Query 000854
Match_columns 1252
No_of_seqs 752 out of 4118
Neff 6.4
Searched_HMMs 46136
Date Tue Apr 2 00:27:47 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0922 DEAH-box RNA helicase 100.0 2E-124 4E-129 1099.8 52.6 616 157-800 42-667 (674)
2 KOG0923 mRNA splicing factor A 100.0 7E-119 2E-123 1035.5 45.7 625 154-806 253-889 (902)
3 KOG0924 mRNA splicing factor A 100.0 1E-118 2E-123 1033.0 44.2 613 157-799 347-972 (1042)
4 KOG0925 mRNA splicing factor A 100.0 2E-114 5E-119 971.1 49.8 632 136-805 24-672 (699)
5 PRK11131 ATP-dependent RNA hel 100.0 2E-107 4E-112 1038.8 61.2 641 162-822 70-726 (1294)
6 TIGR01967 DEAH_box_HrpA ATP-de 100.0 2E-102 4E-107 996.7 62.5 641 161-822 62-716 (1283)
7 KOG0920 ATP-dependent RNA heli 100.0 2E-101 4E-106 950.3 45.0 709 151-882 158-920 (924)
8 COG1643 HrpA HrpA-like helicas 100.0 3.9E-97 8E-102 917.4 47.3 627 157-795 41-707 (845)
9 KOG0926 DEAH-box RNA helicase 100.0 5.3E-96 1E-100 856.5 44.0 620 156-795 246-1019(1172)
10 TIGR01970 DEAH_box_HrpB ATP-de 100.0 1.5E-82 3.3E-87 799.5 56.9 590 165-822 1-605 (819)
11 PRK11664 ATP-dependent RNA hel 100.0 4.8E-82 1E-86 796.8 58.9 581 164-822 3-598 (812)
12 KOG0921 Dosage compensation co 100.0 2.9E-55 6.3E-60 519.0 22.5 675 151-853 363-1113(1282)
13 PHA02653 RNA helicase NPH-II; 100.0 1.3E-53 2.9E-58 526.7 36.1 396 165-596 164-594 (675)
14 KOG0330 ATP-dependent RNA heli 100.0 1.5E-47 3.2E-52 424.6 18.9 339 132-506 56-410 (476)
15 KOG0331 ATP-dependent RNA heli 100.0 3.2E-45 6.9E-50 431.1 25.8 330 150-506 98-451 (519)
16 COG0513 SrmB Superfamily II DN 100.0 8.2E-43 1.8E-47 424.8 30.0 332 137-503 29-380 (513)
17 KOG0338 ATP-dependent RNA heli 100.0 3.3E-43 7.1E-48 399.2 20.1 325 149-505 187-535 (691)
18 PRK02362 ski2-like helicase; P 100.0 4.8E-41 1E-45 427.1 41.5 431 150-598 8-515 (737)
19 KOG0333 U5 snRNP-like RNA heli 100.0 1.5E-42 3.3E-47 395.5 24.6 364 101-504 213-625 (673)
20 PTZ00110 helicase; Provisional 100.0 1.4E-41 2.9E-46 417.6 31.3 340 131-505 124-486 (545)
21 PRK01172 ski2-like helicase; P 100.0 2E-40 4.2E-45 418.4 42.3 425 150-599 8-494 (674)
22 PRK11776 ATP-dependent RNA hel 100.0 3.3E-41 7.1E-46 408.0 32.7 332 137-505 4-351 (460)
23 PRK04837 ATP-dependent RNA hel 100.0 3.7E-41 8E-46 403.3 31.0 333 135-505 6-364 (423)
24 KOG0343 RNA Helicase [RNA proc 100.0 3.3E-41 7.1E-46 385.7 24.1 337 135-507 67-426 (758)
25 PRK10590 ATP-dependent RNA hel 100.0 2E-40 4.4E-45 400.3 31.1 332 138-506 2-355 (456)
26 PRK00254 ski2-like helicase; P 100.0 1.8E-39 3.9E-44 411.8 40.6 428 150-598 8-506 (720)
27 PRK11192 ATP-dependent RNA hel 100.0 4.2E-40 9.1E-45 395.5 32.2 332 138-506 2-355 (434)
28 PRK11634 ATP-dependent RNA hel 100.0 5.5E-40 1.2E-44 407.3 33.6 332 138-505 7-354 (629)
29 KOG0328 Predicted ATP-dependen 100.0 8E-41 1.7E-45 357.3 21.8 343 130-507 20-377 (400)
30 PLN00206 DEAD-box ATP-dependen 100.0 3.9E-40 8.4E-45 403.2 30.6 336 132-505 116-477 (518)
31 PRK04537 ATP-dependent RNA hel 100.0 9.7E-40 2.1E-44 402.7 30.8 330 138-505 10-366 (572)
32 KOG0340 ATP-dependent RNA heli 100.0 2E-39 4.3E-44 356.6 24.0 340 135-506 5-364 (442)
33 KOG0342 ATP-dependent RNA heli 100.0 2.1E-39 4.5E-44 369.6 24.2 326 149-505 88-439 (543)
34 KOG0345 ATP-dependent RNA heli 100.0 6.4E-39 1.4E-43 362.9 26.7 343 150-522 13-386 (567)
35 PTZ00424 helicase 45; Provisio 100.0 1.3E-38 2.8E-43 378.3 29.1 336 135-507 26-378 (401)
36 PRK01297 ATP-dependent RNA hel 100.0 3.4E-38 7.3E-43 383.1 32.1 325 150-505 94-444 (475)
37 KOG0347 RNA helicase [RNA proc 100.0 5.6E-39 1.2E-43 367.6 14.0 339 133-504 177-571 (731)
38 KOG0336 ATP-dependent RNA heli 100.0 1.7E-37 3.6E-42 344.5 22.9 342 133-506 215-575 (629)
39 KOG0326 ATP-dependent RNA heli 100.0 2.7E-38 5.9E-43 342.5 15.7 334 137-506 85-432 (459)
40 KOG0348 ATP-dependent RNA heli 100.0 3E-37 6.5E-42 352.6 24.4 348 132-506 131-557 (708)
41 KOG0339 ATP-dependent RNA heli 100.0 6E-37 1.3E-41 347.6 22.9 337 135-506 221-578 (731)
42 KOG0332 ATP-dependent RNA heli 100.0 7.2E-37 1.6E-41 337.9 22.1 344 131-504 84-444 (477)
43 TIGR03817 DECH_helic helicase/ 100.0 4.1E-36 8.9E-41 379.4 30.3 328 150-502 21-385 (742)
44 KOG0335 ATP-dependent RNA heli 100.0 5.5E-37 1.2E-41 356.0 19.9 344 127-502 64-443 (482)
45 PLN03137 ATP-dependent DNA hel 100.0 1.2E-35 2.6E-40 372.8 30.9 328 138-506 436-790 (1195)
46 TIGR00614 recQ_fam ATP-depende 100.0 5E-35 1.1E-39 354.6 30.6 308 160-506 6-336 (470)
47 COG1202 Superfamily II helicas 100.0 9.1E-34 2E-38 325.9 30.9 444 129-612 186-679 (830)
48 PRK11057 ATP-dependent DNA hel 100.0 4.9E-34 1.1E-38 355.2 30.9 315 150-506 12-346 (607)
49 KOG0341 DEAD-box protein abstr 100.0 7.8E-36 1.7E-40 329.3 11.7 341 128-504 161-529 (610)
50 KOG0346 RNA helicase [RNA proc 100.0 1E-34 2.2E-39 326.1 20.3 333 137-505 19-412 (569)
51 TIGR01389 recQ ATP-dependent D 100.0 6.8E-33 1.5E-37 345.1 28.3 306 161-506 9-334 (591)
52 KOG0334 RNA helicase [RNA proc 100.0 1.3E-33 2.9E-38 346.6 20.8 342 129-505 357-722 (997)
53 COG1204 Superfamily II helicas 100.0 6E-32 1.3E-36 338.7 33.2 415 165-598 31-527 (766)
54 PRK13767 ATP-dependent helicas 100.0 1.2E-31 2.7E-36 344.8 35.5 327 150-499 18-396 (876)
55 KOG0327 Translation initiation 100.0 9.5E-33 2.1E-37 308.8 20.5 336 136-509 25-376 (397)
56 KOG0350 DEAD-box ATP-dependent 100.0 2.7E-32 5.9E-37 310.8 23.9 330 152-506 146-543 (620)
57 KOG4284 DEAD box protein [Tran 100.0 2E-32 4.3E-37 317.4 20.7 338 146-505 28-381 (980)
58 KOG0353 ATP-dependent DNA heli 100.0 1.9E-31 4.2E-36 293.2 25.2 411 55-504 8-468 (695)
59 TIGR02621 cas3_GSU0051 CRISPR- 100.0 9.9E-31 2.1E-35 325.4 31.5 341 162-536 13-425 (844)
60 TIGR00580 mfd transcription-re 100.0 4.2E-31 9E-36 337.2 28.7 297 165-503 451-770 (926)
61 KOG0344 ATP-dependent RNA heli 100.0 1.1E-30 2.4E-35 304.8 23.7 343 132-505 127-497 (593)
62 PRK10917 ATP-dependent DNA hel 100.0 4.3E-30 9.4E-35 323.3 30.6 306 155-501 251-587 (681)
63 PRK10689 transcription-repair 100.0 2E-30 4.3E-35 337.3 28.2 296 165-502 600-918 (1147)
64 PRK09751 putative ATP-dependen 100.0 6.8E-30 1.5E-34 333.5 27.7 289 186-497 1-379 (1490)
65 COG0514 RecQ Superfamily II DN 100.0 3.8E-30 8.2E-35 309.0 23.2 311 154-506 8-340 (590)
66 TIGR00643 recG ATP-dependent D 100.0 8.3E-30 1.8E-34 318.7 27.2 305 158-501 229-564 (630)
67 COG1201 Lhr Lhr-like helicases 100.0 1.9E-29 4.2E-34 312.4 29.9 312 150-491 8-348 (814)
68 KOG0337 ATP-dependent RNA heli 100.0 9.5E-31 2.1E-35 293.3 15.8 335 137-505 21-370 (529)
69 TIGR01587 cas3_core CRISPR-ass 100.0 3.1E-29 6.8E-34 293.8 23.6 288 183-504 1-337 (358)
70 COG1111 MPH1 ERCC4-like helica 100.0 1.8E-28 4E-33 282.6 26.8 314 170-504 19-482 (542)
71 KOG0952 DNA/RNA helicase MER3/ 100.0 1.1E-28 2.4E-33 300.3 25.8 468 168-653 113-683 (1230)
72 TIGR03158 cas3_cyano CRISPR-as 100.0 6.6E-27 1.4E-31 274.2 28.9 286 170-489 2-357 (357)
73 KOG0352 ATP-dependent DNA heli 100.0 1.6E-27 3.4E-32 266.8 17.7 318 165-507 20-366 (641)
74 PHA02558 uvsW UvsW helicase; P 99.9 1.6E-26 3.5E-31 282.3 27.1 301 163-495 112-443 (501)
75 PRK09401 reverse gyrase; Revie 99.9 6.5E-27 1.4E-31 305.3 23.7 293 164-490 79-430 (1176)
76 PRK14701 reverse gyrase; Provi 99.9 7.9E-27 1.7E-31 310.0 23.9 323 156-506 70-459 (1638)
77 PRK13766 Hef nuclease; Provisi 99.9 1.3E-25 2.9E-30 288.4 30.4 316 169-505 18-481 (773)
78 KOG0354 DEAD-box like helicase 99.9 8E-26 1.7E-30 274.3 24.0 316 163-504 59-530 (746)
79 KOG0351 ATP-dependent DNA heli 99.9 1.9E-26 4.2E-31 291.0 17.6 321 152-507 253-596 (941)
80 KOG0951 RNA helicase BRR2, DEA 99.9 2E-24 4.4E-29 265.3 26.7 421 167-602 311-836 (1674)
81 TIGR01054 rgy reverse gyrase. 99.9 9.3E-25 2E-29 285.5 25.2 278 161-460 74-411 (1171)
82 COG1205 Distinct helicase fami 99.9 3.7E-24 8.1E-29 272.2 28.3 401 154-576 59-508 (851)
83 KOG0948 Nuclear exosomal RNA h 99.9 3.1E-25 6.8E-30 261.7 15.9 319 165-503 128-539 (1041)
84 PRK12898 secA preprotein trans 99.9 9.7E-24 2.1E-28 258.4 29.5 318 154-504 92-587 (656)
85 TIGR03714 secA2 accessory Sec 99.9 2.1E-23 4.5E-28 258.1 29.7 314 156-504 61-538 (762)
86 PRK09200 preprotein translocas 99.9 4.3E-24 9.2E-29 266.5 23.3 317 154-504 67-542 (790)
87 KOG0329 ATP-dependent RNA heli 99.9 3.1E-24 6.8E-29 227.4 14.8 292 150-504 49-356 (387)
88 KOG0947 Cytoplasmic exosomal R 99.9 1.9E-23 4E-28 252.1 21.4 319 165-503 296-723 (1248)
89 TIGR00603 rad25 DNA repair hel 99.9 8.8E-23 1.9E-27 252.6 26.1 304 168-506 258-610 (732)
90 TIGR00963 secA preprotein tran 99.9 5.2E-23 1.1E-27 253.1 22.9 319 154-504 45-518 (745)
91 COG4581 Superfamily II RNA hel 99.9 1.3E-22 2.7E-27 255.0 25.0 327 159-503 114-537 (1041)
92 PRK09694 helicase Cas3; Provis 99.9 2.5E-22 5.4E-27 254.8 27.9 302 164-492 285-663 (878)
93 PRK05580 primosome assembly pr 99.9 7.2E-22 1.6E-26 248.4 25.8 311 165-499 144-545 (679)
94 KOG0349 Putative DEAD-box RNA 99.9 1.9E-22 4.1E-27 226.0 11.6 272 212-502 288-614 (725)
95 TIGR00595 priA primosomal prot 99.9 2.1E-21 4.5E-26 236.5 20.5 289 186-498 2-376 (505)
96 COG1200 RecG RecG-like helicas 99.9 1.2E-20 2.6E-25 226.6 23.1 310 154-504 251-592 (677)
97 COG1061 SSL2 DNA or RNA helica 99.9 2.7E-20 5.9E-25 223.9 25.8 292 167-491 38-376 (442)
98 COG1197 Mfd Transcription-repa 99.8 2.9E-20 6.4E-25 233.8 23.1 295 167-503 596-913 (1139)
99 KOG0950 DNA polymerase theta/e 99.8 3E-20 6.5E-25 227.0 19.7 310 176-505 235-613 (1008)
100 PRK11448 hsdR type I restricti 99.8 1.4E-19 2.9E-24 235.9 24.5 312 166-502 414-814 (1123)
101 COG4098 comFA Superfamily II D 99.8 3.9E-19 8.4E-24 196.5 23.6 291 172-499 107-412 (441)
102 PRK13104 secA preprotein trans 99.8 1.3E-18 2.8E-23 217.2 21.5 337 157-504 74-588 (896)
103 PRK04914 ATP-dependent helicas 99.8 2.1E-18 4.6E-23 220.4 23.8 110 368-495 481-595 (956)
104 PRK12906 secA preprotein trans 99.8 9.2E-18 2E-22 208.8 23.6 107 378-504 438-554 (796)
105 PRK12904 preprotein translocas 99.8 5.4E-18 1.2E-22 211.5 20.8 334 155-504 71-574 (830)
106 COG1203 CRISPR-associated heli 99.8 1.8E-17 3.9E-22 210.7 20.9 293 183-500 216-547 (733)
107 PRK13107 preprotein translocas 99.7 3.8E-16 8.1E-21 194.7 23.4 116 367-504 438-592 (908)
108 cd00268 DEADc DEAD-box helicas 99.7 2.4E-16 5.2E-21 170.0 19.1 170 150-323 6-186 (203)
109 PRK12899 secA preprotein trans 99.7 1.3E-15 2.8E-20 190.1 22.8 137 150-290 69-226 (970)
110 PF00270 DEAD: DEAD/DEAH box h 99.7 2E-15 4.4E-20 157.3 16.3 156 168-327 2-167 (169)
111 PF07717 OB_NTP_bind: Oligonuc 99.6 2.8E-16 6E-21 154.9 8.2 107 684-795 1-112 (114)
112 KOG0949 Predicted helicase, DE 99.6 2.9E-15 6.4E-20 182.2 18.3 157 169-331 514-682 (1330)
113 COG4096 HsdR Type I site-speci 99.6 2.2E-14 4.7E-19 175.0 24.0 333 164-528 164-573 (875)
114 KOG0921 Dosage compensation co 99.6 6.1E-17 1.3E-21 194.8 2.1 452 146-609 378-887 (1282)
115 TIGR00348 hsdR type I site-spe 99.6 8E-14 1.7E-18 175.9 22.9 301 164-491 237-634 (667)
116 PF04408 HA2: Helicase associa 99.6 5.5E-15 1.2E-19 143.1 9.1 93 552-648 1-102 (102)
117 TIGR00631 uvrb excinuclease AB 99.6 1.9E-14 4E-19 180.0 14.1 114 378-504 440-554 (655)
118 KOG0953 Mitochondrial RNA heli 99.5 5.4E-14 1.2E-18 163.9 16.1 279 180-503 190-477 (700)
119 COG1110 Reverse gyrase [DNA re 99.5 1.3E-12 2.7E-17 161.6 25.4 272 164-458 81-417 (1187)
120 COG1198 PriA Primosomal protei 99.5 3.4E-13 7.3E-18 167.8 20.3 301 181-498 217-598 (730)
121 PRK05298 excinuclease ABC subu 99.5 2E-13 4.3E-18 171.8 14.9 112 378-502 444-556 (652)
122 TIGR01407 dinG_rel DnaQ family 99.5 7.1E-12 1.5E-16 162.8 29.3 135 361-499 656-811 (850)
123 PLN03142 Probable chromatin-re 99.5 1.6E-12 3.5E-17 167.6 22.4 110 379-506 486-602 (1033)
124 PRK12326 preprotein translocas 99.4 8.3E-12 1.8E-16 153.2 23.4 320 154-504 67-548 (764)
125 COG0556 UvrB Helicase subunit 99.4 8.9E-12 1.9E-16 145.5 19.5 167 312-502 387-556 (663)
126 cd00046 DEXDc DEAD-like helica 99.4 3.7E-12 8E-17 126.3 14.1 135 183-321 2-144 (144)
127 cd00079 HELICc Helicase superf 99.4 1.1E-12 2.5E-17 130.2 9.6 103 379-499 27-131 (131)
128 smart00847 HA2 Helicase associ 99.4 1.2E-12 2.6E-17 124.0 8.1 90 552-648 1-92 (92)
129 smart00487 DEXDc DEAD-like hel 99.4 1.7E-11 3.6E-16 129.1 17.5 159 162-322 5-171 (201)
130 PRK12900 secA preprotein trans 99.4 1.9E-12 4E-17 162.6 11.7 168 312-505 534-713 (1025)
131 KOG4150 Predicted ATP-dependen 99.3 3.2E-12 7E-17 148.3 10.6 311 162-496 282-633 (1034)
132 PF00271 Helicase_C: Helicase 99.3 7.2E-13 1.6E-17 121.2 4.3 76 399-492 2-78 (78)
133 PRK07246 bifunctional ATP-depe 99.3 5.9E-10 1.3E-14 143.6 29.7 133 361-499 630-780 (820)
134 KOG1123 RNA polymerase II tran 99.3 4.8E-11 1E-15 137.6 17.3 298 170-505 306-655 (776)
135 PRK13103 secA preprotein trans 99.3 6E-11 1.3E-15 148.9 18.3 126 159-290 76-213 (913)
136 TIGR02562 cas3_yersinia CRISPR 99.2 4.3E-10 9.3E-15 142.3 22.3 90 383-493 759-881 (1110)
137 PF07652 Flavi_DEAD: Flaviviru 99.2 4.8E-11 1.1E-15 120.7 10.0 135 180-323 3-138 (148)
138 PRK12903 secA preprotein trans 99.2 1.2E-09 2.5E-14 136.3 21.2 107 378-504 424-540 (925)
139 KOG0951 RNA helicase BRR2, DEA 99.2 4.1E-10 8.9E-15 141.1 17.2 324 168-514 1146-1508(1674)
140 CHL00122 secA preprotein trans 99.1 1.4E-09 3E-14 136.4 20.1 129 156-290 67-207 (870)
141 smart00490 HELICc helicase sup 99.1 5.5E-11 1.2E-15 108.2 5.6 80 395-492 2-82 (82)
142 PF04851 ResIII: Type III rest 99.1 2E-10 4.4E-15 120.8 10.3 132 181-322 25-183 (184)
143 PRK12902 secA preprotein trans 99.0 1.3E-08 2.9E-13 127.5 22.9 129 156-290 76-216 (939)
144 PRK08074 bifunctional ATP-depe 99.0 7.8E-09 1.7E-13 135.5 21.4 138 361-499 734-890 (928)
145 KOG0385 Chromatin remodeling c 99.0 8.1E-09 1.7E-13 125.0 19.2 303 179-506 184-602 (971)
146 PF02399 Herpes_ori_bp: Origin 99.0 3.4E-08 7.4E-13 122.8 24.2 302 179-506 47-391 (824)
147 TIGR03117 cas_csf4 CRISPR-asso 99.0 1.9E-07 4.2E-12 116.2 28.3 126 363-492 454-602 (636)
148 PRK11747 dinG ATP-dependent DN 98.9 2.9E-07 6.3E-12 117.4 27.1 133 361-499 517-671 (697)
149 COG4889 Predicted helicase [Ge 98.9 1.7E-09 3.6E-14 131.2 6.1 320 156-497 152-578 (1518)
150 PRK14873 primosome assembly pr 98.8 8.1E-08 1.8E-12 120.8 15.4 131 188-328 167-310 (665)
151 KOG0387 Transcription-coupled 98.6 3E-06 6.5E-11 103.9 23.1 115 378-507 544-662 (923)
152 COG1199 DinG Rad3-related DNA 98.6 5.9E-06 1.3E-10 105.4 26.0 134 362-499 462-614 (654)
153 KOG0390 DNA repair protein, SN 98.6 3.1E-06 6.8E-11 106.0 21.9 99 389-505 603-709 (776)
154 KOG0384 Chromodomain-helicase 98.5 2E-06 4.4E-11 109.3 18.4 132 378-530 697-836 (1373)
155 TIGR00604 rad3 DNA repair heli 98.5 4.8E-06 1E-10 106.9 20.7 131 362-495 505-665 (705)
156 KOG1000 Chromatin remodeling p 98.4 4.3E-06 9.3E-11 97.8 16.2 281 169-460 202-575 (689)
157 TIGR01648 hnRNP-R-Q heterogene 98.3 1.3E-05 2.8E-10 99.2 16.7 204 925-1183 59-297 (578)
158 PF06862 DUF1253: Protein of u 98.2 0.00018 3.8E-09 86.4 24.5 237 256-507 131-419 (442)
159 PRK12901 secA preprotein trans 98.1 5.9E-06 1.3E-10 105.3 10.1 168 312-504 564-742 (1112)
160 PF00176 SNF2_N: SNF2 family N 98.0 4.8E-05 1E-09 86.7 13.4 133 180-323 24-174 (299)
161 TIGR01628 PABP-1234 polyadenyl 98.0 0.00014 3.1E-09 91.2 18.2 208 926-1181 2-245 (562)
162 KOG0392 SNF2 family DNA-depend 98.0 0.00012 2.7E-09 93.4 17.0 109 380-506 1340-1457(1549)
163 KOG1002 Nucleotide excision re 97.9 0.00029 6.3E-09 82.7 17.5 109 382-505 640-751 (791)
164 KOG0389 SNF2 family DNA-depend 97.9 0.00029 6.2E-09 87.0 18.1 113 379-506 776-891 (941)
165 COG0610 Type I site-specific r 97.9 0.00022 4.9E-09 93.9 18.6 133 182-321 274-413 (962)
166 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.9 0.0003 6.4E-09 82.8 17.4 129 925-1058 4-158 (352)
167 COG0653 SecA Preprotein transl 97.9 9.8E-05 2.1E-09 93.3 13.9 107 378-504 427-546 (822)
168 KOG0952 DNA/RNA helicase MER3/ 97.8 6.1E-06 1.3E-10 103.8 1.7 208 183-394 945-1167(1230)
169 TIGR01628 PABP-1234 polyadenyl 97.7 0.00044 9.5E-09 86.9 16.4 207 926-1182 90-353 (562)
170 PF13604 AAA_30: AAA domain; P 97.7 0.0001 2.2E-09 80.1 7.7 121 168-320 4-130 (196)
171 PF13401 AAA_22: AAA domain; P 97.5 9.9E-05 2.1E-09 73.8 5.2 114 179-319 2-124 (131)
172 TIGR00596 rad1 DNA repair prot 97.5 0.00096 2.1E-08 86.1 14.8 66 256-322 7-73 (814)
173 PF13245 AAA_19: Part of AAA d 97.5 0.00022 4.7E-09 65.6 6.1 57 174-230 3-62 (76)
174 TIGR01642 U2AF_lg U2 snRNP aux 97.4 0.0051 1.1E-07 76.3 18.4 181 921-1183 172-365 (509)
175 PRK10875 recD exonuclease V su 97.3 0.00085 1.8E-08 84.4 11.1 135 167-317 154-298 (615)
176 PF09848 DUF2075: Uncharacteri 97.3 0.00068 1.5E-08 80.2 9.1 94 182-294 2-97 (352)
177 TIGR01447 recD exodeoxyribonuc 97.3 0.0012 2.6E-08 82.9 11.6 134 168-317 148-292 (586)
178 KOG2340 Uncharacterized conser 97.2 0.0035 7.7E-08 74.8 13.8 326 161-505 211-670 (698)
179 TIGR01659 sex-lethal sex-letha 97.2 0.0036 7.7E-08 73.9 13.1 156 923-1183 106-263 (346)
180 PF00448 SRP54: SRP54-type pro 97.2 0.0012 2.6E-08 71.7 8.6 126 182-327 2-131 (196)
181 PRK14722 flhF flagellar biosyn 97.1 0.036 7.9E-07 65.9 20.9 126 178-327 134-263 (374)
182 KOG1803 DNA helicase [Replicat 97.1 0.00087 1.9E-08 81.3 6.9 62 169-231 189-250 (649)
183 TIGR01622 SF-CC1 splicing fact 97.1 0.0066 1.4E-07 74.3 14.8 170 922-1183 87-256 (457)
184 TIGR01448 recD_rel helicase, p 97.0 0.0036 7.8E-08 80.7 12.6 120 167-320 325-452 (720)
185 cd00009 AAA The AAA+ (ATPases 97.0 0.0072 1.6E-07 60.1 12.2 48 171-219 7-56 (151)
186 TIGR02768 TraA_Ti Ti-type conj 97.0 0.0038 8.3E-08 80.7 12.5 120 167-318 354-474 (744)
187 KOG0386 Chromatin remodeling c 97.0 0.0027 5.9E-08 80.5 10.6 110 378-505 724-840 (1157)
188 PRK11889 flhF flagellar biosyn 97.0 0.0067 1.5E-07 71.9 13.2 123 181-325 241-366 (436)
189 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.0 0.01 2.2E-07 73.4 15.4 186 923-1184 274-465 (481)
190 PRK12723 flagellar biosynthesi 97.0 0.0073 1.6E-07 72.2 13.5 127 181-331 174-307 (388)
191 PRK13889 conjugal transfer rel 96.9 0.0041 8.9E-08 81.8 11.9 123 166-320 347-470 (988)
192 PF13086 AAA_11: AAA domain; P 96.9 0.0015 3.3E-08 71.2 6.4 64 169-232 5-75 (236)
193 TIGR01645 half-pint poly-U bin 96.9 0.012 2.7E-07 73.5 14.8 166 924-1182 107-273 (612)
194 PRK10536 hypothetical protein; 96.9 0.002 4.3E-08 72.4 7.0 59 163-221 56-115 (262)
195 PF07517 SecA_DEAD: SecA DEAD- 96.9 0.017 3.7E-07 65.6 14.6 134 155-294 67-212 (266)
196 PRK15483 type III restriction- 96.8 0.0031 6.8E-08 81.8 8.8 139 180-323 58-240 (986)
197 PRK04296 thymidine kinase; Pro 96.8 0.0019 4.1E-08 69.8 5.8 97 182-305 3-102 (190)
198 PF13872 AAA_34: P-loop contai 96.7 0.0068 1.5E-07 69.3 9.8 152 168-321 40-220 (303)
199 PRK05703 flhF flagellar biosyn 96.7 0.019 4.2E-07 69.6 13.9 126 180-329 220-350 (424)
200 smart00382 AAA ATPases associa 96.6 0.0057 1.2E-07 60.1 7.4 39 181-220 2-40 (148)
201 smart00489 DEXDc3 DEAD-like he 96.5 0.0056 1.2E-07 70.6 7.4 60 173-232 19-83 (289)
202 smart00488 DEXDc2 DEAD-like he 96.5 0.0056 1.2E-07 70.6 7.4 60 173-232 19-83 (289)
203 PF02562 PhoH: PhoH-like prote 96.4 0.0012 2.7E-08 72.0 1.2 57 165-221 3-60 (205)
