~~~~~~~~~----~~~~~~~~liiDdi~~l~~~~--~~~L~~~~~~~~~~~~~~vl~~~~~~~ 133 (227)
T PRK08903 69 GGRNARYLDAASPLLAF----DFDPEAELYAVDDVERLDDAQ--QIALFNLFNRVRAHGQGALLVAGPAAP 133 (227)
T ss_pred CCCcEEEEehHHhHHHH----hhcccCCEEEEeChhhcCchH--HHHHHHHHHHHHHcCCcEEEEeCCCCH
Confidence 35567777765554332 123456799999999875432 233333333322222234566666543
No 338
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=68.46 E-value=9.3 Score=32.28 Aligned_cols=73 Identities=11% Similarity=0.044 Sum_probs=47.8
Q ss_pred CCCcEEEeChHHHHHHHhcC----C-----cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 36 FSCDILISTPLRLRLAIRRK----K-----IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~----~-----~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.++.++..|.+.+.+.+... . ... ++++++||.++.+.........+-.++..+.....|+++.|...|.
T Consensus 142 ~~a~v~y~~se~f~~~~v~a~~~~~~~~Fk~~y-~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~ 220 (408)
T COG0593 142 PNARVVYLTSEDFTNDFVKALRDNEMEKFKEKY-SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPK 220 (408)
T ss_pred CCceEEeccHHHHHHHHHHHHHhhhHHHHHHhh-ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCch
Confidence 45689999998775433221 1 123 7999999999998776434555555555544455588888877765
Q ss_pred hHH
Q 042003 107 FVE 109 (248)
Q Consensus 107 ~~~ 109 (248)
...
T Consensus 221 ~l~ 223 (408)
T COG0593 221 ELN 223 (408)
T ss_pred hhc
Confidence 444
No 339
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=68.28 E-value=4.9 Score=36.77 Aligned_cols=40 Identities=25% Similarity=0.130 Sum_probs=25.6
Q ss_pred eEEEEecccccccc--------CcccccchhHhhhCCCccceeEEEEeec
Q 042003 63 EYLVLDEADKLFEV--------GNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 63 ~~lIiDEah~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
++||+||||.--+- ......+..+-+. -++.+++..|||=
T Consensus 407 GvIvfDECHkAKNL~p~~~~k~TKtG~tVLdLQk~--LP~ARVVYASATG 454 (1300)
T KOG1513|consen 407 GVIVFDECHKAKNLVPTAGAKSTKTGKTVLDLQKK--LPNARVVYASATG 454 (1300)
T ss_pred eeEEehhhhhhcccccccCCCcCcccHhHHHHHHh--CCCceEEEeeccC
Confidence 58999999986541 1122333344443 2567899999994
No 340
>cd01535 4RHOD_Repeat_4 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative catalytic Cys residue.
Probab=68.14 E-value=8.8 Score=27.24 Aligned_cols=36 Identities=14% Similarity=0.002 Sum_probs=31.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
..+++++|.+-..+..++..|+..|+ ++..+.||+.
T Consensus 49 ~~~vVv~c~~g~~a~~aa~~L~~~G~~~v~~L~GG~~ 85 (145)
T cd01535 49 AERYVLTCGSSLLARFAAADLAALTVKPVFVLEGGTA 85 (145)
T ss_pred CCCEEEEeCCChHHHHHHHHHHHcCCcCeEEecCcHH
Confidence 57899999998888888889998877 7999999964
No 341
>PRK08116 hypothetical protein; Validated
Probab=68.08 E-value=9.6 Score=30.26 Aligned_cols=71 Identities=11% Similarity=0.117 Sum_probs=38.3
Q ss_pred CCCcEEEeChHHHHHHHhcC-----C------c-ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 36 FSCDILISTPLRLRLAIRRK-----K------I-DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~-----~------~-~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
.+..+++.+...+.+.+... . + .+.+.++||+||.+.-.........+..++........++|+.|-.
T Consensus 141 ~~~~v~~~~~~~ll~~i~~~~~~~~~~~~~~~~~~l~~~dlLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~ 220 (268)
T PRK08116 141 KGVPVIFVNFPQLLNRIKSTYKSSGKEDENEIIRSLVNADLLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL 220 (268)
T ss_pred cCCeEEEEEHHHHHHHHHHHHhccccccHHHHHHHhcCCCEEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence 36678887777666655321 0 0 2567899999999653222112333444444422233455555555
Q ss_pred cCc
Q 042003 104 LPD 106 (248)
Q Consensus 104 ~~~ 106 (248)
.+.
T Consensus 221 ~~~ 223 (268)
T PRK08116 221 SLE 223 (268)
T ss_pred CHH
Confidence 443
No 342
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=67.88 E-value=25 Score=21.35 Aligned_cols=60 Identities=23% Similarity=0.215 Sum_probs=38.5
Q ss_pred CEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 162 PVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
+.++.|....++..+.+.... +..+....|.....+....++.+..+ ..|+++++.-..|
T Consensus 1 ~~l~ivEg~~da~~~~~~~~~-~~~~~~~~G~~~~~~~~~~l~~~~~~-~~Iii~~D~D~~G 60 (76)
T smart00493 1 KVLIIVEGPADAIALEKAGGF-GGNVVALGGHLLKKEIIKLLKRLAKK-KEVILATDPDREG 60 (76)
T ss_pred CEEEEEcCHHHHHHHHHhcCC-CEEEEEEeeeecHHHHHHHHHHHhcC-CEEEEEcCCChhH
Confidence 357888888888888877642 23445555555444555555555444 5799999865555
No 343
>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=67.87 E-value=3 Score=33.48 Aligned_cols=16 Identities=31% Similarity=0.492 Sum_probs=13.1
Q ss_pred CceeEEEEeccccccc
Q 042003 60 SRVEYLVLDEADKLFE 75 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~ 75 (248)
-+.+++||||.|.++.
T Consensus 144 ~~vrmLIIDE~H~lLa 159 (302)
T PF05621_consen 144 LGVRMLIIDEFHNLLA 159 (302)
T ss_pred cCCcEEEeechHHHhc
Confidence 3567999999999764
No 344
>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=67.30 E-value=9.3 Score=27.67 Aligned_cols=68 Identities=19% Similarity=0.220 Sum_probs=38.5
Q ss_pred CCCcEEEeChH---------HHHHHHhcCCc--ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 36 FSCDILISTPL---------RLRLAIRRKKI--DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 36 ~~~~i~v~Tp~---------~l~~~~~~~~~--~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
..+|+.+..|. .+..+...-.. .....+++|+||||.+.... ...+.+.++. .+.+..++++|..+
T Consensus 66 ~~~d~~~~~~~~~~~~i~i~~ir~i~~~~~~~~~~~~~KviiI~~ad~l~~~a--~NaLLK~LEe-pp~~~~fiL~t~~~ 142 (162)
T PF13177_consen 66 NHPDFIIIKPDKKKKSIKIDQIREIIEFLSLSPSEGKYKVIIIDEADKLTEEA--QNALLKTLEE-PPENTYFILITNNP 142 (162)
T ss_dssp -CTTEEEEETTTSSSSBSHHHHHHHHHHCTSS-TTSSSEEEEEETGGGS-HHH--HHHHHHHHHS-TTTTEEEEEEES-G
T ss_pred cCcceEEEecccccchhhHHHHHHHHHHHHHHHhcCCceEEEeehHhhhhHHH--HHHHHHHhcC-CCCCEEEEEEECCh
Confidence 46788887764 22333322111 23578999999999987643 4445555554 44556666666554
Q ss_pred Cc
Q 042003 105 PD 106 (248)
Q Consensus 105 ~~ 106 (248)
..
T Consensus 143 ~~ 144 (162)
T PF13177_consen 143 SK 144 (162)
T ss_dssp GG
T ss_pred HH
Confidence 43
No 345
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=66.59 E-value=4.3 Score=35.48 Aligned_cols=18 Identities=22% Similarity=0.300 Sum_probs=14.7
Q ss_pred CceeEEEEeccccccccC
Q 042003 60 SRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~ 77 (248)
.+++++||||+|.+....
T Consensus 118 ~~~kV~iIDE~~~ls~~a 135 (509)
T PRK14958 118 GRFKVYLIDEVHMLSGHS 135 (509)
T ss_pred CCcEEEEEEChHhcCHHH
Confidence 567899999999986543
No 346
>PRK10287 thiosulfate:cyanide sulfurtransferase; Provisional
Probab=66.52 E-value=21 Score=23.67 Aligned_cols=36 Identities=14% Similarity=0.119 Sum_probs=28.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
+.++++||++-..+...+..|.+.|+.....-||+.
T Consensus 60 ~~~IVlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~~ 95 (104)
T PRK10287 60 NDTVKLYCNAGRQSGQAKEILSEMGYTHAENAGGLK 95 (104)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHcCCCeEEecCCHH
Confidence 457999999988888889999988886555567754
No 347
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=66.40 E-value=4.1 Score=38.25 Aligned_cols=36 Identities=14% Similarity=0.106 Sum_probs=29.4
Q ss_pred CceEEEEecccccCCCCCCCcEEEeccCCCCcccce
Q 042003 210 KTWVLIATDVIARGMDFKGVNCVINYDFPDSGAAYI 245 (248)
Q Consensus 210 ~~~ilv~T~~~~~Gidip~~~~Vi~~~~p~~~~~~~ 245 (248)
..+.+++-+++.+|-|.|.+=.++-+....|...-.
T Consensus 501 ~~~fifs~~al~egwd~~~~~~~~~l~~~~s~~~~~ 536 (986)
T PRK15483 501 TRRFLFSKWTLREGWDNPNVFQIAKLRSSGSETSKL 536 (986)
T ss_pred CeEEEEEhHHhhhcCCCCCeEEEEEeccCCchHHHH
Confidence 568999999999999999999888887666654333
No 348
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=66.23 E-value=6.2 Score=35.40 Aligned_cols=40 Identities=20% Similarity=0.279 Sum_probs=27.4
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccC-ceeEEEEeccccccc
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLS-RVEYLVLDEADKLFE 75 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~-~~~~lIiDEah~~~~ 75 (248)
..+++++.-.+.|++.-.++.+.++ .=.++||||||.+.+
T Consensus 322 p~aqlV~LPYQ~LL~~stR~slgI~LkdsIvIiDEAHNlid 362 (821)
T KOG1133|consen 322 PQAQLVTLPYQLLLHESTRKSLGISLKDSIVIIDEAHNLID 362 (821)
T ss_pred ccccEEeccHHHHHhHHHHHhcCccccccEEEEechhHHHH
Confidence 3578888877777766665543221 113799999999885
No 349
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=65.77 E-value=34 Score=22.19 Aligned_cols=64 Identities=14% Similarity=0.208 Sum_probs=40.9
Q ss_pred CEEEEecchH----H-HHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC-CCCCCcEE
Q 042003 162 PVLIFVQSKE----R-AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM-DFKGVNCV 232 (248)
Q Consensus 162 ~~liF~~~~~----~-~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi-dip~~~~V 232 (248)
++++.|++-- - +.++.+.+.+.|+.+-+.|...+.- .. .. ...+++++|.-+...+ ++|.++.+
T Consensus 4 kILvvCgsG~~TS~m~~~ki~~~l~~~gi~~~v~~~~~~e~--~~----~~-~~~D~iv~t~~~~~~~~~ip~~~~~ 73 (94)
T PRK10310 4 KIIVACGGAVATSTMAAEEIKELCQSHNIPVELIQCRVNEI--ET----YM-DGVHLICTTARVDRSFGDIPLVHGM 73 (94)
T ss_pred eEEEECCCchhHHHHHHHHHHHHHHHCCCeEEEEEecHHHH--hh----hc-CCCCEEEECCccccccCCCCEEEEe
Confidence 5788886632 2 4566677788899888888554421 11 11 3468999997776666 47755544
No 350
>PLN02955 8-amino-7-oxononanoate synthase
Probab=65.73 E-value=32 Score=29.91 Aligned_cols=47 Identities=13% Similarity=0.248 Sum_probs=32.3
Q ss_pred CCEE-EEecchHHHHHHHHHhhcCCCeeEE----------------EecCCCHHHHHHHHHHhh
Q 042003 161 PPVL-IFVQSKERAKELYGELAFDGIRAGV----------------IHSDLSQTQRENAVDDFR 207 (248)
Q Consensus 161 ~~~l-iF~~~~~~~~~l~~~L~~~~~~v~~----------------~~~~~~~~~r~~~~~~f~ 207 (248)
.+++ |++.+...+..+++.|.+.|+-+.. +++.-+.++-...++.+.
T Consensus 393 sPI~pI~ig~~~~a~~~~~~L~~~Gi~v~~i~yPtVP~g~~rLRi~lsA~Ht~edId~lv~~L~ 456 (476)
T PLN02955 393 SPIISLVVGNQEKALKASRYLLKSGFHVMAIRPPTVPPNSCRLRVTLSAAHTTEDVKKLITALS 456 (476)
T ss_pred CCEEEEEeCCHHHHHHHHHHHHHCCCEEEEECCCCCCCCCceEEEeeCCCCCHHHHHHHHHHHH
Confidence 3555 7778889999999999988765432 345556666666665553
No 351
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=65.61 E-value=13 Score=32.48 Aligned_cols=17 Identities=18% Similarity=0.348 Sum_probs=14.3
Q ss_pred cCceeEEEEeccccccc
Q 042003 59 LSRVEYLVLDEADKLFE 75 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~ 75 (248)
+.+.+++||||+|.+..
T Consensus 126 ~~~~KVvIIDEa~~Ls~ 142 (507)
T PRK06645 126 QGKHKIFIIDEVHMLSK 142 (507)
T ss_pred cCCcEEEEEEChhhcCH
Confidence 46788999999999855
No 352
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=65.60 E-value=10 Score=33.10 Aligned_cols=71 Identities=17% Similarity=0.221 Sum_probs=46.1
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCee-----EEEecCCCHHHHHHHHHHhhcCCceEEEEecc-------cccCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRA-----GVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-------IARGMDFK 227 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v-----~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-------~~~Gidip 227 (248)
+.=++|.++|++-|.++|+.+.+.-..+ +.+-|| +++.-+++--+..++|||+|+- -...++..
T Consensus 211 G~~ALVivPTREL~~Q~y~~~qKLl~~~hWIVPg~lmGG----EkkKSEKARLRKGiNILIgTPGRLvDHLknT~~i~~s 286 (708)
T KOG0348|consen 211 GPYALVIVPTRELALQIYETVQKLLKPFHWIVPGVLMGG----EKKKSEKARLRKGINILIGTPGRLVDHLKNTKSIKFS 286 (708)
T ss_pred CceEEEEechHHHHHHHHHHHHHHhcCceEEeeceeecc----cccccHHHHHhcCceEEEcCchHHHHHHhccchheee
Confidence 4458999999999999999998763222 233344 3444444434456799999973 13556666
Q ss_pred CCcEEEe
Q 042003 228 GVNCVIN 234 (248)
Q Consensus 228 ~~~~Vi~ 234 (248)
.++++|.
T Consensus 287 ~LRwlVl 293 (708)
T KOG0348|consen 287 RLRWLVL 293 (708)
T ss_pred eeeEEEe
Confidence 6666663
No 353
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=65.41 E-value=5.5 Score=29.29 Aligned_cols=52 Identities=17% Similarity=0.192 Sum_probs=34.3
Q ss_pred cCceeEEEEeccccccccCcccc--cchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLK--HIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
-..++++|+||+-...+.+ +.+ .+..+++. .+....+|++...+|+.+.+.+
T Consensus 95 ~~~~DlvVLDEi~~A~~~g-li~~~~v~~lL~~-rp~~~evVlTGR~~p~~l~e~A 148 (173)
T TIGR00708 95 DPELDLVLLDELTYALKYG-YLDVEEVVEALQE-RPGHQHVIITGRGCPQDLLELA 148 (173)
T ss_pred cCCCCEEEehhhHHHHHCC-CcCHHHHHHHHHh-CCCCCEEEEECCCCCHHHHHhC
Confidence 3678999999998777666 333 34444554 5556677777777776555554
No 354
>PRK01415 hypothetical protein; Validated
Probab=65.33 E-value=11 Score=29.42 Aligned_cols=38 Identities=11% Similarity=0.032 Sum_probs=32.9
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCCH
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLSQ 196 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~~ 196 (248)
.++++++||.+-..|+..+..|++.|+. +..+.||+..
T Consensus 170 k~k~Iv~yCtgGiRs~kAa~~L~~~Gf~~Vy~L~GGi~~ 208 (247)
T PRK01415 170 KGKKIAMVCTGGIRCEKSTSLLKSIGYDEVYHLKGGILQ 208 (247)
T ss_pred CCCeEEEECCCChHHHHHHHHHHHcCCCcEEEechHHHH
Confidence 3678999999999999999999999985 8889998643
No 355
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=65.26 E-value=4.2 Score=32.79 Aligned_cols=43 Identities=14% Similarity=0.155 Sum_probs=27.9
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
-..++.+|+||||.+..+. +..+.+.... .+...++++....+
T Consensus 127 ~~~fKiiIlDEcdsmtsda--q~aLrr~mE~-~s~~trFiLIcnyl 169 (346)
T KOG0989|consen 127 CPPFKIIILDECDSMTSDA--QAALRRTMED-FSRTTRFILICNYL 169 (346)
T ss_pred CCcceEEEEechhhhhHHH--HHHHHHHHhc-cccceEEEEEcCCh
Confidence 4567899999999987653 4445555555 34455566655554
No 356
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=65.12 E-value=12 Score=29.40 Aligned_cols=53 Identities=8% Similarity=0.068 Sum_probs=44.4
Q ss_pred ccceeEEEEcCCchhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCC
Q 042003 132 ESIKQKLVFAGSEEGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGI 185 (248)
Q Consensus 132 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~ 185 (248)
...+-.++-+......+..+...+ +..++.+.+|+++.+++++.++.|++.++
T Consensus 112 ~~~DavfLDlp~Pw~~i~~~~~~L-~~~gG~i~~fsP~ieQv~~~~~~L~~~gf 164 (247)
T PF08704_consen 112 SDFDAVFLDLPDPWEAIPHAKRAL-KKPGGRICCFSPCIEQVQKTVEALREHGF 164 (247)
T ss_dssp TSEEEEEEESSSGGGGHHHHHHHE--EEEEEEEEEESSHHHHHHHHHHHHHTTE
T ss_pred CcccEEEEeCCCHHHHHHHHHHHH-hcCCceEEEECCCHHHHHHHHHHHHHCCC
Confidence 346777888899998999998888 33378999999999999999999998764
No 357
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=64.64 E-value=4.6 Score=37.51 Aligned_cols=40 Identities=18% Similarity=0.246 Sum_probs=23.5
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
..+.+++||||+|+|...+ .+.+.+.++. .+....+|+.+
T Consensus 118 ~~~~KV~IIDEad~lt~~a--~NaLLK~LEE-pP~~~~fIl~t 157 (824)
T PRK07764 118 ESRYKIFIIDEAHMVTPQG--FNALLKIVEE-PPEHLKFIFAT 157 (824)
T ss_pred cCCceEEEEechhhcCHHH--HHHHHHHHhC-CCCCeEEEEEe
Confidence 3678899999999987643 2333333333 23344444443
No 358
>PRK00254 ski2-like helicase; Provisional
Probab=64.54 E-value=16 Score=33.51 Aligned_cols=67 Identities=27% Similarity=0.281 Sum_probs=47.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhc---CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----ccc-CCCCCCCc
Q 042003 160 NPPVLIFVQSKERAKELYGELAF---DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----IAR-GMDFKGVN 230 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~---~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~~~-Gidip~~~ 230 (248)
++++|+.+|++.-+.+.++.++. .+.++..++|+.+...+ . .++.+|+|+|.- +.. ...+.+++
T Consensus 68 ~~~~l~l~P~~aLa~q~~~~~~~~~~~g~~v~~~~Gd~~~~~~-----~--~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~ 140 (720)
T PRK00254 68 GGKAVYLVPLKALAEEKYREFKDWEKLGLRVAMTTGDYDSTDE-----W--LGKYDIIIATAEKFDSLLRHGSSWIKDVK 140 (720)
T ss_pred CCeEEEEeChHHHHHHHHHHHHHHhhcCCEEEEEeCCCCCchh-----h--hccCCEEEEcHHHHHHHHhCCchhhhcCC
Confidence 57899999999999998877763 47899999999875422 1 145689999942 211 13356677
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
+||
T Consensus 141 lvV 143 (720)
T PRK00254 141 LVV 143 (720)
T ss_pred EEE
Confidence 776
No 359
>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=64.27 E-value=34 Score=27.67 Aligned_cols=98 Identities=14% Similarity=0.145 Sum_probs=51.7
Q ss_pred hhHHHHHHHHHhcc-----C--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHH------------HH
Q 042003 145 EGKLLALRQSFAES-----L--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAV------------DD 205 (248)
Q Consensus 145 ~~~~~~l~~~~~~~-----~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~------------~~ 205 (248)
..|...+.+++... . +.+++|.+.+.++.+-+...|...+.....+.|.+-..+....- ..
T Consensus 95 S~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~ 174 (297)
T PF11496_consen 95 SGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSK 174 (297)
T ss_dssp -HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S---S---------------
T ss_pred CchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccccCCcccccccccccccc
Confidence 35666666655433 2 45899999999999999999998888888888866554433322 00
Q ss_pred h---hcCCceEEEEe-cccccC----CCCCCCcEEEeccCCCCcc
Q 042003 206 F---RAGKTWVLIAT-DVIARG----MDFKGVNCVINYDFPDSGA 242 (248)
Q Consensus 206 f---~~g~~~ilv~T-~~~~~G----idip~~~~Vi~~~~p~~~~ 242 (248)
. ......|-++| +-+... .+-..++.||-+|+..+..
T Consensus 175 ~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~ 219 (297)
T PF11496_consen 175 KKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTS 219 (297)
T ss_dssp -------SEEEEEEESS---TTTS--TT-S-EEEEEE-SST--TT
T ss_pred cccccccceEEEEecCccccccCCCccccCCcCEEEEecCCCCCC
Confidence 0 11223344444 434442 2233678999999976543
No 360
>PLN02160 thiosulfate sulfurtransferase
Probab=64.16 E-value=9.3 Score=26.77 Aligned_cols=36 Identities=19% Similarity=0.125 Sum_probs=30.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
++++++||.+-..+...+..|.+.|+ .+..+.||+.
T Consensus 81 ~~~IivyC~sG~RS~~Aa~~L~~~G~~~v~~l~GG~~ 117 (136)
T PLN02160 81 ADDILVGCQSGARSLKATTELVAAGYKKVRNKGGGYL 117 (136)
T ss_pred CCcEEEECCCcHHHHHHHHHHHHcCCCCeeecCCcHH
Confidence 57899999999999999999999888 4777888864
No 361
>PHA00012 I assembly protein
Probab=64.14 E-value=17 Score=29.86 Aligned_cols=55 Identities=16% Similarity=0.120 Sum_probs=32.3
Q ss_pred CceeEEEEeccccccccCccc----ccchhHhhhCCCccceeEEEEeecCchHHHHHHHh
Q 042003 60 SRVEYLVLDEADKLFEVGNLL----KHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~----~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~ 115 (248)
..-.++|+||||..+..-.+. ..+.+.+....+....++++|=.+.. ++..++..
T Consensus 80 p~gsLlVlDEaq~~fp~R~~~sk~p~~vie~l~~hRh~G~DvilITQ~ps~-VDs~IR~l 138 (361)
T PHA00012 80 SKNGLLVLDECGTWFNSRSWNDKERQPVIDWFLHARKLGWDIIFIIQDISI-MDKQAREA 138 (361)
T ss_pred CCCcEEEEECcccccCCCCcCcCCcHHHHHHHHHhccCCceEEEEcCCHHH-HhHHHHHh
Confidence 456799999999988543222 11333333335566777777776543 44444433
No 362
>COG1204 Superfamily II helicase [General function prediction only]
Probab=64.13 E-value=25 Score=32.62 Aligned_cols=52 Identities=27% Similarity=0.335 Sum_probs=41.9
Q ss_pred CCCEEEEecchHHHHHHHHHhh---cCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELA---FDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~---~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
+.|++-.+|.+.-|++.++.++ ..|++|..++|+++..... -++.+|+|+|.
T Consensus 76 ~~k~vYivPlkALa~Ek~~~~~~~~~~GirV~~~TgD~~~~~~~-------l~~~~ViVtT~ 130 (766)
T COG1204 76 GGKVVYIVPLKALAEEKYEEFSRLEELGIRVGISTGDYDLDDER-------LARYDVIVTTP 130 (766)
T ss_pred CCcEEEEeChHHHHHHHHHHhhhHHhcCCEEEEecCCcccchhh-------hccCCEEEEch
Confidence 5799999999999999999888 6799999999998754311 13567999994
No 363
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=63.95 E-value=39 Score=30.74 Aligned_cols=96 Identities=16% Similarity=0.209 Sum_probs=58.2
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcC--CCeeEEE--------------------ecC--CC---HHH
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFD--GIRAGVI--------------------HSD--LS---QTQ 198 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~--~~~v~~~--------------------~~~--~~---~~~ 198 (248)
.+.-.+..+.+.. ++++||.+++...|+++++.|+.. +..|..+ +.. -+ ...
T Consensus 44 ~ka~lia~l~~~~-~r~vLIVt~~~~~A~~l~~dL~~~~~~~~v~~f~s~~~~~~~~~~~P~~d~~~~~~~~~~~~~~~~ 122 (652)
T PRK05298 44 GKTFTMANVIARL-QRPTLVLAHNKTLAAQLYSEFKEFFPENAVEYFVSYYDYYQPEAYVPSSDTYIEKDSSINEEIERL 122 (652)
T ss_pred HHHHHHHHHHHHh-CCCEEEEECCHHHHHHHHHHHHHhcCCCeEEEeCChhhccCccccCCCCcccccccCCCChHHHHH
Confidence 4555555566554 679999999999999999999654 2224433 011 11 344
Q ss_pred HHHHHHHhhcCCceEEEEecccccCCCCCC----CcEEEeccCCCCcc
Q 042003 199 RENAVDDFRAGKTWVLIATDVIARGMDFKG----VNCVINYDFPDSGA 242 (248)
Q Consensus 199 r~~~~~~f~~g~~~ilv~T~~~~~Gidip~----~~~Vi~~~~p~~~~ 242 (248)
|..++..+.+++..|+|+|-.+-.++=-|+ ....+..|...+..
T Consensus 123 R~~~l~~L~~~~~~ivv~s~~al~~~~~~~~~~~~~~~l~~G~~i~~~ 170 (652)
T PRK05298 123 RHSATKSLLERRDVIVVASVSCIYGLGSPEEYLKMVLSLRVGQEIDRR 170 (652)
T ss_pred HHHHHHHHHhCCCEEEEEcHHHhcCCCCHHHHHhceEEEeCCCCcCHH
Confidence 677888888777667777744335544332 33344444444443
No 364
>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=63.89 E-value=36 Score=31.44 Aligned_cols=60 Identities=10% Similarity=0.117 Sum_probs=42.1
Q ss_pred HHhccCCCCEEEEecchHHHHHHHHHh----hcCCCeeEEEecC-----CCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 154 SFAESLNPPVLIFVQSKERAKELYGEL----AFDGIRAGVIHSD-----LSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 154 ~~~~~~~~~~liF~~~~~~~~~l~~~L----~~~~~~v~~~~~~-----~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
++....+..++|.+++..-|.+.++.+ +..|.++....++ +.+++|.... ..+|+++|+.
T Consensus 105 ~l~aL~g~~V~VVTpn~yLA~Rdae~m~~l~~~LGLsv~~~~~~s~~~~~~~~~rr~~y------~~dIvygTp~ 173 (762)
T TIGR03714 105 YLNALTGKGAMLVTTNDYLAKRDAEEMGPVYEWLGLTVSLGVVDDPDEEYDANEKRKIY------NSDIVYTTNS 173 (762)
T ss_pred HHHhhcCCceEEeCCCHHHHHHHHHHHHHHHhhcCCcEEEEECCCCccccCHHHHHHhC------CCCEEEECch
Confidence 334444678999999999888888777 4568888887665 4555544432 3689999975
No 365
>COG4588 AcfC Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]
Probab=63.68 E-value=43 Score=25.41 Aligned_cols=72 Identities=19% Similarity=0.125 Sum_probs=52.0
Q ss_pred HHHHHHHhhcCCCcEEEEcccchh-hhcccccCCCcEEEeChHHHHHHHhc---CCcccCceeEEEEeccccccccC
Q 042003 5 TTRECKKLAKGNKFQIKLMKKELV-RSTDLSKFSCDILISTPLRLRLAIRR---KKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~v~Tp~~l~~~~~~---~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
+.+....+.+..+ .+|....|.. ...+..++++||++++.++....+.+ +.++.+++.-+-+-|+-.+...|
T Consensus 35 L~~vA~~~~ektg-~kVnvt~GPq~tW~~kAkknADilfgaseqsalaia~~~~~~fs~~~i~ply~R~aiIlvkkg 110 (252)
T COG4588 35 LKDVAKKYEEKTG-IKVNVTAGPQATWNEKAKKNADILFGASEQSALAIAEDHKDSFSEKNIQPLYLRPAIILVKKG 110 (252)
T ss_pred HHHHHHHHHHHhC-eEEEEecCCcchhhhhhhccCceeecccHHHHHHHHHhccccccccccceeeeeceEEEecCC
Confidence 3456677778888 7787777776 66777888999999999766555443 34667777777777776666554
No 366
>PRK14974 cell division protein FtsY; Provisional
Probab=63.67 E-value=8.7 Score=31.61 Aligned_cols=55 Identities=20% Similarity=0.343 Sum_probs=38.2
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHh
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~ 115 (248)
.+.+++++|.+.++.........+..+.+. ..+...++.++|+......+....+
T Consensus 221 ~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~-~~pd~~iLVl~a~~g~d~~~~a~~f 275 (336)
T PRK14974 221 RGIDVVLIDTAGRMHTDANLMDELKKIVRV-TKPDLVIFVGDALAGNDAVEQAREF 275 (336)
T ss_pred CCCCEEEEECCCccCCcHHHHHHHHHHHHh-hCCceEEEeeccccchhHHHHHHHH
Confidence 357899999999987554466677777665 3445667788998776555555544
No 367
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=62.74 E-value=20 Score=30.95 Aligned_cols=69 Identities=23% Similarity=0.367 Sum_probs=47.0
Q ss_pred CCEEEEecchHHHHHHHHHhhcC----CCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec-----ccccC-CCCCCCc
Q 042003 161 PPVLIFVQSKERAKELYGELAFD----GIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD-----VIARG-MDFKGVN 230 (248)
Q Consensus 161 ~~~liF~~~~~~~~~l~~~L~~~----~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~-----~~~~G-idip~~~ 230 (248)
..++|.++|++-+.++++.-++. +..+....|+.+.. .-..+-.+.++|+|||. .++.| |.++++.
T Consensus 153 P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~----~q~~~~~~gcdIlvaTpGrL~d~~e~g~i~l~~~k 228 (482)
T KOG0335|consen 153 PRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLG----AQLRFIKRGCDILVATPGRLKDLIERGKISLDNCK 228 (482)
T ss_pred CceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchh----hhhhhhccCccEEEecCchhhhhhhcceeehhhCc
Confidence 57999999999999999888765 44666777773322 22334456788999996 33333 5566666
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
+++
T Consensus 229 ~~v 231 (482)
T KOG0335|consen 229 FLV 231 (482)
T ss_pred EEE
Confidence 554
No 368
>PRK15327 type III secretion system needle complex protein PrgH; Provisional
Probab=62.70 E-value=95 Score=26.27 Aligned_cols=67 Identities=12% Similarity=0.065 Sum_probs=49.8
Q ss_pred EcCCchhHHHHHHHHHhccC---------CCCEEEEecchHHHHHHHHHhhcCCC--eeEEEecCCCHHHHHHHHHHhhc
Q 042003 140 FAGSEEGKLLALRQSFAESL---------NPPVLIFVQSKERAKELYGELAFDGI--RAGVIHSDLSQTQRENAVDDFRA 208 (248)
Q Consensus 140 ~~~~~~~~~~~l~~~~~~~~---------~~~~liF~~~~~~~~~l~~~L~~~~~--~v~~~~~~~~~~~r~~~~~~f~~ 208 (248)
+..+.+.+...|..++.... ++.+.|.+++..+++...+.|.+..+ ++.+.. ..++++++.+++..
T Consensus 164 ~~ns~~~~v~tL~~~L~g~~~p~~Il~grD~~iyVLa~~qrd~~W~~Q~L~k~~~~~~v~v~~---~~~~~~~ie~~L~~ 240 (393)
T PRK15327 164 ILNSPQRQAAELDSLLGQEKERFQVLPGRDKMLYVAAQNERDTLWARQSLARGDYDKNARVIN---ENEENKRVSTWLDT 240 (393)
T ss_pred ecCchHHHHHHHHHHhcCCCCceEEEeCCCCcEEEEEccccHhHHHHHHHhhCCCcCceEEec---hHHHHHHHHHHHHh
Confidence 34455568888988887653 55899999999999999999988654 555543 45677777777665
Q ss_pred C
Q 042003 209 G 209 (248)
Q Consensus 209 g 209 (248)
+
T Consensus 241 ~ 241 (393)
T PRK15327 241 Y 241 (393)
T ss_pred c
Confidence 5
No 369
>PRK07414 cob(I)yrinic acid a,c-diamide adenosyltransferase; Validated
Probab=62.61 E-value=7.5 Score=28.71 Aligned_cols=52 Identities=19% Similarity=0.287 Sum_probs=34.4
Q ss_pred cCceeEEEEeccccccccCcccc--cchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLK--HIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
-..++++|+||+-...+.+ +.. .+..+++. .+...-+|+..-.+|+.+.+.+
T Consensus 113 ~~~~dlvVLDEi~~Al~~g-li~~eeVl~~L~~-rp~~~evILTGR~~p~~Lie~A 166 (178)
T PRK07414 113 EGRYSLVVLDELSLAIQFG-LIPETEVLEFLEK-RPSHVDVILTGPEMPESLLAIA 166 (178)
T ss_pred CCCCCEEEEehhHHHHHCC-CccHHHHHHHHHh-CCCCCEEEEECCCCCHHHHHhC
Confidence 4678999999998877766 433 34444554 4556677777777776555543
No 370
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=62.41 E-value=7 Score=36.03 Aligned_cols=42 Identities=24% Similarity=0.241 Sum_probs=29.6
Q ss_pred ccccCCCcEEEeChHHHHHHHhcCC--cccCceeEEEEecccccc
Q 042003 32 DLSKFSCDILISTPLRLRLAIRRKK--IDLSRVEYLVLDEADKLF 74 (248)
Q Consensus 32 ~~~~~~~~i~v~Tp~~l~~~~~~~~--~~~~~~~~lIiDEah~~~ 74 (248)
..+.+.++|+++=..-|.+-..++. +++++ .+||+||||.+-
T Consensus 217 R~l~edAdIIF~PYnYLiDp~iR~~~~v~Lkn-sIVIfDEAHNiE 260 (945)
T KOG1132|consen 217 RELKEDADIIFCPYNYLIDPKIRRSHKVDLKN-SIVIFDEAHNIE 260 (945)
T ss_pred hhhcccCcEEEechhhhcCHhhhccccccccc-cEEEEeccccHH
Confidence 4556679999998877766665544 33322 379999999875
No 371
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=62.40 E-value=56 Score=27.48 Aligned_cols=72 Identities=11% Similarity=0.034 Sum_probs=43.4
Q ss_pred hHHHHHHHHHhccCCCCEEEEecc----hHHHHHHHHHhhcCCCeeEEEecC---CCHHHHHHHHHHhhcCCceEEEEe
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQS----KERAKELYGELAFDGIRAGVIHSD---LSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~----~~~~~~l~~~L~~~~~~v~~~~~~---~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+..+-+.++....++++|.+.. ....+++.+.|++.++.+..+.+- -+.+.-.+..+.+++.+.+++|+-
T Consensus 17 g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~~~~~~~~~~~~D~Iiai 95 (383)
T PRK09860 17 DSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVAAGLKLLKENNCDSVISL 95 (383)
T ss_pred CHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEe
Confidence 345556666666533566666543 123457777777777776666553 234555666677777777777753
No 372
>PRK00162 glpE thiosulfate sulfurtransferase; Validated
Probab=62.01 E-value=11 Score=24.84 Aligned_cols=36 Identities=14% Similarity=0.222 Sum_probs=29.9
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
.++++++|.+-..+...+..|+..|+. +..+.|++.
T Consensus 58 ~~~ivv~c~~g~~s~~a~~~L~~~G~~~v~~l~GG~~ 94 (108)
T PRK00162 58 DTPVMVMCYHGNSSQGAAQYLLQQGFDVVYSIDGGFE 94 (108)
T ss_pred CCCEEEEeCCCCCHHHHHHHHHHCCchheEEecCCHH
Confidence 568999998888888888899998885 778888864
No 373
>cd01522 RHOD_1 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins.
Probab=61.95 E-value=9.8 Score=25.73 Aligned_cols=36 Identities=19% Similarity=0.255 Sum_probs=29.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
.+++++||.+-..+...+..|...|+. +..+.||+.
T Consensus 64 ~~~ivv~C~~G~rs~~aa~~L~~~G~~~v~~l~gG~~ 100 (117)
T cd01522 64 DRPVLLLCRSGNRSIAAAEAAAQAGFTNVYNVLEGFE 100 (117)
T ss_pred CCeEEEEcCCCccHHHHHHHHHHCCCCeEEECcCcee
Confidence 578999999988888899999999874 666777765
No 374
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=61.87 E-value=82 Score=25.26 Aligned_cols=65 Identities=11% Similarity=0.019 Sum_probs=53.7
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCC
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGK 210 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~ 210 (248)
.-++.+.+-++...-+-.+||++-...++.+.+.+..--..+..+..+.|..+-.++.+..++..
T Consensus 52 PVf~tV~EA~~~~~a~~svI~Vp~~~aadai~EAida~i~liv~ITEgIP~~D~~~~~~~a~~~g 116 (293)
T COG0074 52 PVFNTVEEAVKETGANASVIFVPPPFAADAILEAIDAGIKLVVIITEGIPVLDMLELKRYAREKG 116 (293)
T ss_pred cHHHHHHHHHHhhCCCEEEEecCcHHHHHHHHHHHhCCCcEEEEEeCCCCHHHHHHHHHHHHhcC
Confidence 45677777777776678999999999999999999776667888899999999888888777655
No 375
>TIGR02981 phageshock_pspE phage shock operon rhodanese PspE. Members of this very narrowly defined protein family are proteins active as rhodanese (EC 2.8.1.1) and found in the extended variants of the phage shock protein (psp operon) in Escherichia coli and a few closely related species. Note that the designation phage shock protein PspE has been applied, incorrectly, in many instances where the genome lacks the phage shock regulon entirely.
Probab=61.78 E-value=31 Score=22.70 Aligned_cols=36 Identities=11% Similarity=0.055 Sum_probs=27.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~ 195 (248)
..++++||.+-..+...+..|.+.|+.....-||+.
T Consensus 58 ~~~vvlyC~~G~rS~~aa~~L~~~G~~~v~~~GG~~ 93 (101)
T TIGR02981 58 NDTVKLYCNAGRQSGMAKDILLDMGYTHAENAGGIK 93 (101)
T ss_pred CCeEEEEeCCCHHHHHHHHHHHHcCCCeEEecCCHH
Confidence 457889999988888889999999885333347643
No 376
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=61.77 E-value=5.7 Score=25.80 Aligned_cols=44 Identities=23% Similarity=0.146 Sum_probs=25.1
Q ss_pred HHHhhcCCCeeEEE----ecCCCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 177 YGELAFDGIRAGVI----HSDLSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 177 ~~~L~~~~~~v~~~----~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
++.|++.|+.+..+ +.+-...-+.++.+.+++|+++++|.|..-
T Consensus 23 a~~L~~~Gi~~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~~~~ 70 (95)
T PF02142_consen 23 AKFLKEHGIEVTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINTPYP 70 (95)
T ss_dssp HHHHHHTT--EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE--T
T ss_pred HHHHHHcCCCceeeeeecccCccCCchhHHHHHHHcCCeEEEEEeCCC
Confidence 34556667773333 222122334469999999999999988643
No 377
>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=61.74 E-value=2.2e+02 Score=30.07 Aligned_cols=140 Identities=11% Similarity=0.148 Sum_probs=70.4
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec--Cc----hHHHHHHHhcCCcEEEEEccccccccc
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL--PD----FVEELARSIMHDAVRVIVGRKNTASES 133 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~--~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 133 (248)
..-+++|||||-++... .+..+++.......++|++.-+- ++ ......... + ...............