204 KOG4439 RNA polymerase II tran 96.4 0.11 2.4E-06 64.4 17.6 95 397-506 763-861 (901)
205 PRK12726 flagellar biosynthesi 96.4 0.018 3.9E-07 68.2 10.6 130 179-330 204-336 (407)
206 PF13307 Helicase_C_2: Helicas 96.3 0.0055 1.2E-07 64.9 5.8 119 378-500 7-146 (167)
207 PRK12727 flagellar biosynthesi 96.3 0.16 3.4E-06 62.8 18.7 128 177-328 346-476 (559)
208 PRK13826 Dtr system oriT relax 96.3 0.018 3.9E-07 76.4 11.5 122 167-320 383-505 (1102)
209 COG1419 FlhF Flagellar GTP-bin 96.2 0.064 1.4E-06 63.7 14.3 127 181-331 203-333 (407)
210 PRK06526 transposase; Provisio 96.2 0.016 3.4E-07 65.7 9.0 39 177-216 94-132 (254)
211 PRK08181 transposase; Validate 96.1 0.18 3.8E-06 57.8 16.8 117 177-331 102-218 (269)
212 TIGR00376 DNA helicase, putati 96.1 0.011 2.4E-07 75.2 7.8 66 167-233 159-224 (637)
213 PF05970 PIF1: PIF1-like helic 96.0 0.028 6.1E-07 67.0 10.0 107 179-307 20-128 (364)
214 TIGR02760 TraI_TIGR conjugativ 95.9 0.17 3.8E-06 71.9 18.8 208 167-401 431-647 (1960)
215 PF05729 NACHT: NACHT domain 95.9 0.023 5E-07 58.6 8.0 52 282-333 84-142 (166)
216 PHA03333 putative ATPase subun 95.9 0.096 2.1E-06 65.7 14.2 152 170-332 177-343 (752)
217 PRK14974 cell division protein 95.9 0.045 9.7E-07 64.4 10.8 124 181-324 140-267 (336)
218 PF05127 Helicase_RecD: Helica 95.8 0.0052 1.1E-07 65.6 2.6 123 185-322 1-124 (177)
219 PRK12724 flagellar biosynthesi 95.8 0.074 1.6E-06 64.0 12.3 122 181-327 223-350 (432)
220 TIGR01649 hnRNP-L_PTB hnRNP-L/ 95.8 0.12 2.7E-06 63.9 14.7 156 926-1183 4-163 (481)
221 KOG0391 SNF2 family DNA-depend 95.8 0.035 7.5E-07 71.4 9.7 114 378-506 1274-1390(1958)
222 PLN03120 nucleic acid binding 95.7 0.02 4.4E-07 64.1 7.0 76 925-1007 5-80 (260)
223 PF00580 UvrD-helicase: UvrD/R 95.7 0.021 4.6E-07 65.4 7.1 64 170-235 4-70 (315)
224 COG1444 Predicted P-loop ATPas 95.5 0.094 2E-06 66.8 12.3 147 158-322 207-357 (758)
225 PRK08727 hypothetical protein; 95.5 0.058 1.2E-06 60.3 9.5 34 182-216 42-75 (233)
226 PRK09112 DNA polymerase III su 95.5 0.1 2.2E-06 62.0 11.9 50 267-318 129-178 (351)
227 PRK14952 DNA polymerase III su 95.4 0.091 2E-06 66.1 11.6 49 268-318 107-155 (584)
228 TIGR01622 SF-CC1 splicing fact 95.4 0.26 5.6E-06 60.4 15.5 76 924-1003 186-262 (457)
229 PF00076 RRM_1: RNA recognitio 95.3 0.027 5.9E-07 49.5 5.0 62 935-1000 8-70 (70)
230 PRK08903 DnaA regulatory inact 95.3 0.11 2.5E-06 57.4 10.9 22 180-201 41-62 (227)
231 PRK06731 flhF flagellar biosyn 95.2 0.18 3.9E-06 57.7 12.5 124 180-327 74-202 (270)
232 PRK08116 hypothetical protein; 95.2 0.48 1E-05 54.2 16.0 35 181-216 114-148 (268)
233 TIGR03420 DnaA_homol_Hda DnaA 95.2 0.17 3.8E-06 55.5 11.9 24 179-202 36-59 (226)
234 PRK07764 DNA polymerase III su 95.1 0.08 1.7E-06 69.1 10.2 44 273-318 114-157 (824)
235 PF12340 DUF3638: Protein of u 95.1 0.13 2.9E-06 57.0 10.3 102 164-269 21-143 (229)
236 COG1875 NYN ribonuclease and A 95.0 0.11 2.3E-06 60.6 9.6 59 163-221 225-287 (436)
237 KOG1802 RNA helicase nonsense 95.0 0.031 6.7E-07 68.5 5.5 65 170-234 414-478 (935)
238 PRK07003 DNA polymerase III su 94.9 0.068 1.5E-06 68.0 8.7 48 268-317 108-155 (830)
239 PRK14958 DNA polymerase III su 94.9 0.059 1.3E-06 67.0 7.8 44 273-318 113-156 (509)
240 PRK14723 flhF flagellar biosyn 94.8 0.18 3.9E-06 64.8 12.1 123 181-327 185-311 (767)
241 PRK14961 DNA polymerase III su 94.8 0.076 1.6E-06 63.3 8.4 49 267-317 107-155 (363)
242 PRK14721 flhF flagellar biosyn 94.8 0.2 4.3E-06 60.7 11.9 127 179-329 189-319 (420)
243 PRK10416 signal recognition pa 94.8 0.26 5.7E-06 57.7 12.5 127 180-326 113-249 (318)
244 PRK14956 DNA polymerase III su 94.7 0.038 8.3E-07 67.4 5.5 47 274-324 116-162 (484)
245 PRK14949 DNA polymerase III su 94.7 0.078 1.7E-06 68.7 8.3 42 274-317 114-155 (944)
246 TIGR02881 spore_V_K stage V sp 94.7 0.17 3.7E-06 57.4 10.3 17 182-198 43-59 (261)
247 TIGR03015 pepcterm_ATPase puta 94.7 0.1 2.2E-06 59.0 8.5 24 181-204 43-66 (269)
248 PF13173 AAA_14: AAA domain 94.6 0.19 4.1E-06 50.6 9.5 26 180-205 1-26 (128)
249 KOG1805 DNA replication helica 94.6 0.048 1E-06 69.7 6.0 65 168-233 672-736 (1100)
250 PRK14960 DNA polymerase III su 94.6 0.11 2.3E-06 65.6 8.9 44 274-320 113-156 (702)
251 TIGR01661 ELAV_HUD_SF ELAV/HuD 94.6 0.21 4.6E-06 58.8 11.3 117 1025-1184 38-160 (352)
252 PRK07994 DNA polymerase III su 94.5 0.069 1.5E-06 67.7 7.4 48 268-317 108-155 (647)
253 PRK12402 replication factor C 94.5 0.23 4.9E-06 58.0 11.4 33 171-203 24-58 (337)
254 PRK06835 DNA replication prote 94.5 0.27 5.8E-06 57.9 11.8 53 277-330 244-297 (329)
255 TIGR01642 U2AF_lg U2 snRNP aux 94.5 0.52 1.1E-05 58.6 14.9 77 925-1005 296-373 (509)
256 PRK06893 DNA replication initi 94.4 0.2 4.4E-06 55.7 10.1 51 277-327 89-140 (229)
257 cd01120 RecA-like_NTPases RecA 94.4 0.21 4.4E-06 51.1 9.3 32 184-216 2-33 (165)
258 PRK09111 DNA polymerase III su 94.3 0.28 6.1E-06 62.1 12.0 50 267-318 120-169 (598)
259 PRK14957 DNA polymerase III su 94.3 0.17 3.8E-06 63.1 10.0 50 267-318 107-156 (546)
260 PRK08691 DNA polymerase III su 94.1 0.13 2.8E-06 65.3 8.5 44 273-318 113-156 (709)
261 KOG0388 SNF2 family DNA-depend 94.1 0.13 2.9E-06 63.5 8.1 114 378-506 1042-1157(1185)
262 PRK11054 helD DNA helicase IV; 94.1 0.19 4.2E-06 64.6 10.1 103 165-289 195-302 (684)
263 PRK07952 DNA replication prote 94.0 2.1 4.5E-05 48.4 17.0 114 182-331 100-214 (244)
264 PRK14964 DNA polymerase III su 94.0 0.23 4.9E-06 61.3 10.1 48 268-317 105-152 (491)
265 PRK14951 DNA polymerase III su 93.9 0.25 5.3E-06 62.6 10.5 52 267-321 112-163 (618)
266 PRK05642 DNA replication initi 93.9 0.26 5.7E-06 55.1 9.7 50 277-326 95-144 (234)
267 PRK06645 DNA polymerase III su 93.9 0.53 1.2E-05 58.5 13.1 40 267-308 116-155 (507)
268 PHA02544 44 clamp loader, smal 93.9 0.51 1.1E-05 54.9 12.4 20 182-201 44-63 (316)
269 PRK12323 DNA polymerase III su 93.9 0.17 3.8E-06 63.7 8.8 47 269-317 114-160 (700)
270 PRK07471 DNA polymerase III su 93.9 0.2 4.4E-06 59.8 9.1 62 257-320 119-180 (365)
271 TIGR02782 TrbB_P P-type conjug 93.8 0.12 2.6E-06 60.0 7.0 54 169-222 120-174 (299)
272 PRK06995 flhF flagellar biosyn 93.8 0.49 1.1E-05 58.3 12.4 125 180-328 255-383 (484)
273 PF01695 IstB_IS21: IstB-like 93.7 0.11 2.3E-06 55.8 5.9 119 176-332 42-160 (178)
274 PRK00411 cdc6 cell division co 93.7 0.32 7E-06 58.3 10.6 22 182-203 56-77 (394)
275 PF14259 RRM_6: RNA recognitio 93.7 0.1 2.2E-06 46.4 4.8 68 928-1000 2-70 (70)
276 COG3587 Restriction endonuclea 93.7 0.17 3.6E-06 64.3 8.1 56 425-498 479-537 (985)
277 PRK12377 putative replication 93.7 3.9 8.4E-05 46.4 18.4 21 180-200 100-120 (248)
278 PRK00149 dnaA chromosomal repl 93.7 0.4 8.6E-06 58.9 11.4 36 182-217 149-185 (450)
279 PF13177 DNA_pol3_delta2: DNA 93.6 0.23 5.1E-06 52.3 8.1 53 266-320 89-141 (162)
280 PRK07133 DNA polymerase III su 93.6 0.54 1.2E-05 60.4 12.6 49 266-316 105-153 (725)
281 cd01124 KaiC KaiC is a circadi 93.6 0.077 1.7E-06 56.4 4.5 47 184-232 2-48 (187)
282 TIGR00064 ftsY signal recognit 93.4 0.67 1.4E-05 53.2 11.9 127 180-326 71-207 (272)
283 TIGR00678 holB DNA polymerase 93.4 0.31 6.7E-06 52.3 8.7 50 268-320 85-134 (188)
284 COG2804 PulE Type II secretory 93.3 0.27 5.8E-06 60.0 8.8 38 168-205 244-282 (500)
285 PRK14712 conjugal transfer nic 93.3 0.45 9.7E-06 65.7 11.8 123 166-320 836-967 (1623)
286 TIGR00763 lon ATP-dependent pr 93.2 0.39 8.4E-06 63.0 11.0 20 181-200 347-366 (775)
287 PRK09183 transposase/IS protei 93.2 0.61 1.3E-05 53.1 11.2 38 178-216 99-136 (259)
288 PRK08084 DNA replication initi 93.1 0.56 1.2E-05 52.5 10.5 22 181-202 45-66 (235)
289 PRK14965 DNA polymerase III su 93.1 0.26 5.7E-06 62.3 8.8 50 267-318 107-156 (576)
290 TIGR01547 phage_term_2 phage t 93.1 0.43 9.4E-06 57.5 10.3 134 182-322 2-141 (396)
291 COG0470 HolB ATPase involved i 93.0 0.2 4.3E-06 58.1 7.1 50 267-318 97-146 (325)
292 cd01122 GP4d_helicase GP4d_hel 93.0 0.58 1.2E-05 53.2 10.7 53 179-232 28-80 (271)
293 cd03247 ABCC_cytochrome_bd The 93.0 0.32 7E-06 51.7 8.1 53 263-316 100-152 (178)
294 PRK14088 dnaA chromosomal repl 93.0 0.46 1E-05 58.2 10.4 37 182-218 131-168 (440)
295 PRK00771 signal recognition pa 92.9 1.6 3.6E-05 53.3 14.8 122 180-322 94-218 (437)
296 TIGR03499 FlhF flagellar biosy 92.9 0.3 6.5E-06 56.3 8.2 86 180-288 193-281 (282)
297 COG2805 PilT Tfp pilus assembl 92.8 0.16 3.5E-06 57.9 5.6 36 180-215 124-159 (353)
298 cd00590 RRM RRM (RNA recogniti 92.8 0.35 7.5E-06 41.9 6.8 62 937-1002 11-73 (74)
299 PRK13833 conjugal transfer pro 92.8 0.17 3.6E-06 59.3 6.0 54 168-222 131-186 (323)
300 KOG0989 Replication factor C, 92.7 0.33 7.1E-06 55.6 7.9 41 276-318 126-166 (346)
301 PLN03134 glycine-rich RNA-bind 92.7 0.29 6.2E-06 50.8 7.0 76 925-1004 35-111 (144)
302 PF00437 T2SE: Type II/IV secr 92.7 0.11 2.5E-06 59.0 4.4 48 173-221 119-166 (270)
303 TIGR02760 TraI_TIGR conjugativ 92.7 0.44 9.5E-06 68.0 10.9 123 166-320 1020-1149(1960)
304 CHL00181 cbbX CbbX; Provisiona 92.6 0.55 1.2E-05 54.3 9.9 18 182-199 60-77 (287)
305 TIGR00362 DnaA chromosomal rep 92.6 0.63 1.4E-05 56.3 10.9 35 182-217 137-173 (405)
306 PTZ00293 thymidine kinase; Pro 92.6 0.53 1.2E-05 51.8 9.2 39 180-219 3-41 (211)
307 cd03221 ABCF_EF-3 ABCF_EF-3 E 92.6 0.64 1.4E-05 47.9 9.4 93 179-308 24-116 (144)
308 PRK13709 conjugal transfer nic 92.5 0.7 1.5E-05 64.6 12.2 123 166-320 968-1099(1747)
309 PRK14959 DNA polymerase III su 92.5 0.35 7.7E-06 61.1 8.6 51 267-320 107-157 (624)
310 smart00361 RRM_1 RNA recogniti 92.4 0.23 4.9E-06 44.8 5.1 63 939-1001 2-69 (70)
311 PLN03121 nucleic acid binding 92.4 0.32 7E-06 54.0 7.1 75 924-1005 5-79 (243)
312 PRK08451 DNA polymerase III su 92.4 0.38 8.3E-06 59.9 8.6 43 274-318 112-154 (535)
313 PRK14969 DNA polymerase III su 92.3 0.33 7.2E-06 60.7 8.2 50 267-318 107-156 (527)
314 PRK05563 DNA polymerase III su 92.3 0.35 7.7E-06 60.9 8.4 39 267-307 107-145 (559)
315 PRK13894 conjugal transfer ATP 92.3 0.21 4.5E-06 58.5 6.0 66 155-222 124-190 (319)
316 PHA03368 DNA packaging termina 92.3 1.3 2.8E-05 56.0 12.8 149 170-331 244-400 (738)
317 PRK14962 DNA polymerase III su 92.3 0.57 1.2E-05 57.8 10.0 34 272-307 110-143 (472)
318 COG0553 HepA Superfamily II DN 92.2 0.29 6.3E-06 64.5 7.8 110 382-506 713-825 (866)
319 COG1484 DnaC DNA replication p 92.2 1.2 2.6E-05 50.6 11.7 54 172-227 96-149 (254)
320 KOG2004 Mitochondrial ATP-depe 92.1 2.7 5.9E-05 53.1 15.2 127 165-322 414-562 (906)
321 PF01637 Arch_ATPase: Archaeal 92.1 0.43 9.2E-06 52.0 7.9 32 173-204 10-43 (234)
322 PHA02533 17 large terminase pr 92.1 1.7 3.6E-05 54.6 13.8 149 165-321 58-210 (534)
323 PF01443 Viral_helicase1: Vira 92.1 0.12 2.5E-06 57.1 3.4 21 184-204 1-21 (234)
324 COG4962 CpaF Flp pilus assembl 91.9 0.27 5.8E-06 57.4 6.1 57 165-223 157-213 (355)
325 PRK07940 DNA polymerase III su 91.9 1 2.2E-05 54.4 11.4 52 267-321 105-156 (394)
326 PRK05896 DNA polymerase III su 91.9 0.47 1E-05 59.8 8.6 50 267-318 107-156 (605)
327 PRK14955 DNA polymerase III su 91.9 0.48 1E-05 57.2 8.6 37 268-306 116-152 (397)
328 PLN03025 replication factor C 91.8 1.2 2.5E-05 52.3 11.4 21 182-202 35-55 (319)
329 PF00308 Bac_DnaA: Bacterial d 91.8 0.39 8.5E-06 53.2 7.1 35 182-217 35-71 (219)
330 TIGR01648 hnRNP-R-Q heterogene 91.8 0.31 6.8E-06 61.1 6.9 71 924-1004 233-304 (578)
331 PF00076 RRM_1: RNA recognitio 91.7 0.36 7.8E-06 42.3 5.5 67 1073-1183 1-67 (70)
332 cd03228 ABCC_MRP_Like The MRP 91.7 0.37 8.1E-06 51.0 6.6 61 262-325 97-157 (171)
333 cd00267 ABC_ATPase ABC (ATP-bi 91.7 0.47 1E-05 49.3 7.2 66 262-329 81-146 (157)
334 cd03115 SRP The signal recogni 91.7 1.3 2.9E-05 46.7 10.7 45 278-323 81-126 (173)
335 PRK06921 hypothetical protein; 91.7 1.9 4.1E-05 49.3 12.7 37 180-217 116-153 (266)
336 smart00362 RRM_2 RNA recogniti 91.5 0.5 1.1E-05 40.6 6.2 69 927-1001 2-71 (72)
337 PRK13851 type IV secretion sys 91.5 0.26 5.7E-06 58.3 5.7 50 171-222 152-201 (344)
338 PRK12422 chromosomal replicati 91.5 0.72 1.6E-05 56.6 9.5 36 182-218 142-177 (445)
339 PRK14087 dnaA chromosomal repl 91.5 0.76 1.7E-05 56.5 9.8 36 182-218 142-179 (450)
340 TIGR02397 dnaX_nterm DNA polym 91.4 1.4 3.1E-05 51.9 11.8 49 266-316 104-152 (355)
341 PRK10867 signal recognition pa 91.4 1.3 2.9E-05 54.0 11.6 123 181-321 100-225 (433)
342 TIGR01425 SRP54_euk signal rec 91.4 1.4 3.1E-05 53.5 11.8 122 181-322 100-225 (429)
343 KOG0117 Heterogeneous nuclear 91.4 1.4 3E-05 52.4 11.0 74 1030-1105 123-198 (506)
344 KOG0741 AAA+-type ATPase [Post 91.3 5.1 0.00011 49.1 15.8 147 135-328 500-656 (744)
345 PTZ00112 origin recognition co 91.3 1.5 3.2E-05 56.9 12.1 20 182-201 782-801 (1164)
346 PRK08533 flagellar accessory p 91.3 0.78 1.7E-05 51.3 8.8 37 179-216 22-58 (230)
347 TIGR02880 cbbX_cfxQ probable R 91.3 0.93 2E-05 52.3 9.7 16 183-198 60-75 (284)
348 PRK00440 rfc replication facto 91.2 1.8 3.8E-05 50.1 12.1 19 183-201 40-58 (319)
349 PRK14963 DNA polymerase III su 91.1 0.64 1.4E-05 57.9 8.6 46 269-316 106-151 (504)
350 COG1474 CDC6 Cdc6-related prot 91.0 1.4 3E-05 52.8 11.1 17 182-198 43-59 (366)
351 PRK14950 DNA polymerase III su 91.0 0.5 1.1E-05 60.0 7.8 45 269-315 110-154 (585)
352 PF13893 RRM_5: RNA recognitio 91.0 0.39 8.4E-06 41.0 4.7 52 944-1003 3-55 (56)
353 cd03246 ABCC_Protease_Secretio 90.9 0.38 8.3E-06 51.0 5.7 46 262-308 97-142 (173)
354 TIGR02928 orc1/cdc6 family rep 90.8 0.82 1.8E-05 54.2 9.1 21 182-202 41-61 (365)
355 cd03222 ABC_RNaseL_inhibitor T 90.8 1.2 2.6E-05 47.8 9.4 115 178-328 22-137 (177)
356 PRK13900 type IV secretion sys 90.7 0.32 7E-06 57.3 5.3 50 172-223 151-200 (332)
357 COG2256 MGS1 ATPase related to 90.4 1 2.2E-05 53.5 8.9 24 176-199 41-66 (436)
358 PRK06067 flagellar accessory p 90.3 0.61 1.3E-05 51.9 7.0 51 180-232 24-74 (234)
359 PRK14953 DNA polymerase III su 90.3 0.6 1.3E-05 57.9 7.5 48 266-315 106-153 (486)
360 cd01130 VirB11-like_ATPase Typ 90.3 0.52 1.1E-05 50.7 6.2 48 170-219 14-61 (186)
361 cd03229 ABC_Class3 This class 90.3 0.73 1.6E-05 49.1 7.2 58 262-320 101-159 (178)
362 PF00004 AAA: ATPase family as 90.2 0.37 8E-06 47.7 4.6 19 184-202 1-19 (132)
363 PF05621 TniB: Bacterial TniB 90.1 1.1 2.3E-05 51.9 8.7 53 182-234 62-120 (302)
364 TIGR00959 ffh signal recogniti 90.1 1.9 4.2E-05 52.5 11.3 124 181-322 99-225 (428)
365 PRK11773 uvrD DNA-dependent he 89.9 0.77 1.7E-05 59.8 8.3 100 168-289 12-118 (721)
366 COG0466 Lon ATP-dependent Lon 89.9 2.5 5.4E-05 53.6 12.1 126 165-322 326-474 (782)
367 PRK10787 DNA-binding ATP-depen 89.9 2.5 5.5E-05 55.4 13.0 26 263-290 402-427 (784)
368 cd03214 ABC_Iron-Siderophores_ 89.9 1.3 2.8E-05 47.2 8.7 32 276-308 112-143 (180)
369 PRK14948 DNA polymerase III su 89.8 1.4 3E-05 56.3 10.3 47 268-316 110-156 (620)
370 PRK10919 ATP-dependent DNA hel 89.8 0.56 1.2E-05 60.5 6.9 101 169-289 6-112 (672)
371 cd01131 PilT Pilus retraction 89.8 0.39 8.4E-06 52.3 4.7 37 182-218 2-38 (198)
372 PF03354 Terminase_1: Phage Te 89.8 0.88 1.9E-05 56.4 8.3 134 183-321 24-164 (477)
373 PRK08769 DNA polymerase III su 89.8 3 6.5E-05 49.0 12.2 52 266-319 100-151 (319)
374 cd03216 ABC_Carb_Monos_I This 89.8 0.65 1.4E-05 48.9 6.2 66 262-329 83-148 (163)
375 TIGR02868 CydC thiol reductant 89.7 0.74 1.6E-05 57.6 7.8 21 179-199 359-379 (529)
376 PRK04195 replication factor C 89.7 2.2 4.7E-05 53.0 11.7 24 181-204 39-62 (482)
377 smart00360 RRM RNA recognition 89.6 0.73 1.6E-05 39.4 5.4 64 935-1001 6-70 (71)
378 PRK06647 DNA polymerase III su 89.5 1.2 2.6E-05 56.2 9.3 47 271-320 111-157 (563)
379 PRK13342 recombination factor 89.5 1.5 3.3E-05 53.2 10.0 19 183-201 38-56 (413)
380 PRK08939 primosomal protein Dn 89.5 2.8 6.2E-05 48.9 11.8 53 277-330 215-269 (306)
381 PRK07399 DNA polymerase III su 89.4 2.2 4.8E-05 50.0 10.9 58 259-319 104-161 (314)
382 KOG1132 Helicase of the DEAD s 89.4 1.7 3.6E-05 56.0 10.1 33 256-289 222-257 (945)
383 PRK06964 DNA polymerase III su 89.3 1.2 2.6E-05 52.8 8.5 58 259-318 112-169 (342)
384 TIGR00665 DnaB replicative DNA 89.3 1.8 3.8E-05 53.0 10.3 58 174-232 188-245 (434)
385 PRK05707 DNA polymerase III su 89.2 0.78 1.7E-05 54.0 7.0 51 267-320 94-144 (328)
386 TIGR01075 uvrD DNA helicase II 89.2 0.85 1.8E-05 59.4 8.0 101 168-290 7-114 (715)
387 PRK12900 secA preprotein trans 89.2 2.5 5.4E-05 55.7 11.8 120 165-290 138-269 (1025)
388 PRK14954 DNA polymerase III su 89.2 1.5 3.3E-05 55.8 9.9 48 269-318 117-164 (620)
389 PRK06871 DNA polymerase III su 89.2 0.7 1.5E-05 54.3 6.4 50 267-318 95-144 (325)
390 PRK14970 DNA polymerase III su 89.2 1.5 3.3E-05 52.2 9.5 37 267-305 96-132 (367)
391 COG3421 Uncharacterized protei 89.1 1 2.2E-05 55.4 7.8 74 254-329 79-175 (812)
392 PRK07993 DNA polymerase III su 89.1 0.79 1.7E-05 54.2 6.8 52 266-320 95-146 (334)
393 PRK06620 hypothetical protein; 88.7 2.1 4.6E-05 47.3 9.5 18 182-199 45-62 (214)
394 cd01129 PulE-GspE PulE/GspE Th 88.7 0.84 1.8E-05 52.1 6.5 49 170-219 68-117 (264)
395 PRK11823 DNA repair protein Ra 88.6 0.54 1.2E-05 57.7 5.3 51 180-232 79-129 (446)
396 KOG0391 SNF2 family DNA-depend 88.5 1.7 3.6E-05 57.1 9.3 133 179-320 632-774 (1958)
397 PF13555 AAA_29: P-loop contai 88.5 0.46 1E-05 42.1 3.3 17 182-198 24-40 (62)
398 TIGR02785 addA_Gpos recombinat 88.4 0.67 1.4E-05 63.8 6.4 131 167-302 3-138 (1232)
399 PRK14971 DNA polymerase III su 88.3 2 4.4E-05 54.8 10.3 50 268-320 110-159 (614)
400 PRK08058 DNA polymerase III su 88.3 0.71 1.5E-05 54.4 5.8 48 267-316 98-145 (329)
401 TIGR03345 VI_ClpV1 type VI sec 88.2 2 4.4E-05 56.9 10.4 61 264-330 657-727 (852)
402 COG1435 Tdk Thymidine kinase [ 88.0 2.3 4.9E-05 46.2 8.7 101 181-303 4-104 (201)
403 smart00362 RRM_2 RNA recogniti 87.9 1.7 3.6E-05 37.3 6.6 67 1072-1183 1-67 (72)
404 PF05876 Terminase_GpA: Phage 87.9 0.68 1.5E-05 58.4 5.6 66 169-234 19-87 (557)
405 PF00931 NB-ARC: NB-ARC domain 87.9 0.96 2.1E-05 51.5 6.5 33 172-204 6-42 (287)
406 cd03230 ABC_DR_subfamily_A Thi 87.8 0.62 1.3E-05 49.4 4.5 47 262-309 96-142 (173)
407 COG0593 DnaA ATPase involved i 87.8 2.6 5.7E-05 50.8 10.1 42 279-320 175-216 (408)
408 TIGR01645 half-pint poly-U bin 87.6 1.1 2.4E-05 56.6 7.2 77 924-1004 204-281 (612)
409 KOG2036 Predicted P-loop ATPas 87.6 15 0.00033 46.4 16.3 139 167-322 255-412 (1011)
410 PRK08699 DNA polymerase III su 87.5 2 4.3E-05 50.6 8.8 49 266-316 100-148 (325)
411 TIGR01420 pilT_fam pilus retra 87.5 0.72 1.6E-05 54.7 5.3 42 180-221 121-162 (343)
412 PF05496 RuvB_N: Holliday junc 87.5 0.88 1.9E-05 50.5 5.4 18 182-199 51-68 (233)
413 TIGR02788 VirB11 P-type DNA tr 87.4 0.83 1.8E-05 53.3 5.6 46 174-221 137-182 (308)
414 PRK10436 hypothetical protein; 87.4 1 2.2E-05 55.5 6.5 46 170-216 206-252 (462)
415 PRK09087 hypothetical protein; 87.4 2.2 4.8E-05 47.6 8.7 19 181-199 44-62 (226)
416 PRK04841 transcriptional regul 87.3 2.7 5.9E-05 55.9 11.1 25 180-204 31-55 (903)
417 PF00265 TK: Thymidine kinase; 87.2 0.98 2.1E-05 48.5 5.5 37 182-219 2-38 (176)
418 PF05172 Nup35_RRM: Nup53/35/4 87.1 1.4 3.1E-05 42.9 6.0 75 927-1005 9-89 (100)
419 COG2812 DnaX DNA polymerase II 87.1 0.83 1.8E-05 56.6 5.5 52 267-322 107-158 (515)