T Consensus 528 ~~~~vlIVDEAsMl~~~-----~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG~~f~~L~~~-g-v~t~~l~~i~rq~~~ 600 (1960)
T TIGR02760 528 SNKDIFVVDEANKLSNN-----ELLKLIDKAEQHNSKLILLNDSAQRQGMSAGSAIDLLKEG-G-VTTYAWVDTKQQKAS 600 (1960)
T ss_pred CCCCEEEEECCCCCCHH-----HHHHHHHHHhhcCCEEEEEcChhhcCccccchHHHHHHHC-C-CcEEEeecccccCcc
Confidence 56789999999987543 35556655445567777776552 11 222233222 1 111111110001111
Q ss_pred ceeEEEEcCCchhHHHHHHHHH-hcc-CCCCEEEEecchHHHHHHHHHhhc----C------CCeeEEEec-CCCHHHHH
Q 042003 134 IKQKLVFAGSEEGKLLALRQSF-AES-LNPPVLIFVQSKERAKELYGELAF----D------GIRAGVIHS-DLSQTQRE 200 (248)
Q Consensus 134 ~~~~~~~~~~~~~~~~~l~~~~-~~~-~~~~~liF~~~~~~~~~l~~~L~~----~------~~~v~~~~~-~~~~~~r~ 200 (248)
+ .+...+...+...+.+-+ ... ...+++|+..+.++.+.+....+. . +..+..+.. .++..++.
T Consensus 601 v---~i~~~~~~~r~~~ia~~y~~L~~~r~~tliv~~t~~dr~~Ln~~iR~~L~~~G~L~~~~~~~~~L~p~~lt~~e~r 677 (1960)
T TIGR02760 601 V---EISEAVDKLRVDYIASAWLDLTPDRQNSQVLATTHREQQDLTQIIRNALKQEGQLSRQEVTVPTLKPVNLTGIQRR 677 (1960)
T ss_pred e---eeeccCchHHHHHHHHHHHhcccccCceEEEcCCcHHHHHHHHHHHHHHHHcCCcCCCceEEEEeccCCCCHHHHh
Confidence 1 122223333444444433 322 234689999888877777666543 2 234444443 56666666
Q ss_pred HHHHHhhcCC
Q 042003 201 NAVDDFRAGK 210 (248)
Q Consensus 201 ~~~~~f~~g~ 210 (248)
-...|+.|.
T Consensus 678 -~~~~Yr~Gd 686 (1960)
T TIGR02760 678 -NAAHYKQGM 686 (1960)
T ss_pred -hHhhcCCCC
Confidence 336666665
No 378
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.70 E-value=11 Score=32.74 Aligned_cols=18 Identities=22% Similarity=0.324 Sum_probs=15.0
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++||||+|.+...
T Consensus 114 ~~~~KVvIIDEah~Ls~~ 131 (491)
T PRK14964 114 SSKFKVYIIDEVHMLSNS 131 (491)
T ss_pred cCCceEEEEeChHhCCHH
Confidence 467899999999998654
No 379
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=61.53 E-value=1.2e+02 Score=26.94 Aligned_cols=81 Identities=20% Similarity=0.185 Sum_probs=50.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-------eeEEEecCCCHHHHHHHH----HHhhcCCceEE--EEecccccCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-------RAGVIHSDLSQTQRENAV----DDFRAGKTWVL--IATDVIARGMDF 226 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-------~v~~~~~~~~~~~r~~~~----~~f~~g~~~il--v~T~~~~~Gidi 226 (248)
++-.+.|..+.-..+.+.......|+ +...+ +.-+..+-.-.+ .+...|+.-|+ |+-.-.++|+|+
T Consensus 530 pdG~v~ff~sylYmesiv~~w~~~gil~ei~k~KL~fI-etpD~~ETs~al~ny~~aC~~gRGavl~sVargkVsEgidF 608 (755)
T KOG1131|consen 530 PDGIVCFFPSYLYMESIVSRWYEQGILDEIMKYKLLFI-ETPDFRETSLALANYRYACDNGRGAVLLSVARGKVSEGIDF 608 (755)
T ss_pred CCceEEEEehHHHHHHHHHHHHHHhHHHHHhhCceEEE-eCCchhhhHHHHHHHHHHhcCCCCceEEEEecCccccCccc
Confidence 56788999988777777766655432 33332 221111112222 33345666666 666778999999
Q ss_pred CCCc--EEEeccCCCCc
Q 042003 227 KGVN--CVINYDFPDSG 241 (248)
Q Consensus 227 p~~~--~Vi~~~~p~~~ 241 (248)
.+-- .||+++.|.-.
T Consensus 609 ~hhyGR~ViM~gIP~qy 625 (755)
T KOG1131|consen 609 DHHYGREVIMEGIPYQY 625 (755)
T ss_pred ccccCceEEEEeccchh
Confidence 9766 99999999643
No 380
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=61.44 E-value=22 Score=24.91 Aligned_cols=36 Identities=6% Similarity=-0.021 Sum_probs=26.5
Q ss_pred CCCEEEEecc---hHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQS---KERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~---~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
..++|+||.+ -..+-.++-.|+..|+ ++.++.|+++
T Consensus 95 ~~~vVvY~~~~~~g~~A~r~~~~l~~~G~~~v~ildGG~~ 134 (138)
T cd01445 95 DKHLIATDGDDLGGFTACHIALAARLCGHPDVAILDGGFF 134 (138)
T ss_pred CCeEEEECCCCCcchHHHHHHHHHHHcCCCCeEEeCCCHH
Confidence 6789999975 3456666667777776 4888999864
No 381
>PF11019 DUF2608: Protein of unknown function (DUF2608); InterPro: IPR022565 This family is conserved in Bacteria. The function is not known.
Probab=61.32 E-value=71 Score=25.12 Aligned_cols=109 Identities=17% Similarity=0.199 Sum_probs=57.4
Q ss_pred cchhHhhhCCCccceeEEEEeecCchHHHHHHHhcCC------c-----EEEEEc---ccccccccceeEEEEcCCchhH
Q 042003 82 HIDPVVKACSNPSIVRSLFSATLPDFVEELARSIMHD------A-----VRVIVG---RKNTASESIKQKLVFAGSEEGK 147 (248)
Q Consensus 82 ~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~------~-----~~~~~~---~~~~~~~~~~~~~~~~~~~~~~ 147 (248)
.+..+++.+......++++|+-.++......+.+... . ..+... ......+-...-++++.. -.|
T Consensus 85 ~~~~~i~~lq~~~~~v~alT~~~~~~~~~t~~~Lk~~gi~fs~~~~~~~~~~~~~~~~~~~~~~~~~~~GIlft~~-~~K 163 (252)
T PF11019_consen 85 DVPNIINSLQNKGIPVIALTARGPNMEDWTLRELKSLGIDFSSSSFPEDGIISFPVFDSALSRAPSFYDGILFTGG-QDK 163 (252)
T ss_pred hHHHHHHHHHHCCCcEEEEcCCChhhHHHHHHHHHHCCCCccccccccCcceecccccCCCCCCceeecCeEEeCC-Ccc
Confidence 3444444444456778999998765333333332211 1 011000 111112222333444444 457
Q ss_pred HHHHHHHHhccC-CCCEEEEe-cchHHHHHHHHHhhcCCCeeEEEe
Q 042003 148 LLALRQSFAESL-NPPVLIFV-QSKERAKELYGELAFDGIRAGVIH 191 (248)
Q Consensus 148 ~~~l~~~~~~~~-~~~~liF~-~~~~~~~~l~~~L~~~~~~v~~~~ 191 (248)
-..|..++.... ..+.|||. ++.+....+.+.++..++...-+|
T Consensus 164 G~~L~~fL~~~~~~pk~IIfIDD~~~nl~sv~~a~k~~~I~f~G~~ 209 (252)
T PF11019_consen 164 GEVLKYFLDKINQSPKKIIFIDDNKENLKSVEKACKKSGIDFIGFH 209 (252)
T ss_pred HHHHHHHHHHcCCCCCeEEEEeCCHHHHHHHHHHHhhCCCcEEEEE
Confidence 777888777654 23455555 667888899999988887654443
No 382
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=61.05 E-value=6.6 Score=35.35 Aligned_cols=17 Identities=24% Similarity=0.333 Sum_probs=14.3
Q ss_pred CceeEEEEecccccccc
Q 042003 60 SRVEYLVLDEADKLFEV 76 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~ 76 (248)
...+++||||+|++...
T Consensus 118 g~~KV~IIDEah~Ls~~ 134 (647)
T PRK07994 118 GRFKVYLIDEVHMLSRH 134 (647)
T ss_pred CCCEEEEEechHhCCHH
Confidence 57889999999998654
No 383
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=60.81 E-value=14 Score=30.87 Aligned_cols=55 Identities=20% Similarity=0.244 Sum_probs=41.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhc-------CCC---eeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAF-------DGI---RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~-------~~~---~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
+.-.+|.|+|++-|.+.++.+.. .|+ .+...-||++..+..++.+. ...|+|+|.
T Consensus 246 GP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~----GvHivVATP 310 (610)
T KOG0341|consen 246 GPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRR----GVHIVVATP 310 (610)
T ss_pred CCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhc----CeeEEEcCc
Confidence 55689999999998887766643 343 56677899998877766653 468999996
No 384
>PRK09004 FMN-binding protein MioC; Provisional
Probab=60.39 E-value=56 Score=23.16 Aligned_cols=55 Identities=27% Similarity=0.314 Sum_probs=29.4
Q ss_pred EEEEecchHH----HHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC
Q 042003 163 VLIFVQSKER----AKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK 227 (248)
Q Consensus 163 ~liF~~~~~~----~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip 227 (248)
.|+|.+.-.. |+.+++.+.+.+..+.++.-. . .+.+.+.. .+++.|++.+.| ++|
T Consensus 5 ~I~ygS~tGnae~~A~~l~~~~~~~g~~~~~~~~~-~-------~~~l~~~~-~li~~~sT~G~G-e~p 63 (146)
T PRK09004 5 TLISGSTLGGAEYVADHLAEKLEEAGFSTETLHGP-L-------LDDLSASG-LWLIVTSTHGAG-DLP 63 (146)
T ss_pred EEEEEcCchHHHHHHHHHHHHHHHcCCceEEeccC-C-------HHHhccCC-eEEEEECCCCCC-CCC
Confidence 3455544444 445555556667776654321 1 23344443 466777777777 444
No 385
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=60.39 E-value=18 Score=34.46 Aligned_cols=40 Identities=20% Similarity=0.255 Sum_probs=25.9
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
+...+++||||+-++.... +..+++.......++|++.-+
T Consensus 431 l~~~~vlIVDEASMv~~~~-----m~~LL~~a~~~garvVLVGD~ 470 (988)
T PRK13889 431 LTSRDVLVIDEAGMVGTRQ-----LERVLSHAADAGAKVVLVGDP 470 (988)
T ss_pred cccCcEEEEECcccCCHHH-----HHHHHHhhhhCCCEEEEECCH
Confidence 5567899999999876543 444555433445666666554
No 386
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=60.06 E-value=9.1 Score=28.65 Aligned_cols=52 Identities=19% Similarity=0.145 Sum_probs=34.0
Q ss_pred cCceeEEEEeccccccccCcccc--cchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLK--HIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
-..++++|+||+-...+.+ +.. .+..+++. .+...-+|++.-.+|+++.+.+
T Consensus 113 ~~~ydlvVLDEi~~Al~~g-li~~eevi~~L~~-rp~~~evVlTGR~~p~~Lie~A 166 (191)
T PRK05986 113 DESYDLVVLDELTYALKYG-YLDVEEVLEALNA-RPGMQHVVITGRGAPRELIEAA 166 (191)
T ss_pred CCCCCEEEEehhhHHHHCC-CccHHHHHHHHHc-CCCCCEEEEECCCCCHHHHHhC
Confidence 4678999999998877766 433 34444544 4555666666666666555544
No 387
>TIGR03865 PQQ_CXXCW PQQ-dependent catabolism-associated CXXCW motif protein. Members of this protein family have a CXXXCW motif, consistent with a possible role in redox cofactor binding. This protein family shows strong relationships by phylogenetic profiling and conserved gene neighborhoods with a transport system for alcohols metabolized by PQQ-dependent enzymes.
Probab=60.03 E-value=13 Score=26.94 Aligned_cols=37 Identities=5% Similarity=-0.034 Sum_probs=29.1
Q ss_pred CCCCEEEEecchH-HHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 159 LNPPVLIFVQSKE-RAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 159 ~~~~~liF~~~~~-~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
.++++|+||.+-. .+...+..|...|+. |..+.||+.
T Consensus 115 ~d~~IVvYC~~G~~~S~~aa~~L~~~G~~~V~~l~GG~~ 153 (162)
T TIGR03865 115 KDRPLVFYCLADCWMSWNAAKRALAYGYSNVYWYPDGTD 153 (162)
T ss_pred CCCEEEEEECCCCHHHHHHHHHHHhcCCcceEEecCCHH
Confidence 3678999999854 566778888888885 888899864
No 388
>PF15586 Imm47: Immunity protein 47
Probab=59.10 E-value=14 Score=25.10 Aligned_cols=51 Identities=22% Similarity=0.368 Sum_probs=33.2
Q ss_pred cCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccCcccccchhHhhhC
Q 042003 35 KFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKAC 90 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~ 90 (248)
....++.||||+.|.+...+..+ +-.=.++|++|.+. ......+.+++..|
T Consensus 42 ~d~F~v~VcTP~wL~~~~~~~~~-~~gr~~LIv~~yd~----~~I~~~i~~~i~~c 92 (116)
T PF15586_consen 42 SDYFQVFVCTPKWLSKNCWKPGI-LWGRHMLIVEEYDY----DEIKKTIERIIESC 92 (116)
T ss_pred cceEEEEEEcHHHHHHhhcCCcc-eeccceEEEecCCH----HHHHHHHHHHHHHc
Confidence 34579999999999887776543 23345888888643 22445555555554
No 389
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.69 E-value=8.5 Score=36.00 Aligned_cols=16 Identities=25% Similarity=0.395 Sum_probs=13.6
Q ss_pred CceeEEEEeccccccc
Q 042003 60 SRVEYLVLDEADKLFE 75 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~ 75 (248)
...+++||||+|++..
T Consensus 118 gk~KViIIDEAh~LT~ 133 (944)
T PRK14949 118 GRFKVYLIDEVHMLSR 133 (944)
T ss_pred CCcEEEEEechHhcCH
Confidence 5678999999999854
No 390
>KOG1255 consensus Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=58.22 E-value=88 Score=24.45 Aligned_cols=68 Identities=10% Similarity=0.050 Sum_probs=53.6
Q ss_pred HHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEE
Q 042003 148 LLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLI 215 (248)
Q Consensus 148 ~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv 215 (248)
...+.+-.++......+||++-...+..+.+.+...-.-+..+..+.++++.-.+-+.+...+..=||
T Consensus 84 F~sV~eA~~~t~a~AsvIyVPpp~Aa~aI~eaieaEipLiVcITEGIPQhDMvrvk~~L~~Q~KtRLv 151 (329)
T KOG1255|consen 84 FNSVAEAKKETGADASVIYVPPPFAAAAIEEAIEAEIPLIVCITEGIPQHDMVRVKHALNSQSKTRLV 151 (329)
T ss_pred hhhHHHHHHhhCCCceEEEeCChhHHHHHHHHHhccCCEEEEecCCCchhhHHHHHHHHhhcccceec
Confidence 44555666666678999999999999999999988766788889999999999888888654433333
No 391
>COG1054 Predicted sulfurtransferase [General function prediction only]
Probab=58.14 E-value=16 Score=29.23 Aligned_cols=82 Identities=9% Similarity=0.096 Sum_probs=57.2
Q ss_pred HHhcCCcEEEEEcccccccccceeEEEEcCCc----hhHHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCC-ee
Q 042003 113 RSIMHDAVRVIVGRKNTASESIKQKLVFAGSE----EGKLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDGI-RA 187 (248)
Q Consensus 113 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~-~v 187 (248)
+.++.++..+.++..+.....+=++--.+... .+...++.+......++|++.||..--.|++....|...|+ .|
T Consensus 121 n~~l~D~~~vviDtRN~YE~~iG~F~gAv~p~~~tFrefP~~v~~~~~~~~~KkVvmyCTGGIRCEKas~~m~~~GF~eV 200 (308)
T COG1054 121 NELLSDPDVVVIDTRNDYEVAIGHFEGAVEPDIETFREFPAWVEENLDLLKDKKVVMYCTGGIRCEKASAWMKENGFKEV 200 (308)
T ss_pred HHHhcCCCeEEEEcCcceeEeeeeecCccCCChhhhhhhHHHHHHHHHhccCCcEEEEcCCceeehhhHHHHHHhcchhh
Confidence 34566777777776665555444443222222 23445566666666688999999999999999999999887 58
Q ss_pred EEEecCC
Q 042003 188 GVIHSDL 194 (248)
Q Consensus 188 ~~~~~~~ 194 (248)
..++||.
T Consensus 201 yhL~GGI 207 (308)
T COG1054 201 YHLEGGI 207 (308)
T ss_pred hcccchH
Confidence 8889984
No 392
>PRK01172 ski2-like helicase; Provisional
Probab=57.65 E-value=28 Score=31.76 Aligned_cols=67 Identities=21% Similarity=0.208 Sum_probs=45.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhc---CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc-----cccC-CCCCCCc
Q 042003 160 NPPVLIFVQSKERAKELYGELAF---DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV-----IARG-MDFKGVN 230 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~---~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~-----~~~G-idip~~~ 230 (248)
++++++.+|++.-+.+.++.+++ .|..+....|+.+...+. + +..+|+|+|.- +..+ ..+.+++
T Consensus 65 ~~k~v~i~P~raLa~q~~~~~~~l~~~g~~v~~~~G~~~~~~~~-----~--~~~dIiv~Tpek~~~l~~~~~~~l~~v~ 137 (674)
T PRK01172 65 GLKSIYIVPLRSLAMEKYEELSRLRSLGMRVKISIGDYDDPPDF-----I--KRYDVVILTSEKADSLIHHDPYIINDVG 137 (674)
T ss_pred CCcEEEEechHHHHHHHHHHHHHHhhcCCeEEEEeCCCCCChhh-----h--ccCCEEEECHHHHHHHHhCChhHHhhcC
Confidence 57899999999999988887764 477888888887643211 1 24589999972 2222 2355667
Q ss_pred EEE
Q 042003 231 CVI 233 (248)
Q Consensus 231 ~Vi 233 (248)
+||
T Consensus 138 lvV 140 (674)
T PRK01172 138 LIV 140 (674)
T ss_pred EEE
Confidence 665
No 393
>PRK08181 transposase; Validated
Probab=57.59 E-value=12 Score=29.79 Aligned_cols=69 Identities=10% Similarity=0.100 Sum_probs=39.5
Q ss_pred cCCCcEEEeChHHHHHHHhcC----Cc-----ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 35 KFSCDILISTPLRLRLAIRRK----KI-----DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 35 ~~~~~i~v~Tp~~l~~~~~~~----~~-----~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
..+..+++.|...+...+... .. .+.+.+++|+||.+...........+..++..... ...+|+.|-..
T Consensus 132 ~~g~~v~f~~~~~L~~~l~~a~~~~~~~~~l~~l~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~-~~s~IiTSN~~ 209 (269)
T PRK08181 132 ENGWRVLFTRTTDLVQKLQVARRELQLESAIAKLDKFDLLILDDLAYVTKDQAETSVLFELISARYE-RRSILITANQP 209 (269)
T ss_pred HcCCceeeeeHHHHHHHHHHHHhCCcHHHHHHHHhcCCEEEEeccccccCCHHHHHHHHHHHHHHHh-CCCEEEEcCCC
Confidence 457788888887777665331 11 25678999999999875433123344444443222 23444444443
No 394
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=57.49 E-value=94 Score=24.52 Aligned_cols=68 Identities=18% Similarity=0.172 Sum_probs=47.3
Q ss_pred HHHHHHHHHhccCCCCEEEEecchHHHHHHHHHhhcCC--Cee-EEEecCCCHHHHHHHHHHhhcCCceEEE
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSKERAKELYGELAFDG--IRA-GVIHSDLSQTQRENAVDDFRAGKTWVLI 215 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~--~~v-~~~~~~~~~~~r~~~~~~f~~g~~~ilv 215 (248)
-...+.+..... +.++-.+-...+.+++.+..|++.- .++ +.+||-.+..+.+.+++.....+.+||.
T Consensus 96 l~~~Ll~~a~~~-~~~vfllGgkp~V~~~a~~~l~~~~p~l~ivg~h~GYf~~~e~~~i~~~I~~s~pdil~ 166 (253)
T COG1922 96 LVEALLKRAAEE-GKRVFLLGGKPGVAEQAAAKLRAKYPGLKIVGSHDGYFDPEEEEAIVERIAASGPDILL 166 (253)
T ss_pred HHHHHHHHhCcc-CceEEEecCCHHHHHHHHHHHHHHCCCceEEEecCCCCChhhHHHHHHHHHhcCCCEEE
Confidence 444455544443 4566666667778888888888763 344 4556888888888899999888888764
No 395
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=57.42 E-value=25 Score=29.06 Aligned_cols=69 Identities=16% Similarity=0.217 Sum_probs=40.1
Q ss_pred chHHHHHHHhhcCCCcEEEEcccchh--hhcccccCCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 3 TQTTRECKKLAKGNKFQIKLMKKELV--RSTDLSKFSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 3 ~Q~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
+|.++.+++-.+....-.|+...... .......+..+++|+| .++++ .+-+.+++..|++--|.++...
T Consensus 319 eq~a~~lk~~~~~~~i~~Vhs~d~~R~EkV~~fR~G~~~lLiTT-----TILER-GVTfp~vdV~Vlgaeh~vfTes 389 (441)
T COG4098 319 EQVAAALKKKLPKETIASVHSEDQHRKEKVEAFRDGKITLLITT-----TILER-GVTFPNVDVFVLGAEHRVFTES 389 (441)
T ss_pred HHHHHHHHhhCCccceeeeeccCccHHHHHHHHHcCceEEEEEe-----ehhhc-ccccccceEEEecCCcccccHH
Confidence 45566664433333212333222222 2233455678999999 34544 4557999999998888776654
No 396
>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=57.27 E-value=9.6 Score=28.01 Aligned_cols=52 Identities=21% Similarity=0.290 Sum_probs=29.2
Q ss_pred cCceeEEEEeccccccccCcccc--cchhHhhhCCCccceeEEEEeecCchHHHHH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLK--HIDPVVKACSNPSIVRSLFSATLPDFVEELA 112 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~--~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~ 112 (248)
-..++++|+||+-...+.+ +.. .+..+++. .+...-+|++...+|+.+.+.+
T Consensus 94 ~~~~dlvILDEi~~a~~~g-ll~~~~v~~~l~~-rp~~~evVlTGR~~~~~l~e~A 147 (172)
T PF02572_consen 94 SGEYDLVILDEINYAVDYG-LLSEEEVLDLLEN-RPESLEVVLTGRNAPEELIEAA 147 (172)
T ss_dssp -TT-SEEEEETHHHHHHTT-SS-HHHHHHHHHT-S-TT-EEEEE-SS--HHHHHH-
T ss_pred CCCCCEEEEcchHHHhHCC-CccHHHHHHHHHc-CCCCeEEEEECCCCCHHHHHhC
Confidence 4679999999998777766 433 34445554 4566677777777766555554
No 397
>PHA00673 acetyltransferase domain containing protein
Probab=57.13 E-value=10 Score=27.32 Aligned_cols=54 Identities=9% Similarity=0.055 Sum_probs=39.0
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchHHHHHHHh
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFVEELARSI 115 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~~~~~~~~ 115 (248)
-.++.+.||+.|+--..| ...+.......+...+..+.+|||++..+-++....
T Consensus 86 ~~Ie~l~V~~~~RGqGIG--~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~fy~~~ 139 (154)
T PHA00673 86 GTTESIFVAAAHRPGGAG--MALLRATEALARDLGATGLYVSGPTEGRLVQLLPAA 139 (154)
T ss_pred EEEEEEEEChhccCCCHH--HHHHHHHHHHHHHCCCCEEEEecCCCccchHHHHhC
Confidence 357889999988854443 445555566656678899999999988777766654
No 398
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.12 E-value=23 Score=31.66 Aligned_cols=18 Identities=28% Similarity=0.373 Sum_probs=15.1
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++||||+|.+...
T Consensus 116 ~~~~KVvIIDEah~Lt~~ 133 (584)
T PRK14952 116 QSRYRIFIVDEAHMVTTA 133 (584)
T ss_pred cCCceEEEEECCCcCCHH
Confidence 467889999999998654
No 399
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=57.04 E-value=13 Score=32.94 Aligned_cols=18 Identities=17% Similarity=0.207 Sum_probs=14.9
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++||||+|.+...
T Consensus 117 ~~~~kViIIDE~~~Lt~~ 134 (559)
T PRK05563 117 EAKYKVYIIDEVHMLSTG 134 (559)
T ss_pred cCCeEEEEEECcccCCHH
Confidence 467889999999998653
No 400
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=56.95 E-value=33 Score=32.55 Aligned_cols=57 Identities=16% Similarity=0.155 Sum_probs=49.8
Q ss_pred CEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcC--CceEEEEec
Q 042003 162 PVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAG--KTWVLIATD 218 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g--~~~ilv~T~ 218 (248)
-+||..+-+.-.+.-...|...++++..++++++..+|..+++.+.+| .++++--|+
T Consensus 306 itvVISPL~SLm~DQv~~L~~~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtP 364 (941)
T KOG0351|consen 306 VTVVISPLISLMQDQVTHLSKKGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTP 364 (941)
T ss_pred ceEEeccHHHHHHHHHHhhhhcCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCH
Confidence 477777888888888888888899999999999999999999999999 788885554
No 401
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=56.92 E-value=1.1e+02 Score=26.25 Aligned_cols=71 Identities=18% Similarity=0.409 Sum_probs=46.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhc---CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCCCc
Q 042003 160 NPPVLIFVQSKERAKELYGELAF---DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKGVN 230 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~---~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~~~ 230 (248)
+..++++.++++-+.++.-...+ ++.+...+.|+-+..+ ..++++.| ..+++||+- ...-||+..++
T Consensus 294 ~p~~lvl~ptreLalqie~e~~kysyng~ksvc~ygggnR~e---qie~lkrg-veiiiatPgrlndL~~~n~i~l~siT 369 (629)
T KOG0336|consen 294 GPGVLVLTPTRELALQIEGEVKKYSYNGLKSVCVYGGGNRNE---QIEDLKRG-VEIIIATPGRLNDLQMDNVINLASIT 369 (629)
T ss_pred CCceEEEeccHHHHHHHHhHHhHhhhcCcceEEEecCCCchh---HHHHHhcC-ceEEeeCCchHhhhhhcCeeeeeeeE
Confidence 55799999999988877655544 3555555666544433 34444444 579999973 35567787888
Q ss_pred EEEe
Q 042003 231 CVIN 234 (248)
Q Consensus 231 ~Vi~ 234 (248)
+++.
T Consensus 370 YlVl 373 (629)
T KOG0336|consen 370 YLVL 373 (629)
T ss_pred EEEe
Confidence 7764
No 402
>PRK00142 putative rhodanese-related sulfurtransferase; Provisional
Probab=56.77 E-value=20 Score=29.28 Aligned_cols=38 Identities=8% Similarity=0.189 Sum_probs=32.7
Q ss_pred CCCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCCH
Q 042003 159 LNPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLSQ 196 (248)
Q Consensus 159 ~~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~~ 196 (248)
.++++++||.+-..++..+..|.+.|+ ++..+.||+..
T Consensus 170 kdk~IvvyC~~G~Rs~~aa~~L~~~Gf~~V~~L~GGi~~ 208 (314)
T PRK00142 170 KDKKVVMYCTGGIRCEKASAWMKHEGFKEVYQLEGGIIT 208 (314)
T ss_pred CcCeEEEECCCCcHHHHHHHHHHHcCCCcEEEecchHHH
Confidence 467999999998888999999999998 48899999654
No 403
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=56.76 E-value=8.3 Score=34.80 Aligned_cols=17 Identities=24% Similarity=0.323 Sum_probs=14.1
Q ss_pred CceeEEEEecccccccc
Q 042003 60 SRVEYLVLDEADKLFEV 76 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~ 76 (248)
.+.+++||||+|++...
T Consensus 117 gk~KV~IIDEVh~LS~~ 133 (702)
T PRK14960 117 GRFKVYLIDEVHMLSTH 133 (702)
T ss_pred CCcEEEEEechHhcCHH
Confidence 56789999999998654
No 404
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=56.66 E-value=24 Score=29.81 Aligned_cols=41 Identities=22% Similarity=0.341 Sum_probs=24.9
Q ss_pred CCCcEEEeChH-------HHHHHHhc--CCcccCceeEEEEecccccccc
Q 042003 36 FSCDILISTPL-------RLRLAIRR--KKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 36 ~~~~i~v~Tp~-------~l~~~~~~--~~~~~~~~~~lIiDEah~~~~~ 76 (248)
.++|+.+.+|+ .+..+... ..-...+.+++||||+|.+...
T Consensus 83 ~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~ 132 (394)
T PRK07940 83 THPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTER 132 (394)
T ss_pred CCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHH
Confidence 35788777774 22222221 1112357789999999998654
No 405
>PHA02558 uvsW UvsW helicase; Provisional
Probab=56.32 E-value=51 Score=28.86 Aligned_cols=63 Identities=16% Similarity=0.133 Sum_probs=38.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCC----CeeEEEecCCCHHHHHHHHHHhhcCCceEEEEe-cccc-cC-CCCCCCcEE
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDG----IRAGVIHSDLSQTQRENAVDDFRAGKTWVLIAT-DVIA-RG-MDFKGVNCV 232 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~----~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T-~~~~-~G-idip~~~~V 232 (248)
..+++|.+++++-+.++++.+++.. ..+..+.++.... ....|+|+| ..+. .+ ..+.+.++|
T Consensus 158 ~~~vLilvpt~eL~~Q~~~~l~~~~~~~~~~~~~i~~g~~~~-----------~~~~I~VaT~qsl~~~~~~~~~~~~~i 226 (501)
T PHA02558 158 EGKVLIIVPTTSLVTQMIDDFVDYRLFPREAMHKIYSGTAKD-----------TDAPIVVSTWQSAVKQPKEWFDQFGMV 226 (501)
T ss_pred CCeEEEEECcHHHHHHHHHHHHHhccccccceeEEecCcccC-----------CCCCEEEeeHHHHhhchhhhccccCEE
Confidence 3499999999999999999987643 2333344443221 235788888 2322 22 124456666
Q ss_pred E
Q 042003 233 I 233 (248)
Q Consensus 233 i 233 (248)
|
T Consensus 227 I 227 (501)
T PHA02558 227 I 227 (501)
T ss_pred E
Confidence 5
No 406
>cd01530 Cdc25 Cdc25 phosphatases are members of the Rhodanese Homology Domain superfamily. They activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. Cdc25A phosphatase functions to regulate S phase entry and Cdc25B is required for G2/M phase transition of the cell cycle. The Cdc25 domain binds oxyanions at the catalytic site and has the signature motif (H/YCxxxxxR).
Probab=55.35 E-value=13 Score=25.37 Aligned_cols=36 Identities=8% Similarity=0.071 Sum_probs=26.8
Q ss_pred CCCEEEEec-chHHHHHHHHHhhcC------------CC-eeEEEecCCC
Q 042003 160 NPPVLIFVQ-SKERAKELYGELAFD------------GI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~-~~~~~~~l~~~L~~~------------~~-~v~~~~~~~~ 195 (248)
..+++++|. +-..+...+..|+.. |+ .+..+.||+.
T Consensus 68 ~~~vv~yC~~sg~rs~~aa~~L~~~~~~~~~~~~~~~g~~~v~~L~GG~~ 117 (121)
T cd01530 68 RRVLIFHCEFSSKRGPRMARHLRNLDRELNSNRYPLLYYPEIYILEGGYK 117 (121)
T ss_pred CCEEEEECCCccccHHHHHHHHHHHhhhhccccCCCCCCCeEEEEcChhH
Confidence 568899996 766677777777763 44 6888999865
No 407
>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=55.26 E-value=23 Score=32.72 Aligned_cols=38 Identities=26% Similarity=0.267 Sum_probs=23.4
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
+...+++||||+-++.... +..++........++|++.
T Consensus 437 ~~~~~llIvDEasMv~~~~-----~~~Ll~~~~~~~~kliLVG 474 (744)
T TIGR02768 437 LSDKDVLVIDEAGMVGSRQ-----MARVLKEAEEAGAKVVLVG 474 (744)
T ss_pred CCCCcEEEEECcccCCHHH-----HHHHHHHHHhcCCEEEEEC
Confidence 4577899999999976543 2334443233445555555
No 408
>PRK06827 phosphoribosylpyrophosphate synthetase; Provisional
Probab=55.25 E-value=44 Score=28.13 Aligned_cols=61 Identities=18% Similarity=0.122 Sum_probs=45.3
Q ss_pred CCCEEEEe---cchHHHHHHHHHhhcCCC---eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccc
Q 042003 160 NPPVLIFV---QSKERAKELYGELAFDGI---RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIA 221 (248)
Q Consensus 160 ~~~~liF~---~~~~~~~~l~~~L~~~~~---~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~ 221 (248)
++.+||+= .|-.+....++.|++.|. .+...||-++ ...+.+.+.|.+|.++=+++|++..
T Consensus 264 gr~vIIVDDII~TG~Tl~~aa~~Lk~~GA~~V~~~~tH~vf~-~a~~~l~~~~~~g~i~~iv~TdTi~ 330 (382)
T PRK06827 264 GKDVLIVDDMIASGGSMIDAAKELKSRGAKKIIVAATFGFFT-NGLEKFDKAYEEGYFDRIIGTNLVY 330 (382)
T ss_pred CCEEEEEeCCcCcHHHHHHHHHHHHHcCCCEEEEEEEeecCh-HHHHHHHhhcccCCCCEEEEeCCCc
Confidence 44555543 445666777888887654 5677799989 7777788888999889999999863
No 409
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=55.21 E-value=1.1e+02 Score=25.35 Aligned_cols=29 Identities=14% Similarity=-0.013 Sum_probs=16.6
Q ss_pred cchHHHHHHHHHhhcCCCeeEEEecCCCH
Q 042003 168 QSKERAKELYGELAFDGIRAGVIHSDLSQ 196 (248)
Q Consensus 168 ~~~~~~~~l~~~L~~~~~~v~~~~~~~~~ 196 (248)
++.+.++++.+.+++.+..+.+-=||=+.
T Consensus 60 p~~~~v~~~~~~~~~~~~D~iIavGGGs~ 88 (347)
T cd08172 60 CSEENIERLAAQAKENGADVIIGIGGGKV 88 (347)
T ss_pred CCHHHHHHHHHHHHhcCCCEEEEeCCcHH
Confidence 56666666666666665555444444333
No 410
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=55.13 E-value=1.9e+02 Score=27.36 Aligned_cols=80 Identities=19% Similarity=0.311 Sum_probs=47.0
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCC-------CeeEEEecCCCHHHHHHHHHHh----h----cCCceEEEEecccccCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDG-------IRAGVIHSDLSQTQRENAVDDF----R----AGKTWVLIATDVIARGM 224 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~-------~~v~~~~~~~~~~~r~~~~~~f----~----~g~~~ilv~T~~~~~Gi 224 (248)
+.-+++|+++....+++...+...+ .+-.++-.. +..+-.+++..| . .|..-..||=--.++|+
T Consensus 561 p~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr-~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGl 639 (945)
T KOG1132|consen 561 PYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPR-SKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGL 639 (945)
T ss_pred ccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccC-CccchHHHHHHHHHHhhCccccceEEEEEecccccCCC
Confidence 5569999999877777755554321 111111111 222222233333 3 22334557777889999
Q ss_pred CCCC--CcEEEeccCCCC
Q 042003 225 DFKG--VNCVINYDFPDS 240 (248)
Q Consensus 225 dip~--~~~Vi~~~~p~~ 240 (248)
|..+ .+.||..|.|.-
T Consensus 640 DFsD~~~RaVI~tGlPyP 657 (945)
T KOG1132|consen 640 DFSDDNGRAVIITGLPYP 657 (945)
T ss_pred CccccCCceeEEecCCCC
Confidence 9996 668999999853
No 411
>PRK06620 hypothetical protein; Validated
Probab=55.10 E-value=8.5 Score=29.36 Aligned_cols=42 Identities=7% Similarity=0.099 Sum_probs=23.9
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
.+.+++++||+|.+-+ ..+..+...+.....++++.|.|.|+
T Consensus 84 ~~~d~lliDdi~~~~~-----~~lf~l~N~~~e~g~~ilits~~~p~ 125 (214)
T PRK06620 84 EKYNAFIIEDIENWQE-----PALLHIFNIINEKQKYLLLTSSDKSR 125 (214)
T ss_pred hcCCEEEEeccccchH-----HHHHHHHHHHHhcCCEEEEEcCCCcc
Confidence 4567999999996422 23334444333344566555555555
No 412
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=55.10 E-value=7.1 Score=36.92 Aligned_cols=73 Identities=15% Similarity=0.135 Sum_probs=47.5
Q ss_pred CcchHHHHHHHhhcCCCcEEEEcccc-h-hhhcccccCCCcEEEeChHHHH-HHHhc------CCcccCceeEEEEeccc
Q 042003 1 LATQTTRECKKLAKGNKFQIKLMKKE-L-VRSTDLSKFSCDILISTPLRLR-LAIRR------KKIDLSRVEYLVLDEAD 71 (248)
Q Consensus 1 L~~Q~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~i~v~Tp~~l~-~~~~~------~~~~~~~~~~lIiDEah 71 (248)
||.-=++++..+-..+| .+|.++.. . ..........|||..+|...|- +.++. +...++.+.+.||||+|
T Consensus 222 LA~RDaewmgply~fLG-Lsvg~i~~~~~~~~~rr~aY~~DItYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvD 300 (1112)
T PRK12901 222 LAKRDSEWMGPLYEFHG-LSVDCIDKHQPNSEARRKAYNADITYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVD 300 (1112)
T ss_pred hhhccHHHHHHHHHHhC-CceeecCCCCCCHHHHHHhCCCcceecCCCccccccchhccccchHhhhCcCCceeEeechh
Confidence 34444667777777888 66666644 2 3555556678999999996552 11211 12236778899999999
Q ss_pred ccc
Q 042003 72 KLF 74 (248)
Q Consensus 72 ~~~ 74 (248)
-++
T Consensus 301 SIL 303 (1112)
T PRK12901 301 SVL 303 (1112)
T ss_pred hhh
Confidence 665
No 413
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=54.83 E-value=63 Score=29.77 Aligned_cols=77 Identities=16% Similarity=0.009 Sum_probs=52.4
Q ss_pred HHHHHHHHhccCCCCEEEEecchH----HHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 148 LLALRQSFAESLNPPVLIFVQSKE----RAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 148 ~~~l~~~~~~~~~~~~liF~~~~~----~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
...+..++....+.++-|.+++.- +++.+...++..|.+++.+.++++.++|+..++ .+|.-+|+ .+.|
T Consensus 107 vA~l~a~l~AL~G~~VhvvT~NdyLA~RDae~m~~ly~~LGLsvg~i~~~~~~~err~aY~------~DItYgTn-~e~g 179 (764)
T PRK12326 107 AGAIAAAGYALQGRRVHVITVNDYLARRDAEWMGPLYEALGLTVGWITEESTPEERRAAYA------CDVTYASV-NEIG 179 (764)
T ss_pred HHHHHHHHHHHcCCCeEEEcCCHHHHHHHHHHHHHHHHhcCCEEEEECCCCCHHHHHHHHc------CCCEEcCC-cccc
Confidence 445555566666788889998854 445555555667999999999999999988775 35555554 3456
Q ss_pred CCCCCCcE
Q 042003 224 MDFKGVNC 231 (248)
Q Consensus 224 idip~~~~ 231 (248)
+|.-.-++
T Consensus 180 FDyLRDnm 187 (764)
T PRK12326 180 FDVLRDQL 187 (764)
T ss_pred cccchhhh
Confidence 66544443
No 414
>PLN02723 3-mercaptopyruvate sulfurtransferase
Probab=54.38 E-value=27 Score=28.51 Aligned_cols=46 Identities=20% Similarity=0.196 Sum_probs=34.3
Q ss_pred HHHHHHhcc---CCCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 150 ALRQSFAES---LNPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 150 ~l~~~~~~~---~~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
.+..++... .++++++||++-..+..++-.|+..|+. +..+.|++.