420 cd03223 ABCD_peroxisomal_ALDP 87.0 2.4 5.3E-05 44.7 8.4 32 276-308 106-137 (166)
421 PF14532 Sigma54_activ_2: Sigm 86.9 2 4.2E-05 43.9 7.4 38 281-320 71-109 (138)
422 TIGR01074 rep ATP-dependent DN 86.8 0.96 2.1E-05 58.3 6.2 92 182-290 15-112 (664)
423 PRK14086 dnaA chromosomal repl 86.6 3.1 6.8E-05 52.7 10.2 36 182-217 315-351 (617)
424 cd03239 ABC_SMC_head The struc 86.3 3.1 6.8E-05 44.6 8.8 41 278-319 115-156 (178)
425 PRK13341 recombination factor 86.3 3.6 7.9E-05 53.5 10.9 19 182-200 53-71 (725)
426 TIGR02538 type_IV_pilB type IV 86.2 1.2 2.6E-05 56.3 6.5 34 169-202 303-337 (564)
427 cd03238 ABC_UvrA The excision 86.1 2.3 5E-05 45.6 7.6 46 277-325 103-151 (176)
428 TIGR00631 uvrb excinuclease AB 86.0 1.7 3.7E-05 55.9 7.7 68 164-235 8-79 (655)
429 TIGR02639 ClpA ATP-dependent C 86.0 3.9 8.4E-05 53.5 11.2 38 161-198 178-220 (731)
430 COG2909 MalT ATP-dependent tra 86.0 3.1 6.8E-05 53.6 9.8 137 171-322 24-171 (894)
431 PRK05564 DNA polymerase III su 85.9 4.8 0.0001 47.0 10.8 47 271-320 85-131 (313)
432 KOG0991 Replication factor C, 85.9 2.1 4.6E-05 47.4 7.1 18 182-199 49-66 (333)
433 TIGR03877 thermo_KaiC_1 KaiC d 85.7 0.83 1.8E-05 51.1 4.3 52 180-233 20-71 (237)
434 COG1132 MdlB ABC-type multidru 85.7 1.6 3.4E-05 55.3 7.2 39 277-317 481-519 (567)
435 TIGR02524 dot_icm_DotB Dot/Icm 85.6 0.87 1.9E-05 54.3 4.6 21 180-200 133-153 (358)
436 PRK03992 proteasome-activating 85.6 4 8.7E-05 49.3 10.2 20 182-201 166-185 (389)
437 COG3973 Superfamily I DNA and 85.5 1.4 3.1E-05 54.5 6.3 54 180-233 225-283 (747)
438 cd01393 recA_like RecA is a b 85.3 1.4 2.9E-05 48.6 5.6 26 180-205 18-43 (226)
439 cd00544 CobU Adenosylcobinamid 85.2 2.3 5E-05 45.3 7.1 45 184-232 2-46 (169)
440 PRK06305 DNA polymerase III su 85.1 3.4 7.5E-05 50.9 9.5 40 275-316 117-156 (451)
441 TIGR01073 pcrA ATP-dependent D 85.1 2.1 4.5E-05 55.9 8.1 101 168-289 7-113 (726)
442 KOG2028 ATPase related to the 85.0 3.5 7.6E-05 48.4 8.7 27 173-199 152-180 (554)
443 PRK06090 DNA polymerase III su 84.8 2.6 5.7E-05 49.5 7.9 51 267-319 96-146 (319)
444 PF03237 Terminase_6: Terminas 84.7 8 0.00017 45.1 12.1 126 186-320 2-136 (384)
445 cd01121 Sms Sms (bacterial rad 84.7 1.2 2.5E-05 53.5 5.1 51 180-232 81-131 (372)
446 COG1122 CbiO ABC-type cobalt t 84.5 9.3 0.0002 43.0 11.8 51 279-330 156-206 (235)
447 TIGR02655 circ_KaiC circadian 84.4 1.4 3.1E-05 54.7 5.8 52 180-233 262-313 (484)
448 TIGR02974 phageshock_pspF psp 84.2 4.4 9.4E-05 47.9 9.5 33 172-205 13-45 (329)
449 COG5008 PilU Tfp pilus assembl 84.0 1 2.2E-05 50.7 3.8 39 178-216 124-162 (375)
450 PF12846 AAA_10: AAA-like doma 83.9 0.96 2.1E-05 51.4 3.8 43 181-224 1-43 (304)
451 PRK05986 cob(I)alamin adenolsy 83.9 3.4 7.3E-05 45.0 7.6 39 180-219 21-59 (191)
452 cd03213 ABCG_EPDR ABCG transpo 83.9 2.6 5.6E-05 45.6 6.9 44 276-320 126-169 (194)
453 PRK05580 primosome assembly pr 83.7 2 4.4E-05 55.5 7.0 73 379-452 189-263 (679)
454 TIGR02533 type_II_gspE general 83.5 2 4.3E-05 53.4 6.5 46 170-216 230-276 (486)
455 COG0630 VirB11 Type IV secreto 83.4 1.9 4E-05 50.6 5.9 56 164-221 126-181 (312)
456 TIGR00635 ruvB Holliday juncti 83.3 2.3 5E-05 49.2 6.6 31 548-578 270-301 (305)
457 KOG2228 Origin recognition com 83.2 11 0.00024 44.2 11.6 127 181-323 49-183 (408)
458 COG1134 TagH ABC-type polysacc 83.1 0.84 1.8E-05 51.0 2.7 71 258-331 144-215 (249)
459 cd00590 RRM RRM (RNA recogniti 83.1 4.2 9.1E-05 35.0 6.8 66 1072-1181 1-66 (74)
460 CHL00176 ftsH cell division pr 83.0 5.7 0.00012 51.0 10.4 20 182-201 217-236 (638)
461 KOG0105 Alternative splicing f 83.0 1.9 4E-05 45.8 5.0 184 925-1152 7-194 (241)
462 TIGR02525 plasmid_TraJ plasmid 82.8 1.9 4.2E-05 51.6 5.8 41 179-219 147-188 (372)
463 cd03215 ABC_Carb_Monos_II This 82.5 4 8.6E-05 43.6 7.6 65 262-328 105-169 (182)
464 cd00984 DnaB_C DnaB helicase C 82.1 1.1 2.4E-05 49.8 3.4 39 178-216 10-48 (242)
465 PHA03372 DNA packaging termina 82.0 10 0.00023 47.6 11.7 148 170-330 192-346 (668)
466 PF02367 UPF0079: Uncharacteri 82.0 2.3 4.9E-05 43.1 5.1 32 171-202 5-36 (123)
467 PRK12901 secA preprotein trans 82.0 1.2 2.7E-05 58.5 4.0 103 185-290 186-301 (1112)
468 PLN03232 ABC transporter C fam 81.9 2.5 5.5E-05 59.5 7.4 22 178-199 1259-1280(1495)
469 TIGR00602 rad24 checkpoint pro 81.9 5.9 0.00013 50.7 10.0 21 180-200 109-129 (637)
470 PF13207 AAA_17: AAA domain; P 81.9 1.2 2.6E-05 43.8 3.1 17 183-199 1-17 (121)
471 cd00561 CobA_CobO_BtuR ATP:cor 81.8 3.7 8E-05 43.4 6.8 34 183-217 4-37 (159)
472 smart00492 HELICc3 helicase su 81.7 2.5 5.5E-05 43.6 5.5 82 414-495 31-129 (141)
473 TIGR00595 priA primosomal prot 81.6 2.7 5.9E-05 52.5 6.8 74 378-452 23-98 (505)
474 COG1136 SalX ABC-type antimicr 81.6 1.6 3.6E-05 48.5 4.3 21 178-198 28-48 (226)
475 TIGR03819 heli_sec_ATPase heli 81.4 2.2 4.8E-05 50.5 5.6 52 169-222 166-217 (340)
476 TIGR03375 type_I_sec_LssB type 81.4 7 0.00015 50.8 10.7 41 276-317 616-656 (694)
477 COG1126 GlnQ ABC-type polar am 81.4 1.7 3.8E-05 47.8 4.3 21 178-198 25-45 (240)
478 TIGR03346 chaperone_ClpB ATP-d 81.4 5.9 0.00013 52.8 10.1 40 161-200 169-213 (852)
479 COG1131 CcmA ABC-type multidru 81.0 2.7 6E-05 48.7 6.1 44 276-320 151-195 (293)
480 TIGR02204 MsbA_rel ABC transpo 81.0 2.7 5.8E-05 53.2 6.6 42 277-319 492-533 (576)
481 CHL00095 clpC Clp protease ATP 80.8 6.1 0.00013 52.4 10.0 56 265-326 601-666 (821)
482 TIGR02857 CydD thiol reductant 80.7 2.9 6.2E-05 52.4 6.6 22 178-199 345-366 (529)
483 PRK10865 protein disaggregatio 80.6 10 0.00022 50.5 11.9 121 183-331 600-730 (857)
484 TIGR03689 pup_AAA proteasome A 80.6 8.6 0.00019 48.0 10.5 18 181-198 216-233 (512)
485 PF06745 KaiC: KaiC; InterPro 80.5 1.2 2.6E-05 49.2 2.8 37 180-216 18-54 (226)
486 PRK10917 ATP-dependent DNA hel 80.3 3.6 7.8E-05 53.4 7.4 75 378-452 308-388 (681)
487 PRK13764 ATPase; Provisional 80.3 2 4.3E-05 54.5 4.9 22 179-200 255-276 (602)
488 PRK11174 cysteine/glutathione 80.2 2.2 4.9E-05 54.1 5.5 41 277-318 501-541 (588)
489 TIGR00150 HI0065_YjeE ATPase, 80.1 3.2 7E-05 42.5 5.5 31 172-202 13-43 (133)
490 PF13481 AAA_25: AAA domain; P 80.1 2.2 4.7E-05 45.7 4.6 54 180-234 31-93 (193)
491 cd01125 repA Hexameric Replica 80.0 9.7 0.00021 42.6 9.9 23 182-204 2-24 (239)
492 TIGR03346 chaperone_ClpB ATP-d 79.9 6.1 0.00013 52.6 9.5 58 265-328 657-724 (852)
493 TIGR00708 cobA cob(I)alamin ad 79.9 4.5 9.7E-05 43.4 6.7 35 182-217 6-40 (173)
494 KOG0145 RNA-binding protein EL 79.9 9.6 0.00021 42.5 9.2 142 936-1184 52-198 (360)
495 PF14259 RRM_6: RNA recognitio 79.8 4.6 0.0001 35.6 5.9 66 1073-1182 1-66 (70)
496 PRK05973 replicative DNA helic 79.8 1.8 3.9E-05 48.7 3.9 60 172-233 55-114 (237)
497 TIGR00767 rho transcription te 79.8 1.3 2.9E-05 53.1 3.1 22 179-200 166-187 (415)
498 PHA00149 DNA encapsidation pro 79.8 12 0.00026 43.0 10.2 130 185-320 21-159 (331)
499 COG1120 FepC ABC-type cobalami 79.6 2 4.3E-05 48.8 4.2 20 179-198 26-45 (258)
500 PRK15429 formate hydrogenlyase 79.6 4.9 0.00011 52.2 8.4 31 173-204 391-421 (686)
No 1
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-124 Score=1099.83 Aligned_cols=616 Identities=44% Similarity=0.712 Sum_probs=575.4
Q ss_pred HHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 157 ECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 157 ~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
.+..++..||++.++++|+.++++++++||.|+||||||||+||+|++.++...++|.||||||++|+++|+||++++ +
T Consensus 42 ~i~~qR~~LPI~~~r~~il~~ve~nqvlIviGeTGsGKSTQipQyL~eaG~~~~g~I~~TQPRRVAavslA~RVAeE~-~ 120 (674)
T KOG0922|consen 42 SIQEQRESLPIYKYRDQILYAVEDNQVLIVIGETGSGKSTQIPQYLAEAGFASSGKIACTQPRRVAAVSLAKRVAEEM-G 120 (674)
T ss_pred CHHHhhccCCHHHHHHHHHHHHHHCCEEEEEcCCCCCccccHhHHHHhcccccCCcEEeecCchHHHHHHHHHHHHHh-C
Confidence 345566899999999999999999999999999999999999999999999998899999999999999999999998 5
Q ss_pred CCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 237 CYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
+..|..|||..++++..+..|+|.|+|+|+|+|++..|+.|++|++|||||||||++.+|++++++|.+...++++|+|+
T Consensus 121 ~~lG~~VGY~IRFed~ts~~TrikymTDG~LLRE~l~Dp~LskYsvIIlDEAHERsl~TDiLlGlLKki~~~R~~LklIi 200 (674)
T KOG0922|consen 121 CQLGEEVGYTIRFEDSTSKDTRIKYMTDGMLLREILKDPLLSKYSVIILDEAHERSLHTDILLGLLKKILKKRPDLKLII 200 (674)
T ss_pred CCcCceeeeEEEecccCCCceeEEEecchHHHHHHhcCCccccccEEEEechhhhhhHHHHHHHHHHHHHhcCCCceEEE
Confidence 56678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHH
Q 000854 317 MSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWA 396 (1252)
Q Consensus 317 mSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~l 396 (1252)
||||+|++.|++||.+++++.++||+|||++.|.+.+. .+|+++.+..+.+||.++++|.||||++|++||+.+
T Consensus 201 mSATlda~kfS~yF~~a~i~~i~GR~fPVei~y~~~p~------~dYv~a~~~tv~~Ih~~E~~GDILvFLtGqeEIe~~ 274 (674)
T KOG0922|consen 201 MSATLDAEKFSEYFNNAPILTIPGRTFPVEILYLKEPT------ADYVDAALITVIQIHLTEPPGDILVFLTGQEEIEAA 274 (674)
T ss_pred EeeeecHHHHHHHhcCCceEeecCCCCceeEEeccCCc------hhhHHHHHHHHHHHHccCCCCCEEEEeCCHHHHHHH
Confidence 99999999999999999999999999999999999654 899999999999999999999999999999999999
Q ss_pred HHHcCCC--------CCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCC
Q 000854 397 CEKFDAP--------SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTG 467 (1252)
Q Consensus 397 a~~L~~~--------~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~ 467 (1252)
++.|.+. ...+.|+||.|+.++|.+||+.. +|.||||+||||||++||||+|.||||+|+.|...|||.+|
T Consensus 275 ~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rvF~p~p~g~RKvIlsTNIAETSlTI~GI~YVVDsG~vK~~~y~p~~g 354 (674)
T KOG0922|consen 275 CELLRERAKSLPEDCPELILPLYGALPSEEQSRVFDPAPPGKRKVILSTNIAETSLTIDGIRYVVDSGFVKQKKYNPRTG 354 (674)
T ss_pred HHHHHHHhhhccccCcceeeeecccCCHHHhhccccCCCCCcceEEEEcceeeeeEEecceEEEEcCCceEEEeeccccC
Confidence 9988642 12578999999999999999998 69999999999999999999999999999999999999999
Q ss_pred cccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCccccccCCCCcH
Q 000854 468 MNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDAPSA 547 (1252)
Q Consensus 468 ~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~ 547 (1252)
++.|.+.|||++++.||+|||||++||+||+||++++|+.|++.++|||+|++|..++|++|++|++|+..|+|+|||++
T Consensus 355 ~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~~~~~~~~~PEI~R~~Ls~~vL~Lkalgi~d~l~F~f~d~P~~ 434 (674)
T KOG0922|consen 355 LDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAYDKMPLQTVPEIQRVNLSSAVLQLKALGINDPLRFPFIDPPPP 434 (674)
T ss_pred ccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHHhhcccCCCCceeeechHHHHHHHHhcCCCCcccCCCCCCCCh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHcCcccccCCcccccH-hHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCchH
Q 000854 548 KAIEMAIRNLVQLGAIKLNNGVFELTE-EGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSDDE 626 (1252)
Q Consensus 548 ~~l~~Al~~L~~lgal~~~~~~~~lT~-lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~ 626 (1252)
+++..|++.|+.+||||.+| .+|. +|+.|+.+|++|.++|+++.+..+||.+|+++|||+|+ ++++|.++.....
T Consensus 435 ~~l~~AL~~L~~lgald~~g---~lt~p~G~~ma~~Pl~p~lsk~ll~s~~~gc~~e~l~i~a~Ls-v~~~f~~p~~~~~ 510 (674)
T KOG0922|consen 435 EALEEALEELYSLGALDDRG---KLTSPLGRQMAELPLEPHLSKMLLKSSELGCSEEILTIAAMLS-VQSVFSRPKDKKA 510 (674)
T ss_pred HHHHHHHHHHHhcCcccCcC---CcCchHHhhhhhcCCCcchhhhhhhccccCCcchhhhheeeee-ccceecCccchhh
Confidence 99999999999999999766 6887 99999999999999999999999999999999999996 7889987765433
Q ss_pred HHHHHhhhhhhcCCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccCCC
Q 000854 627 KIKADCLKVQFCHRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLWNP 706 (1252)
Q Consensus 627 ~~~a~~~~~~f~~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~n~ 706 (1252)
. +++..+.+|.+..|||+|+|++|+.|.+ .+.+++||++||+|+++|+++.++++||.+++ +.+++...+.
T Consensus 511 ~-~a~~~~~kf~~~eGDh~tlL~vy~~~~~--~~~~~~wC~en~i~~r~l~~a~~ir~QL~~i~-~~~~~~~~s~----- 581 (674)
T KOG0922|consen 511 E-DADRKRAKFANPEGDHLTLLNVYESWKE--NGTSKKWCKENFINARSLKRAKDIRKQLRRIL-DKFGLPVSSC----- 581 (674)
T ss_pred h-hhhHHHHhhcCcccCHHHHHHHHHHHHh--cCChhhHHHHhcccHHHHHHHHHHHHHHHHHH-HHcCCCccCC-----
Confidence 3 5888999999999999999999999988 77889999999999999999999999999988 5566544221
Q ss_pred CCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccccceeeeecccC
Q 000854 707 HKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVNNQYLVCVTAFD 786 (1252)
Q Consensus 707 ~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Tsk~Ylr~vt~Id 786 (1252)
..+.+.+++|||+|||.|+|+++..+ ||+++.+|+.|+|||||+| |..+|+||+|+|++.|+|.|||+||.|+
T Consensus 582 ---~~d~~~i~k~l~aGff~N~A~~~~~~--~Yrti~~~~~v~IHPSS~l--~~~~p~~viy~el~~Ttk~Y~r~Vt~i~ 654 (674)
T KOG0922|consen 582 ---GGDMEKIRKCLCAGFFRNVAERDYQD--GYRTIRGGQPVYIHPSSVL--FRRKPEWVIYHELLQTTKEYMRNVTAID 654 (674)
T ss_pred ---CCCHHHHHHHHHHHHHHHHHHhhcCC--CeEEccCCcEEEEechHHh--hcCCCCEEEEEEEeecchHhHhheeecC
Confidence 12346899999999999999987333 4999999999999999999 7778999999999999999999999999
Q ss_pred HhhHhhhCCCCccc
Q 000854 787 FDSLSTLCPSPLFD 800 (1252)
Q Consensus 787 ~~wL~~l~p~~~~~ 800 (1252)
++||.+++| +++.
T Consensus 655 ~~wL~e~ap-~~~~ 667 (674)
T KOG0922|consen 655 PEWLLELAP-HFFK 667 (674)
T ss_pred HHHHHHhCc-hHhh
Confidence 999999999 5553
No 2
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.2e-119 Score=1035.54 Aligned_cols=625 Identities=37% Similarity=0.618 Sum_probs=578.4
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCe-EEecCcHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQS-IVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~-ILv~qPrR~LA~qva~rv~~ 232 (1252)
....++..+..||++.++++++.+++.++|++|.|+||||||||+||||.+.++..+++ |.|+||||++|+++|.|+++
T Consensus 253 ~~~~iee~RksLPVy~ykdell~av~e~QVLiI~GeTGSGKTTQiPQyL~EaGytk~gk~IgcTQPRRVAAmSVAaRVA~ 332 (902)
T KOG0923|consen 253 RRESIEEVRKSLPVYPYKDELLKAVKEHQVLIIVGETGSGKTTQIPQYLYEAGYTKGGKKIGCTQPRRVAAMSVAARVAE 332 (902)
T ss_pred HHHHHHHHHhcCCchhhHHHHHHHHHhCcEEEEEcCCCCCccccccHHHHhcccccCCceEeecCcchHHHHHHHHHHHH
Confidence 35667778999999999999999999999999999999999999999999999998776 99999999999999999999
Q ss_pred HhcCCCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCC
Q 000854 233 ESRGCYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDL 312 (1252)
Q Consensus 233 ~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~l 312 (1252)
++ ++..|..|||.++++++.+.+|.|.|||+|+|++.++.++.|..|++|||||||||++.+|++.++++.+.+.||++
T Consensus 333 EM-gvkLG~eVGYsIRFEdcTSekTvlKYMTDGmLlREfL~epdLasYSViiiDEAHERTL~TDILfgLvKDIar~RpdL 411 (902)
T KOG0923|consen 333 EM-GVKLGHEVGYSIRFEDCTSEKTVLKYMTDGMLLREFLSEPDLASYSVIIVDEAHERTLHTDILFGLVKDIARFRPDL 411 (902)
T ss_pred Hh-CcccccccceEEEeccccCcceeeeeecchhHHHHHhccccccceeEEEeehhhhhhhhhhHHHHHHHHHHhhCCcc
Confidence 98 56677899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHH
Q 000854 313 RLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKME 392 (1252)
Q Consensus 313 qiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~e 392 (1252)
+++++|||+|++.|+.||.++|++.++||.|||+++|.+.+. .+|++.++..+.+||.+.+.|.||||++++++
T Consensus 412 KllIsSAT~DAekFS~fFDdapIF~iPGRRyPVdi~Yt~~PE------AdYldAai~tVlqIH~tqp~GDILVFltGQeE 485 (902)
T KOG0923|consen 412 KLLISSATMDAEKFSAFFDDAPIFRIPGRRYPVDIFYTKAPE------ADYLDAAIVTVLQIHLTQPLGDILVFLTGQEE 485 (902)
T ss_pred eEEeeccccCHHHHHHhccCCcEEeccCcccceeeecccCCc------hhHHHHHHhhheeeEeccCCccEEEEeccHHH
Confidence 999999999999999999999999999999999999998865 89999999999999999999999999999999
Q ss_pred HHHHHHHcCC---------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccc
Q 000854 393 VEWACEKFDA---------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYF 462 (1252)
Q Consensus 393 ie~la~~L~~---------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~y 462 (1252)
++.+.+.|.. ..+.+.|+|++||.+.|.+||+.- +|.+|||+||||||++||||+|.||||.|+.|++.|
T Consensus 486 IEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakIFePtP~gaRKVVLATNIAETSlTIdgI~yViDpGf~K~nsy 565 (902)
T KOG0923|consen 486 IETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKIFEPTPPGARKVVLATNIAETSLTIDGIKYVIDPGFVKQNSY 565 (902)
T ss_pred HHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhhcCCCCCCceeEEEeecchhhceeecCeEEEecCccccccCc
Confidence 9988877652 457899999999999999999998 799999999999999999999999999999999999
Q ss_pred cCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc-cCCCCCCccccccchHHHHHHHhHcCCCCcccccc
Q 000854 463 EPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE-TRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDF 541 (1252)
Q Consensus 463 dp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~-~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ 541 (1252)
+|++||++|.+.|||++++.||+|||||+|||+||+||+...|. .+...+.|||+|++|.+++|.+++|||+|+.+|+|
T Consensus 566 nprtGmesL~v~piSKAsA~QRaGRAGRtgPGKCfRLYt~~aY~~eLE~~t~PEIqRtnL~nvVL~LkSLGI~Dl~~FdF 645 (902)
T KOG0923|consen 566 NPRTGMESLLVTPISKASANQRAGRAGRTGPGKCFRLYTAWAYEHELEEMTVPEIQRTNLGNVVLLLKSLGIHDLIHFDF 645 (902)
T ss_pred CCCcCceeEEEeeechhhhhhhccccCCCCCCceEEeechhhhhhhhccCCCcceeeccchhHHHHHHhcCcchhccccc
Confidence 99999999999999999999999999999999999999998886 58888999999999999999999999999999999
Q ss_pred CCCCcHHHHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCcccccc
Q 000854 542 IDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRV 621 (1252)
Q Consensus 542 ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~ 621 (1252)
+|||+.+++..|++.|+.+|||+..| +||.+||.|+++|+||+++|||+.+-.+.|.+|+++||||++...++|.++
T Consensus 646 mDpPp~etL~~aLE~LyaLGALn~~G---eLTk~GrrMaEfP~dPmlsKmi~as~ky~cs~EiitiaamlS~~~svfyrp 722 (902)
T KOG0923|consen 646 LDPPPTETLLKALEQLYALGALNHLG---ELTKLGRRMAEFPVDPMLSKMIVASEKYKCSEEIITIAAMLSVGASVFYRP 722 (902)
T ss_pred CCCCChHHHHHHHHHHHHhhcccccc---chhhhhhhhhhcCCCHHHHhHHhhhccccchHHHHHHHHHHhcCchheecc
Confidence 99999999999999999999998776 799999999999999999999999999999999999999999999999775
Q ss_pred CCchHHHHHHhhhhhhcCCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCcc
Q 000854 622 GSDDEKIKADCLKVQFCHRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSY 701 (1252)
Q Consensus 622 ~~~~~~~~a~~~~~~f~~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~ 701 (1252)
. ++...+|.++..|..+.|||+++|++|++|.. .+.+.+||++||+++++|+++++++.||..++.+ .++...+
T Consensus 723 k--~~~v~ad~a~~~f~~~~gDhi~~L~vyn~w~e--s~~s~~wC~e~~iq~~sm~rardir~qL~gll~~-v~~~~~s- 796 (902)
T KOG0923|consen 723 K--DKQVHADNARKNFEEPVGDHIVLLNVYNQWKE--SKYSTQWCYENFIQYRSMKRARDIRDQLEGLLER-VEIDLSS- 796 (902)
T ss_pred h--hhhhhhhhhhhccCCCCcchhhhhHHHHHHhh--cchhhHHHHHhhhhHHHHHHHHHHHHHHHHHhhh-ccccccC-
Confidence 4 44556777788899999999999999999987 7788999999999999999999999999988754 2221111
Q ss_pred ccCCCCCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccccceeee
Q 000854 702 WLWNPHKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVNNQYLVC 781 (1252)
Q Consensus 702 ~~~n~~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Tsk~Ylr~ 781 (1252)
+......+++++.+||++|+|+.+... .|.++...+.|++||.|+| |...|.||+|++++.|++.|||.
T Consensus 797 -------~~~~~~~irk~i~aGff~h~a~l~~~g--~y~tvk~~~tv~~hp~S~l--~~~~P~wvvy~eLv~tske~mr~ 865 (902)
T KOG0923|consen 797 -------NQNDLDKIRKAITAGFFYHTAKLSKGG--HYRTVKHPQTVSIHPNSGL--FEQLPRWVVYHELVLTSKEFMRQ 865 (902)
T ss_pred -------ChHHHHHHHHHHhccccccceeccCCC--cceeeccCcceeecCcccc--cccCCceEEEeehhcChHHHHHH
Confidence 111235789999999999999986432 3888888888999999999 78899999999999999999999
Q ss_pred ecccCHhhHhhhCCCCccccccccc
Q 000854 782 VTAFDFDSLSTLCPSPLFDVSMMER 806 (1252)
Q Consensus 782 vt~Id~~wL~~l~p~~~~~~s~~~~ 806 (1252)
++.++++||.+++| |||....+++
T Consensus 866 ~~e~e~~Wlie~ap-hyyk~kdled 889 (902)
T KOG0923|consen 866 VIEIEEEWLIEVAP-HYYKLKDLED 889 (902)
T ss_pred HHhhhhhHHHHhch-hhhhhhhccc
Confidence 99999999999999 9997665654
No 3
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1e-118 Score=1033.04 Aligned_cols=613 Identities=37% Similarity=0.624 Sum_probs=572.1
Q ss_pred HHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 157 ECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 157 ~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
.++.++..||+...++.++..+..|++++|.|+||||||||++|||++.+++..+.|.|+||||++|+++|++++++++.
T Consensus 347 ~i~eqrq~LPvf~~R~~ll~~ir~n~vvvivgETGSGKTTQl~QyL~edGY~~~GmIGcTQPRRvAAiSVAkrVa~EM~~ 426 (1042)
T KOG0924|consen 347 SIREQRQYLPVFACRDQLLSVIRENQVVVIVGETGSGKTTQLAQYLYEDGYADNGMIGCTQPRRVAAISVAKRVAEEMGV 426 (1042)
T ss_pred hHHHHHhhcchHHHHHHHHHHHhhCcEEEEEecCCCCchhhhHHHHHhcccccCCeeeecCchHHHHHHHHHHHHHHhCC
Confidence 35667788999999999999999999999999999999999999999999999999999999999999999999999954
Q ss_pred CCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 237 CYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
..|..|||.+++++..++.|.|.|+|+|+|++....+..|.+|++||+||||||++++|.+.++++.++..|.++++|+
T Consensus 427 -~lG~~VGYsIRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~larRrdlKliV 505 (1042)
T KOG0924|consen 427 -TLGDTVGYSIRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVLARRRDLKLIV 505 (1042)
T ss_pred -ccccccceEEEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHHHhhccceEEE
Confidence 5567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHH
Q 000854 317 MSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWA 396 (1252)
Q Consensus 317 mSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~l 396 (1252)
+|||++++.|++||+++|.+.++||+|||++.|...+. .+|++..+.....||.....|.+|||.+++++++-.
T Consensus 506 tSATm~a~kf~nfFgn~p~f~IpGRTyPV~~~~~k~p~------eDYVeaavkq~v~Ihl~~~~GdilIfmtGqediE~t 579 (1042)
T KOG0924|consen 506 TSATMDAQKFSNFFGNCPQFTIPGRTYPVEIMYTKTPV------EDYVEAAVKQAVQIHLSGPPGDILIFMTGQEDIECT 579 (1042)
T ss_pred eeccccHHHHHHHhCCCceeeecCCccceEEEeccCch------HHHHHHHHhhheEeeccCCCCCEEEecCCCcchhHH
Confidence 99999999999999999999999999999999988754 899999999999999988999999999999999987
Q ss_pred HHHcCC----------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCC
Q 000854 397 CEKFDA----------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPG 465 (1252)
Q Consensus 397 a~~L~~----------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~ 465 (1252)
+..+.. .++.|+|+|+.||.+-|.++|+.. .|.+|+||||||||++++||++.||||+|+.|.+.|||.
T Consensus 580 ~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~kiFq~a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~ 659 (1042)
T KOG0924|consen 580 CDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAKIFQKAEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPR 659 (1042)
T ss_pred HHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhhhcccCCCCceeEEEeccchhhceeecceEEEEecCceeeeecccc
Confidence 766542 368899999999999999999988 799999999999999999999999999999999999999
Q ss_pred CCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc-cCCCCCCccccccchHHHHHHHhHcCCCCccccccCCC
Q 000854 466 TGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE-TRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDA 544 (1252)
Q Consensus 466 ~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~-~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldp 544 (1252)
.|++.|...|||++++.||+|||||++||.||++||+..|. .|.+.++|||+|++|.+++|.++++|++++..|+|+||
T Consensus 660 ~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~stvPEIqRTNl~nvVLlLkslgV~dll~FdFmD~ 739 (1042)
T KOG0924|consen 660 IGMDALQIVPISQANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLPSTVPEIQRTNLSNVVLLLKSLGVDDLLKFDFMDP 739 (1042)
T ss_pred cccceeEEEechhccchhhccccCCCCCcceeeehhhhHHHhhcccCCCchhhhcchhhHHHHHHhcChhhhhCCCcCCC
Confidence 99999999999999999999999999999999999998775 69999999999999999999999999999999999999
Q ss_pred CcHHHHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCc
Q 000854 545 PSAKAIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSD 624 (1252)
Q Consensus 545 P~~~~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~ 624 (1252)
|+.+.+..|+-.|..+|||+..| .||++|+.|+++|+||.++||||.+..+||.+|+++|++||| ++.+|.++.
T Consensus 740 Pped~~~~sly~Lw~LGAl~~~g---~LT~lG~~MvefpLDP~lsKmll~a~~~Gc~dEilsIvSmLS-vp~VF~rpk-- 813 (1042)
T KOG0924|consen 740 PPEDNLLNSLYQLWTLGALDNTG---QLTPLGRKMVEFPLDPPLSKMLLMAARMGCSDEILSIVSMLS-VPAVFYRPK-- 813 (1042)
T ss_pred CHHHHHHHHHHHHHHhhccccCC---ccchhhHHhhhCCCCchHHHHHHHHhccCcHHHHHHHHHHhc-ccceeeccc--
Confidence 99999999999999999998766 799999999999999999999999999999999999999986 677897654
Q ss_pred hHHHHHHhhhhhhcCCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccC
Q 000854 625 DEKIKADCLKVQFCHRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLW 704 (1252)
Q Consensus 625 ~~~~~a~~~~~~f~~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~ 704 (1252)
+..++++.++.+|+.+.|||||+||+|++|.. ++.+..||.+|||+.++|+.++++|+||..+| +++++...+
T Consensus 814 er~eead~ar~Kf~~~~sDhLTlLNVf~qw~~--~~~~~~WCnd~~l~~kaL~~arevR~ql~~il-~~l~~~l~S---- 886 (1042)
T KOG0924|consen 814 EREEEADAAREKFQVPESDHLTLLNVFNQWRK--NKYSSMWCNDHYLQVKALKKAREVRRQLLEIL-KQLKLPLIS---- 886 (1042)
T ss_pred cchhhhhhHHhhhcCCCCchhhHHHHHHHHHh--cCCchhhhhhhhhhHHHHHHHHHHHHHHHHHH-HHcCCCccc----
Confidence 45567888999999999999999999999988 78889999999999999999999999999998 456654432
Q ss_pred CCCCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCC-CCCEEEEEEecccccceeeeec
Q 000854 705 NPHKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQ-KPTWVVFGELLSVNNQYLVCVT 783 (1252)
Q Consensus 705 n~~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~-~PewVVy~Elv~Tsk~Ylr~vt 783 (1252)
+..++.+++|||+||+.|+|+..|.. .|..+.+|..+++||||+| ++. .|+||||+|++.|+++||+|||
T Consensus 887 -----~~dwdivrKCIcs~~fhn~Arlkg~g--~YV~~~tg~~c~lHPsS~L--~g~y~p~Yivyhel~~T~keym~cvT 957 (1042)
T KOG0924|consen 887 -----SDDWDIVRKCICSAYFHNAARLKGIG--EYVNLSTGIPCHLHPSSVL--HGLYTPDYIVYHELLMTTKEYMQCVT 957 (1042)
T ss_pred -----CchHHHHHHHHHHHHHHHHHHhccCc--eEEEccCCcceeecchHhh--hcCCCCCeeeehHHHHhHHHHHHHHh
Confidence 24578999999999999999997643 2999999999999999999 555 8999999999999999999999
Q ss_pred ccCHhhHhhhCCCCcc
Q 000854 784 AFDFDSLSTLCPSPLF 799 (1252)
Q Consensus 784 ~Id~~wL~~l~p~~~~ 799 (1252)
+|+|+||.+++| .+|
T Consensus 958 ~v~~~wl~E~gp-~~y 972 (1042)
T KOG0924|consen 958 SVSPEWLAELGP-MFY 972 (1042)
T ss_pred hCCHHHHHHhCc-eeE
Confidence 999999999999 444
No 4
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.2e-114 Score=971.09 Aligned_cols=632 Identities=34% Similarity=0.581 Sum_probs=579.5
Q ss_pred cccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEe
Q 000854 136 VFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVC 215 (1252)
Q Consensus 136 ~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv 215 (1252)
+++|+ | .|++....++++. +..||+|.|+.++++.+..|+.++++|+||||||||+|||+++......+.|.|
T Consensus 24 ~Npf~--~-~p~s~rY~~ilk~----R~~LPvw~~k~~F~~~l~~nQ~~v~vGetgsGKttQiPq~~~~~~~~~~~~v~C 96 (699)
T KOG0925|consen 24 INPFN--G-KPYSQRYYDILKK----RRELPVWEQKEEFLKLLLNNQIIVLVGETGSGKTTQIPQFVLEYELSHLTGVAC 96 (699)
T ss_pred cCCCC--C-CcCcHHHHHHHHH----HhcCchHHhHHHHHHHHhcCceEEEEecCCCCccccCcHHHHHHHHhhccceee
Confidence 67777 3 4566666666665 456999999999999999999999999999999999999999887766788999
Q ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccch
Q 000854 216 TQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNT 295 (1252)
Q Consensus 216 ~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~ 295 (1252)
+||+|.+|.++|.|+++++ ....|..|||.++++++.+.+|-+.|||+|+|++...+++.++.+++||+||||||++.+
T Consensus 97 TQprrvaamsva~RVadEM-Dv~lG~EVGysIrfEdC~~~~T~Lky~tDgmLlrEams~p~l~~y~viiLDeahERtlAT 175 (699)
T KOG0925|consen 97 TQPRRVAAMSVAQRVADEM-DVTLGEEVGYSIRFEDCTSPNTLLKYCTDGMLLREAMSDPLLGRYGVIILDEAHERTLAT 175 (699)
T ss_pred cCchHHHHHHHHHHHHHHh-ccccchhccccccccccCChhHHHHHhcchHHHHHHhhCcccccccEEEechhhhhhHHH
Confidence 9999999999999999998 456678899999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhh
Q 000854 296 DLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVH 375 (1252)
Q Consensus 296 d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~ 375 (1252)
|.+.++++.+...+|++|+|+||||++..+|..||+++|++.++| ++||+++|.+... .+|++.+++.+.+||
T Consensus 176 DiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~n~Pll~vpg-~~PvEi~Yt~e~e------rDylEaairtV~qih 248 (699)
T KOG0925|consen 176 DILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFGNAPLLAVPG-THPVEIFYTPEPE------RDYLEAAIRTVLQIH 248 (699)
T ss_pred HHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhCCCCeeecCC-CCceEEEecCCCC------hhHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999 9999999999865 889999999999999
Q ss_pred hcCCCCcEEEEeCCHHHHHHHHHHcCC---------CCCeeEeecCCCCHHhhhhhcccCC----C--ceEEEEechhhh
Q 000854 376 TTEKEGTILAFLTSKMEVEWACEKFDA---------PSAVALPFHGQLSFDEQFCVFKSYP----G--RRKVIFATNVAE 440 (1252)
Q Consensus 376 ~~~~~g~iLVFl~s~~eie~la~~L~~---------~~~~v~~LHg~Ls~~eR~~v~~~f~----G--~~kVLVATniae 440 (1252)
..+.+|.||||+++.++|+.+|+.+.. ....|.|+| +.+|.++|+..+ | .+||+|+||+||
T Consensus 249 ~~ee~GDilvFLtgeeeIe~aC~~i~re~~~L~~~~g~l~v~PLy----P~~qq~iFep~p~~~~~~~~RkvVvstniae 324 (699)
T KOG0925|consen 249 MCEEPGDILVFLTGEEEIEDACRKISREVDNLGPQVGPLKVVPLY----PAQQQRIFEPAPEKRNGAYGRKVVVSTNIAE 324 (699)
T ss_pred hccCCCCEEEEecCHHHHHHHHHHHHHHHHhhccccCCceEEecC----chhhccccCCCCcccCCCccceEEEEecchh
Confidence 999999999999999999999998762 347899999 778888988762 2 589999999999
Q ss_pred hcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc-cCCCCCCcccccc
Q 000854 441 TSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE-TRPLNQEPEIHRV 519 (1252)
Q Consensus 441 ~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~-~~~~~~~PEI~r~ 519 (1252)
++++|++|.+|||.|+.|++.|||+-...+|...|||++++.||+|||||++||+||+||+++.++ +|.+.+.|||+|+
T Consensus 325 tsltidgiv~VIDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~em~~~typeilrs 404 (699)
T KOG0925|consen 325 TSLTIDGIVFVIDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEKEMQPQTYPEILRS 404 (699)
T ss_pred eeeeeccEEEEecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhhcCCCCCcHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999997 5999999999999
Q ss_pred chHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhcc
Q 000854 520 HLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRR 599 (1252)
Q Consensus 520 ~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~ 599 (1252)
+|.+++|++|.+|++++..|+|+|||.++++.+|++.|..++|+|.+| .||++|..|+++|+||.++|||+.+++|+
T Consensus 405 NL~s~VL~LKklgI~dlvhfdfmDpPAPEtLMrALE~LnYLaaLdDdG---nLT~lG~imSEFPLdPqLAkmLi~S~efn 481 (699)
T KOG0925|consen 405 NLSSTVLQLKKLGIDDLVHFDFMDPPAPETLMRALEVLNYLAALDDDG---NLTSLGEIMSEFPLDPQLAKMLIGSCEFN 481 (699)
T ss_pred hhHHHHHHHHhcCcccccCCcCCCCCChHHHHHHHHHhhhhhhhCCCc---ccchhhhhhhcCCCChHHHHHHhhcCCCC
Confidence 999999999999999999999999999999999999999999999877 69999999999999999999999999999
Q ss_pred chhhHHHHHHHhhccCccccccCCchHHHHHHhhhhhhcCCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHH
Q 000854 600 LGREGLVLAAVMANASSIFCRVGSDDEKIKADCLKVQFCHRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRC 679 (1252)
Q Consensus 600 c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~~f~~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i 679 (1252)
|.+|+++|+|+++ +++.|.+++. +.++.|+.++..|+|.+|||+|++|+|++|++ .+...+||++||||+++|+.+
T Consensus 482 CsnEiLsisAMLs-vPncFvRp~~-~a~kaAdeak~~faH~dGDHlTLlnVYhAfkq--~~~~~~WC~~~flN~ral~~A 557 (699)
T KOG0925|consen 482 CSNEILSISAMLS-VPNCFVRPTS-SASKAADEAKETFAHIDGDHLTLLNVYHAFKQ--NNEDPNWCYDNFLNYRALKSA 557 (699)
T ss_pred chHHHHHHHhccc-CCccccCCCh-hHHHHHHHHHHHhccCCcchHHHHHHHHHHHh--cCCChhHHHHhcccHHHHHhH
Confidence 9999999999885 7889988753 56778999999999999999999999999988 667889999999999999999
Q ss_pred HHHHHHHHHHHHH-hhccccCccccCCCCCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccc
Q 000854 680 QDTIKELETCLEK-ELAIIIPSYWLWNPHKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLI 758 (1252)
Q Consensus 680 ~~~r~QL~~~L~~-elg~~~~~~~~~n~~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~ 758 (1252)
.++|.||.++|.+ ++....+.| .+.++..+|+++|++|||.+||+..... .|.++..++.|++|||+++
T Consensus 558 d~vR~qL~rim~R~~L~~~st~F------~S~~y~~nirKALvsgyFmqVA~~~~~~--~Ylt~kdnqvvqLhps~~l-- 627 (699)
T KOG0925|consen 558 DNVRQQLLRIMDRFNLPLCSTDF------GSRDYYVNIRKALVSGYFMQVAHLERGG--HYLTVKDNQVVQLHPSTCL-- 627 (699)
T ss_pred HHHHHHHHHHHHHhcCcccCCCC------CChhHHHHHHHHHHHHHHHHHHhhccCC--ceEEEecCceEEecccccc--
Confidence 9999999999865 343333333 2234567899999999999999976433 5999999999999999986
Q ss_pred cCCCCCEEEEEEecccccceeeeecccCHhhHhhhCCCCcccccccc
Q 000854 759 FGQKPTWVVFGELLSVNNQYLVCVTAFDFDSLSTLCPSPLFDVSMME 805 (1252)
Q Consensus 759 f~~~PewVVy~Elv~Tsk~Ylr~vt~Id~~wL~~l~p~~~~~~s~~~ 805 (1252)
+.+|+||+|+|++.|+++|+|+||.|.|+||.+++| +||+.|.+.
T Consensus 628 -~~~PeWVlyneFvlt~~N~ir~vt~I~pewlv~laP-~YydlsNfp 672 (699)
T KOG0925|consen 628 -DHKPEWVLYNEFVLTTKNFIRTVTDIRPEWLVELAP-QYYDLSNFP 672 (699)
T ss_pred -CCCCCeEEEeeEEeeccceeeeecccCHHHHHHhch-hhcccccCC
Confidence 589999999999999999999999999999999999 888777654
No 5
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=100.00 E-value=1.8e-107 Score=1038.82 Aligned_cols=641 Identities=32% Similarity=0.500 Sum_probs=566.6
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 162 EDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 162 ~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
...||++..+++|+.++.++++++|+|+||||||||+|+++++.+.+..+.|+|+||+|++|.++|.+++++++. ..|.
T Consensus 70 ~~~LPi~~~r~~Il~ai~~~~VviI~GeTGSGKTTqlPq~lle~g~g~~g~I~~TQPRRlAArsLA~RVA~El~~-~lG~ 148 (1294)
T PRK11131 70 PENLPVSQKKQDILEAIRDHQVVIVAGETGSGKTTQLPKICLELGRGVKGLIGHTQPRRLAARTVANRIAEELET-ELGG 148 (1294)
T ss_pred CCCCCHHHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHcCCCCCCceeeCCCcHHHHHHHHHHHHHHHhh-hhcc
Confidence 446999999999999999999999999999999999999999887666678999999999999999999999854 3456
Q ss_pred eEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 242 SVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 242 ~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
.+||..++++..+.+++|+|+|||+|+++++.++.++++++|||||||||++++||++++++.+...++++|+|+||||+
T Consensus 149 ~VGY~vrf~~~~s~~t~I~v~TpG~LL~~l~~d~~Ls~~~~IIIDEAHERsLn~DfLLg~Lk~lL~~rpdlKvILmSATi 228 (1294)
T PRK11131 149 CVGYKVRFNDQVSDNTMVKLMTDGILLAEIQQDRLLMQYDTIIIDEAHERSLNIDFILGYLKELLPRRPDLKVIITSATI 228 (1294)
T ss_pred eeceeecCccccCCCCCEEEEChHHHHHHHhcCCccccCcEEEecCccccccccchHHHHHHHhhhcCCCceEEEeeCCC
Confidence 79999999988888999999999999999999999999999999999999999999999999988888999999999999
Q ss_pred CHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC
Q 000854 322 DAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFD 401 (1252)
Q Consensus 322 d~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~ 401 (1252)
+.+.|+++|.+++++.++|+.+||+++|.+..........+++..++..+.++. ....|++||||||+.+|+.+++.|.
T Consensus 229 d~e~fs~~F~~apvI~V~Gr~~pVei~y~p~~~~~~~~~~d~l~~ll~~V~~l~-~~~~GdILVFLpg~~EIe~lae~L~ 307 (1294)
T PRK11131 229 DPERFSRHFNNAPIIEVSGRTYPVEVRYRPIVEEADDTERDQLQAIFDAVDELG-REGPGDILIFMSGEREIRDTADALN 307 (1294)
T ss_pred CHHHHHHHcCCCCEEEEcCccccceEEEeecccccchhhHHHHHHHHHHHHHHh-cCCCCCEEEEcCCHHHHHHHHHHHH
Confidence 999999999999999999999999999987643111112334455555555554 3567999999999999999999998
Q ss_pred CCCC---eeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCH
Q 000854 402 APSA---VALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQ 478 (1252)
Q Consensus 402 ~~~~---~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSk 478 (1252)
+.++ .+.++||+|++++|.++|+. .|.++||||||+||+|||||+|+||||+|+.|...||+.++++.|...|+|+
T Consensus 308 ~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~-~g~rkIIVATNIAEtSITIpgI~yVID~Gl~k~~~Yd~~~~~~~Lp~~~iSk 386 (1294)
T PRK11131 308 KLNLRHTEILPLYARLSNSEQNRVFQS-HSGRRIVLATNVAETSLTVPGIKYVIDPGTARISRYSYRTKVQRLPIEPISQ 386 (1294)
T ss_pred hcCCCcceEeecccCCCHHHHHHHhcc-cCCeeEEEeccHHhhccccCcceEEEECCCccccccccccCcccCCeeecCH
Confidence 7554 48899999999999999987 4789999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHHH
Q 000854 479 SSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNLV 558 (1252)
Q Consensus 479 asy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L~ 558 (1252)
++|.||+|||||.++|.||+||+++++..+++++.|||+|++|.+++|+++++|++++..|+|+|||+.++|.+|++.|.
T Consensus 387 asa~QRaGRAGR~~~G~c~rLyte~d~~~~~~~~~PEIlR~~L~~viL~lk~lgl~di~~F~fldpP~~~~i~~al~~L~ 466 (1294)
T PRK11131 387 ASANQRKGRCGRVSEGICIRLYSEDDFLSRPEFTDPEILRTNLASVILQMTALGLGDIAAFPFVEAPDKRNIQDGVRLLE 466 (1294)
T ss_pred hhHhhhccccCCCCCcEEEEeCCHHHHHhhhcccCCccccCCHHHHHHHHHHcCCCCcceeeCCCCCCHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCcccccC--CcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCchHHHHHHhhhhh
Q 000854 559 QLGAIKLNN--GVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSDDEKIKADCLKVQ 636 (1252)
Q Consensus 559 ~lgal~~~~--~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~~ 636 (1252)
.+|||+.++ +...||++|+.|++||+||++||||+.|..+||++++++|||+|+. .++|.++ .+++++++.++.+
T Consensus 467 ~LgAld~~~~~~~~~LT~lG~~la~LPldPrlakmLl~a~~~~c~~evl~IaA~Lsv-~dpf~~p--~~~~~~a~~~~~~ 543 (1294)
T PRK11131 467 ELGAITTDEQASAYKLTPLGRQLAQLPVDPRLARMVLEAQKHGCVREVMIITSALSI-QDPRERP--MDKQQASDEKHRR 543 (1294)
T ss_pred HCCCCCccccCCCccCcHHHHHHHhCCCChHHHHHHHHhhhcCCHHHHHHHHHHHcC-CCcccCC--chhHHHHHHHHHh
Confidence 999998642 2357999999999999999999999999999999999999999974 5677554 4667788889999
Q ss_pred hcCCCCcHHHHHHHHHHHhcCC----ccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccCCCCCCccc
Q 000854 637 FCHRNGDLFTLLSVYREWDSLP----REERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLWNPHKYTEY 712 (1252)
Q Consensus 637 f~~~~gD~ltll~~y~~w~~~~----~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~n~~~~~~~ 712 (1252)
|.+.+|||++++|+|+.|.+.. .+..++||++||||+++|++|++++.||..++ +++|+...+ ...+
T Consensus 544 f~~~~sD~lt~ln~~~~~~~~~~~~s~~~~~~~C~~~~L~~~~l~e~~~i~~QL~~~~-~~~g~~~~~--------~~~~ 614 (1294)
T PRK11131 544 FADKESDFLAFVNLWNYLQEQQKALSSNQFRRLCRTDYLNYLRVREWQDIYTQLRQVV-KELGIPVNS--------EPAE 614 (1294)
T ss_pred hCCCCCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHhCCCHHHHHHHHHHHHHHHHHH-HHcCCCCCC--------Cccc
Confidence 9999999999999999997521 23346899999999999999999999999987 567764421 1224
Q ss_pred HHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccccceeeeecccCHhhHhh
Q 000854 713 DKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVNNQYLVCVTAFDFDSLST 792 (1252)
Q Consensus 713 ~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Tsk~Ylr~vt~Id~~wL~~ 792 (1252)
.+.|+++|++||++|||++... +..|. ...++.++|||+|+| |+.+|+||||+|++.|++.|+|+|+.|+|+||.+
T Consensus 615 ~~~i~~all~G~~~nva~~~~~-~~~y~-~~~~~~~~ihP~S~L--~~~~p~wvv~~Elv~Tsr~y~r~va~I~p~Wl~~ 690 (1294)
T PRK11131 615 YREIHTALLTGLLSHIGMKDAE-KQEYT-GARNARFSIFPGSGL--FKKPPKWVMVAELVETSRLWGRIAARIEPEWIEP 690 (1294)
T ss_pred HHHHHHHHHhhcHHHHeeccCC-CCeEE-ccCCcEEEEcCCccc--cCCCCCEEEEEeeeccChhhhhhhcccCHHHHHH
Confidence 5789999999999999987643 22254 456889999999999 7789999999999999999999999999999999
Q ss_pred hCCCCccc----cccccccccee---eeecccchhHH
Q 000854 793 LCPSPLFD----VSMMERKKLHV---RVITGFGSILL 822 (1252)
Q Consensus 793 l~p~~~~~----~s~~~~~k~~~---~~it~~~~~~l 822 (1252)
++| +++. ..+|+++..++ +.+|.+|.+++
T Consensus 691 ~a~-~l~~~~y~ePhw~~~~g~v~a~e~vtl~Gl~iv 726 (1294)
T PRK11131 691 LAQ-HLIKRSYSEPHWEKAQGAVMATEKVTLYGLPIV 726 (1294)
T ss_pred HHH-HhccccCCCCcccccCCeEEEEEEEEEcCeEEE
Confidence 988 4443 34888877776 78899998874
No 6
>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=100.00 E-value=1.9e-102 Score=996.72 Aligned_cols=641 Identities=34% Similarity=0.507 Sum_probs=562.1
Q ss_pred ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 161 LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
+...||++.++++|+.++.++++++|+|+||||||||+|+++++.+.+..++|+|+||||.+|.++|.+++++++ ...|
T Consensus 62 ~~~~LPi~~~~~~Il~~l~~~~vvii~g~TGSGKTTqlPq~lle~~~~~~~~I~~tQPRRlAA~svA~RvA~elg-~~lG 140 (1283)
T TIGR01967 62 YPDNLPVSAKREDIAEAIAENQVVIIAGETGSGKTTQLPKICLELGRGSHGLIGHTQPRRLAARTVAQRIAEELG-TPLG 140 (1283)
T ss_pred CCCCCCHHHHHHHHHHHHHhCceEEEeCCCCCCcHHHHHHHHHHcCCCCCceEecCCccHHHHHHHHHHHHHHhC-CCcc
Confidence 345699999999999999999999999999999999999999998776667999999999999999999999984 5567
Q ss_pred ceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 241 DSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 241 ~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
..|||..++++..+.+|+|+|+|||+|++++..++.++++++|||||||||++++|+++++++.+...++++|+|+||||
T Consensus 141 ~~VGY~vR~~~~~s~~T~I~~~TdGiLLr~l~~d~~L~~~~~IIIDEaHERsL~~D~LL~lLk~il~~rpdLKlIlmSAT 220 (1283)
T TIGR01967 141 EKVGYKVRFHDQVSSNTLVKLMTDGILLAETQQDRFLSRYDTIIIDEAHERSLNIDFLLGYLKQLLPRRPDLKIIITSAT 220 (1283)
T ss_pred eEEeeEEcCCcccCCCceeeeccccHHHHHhhhCcccccCcEEEEcCcchhhccchhHHHHHHHHHhhCCCCeEEEEeCC
Confidence 88999999999998999999999999999999999999999999999999999999999999999888999999999999
Q ss_pred CCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHc
Q 000854 321 ADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKF 400 (1252)
Q Consensus 321 ld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L 400 (1252)
++.+.|++||.++|++.++|+.+||+++|.+..........++.+.+...+.+++. ...|++|||+||+.+|+.+++.|
T Consensus 221 ld~~~fa~~F~~apvI~V~Gr~~PVev~Y~~~~~~~~~~~~~~~~~i~~~I~~l~~-~~~GdILVFLpg~~EI~~l~~~L 299 (1283)
T TIGR01967 221 IDPERFSRHFNNAPIIEVSGRTYPVEVRYRPLVEEQEDDDLDQLEAILDAVDELFA-EGPGDILIFLPGEREIRDAAEIL 299 (1283)
T ss_pred cCHHHHHHHhcCCCEEEECCCcccceeEEecccccccchhhhHHHHHHHHHHHHHh-hCCCCEEEeCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999875321111112344555566666554 35699999999999999999999
Q ss_pred CCC---CCeeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccC
Q 000854 401 DAP---SAVALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVS 477 (1252)
Q Consensus 401 ~~~---~~~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iS 477 (1252)
.+. +..+.++||+|++++|.++|+.++ .++||||||+||+|||||+|++|||+|+++...|||.++++.|.+.|||
T Consensus 300 ~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~~-~rkIVLATNIAEtSLTIpgV~yVIDsGl~r~~~yd~~~~~~~L~~~~IS 378 (1283)
T TIGR01967 300 RKRNLRHTEILPLYARLSNKEQQRVFQPHS-GRRIVLATNVAETSLTVPGIHYVIDTGTARISRYSYRTKVQRLPIEPIS 378 (1283)
T ss_pred HhcCCCCcEEEeccCCCCHHHHHHHhCCCC-CceEEEeccHHHhccccCCeeEEEeCCCccccccccccCccccCCccCC
Confidence 764 456999999999999999988763 4899999999999999999999999999999999999999999999999
Q ss_pred HhhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHH
Q 000854 478 QSSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNL 557 (1252)
Q Consensus 478 kasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L 557 (1252)
+++|.||+|||||.++|.||+||++++++.+++++.|||+|++|.+++|+++++|+.++..|+|+|||+.+++..|++.|
T Consensus 379 kasa~QRaGRAGR~~~G~cyRLyte~~~~~~~~~~~PEIlR~~L~~viL~l~~lg~~di~~f~fldpP~~~~i~~A~~~L 458 (1283)
T TIGR01967 379 QASANQRKGRCGRVAPGICIRLYSEEDFNSRPEFTDPEILRTNLASVILQMLALRLGDIAAFPFIEAPDPRAIRDGFRLL 458 (1283)
T ss_pred HHHHHHHhhhhCCCCCceEEEecCHHHHHhhhhccCcccccccHHHHHHHHHhcCCCCcccccCCCCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCchHHHHHHhhhhhh
Q 000854 558 VQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSDDEKIKADCLKVQF 637 (1252)
Q Consensus 558 ~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~~f 637 (1252)
..+|||+.+++...||++|+.|+.||+||++||||+.|..+||++++++|||+|+. .++|.+ +.+++++++.++.+|
T Consensus 459 ~~LGAld~~~~~~~LT~lGr~ma~LPldPrlarmLl~a~~~gcl~e~l~IaA~Ls~-~dp~~~--p~~~~~~a~~~~~~f 535 (1283)
T TIGR01967 459 EELGALDDDEAEPQLTPIGRQLAQLPVDPRLARMLLEAHRLGCLQEVLIIASALSI-QDPRER--PMEKQQAADQAHARF 535 (1283)
T ss_pred HHCCCCCCCCCCccccHHHHHHhhcCCChHHHHHHHHhhhcCCHHHHHHHHHHHcC-CCcCCC--cchhHHHHHHHHHHh
Confidence 99999987664457999999999999999999999999999999999999999975 456744 346678888999999
Q ss_pred cCCCCcHHHHHHHHHHHhcCC----ccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccCCCCCCcccH
Q 000854 638 CHRNGDLFTLLSVYREWDSLP----REERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLWNPHKYTEYD 713 (1252)
Q Consensus 638 ~~~~gD~ltll~~y~~w~~~~----~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~n~~~~~~~~ 713 (1252)
.+.+|||++++|+|+.|.+.. .+..++||++||||+++|+++.+++.||..++ +++|+...+ ...+.