T Consensus 256 el~~~~~~~gi~~~~~iv~yC~sG~~A~~~~~~L~~~G~~~v~~YdGs~~ 305 (320)
T PLN02723 256 ELKKRFEQEGISLDSPIVASCGTGVTACILALGLHRLGKTDVPVYDGSWT 305 (320)
T ss_pred HHHHHHHhcCCCCCCCEEEECCcHHHHHHHHHHHHHcCCCCeeEeCCCHH
Confidence 344444432 2578999999988888888888888874 889999854
No 415
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=54.19 E-value=12 Score=32.95 Aligned_cols=40 Identities=13% Similarity=0.226 Sum_probs=23.7
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
....+++||||||.+.... ...+...+.. .+....+|+.+
T Consensus 115 ~~~~KVvIIDEad~Lt~~A--~NALLK~LEE-pp~~t~FIL~t 154 (535)
T PRK08451 115 MARFKIFIIDEVHMLTKEA--FNALLKTLEE-PPSYVKFILAT 154 (535)
T ss_pred cCCeEEEEEECcccCCHHH--HHHHHHHHhh-cCCceEEEEEE
Confidence 4678999999999986543 2333333333 23445545444
No 416
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=54.01 E-value=1.2e+02 Score=25.62 Aligned_cols=70 Identities=20% Similarity=0.166 Sum_probs=44.0
Q ss_pred HHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEecCC---CHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHSDL---SQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~~~---~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+.+-++++.. +++++|.+... ...+.+.+.|++.++.+..+.+.. +..+-.+..+.+++.+.+.+|+-
T Consensus 10 ~l~~l~~~~~~~-g~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~~~~~~v~~~~~~~~~~~~D~IIai 86 (386)
T cd08191 10 QRRQLPRLAARL-GSRALIVTDERMAGTPVFAELVQALAAAGVEVEVFDGVLPDLPRSELCDAASAAARAGPDVIIGL 86 (386)
T ss_pred HHHHHHHHHHHc-CCeEEEEECcchhhcchHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 345555666655 36787777542 244567777887788877776554 34444455666777777777754
No 417
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=53.84 E-value=82 Score=25.73 Aligned_cols=56 Identities=20% Similarity=0.097 Sum_probs=38.1
Q ss_pred HHHHHhccCCCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh
Q 042003 151 LRQSFAESLNPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR 207 (248)
Q Consensus 151 l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~ 207 (248)
+.++++.. +.+++|.-+...-...+.+.|++.|+++....|.-..+.-+.+...|+
T Consensus 68 ~~eI~~ln-pd~VLIIGGp~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~ 123 (337)
T COG2247 68 LDEIIELN-PDLVLIIGGPIAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFR 123 (337)
T ss_pred HHHHHhhC-CceEEEECCCCcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHH
Confidence 33444444 678888887777777778888877877777777666666566655554
No 418
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=53.76 E-value=1.2e+02 Score=25.54 Aligned_cols=71 Identities=14% Similarity=0.053 Sum_probs=41.5
Q ss_pred HHHHHHHHHhcc---CCCCEEEEecch--HH---HHHHHHHhhcCCCeeEEEecCC---CHHHHHHHHHHhhcCCceEEE
Q 042003 147 KLLALRQSFAES---LNPPVLIFVQSK--ER---AKELYGELAFDGIRAGVIHSDL---SQTQRENAVDDFRAGKTWVLI 215 (248)
Q Consensus 147 ~~~~l~~~~~~~---~~~~~liF~~~~--~~---~~~l~~~L~~~~~~v~~~~~~~---~~~~r~~~~~~f~~g~~~ilv 215 (248)
..+.+-++++.. ..++++|.+... +. .+.+.+.|++.++.+..+.+.. +.+.-.+..+.+++.+.+++|
T Consensus 10 ~~~~l~~~l~~~~~~g~kr~livtd~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~II 89 (383)
T cd08186 10 AIEKIGEILKDLKSKGISKVLLVTGKSAYKKSGAWDKVEPALDEHGIEYVLYNKVTPNPTVDQVDEAAKLGREFGAQAVI 89 (383)
T ss_pred HHHHHHHHHHHhcccCCCEEEEEcCccHHhhcChHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 344455555443 235777777532 11 3567777777777766665443 344556666777777777776
Q ss_pred Ee
Q 042003 216 AT 217 (248)
Q Consensus 216 ~T 217 (248)
+-
T Consensus 90 ai 91 (383)
T cd08186 90 AI 91 (383)
T ss_pred Ee
Confidence 43
No 419
>PRK00676 hemA glutamyl-tRNA reductase; Validated
Probab=53.68 E-value=71 Score=26.44 Aligned_cols=83 Identities=14% Similarity=0.134 Sum_probs=47.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHH--H--HhhcCCceEEEE----ecccccCCC---CCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAV--D--DFRAGKTWVLIA----TDVIARGMD---FKG 228 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~--~--~f~~g~~~ilv~----T~~~~~Gid---ip~ 228 (248)
.++.+.++..-+.++.+++.|.+.|..-..+..+........-. + .|. .+.+|+|+ |..-.--+. +.+
T Consensus 173 ~~k~vLvIGaGem~~l~a~~L~~~g~~~i~v~nRt~~~~~~~~~~~~~~~~~-~~~DvVIs~t~~Tas~~p~i~~~~~~~ 251 (338)
T PRK00676 173 KKASLLFIGYSEINRKVAYYLQRQGYSRITFCSRQQLTLPYRTVVREELSFQ-DPYDVIFFGSSESAYAFPHLSWESLAD 251 (338)
T ss_pred cCCEEEEEcccHHHHHHHHHHHHcCCCEEEEEcCCccccchhhhhhhhhhcc-cCCCEEEEcCCcCCCCCceeeHHHHhh
Confidence 45677777778999999999999987544444433211111000 0 222 45677775 333222111 111
Q ss_pred --CcEEEeccCCCCccc
Q 042003 229 --VNCVINYDFPDSGAA 243 (248)
Q Consensus 229 --~~~Vi~~~~p~~~~~ 243 (248)
-+.+|++..|++++.
T Consensus 252 ~~~r~~iDLAvPRdId~ 268 (338)
T PRK00676 252 IPDRIVFDFNVPRTFPW 268 (338)
T ss_pred ccCcEEEEecCCCCCcc
Confidence 158999999999863
No 420
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=53.61 E-value=20 Score=22.91 Aligned_cols=42 Identities=17% Similarity=0.122 Sum_probs=27.3
Q ss_pred HHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 177 YGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 177 ~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
++.|++.|+.+..++..... .+..+.+.+++|+++++|.|..
T Consensus 23 a~~L~~~Gi~~~~~~~ki~~-~~~~i~~~i~~g~id~VIn~~~ 64 (90)
T smart00851 23 AKFLREAGLPVKTLHPKVHG-GILAILDLIKNGEIDLVINTLY 64 (90)
T ss_pred HHHHHHCCCcceeccCCCCC-CCHHHHHHhcCCCeEEEEECCC
Confidence 34455677776433333221 2346899999999999999864
No 421
>PRK11493 sseA 3-mercaptopyruvate sulfurtransferase; Provisional
Probab=53.44 E-value=28 Score=27.74 Aligned_cols=36 Identities=17% Similarity=0.108 Sum_probs=30.7
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~-~v~~~~~~~~ 195 (248)
++++++||++-..+..++..|+..|+ ++..+.|++.
T Consensus 231 ~~~ii~yC~~G~~A~~~~~~l~~~G~~~v~~y~Gs~~ 267 (281)
T PRK11493 231 DRPIIASCGSGVTAAVVVLALATLDVPNVKLYDGAWS 267 (281)
T ss_pred CCCEEEECCcHHHHHHHHHHHHHcCCCCceeeCCCHH
Confidence 56899999998888888999988888 4889998854
No 422
>PRK04132 replication factor C small subunit; Provisional
Probab=53.27 E-value=21 Score=33.40 Aligned_cols=37 Identities=19% Similarity=0.208 Sum_probs=22.1
Q ss_pred ceeEEEEeccccccccCcccccchhHhhhCCCccceeEEE
Q 042003 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLF 100 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 100 (248)
+.+++|+||||.+...+ ...+...++. .+..+.+++.
T Consensus 630 ~~KVvIIDEaD~Lt~~A--QnALLk~lEe-p~~~~~FILi 666 (846)
T PRK04132 630 SFKIIFLDEADALTQDA--QQALRRTMEM-FSSNVRFILS 666 (846)
T ss_pred CCEEEEEECcccCCHHH--HHHHHHHhhC-CCCCeEEEEE
Confidence 57899999999986532 3344444443 2344454444
No 423
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=53.13 E-value=27 Score=30.37 Aligned_cols=17 Identities=18% Similarity=0.307 Sum_probs=14.2
Q ss_pred cCceeEEEEeccccccc
Q 042003 59 LSRVEYLVLDEADKLFE 75 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~ 75 (248)
+.+.+++|+||+|.+..
T Consensus 115 ~~~~kVvIIDE~h~Lt~ 131 (472)
T PRK14962 115 EGKYKVYIIDEVHMLTK 131 (472)
T ss_pred cCCeEEEEEEChHHhHH
Confidence 46778999999999854
No 424
>COG2927 HolC DNA polymerase III, chi subunit [DNA replication, recombination, and repair]
Probab=53.07 E-value=81 Score=22.45 Aligned_cols=78 Identities=21% Similarity=0.043 Sum_probs=48.9
Q ss_pred HHHHHHhccC--CCCEEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC
Q 042003 150 ALRQSFAESL--NPPVLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK 227 (248)
Q Consensus 150 ~l~~~~~~~~--~~~~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip 227 (248)
.+..++++.- +.|++|-|.+..+++.+-+.|=...-.-.+=|+.-.. ....+. .|+|++..-. =|-+
T Consensus 17 ~~c~L~~k~~~~G~rvlI~~~d~~q~e~LD~~LWt~~~~sFiPH~~~~e--------~~~~~q-PIli~~~~~~--pn~~ 85 (144)
T COG2927 17 AACRLAEKAWRSGWRVLIQCEDEAQAEALDEHLWTFSAESFIPHNLAGE--------PPPAGQ-PILIAWPGGN--PNSA 85 (144)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHhhhccchhcccCCccCCC--------CCCCCC-CEEEEcCCCC--CCCC
Confidence 5666665432 7899999999999999999996554444555654221 112334 3777765332 2455
Q ss_pred CCcEEEeccCC
Q 042003 228 GVNCVINYDFP 238 (248)
Q Consensus 228 ~~~~Vi~~~~p 238 (248)
.++.+|+...+
T Consensus 86 ~~~~lInl~d~ 96 (144)
T COG2927 86 RVDLLINLADE 96 (144)
T ss_pred ceeEEEecccc
Confidence 56677766554
No 425
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=53.05 E-value=18 Score=34.82 Aligned_cols=41 Identities=22% Similarity=0.216 Sum_probs=26.2
Q ss_pred ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 58 DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 58 ~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
.+..-+++||||+.++.... +..+++.......++|++.-+
T Consensus 465 ~l~~~~vlVIDEAsMv~~~~-----m~~Ll~~~~~~garvVLVGD~ 505 (1102)
T PRK13826 465 QLDNKTVFVLDEAGMVASRQ-----MALFVEAVTRAGAKLVLVGDP 505 (1102)
T ss_pred CCCCCcEEEEECcccCCHHH-----HHHHHHHHHhcCCEEEEECCH
Confidence 35567799999999875533 444555544445666666554
No 426
>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=52.82 E-value=12 Score=27.77 Aligned_cols=18 Identities=17% Similarity=0.372 Sum_probs=14.8
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
.....++||||+|.+...
T Consensus 94 ~~~~kviiide~~~l~~~ 111 (188)
T TIGR00678 94 ESGRRVVIIEDAERMNEA 111 (188)
T ss_pred cCCeEEEEEechhhhCHH
Confidence 467889999999998653
No 427
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=52.80 E-value=61 Score=27.68 Aligned_cols=71 Identities=17% Similarity=0.124 Sum_probs=46.5
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCC----eeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc------cccCCCCCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGI----RAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV------IARGMDFKGV 229 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~----~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~------~~~Gidip~~ 229 (248)
+-+++|.++|++-+.+..+.+++.+- .+..+.|+-+.+++...+ ++..++++||.- .++-+++..+
T Consensus 90 g~RalilsptreLa~qtlkvvkdlgrgt~lr~s~~~ggD~~eeqf~~l----~~npDii~ATpgr~~h~~vem~l~l~sv 165 (529)
T KOG0337|consen 90 GLRALILSPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILL----NENPDIIIATPGRLLHLGVEMTLTLSSV 165 (529)
T ss_pred ccceeeccCcHHHHHHHHHHHHHhccccchhhhhhcccchHHHHHHHh----ccCCCEEEecCceeeeeehheeccccce
Confidence 45999999999999988888877643 334333443333332222 235689999863 3455677788
Q ss_pred cEEEe
Q 042003 230 NCVIN 234 (248)
Q Consensus 230 ~~Vi~ 234 (248)
.+|+.
T Consensus 166 eyVVf 170 (529)
T KOG0337|consen 166 EYVVF 170 (529)
T ss_pred eeeee
Confidence 88884
No 428
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=52.39 E-value=22 Score=30.00 Aligned_cols=48 Identities=15% Similarity=0.144 Sum_probs=29.4
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
..+.+++++|++.+..........+..++....+..-..+.+|||...
T Consensus 252 ~~~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~ 299 (388)
T PRK12723 252 SKDFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT 299 (388)
T ss_pred hCCCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH
Confidence 467899999999987543212234444444433232456789999764
No 429
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=52.16 E-value=72 Score=25.09 Aligned_cols=42 Identities=21% Similarity=0.219 Sum_probs=21.0
Q ss_pred HHHHHHHhccCCCCEEEEecch---HHHHHHHHHhhcCCCeeEEE
Q 042003 149 LALRQSFAESLNPPVLIFVQSK---ERAKELYGELAFDGIRAGVI 190 (248)
Q Consensus 149 ~~l~~~~~~~~~~~~liF~~~~---~~~~~l~~~L~~~~~~v~~~ 190 (248)
+.+-+++++...++.++.+... ...+.+.+.|+..++.+..+
T Consensus 8 ~~l~~~l~~~~~~~~lvv~d~~t~~~~g~~v~~~l~~~g~~v~~~ 52 (250)
T PF13685_consen 8 DKLPEILSELGLKKVLVVTDENTYKAAGEKVEESLKSAGIEVAVI 52 (250)
T ss_dssp GGHHHHHGGGT-SEEEEEEETTHHHHHHHHHHHHHHTTT-EEEEE
T ss_pred HHHHHHHHhcCCCcEEEEEcCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence 3344555554445555555332 12356666676666666544
No 430
>PF02463 SMC_N: RecF/RecN/SMC N terminal domain; InterPro: IPR003395 This domain is found at the N terminus of structural maintenance of chromosomes (SMC) proteins, which function together with other proteins in a range of chromosomal transactions, including chromosome condensation, sister-chromatid cohesion, recombination, DNA repair and epigenetic silencing of gene expression []. The domain is also found in RecF and RecN proteins, which are involved in DNA metabolism and recombination.; PDB: 3HTK_A 1W1W_C 2WD5_A 3L51_A 1XEW_Y 3KTA_B 3NWC_B 1XEX_A 1GXL_C 1GXK_A ....
Probab=52.12 E-value=8.7 Score=29.21 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=26.3
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
...-++|+||++.-++.. ....+..+++. .....|+++.|-.
T Consensus 157 ~~~p~~ilDEvd~~LD~~-~~~~l~~~l~~-~~~~~Q~ii~Th~ 198 (220)
T PF02463_consen 157 KPSPFLILDEVDAALDEQ-NRKRLADLLKE-LSKQSQFIITTHN 198 (220)
T ss_dssp S--SEEEEESTTTTS-HH-HHHHHHHHHHH-HTTTSEEEEE-S-
T ss_pred cccccccccccccccccc-ccccccccccc-ccccccccccccc
Confidence 456689999999888776 45555555555 3456898877643
No 431
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=51.90 E-value=99 Score=26.05 Aligned_cols=72 Identities=18% Similarity=0.095 Sum_probs=51.6
Q ss_pred hHHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEecCCC---HHHHHHHHHHhhcCCceEEEEe
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHSDLS---QTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~~~~---~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+..+.+.+.....++++|.+... ...+.+.+.|...++.+.++..-.+ .+.-++..+.+++.+.+.+|+-
T Consensus 15 g~l~~l~~~~~~~g~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~v~p~P~~~~v~~~~~~~~~~~~D~iIal 93 (377)
T COG1454 15 GSLKELGEEVKRLGAKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDEVEPEPTIETVEAGAEVAREFGPDTIIAL 93 (377)
T ss_pred ChHHHHHHHHHhcCCCceEEEECCccccchhHHHHHHHHHhcCCeEEEecCCCCCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 4566677777766557888888763 5678888889888877777765443 3444555688888888888874
No 432
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=51.88 E-value=15 Score=29.68 Aligned_cols=40 Identities=15% Similarity=0.189 Sum_probs=23.8
Q ss_pred CceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 60 SRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
...+++|+||+|.+.... ....+..+++. .+...++|+.|
T Consensus 99 ~~~~vliiDe~d~l~~~~-~~~~L~~~le~-~~~~~~~Ilt~ 138 (316)
T PHA02544 99 GGGKVIIIDEFDRLGLAD-AQRHLRSFMEA-YSKNCSFIITA 138 (316)
T ss_pred CCCeEEEEECcccccCHH-HHHHHHHHHHh-cCCCceEEEEc
Confidence 457899999999973322 33445554554 33455555544
No 433
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=51.80 E-value=29 Score=28.48 Aligned_cols=42 Identities=12% Similarity=0.152 Sum_probs=25.8
Q ss_pred CCCcEEEeChH---------HHHHHHhcC--CcccCceeEEEEeccccccccC
Q 042003 36 FSCDILISTPL---------RLRLAIRRK--KIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 36 ~~~~i~v~Tp~---------~l~~~~~~~--~~~~~~~~~lIiDEah~~~~~~ 77 (248)
.+||+.+-.|+ .+..+...- .-.....+++||||||.+....
T Consensus 70 ~HPD~~~i~~~~~~~~i~id~iR~l~~~~~~~~~~~~~kv~iI~~a~~m~~~a 122 (328)
T PRK05707 70 SHPDNFVLEPEEADKTIKVDQVRELVSFVVQTAQLGGRKVVLIEPAEAMNRNA 122 (328)
T ss_pred CCCCEEEEeccCCCCCCCHHHHHHHHHHHhhccccCCCeEEEECChhhCCHHH
Confidence 35788877663 333333221 1124678899999999986643
No 434
>PRK04195 replication factor C large subunit; Provisional
Probab=51.68 E-value=14 Score=32.17 Aligned_cols=41 Identities=15% Similarity=0.114 Sum_probs=24.3
Q ss_pred ceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEe
Q 042003 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSA 102 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA 102 (248)
...+||+||+|.+.... -......+.+.+......+|+++.
T Consensus 98 ~~kvIiIDEaD~L~~~~-d~~~~~aL~~~l~~~~~~iIli~n 138 (482)
T PRK04195 98 RRKLILLDEVDGIHGNE-DRGGARAILELIKKAKQPIILTAN 138 (482)
T ss_pred CCeEEEEecCccccccc-chhHHHHHHHHHHcCCCCEEEecc
Confidence 57899999999986532 222334444444444555555543
No 435
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.60 E-value=17 Score=32.68 Aligned_cols=19 Identities=21% Similarity=0.364 Sum_probs=15.1
Q ss_pred cCceeEEEEeccccccccC
Q 042003 59 LSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~ 77 (248)
...++++||||+|.+....
T Consensus 122 ~g~~KV~IIDEvh~Ls~~a 140 (618)
T PRK14951 122 QGRFKVFMIDEVHMLTNTA 140 (618)
T ss_pred cCCceEEEEEChhhCCHHH
Confidence 3568899999999986543
No 436
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=51.43 E-value=12 Score=32.89 Aligned_cols=18 Identities=22% Similarity=0.331 Sum_probs=14.7
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
..+.+++||||+|.+...
T Consensus 117 ~~~~kVvIIDEad~ls~~ 134 (527)
T PRK14969 117 RGRFKVYIIDEVHMLSKS 134 (527)
T ss_pred cCCceEEEEcCcccCCHH
Confidence 467889999999998653
No 437
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=51.39 E-value=65 Score=30.42 Aligned_cols=71 Identities=17% Similarity=0.179 Sum_probs=49.4
Q ss_pred HHHHHHHhccCCCCEEEEecchHHHHHHHHHhh----cCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCC
Q 042003 149 LALRQSFAESLNPPVLIFVQSKERAKELYGELA----FDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGM 224 (248)
Q Consensus 149 ~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~L~----~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gi 224 (248)
..+.-+++...+..+.|.+++..-|.+.++.+. ..|.+|..+.++++..+|...+ ..+|+.+|+.- .|+
T Consensus 112 a~lp~~l~al~g~~VhIvT~ndyLA~RD~e~m~~l~~~lGlsv~~i~~~~~~~~r~~~Y------~~dI~YgT~~e-~gf 184 (908)
T PRK13107 112 ATLPAYLNALTGKGVHVITVNDYLARRDAENNRPLFEFLGLTVGINVAGLGQQEKKAAY------NADITYGTNNE-FGF 184 (908)
T ss_pred HHHHHHHHHhcCCCEEEEeCCHHHHHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHhcC------CCCeEEeCCCc-ccc
Confidence 344445555557789999999887777666664 4699999999999986654433 35888888642 444
Q ss_pred CC
Q 042003 225 DF 226 (248)
Q Consensus 225 di 226 (248)
|.