T Consensus 536 ~~~~sD~l~~L~~~~~~~~~~~~~~~~~~~~~C~~~fL~~~~l~~~~~i~~QL~~~~-~~~~~~~~~--------~~~~~ 606 (1283)
T TIGR01967 536 KDPRSDFLSRVNLWRHIEEQRQALSANQFRNACRKQYLNYLRVREWQDIYRQLTQVV-KELGLKLNE--------EPADY 606 (1283)
T ss_pred cCCCCCHHHHHHHHHHHHHhhhhccchHHHHHHHHcCcCHHHHHHHHHHHHHHHHHH-HHcCCCcCC--------CCccH
Confidence 999999999999999997532 12346899999999999999999999998887 456653211 11223
Q ss_pred HHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccccceeeeecccCHhhHhhh
Q 000854 714 KWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVNNQYLVCVTAFDFDSLSTL 793 (1252)
Q Consensus 714 ~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Tsk~Ylr~vt~Id~~wL~~l 793 (1252)
+.++++|++||++|||++... + .|.. .+|+.++|||+|+| ++.+|+||||+|++.|++.|++++++|+++||.++
T Consensus 607 ~~i~~~l~~g~~~~iA~~~~~-~-~y~~-~~g~~~~ihP~S~L--~~~~p~wvv~~elv~t~~~~ir~~a~I~p~wl~~~ 681 (1283)
T TIGR01967 607 DAIHKALLSGLLSQIGMKDEK-H-EYDG-ARGRKFHIFPGSPL--FKKPPKWVMAAELVETSKLYARLVAKIEPEWVEPV 681 (1283)
T ss_pred HHHHHHHHHhhHHHHheeCCC-C-cEEe-cCCcEEEECCCccc--cCCCCCEEEEeeecccchheEeeeccCCHHHHHHH
Confidence 469999999999999987642 2 3655 56889999999999 67789999999999999999999999999999999
Q ss_pred CCCCcccc----ccccccccee---eeecccchhHH
Q 000854 794 CPSPLFDV----SMMERKKLHV---RVITGFGSILL 822 (1252)
Q Consensus 794 ~p~~~~~~----s~~~~~k~~~---~~it~~~~~~l 822 (1252)
+| +++.. .+|++++..+ +..|-+|.+++
T Consensus 682 ~~-~~~~~~~~~~~w~~~~g~v~a~~~~~~~G~~il 716 (1283)
T TIGR01967 682 AG-HLIKKNYFEPHWEKKRGQVMAYEKVTLYGLTLV 716 (1283)
T ss_pred hH-HHhEeccCceeeccCCCeEEEEEehhhcCCEEe
Confidence 98 55532 3676554444 35667777665
No 7
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=100.00 E-value=1.7e-101 Score=950.32 Aligned_cols=709 Identities=31% Similarity=0.444 Sum_probs=591.0
Q ss_pred cHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc--cCCeEEecCcHHHHHHHHHH
Q 000854 151 QAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA--AEQSIVCTQPRKIAAISLAQ 228 (1252)
Q Consensus 151 ~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~--~~~~ILv~qPrR~LA~qva~ 228 (1252)
...-.+.+.+.+..||++.++++|+++++.++|++|+|+||||||||+||++++.... ..++|+|+||||++|+++|+
T Consensus 158 ~s~~~~~~~~~R~~LPa~~~r~~Il~~i~~~qVvvIsGeTGcGKTTQvpQfiLd~~~~~~~~~~IicTQPRRIsAIsvAe 237 (924)
T KOG0920|consen 158 KSESYKEMLRFRESLPAYKMRDTILDAIEENQVVVISGETGCGKTTQVPQFILDEAIESGAACNIICTQPRRISAISVAE 237 (924)
T ss_pred hhhHHHHHHHHHHhCccHHHHHHHHHHHHhCceEEEeCCCCCCchhhhhHHHHHHHHhcCCCCeEEecCCchHHHHHHHH
Confidence 3455677788889999999999999999999999999999999999999999986432 45689999999999999999
Q ss_pred HHHHHhcCCCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 229 RVREESRGCYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 229 rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
|++.++ +...|..|||..+.++..+..+.++|||+|.|++.|+.++.+.++++||+||+|||++++||++.+++.++..
T Consensus 238 RVa~ER-~~~~g~~VGYqvrl~~~~s~~t~L~fcTtGvLLr~L~~~~~l~~vthiivDEVHER~i~~DflLi~lk~lL~~ 316 (924)
T KOG0920|consen 238 RVAKER-GESLGEEVGYQVRLESKRSRETRLLFCTTGVLLRRLQSDPTLSGVTHIIVDEVHERSINTDFLLILLKDLLPR 316 (924)
T ss_pred HHHHHh-ccccCCeeeEEEeeecccCCceeEEEecHHHHHHHhccCcccccCceeeeeeEEEccCCcccHHHHHHHHhhh
Confidence 999998 4445588999999999988889999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCC----------C-----c----------cccch
Q 000854 309 RFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAG----------T-----S----------AVASY 363 (1252)
Q Consensus 309 ~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~----------~-----~----------~~~~~ 363 (1252)
+|++|+|+||||+|++.|++||+++|+++++|++|||..+|+.+..+. . + .....
T Consensus 317 ~p~LkvILMSAT~dae~fs~YF~~~pvi~i~grtfpV~~~fLEDil~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id 396 (924)
T KOG0920|consen 317 NPDLKVILMSATLDAELFSDYFGGCPVITIPGRTFPVKEYFLEDILSKTGYVSEDDSARSGPERSQLRLARLKLWEPEID 396 (924)
T ss_pred CCCceEEEeeeecchHHHHHHhCCCceEeecCCCcchHHHHHHHHHHHhcccccccccccccccCccccccchhcccccc
Confidence 999999999999999999999999999999999999998887654310 0 0 00112
Q ss_pred HHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC-------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEe
Q 000854 364 VSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA-------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFA 435 (1252)
Q Consensus 364 ~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~-------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVA 435 (1252)
...+..++.+|+.....|.||||+||..++..+.+.|.. ..+.+.++||.|+..+|+.||... .|.+|||+|
T Consensus 397 ~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~VF~~pp~g~RKIIla 476 (924)
T KOG0920|consen 397 YDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAVFKRPPKGTRKIILA 476 (924)
T ss_pred HHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHhcCCCCCCcchhhhh
Confidence 234667777888887899999999999999999999853 237899999999999999999999 799999999
Q ss_pred chhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhccCCC-CCCc
Q 000854 436 TNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFETRPL-NQEP 514 (1252)
Q Consensus 436 Tniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~-~~~P 514 (1252)
||+||++||||||.||||+|+.|++.|||.++++.|...|+|++++.||+|||||..+|.||+||++..|+.+.. ++.|
T Consensus 477 TNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGRv~~G~cy~L~~~~~~~~~~~~~q~P 556 (924)
T KOG0920|consen 477 TNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGRVRPGICYHLYTRSRYEKLMLAYQLP 556 (924)
T ss_pred hhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccCccCCeeEEeechhhhhhcccccCCh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999998776 9999
Q ss_pred cccccchHHHHHHHhHcCCCCcccc--ccCCCCcHHHHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHH
Q 000854 515 EIHRVHLGIAVLRILALGIRDVQGF--DFIDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLI 592 (1252)
Q Consensus 515 EI~r~~L~~~vL~lk~lgi~~~~~f--~~ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~l 592 (1252)
||+|.+|++++|++|.+++.++..| .++|||+.+++..|+..|.++||++.++ +||+||++++.||+||++|||+
T Consensus 557 EilR~pL~~l~L~iK~l~~~~~~~fLskaldpP~~~~v~~a~~~L~~igaL~~~e---~LT~LG~~la~lPvd~~igK~l 633 (924)
T KOG0920|consen 557 EILRTPLEELCLHIKVLEQGSIKAFLSKALDPPPADAVDLAIERLKQIGALDESE---ELTPLGLHLASLPVDVRIGKLL 633 (924)
T ss_pred HHHhChHHHhhheeeeccCCCHHHHHHHhcCCCChHHHHHHHHHHHHhccccCcc---cchHHHHHHHhCCCccccchhh
Confidence 9999999999999999999888888 7899999999999999999999999766 7999999999999999999999
Q ss_pred HHHhhccchhhHHHHHHHhhccCccccccCCchHHHHHHhhhhhhcCCC-CcHHHHHHHHHHHhcCCcc---chhhhHhh
Q 000854 593 LSCFRRRLGREGLVLAAVMANASSIFCRVGSDDEKIKADCLKVQFCHRN-GDLFTLLSVYREWDSLPRE---ERNKWCWE 668 (1252)
Q Consensus 593 l~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~~f~~~~-gD~ltll~~y~~w~~~~~~---~~~~wC~~ 668 (1252)
+.|..|+|++++++|||+|+ ..+||. .+.++++.+++++..|.... |||++++++|+.|...... ...+||++
T Consensus 634 l~g~if~cLdp~l~iaa~Ls-~k~PF~--~~~~~~~~~~~~~~~~~~~~~SD~la~~~ay~~w~~~~~~~~~~~~~fc~~ 710 (924)
T KOG0920|consen 634 LFGAIFGCLDPALTIAAALS-FKSPFV--SPLGKREEADKAKKLLALDSISDHLAVVRAYAGWREILRSGPSAEKDFCEE 710 (924)
T ss_pred eehhhccccchhhhHHHHhc-cCCCcc--cCCCchhHHHHHHHHhccCCcchHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 99999999999999999998 455774 44566777888888877554 9999999999999875544 66899999
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHHhhccccCccc----cCCCCCCcccHHHHHHHHHHhcchhhhhhccCCCCCeE---E
Q 000854 669 NSVNAKSLRRCQDTIKELETCLEKELAIIIPSYW----LWNPHKYTEYDKWLKEIILSALAENVAMFSGYDQLGYE---V 741 (1252)
Q Consensus 669 n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~----~~n~~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~---~ 741 (1252)
||||..+|+++.+++.|+...+ .++|+...+.. ..+-+.++.+.+.++++||+|||||+|+......+... .
T Consensus 711 ~fLs~~~l~~i~~l~~q~~~~l-~~~g~~~~~~~~~~~~~~~n~~s~~~~~iravl~a~lyP~i~~~~~~~~~~~~~~~~ 789 (924)
T KOG0920|consen 711 NFLSSNTLQEISSLRVQFLELL-SDIGLIPISSTAALTDSECNHNSQNPELVRAVLCAGLYPNIAFVRRMEPKSKSVTFV 789 (924)
T ss_pred hhccHHHHHHHHHHHHHHHHHh-hhcccccCCcccccCchhhhhcCCCHHHHHHHHhccCCCceeeeecccCCcCcceee
Confidence 9999999999999999999887 56777654311 01112234456789999999999999987531111111 1
Q ss_pred EecCeeEEECCCCcccccCC-CCCEEEEEEeccccc-ceeeeecccCHhhHhhhCCCCcccccccccccceeeeecccch
Q 000854 742 AMTGQHVQLHPSCSLLIFGQ-KPTWVVFGELLSVNN-QYLVCVTAFDFDSLSTLCPSPLFDVSMMERKKLHVRVITGFGS 819 (1252)
Q Consensus 742 ~~~g~~v~IHPSSvL~~f~~-~PewVVy~Elv~Tsk-~Ylr~vt~Id~~wL~~l~p~~~~~~s~~~~~k~~~~~it~~~~ 819 (1252)
.....++.|||+|+....+. ..+|++|+|.++|++ .|+|++|.+.+-.+..+++. .+. ....+-+.
T Consensus 790 ~~~~~~v~i~~~sv~~~~~~~~~p~l~~~~k~~t~~~~~~rd~T~v~~~~~llfgg~-~~~-----------~~~~~~~~ 857 (924)
T KOG0920|consen 790 TKADGRVIIHPSSVNEQSTGFQSPFLVFPEKVKSTRLVSLRDTTSVSSSALLLFGGG-IST-----------VRMKSGSL 857 (924)
T ss_pred cCCceeEEEecchhhccccccCCcceEEeeecccCCcceeeecCCCCcHHheeecCC-cee-----------ecCCCCcc
Confidence 22335899999999743222 235999999999999 99999999999999888872 221 11111111
Q ss_pred hHH--H-HhhccCCcchHHHHHHHHHhhhhhhhheeeccccccccccccccchHHHHHHHHHHHHH
Q 000854 820 ILL--K-KFCGKSNSNVLSLVSRLRSTFMDERIGIEVNVDQNQILLFASSQDIEEVLGLVSDVLEY 882 (1252)
Q Consensus 820 ~~l--~-~~~g~~~~~~~~li~~LR~~~ld~~i~~~l~~~~~~~~~y~~~~~~~~v~~~v~~~i~~ 882 (1252)
.++ + +..-.....+..++++||.. ||+.+..++ .++.+..-........+...+.+++..
T Consensus 858 ~~~~~d~~~~~~~~~~~~~~~~~Lr~~-l~~~l~~~~--~~p~~~~~~~~~~~~~~~~~~~~~~~~ 920 (924)
T KOG0920|consen 858 ALLLPDGWLRFKALPKTARLLKELRRE-LDSLLSKKI--RSPCASLPDSSGKGSESPSLIANLLVG 920 (924)
T ss_pred ceecCCceEEeecchhHHHHHHHHHHH-HHHHHHHhc--cCccccccccccccccchhhhhhhhhh
Confidence 221 1 22223336677899999999 999999999 773333211223444444444444443
No 8
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.9e-97 Score=917.40 Aligned_cols=627 Identities=36% Similarity=0.519 Sum_probs=544.3
Q ss_pred HHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 157 ECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 157 ~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
.+......||++..+.+|..++..+++++|+||||||||||+|+++++.++...++|+|+||||++|.++|+++++++ +
T Consensus 41 ~~~~~~~~LPv~~~~~~i~~ai~~~~vvii~getGsGKTTqlP~~lle~g~~~~g~I~~tQPRRlAArsvA~RvAeel-~ 119 (845)
T COG1643 41 DILEYRSGLPVTAVRDEILKAIEQNQVVIIVGETGSGKTTQLPQFLLEEGLGIAGKIGCTQPRRLAARSVAERVAEEL-G 119 (845)
T ss_pred hhhhccccCCcHHHHHHHHHHHHhCCEEEEeCCCCCChHHHHHHHHHhhhcccCCeEEecCchHHHHHHHHHHHHHHh-C
Confidence 344566789999999999999999999999999999999999999999999888899999999999999999999998 4
Q ss_pred CCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccC-CCcEE
Q 000854 237 CYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRF-DLRLV 315 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~-~lqiI 315 (1252)
+..|..|||.+++++..+.+|+|.|+|+|+|+++++.++.|+.|++|||||||||++++|+++++++.+...++ ++|+|
T Consensus 120 ~~~G~~VGY~iRfe~~~s~~Trik~mTdGiLlrei~~D~~Ls~ys~vIiDEaHERSl~tDilLgllk~~~~~rr~DLKiI 199 (845)
T COG1643 120 EKLGETVGYSIRFESKVSPRTRIKVMTDGILLREIQNDPLLSGYSVVIIDEAHERSLNTDILLGLLKDLLARRRDDLKLI 199 (845)
T ss_pred CCcCceeeEEEEeeccCCCCceeEEeccHHHHHHHhhCcccccCCEEEEcchhhhhHHHHHHHHHHHHHHhhcCCCceEE
Confidence 55667899999999999999999999999999999999999999999999999999999999999999776555 89999
Q ss_pred eeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccch-HHHHHHHHHHhhhcCCCCcEEEEeCCHHHHH
Q 000854 316 IMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASY-VSDVVRMVGEVHTTEKEGTILAFLTSKMEVE 394 (1252)
Q Consensus 316 lmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~-~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie 394 (1252)
+||||+|.+.|++||+++|+++++|++|||+++|.+... .++ +.+.+.....++.....|+||||+|++.+|+
T Consensus 200 imSATld~~rfs~~f~~apvi~i~GR~fPVei~Y~~~~~------~d~~l~~ai~~~v~~~~~~~~GdILvFLpG~~EI~ 273 (845)
T COG1643 200 IMSATLDAERFSAYFGNAPVIEIEGRTYPVEIRYLPEAE------ADYILLDAIVAAVDIHLREGSGSILVFLPGQREIE 273 (845)
T ss_pred EEecccCHHHHHHHcCCCCEEEecCCccceEEEecCCCC------cchhHHHHHHHHHHHhccCCCCCEEEECCcHHHHH
Confidence 999999999999999999999999999999999987653 344 6666666667777788999999999999999
Q ss_pred HHHHHcCC----CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcc
Q 000854 395 WACEKFDA----PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMN 469 (1252)
Q Consensus 395 ~la~~L~~----~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~ 469 (1252)
.+++.|.+ ....+.|+||.|+.++|.++|+.. .|++|||+||||||||||||+|++|||+|+.|.+.||+.+|++
T Consensus 274 ~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~rvF~p~~~~~RKVVlATNIAETSLTI~gIr~VIDsG~ak~~~y~~~~g~~ 353 (845)
T COG1643 274 RTAEWLEKAELGDDLEILPLYGALSAEEQVRVFEPAPGGKRKVVLATNIAETSLTIPGIRYVIDSGLAKEKRYDPRTGLT 353 (845)
T ss_pred HHHHHHHhccccCCcEEeeccccCCHHHHHhhcCCCCCCcceEEEEccccccceeeCCeEEEecCCcccccccccccCce
Confidence 99999987 468899999999999999999998 5779999999999999999999999999999999999999999
Q ss_pred cceecccCHhhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCC-CccccccCCCCcHH
Q 000854 470 VLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIR-DVQGFDFIDAPSAK 548 (1252)
Q Consensus 470 ~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~-~~~~f~~ldpP~~~ 548 (1252)
.|.+.||||+++.||+|||||++||+||+||+++++..|+.++.|||+|++|.+++|+++++|++ |+..|+|+|||+..
T Consensus 354 ~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~~~~~~t~PEIlrtdLs~~vL~l~~~G~~~d~~~f~fld~P~~~ 433 (845)
T COG1643 354 RLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFLAFPEFTLPEILRTDLSGLVLQLKSLGIGQDIAPFPFLDPPPEA 433 (845)
T ss_pred eeeEEEechhhhhhhccccccCCCceEEEecCHHHHHhcccCCChhhhhcchHHHHHHHHhcCCCCCcccCccCCCCChH
Confidence 99999999999999999999999999999999999999999999999999999999999999996 99999999999999
Q ss_pred HHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccC--ccccccCCchH
Q 000854 549 AIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANAS--SIFCRVGSDDE 626 (1252)
Q Consensus 549 ~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~--~~f~~~~~~~~ 626 (1252)
++..|++.|..+|||+.++ .||++|+.|+.||+||++|+|++.+..+||++++++|||+|+..+ +.|.+..+...
T Consensus 434 ~i~~A~~~L~~LGAld~~g---~LT~lG~~ms~lpldprLA~mLl~a~~~g~~~e~~~Ias~Ls~~~~~s~~~~~~~~~~ 510 (845)
T COG1643 434 AIQAALTLLQELGALDDSG---KLTPLGKQMSLLPLDPRLARMLLTAPEGGCLGEAATIASMLSEQDRESDFSRDVKLRK 510 (845)
T ss_pred HHHHHHHHHHHcCCcCCCC---CCCHHHHHHHhCCCChHHHHHHHhccccCcHHHHHHHHHhhccCCCcchhccccchhh
Confidence 9999999999999998776 699999999999999999999999999999999999999997654 14544433222
Q ss_pred -HHHHHhhh-hhhcC---CCCcHHHHHHHHHHHhcCCc----cchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccc
Q 000854 627 -KIKADCLK-VQFCH---RNGDLFTLLSVYREWDSLPR----EERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAII 697 (1252)
Q Consensus 627 -~~~a~~~~-~~f~~---~~gD~ltll~~y~~w~~~~~----~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~ 697 (1252)
+.+.+.++ .++.+ +.+||++++++|..|..... -...+||..+++++++|.++..++.++.....+-.+.+
T Consensus 511 ~~~~~~~~~~l~~~~~~~~~~d~~~ll~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~i~~~~l~~~~~~~~~~ 590 (845)
T COG1643 511 QRTAQDLLKRLKRRNAADPRGDHLLLLEAFPDRIARKRAKGEYLRANGCRAMLFPTKALSRAPWIIAALLVQTSALAGRI 590 (845)
T ss_pred HHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHHhhhccchhhHhcChhhhcCChhHHHhhHHHHHHHHHhhhccccch
Confidence 11233333 34545 68999999999999987321 14679999999999999999988888765543212222
Q ss_pred cCcc-ccCCC---------CCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEE
Q 000854 698 IPSY-WLWNP---------HKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVV 767 (1252)
Q Consensus 698 ~~~~-~~~n~---------~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVV 767 (1252)
.... ..++. ...+..++.+.+++++|+..|++.+..... .|.+..+++.+++||+|+ ......++|+.
T Consensus 591 ~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~l~a~~~~~~~~~~~~~~-~~~~~~~~~~v~~~~~~v-~~~~~~~~~~~ 668 (845)
T COG1643 591 LAAAEIDEDEWAAQHLPEHCYSEPIWDDIRGALAAGRKLNIAQLQLDGR-PYVTLSDNTPVFAHPSSV-RLGLVLLEWIK 668 (845)
T ss_pred hhhcccCcchhhhhhhhhhhccchhHHHHhhhhhhheecceeeeecccc-ccccCCCCceeEecchhH-hhcccCcchHH
Confidence 1100 00000 000113567889999999999998875443 377777889999999996 33667899999
Q ss_pred EEEecccccceee-----------eecccCHhhHhhhCC
Q 000854 768 FGELLSVNNQYLV-----------CVTAFDFDSLSTLCP 795 (1252)
Q Consensus 768 y~Elv~Tsk~Ylr-----------~vt~Id~~wL~~l~p 795 (1252)
|++.+.+++.|++ +++++..+||....+
T Consensus 669 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~wL~~~~~ 707 (845)
T COG1643 669 YAEFLRTRKGYLREGRGERWPDVQTLIELLKLWLKEQVK 707 (845)
T ss_pred HHHHHHHHHHHHhhcccccCcccchHhhhHHHhhhhhcc
Confidence 9999999999999 477788888866655
No 9
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.3e-96 Score=856.50 Aligned_cols=620 Identities=33% Similarity=0.481 Sum_probs=539.9
Q ss_pred HHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccC-----CeEEecCcHHHHHHHHHHHH
Q 000854 156 RECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAE-----QSIVCTQPRKIAAISLAQRV 230 (1252)
Q Consensus 156 ~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~-----~~ILv~qPrR~LA~qva~rv 230 (1252)
.++++.+..||+....+.|+++|..|+++||+|+||||||||+||||++.+++.. +.|.+|||||.+|+.+|+|+
T Consensus 246 ~EIQ~sR~~LPI~aeEq~IMEaIn~n~vvIIcGeTGsGKTTQvPQFLYEAGf~s~~~~~~gmIGITqPRRVAaiamAkRV 325 (1172)
T KOG0926|consen 246 AEIQESRLDLPIVAEEQRIMEAINENPVVIICGETGSGKTTQVPQFLYEAGFASEQSSSPGMIGITQPRRVAAIAMAKRV 325 (1172)
T ss_pred HHHHHHHhcCchhHHHHHHHHHhhcCCeEEEecCCCCCccccchHHHHHcccCCccCCCCCeeeecCchHHHHHHHHHHH
Confidence 4667778889999999999999999999999999999999999999999988754 48889999999999999999
Q ss_pred HHHhcCCCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc-
Q 000854 231 REESRGCYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR- 309 (1252)
Q Consensus 231 ~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~- 309 (1252)
+.+++. .+..|+|.++++....+.|.|.|||+|+|++.+++|..|.+|+.|||||||||++++|.+.+++.++..+|
T Consensus 326 a~EL~~--~~~eVsYqIRfd~ti~e~T~IkFMTDGVLLrEi~~DflL~kYSvIIlDEAHERSvnTDILiGmLSRiV~LR~ 403 (1172)
T KOG0926|consen 326 AFELGV--LGSEVSYQIRFDGTIGEDTSIKFMTDGVLLREIENDFLLTKYSVIILDEAHERSVNTDILIGMLSRIVPLRQ 403 (1172)
T ss_pred HHHhcc--CccceeEEEEeccccCCCceeEEecchHHHHHHHHhHhhhhceeEEechhhhccchHHHHHHHHHHHHHHHH
Confidence 999855 56789999999999999999999999999999999999999999999999999999999999998887654
Q ss_pred ---------CCCcEEeeccCCCHHHHH---hhhh-cCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhh
Q 000854 310 ---------FDLRLVIMSATADAHQLS---KYFY-DCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHT 376 (1252)
Q Consensus 310 ---------~~lqiIlmSATld~~~l~---~~f~-~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~ 376 (1252)
+.+++|+||||+-.+.|. ..|. .+|++.++.|+|||.++|..... .+|+.++.+....||+
T Consensus 404 k~~ke~~~~kpLKLIIMSATLRVsDFtenk~LFpi~pPlikVdARQfPVsIHF~krT~------~DYi~eAfrKtc~IH~ 477 (1172)
T KOG0926|consen 404 KYYKEQCQIKPLKLIIMSATLRVSDFTENKRLFPIPPPLIKVDARQFPVSIHFNKRTP------DDYIAEAFRKTCKIHK 477 (1172)
T ss_pred HHhhhhcccCceeEEEEeeeEEecccccCceecCCCCceeeeecccCceEEEeccCCC------chHHHHHHHHHHHHhh
Confidence 368999999999887776 3443 36799999999999999987643 6899999999999999
Q ss_pred cCCCCcEEEEeCCHHHHHHHHHHcCC------------------------------------------------------
Q 000854 377 TEKEGTILAFLTSKMEVEWACEKFDA------------------------------------------------------ 402 (1252)
Q Consensus 377 ~~~~g~iLVFl~s~~eie~la~~L~~------------------------------------------------------ 402 (1252)
..+.|.||||++++.+++.+++.|++
T Consensus 478 kLP~G~ILVFvTGQqEV~qL~~kLRK~~p~~f~~~k~~k~~k~~~e~k~~~s~~~~~~k~~dfe~Ed~~~~~ed~d~~~~ 557 (1172)
T KOG0926|consen 478 KLPPGGILVFVTGQQEVDQLCEKLRKRFPESFGGVKMKKNVKAFKELKENPSDIGDSNKTDDFEEEDMYESDEDIDQELV 557 (1172)
T ss_pred cCCCCcEEEEEeChHHHHHHHHHHHhhCccccccchhhhhhhhccccccchhhhccCcccccchhcccccchhhhhhhhh
Confidence 99999999999999999999988753
Q ss_pred ---------------------------------------------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEec
Q 000854 403 ---------------------------------------------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFAT 436 (1252)
Q Consensus 403 ---------------------------------------------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVAT 436 (1252)
....|+|||+-|+.++|.+||+.. .|.+-+||||
T Consensus 558 ~~~~~~~raa~~~~~De~~~~nge~e~d~~e~~~E~~~~~~~~~~~pLyvLPLYSLLs~~~Q~RVF~~~p~g~RLcVVaT 637 (1172)
T KOG0926|consen 558 DSGFASLRAAFNALADENGSVNGEPEKDESEEGQEAEQGKGKFSPGPLYVLPLYSLLSTEKQMRVFDEVPKGERLCVVAT 637 (1172)
T ss_pred cccchhhhhhhhccccccccccCCcccchhhhchhhhhccCCCCCCceEEeehhhhcCHHHhhhhccCCCCCceEEEEec
Confidence 013489999999999999999998 7999999999
Q ss_pred hhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc-cCCCCCCcc
Q 000854 437 NVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE-TRPLNQEPE 515 (1252)
Q Consensus 437 niae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~-~~~~~~~PE 515 (1252)
|+||+++|||+|+||||+|+.|+..||..+|++.+.+.|||++++.||+|||||+|||+||+||+..-|+ .++++..||
T Consensus 638 NVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgpGHcYRLYSSAVf~~~Fe~fS~PE 717 (1172)
T KOG0926|consen 638 NVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGPGHCYRLYSSAVFSNDFEEFSLPE 717 (1172)
T ss_pred cchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCCCceeehhhhHHhhcchhhhccHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998 699999999
Q ss_pred ccccchHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHH
Q 000854 516 IHRVHLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSC 595 (1252)
Q Consensus 516 I~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~ 595 (1252)
|++.+.++++|++++|+|+++.+|||.+||++.+++.|.+.|..+|||+.+| .||+||+.|+.+|+.|++||||+.+
T Consensus 718 Ilk~Pve~lvLqMKsMnI~kVvnFPFPtpPd~~~L~~Aer~L~~LgALd~~g---~lT~lGk~mS~FPlsPrfsKmL~~~ 794 (1172)
T KOG0926|consen 718 ILKKPVESLVLQMKSMNIDKVVNFPFPTPPDRSALEKAERRLKALGALDSNG---GLTKLGKAMSLFPLSPRFSKMLATS 794 (1172)
T ss_pred HhhCcHHHHHHHHHhcCccceecCCCCCCccHHHHHHHHHHHHHhccccccC---CcccccchhcccccChhHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999866 7999999999999999999999999
Q ss_pred hhccchhhHHHHHHHhhccCccccc------------cCCch------------------HHHHHHhhhhhhcCCCCcHH
Q 000854 596 FRRRLGREGLVLAAVMANASSIFCR------------VGSDD------------------EKIKADCLKVQFCHRNGDLF 645 (1252)
Q Consensus 596 ~~~~c~~~~l~IaA~ls~~~~~f~~------------~~~~~------------------~~~~a~~~~~~f~~~~gD~l 645 (1252)
.+++|+.-.+.++++|+... +|.. ..+++ .+.....++.+|...++|-|
T Consensus 795 ~Q~~~lpy~i~lvsaLsv~e-~~i~~~~ll~n~~~r~~~~eE~d~~~~de~~~d~~~K~~rr~~~~aa~~rf~~l~sd~l 873 (1172)
T KOG0926|consen 795 DQHNLLPYNIALVSALSVYE-VLIVAASLLPNPLIREFEPEEKDLIKDDETVEDKELKKRRREKSKAARSRFSNLDSDAL 873 (1172)
T ss_pred HhhcchhHHHHHHHHHhccc-hhhhhhhcccccccccCCcchhhccccccccccHHHHHHHHHHHHHHHhhhccCCccHH
Confidence 99999999999999987543 3321 11111 01122224556777889999
Q ss_pred HHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccCCCC--CC-cccHHHHHHHHHH
Q 000854 646 TLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLWNPH--KY-TEYDKWLKEIILS 722 (1252)
Q Consensus 646 tll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~n~~--~~-~~~~~~i~~~L~a 722 (1252)
+++.+..+++. ..+...||..|||..++|.++.++|.||..++.+..--.... .|+.. .+ ..+...+++.|||
T Consensus 874 ~Ll~Av~a~ey--~~~~~rfc~~ngLr~Kam~Ev~KLR~QL~~lv~~~~i~~v~~--~~d~~l~ppt~~q~~lLrQ~i~A 949 (1172)
T KOG0926|consen 874 VLLSAVSAAEY--AENGMRFCEANGLRLKAMEEVRKLRKQLTNLVNHGNIQDVEK--SWDLTLKPPTDTQAKLLRQMICA 949 (1172)
T ss_pred HHHHHHHHHHh--hhhcchhHHhcchHHHHHHHHHHHHHHHHHHHHHhHHHHHHH--hcccCCCCCchHHHHHHHHHHHH
Confidence 99999988877 344455999999999999999999999988775311000000 12211 11 2344678999999
Q ss_pred hcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccccceeee-ecccCHhhHhhhCC
Q 000854 723 ALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVNNQYLVC-VTAFDFDSLSTLCP 795 (1252)
Q Consensus 723 gf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Tsk~Ylr~-vt~Id~~wL~~l~p 795 (1252)
||.++||++... .-|....-+.++||||+|+| ++..|+||+|.|++.|.+.||.+ +|.|+|+||..+++
T Consensus 950 g~~DrVArk~~~--~~y~~~~i~~~~fl~~~svl--~~~ape~viY~el~~~~~~~~~~~v~~v~pewl~~~~~ 1019 (1172)
T KOG0926|consen 950 GFADRVARKVDA--TEYDAAKIQEPVFLHRWSVL--INSAPELVIYQELLLTNRPYMHGGVTAVRPEWLLNHAK 1019 (1172)
T ss_pred HHHHHHHHhccc--cccchhhhcCceeeeehhhh--hccCccceehhhhhhcCCcccccceEEEchHHHHhhhh
Confidence 999999986422 12666667789999999999 88999999999999999887775 99999999977654
No 10
>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=100.00 E-value=1.5e-82 Score=799.54 Aligned_cols=590 Identities=31% Similarity=0.437 Sum_probs=488.1
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
||++.++.+|++++.++++++++|+|||||||++|+++++... .+++|+|++|||++|.|++++++++++ ...+..||
T Consensus 1 LPi~~~~~~i~~~l~~~~~vIi~a~TGSGKTT~vpl~lL~~~~-~~~~ilvlqPrR~aA~qiA~rva~~~~-~~~g~~VG 78 (819)
T TIGR01970 1 LPIHAVLPALRDALAAHPQVVLEAPPGAGKSTAVPLALLDAPG-IGGKIIMLEPRRLAARSAAQRLASQLG-EAVGQTVG 78 (819)
T ss_pred CCchHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHHhhc-cCCeEEEEeCcHHHHHHHHHHHHHHhC-CCcCcEEE
Confidence 7999999999999999999999999999999999999998753 456999999999999999999998874 44567899
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh-ccCCCcEEeeccCCCH
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC-RRFDLRLVIMSATADA 323 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-~~~~lqiIlmSATld~ 323 (1252)
|..+++...+.+++|+|+|||+|++++++++.++++++|||||+|||++++|+.+++++.+.. .++++|+|+||||++.
T Consensus 79 y~vr~~~~~s~~t~I~v~T~G~Llr~l~~d~~L~~v~~VIiDEaHER~L~~Dl~L~ll~~i~~~lr~dlqlIlmSATl~~ 158 (819)
T TIGR01970 79 YRVRGENKVSRRTRLEVVTEGILTRMIQDDPELDGVGALIFDEFHERSLDADLGLALALDVQSSLREDLKILAMSATLDG 158 (819)
T ss_pred EEEccccccCCCCcEEEECCcHHHHHHhhCcccccCCEEEEeccchhhhccchHHHHHHHHHHhcCCCceEEEEeCCCCH
Confidence 988888887788999999999999999999999999999999999999999999988877654 6789999999999999
Q ss_pred HHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchH-HHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC
Q 000854 324 HQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYV-SDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA 402 (1252)
Q Consensus 324 ~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~-~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~ 402 (1252)
+.+.+||.+++++.++|+.+||+++|.+... ..+. ..+...+..++. ...|++|||+||+.+++.+++.|.+
T Consensus 159 ~~l~~~l~~~~vI~~~gr~~pVe~~y~~~~~------~~~~~~~v~~~l~~~l~-~~~g~iLVFlpg~~eI~~l~~~L~~ 231 (819)
T TIGR01970 159 ERLSSLLPDAPVVESEGRSFPVEIRYLPLRG------DQRLEDAVSRAVEHALA-SETGSILVFLPGQAEIRRVQEQLAE 231 (819)
T ss_pred HHHHHHcCCCcEEEecCcceeeeeEEeecch------hhhHHHHHHHHHHHHHH-hcCCcEEEEECCHHHHHHHHHHHHh
Confidence 9999999999999999999999999987532 1122 222334444443 3468999999999999999999976
Q ss_pred ---CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCH
Q 000854 403 ---PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQ 478 (1252)
Q Consensus 403 ---~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSk 478 (1252)
.++.+.++||+|++++|.++++.| +|+++||||||+||+|||||+|++|||+|+++...|||.++++.|.+.|||+
T Consensus 232 ~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~rkVlVATnIAErgItIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iSk 311 (819)
T TIGR01970 232 RLDSDVLICPLYGELSLAAQDRAIKPDPQGRRKVVLATNIAETSLTIEGIRVVIDSGLARVARFDPKTGITRLETVRISQ 311 (819)
T ss_pred hcCCCcEEEEecCCCCHHHHHHHHhhcccCCeEEEEecchHhhcccccCceEEEEcCcccccccccccCCceeeEEEECH
Confidence 578999999999999999999999 8999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHHH
Q 000854 479 SSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNLV 558 (1252)
Q Consensus 479 asy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L~ 558 (1252)
++|.||+|||||.++|.||+||+++++..|.+++.|||+|++|++++|.++++|+.++..|+|+|||+.+++..|++.|.
T Consensus 312 asa~QR~GRAGR~~~G~cyrL~t~~~~~~l~~~~~PEI~r~~L~~~~L~l~~~g~~~~~~~~~l~~P~~~~i~~a~~~L~ 391 (819)
T TIGR01970 312 ASATQRAGRAGRLEPGVCYRLWSEEQHQRLPAQDEPEILQADLSGLALELAQWGAKDPSDLRWLDAPPSVALAAARQLLQ 391 (819)
T ss_pred HHHHhhhhhcCCCCCCEEEEeCCHHHHHhhhcCCCcceeccCcHHHHHHHHHcCCCChhhCCCCCCcCHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCchHHHHHHhhhhhhc
Q 000854 559 QLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSDDEKIKADCLKVQFC 638 (1252)
Q Consensus 559 ~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~~f~ 638 (1252)
.+||||.++ .||++|+.|+.||+||++||||+.|..+||.+++++|||+|+..+ ++ .
T Consensus 392 ~lgald~~~---~lT~~G~~~~~lp~~p~l~~~ll~~~~~~~~~~~~~iaa~ls~~~-~~---~---------------- 448 (819)
T TIGR01970 392 RLGALDAQG---RLTAHGKAMAALGCHPRLAAMLLSAHSTGLAALACDLAALLEERG-LP---R---------------- 448 (819)
T ss_pred HCCCCCCCC---CcCHHHHHHHhcCCCHHHHHHHHHhhhcCCHHHHHHHHHHHcCCC-CC---C----------------
Confidence 999998766 799999999999999999999999999999999999999997543 22 0
Q ss_pred CCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccc-cCccccCCCCCCcccHHHHH
Q 000854 639 HRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAII-IPSYWLWNPHKYTEYDKWLK 717 (1252)
Q Consensus 639 ~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~-~~~~~~~n~~~~~~~~~~i~ 717 (1252)
...+|+...+..++.. . ...| +.+++...|+.+. ++.. ... .+ ...+ .+.
T Consensus 449 ~~~~d~~~~~~~~~~~----~---~~~~----------~~~~~~~~~~~~~----~~~~~~~~----~~--~~~~--~~g 499 (819)
T TIGR01970 449 QGGADLMNRLHRLQQG----R---QGRG----------QRAQQLAKKLRRR----LRFSQADS----GA--IASH--ALG 499 (819)
T ss_pred CCcccHHHHHHHHhhc----c---hhhH----------HHHHHHHHHHHHH----hCcCcCCC----cc--cccc--hHh
Confidence 0136776666655321 0 1111 1223344444332 2211 000 00 0011 256
Q ss_pred HHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEeccc---ccceeeeecccCHhhHhhhC
Q 000854 718 EIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSV---NNQYLVCVTAFDFDSLSTLC 794 (1252)
Q Consensus 718 ~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~T---sk~Ylr~vt~Id~~wL~~l~ 794 (1252)
.+++.||.++||+..+... .| ...+|+.+.++|.|.| . ..+|++..|+..+ ....++.+++|+++|+...+
T Consensus 500 ~lla~a~pdria~~r~~~~-~y-~l~~G~~~~l~~~~~l--~--~~~~l~~a~~~~~~~~~~~~i~~a~~i~~~~~~~~~ 573 (819)
T TIGR01970 500 LLLALAFPDRIAKRRGQPG-RY-QLANGRGAVLSAEDAL--A--REPWLVAADLGEGQGKTAARILLAAPVDEALLRQVL 573 (819)
T ss_pred HHHhhhChHhheeccCCCC-eE-ECCCCCeeEeCCCCcc--c--CCCeEEEEEeeccCCccccceeeeccCCHHHHHHHh
Confidence 6889999999998764332 24 6679999999999988 2 4589999999744 24578899999999999888
Q ss_pred CCCccc---cccccc--ccceeeeecccchhHH
Q 000854 795 PSPLFD---VSMMER--KKLHVRVITGFGSILL 822 (1252)
Q Consensus 795 p~~~~~---~s~~~~--~k~~~~~it~~~~~~l 822 (1252)
+ +.+. .-.|.+ .++..+..+-+|.+.+
T Consensus 574 ~-~~~~~~~~~~wd~~~~~v~a~~~~~~g~l~l 605 (819)
T TIGR01970 574 P-DLVVQVDQVDWDETKGRLVAERQLRIGQLVL 605 (819)
T ss_pred H-HHceEEEEEEEecCCCeEEEEEEEEECcEEE
Confidence 7 3332 224543 3444455555555544
No 11
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=100.00 E-value=4.8e-82 Score=796.75 Aligned_cols=581 Identities=31% Similarity=0.452 Sum_probs=480.0
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 164 GLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
.||++....+|++++.++++++++|||||||||++|+++++.... .++|+|++|||++|.|++++++++++ ...+..+
T Consensus 3 ~LPi~~~~~~i~~~l~~~~~vvv~A~TGSGKTt~~pl~lL~~~~~-~~~ilvlqPrR~aA~qia~rva~~l~-~~~g~~V 80 (812)
T PRK11664 3 SLPVAAVLPELLTALKTAPQVLLKAPTGAGKSTWLPLQLLQHGGI-NGKIIMLEPRRLAARNVAQRLAEQLG-EKPGETV 80 (812)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEEEcCCCCCHHHHHHHHHHHcCCc-CCeEEEECChHHHHHHHHHHHHHHhC-cccCceE
Confidence 499999999999999999999999999999999999999987543 35899999999999999999998874 3456789
Q ss_pred EEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh-ccCCCcEEeeccCCC
Q 000854 244 ICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC-RRFDLRLVIMSATAD 322 (1252)
Q Consensus 244 g~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-~~~~lqiIlmSATld 322 (1252)
||..+++...+.+++|+|+|||+|+++++.++.++++++|||||+|||++++|+.+++++.+.. .++++|+|+||||++
T Consensus 81 Gy~vr~~~~~~~~t~I~v~T~G~Llr~l~~d~~L~~v~~IIlDEaHER~l~~Dl~L~ll~~i~~~lr~~lqlilmSATl~ 160 (812)
T PRK11664 81 GYRMRAESKVGPNTRLEVVTEGILTRMIQRDPELSGVGLVILDEFHERSLQADLALALLLDVQQGLRDDLKLLIMSATLD 160 (812)
T ss_pred EEEecCccccCCCCcEEEEChhHHHHHHhhCCCcCcCcEEEEcCCCccccccchHHHHHHHHHHhCCccceEEEEecCCC
Confidence 9988888887788999999999999999999999999999999999999999999888876654 578999999999999
Q ss_pred HHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHH-HHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC
Q 000854 323 AHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVS-DVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFD 401 (1252)
Q Consensus 323 ~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~-~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~ 401 (1252)
.+.+++||.+++++.++|+.+|++.+|.+... ..+.. .....+..++. ...|++|||+||+.+++.+++.|.
T Consensus 161 ~~~l~~~~~~~~~I~~~gr~~pV~~~y~~~~~------~~~~~~~v~~~l~~~l~-~~~g~iLVFlpg~~ei~~l~~~L~ 233 (812)
T PRK11664 161 NDRLQQLLPDAPVIVSEGRSFPVERRYQPLPA------HQRFDEAVARATAELLR-QESGSLLLFLPGVGEIQRVQEQLA 233 (812)
T ss_pred HHHHHHhcCCCCEEEecCccccceEEeccCch------hhhHHHHHHHHHHHHHH-hCCCCEEEEcCCHHHHHHHHHHHH
Confidence 99999999989999999999999999986532 12222 22233444443 347999999999999999999998
Q ss_pred C---CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccC
Q 000854 402 A---PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVS 477 (1252)
Q Consensus 402 ~---~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iS 477 (1252)
+ .++.+.++||+|++++|.++++.| +|+++||||||++|+|||||+|++|||+|+++...|||.+|++.|.+.|||
T Consensus 234 ~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~rkVlvATnIAErsLtIp~V~~VID~Gl~r~~~yd~~~g~~~L~~~~iS 313 (812)
T PRK11664 234 SRVASDVLLCPLYGALSLAEQQKAILPAPAGRRKVVLATNIAETSLTIEGIRLVVDSGLERVARFDPKTGLTRLVTQRIS 313 (812)
T ss_pred HhccCCceEEEeeCCCCHHHHHHHhccccCCCeEEEEecchHHhcccccCceEEEECCCcccccccccCCcceeEEEeec
Confidence 6 578899999999999999999999 899999999999999999999999999999999999999999999999999
Q ss_pred HhhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCccccccCCCCcHHHHHHHHHHH
Q 000854 478 QSSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGFDFIDAPSAKAIEMAIRNL 557 (1252)
Q Consensus 478 kasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f~~ldpP~~~~l~~Al~~L 557 (1252)
+++|.||+|||||.++|.||+||++++++.+++++.|||+|++|++++|.++++|+.++..|+|+|||+..++.+|++.|
T Consensus 314 kasa~QR~GRaGR~~~G~cyrL~t~~~~~~l~~~~~PEI~r~dL~~~~L~l~~~g~~~~~~~~~ld~P~~~~~~~A~~~L 393 (812)
T PRK11664 314 QASMTQRAGRAGRLEPGICLHLYSKEQAERAAAQSEPEILHSDLSGLLLELLQWGCHDPAQLSWLDQPPAAALAAAKRLL 393 (812)
T ss_pred hhhhhhhccccCCCCCcEEEEecCHHHHhhCccCCCCceeccchHHHHHHHHHcCCCCHHhCCCCCCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchh--hHHHHHHHhhccCccccccCCchHHHHHHhhhh
Q 000854 558 VQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGR--EGLVLAAVMANASSIFCRVGSDDEKIKADCLKV 635 (1252)
Q Consensus 558 ~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~--~~l~IaA~ls~~~~~f~~~~~~~~~~~a~~~~~ 635 (1252)
..+||||.++ .||++|+.|+.||+||++||||+.+..+||.. .++.+||+++.. +. +
T Consensus 394 ~~lgald~~g---~lT~~G~~m~~lp~~Prla~~ll~a~~~~~~~l~~a~~laall~e~-~~----~------------- 452 (812)
T PRK11664 394 QQLGALDGQG---RLTARGRKMAALGNDPRLAAMLVAAKEDDEAALATAAKLAAILEEP-PR----S------------- 452 (812)
T ss_pred HHCCCCCCCC---CcCHHHHHHHhcCCchHHHHHHHHHHhcCchhhHHHHHHHHhhccC-CC----C-------------
Confidence 9999998765 79999999999999999999999999988543 455556555321 10 0
Q ss_pred hhcCCCCcHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccccCCCCCCcccHHH
Q 000854 636 QFCHRNGDLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYWLWNPHKYTEYDKW 715 (1252)
Q Consensus 636 ~f~~~~gD~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~~~n~~~~~~~~~~ 715 (1252)
..+|+...+..+. ..|+ +.++.+.+|+.. ..+ . . ....
T Consensus 453 ----~~~d~~~~l~~~~----------~~~~----------~~~~~~~~~~~~----~~~---~-------~----~~~~ 490 (812)
T PRK11664 453 ----GSSDLGVALSRKQ----------PHWQ----------QRAQQLLKRLNV----RGG---E-------A----DSSL 490 (812)
T ss_pred ----CcccHHHHHHHHH----------HHHH----------HHHHHHHHHHHh----hcc---c-------C----ChHH
Confidence 0245444343221 1232 223333334321 111 0 0 1134
Q ss_pred HHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCCCCCEEEEEEecccc-c--ceeeeecccCHhhHhh
Q 000854 716 LKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQKPTWVVFGELLSVN-N--QYLVCVTAFDFDSLST 792 (1252)
Q Consensus 716 i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~~PewVVy~Elv~Ts-k--~Ylr~vt~Id~~wL~~ 792 (1252)
+..+|+.||+++||++.+.. +++.+.+|+.+++||+|+| . ..+|+++.|+..++ + ..++.+++|+++||.+
T Consensus 491 ~~~~la~aypdriA~~r~~~--~~~~l~~G~~a~l~~~~~l--~--~~~~lv~a~~~~~~~~~~~ri~~a~~l~~~~l~~ 564 (812)
T PRK11664 491 IAPLLALAFPDRIARRRGQD--GRYQLANGMGAMLDADDAL--S--RHEWLIAPLLLQGSASPDARILLALPLDIDELVQ 564 (812)
T ss_pred HHHHHHHHCHHHHhhhcCCC--CeEEeeCCCeEEECCCCcc--c--CCCeEEEEEhhccCccccceeeEeeccCHHHHHH
Confidence 78899999999999976433 4667789999999999998 3 35899999997653 3 4577999999999999
Q ss_pred hCCCCccccc--ccc--cccceeeeecccchhHH
Q 000854 793 LCPSPLFDVS--MME--RKKLHVRVITGFGSILL 822 (1252)
Q Consensus 793 l~p~~~~~~s--~~~--~~k~~~~~it~~~~~~l 822 (1252)
+++..+-... .|. +.++..+..+-+|.+++
T Consensus 565 ~~~~~~~~~~~~~~d~~~~~v~a~~~~~~g~lvl 598 (812)
T PRK11664 565 RCPQLVQQSDTVEWDEAKGTLRAWRRLQIGQLTV 598 (812)
T ss_pred HHHHhceeeeEEEEecCCCeEEEEEEEEECcEEE
Confidence 8883222111 343 23444455555555544
No 12
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=100.00 E-value=2.9e-55 Score=519.01 Aligned_cols=675 Identities=25% Similarity=0.353 Sum_probs=527.7
Q ss_pred cHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccccc----CCeEEecCcHHHHHHHH
Q 000854 151 QAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAA----EQSIVCTQPRKIAAISL 226 (1252)
Q Consensus 151 ~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~----~~~ILv~qPrR~LA~qv 226 (1252)
..+.+..+...+..+|+...+..|..++..+++++|.++||+|||||+.|+|++.-... ...+.+.+|||+.|+++
T Consensus 363 ~d~e~~~~~a~re~lpva~~~~~i~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisi 442 (1282)
T KOG0921|consen 363 RDEALDKITAQREELPVAQYRSEILQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISL 442 (1282)
T ss_pred cccchhhhhhhhhhCcHHHHHHHHHHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHH
Confidence 34456667778889999999999999999999999999999999999999999864332 33688999999999999
Q ss_pred HHHHHHHhcCCCCCceEEEecCCCcccc-CCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHH
Q 000854 227 AQRVREESRGCYEDDSVICYPSFSSAQH-FDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDL 305 (1252)
Q Consensus 227 a~rv~~~~~~~~~~~~vg~~~~~~~~~~-~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l 305 (1252)
+++++.+... ..+..+||..++++... +..-|.+||-|.+++++.+. +..++++|+||.|||..++||++.+++.+
T Consensus 443 aerva~er~e-~~g~tvgy~vRf~Sa~prpyg~i~fctvgvllr~~e~g--lrg~sh~i~deiherdv~~dfll~~lr~m 519 (1282)
T KOG0921|consen 443 AERVANERGE-EVGETCGYNVRFDSATPRPYGSIMFCTVGVLLRMMENG--LRGISHVIIDEIHERDVDTDFVLIVLREM 519 (1282)
T ss_pred HHHHHHhhHH-hhcccccccccccccccccccceeeeccchhhhhhhhc--ccccccccchhhhhhccchHHHHHHHHhh
Confidence 9999999744 45678999899888754 45679999999999998765 67889999999999999999999999999
Q ss_pred HhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCC----------C--------------CC----
Q 000854 306 LCRRFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCAT----------A--------------GT---- 357 (1252)
Q Consensus 306 ~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~----------s--------------~~---- 357 (1252)
....+++++++||||+|.+.|..||..+|...+.|+++|+..+|..+.. + ..