T Consensus 185 Dy 186 (908)
T PRK13107 185 DY 186 (908)
T ss_pred hh
Confidence 44
No 438
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=51.38 E-value=83 Score=22.89 Aligned_cols=75 Identities=15% Similarity=0.128 Sum_probs=40.7
Q ss_pred CCCCEEEEecc---hHHHHHHHHHhhcCCCeeEEEe--c--CCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcE
Q 042003 159 LNPPVLIFVQS---KERAKELYGELAFDGIRAGVIH--S--DLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNC 231 (248)
Q Consensus 159 ~~~~~liF~~~---~~~~~~l~~~L~~~~~~v~~~~--~--~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~ 231 (248)
...+++|||.. =.++-.+++.|...|+.+.++. . .++. +-+..++.+++-...++--.+.......+...++
T Consensus 24 ~~~~v~il~G~GnNGgDgl~~AR~L~~~G~~V~v~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~dl 102 (169)
T PF03853_consen 24 KGPRVLILCGPGNNGGDGLVAARHLANRGYNVTVYLVGPPEKLSE-DAKQQLEILKKMGIKIIELDSDEDLSEALEPADL 102 (169)
T ss_dssp TT-EEEEEE-SSHHHHHHHHHHHHHHHTTCEEEEEEEESSSSTSH-HHHHHHHHHHHTT-EEESSCCGSGGGHHGSCESE
T ss_pred CCCeEEEEECCCCChHHHHHHHHHHHHCCCeEEEEEEeccccCCH-HHHHHHHHHHhcCCcEeeccccchhhcccccccE
Confidence 36789999954 4567788999999999887743 2 3333 3444455555444444332222222112224666
Q ss_pred EEe
Q 042003 232 VIN 234 (248)
Q Consensus 232 Vi~ 234 (248)
||+
T Consensus 103 IID 105 (169)
T PF03853_consen 103 IID 105 (169)
T ss_dssp EEE
T ss_pred EEE
Confidence 663
No 439
>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP.; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.
Probab=51.08 E-value=13 Score=28.21 Aligned_cols=42 Identities=17% Similarity=0.244 Sum_probs=22.7
Q ss_pred eEEEEecccccc-ccC---cccccchhHhhhCCCccceeEEEEeec
Q 042003 63 EYLVLDEADKLF-EVG---NLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 63 ~~lIiDEah~~~-~~~---~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
-++|+||+|.+. ... .+...+..+...........+.++++-
T Consensus 120 ~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~ 165 (234)
T PF01637_consen 120 VIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSS 165 (234)
T ss_dssp EEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESS
T ss_pred EEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCc
Confidence 589999999988 221 234444444444333334444566664
No 440
>COG0607 PspE Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=51.04 E-value=13 Score=24.42 Aligned_cols=36 Identities=14% Similarity=0.350 Sum_probs=30.2
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeE-EEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAG-VIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~-~~~~~~~ 195 (248)
+++++++|.+-......+..|+..|+... .+.|++.
T Consensus 61 ~~~ivv~C~~G~rS~~aa~~L~~~G~~~~~~l~gG~~ 97 (110)
T COG0607 61 DDPIVVYCASGVRSAAAAAALKLAGFTNVYNLDGGID 97 (110)
T ss_pred CCeEEEEeCCCCChHHHHHHHHHcCCccccccCCcHH
Confidence 67899999999999999999999988775 6667654
No 441
>PRK05723 flavodoxin; Provisional
Probab=50.95 E-value=89 Score=22.33 Aligned_cols=56 Identities=16% Similarity=0.112 Sum_probs=28.0
Q ss_pred EEEecchH----HHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCC
Q 042003 164 LIFVQSKE----RAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFK 227 (248)
Q Consensus 164 liF~~~~~----~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip 227 (248)
|+|.+.-. -|+.+++.|...+..+.. +...+..+- ..+.. -.++++|++-+.| ++|
T Consensus 5 I~ygS~tG~ae~~A~~la~~l~~~g~~~~~-~~~~~~~~~----~~~~~--~~li~~~sT~G~G-e~P 64 (151)
T PRK05723 5 ILSGSVYGTAEEVARHAESLLKAAGFEAWH-NPRASLQDL----QAFAP--EALLAVTSTTGMG-ELP 64 (151)
T ss_pred EEEEcCchHHHHHHHHHHHHHHHCCCceee-cCcCCHhHH----HhCCC--CeEEEEECCCCCC-CCc
Confidence 44554444 444555555555666644 222332221 22221 2477888888888 444
No 442
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=50.85 E-value=34 Score=28.61 Aligned_cols=42 Identities=14% Similarity=0.119 Sum_probs=24.0
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
....+++||||+|.+.... .+.+.+.++. .+....++++|..
T Consensus 139 ~~~~kVviIDead~m~~~a--anaLLK~LEe-pp~~~~~IL~t~~ 180 (365)
T PRK07471 139 EGGWRVVIVDTADEMNANA--ANALLKVLEE-PPARSLFLLVSHA 180 (365)
T ss_pred cCCCEEEEEechHhcCHHH--HHHHHHHHhc-CCCCeEEEEEECC
Confidence 4677899999999975432 3333333333 3334445554444
No 443
>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP. AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding
Probab=50.77 E-value=6.9 Score=32.59 Aligned_cols=47 Identities=15% Similarity=0.109 Sum_probs=34.8
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCch
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDF 107 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~ 107 (248)
.+...++.+||.|.- +.+ -...+.++++.+......+|++|-+.|..
T Consensus 125 ~~~~~lLcfDEF~V~-Dia-DAmil~rLf~~l~~~gvvlVaTSN~~P~~ 171 (362)
T PF03969_consen 125 AKESRLLCFDEFQVT-DIA-DAMILKRLFEALFKRGVVLVATSNRPPED 171 (362)
T ss_pred HhcCCEEEEeeeecc-chh-HHHHHHHHHHHHHHCCCEEEecCCCChHH
Confidence 355679999999873 443 34567777777777788889999998753
No 444
>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=50.36 E-value=14 Score=27.25 Aligned_cols=69 Identities=14% Similarity=0.080 Sum_probs=37.3
Q ss_pred cccCCCcEEEeChHHHHHHHhcCCc---------ccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEe
Q 042003 33 LSKFSCDILISTPLRLRLAIRRKKI---------DLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSA 102 (248)
Q Consensus 33 ~~~~~~~i~v~Tp~~l~~~~~~~~~---------~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA 102 (248)
....+..+.+.+...|...+..... .+.+.+++|+||.-...........+..++...- .+..+|+.|-
T Consensus 71 ~~~~g~~v~f~~~~~L~~~l~~~~~~~~~~~~~~~l~~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~-~~~~tIiTSN 148 (178)
T PF01695_consen 71 AIRKGYSVLFITASDLLDELKQSRSDGSYEELLKRLKRVDLLILDDLGYEPLSEWEAELLFEIIDERY-ERKPTIITSN 148 (178)
T ss_dssp HHHTT--EEEEEHHHHHHHHHCCHCCTTHCHHHHHHHTSSCEEEETCTSS---HHHHHCTHHHHHHHH-HT-EEEEEES
T ss_pred hccCCcceeEeecCceeccccccccccchhhhcCccccccEecccccceeeecccccccchhhhhHhh-cccCeEeeCC
Confidence 3446788888888888888876321 2567899999998654322212334444444321 1224555444
No 445
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=50.35 E-value=1.5e+02 Score=24.85 Aligned_cols=71 Identities=18% Similarity=0.176 Sum_probs=42.5
Q ss_pred HHHHHHHHHhccCCCCEEEEecch-H---HHHHHHHHhhcCCCeeEEEec---CCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK-E---RAKELYGELAFDGIRAGVIHS---DLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~-~---~~~~l~~~L~~~~~~v~~~~~---~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+.+.+.++....++++|++... . ..+.+.+.|++.++.+..+.+ .-+.+.-.+..+.++..+.+.+|+-
T Consensus 10 ~~~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 87 (375)
T cd08194 10 AVDETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIAL 87 (375)
T ss_pred HHHHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 455555556544346777776431 1 346677777777777666544 2234445666777777777777653
No 446
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=50.27 E-value=12 Score=33.31 Aligned_cols=18 Identities=28% Similarity=0.340 Sum_probs=14.9
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++||||+|.+...
T Consensus 117 ~~~~KVvIIdev~~Lt~~ 134 (576)
T PRK14965 117 RSRYKIFIIDEVHMLSTN 134 (576)
T ss_pred cCCceEEEEEChhhCCHH
Confidence 467899999999998653
No 447
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=50.23 E-value=1.4e+02 Score=24.91 Aligned_cols=71 Identities=14% Similarity=0.002 Sum_probs=43.5
Q ss_pred HHHHHHHHHhccCCCCEEEEecc-hHHHHHHHHHhhcCCCeeEEEecCCC---HHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQS-KERAKELYGELAFDGIRAGVIHSDLS---QTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~-~~~~~~l~~~L~~~~~~v~~~~~~~~---~~~r~~~~~~f~~g~~~ilv~T 217 (248)
.++.+.+.+.....++++|.+.. ......+.+.|++.++.+..+.+.-+ .+.-.+..+.+++.+.+.+|+-
T Consensus 10 ~l~~l~~~~~~~g~~~~livtd~~~~~~~~~~~~l~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIav 84 (367)
T cd08182 10 AIAKLPSLLKGLGGKRVLLVTGPRSAIASGLTDILKPLGTLVVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAV 84 (367)
T ss_pred HHHHHHHHHHhcCCCeEEEEeCchHHHHHHHHHHHHHcCCeEEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEe
Confidence 44555566665534677777644 23456677778777777766654332 3445566677777777777753
No 448
>PRK07276 DNA polymerase III subunit delta'; Validated
Probab=50.09 E-value=34 Score=27.59 Aligned_cols=65 Identities=14% Similarity=0.196 Sum_probs=35.7
Q ss_pred CCCcEEEeChH-------HHHHHHhcC--CcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 36 FSCDILISTPL-------RLRLAIRRK--KIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 36 ~~~~i~v~Tp~-------~l~~~~~~~--~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
.+||+.+..|+ .+..+...- .-.....+++|||+||.+.... .+.+-+.+.. ++.+.-++++|..
T Consensus 70 ~HPD~~~i~p~~~~I~idqIR~l~~~~~~~p~~~~~kV~II~~ad~m~~~A--aNaLLKtLEE-Pp~~t~~iL~t~~ 143 (290)
T PRK07276 70 EFSDVTVIEPQGQVIKTDTIRELVKNFSQSGYEGKQQVFIIKDADKMHVNA--ANSLLKVIEE-PQSEIYIFLLTND 143 (290)
T ss_pred CCCCeeeecCCCCcCCHHHHHHHHHHHhhCcccCCcEEEEeehhhhcCHHH--HHHHHHHhcC-CCCCeEEEEEECC
Confidence 46899888884 333333221 1123567899999999986543 2333333333 3333444455544
No 449
>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=49.44 E-value=21 Score=28.08 Aligned_cols=13 Identities=38% Similarity=0.388 Sum_probs=11.3
Q ss_pred eEEEEeccccccc
Q 042003 63 EYLVLDEADKLFE 75 (248)
Q Consensus 63 ~~lIiDEah~~~~ 75 (248)
+++++||+|.+..
T Consensus 107 ~VL~IDE~~~L~~ 119 (261)
T TIGR02881 107 GVLFIDEAYSLAR 119 (261)
T ss_pred CEEEEechhhhcc
Confidence 5999999999864
No 450
>PLN03025 replication factor C subunit; Provisional
Probab=49.40 E-value=17 Score=29.67 Aligned_cols=17 Identities=35% Similarity=0.501 Sum_probs=14.1
Q ss_pred CceeEEEEecccccccc
Q 042003 60 SRVEYLVLDEADKLFEV 76 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~~ 76 (248)
.+.+++|+||+|.+...
T Consensus 98 ~~~kviiiDE~d~lt~~ 114 (319)
T PLN03025 98 GRHKIVILDEADSMTSG 114 (319)
T ss_pred CCeEEEEEechhhcCHH
Confidence 45789999999998654
No 451
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=49.38 E-value=13 Score=30.77 Aligned_cols=40 Identities=15% Similarity=0.133 Sum_probs=24.0
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
....+++||||||.+.... .+.+...++. .+....++++|
T Consensus 139 ~g~~rVviIDeAd~l~~~a--anaLLk~LEE-pp~~~~fiLit 178 (351)
T PRK09112 139 DGNWRIVIIDPADDMNRNA--ANAILKTLEE-PPARALFILIS 178 (351)
T ss_pred cCCceEEEEEchhhcCHHH--HHHHHHHHhc-CCCCceEEEEE
Confidence 3567899999999986543 2334444443 33444555554
No 452
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=49.17 E-value=15 Score=24.16 Aligned_cols=36 Identities=11% Similarity=0.189 Sum_probs=24.1
Q ss_pred CCCEEEEecchHHHHHHHHH-----hhcCCC-eeEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGE-----LAFDGI-RAGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~-----L~~~~~-~v~~~~~~~~ 195 (248)
..++|+||.+-..+...+.. |...|+ ++..+.||+.
T Consensus 67 ~~~iv~yc~~~~~~~~~~~~~~~~~l~~~g~~~v~~l~GG~~ 108 (113)
T PF00581_consen 67 DKDIVFYCSSGWRSGSAAAARVAWILKKLGFKNVYILDGGFE 108 (113)
T ss_dssp TSEEEEEESSSCHHHHHHHHHHHHHHHHTTTSSEEEETTHHH
T ss_pred cccceeeeecccccchhHHHHHHHHHHHcCCCCEEEecChHH
Confidence 45688888554444444443 777777 8999999864
No 453
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=48.74 E-value=34 Score=23.32 Aligned_cols=51 Identities=12% Similarity=0.190 Sum_probs=36.0
Q ss_pred eEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCC------CcEEEeccC
Q 042003 187 AGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKG------VNCVINYDF 237 (248)
Q Consensus 187 v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~------~~~Vi~~~~ 237 (248)
+..-.|...-.--.++++.+.+|++.+.|.|.--.-|||++. =++||+||-
T Consensus 51 i~pasGrrkLspt~emi~~l~~geIel~VLttqpDIai~l~~kVldnEnRYViDFD~ 107 (144)
T PF10657_consen 51 ISPASGRRKLSPTPEMIDKLISGEIELFVLTTQPDIAINLQQKVLDNENRYVIDFDK 107 (144)
T ss_pred EecCCCccccCCcHHHHHHHhcCceEEEEEccCCCeeechhhhhhcccceEEEeccC
Confidence 333344333223357888899999999999988888888863 358888874
No 454
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.54 E-value=20 Score=31.20 Aligned_cols=18 Identities=22% Similarity=0.311 Sum_probs=14.6
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++|+||+|.+...
T Consensus 117 ~~~~KVvIIDEad~Lt~~ 134 (486)
T PRK14953 117 KGKYKVYIIDEAHMLTKE 134 (486)
T ss_pred cCCeeEEEEEChhhcCHH
Confidence 467889999999997643
No 455
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=48.52 E-value=1.4e+02 Score=25.06 Aligned_cols=71 Identities=11% Similarity=0.099 Sum_probs=44.3
Q ss_pred HHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEec---CCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHS---DLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~---~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+.+.+.+.....++++|.+... ...+++.+.|+..++.+..+.+ .-+.+.-.+..+.+++.+.+.+|+-
T Consensus 15 ~l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIav 92 (377)
T cd08176 15 AIKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISI 92 (377)
T ss_pred HHHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 455566666665345677666432 1345777888777777766655 2334555667777777777777754
No 456
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=48.48 E-value=16 Score=33.32 Aligned_cols=17 Identities=18% Similarity=0.327 Sum_probs=14.0
Q ss_pred cCceeEEEEeccccccc
Q 042003 59 LSRVEYLVLDEADKLFE 75 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~ 75 (248)
+.+.+++||||+|.+..
T Consensus 117 ~gk~KVIIIDEad~Ls~ 133 (709)
T PRK08691 117 AGKYKVYIIDEVHMLSK 133 (709)
T ss_pred hCCcEEEEEECccccCH
Confidence 45678999999998754
No 457
>PRK08105 flavodoxin; Provisional
Probab=48.26 E-value=69 Score=22.79 Aligned_cols=46 Identities=20% Similarity=0.281 Sum_probs=24.6
Q ss_pred hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhc-CCceEEEEecccccC
Q 042003 170 KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRA-GKTWVLIATDVIARG 223 (248)
Q Consensus 170 ~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~-g~~~ilv~T~~~~~G 223 (248)
..-|+.+++.|+..+..+.+.... . +..+.. ..-.+++.|++-+.|
T Consensus 16 e~~A~~l~~~l~~~g~~~~~~~~~--~------~~~~~~~~~~~vi~~~sT~G~G 62 (149)
T PRK08105 16 LLVAEEAEAILTAQGHEVTLFEDP--E------LSDWQPYQDELVLVVTSTTGQG 62 (149)
T ss_pred HHHHHHHHHHHHhCCCceEEechh--h------CCchhcccCCeEEEEECCCCCC
Confidence 445555556666667776655421 1 111221 123577777777777
No 458
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.13 E-value=13 Score=30.88 Aligned_cols=18 Identities=28% Similarity=0.309 Sum_probs=14.4
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
....+++|+||+|.+...
T Consensus 117 ~~~~kviIIDEa~~l~~~ 134 (363)
T PRK14961 117 KSRFKVYLIDEVHMLSRH 134 (363)
T ss_pred cCCceEEEEEChhhcCHH
Confidence 356789999999998653
No 459
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=48.07 E-value=1.6e+02 Score=25.14 Aligned_cols=71 Identities=13% Similarity=0.103 Sum_probs=42.7
Q ss_pred HHHHHHHHHhccCCCCEEEEecc-hH---HHHHHHHHhhcCCCeeEEEec---CCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQS-KE---RAKELYGELAFDGIRAGVIHS---DLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~-~~---~~~~l~~~L~~~~~~v~~~~~---~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
....+-+.++....++++|.+.. .. ..+.+.+.|++.++.+.++.+ .-+.+.-.+..+.+++.+.+++|+-
T Consensus 10 ~~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 87 (414)
T cd08190 10 VTAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAV 87 (414)
T ss_pred HHHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 44555555665544667766643 11 246677777777777766643 2234445566777777777777664
No 460
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=47.83 E-value=1.1e+02 Score=28.72 Aligned_cols=73 Identities=15% Similarity=0.190 Sum_probs=51.0
Q ss_pred HHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEeccccc
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIAR 222 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~ 222 (248)
-...+..++....+..+-|.++|. .+++.+...++..|.+++.+.+++++++|+.++. .+|.-+|+. +.
T Consensus 108 LvA~l~a~l~al~G~~v~vvT~neyLA~Rd~e~~~~~~~~LGl~vg~i~~~~~~~~r~~~y~------~dI~Y~t~~-e~ 180 (796)
T PRK12906 108 LTATLPVYLNALTGKGVHVVTVNEYLSSRDATEMGELYRWLGLTVGLNLNSMSPDEKRAAYN------CDITYSTNS-EL 180 (796)
T ss_pred HHHHHHHHHHHHcCCCeEEEeccHHHHHhhHHHHHHHHHhcCCeEEEeCCCCCHHHHHHHhc------CCCeecCCc-cc
Confidence 445556666666678888889885 4555666666778999999999999999987764 345555543 34
Q ss_pred CCCC
Q 042003 223 GMDF 226 (248)
Q Consensus 223 Gidi 226 (248)
|+|.
T Consensus 181 gfDy 184 (796)
T PRK12906 181 GFDY 184 (796)
T ss_pred cccc
Confidence 4443
No 461
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=47.76 E-value=75 Score=20.55 Aligned_cols=38 Identities=18% Similarity=0.277 Sum_probs=31.9
Q ss_pred hHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh
Q 042003 170 KERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR 207 (248)
Q Consensus 170 ~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~ 207 (248)
+++++.+...|..+++..-.+.=+++++.|+...+...
T Consensus 16 k~~~~~v~~lL~~k~I~f~eiDI~~d~~~r~em~~~~~ 53 (92)
T cd03030 16 KKRQQEVLGFLEAKKIEFEEVDISMNEENRQWMRENVP 53 (92)
T ss_pred HHHHHHHHHHHHHCCCceEEEecCCCHHHHHHHHHhcC
Confidence 67888999999999998888888888888888776654
No 462
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=47.65 E-value=2e+02 Score=26.98 Aligned_cols=69 Identities=17% Similarity=0.203 Sum_probs=46.4
Q ss_pred HHHHHHHHh-ccCCCCEEEEecchHHHHHHHHHhhc--CCCeeEEEecCCCHHHHHHHHHHh-hcCCceEEEEecc
Q 042003 148 LLALRQSFA-ESLNPPVLIFVQSKERAKELYGELAF--DGIRAGVIHSDLSQTQRENAVDDF-RAGKTWVLIATDV 219 (248)
Q Consensus 148 ~~~l~~~~~-~~~~~~~liF~~~~~~~~~l~~~L~~--~~~~v~~~~~~~~~~~r~~~~~~f-~~g~~~ilv~T~~ 219 (248)
+..+..+.. +..++|-+|.|+-.. ...+...+++ .++++..+||+ .++|....+.+ ..|.++|+|+|--
T Consensus 204 Is~l~yl~~~~~~~GPfLVi~P~St-L~NW~~Ef~rf~P~l~~~~~~Gd--k~eR~~~~r~~~~~~~fdV~iTsYE 276 (971)
T KOG0385|consen 204 ISLLGYLKGRKGIPGPFLVIAPKST-LDNWMNEFKRFTPSLNVVVYHGD--KEERAALRRDIMLPGRFDVCITSYE 276 (971)
T ss_pred HHHHHHHHHhcCCCCCeEEEeeHhh-HHHHHHHHHHhCCCcceEEEeCC--HHHHHHHHHHhhccCCCceEeehHH
Confidence 333333333 333789999998744 4444555554 37789999997 67888777664 5678999999853
No 463
>PRK12377 putative replication protein; Provisional
Probab=47.22 E-value=23 Score=27.80 Aligned_cols=70 Identities=14% Similarity=0.160 Sum_probs=37.1
Q ss_pred ccCCCcEEEeChHHHHHHHhc----CC------cccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEee
Q 042003 34 SKFSCDILISTPLRLRLAIRR----KK------IDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSAT 103 (248)
Q Consensus 34 ~~~~~~i~v~Tp~~l~~~~~~----~~------~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT 103 (248)
...+..+++.|...+...+.. +. -.+.+.++||+||.+...........+..++.........+++.|--
T Consensus 126 ~~~g~~v~~i~~~~l~~~l~~~~~~~~~~~~~l~~l~~~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl 205 (248)
T PRK12377 126 LAKGRSVIVVTVPDVMSRLHESYDNGQSGEKFLQELCKVDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL 205 (248)
T ss_pred HHcCCCeEEEEHHHHHHHHHHHHhccchHHHHHHHhcCCCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence 344566777766666665542 10 13578899999999654322212334444444422223444555443
No 464
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=47.02 E-value=76 Score=24.48 Aligned_cols=58 Identities=12% Similarity=-0.011 Sum_probs=33.3
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCeeE---EEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIRAG---VIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~v~---~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
++++++++... .-+.+.+.|++.|..+. +|.............+.+.++++++++-|+
T Consensus 118 ~~~vL~~rg~~-~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~~~d~i~f~S 178 (240)
T PRK09189 118 TARLLYLAGRP-RAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAILGGAPFDAVLLYS 178 (240)
T ss_pred CCcEEEeccCc-ccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHHhcCCCCEEEEeC
Confidence 45666666554 34788888888876543 332222222334556677777776554443
No 465
>COG1485 Predicted ATPase [General function prediction only]
Probab=46.85 E-value=8.3 Score=31.75 Aligned_cols=48 Identities=19% Similarity=0.183 Sum_probs=35.2
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCchH
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPDFV 108 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~~~ 108 (248)
..+.+++.+||.|. .+.+ =-..+.++++.+-...+.+++.|-|.|..+
T Consensus 128 ~~~~~vLCfDEF~V-tDI~-DAMiL~rL~~~Lf~~GV~lvaTSN~~P~~L 175 (367)
T COG1485 128 AAETRVLCFDEFEV-TDIA-DAMILGRLLEALFARGVVLVATSNTAPDNL 175 (367)
T ss_pred HhcCCEEEeeeeee-cChH-HHHHHHHHHHHHHHCCcEEEEeCCCChHHh
Confidence 46778999999987 4443 234666777766667888999999987633
No 466
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=46.70 E-value=74 Score=22.36 Aligned_cols=55 Identities=16% Similarity=0.287 Sum_probs=40.4
Q ss_pred EEEEecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhh-cCCceEEEEe
Q 042003 163 VLIFVQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFR-AGKTWVLIAT 217 (248)
Q Consensus 163 ~liF~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~-~g~~~ilv~T 217 (248)
+=||..|-+.--.+.+..+..|+++.....+-.++.+..+++.++ .++..++|+.
T Consensus 46 V~i~IASgDr~gsl~~lae~~gi~~~rv~a~a~~e~K~~ii~eLkk~~~k~vmVGn 101 (152)
T COG4087 46 VDIYIASGDRKGSLVQLAEFVGIPVERVFAGADPEMKAKIIRELKKRYEKVVMVGN 101 (152)
T ss_pred heEEEecCCcchHHHHHHHHcCCceeeeecccCHHHHHHHHHHhcCCCcEEEEecC
Confidence 446666655555666666666889988888889999999999888 4566666655
No 467
>TIGR02746 TraC-F-type type-IV secretion system protein TraC. The protein family described here is common among the F, P and I-like type IV secretion systems. Gene symbols include TraC (F-type), TrbE/VirB4 (P-type) and TraU (I-type). The protein conyains the Walker A and B motifs and so is a putative nucleotide triphosphatase.
Probab=46.56 E-value=9.8 Score=35.34 Aligned_cols=40 Identities=15% Similarity=0.078 Sum_probs=24.9
Q ss_pred CceeEEEEeccccccc--cCcccccchhHhhhCCCccceeEE
Q 042003 60 SRVEYLVLDEADKLFE--VGNLLKHIDPVVKACSNPSIVRSL 99 (248)
Q Consensus 60 ~~~~~lIiDEah~~~~--~~~~~~~~~~~~~~~~~~~~~~i~ 99 (248)
..-.++|+||||.+.. .......+....+.....+.-+++
T Consensus 636 ~~~~~~viDEaw~ll~~~~~~~~~~i~~~~r~~RK~g~~~~~ 677 (797)
T TIGR02746 636 KRRKICIIDEAWSLLDGANPQAADFIETGYRRARKYGGAFIT 677 (797)
T ss_pred CCceEEEEecHHHHhhcccHHHHHHHHHHHHHHhhcCceEEE
Confidence 3467899999999986 332455666665554334444333
No 468
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=46.47 E-value=1.7e+02 Score=24.51 Aligned_cols=70 Identities=14% Similarity=0.055 Sum_probs=43.7
Q ss_pred HHHHHHHHHhccCCCCEEEEecch-----HHHHHHHHHhhcCCCeeEEEecCC---CHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK-----ERAKELYGELAFDGIRAGVIHSDL---SQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~-----~~~~~l~~~L~~~~~~v~~~~~~~---~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
.+..+.+.+... +++++|.+... ...+++.+.|++.++.+..+.+-. +.+.-.+..+.+++.+.+++|+-
T Consensus 13 ~l~~l~~~~~~~-g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~Iiav 90 (380)
T cd08185 13 KLNELGEEALKP-GKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGL 90 (380)
T ss_pred HHHHHHHHHHhc-CCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 445555556654 46788877542 234677778877777776665432 34445566677777777777753
No 469
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=46.43 E-value=40 Score=27.68 Aligned_cols=40 Identities=20% Similarity=0.235 Sum_probs=25.1
Q ss_pred CCcEEEeChH-------HHHHHHhc--CCcccCceeEEEEecccccccc
Q 042003 37 SCDILISTPL-------RLRLAIRR--KKIDLSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 37 ~~~i~v~Tp~-------~l~~~~~~--~~~~~~~~~~lIiDEah~~~~~ 76 (248)
.+|+.+..|+ .+.+.... ..-.....+++||||+|.+...
T Consensus 77 hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~ 125 (329)
T PRK08058 77 HPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTAS 125 (329)
T ss_pred CCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHH
Confidence 5678777763 34333322 1113467889999999998654
No 470
>cd01446 DSP_MapKP N-terminal regulatory rhodanese domain of dual specificity phosphatases (DSP), such as Mapk Phosphatase. This domain is believed to determine substrate specificity by binding the substrate, such as ERK2, and activating the C-terminal catalytic domain by inducing a conformational change. This domain has homology to the Rhodanese Homology Domain.
Probab=46.29 E-value=52 Score=22.60 Aligned_cols=37 Identities=16% Similarity=0.321 Sum_probs=27.6
Q ss_pred CCCCEEEEecchHH---------HHHHHHHhhc---CCCeeEEEecCCC
Q 042003 159 LNPPVLIFVQSKER---------AKELYGELAF---DGIRAGVIHSDLS 195 (248)
Q Consensus 159 ~~~~~liF~~~~~~---------~~~l~~~L~~---~~~~v~~~~~~~~ 195 (248)
...++|||+.+-.. +..+.+.|.. .+.++.++.||+.
T Consensus 74 ~~~~VVvYd~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~~L~GG~~ 122 (132)
T cd01446 74 ESLAVVVYDESSSDRERLREDSTAESVLGKLLRKLQEGCSVYLLKGGFE 122 (132)
T ss_pred CCCeEEEEeCCCcchhhccccchHHHHHHHHHHhcCCCceEEEEcchHH
Confidence 36789999976554 6667777776 4568999999964
No 471
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=46.02 E-value=43 Score=25.53 Aligned_cols=68 Identities=16% Similarity=0.157 Sum_probs=43.9
Q ss_pred HHHHHHh-ccCCCCEEEEecchHHHHHHHHHhhcCCCeeE---EEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 150 ALRQSFA-ESLNPPVLIFVQSKERAKELYGELAFDGIRAG---VIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 150 ~l~~~~~-~~~~~~~liF~~~~~~~~~l~~~L~~~~~~v~---~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.|.+.+. ...++++++++.. ..-..+.+.|++.|+.+. +|.. .+.....+..+.+..++.++++-|+.
T Consensus 106 ~L~~~l~~~~~~~~vl~~~g~-~~~~~l~~~L~~~g~~v~~~~vY~~-~~~~~~~~~~~~l~~~~~~~v~ftS~ 177 (231)
T PF02602_consen 106 GLAELLKEQLRGKRVLILRGE-GGRPDLPEKLREAGIEVTEVIVYET-PPEELSPELKEALDRGEIDAVVFTSP 177 (231)
T ss_dssp HHHGGHHHCCTTEEEEEEESS-SSCHHHHHHHHHTTEEEEEEECEEE-EEHHHHHHHHHHHHHTTTSEEEESSH
T ss_pred HHHHHHHhhCCCCeEEEEcCC-CccHHHHHHHHHCCCeEEEEEEeec-ccccchHHHHHHHHcCCCCEEEECCH
Confidence 3344444 3334455555544 445668889988886543 3444 55677788888898888887776664
No 472
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=45.95 E-value=39 Score=27.71 Aligned_cols=63 Identities=14% Similarity=0.183 Sum_probs=33.6
Q ss_pred CCCcEEEeChH--------HHHHHHhc--CCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEE
Q 042003 36 FSCDILISTPL--------RLRLAIRR--KKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFS 101 (248)
Q Consensus 36 ~~~~i~v~Tp~--------~l~~~~~~--~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~S 101 (248)
.+||+.+..|+ .+..+... ..-.....+++|||+||.+.... .+.+-+.++. ++....+++.|
T Consensus 72 ~HPD~~~i~p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~A--aNaLLKtLEE-Pp~~~~fiL~t 144 (325)
T PRK06871 72 NHPDFHILEPIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAA--ANALLKTLEE-PRPNTYFLLQA 144 (325)
T ss_pred CCCCEEEEccccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHH--HHHHHHHhcC-CCCCeEEEEEE
Confidence 46788877662 23222221 11224678999999999987543 3333333333 33344444444
No 473
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=45.52 E-value=17 Score=32.13 Aligned_cols=18 Identities=22% Similarity=0.287 Sum_probs=14.6
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
..+.+++||||+|.+...
T Consensus 117 ~g~~kViIIDEa~~ls~~ 134 (546)
T PRK14957 117 QGRYKVYLIDEVHMLSKQ 134 (546)
T ss_pred cCCcEEEEEechhhccHH
Confidence 457789999999997653
No 474
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=45.34 E-value=44 Score=27.68 Aligned_cols=19 Identities=21% Similarity=0.121 Sum_probs=15.1
Q ss_pred cCceeEEEEeccccccccC
Q 042003 59 LSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~ 77 (248)
....+++|||+||.+....
T Consensus 130 ~~~~kV~iI~~ae~m~~~A 148 (342)
T PRK06964 130 RGGARVVVLYPAEALNVAA 148 (342)
T ss_pred cCCceEEEEechhhcCHHH
Confidence 3567899999999986543
No 475
>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=45.06 E-value=28 Score=23.51 Aligned_cols=15 Identities=47% Similarity=0.561 Sum_probs=12.8
Q ss_pred eeEEEEecccccccc
Q 042003 62 VEYLVLDEADKLFEV 76 (248)
Q Consensus 62 ~~~lIiDEah~~~~~ 76 (248)
..++++||+|.+...
T Consensus 59 ~~vl~iDe~d~l~~~ 73 (132)
T PF00004_consen 59 PCVLFIDEIDKLFPK 73 (132)
T ss_dssp SEEEEEETGGGTSHH
T ss_pred ceeeeeccchhcccc
Confidence 579999999998754
No 476
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=44.96 E-value=16 Score=32.39 Aligned_cols=38 Identities=18% Similarity=0.207 Sum_probs=27.6
Q ss_pred CCCcEEEeChHHHHHHHhcCCcccCceeEEEEeccccccccC
Q 042003 36 FSCDILISTPLRLRLAIRRKKIDLSRVEYLVLDEADKLFEVG 77 (248)
Q Consensus 36 ~~~~i~v~Tp~~l~~~~~~~~~~~~~~~~lIiDEah~~~~~~ 77 (248)
.+.+|+++|-+.....+..+ ..++++|||||-....+.
T Consensus 337 ~n~~VVfaTl~ga~~~~~~~----~~fD~vIIDEaaQamE~~ 374 (649)
T KOG1803|consen 337 SNSRVVFATLGGALDRLLRK----RTFDLVIIDEAAQAMEPQ 374 (649)
T ss_pred cccceEEEeccchhhhhhcc----cCCCEEEEehhhhhccch
Confidence 46899999986665533222 568899999998877654
No 477
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=44.59 E-value=13 Score=35.10 Aligned_cols=96 Identities=14% Similarity=0.061 Sum_probs=52.6
Q ss_pred chHHHHHHHhhcCCCc---EEEEcccchhh-h--c---ccccCCCcEEEeChHHHHHHHhcCCc-------------ccC
Q 042003 3 TQTTRECKKLAKGNKF---QIKLMKKELVR-S--T---DLSKFSCDILISTPLRLRLAIRRKKI-------------DLS 60 (248)
Q Consensus 3 ~Q~~~~~~~~~~~~~~---~~~~~~~~~~~-~--~---~~~~~~~~i~v~Tp~~l~~~~~~~~~-------------~~~ 60 (248)
.-|...|.+|.+++.. +.|..+..... . . ..+.+...|.|.-...+..+-..... .-.
T Consensus 741 ~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke~f~k~lvdp 820 (1567)
T KOG1015|consen 741 LNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKEIFNKALVDP 820 (1567)
T ss_pred HHHHHHHHHhcccccccccceeehhhhccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHHHHHHhccCC
Confidence 3466777777775321 23333333221 1 1 11223457777777766555443221 123
Q ss_pred ceeEEEEeccccccccC-cccccchhHhhhCCCccceeEEEEeec
Q 042003 61 RVEYLVLDEADKLFEVG-NLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~-~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
..+++|.||+|.+-+.. +....+..+... +.|++|+|+
T Consensus 821 GPD~vVCDE~HiLKNeksa~Skam~~irtk------RRI~LTGTP 859 (1567)
T KOG1015|consen 821 GPDFVVCDEGHILKNEKSAVSKAMNSIRTK------RRIILTGTP 859 (1567)
T ss_pred CCCeEEecchhhhccchHHHHHHHHHHHhh------eeEEeecCc
Confidence 46899999999987653 223344444333 468899995
No 478
>PHA02653 RNA helicase NPH-II; Provisional
Probab=44.54 E-value=1.1e+02 Score=28.03 Aligned_cols=69 Identities=10% Similarity=0.052 Sum_probs=44.4
Q ss_pred CCCEEEEecchHHHHHHHHHhhc-------CCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccCCCCCCCcEE
Q 042003 160 NPPVLIFVQSKERAKELYGELAF-------DGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARGMDFKGVNCV 232 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~-------~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~Gidip~~~~V 232 (248)
..+++|-+|+++-|.+++..+.+ .+.++...+|+++..... . +.....++++|..+.. .++.++++|
T Consensus 222 ~~~ilvt~PrreLa~qi~~~i~~~vg~~~~~g~~v~v~~Gg~~~~~~~----t-~~k~~~Ilv~T~~L~l-~~L~~v~~V 295 (675)
T PHA02653 222 ERPIVLSLPRVALVRLHSITLLKSLGFDEIDGSPISLKYGSIPDELIN----T-NPKPYGLVFSTHKLTL-NKLFDYGTV 295 (675)
T ss_pred CcEEEEECcHHHHHHHHHHHHHHHhCccccCCceEEEEECCcchHHhh----c-ccCCCCEEEEeCcccc-cccccCCEE
Confidence 46899999999999888887754 144578889998732111 1 1113479999853311 145667777
Q ss_pred Ee
Q 042003 233 IN 234 (248)
Q Consensus 233 i~ 234 (248)
|.
T Consensus 296 VI 297 (675)
T PHA02653 296 II 297 (675)
T ss_pred Ec
Confidence 63
No 479
>PF00258 Flavodoxin_1: Flavodoxin; InterPro: IPR008254 This domain is found in a number of proteins including flavodoxin and nitric-oxide synthase. Flavodoxins are electron-transfer proteins that function in various electron transport systems. They bind one FMN molecule, which serves as a redox-active prosthetic group [] and are functionally interchangeable with ferredoxins. They have been isolated from prokaryotes, cyanobacteria, and some eukaryotic algae. Nitric oxide synthase (1.14.13.39 from EC) produces nitric oxide from L-arginie and NADPH. Nitric oxide acts as a messenger molecule in the body.; GO: 0010181 FMN binding, 0016491 oxidoreductase activity; PDB: 2WC1_A 2FVX_A 2FOX_A 6NUL_A 1FVX_A 2FAX_A 1FLN_A 1FLA_A 4NLL_A 2FDX_A ....
Probab=44.32 E-value=99 Score=21.40 Aligned_cols=51 Identities=14% Similarity=0.212 Sum_probs=31.1
Q ss_pred cchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecccccC
Q 042003 168 QSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDVIARG 223 (248)
Q Consensus 168 ~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~~~~G 223 (248)
+|..-|+.+++.|++.+..+.++.-...... ...+.... .+++.+++...|
T Consensus 9 ~te~~A~~ia~~l~~~g~~~~~~~~~~~~~~----~~~~~~~~-~~i~~~sT~~~g 59 (143)
T PF00258_consen 9 NTEKMAEAIAEGLRERGVEVRVVDLDDFDDS----PSDLSEYD-LLIFGVSTYGEG 59 (143)
T ss_dssp HHHHHHHHHHHHHHHTTSEEEEEEGGGSCHH----HHHHCTTS-EEEEEEEEETTT
T ss_pred hHHHHHHHHHHHHHHcCCceeeechhhhhhh----hhhhhhhc-eeeEeecccCCC
Confidence 4567778888888888887776654433222 34444433 466666665555
No 480
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=43.45 E-value=59 Score=26.55 Aligned_cols=40 Identities=10% Similarity=0.149 Sum_probs=23.7
Q ss_pred cCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEe
Q 042003 59 LSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSA 102 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA 102 (248)
....+++|||+||.+...+ .+.+.+.++. ++ +..++++|.
T Consensus 122 ~~~~kVvII~~ae~m~~~a--aNaLLK~LEE-Pp-~~~fILi~~ 161 (314)
T PRK07399 122 EAPRKVVVIEDAETMNEAA--ANALLKTLEE-PG-NGTLILIAP 161 (314)
T ss_pred cCCceEEEEEchhhcCHHH--HHHHHHHHhC-CC-CCeEEEEEC
Confidence 4678999999999986533 2333333443 23 444454444
No 481
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=43.44 E-value=38 Score=27.90 Aligned_cols=64 Identities=14% Similarity=0.099 Sum_probs=34.9
Q ss_pred CCCcEEEeChHH---------HHHHHhc--CCcccCceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEe
Q 042003 36 FSCDILISTPLR---------LRLAIRR--KKIDLSRVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSA 102 (248)
Q Consensus 36 ~~~~i~v~Tp~~---------l~~~~~~--~~~~~~~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SA 102 (248)
.+||+.+.+|+. +..+... ..-.....+++|||+||.+.... .+.+-+.++. ++...-++++|.