T Consensus 520 ~~ty~dl~v~lmsatIdTd~f~~~f~~~p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~ 599 (1282)
T KOG0921|consen 520 ISTYRDLRVVLMSATIDTDLFTNFFSSIPDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGR 599 (1282)
T ss_pred hccchhhhhhhhhcccchhhhhhhhccccceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhccc
Confidence 9999999999999999999999999999999999999998754432211 0 00
Q ss_pred --cc-cc-----------------chHHHHH-HHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC-------CCCeeEe
Q 000854 358 --SA-VA-----------------SYVSDVV-RMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA-------PSAVALP 409 (1252)
Q Consensus 358 --~~-~~-----------------~~~~~~~-~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~-------~~~~v~~ 409 (1252)
+. .. +....+. .++..+....-.|.|+||+++...+..++..+.. ....+++
T Consensus 600 n~n~~~dd~~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp 679 (1282)
T KOG0921|consen 600 NMNILCDPSYNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILP 679 (1282)
T ss_pred ccccccChhhcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhccchhccccc
Confidence 00 00 0001111 2223333344579999999999999999887753 3467999
Q ss_pred ecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhccc
Q 000854 410 FHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRA 488 (1252)
Q Consensus 410 LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRA 488 (1252)
+|+.++..++.+|++.. .|..++|++|++++++|+|.++++|||.+..+...|-..+.+....+.|.|+-+..||.||+
T Consensus 680 ~Hsq~~~~eqrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~ 759 (1282)
T KOG0921|consen 680 LHSQLTSQEQRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRA 759 (1282)
T ss_pred chhhcccHhhhhccCcccccccccccccceeeEeeeecceeEEEeeeeeeeeeeccccceeeeeeecccccchHhhcccC
Confidence 99999999999999998 69999999999999999999999999999999999988899999999999999999999999
Q ss_pred CCCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCcccc--ccCCCCcHHHHHHHHHHHHHcCccccc
Q 000854 489 GRTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGF--DFIDAPSAKAIEMAIRNLVQLGAIKLN 566 (1252)
Q Consensus 489 GR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f--~~ldpP~~~~l~~Al~~L~~lgal~~~ 566 (1252)
||.++|.|+++.+...|+.+.++-.||+.|.++.+..|.+|-+-+..+..| ..+.||+.+++..+-..|..++++|.+
T Consensus 760 grvR~G~~f~lcs~arF~~l~~~~t~em~r~plhemalTikll~l~SI~~fl~kal~~~p~dav~e~e~~l~~m~~ld~n 839 (1282)
T KOG0921|consen 760 GRVRPGFCFHLCSRARFEALEDHGTAEMFRTPLHEIALTIKLLRLGSIGEFLGKALQPPPYDAVIEAEAVLREMGALDAN 839 (1282)
T ss_pred ceecccccccccHHHHHHHHHhcCcHhhhcCccHHHHhhHHHHHhhhHHHHHhhccCCCchhhccCchHHHHHhhhhhcc
Confidence 999999999999999999999999999999999999998888776667666 679999999999999999999999987
Q ss_pred CCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccc-cCC--chHHHHHHhhhhhhcC-CCC
Q 000854 567 NGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCR-VGS--DDEKIKADCLKVQFCH-RNG 642 (1252)
Q Consensus 567 ~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~-~~~--~~~~~~a~~~~~~f~~-~~g 642 (1252)
+ .+|++|+.++++|+.|+++|+++.+.-++|.+-++..|+.+++..+.|.+ +.. .+.+++ .-+..+|++ --+
T Consensus 840 ~---elt~lg~~la~l~iep~~~k~~~lg~~~g~~~~m~~~as~~s~~~~~~~~~~~~~rl~g~q~-~~~g~kfsdhva~ 915 (1282)
T KOG0921|consen 840 D---ELTPLGRMLARLPIEPRIGKMMILGTALGAGSVMCDVASAMSFPTPFVPREKHHSRLSGTQR-KFAGNKFSDHVAI 915 (1282)
T ss_pred C---cccchhhhhhhccCcccccceeeechhhccchhhhhhhcccccccccccccccccccccchh-hccccccccchhh
Confidence 6 79999999999999999999999999999999999999888765544422 111 111111 111223322 134
Q ss_pred cHHHHHHHHHHHhcCCccchhhhHhhccCCHHHHHHHHHHHHHHHHHHHHhhccccCccc--cCCCCCCcccHHHHHHHH
Q 000854 643 DLFTLLSVYREWDSLPREERNKWCWENSVNAKSLRRCQDTIKELETCLEKELAIIIPSYW--LWNPHKYTEYDKWLKEII 720 (1252)
Q Consensus 643 D~ltll~~y~~w~~~~~~~~~~wC~~n~Ls~~~L~~i~~~r~QL~~~L~~elg~~~~~~~--~~n~~~~~~~~~~i~~~L 720 (1252)
||.+++..++.|.. ....+.||...+++...|+.....+.|+...|+ ..+|..---. .-|.+....+.......|
T Consensus 916 ~~v~q~~r~~~q~g--a~~e~efc~r~~l~~~~~~~t~~a~~ql~d~L~-q~~fpe~~~~~~~v~~ng~d~~l~~~~~lL 992 (1282)
T KOG0921|consen 916 VSVIQGYREAVQMG--AAAEREFCERYSLSNPVLKMTDGARRQLIDVLR-QCSFPEDILFDISVNVNGPDRELNLMRSLL 992 (1282)
T ss_pred hhhhhhhHHHhhhh--hhhhhhHhHhhhhcchhhhhhhhhHHHHHHHHH-hccCccccccceeeccCCCCchhHHHHHHH
Confidence 55556666666655 345678999999999999999999999999886 5554321100 112222223334567889
Q ss_pred HHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccccCC-----CCCEEEEEEecccccceeeeecccCHhhHhhhCC
Q 000854 721 LSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLIFGQ-----KPTWVVFGELLSVNNQYLVCVTAFDFDSLSTLCP 795 (1252)
Q Consensus 721 ~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~f~~-----~PewVVy~Elv~Tsk~Ylr~vt~Id~~wL~~l~p 795 (1252)
+.++|||+|.+....+ ..+..+...-||-.|++..|+. ..++.||.|.+.|.-.-.+..|.|.|-.|..++.
T Consensus 993 ~~~lypn~~~y~ekrk---vLtTe~~~alihk~Svncp~S~qdM~fPsPFFVFGEKIRTRAIS~K~MslVsPLQLLLF~S 1069 (1282)
T KOG0921|consen 993 VMALYPNVAYYVEKRK---VLTTEQSSALIHKYSVNCPNSRQEMDFPSPFFVFGEKIRTRAISCKQMSLVSPLQLLLFGS 1069 (1282)
T ss_pred HhhcCCccceecccee---EEeecchhhhhhhhcccCCCcccccCCCCceeeechhhhhheecccCccccChHHHhhhhh
Confidence 9999999998754322 2334566778888888765543 3589999999998766666678888888877766
Q ss_pred CCcccccccccccceeeeecccchhHH-HHhhccCCcchHHHHHHHHHhhhhhhhheee
Q 000854 796 SPLFDVSMMERKKLHVRVITGFGSILL-KKFCGKSNSNVLSLVSRLRSTFMDERIGIEV 853 (1252)
Q Consensus 796 ~~~~~~s~~~~~k~~~~~it~~~~~~l-~~~~g~~~~~~~~li~~LR~~~ld~~i~~~l 853 (1252)
+|++. .+-|...+ +|.--.++-+.+.-|--||.. |...+-+-.
T Consensus 1070 -----------rKVqs---dgq~IV~VDdWIklqIshEaAAcItgLr~A-mEaLvvev~ 1113 (1282)
T KOG0921|consen 1070 -----------RKVQS---DGQGIVRVDDWIKLQISHEAAACITGLRPA-MEALVVEVC 1113 (1282)
T ss_pred -----------hhccc---cCcceEEeeceeeEeccHHHHHHHhhhHHH-HHHHHHHHh
Confidence 23221 11122222 244455777777788899988 777665555
No 13
>PHA02653 RNA helicase NPH-II; Provisional
Probab=100.00 E-value=1.3e-53 Score=526.66 Aligned_cols=396 Identities=20% Similarity=0.248 Sum_probs=302.7
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc-----c---------ccCCeEEecCcHHHHHHHHHHHH
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG-----I---------AAEQSIVCTQPRKIAAISLAQRV 230 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~-----~---------~~~~~ILv~qPrR~LA~qva~rv 230 (1252)
++..+|+ +++..+..+++++++|+||||||+|+||++++.. + ....+|+|++|||+||.|++.++
T Consensus 164 ~~~~iQ~-qil~~i~~gkdvIv~A~TGSGKTtqvPq~l~~~~flf~~l~~l~~~~~~~~~~~ilvt~PrreLa~qi~~~i 242 (675)
T PHA02653 164 LQPDVQL-KIFEAWISRKPVVLTGGTGVGKTSQVPKLLLWFNYLFGGFDNLDKIDPNFIERPIVLSLPRVALVRLHSITL 242 (675)
T ss_pred hhHHHHH-HHHHHHHhCCCEEEECCCCCCchhHHHHHHHHhhhccchhhhhhhcccccCCcEEEEECcHHHHHHHHHHHH
Confidence 3445555 4555556666777799999999999999997631 1 12458999999999999999999
Q ss_pred HHHhcCCC-CCceEEE-ecCCC----ccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHH
Q 000854 231 REESRGCY-EDDSVIC-YPSFS----SAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKD 304 (1252)
Q Consensus 231 ~~~~~~~~-~~~~vg~-~~~~~----~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~ 304 (1252)
.+..+... .+..+.. +.... .......+|+++|++.. .+.++++++|||||||||+.++|+++++++.
T Consensus 243 ~~~vg~~~~~g~~v~v~~Gg~~~~~~~t~~k~~~Ilv~T~~L~------l~~L~~v~~VVIDEaHEr~~~~DllL~llk~ 316 (675)
T PHA02653 243 LKSLGFDEIDGSPISLKYGSIPDELINTNPKPYGLVFSTHKLT------LNKLFDYGTVIIDEVHEHDQIGDIIIAVARK 316 (675)
T ss_pred HHHhCccccCCceEEEEECCcchHHhhcccCCCCEEEEeCccc------ccccccCCEEEccccccCccchhHHHHHHHH
Confidence 88663211 1111111 11111 11223468999998742 2468899999999999999999999998876
Q ss_pred HHhccCCCcEEeeccCCC--HHHHHhhhhcCCeEEEeccc-ceeEEEEecCCCCCCccccchHHH-HHHHHHHhhh--cC
Q 000854 305 LLCRRFDLRLVIMSATAD--AHQLSKYFYDCGISHVVGRN-FPVDVRYVPCATAGTSAVASYVSD-VVRMVGEVHT--TE 378 (1252)
Q Consensus 305 l~~~~~~lqiIlmSATld--~~~l~~~f~~~~vi~i~gr~-~pV~i~y~~~~~s~~~~~~~~~~~-~~~~l~~i~~--~~ 378 (1252)
+... ..|+++||||++ .+.+.+||.+++.+.++|++ +|++.+|.+...... ....+... ....+..+.. ..
T Consensus 317 ~~~~--~rq~ILmSATl~~dv~~l~~~~~~p~~I~I~grt~~pV~~~yi~~~~~~~-~~~~y~~~~k~~~l~~L~~~~~~ 393 (675)
T PHA02653 317 HIDK--IRSLFLMTATLEDDRDRIKEFFPNPAFVHIPGGTLFPISEVYVKNKYNPK-NKRAYIEEEKKNIVTALKKYTPP 393 (675)
T ss_pred hhhh--cCEEEEEccCCcHhHHHHHHHhcCCcEEEeCCCcCCCeEEEEeecCcccc-cchhhhHHHHHHHHHHHHHhhcc
Confidence 5432 248999999985 56788999989999999985 999999986542110 01112111 1122222221 13
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCCC--CCeeEeecCCCCHHhhhhhcccC--CCceEEEEechhhhhcCCCCCeeEEEEc
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDAP--SAVALPFHGQLSFDEQFCVFKSY--PGRRKVIFATNVAETSLTIPGVKFVIDS 454 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~~--~~~v~~LHg~Ls~~eR~~v~~~f--~G~~kVLVATniae~GIDIP~V~~VId~ 454 (1252)
.++++|||+||+.+++.+++.|.+. ++.+.++||+|++.+ ++++.| +|+++||||||+||||||||+|++|||+
T Consensus 394 ~~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~e--q~l~~ff~~gk~kILVATdIAERGIDIp~V~~VID~ 471 (675)
T PHA02653 394 KGSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNID--EILEKVYSSKNPSIIISTPYLESSVTIRNATHVYDT 471 (675)
T ss_pred cCCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHHH--HHHHHHhccCceeEEeccChhhccccccCeeEEEEC
Confidence 4579999999999999999999865 789999999999864 344454 5899999999999999999999999999
Q ss_pred CCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhccCCCCCCccccccc---hHHHHHHHhHc
Q 000854 455 GMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFETRPLNQEPEIHRVH---LGIAVLRILAL 531 (1252)
Q Consensus 455 g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~---L~~~vL~lk~l 531 (1252)
|+++.+ +|..++ ..|+|+++|.||+|||||.++|.||+||++++. .| |.+.+ |.+++|.+++|
T Consensus 472 G~~k~p--~~~~g~----~~~iSkasa~QRaGRAGR~~~G~c~rLyt~~~~-------~p-I~ri~~~~L~~~vL~lk~~ 537 (675)
T PHA02653 472 GRVYVP--EPFGGK----EMFISKSMRTQRKGRVGRVSPGTYVYFYDLDLL-------KP-IKRIDSEFLHNYILYAKYF 537 (675)
T ss_pred CCccCC--CcccCc----ccccCHHHHHHhccCcCCCCCCeEEEEECHHHh-------HH-HHHHhHHHHHHHHHHHHHc
Confidence 987755 244443 469999999999999999999999999999874 24 66666 88999999999
Q ss_pred CCCCccccccCCCCcHHHHHHHHHHHHHcCcccccCCcccccHh--HHhhhccCCChHhHHHHHHHh
Q 000854 532 GIRDVQGFDFIDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEE--GKFLVKLGIEPRLGKLILSCF 596 (1252)
Q Consensus 532 gi~~~~~f~~ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~l--Gr~~a~lPldp~l~k~ll~~~ 596 (1252)
|++.+ .+.|+|||+.+++.+|++.|..+||+++ +||.+ |++++.+ ++||+++.|.
T Consensus 538 g~~~~-~~~~ldpP~~~~l~~A~~~L~~lga~~~-----~l~~l~~~~~~~~~----~~~k~~~~g~ 594 (675)
T PHA02653 538 NLTLP-EDLFVIPSNLDRLRKTEEYIDSFNISIE-----KWYEILSNYYVNML----EYAKIYVKGG 594 (675)
T ss_pred CCCCc-ccccCCCCCHHHHHHHHHHHHHcCCCch-----hhhhhhccccHHHH----HHhHHHhccc
Confidence 99654 4569999999999999999999998853 69999 9999999 9999998864
No 14
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.5e-47 Score=424.62 Aligned_cols=339 Identities=19% Similarity=0.259 Sum_probs=272.0
Q ss_pred cCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccccc--
Q 000854 132 ANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAA-- 209 (1252)
Q Consensus 132 ~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~-- 209 (1252)
.+.+..+|.++| +++.+++++++.++..|+.+|+++||.++.+++++.+ |+||||||.++..++++..+..
T Consensus 56 ~~e~~~sf~dLg------v~~~L~~ac~~l~~~~PT~IQ~~aiP~~L~g~dvIgl-AeTGSGKT~afaLPIl~~LL~~p~ 128 (476)
T KOG0330|consen 56 TDESFKSFADLG------VHPELLEACQELGWKKPTKIQSEAIPVALGGRDVIGL-AETGSGKTGAFALPILQRLLQEPK 128 (476)
T ss_pred hhhhhcchhhcC------cCHHHHHHHHHhCcCCCchhhhhhcchhhCCCcEEEE-eccCCCchhhhHHHHHHHHHcCCC
Confidence 345667888887 8899999999999999999999999999999998885 9999999999777777664443
Q ss_pred CCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc--eEEEe--cCCCccccCCCeEEEEChHHHHHHHhcCC--CCCceeEE
Q 000854 210 EQSIVCTQPRKIAAISLAQRVREESRGCYEDD--SVICY--PSFSSAQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCI 283 (1252)
Q Consensus 210 ~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~--~vg~~--~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~I 283 (1252)
...++|+.|||+||.|+++.+..+..+..... .+|+. ..+.....++++|+|+|||+|++++.+.. .+.+++++
T Consensus 129 ~~~~lVLtPtRELA~QI~e~fe~Lg~~iglr~~~lvGG~~m~~q~~~L~kkPhilVaTPGrL~dhl~~Tkgf~le~lk~L 208 (476)
T KOG0330|consen 129 LFFALVLTPTRELAQQIAEQFEALGSGIGLRVAVLVGGMDMMLQANQLSKKPHILVATPGRLWDHLENTKGFSLEQLKFL 208 (476)
T ss_pred CceEEEecCcHHHHHHHHHHHHHhccccCeEEEEEecCchHHHHHHHhhcCCCEEEeCcHHHHHHHHhccCccHHHhHHH
Confidence 34799999999999999999998864433221 12221 11223345789999999999999998665 88999999
Q ss_pred EEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHHhhhhcCCeEEEecccc----eeEEEEecCCCCCC
Q 000854 284 IVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLSKYFYDCGISHVVGRNF----PVDVRYVPCATAGT 357 (1252)
Q Consensus 284 VIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~~~f~~~~vi~i~gr~~----pV~i~y~~~~~s~~ 357 (1252)
|+|||| |.+|.||...+-+++...+++.|++++|||++.+ .+..--...|+.......| .+..+|+-.+.
T Consensus 209 VlDEAD-rlLd~dF~~~ld~ILk~ip~erqt~LfsATMt~kv~kL~rasl~~p~~v~~s~ky~tv~~lkQ~ylfv~~--- 284 (476)
T KOG0330|consen 209 VLDEAD-RLLDMDFEEELDYILKVIPRERQTFLFSATMTKKVRKLQRASLDNPVKVAVSSKYQTVDHLKQTYLFVPG--- 284 (476)
T ss_pred hhchHH-hhhhhhhHHHHHHHHHhcCccceEEEEEeecchhhHHHHhhccCCCeEEeccchhcchHHhhhheEeccc---
Confidence 999999 9999999999999998899999999999998743 3443222233222211111 11222322211
Q ss_pred ccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEec
Q 000854 358 SAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFAT 436 (1252)
Q Consensus 358 ~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVAT 436 (1252)
.++...+.++.+...++++||||++...+++++-.|+..|+.+.++||+|++..|...++.| +|.+.|||||
T Consensus 285 -------k~K~~yLV~ll~e~~g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~r~iLv~T 357 (476)
T KOG0330|consen 285 -------KDKDTYLVYLLNELAGNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGARSILVCT 357 (476)
T ss_pred -------cccchhHHHHHHhhcCCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccCCcEEEec
Confidence 12223344555556779999999999999999999999999999999999999999999999 8999999999
Q ss_pred hhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 437 NVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 437 niae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|+++||+|||.|++|||||+|... .+|+||+||+||+| +|+++.|++..|.+
T Consensus 358 DVaSRGLDip~Vd~VVNyDiP~~s------------------kDYIHRvGRtaRaGrsG~~ItlVtqyDve 410 (476)
T KOG0330|consen 358 DVASRGLDIPHVDVVVNYDIPTHS------------------KDYIHRVGRTARAGRSGKAITLVTQYDVE 410 (476)
T ss_pred chhcccCCCCCceEEEecCCCCcH------------------HHHHHHcccccccCCCcceEEEEehhhhH
Confidence 999999999999999999998866 88999999999998 99999999986654
No 15
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.2e-45 Score=431.14 Aligned_cols=330 Identities=20% Similarity=0.273 Sum_probs=263.5
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc--------cccCCeEEecCcHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG--------IAAEQSIVCTQPRKI 221 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~--------~~~~~~ILv~qPrR~ 221 (1252)
+.......++..++..|+++|.+.++.++.+++++.+ |.||||||+++..++.... ...++.+||++||||
T Consensus 98 ls~~~~~~lk~~g~~~PtpIQaq~wp~~l~GrD~v~i-A~TGSGKTLay~lP~i~~l~~~~~~~~~~~~P~vLVL~PTRE 176 (519)
T KOG0331|consen 98 LSEELMKALKEQGFEKPTPIQAQGWPIALSGRDLVGI-ARTGSGKTLAYLLPAIVHLNNEQGKLSRGDGPIVLVLAPTRE 176 (519)
T ss_pred ccHHHHHHHHhcCCCCCchhhhcccceeccCCceEEE-eccCCcchhhhhhHHHHHHHhccccccCCCCCeEEEEcCcHH
Confidence 7788999999999999999999999999999988885 9999999998554443321 233568999999999
Q ss_pred HHHHHHHHHHHHhcCCCCCceEEE----ecCCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchh
Q 000854 222 AAISLAQRVREESRGCYEDDSVIC----YPSFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTD 296 (1252)
Q Consensus 222 LA~qva~rv~~~~~~~~~~~~vg~----~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d 296 (1252)
||.|+.+.+.+....+.....+.| +..+......+.+|+++|||+|++++.... .|++++++|+|||| ||++++
T Consensus 177 LA~QV~~~~~~~~~~~~~~~~cvyGG~~~~~Q~~~l~~gvdiviaTPGRl~d~le~g~~~l~~v~ylVLDEAD-rMldmG 255 (519)
T KOG0331|consen 177 LAVQVQAEAREFGKSLRLRSTCVYGGAPKGPQLRDLERGVDVVIATPGRLIDLLEEGSLNLSRVTYLVLDEAD-RMLDMG 255 (519)
T ss_pred HHHHHHHHHHHHcCCCCccEEEEeCCCCccHHHHHHhcCCcEEEeCChHHHHHHHcCCccccceeEEEeccHH-hhhccc
Confidence 999999999998765543233322 112233345678999999999999998877 89999999999999 999999
Q ss_pred hHHHHHHHHHhc-cCCCcEEeeccCCCH--HHHHhhhhcCCeEEEecccc------eeEEEEecCCCCCCccccchHHHH
Q 000854 297 LLLALVKDLLCR-RFDLRLVIMSATADA--HQLSKYFYDCGISHVVGRNF------PVDVRYVPCATAGTSAVASYVSDV 367 (1252)
Q Consensus 297 ~ll~llk~l~~~-~~~lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~------pV~i~y~~~~~s~~~~~~~~~~~~ 367 (1252)
|..++.+++... +++.|++++|||.+. ..|++-|.+.++....+... .+....... ........+
T Consensus 256 Fe~qI~~Il~~i~~~~rQtlm~saTwp~~v~~lA~~fl~~~~~i~ig~~~~~~a~~~i~qive~~------~~~~K~~~l 329 (519)
T KOG0331|consen 256 FEPQIRKILSQIPRPDRQTLMFSATWPKEVRQLAEDFLNNPIQINVGNKKELKANHNIRQIVEVC------DETAKLRKL 329 (519)
T ss_pred cHHHHHHHHHhcCCCcccEEEEeeeccHHHHHHHHHHhcCceEEEecchhhhhhhcchhhhhhhc------CHHHHHHHH
Confidence 999999999998 677789999999874 45665555454433333211 011000000 001111223
Q ss_pred HHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCC
Q 000854 368 VRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIP 446 (1252)
Q Consensus 368 ~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP 446 (1252)
..++..+. ...++++||||.|++.|++++..|+..++.+..+||+.++.+|..+++.| +|+..||||||+|+||+|||
T Consensus 330 ~~lL~~~~-~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG~~~vLVATdVAaRGLDi~ 408 (519)
T KOG0331|consen 330 GKLLEDIS-SDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREGKSPVLVATDVAARGLDVP 408 (519)
T ss_pred HHHHHHHh-ccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccCCcceEEEcccccccCCCc
Confidence 33344444 46789999999999999999999999899999999999999999999999 89999999999999999999
Q ss_pred CeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 447 GVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 447 ~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
+|++||||++|+.. ++|+||+|||||.+ .|.+|.+++..++.
T Consensus 409 dV~lVInydfP~~v------------------EdYVHRiGRTGRa~~~G~A~tfft~~~~~ 451 (519)
T KOG0331|consen 409 DVDLVINYDFPNNV------------------EDYVHRIGRTGRAGKKGTAITFFTSDNAK 451 (519)
T ss_pred cccEEEeCCCCCCH------------------HHHHhhcCccccCCCCceEEEEEeHHHHH
Confidence 99999999998876 99999999999986 99999999998764
No 16
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.2e-43 Score=424.84 Aligned_cols=332 Identities=21% Similarity=0.289 Sum_probs=270.0
Q ss_pred ccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCC-e-
Q 000854 137 FRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQ-S- 212 (1252)
Q Consensus 137 ~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~-~- 212 (1252)
..|++++ +...+++++.+.++..|+++|+++|+.++.++++++ .|+||||||.++..++++... .... .
T Consensus 29 ~~F~~l~------l~~~ll~~l~~~gf~~pt~IQ~~~IP~~l~g~Dvi~-~A~TGsGKT~Af~lP~l~~l~~~~~~~~~~ 101 (513)
T COG0513 29 PEFASLG------LSPELLQALKDLGFEEPTPIQLAAIPLILAGRDVLG-QAQTGTGKTAAFLLPLLQKILKSVERKYVS 101 (513)
T ss_pred CCHhhcC------CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEEE-ECCCCChHHHHHHHHHHHHHhcccccCCCc
Confidence 4577666 778899999999999999999999999999977666 799999999998888877633 1222 2
Q ss_pred EEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEc
Q 000854 213 IVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVD 286 (1252)
Q Consensus 213 ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVID 286 (1252)
+++++|||+||.|+++.+...............+++.. .....+.+|+|+|||+|++++.... .++++.++|+|
T Consensus 102 aLil~PTRELA~Qi~~~~~~~~~~~~~~~~~~i~GG~~~~~q~~~l~~~~~ivVaTPGRllD~i~~~~l~l~~v~~lVlD 181 (513)
T COG0513 102 ALILAPTRELAVQIAEELRKLGKNLGGLRVAVVYGGVSIRKQIEALKRGVDIVVATPGRLLDLIKRGKLDLSGVETLVLD 181 (513)
T ss_pred eEEECCCHHHHHHHHHHHHHHHhhcCCccEEEEECCCCHHHHHHHHhcCCCEEEECccHHHHHHHcCCcchhhcCEEEec
Confidence 89999999999999999998875442111122222211 1122359999999999999998875 89999999999
Q ss_pred cccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHH-hhhhcCCeEEEec-----ccceeEEEEecCCCCCCc
Q 000854 287 EAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLS-KYFYDCGISHVVG-----RNFPVDVRYVPCATAGTS 358 (1252)
Q Consensus 287 EaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~-~~f~~~~vi~i~g-----r~~pV~i~y~~~~~s~~~ 358 (1252)
||| |+++++|...+.+++...+++.|++++|||++.. .++ .|+.++..+.+.. ....+...|.....
T Consensus 182 EAD-rmLd~Gf~~~i~~I~~~~p~~~qtllfSAT~~~~i~~l~~~~l~~p~~i~v~~~~~~~~~~~i~q~~~~v~~---- 256 (513)
T COG0513 182 EAD-RMLDMGFIDDIEKILKALPPDRQTLLFSATMPDDIRELARRYLNDPVEIEVSVEKLERTLKKIKQFYLEVES---- 256 (513)
T ss_pred cHh-hhhcCCCHHHHHHHHHhCCcccEEEEEecCCCHHHHHHHHHHccCCcEEEEccccccccccCceEEEEEeCC----
Confidence 999 9999999999999999998999999999998863 233 3333333333331 11334444444321
Q ss_pred cccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEech
Q 000854 359 AVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATN 437 (1252)
Q Consensus 359 ~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATn 437 (1252)
...+...+..++.....+++||||+++..++.++..|...|+.+..+||+|++++|.++++.| +|+.+||||||
T Consensus 257 -----~~~k~~~L~~ll~~~~~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~~~vLVaTD 331 (513)
T COG0513 257 -----EEEKLELLLKLLKDEDEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGELRVLVATD 331 (513)
T ss_pred -----HHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEEec
Confidence 124778888888877788999999999999999999999999999999999999999999999 89999999999
Q ss_pred hhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChh
Q 000854 438 VAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKS 503 (1252)
Q Consensus 438 iae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~ 503 (1252)
+++||||||+|++||||++|... ++|+||+||+||.| .|.++.|+++.