T Consensus 72 ~HPD~~~i~p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~A--aNaLLKtLEE-Pp~~t~fiL~t~ 146 (334)
T PRK07993 72 THPDYYTLTPEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAA--ANALLKTLEE-PPENTWFFLACR 146 (334)
T ss_pred CCCCEEEEecccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHH--HHHHHHHhcC-CCCCeEEEEEEC
Confidence 468888887752 2222221 11234678999999999986543 2333333333 333344444443
No 482
>cd01400 6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard against the accumulation of the delta form of the lactone, which may be toxic through its reaction with endogenous cellular nucleophiles.
Probab=43.38 E-value=53 Score=25.13 Aligned_cols=29 Identities=31% Similarity=0.305 Sum_probs=22.3
Q ss_pred eChHHHHHHHhcCC-cccCceeEEEEeccc
Q 042003 43 STPLRLRLAIRRKK-IDLSRVEYLVLDEAD 71 (248)
Q Consensus 43 ~Tp~~l~~~~~~~~-~~~~~~~~lIiDEah 71 (248)
.||..+.+.+.... ++++++.++-+||=.
T Consensus 33 stp~~~y~~L~~~~~i~w~~v~~f~~DEr~ 62 (219)
T cd01400 33 STPKPLYELLAAAPALDWSKVHVFLGDERC 62 (219)
T ss_pred ccHHHHHHHhccccCCCCceEEEEEeeccc
Confidence 36777777776654 788999999999954
No 483
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=43.33 E-value=42 Score=22.74 Aligned_cols=48 Identities=8% Similarity=0.002 Sum_probs=30.7
Q ss_pred cchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 168 QSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 168 ~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
.|..+++.+.+. .|+++-.+..+ +.+.+.++.+.+++|+++.+|.|..
T Consensus 32 AT~gTa~~L~~~---~Gi~v~~vk~~-~~~g~~~i~~~i~~g~i~~VInt~~ 79 (115)
T cd01422 32 ATGTTGLLIQEA---TGLTVNRMKSG-PLGGDQQIGALIAEGEIDAVIFFRD 79 (115)
T ss_pred EechHHHHHHHh---hCCcEEEEecC-CCCchhHHHHHHHcCceeEEEEcCC
Confidence 455555554431 57766655211 1234577999999999999999965
No 484
>TIGR00929 VirB4_CagE type IV secretion/conjugal transfer ATPase, VirB4 family. Type IV secretion systems are found in Gram-negative pathogens. They export proteins, DNA, or complexes in different systems and are related to plasmid conjugation systems. This model represents related ATPases that include VirB4 in Agrobacterium tumefaciens (DNA export) CagE in Helicobacter pylori (protein export) and plasmid TraB (conjugation).
Probab=43.10 E-value=12 Score=34.60 Aligned_cols=42 Identities=19% Similarity=0.152 Sum_probs=26.0
Q ss_pred ceeEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeec
Q 042003 61 RVEYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATL 104 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~ 104 (248)
.-.++++||||.+.+...+...+..+.+.....+.- ++-+|-
T Consensus 629 ~~~~i~iDEa~~ll~~~~~~~~i~~~~r~~RK~~~~--~~~~TQ 670 (785)
T TIGR00929 629 RPFLIIIDEAWQYLGNPVFAAKIRDWLKTLRKANGI--VVLATQ 670 (785)
T ss_pred CCeEEEEechhhhcCCHHHHHHHHHHHHHHHHcCCE--EEEEeC
Confidence 457899999999886443555666665554334443 334453
No 485
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=42.94 E-value=2e+02 Score=24.08 Aligned_cols=71 Identities=24% Similarity=0.213 Sum_probs=41.1
Q ss_pred HHHHHHHHHhccCCCCEEEEecch--H--HHHHHHHHhhcCCCeeEEEec---CCCHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK--E--RAKELYGELAFDGIRAGVIHS---DLSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~--~--~~~~l~~~L~~~~~~v~~~~~---~~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
....+.+.+.....++++|.+... + ..+.+.+.|++.++.+..+.+ .-+.+.-.+..+.+++.+.+.+|+-
T Consensus 13 ~l~~l~~~l~~~~~~~~livt~~~~~~~~~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 90 (376)
T cd08193 13 SLARLGELLAALGAKRVLVVTDPGILKAGLIDPLLASLEAAGIEVTVFDDVEADPPEAVVEAAVEAARAAGADGVIGF 90 (376)
T ss_pred HHHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 344555555554346677666442 1 356677777777766655542 2234445566667777777777664
No 486
>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.
Probab=42.92 E-value=1.7e+02 Score=23.38 Aligned_cols=11 Identities=18% Similarity=0.184 Sum_probs=5.6
Q ss_pred CCCEEEEecch
Q 042003 160 NPPVLIFVQSK 170 (248)
Q Consensus 160 ~~~~liF~~~~ 170 (248)
++.++++..+.
T Consensus 160 G~~Vlvl~Dsl 170 (274)
T cd01132 160 GKHALIIYDDL 170 (274)
T ss_pred CCCEEEEEcCh
Confidence 44555555544
No 487
>TIGR01198 pgl 6-phosphogluconolactonase. This enzyme of the pentose phosphate pathway is often found as a part of a multifunctional protein with
Probab=42.77 E-value=54 Score=25.38 Aligned_cols=29 Identities=28% Similarity=0.421 Sum_probs=23.5
Q ss_pred eChHHHHHHHhcCCcccCceeEEEEeccc
Q 042003 43 STPLRLRLAIRRKKIDLSRVEYLVLDEAD 71 (248)
Q Consensus 43 ~Tp~~l~~~~~~~~~~~~~~~~lIiDEah 71 (248)
.||..+.+.+....+.++++.++-+||=.
T Consensus 38 stp~~~y~~L~~~~i~w~~v~~f~~DER~ 66 (233)
T TIGR01198 38 RSPIALLEALAAQPLDWSRIHLFLGDERY 66 (233)
T ss_pred ccHHHHHHHHhhCCCCcceEEEEEecccc
Confidence 37777777777667889999999999954
No 488
>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=42.72 E-value=1.7e+02 Score=23.27 Aligned_cols=66 Identities=23% Similarity=0.317 Sum_probs=44.3
Q ss_pred HHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEEEec
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLIATD 218 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv~T~ 218 (248)
....+...+....+.++=|.+.+. .+++.+...++..|.++....++++.++|++... .+|.-+|.
T Consensus 105 li~~l~a~~~AL~G~~V~vvT~NdyLA~RD~~~~~~~y~~LGlsv~~~~~~~~~~~r~~~Y~------~dI~Y~t~ 174 (266)
T PF07517_consen 105 LIAALPAALNALQGKGVHVVTSNDYLAKRDAEEMRPFYEFLGLSVGIITSDMSSEERREAYA------ADIVYGTN 174 (266)
T ss_dssp HHHHHHHHHHHTTSS-EEEEESSHHHHHHHHHHHHHHHHHTT--EEEEETTTEHHHHHHHHH------SSEEEEEH
T ss_pred HHHHHHHHHHHHhcCCcEEEeccHHHhhccHHHHHHHHHHhhhccccCccccCHHHHHHHHh------Cccccccc
Confidence 344555566666678888888885 4455555666677999999999999998887765 24555553
No 489
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=42.48 E-value=36 Score=22.93 Aligned_cols=47 Identities=19% Similarity=0.186 Sum_probs=28.1
Q ss_pred chHHHHHHHHHhhcCCCeeEEEe--cCCCHHHHHHHHHHhhcCCceEEEEecc
Q 042003 169 SKERAKELYGELAFDGIRAGVIH--SDLSQTQRENAVDDFRAGKTWVLIATDV 219 (248)
Q Consensus 169 ~~~~~~~l~~~L~~~~~~v~~~~--~~~~~~~r~~~~~~f~~g~~~ilv~T~~ 219 (248)
|..+++. |++.|+++..+. .+.+......+.+.+++|+++++|.|..
T Consensus 32 T~gTa~~----L~~~gi~~~~v~~~~~~~~~~~~~i~~~i~~~~idlVIn~~~ 80 (116)
T cd01423 32 TEGTADF----LLENGIPVTPVAWPSEEPQNDKPSLRELLAEGKIDLVINLPS 80 (116)
T ss_pred ccHHHHH----HHHcCCCceEeeeccCCCCCCchhHHHHHHcCCceEEEECCC
Confidence 4454444 445566555542 2212222366888899999999999865
No 490
>PRK04841 transcriptional regulator MalT; Provisional
Probab=42.33 E-value=22 Score=33.46 Aligned_cols=42 Identities=17% Similarity=0.297 Sum_probs=30.7
Q ss_pred eEEEEeccccccccCcccccchhHhhhCCCccceeEEEEeecCc
Q 042003 63 EYLVLDEADKLFEVGNLLKHIDPVVKACSNPSIVRSLFSATLPD 106 (248)
Q Consensus 63 ~~lIiDEah~~~~~~~~~~~~~~~~~~~~~~~~~~i~~SAT~~~ 106 (248)
-++|+|++|.+.+.. ....+..+++. .+.+..+|+.|-+.++
T Consensus 123 ~~lvlDD~h~~~~~~-~~~~l~~l~~~-~~~~~~lv~~sR~~~~ 164 (903)
T PRK04841 123 LYLVIDDYHLITNPE-IHEAMRFFLRH-QPENLTLVVLSRNLPP 164 (903)
T ss_pred EEEEEeCcCcCCChH-HHHHHHHHHHh-CCCCeEEEEEeCCCCC
Confidence 489999999986543 55677777776 4566777778888654
No 491
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=42.30 E-value=73 Score=21.42 Aligned_cols=33 Identities=24% Similarity=0.332 Sum_probs=23.9
Q ss_pred hHHHHHHHHHhccCCCCEEEEecchHHHHHHHHH
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQSKERAKELYGE 179 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~~~~~~~l~~~ 179 (248)
+....+.+.++.. ++|+++||.|-..+..++..
T Consensus 73 ~~v~~f~~~l~~~-~~Pvl~hC~sG~Ra~~l~~l 105 (110)
T PF04273_consen 73 EDVEAFADALESL-PKPVLAHCRSGTRASALWAL 105 (110)
T ss_dssp HHHHHHHHHHHTT-TTSEEEE-SCSHHHHHHHHH
T ss_pred HHHHHHHHHHHhC-CCCEEEECCCChhHHHHHHH
Confidence 5566667777776 67999999998888776643
No 492
>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=42.26 E-value=17 Score=31.50 Aligned_cols=16 Identities=13% Similarity=0.092 Sum_probs=13.1
Q ss_pred ceeEEEEecccccccc
Q 042003 61 RVEYLVLDEADKLFEV 76 (248)
Q Consensus 61 ~~~~lIiDEah~~~~~ 76 (248)
+..++|+||+|...+.
T Consensus 123 ~~~~~i~DE~h~~~~~ 138 (477)
T PF03354_consen 123 NPSLAIFDELHAHKDD 138 (477)
T ss_pred CCceEEEeCCCCCCCH
Confidence 4679999999997653
No 493
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=42.22 E-value=69 Score=21.34 Aligned_cols=49 Identities=6% Similarity=0.095 Sum_probs=26.8
Q ss_pred ecchHHHHHHHHHhhcCCCeeEEEecCCCHHHHHHHHHHhhcCCceEEE
Q 042003 167 VQSKERAKELYGELAFDGIRAGVIHSDLSQTQRENAVDDFRAGKTWVLI 215 (248)
Q Consensus 167 ~~~~~~~~~l~~~L~~~~~~v~~~~~~~~~~~r~~~~~~f~~g~~~ilv 215 (248)
+.+.+.++.+.+.|.+.++.+.+++..+-..-.++.++.++++....+|
T Consensus 28 ~~~~e~~~~~~~~l~~~~~gII~iTE~~a~~i~~~~i~~~~~~~~P~II 76 (104)
T PRK01189 28 AEGKDLVKKFLEIFNNPKCKYIFVSESTKNMFDKNTLRSLESSSKPLVV 76 (104)
T ss_pred cCCHHHHHHHHHHHhcCCeEEEEEEHHHHhhCCHHHHHHHhccCCCeEE
Confidence 4445555666666666666666666554444333455555555555444
No 494
>PF04763 DUF562: Protein of unknown function (DUF562); InterPro: IPR006850 This represents a conserved region found in a number of Chlamydophila pneumoniae proteins.
Probab=42.15 E-value=1.2e+02 Score=21.32 Aligned_cols=73 Identities=18% Similarity=0.281 Sum_probs=42.2
Q ss_pred HHhccCCCCEEEEec---------chHHHHHHHHHhhcCCCe---eEEEecC-CCHHHHHHHHHHhhcCCceEEEEeccc
Q 042003 154 SFAESLNPPVLIFVQ---------SKERAKELYGELAFDGIR---AGVIHSD-LSQTQRENAVDDFRAGKTWVLIATDVI 220 (248)
Q Consensus 154 ~~~~~~~~~~liF~~---------~~~~~~~l~~~L~~~~~~---v~~~~~~-~~~~~r~~~~~~f~~g~~~ilv~T~~~ 220 (248)
.+.....+.++|-|+ .......+-+.|+..||+ +.-++.. |.-++| ++++.=.+|+.=-+|.|+.-
T Consensus 9 v~~de~Ek~vvVv~~~~~~~~~~l~~~s~~~l~~eL~~~GYSylNIfs~~~~~~~V~eR-~~l~~~~~grsFTvI~~elp 87 (146)
T PF04763_consen 9 VLHDEKEKNVVVVCNHSWPGPESLPPESVSLLIEELEESGYSYLNIFSCSSESMCVKER-QILNDDSQGRSFTVILTELP 87 (146)
T ss_pred heeccccCcEEEEEeCCcccccCCChHHHHHHHHHHhhcCCceEEEEEEcCCCcchHHH-HHhcCCccCceEEEEEEcCC
Confidence 334444677887776 245677888899988884 5555544 444443 44444445665556666443
Q ss_pred ccCCCCC
Q 042003 221 ARGMDFK 227 (248)
Q Consensus 221 ~~Gidip 227 (248)
.-+=||.
T Consensus 88 ~g~~DiR 94 (146)
T PF04763_consen 88 EGSADIR 94 (146)
T ss_pred CCccchh
Confidence 3333443
No 495
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=42.06 E-value=80 Score=19.21 Aligned_cols=50 Identities=18% Similarity=0.119 Sum_probs=34.3
Q ss_pred CEEEEecchHHHHHHHHHhhcCCCeeEEEe------c------CCCHHHHHHHHHHhhcCCc
Q 042003 162 PVLIFVQSKERAKELYGELAFDGIRAGVIH------S------DLSQTQRENAVDDFRAGKT 211 (248)
Q Consensus 162 ~~liF~~~~~~~~~l~~~L~~~~~~v~~~~------~------~~~~~~r~~~~~~f~~g~~ 211 (248)
..+|.++|..++-+..+.|++.|+++.++- + ..+.++.+.+.+.+++..+
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi~~~liP~P~~i~~~CG~al~~~~~d~~~i~~~l~~~~i 64 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGIPVRLIPTPREISAGCGLALRFEPEDLEKIKEILEENGI 64 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCCcEEEeCCChhccCCCCEEEEEChhhHHHHHHHHHHCCC
Confidence 467777888999999999998877654441 1 2345666777777766654
No 496
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=42.02 E-value=18 Score=33.82 Aligned_cols=72 Identities=25% Similarity=0.248 Sum_probs=43.4
Q ss_pred chHHHHHHHhhcCCCcEEEEcccchhh--------hcccccCC----CcEEEeChHHHHHHHh-cCCcccCceeEEEEec
Q 042003 3 TQTTRECKKLAKGNKFQIKLMKKELVR--------STDLSKFS----CDILISTPLRLRLAIR-RKKIDLSRVEYLVLDE 69 (248)
Q Consensus 3 ~Q~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~----~~i~v~Tp~~l~~~~~-~~~~~~~~~~~lIiDE 69 (248)
.++.+.+.++.+.... +....|... ........ .+++++|.+.+..... .+.+.-..++.+|+||
T Consensus 403 ~nw~~e~~k~~~~~~~--~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~~~l~~~~~~~~v~DE 480 (866)
T COG0553 403 SNWKREFEKFAPDLRL--VLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLVDHGGLKKIEWDRVVLDE 480 (866)
T ss_pred HHHHHHHhhhCccccc--eeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhhhhHHHHhhceeeeeehhh
Confidence 3555666666666542 444444332 11122222 7999999998877431 1234456788999999
Q ss_pred ccccccc
Q 042003 70 ADKLFEV 76 (248)
Q Consensus 70 ah~~~~~ 76 (248)
+|.+-+.
T Consensus 481 a~~ikn~ 487 (866)
T COG0553 481 AHRIKND 487 (866)
T ss_pred HHHHhhh
Confidence 9997654
No 497
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=41.91 E-value=2.1e+02 Score=24.03 Aligned_cols=71 Identities=13% Similarity=0.100 Sum_probs=45.7
Q ss_pred hHHHHHHHHHhccCCCCEEEEecc--hH---HHHHHHHHhhcCCCeeEEEecCC---CHHHHHHHHHHhhcCCceEEEEe
Q 042003 146 GKLLALRQSFAESLNPPVLIFVQS--KE---RAKELYGELAFDGIRAGVIHSDL---SQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 146 ~~~~~l~~~~~~~~~~~~liF~~~--~~---~~~~l~~~L~~~~~~v~~~~~~~---~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
.....+.++++.. +++++|.+.. .+ ..+.+.+.|+..++.+..+.+-. +.+.-.+..+.++..+.+.+|+-
T Consensus 15 g~~~~l~~~~~~~-~~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 93 (382)
T cd08187 15 GTESELGKELKKY-GKKVLLVYGGGSIKKNGLYDRVIASLKEAGIEVVELGGVEPNPRLETVREGIELCKEEKVDFILAV 93 (382)
T ss_pred CHHHHHHHHHHHh-CCEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeEEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 3455566666665 5788888753 22 24678888888787776665432 34555667777888788877753
No 498
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=41.88 E-value=34 Score=28.48 Aligned_cols=36 Identities=11% Similarity=0.231 Sum_probs=30.8
Q ss_pred CCCEEEEecchHHHHHHHHHhhcCCCe-eEEEecCCC
Q 042003 160 NPPVLIFVQSKERAKELYGELAFDGIR-AGVIHSDLS 195 (248)
Q Consensus 160 ~~~~liF~~~~~~~~~l~~~L~~~~~~-v~~~~~~~~ 195 (248)
++++++||.+-..+...+..|+..|+. +..+.||+.
T Consensus 314 ~~~IvvyC~~G~rS~~Aa~~L~~~G~~nV~~L~GGi~ 350 (355)
T PRK05597 314 GDEVVVYCAAGVRSAQAVAILERAGYTGMSSLDGGIE 350 (355)
T ss_pred CCeEEEEcCCCHHHHHHHHHHHHcCCCCEEEecCcHH
Confidence 568999999988889999999999885 788899864
No 499
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=41.84 E-value=20 Score=32.14 Aligned_cols=18 Identities=22% Similarity=0.320 Sum_probs=14.9
Q ss_pred cCceeEEEEecccccccc
Q 042003 59 LSRVEYLVLDEADKLFEV 76 (248)
Q Consensus 59 ~~~~~~lIiDEah~~~~~ 76 (248)
+...+++||||+|.+...
T Consensus 130 ~a~~KVvIIDEad~Ls~~ 147 (598)
T PRK09111 130 SARYKVYIIDEVHMLSTA 147 (598)
T ss_pred cCCcEEEEEEChHhCCHH
Confidence 567899999999998653
No 500
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=41.82 E-value=2.1e+02 Score=23.90 Aligned_cols=71 Identities=15% Similarity=0.130 Sum_probs=41.2
Q ss_pred HHHHHHHHHhccCCCCEEEEecch----HHHHHHHHHhhcCCCeeEEEecC---CCHHHHHHHHHHhhcCCceEEEEe
Q 042003 147 KLLALRQSFAESLNPPVLIFVQSK----ERAKELYGELAFDGIRAGVIHSD---LSQTQRENAVDDFRAGKTWVLIAT 217 (248)
Q Consensus 147 ~~~~l~~~~~~~~~~~~liF~~~~----~~~~~l~~~L~~~~~~v~~~~~~---~~~~~r~~~~~~f~~g~~~ilv~T 217 (248)
..+.+.+.++....++++|.+... ...+.+.+.|++.++.+..+.+- -+.+.-.+..+.++..+.+.+|+-
T Consensus 10 ~l~~l~~~l~~~~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~Iiai 87 (370)
T cd08551 10 AIEKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAV 87 (370)
T ss_pred HHHHHHHHHHHcCCCeEEEEeCcchhhCccHHHHHHHHHHcCCeEEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEe
Confidence 445555666655345666666432 22346777777777766655432 244555666677776666776643
Done!