T Consensus 332 vaaRGiDi~~v~~VinyD~p~~~------------------e~yvHRiGRTgRaG~~G~ai~fv~~~ 380 (513)
T COG0513 332 VAARGLDIPDVSHVINYDLPLDP------------------EDYVHRIGRTGRAGRKGVAISFVTEE 380 (513)
T ss_pred hhhccCCccccceeEEccCCCCH------------------HHheeccCccccCCCCCeEEEEeCcH
Confidence 99999999999999999998755 89999999999997 99999999974
No 17
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3.3e-43 Score=399.18 Aligned_cols=325 Identities=19% Similarity=0.247 Sum_probs=260.7
Q ss_pred hhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-----cCCeEEecCcHHHHH
Q 000854 149 RIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-----AEQSIVCTQPRKIAA 223 (1252)
Q Consensus 149 rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-----~~~~ILv~qPrR~LA 223 (1252)
.|+..+++++..+|+..|+++|...||-++.+.+++. +|.||||||.++..++++..+. ..++|||++|||+||
T Consensus 187 NLSRPlLka~~~lGy~~PTpIQ~a~IPvallgkDIca-~A~TGsGKTAAF~lPiLERLlYrPk~~~~TRVLVL~PTRELa 265 (691)
T KOG0338|consen 187 NLSRPLLKACSTLGYKKPTPIQVATIPVALLGKDICA-CAATGSGKTAAFALPILERLLYRPKKVAATRVLVLVPTRELA 265 (691)
T ss_pred ccchHHHHHHHhcCCCCCCchhhhcccHHhhcchhhh-eecccCCchhhhHHHHHHHHhcCcccCcceeEEEEeccHHHH
Confidence 4889999999999999999999999999999999888 7999999999988888876432 245899999999999
Q ss_pred HHHHHHHHHHhcCCCCCceEEEecC------CCccccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEccccccccch
Q 000854 224 ISLAQRVREESRGCYEDDSVICYPS------FSSAQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAHERSLNT 295 (1252)
Q Consensus 224 ~qva~rv~~~~~~~~~~~~vg~~~~------~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaHER~l~~ 295 (1252)
+|++....++..-+. ..+|...+ ++......++|+|+|||+|.++|.+.+ .++++.++|+|||| ||++.
T Consensus 266 iQv~sV~~qlaqFt~--I~~~L~vGGL~lk~QE~~LRs~PDIVIATPGRlIDHlrNs~sf~ldsiEVLvlDEAD-RMLee 342 (691)
T KOG0338|consen 266 IQVHSVTKQLAQFTD--ITVGLAVGGLDLKAQEAVLRSRPDIVIATPGRLIDHLRNSPSFNLDSIEVLVLDEAD-RMLEE 342 (691)
T ss_pred HHHHHHHHHHHhhcc--ceeeeeecCccHHHHHHHHhhCCCEEEecchhHHHHhccCCCccccceeEEEechHH-HHHHH
Confidence 999987777653222 22333222 222345679999999999999999988 88999999999999 99999
Q ss_pred hhHHHHHHHHHhccCCCcEEeeccCCCH--HHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchH-------HH
Q 000854 296 DLLLALVKDLLCRRFDLRLVIMSATADA--HQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYV-------SD 366 (1252)
Q Consensus 296 d~ll~llk~l~~~~~~lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~-------~~ 366 (1252)
+|...+-.++...+.+.|.++||||++. +.+...-.+.|+ .++..+...........++ .+
T Consensus 343 gFademnEii~lcpk~RQTmLFSATMteeVkdL~slSL~kPv----------rifvd~~~~~a~~LtQEFiRIR~~re~d 412 (691)
T KOG0338|consen 343 GFADEMNEIIRLCPKNRQTMLFSATMTEEVKDLASLSLNKPV----------RIFVDPNKDTAPKLTQEFIRIRPKREGD 412 (691)
T ss_pred HHHHHHHHHHHhccccccceeehhhhHHHHHHHHHhhcCCCe----------EEEeCCccccchhhhHHHheeccccccc
Confidence 9999999888888999999999999874 456655444444 3333322211000001111 01
Q ss_pred HHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCC
Q 000854 367 VVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTI 445 (1252)
Q Consensus 367 ~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDI 445 (1252)
.-.++..+....-...++||+.|++.+.++.-.|.-.|+.+.-+||+|++++|.+.++.| .+++.||||||+|+||+||
T Consensus 413 Rea~l~~l~~rtf~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~eidvLiaTDvAsRGLDI 492 (691)
T KOG0338|consen 413 REAMLASLITRTFQDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEEIDVLIATDVASRGLDI 492 (691)
T ss_pred cHHHHHHHHHHhcccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhccCCEEEEechhhccCCc
Confidence 112222333334467899999999999999988888899999999999999999999999 8999999999999999999
Q ss_pred CCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 446 PGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 446 P~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
++|..||||.+|++. ..|+||+||+.|+| .|.++.|..+.+-
T Consensus 493 ~gV~tVINy~mP~t~------------------e~Y~HRVGRTARAGRaGrsVtlvgE~dR 535 (691)
T KOG0338|consen 493 EGVQTVINYAMPKTI------------------EHYLHRVGRTARAGRAGRSVTLVGESDR 535 (691)
T ss_pred cceeEEEeccCchhH------------------HHHHHHhhhhhhcccCcceEEEeccccH
Confidence 999999999998754 88999999999997 9999999998753
No 18
>PRK02362 ski2-like helicase; Provisional
Probab=100.00 E-value=4.8e-41 Score=427.07 Aligned_cols=431 Identities=21% Similarity=0.208 Sum_probs=305.0
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
+++.+++.+.+.|+..|.+.|++++...+..+++++++||||||||+++..+++... ..++++++++|+|+||.|.+++
T Consensus 8 lp~~~~~~l~~~g~~~l~p~Q~~ai~~~~~~g~nvlv~APTGSGKTlia~lail~~l-~~~~kal~i~P~raLa~q~~~~ 86 (737)
T PRK02362 8 LPEGVIEFYEAEGIEELYPPQAEAVEAGLLDGKNLLAAIPTASGKTLIAELAMLKAI-ARGGKALYIVPLRALASEKFEE 86 (737)
T ss_pred CCHHHHHHHHhCCCCcCCHHHHHHHHHHHhCCCcEEEECCCcchHHHHHHHHHHHHH-hcCCcEEEEeChHHHHHHHHHH
Confidence 667788999999999999999999988777788888899999999998777766543 2467899999999999999999
Q ss_pred HHHHhcCCCCCceEEEecC-CCc--cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhh---HHHHH
Q 000854 230 VREESRGCYEDDSVICYPS-FSS--AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDL---LLALV 302 (1252)
Q Consensus 230 v~~~~~~~~~~~~vg~~~~-~~~--~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~---ll~ll 302 (1252)
+.+.. .. +..++...+ ... ......+|+|+||+++...+.+.. .++++++|||||+| +..+.++ +..++
T Consensus 87 ~~~~~-~~--g~~v~~~tGd~~~~~~~l~~~~IiV~Tpek~~~llr~~~~~l~~v~lvViDE~H-~l~d~~rg~~le~il 162 (737)
T PRK02362 87 FERFE-EL--GVRVGISTGDYDSRDEWLGDNDIIVATSEKVDSLLRNGAPWLDDITCVVVDEVH-LIDSANRGPTLEVTL 162 (737)
T ss_pred HHHhh-cC--CCEEEEEeCCcCccccccCCCCEEEECHHHHHHHHhcChhhhhhcCEEEEECcc-ccCCCcchHHHHHHH
Confidence 98653 21 223333221 111 112357999999999988776544 78899999999999 4554433 34445
Q ss_pred HHHHhccCCCcEEeeccCC-CHHHHHhhhhcCCeEEEecccceeEEE--EecCCC---CCCccccchHHHHHHHHHHhhh
Q 000854 303 KDLLCRRFDLRLVIMSATA-DAHQLSKYFYDCGISHVVGRNFPVDVR--YVPCAT---AGTSAVASYVSDVVRMVGEVHT 376 (1252)
Q Consensus 303 k~l~~~~~~lqiIlmSATl-d~~~l~~~f~~~~vi~i~gr~~pV~i~--y~~~~~---s~~~~~~~~~~~~~~~l~~i~~ 376 (1252)
..+....++.|+|+||||+ +.+.+++|++.. .+....+..|+... +..... ................+...+
T Consensus 163 ~rl~~~~~~~qii~lSATl~n~~~la~wl~~~-~~~~~~rpv~l~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 240 (737)
T PRK02362 163 AKLRRLNPDLQVVALSATIGNADELADWLDAE-LVDSEWRPIDLREGVFYGGAIHFDDSQREVEVPSKDDTLNLVLDTL- 240 (737)
T ss_pred HHHHhcCCCCcEEEEcccCCCHHHHHHHhCCC-cccCCCCCCCCeeeEecCCeeccccccccCCCccchHHHHHHHHHH-
Confidence 5555567889999999996 678899998632 22222222222211 110000 000000001122333343333
Q ss_pred cCCCCcEEEEeCCHHHHHHHHHHcCCC------------------------------------CCeeEeecCCCCHHhhh
Q 000854 377 TEKEGTILAFLTSKMEVEWACEKFDAP------------------------------------SAVALPFHGQLSFDEQF 420 (1252)
Q Consensus 377 ~~~~g~iLVFl~s~~eie~la~~L~~~------------------------------------~~~v~~LHg~Ls~~eR~ 420 (1252)
..++++||||+++++++.++..|... ...+..+||+|++++|.
T Consensus 241 -~~~~~~LVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~L~~~l~~gva~hHagl~~~eR~ 319 (737)
T PRK02362 241 -EEGGQCLVFVSSRRNAEGFAKRAASALKKTLTAAERAELAELAEEIREVSDTETSKDLADCVAKGAAFHHAGLSREHRE 319 (737)
T ss_pred -HcCCCeEEEEeCHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhccCccccHHHHHHHHhCEEeecCCCCHHHHH
Confidence 36789999999999999888776421 13688999999999999
Q ss_pred hhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeE
Q 000854 421 CVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRC 496 (1252)
Q Consensus 421 ~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c 496 (1252)
.+++.| +|.++|||||+++++|||+|++++||+. ..+||+..+. .|+|..+|.||+|||||.| .|.|
T Consensus 320 ~ve~~Fr~G~i~VLvaT~tla~GvnlPa~~VVI~~----~~~yd~~~g~-----~~~s~~~y~Qm~GRAGR~g~d~~G~~ 390 (737)
T PRK02362 320 LVEDAFRDRLIKVISSTPTLAAGLNLPARRVIIRD----YRRYDGGAGM-----QPIPVLEYHQMAGRAGRPGLDPYGEA 390 (737)
T ss_pred HHHHHHHcCCCeEEEechhhhhhcCCCceEEEEec----ceeecCCCCc-----eeCCHHHHHHHhhcCCCCCCCCCceE
Confidence 999999 8999999999999999999999999975 3357665433 4789999999999999986 4999
Q ss_pred EEecChhh-----hccCCCCCCccccc------cchHHHHHHHhHcCC-C---Ccccc---ccCCCC------cHHHHHH
Q 000854 497 YRLYSKSD-----FETRPLNQEPEIHR------VHLGIAVLRILALGI-R---DVQGF---DFIDAP------SAKAIEM 552 (1252)
Q Consensus 497 ~~Lyt~~d-----~~~~~~~~~PEI~r------~~L~~~vL~lk~lgi-~---~~~~f---~~ldpP------~~~~l~~ 552 (1252)
+.+....+ ++.+... .|+-.. ..|...++...+.|. . ++..| .|+..+ -.+.+..
T Consensus 391 ii~~~~~~~~~~~~~~~l~~-~~~~i~S~l~~~~~l~~~lla~I~~~~~~~~~d~~~~l~~Tf~~~~~~~~~~l~~~v~~ 469 (737)
T PRK02362 391 VLLAKSYDELDELFERYIWA-DPEDVRSKLATEPALRTHVLSTIASGFARTRDGLLEFLEATFYATQTDDTGRLERVVDD 469 (737)
T ss_pred EEEecCchhHHHHHHHHHhC-CCCceeecCCChhhHHHHHHHHHHhCccCCHHHHHHHHHhChHHhhccchHHHHHHHHH
Confidence 99987642 1222211 121111 135555666666653 1 22222 333222 2356889
Q ss_pred HHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhc
Q 000854 553 AIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRR 598 (1252)
Q Consensus 553 Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~ 598 (1252)
+++.|.+.|+|+.+++.+.+|++|+.++.+|++|..++.+..++..
T Consensus 470 ~l~~L~~~~~i~~~~~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~ 515 (737)
T PRK02362 470 VLDFLERNGMIEEDGETLEATELGHLVSRLYIDPLSAAEIIDGLEA 515 (737)
T ss_pred HHHHHHHCCCeeecCCeEeEChHHHHHHHhcCCHHHHHHHHHHhhh
Confidence 9999999999998777789999999999999999999999888764
No 19
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=100.00 E-value=1.5e-42 Score=395.51 Aligned_cols=364 Identities=16% Similarity=0.191 Sum_probs=281.9
Q ss_pred HHHHHHHhhccccccccCCCccccccccccCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhc
Q 000854 101 MRRVREFKNGMHCVLKYLDDPQNVAKKESYDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYG 180 (1252)
Q Consensus 101 ~~r~~e~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~ 180 (1252)
++.+.|+.+ ++|.-+.++-..+ .....-+.++.+|++.+ +..++++.+.+.++..|+++|+++|+..++.
T Consensus 213 ~k~l~Em~~--rdwri~redynis--~kg~~lpnplrnwEE~~------~P~e~l~~I~~~~y~eptpIqR~aipl~lQ~ 282 (673)
T KOG0333|consen 213 EKVLAEMTE--RDWRIFREDYNIS--IKGGRLPNPLRNWEESG------FPLELLSVIKKPGYKEPTPIQRQAIPLGLQN 282 (673)
T ss_pred hhhHHhcCC--ccceeeecceeee--ecCCCCCccccChhhcC------CCHHHHHHHHhcCCCCCchHHHhhccchhcc
Confidence 455555533 3444444443333 13345567788898866 6778999999999999999999999988888
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhc-----------ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC--CceEEEec
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADS-----------GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE--DDSVICYP 247 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~-----------~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~--~~~vg~~~ 247 (1252)
++++.+ |+||||||.+++.+|+.. ....++..+++.|||+||+|+.+.-.++...... ...+|+..
T Consensus 283 rD~igv-aETgsGktaaf~ipLl~~IsslP~~~~~en~~~gpyaiilaptReLaqqIeeEt~kf~~~lg~r~vsvigg~s 361 (673)
T KOG0333|consen 283 RDPIGV-AETGSGKTAAFLIPLLIWISSLPPMARLENNIEGPYAIILAPTRELAQQIEEETNKFGKPLGIRTVSVIGGLS 361 (673)
T ss_pred CCeeeE-EeccCCccccchhhHHHHHHcCCCcchhhhcccCceeeeechHHHHHHHHHHHHHHhcccccceEEEEecccc
Confidence 888875 999999998866555431 1123568999999999999999888887533221 11222222
Q ss_pred CCCc--cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccC-------------C
Q 000854 248 SFSS--AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRF-------------D 311 (1252)
Q Consensus 248 ~~~~--~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~-------------~ 311 (1252)
..+. +.+.+++|+++|||+|++.|.+.. .+++..+||+|||+ |++|++|-..+.+++...+. .
T Consensus 362 ~EEq~fqls~gceiviatPgrLid~Lenr~lvl~qctyvvldead-rmiDmgfE~dv~~iL~~mPssn~k~~tde~~~~~ 440 (673)
T KOG0333|consen 362 FEEQGFQLSMGCEIVIATPGRLIDSLENRYLVLNQCTYVVLDEAD-RMIDMGFEPDVQKILEQMPSSNAKPDTDEKEGEE 440 (673)
T ss_pred hhhhhhhhhccceeeecCchHHHHHHHHHHHHhccCceEeccchh-hhhcccccHHHHHHHHhCCccccCCCccchhhHH
Confidence 2222 356789999999999999997766 78999999999999 99999999999998876441 1
Q ss_pred ------------CcEEeeccCCCH--HHHH-hhhhcCCeEEEe--ccccee-EEEEecCCCCCCccccchHHHHHHHHHH
Q 000854 312 ------------LRLVIMSATADA--HQLS-KYFYDCGISHVV--GRNFPV-DVRYVPCATAGTSAVASYVSDVVRMVGE 373 (1252)
Q Consensus 312 ------------lqiIlmSATld~--~~l~-~~f~~~~vi~i~--gr~~pV-~i~y~~~~~s~~~~~~~~~~~~~~~l~~ 373 (1252)
.|.+.||||+++ +.++ .||.++-++.+- |+..|. +..+.-. ..+.....+.+
T Consensus 441 ~~~~~~~~~k~yrqT~mftatm~p~verlar~ylr~pv~vtig~~gk~~~rveQ~v~m~----------~ed~k~kkL~e 510 (673)
T KOG0333|consen 441 RVRKNFSSSKKYRQTVMFTATMPPAVERLARSYLRRPVVVTIGSAGKPTPRVEQKVEMV----------SEDEKRKKLIE 510 (673)
T ss_pred HHHhhcccccceeEEEEEecCCChHHHHHHHHHhhCCeEEEeccCCCCccchheEEEEe----------cchHHHHHHHH
Confidence 689999999874 4455 566555444443 333322 2111111 11334666777
Q ss_pred hhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEE
Q 000854 374 VHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVI 452 (1252)
Q Consensus 374 i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VI 452 (1252)
++.+....++|||+|+++.|+.+++.|.+.++.+..|||+-++++|..+++.| .|...|+||||+|+||||||||.+||
T Consensus 511 il~~~~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~t~dIlVaTDvAgRGIDIpnVSlVi 590 (673)
T KOG0333|consen 511 ILESNFDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREGTGDILVATDVAGRGIDIPNVSLVI 590 (673)
T ss_pred HHHhCCCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhcCCCEEEEecccccCCCCCccceee
Confidence 77777789999999999999999999999999999999999999999999999 88999999999999999999999999
Q ss_pred EcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 453 DSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 453 d~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
||+++|.. ..|.||+||+||+| .|+++.||++++
T Consensus 591 nydmaksi------------------eDYtHRIGRTgRAGk~GtaiSflt~~d 625 (673)
T KOG0333|consen 591 NYDMAKSI------------------EDYTHRIGRTGRAGKSGTAISFLTPAD 625 (673)
T ss_pred ecchhhhH------------------HHHHHHhccccccccCceeEEEeccch
Confidence 99998855 89999999999998 999999999987
No 20
>PTZ00110 helicase; Provisional
Probab=100.00 E-value=1.4e-41 Score=417.57 Aligned_cols=340 Identities=19% Similarity=0.264 Sum_probs=257.6
Q ss_pred CcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc----
Q 000854 131 DANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG---- 206 (1252)
Q Consensus 131 ~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~---- 206 (1252)
+.+....+|++++ +.+.+++.+.+.++..|+++|+++++.++.++++++ +||||||||+++..+++...
T Consensus 124 ~~p~p~~~f~~~~------l~~~l~~~l~~~g~~~pt~iQ~~aip~~l~G~dvI~-~ApTGSGKTlaylLP~l~~i~~~~ 196 (545)
T PTZ00110 124 NVPKPVVSFEYTS------FPDYILKSLKNAGFTEPTPIQVQGWPIALSGRDMIG-IAETGSGKTLAFLLPAIVHINAQP 196 (545)
T ss_pred CCCcccCCHhhcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCCEEE-EeCCCChHHHHHHHHHHHHHHhcc
Confidence 3344567788766 566799999999999999999999999998877665 69999999998655443321
Q ss_pred ---cccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CC
Q 000854 207 ---IAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DL 277 (1252)
Q Consensus 207 ---~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L 277 (1252)
...+..+||++|||+||.|+.+.+.+..........+. +.... .....+.+|+|+|||+|++.+.... .+
T Consensus 197 ~~~~~~gp~~LIL~PTreLa~Qi~~~~~~~~~~~~i~~~~~-~gg~~~~~q~~~l~~~~~IlVaTPgrL~d~l~~~~~~l 275 (545)
T PTZ00110 197 LLRYGDGPIVLVLAPTRELAEQIREQCNKFGASSKIRNTVA-YGGVPKRGQIYALRRGVEILIACPGRLIDFLESNVTNL 275 (545)
T ss_pred cccCCCCcEEEEECChHHHHHHHHHHHHHHhcccCccEEEE-eCCCCHHHHHHHHHcCCCEEEECHHHHHHHHHcCCCCh
Confidence 12345799999999999999999988754332222222 22211 1123468999999999999997765 78
Q ss_pred CceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHHhhhh-cCCeEEEeccc-----ceeEEEE
Q 000854 278 SRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLSKYFY-DCGISHVVGRN-----FPVDVRY 349 (1252)
Q Consensus 278 ~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~~~f~-~~~vi~i~gr~-----~pV~i~y 349 (1252)
+++++||||||| |+++.+|...+.+++...+++.|++++|||++.+ .+++.+. ..++....+.. ..+...+
T Consensus 276 ~~v~~lViDEAd-~mld~gf~~~i~~il~~~~~~~q~l~~SAT~p~~v~~l~~~l~~~~~v~i~vg~~~l~~~~~i~q~~ 354 (545)
T PTZ00110 276 RRVTYLVLDEAD-RMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEEPVHVNVGSLDLTACHNIKQEV 354 (545)
T ss_pred hhCcEEEeehHH-hhhhcchHHHHHHHHHhCCCCCeEEEEEeCCCHHHHHHHHHHhccCCEEEEECCCccccCCCeeEEE
Confidence 999999999999 8999999988888888888999999999998743 3444443 23332222211 1111111
Q ss_pred ecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CC
Q 000854 350 VPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PG 428 (1252)
Q Consensus 350 ~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G 428 (1252)
..... ......+..++..+. ...+++||||+++++++.+++.|...++.+..+||++++++|..+++.| +|
T Consensus 355 ~~~~~------~~k~~~L~~ll~~~~--~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G 426 (545)
T PTZ00110 355 FVVEE------HEKRGKLKMLLQRIM--RDGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTG 426 (545)
T ss_pred EEEec------hhHHHHHHHHHHHhc--ccCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcC
Confidence 11100 011122222332222 2578999999999999999999998899999999999999999999999 89
Q ss_pred ceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 429 RRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 429 ~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
+.+|||||+++++|||+|+|++||++++|... ++|+||+|||||.| +|.||.|+++++.
T Consensus 427 ~~~ILVaTdv~~rGIDi~~v~~VI~~d~P~s~------------------~~yvqRiGRtGR~G~~G~ai~~~~~~~~ 486 (545)
T PTZ00110 427 KSPIMIATDVASRGLDVKDVKYVINFDFPNQI------------------EDYVHRIGRTGRAGAKGASYTFLTPDKY 486 (545)
T ss_pred CCcEEEEcchhhcCCCcccCCEEEEeCCCCCH------------------HHHHHHhcccccCCCCceEEEEECcchH
Confidence 99999999999999999999999999997754 89999999999997 9999999998764
No 21
>PRK01172 ski2-like helicase; Provisional
Probab=100.00 E-value=2e-40 Score=418.37 Aligned_cols=425 Identities=17% Similarity=0.181 Sum_probs=293.8
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
+.+.+++.+.+.++. +.+.|++++.. +.++++++++||||||||+++.+++++.. ..+.+++++.|+|+||.|.++.
T Consensus 8 l~~~~~~~~~~~~~~-l~~~Q~~ai~~-l~~~~nvlv~apTGSGKTl~a~lail~~l-~~~~k~v~i~P~raLa~q~~~~ 84 (674)
T PRK01172 8 YDDEFLNLFTGNDFE-LYDHQRMAIEQ-LRKGENVIVSVPTAAGKTLIAYSAIYETF-LAGLKSIYIVPLRSLAMEKYEE 84 (674)
T ss_pred CCHHHHHHHhhCCCC-CCHHHHHHHHH-HhcCCcEEEECCCCchHHHHHHHHHHHHH-HhCCcEEEEechHHHHHHHHHH
Confidence 667788888877776 67777777766 56777788899999999999887777643 2356889999999999999999
Q ss_pred HHHHhcCCCCCceEEEecC-CCc--cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchh---hHHHHH
Q 000854 230 VREESRGCYEDDSVICYPS-FSS--AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTD---LLLALV 302 (1252)
Q Consensus 230 v~~~~~~~~~~~~vg~~~~-~~~--~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d---~ll~ll 302 (1252)
+.+.. . .+..++...+ ... ......+|+|+|||++...+.+.+ .++++++|||||+|. ..+.+ .+..++
T Consensus 85 ~~~l~-~--~g~~v~~~~G~~~~~~~~~~~~dIiv~Tpek~~~l~~~~~~~l~~v~lvViDEaH~-l~d~~rg~~le~ll 160 (674)
T PRK01172 85 LSRLR-S--LGMRVKISIGDYDDPPDFIKRYDVVILTSEKADSLIHHDPYIINDVGLIVADEIHI-IGDEDRGPTLETVL 160 (674)
T ss_pred HHHHh-h--cCCeEEEEeCCCCCChhhhccCCEEEECHHHHHHHHhCChhHHhhcCEEEEecchh-ccCCCccHHHHHHH
Confidence 98743 1 1233433222 111 112457999999999988877666 689999999999994 44332 344455
Q ss_pred HHHHhccCCCcEEeeccCC-CHHHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCC
Q 000854 303 KDLLCRRFDLRLVIMSATA-DAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEG 381 (1252)
Q Consensus 303 k~l~~~~~~lqiIlmSATl-d~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g 381 (1252)
..+...+++.|+|+||||+ +.+.+++|++ ++.+....+..|++........................+.+.. ..++
T Consensus 161 ~~~~~~~~~~riI~lSATl~n~~~la~wl~-~~~~~~~~r~vpl~~~i~~~~~~~~~~~~~~~~~~~~~i~~~~--~~~~ 237 (674)
T PRK01172 161 SSARYVNPDARILALSATVSNANELAQWLN-ASLIKSNFRPVPLKLGILYRKRLILDGYERSQVDINSLIKETV--NDGG 237 (674)
T ss_pred HHHHhcCcCCcEEEEeCccCCHHHHHHHhC-CCccCCCCCCCCeEEEEEecCeeeecccccccccHHHHHHHHH--hCCC
Confidence 5555567889999999997 6888999985 4444444555555532221100000000000011222232222 4578
Q ss_pred cEEEEeCCHHHHHHHHHHcCCC-------------------------CCeeEeecCCCCHHhhhhhcccC-CCceEEEEe
Q 000854 382 TILAFLTSKMEVEWACEKFDAP-------------------------SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFA 435 (1252)
Q Consensus 382 ~iLVFl~s~~eie~la~~L~~~-------------------------~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVA 435 (1252)
++||||+++++++.++..|... ...+..+||+|++++|..+++.| +|.++||||
T Consensus 238 ~vLVF~~sr~~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~~hagl~~~eR~~ve~~f~~g~i~VLva 317 (674)
T PRK01172 238 QVLVFVSSRKNAEDYAEMLIQHFPEFNDFKVSSENNNVYDDSLNEMLPHGVAFHHAGLSNEQRRFIEEMFRNRYIKVIVA 317 (674)
T ss_pred cEEEEeccHHHHHHHHHHHHHhhhhcccccccccccccccHHHHHHHhcCEEEecCCCCHHHHHHHHHHHHcCCCeEEEe
Confidence 9999999999999998877431 12478899999999999999999 899999999
Q ss_pred chhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecCh-hhhc---c-
Q 000854 436 TNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSK-SDFE---T- 507 (1252)
Q Consensus 436 Tniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~-~d~~---~- 507 (1252)
|+++++|||+|+..+||+ +.+ .|+. ....++|..+|.||+|||||.| .|.++.+... ++++ .
T Consensus 318 T~~la~Gvnipa~~VII~-~~~---~~~~------~~~~~~s~~~~~Qm~GRAGR~g~d~~g~~~i~~~~~~~~~~~~~~ 387 (674)
T PRK01172 318 TPTLAAGVNLPARLVIVR-DIT---RYGN------GGIRYLSNMEIKQMIGRAGRPGYDQYGIGYIYAASPASYDAAKKY 387 (674)
T ss_pred cchhhccCCCcceEEEEc-Cce---EeCC------CCceeCCHHHHHHHhhcCCCCCCCCcceEEEEecCcccHHHHHHH
Confidence 999999999999877775 332 2322 1234689999999999999986 6777776443 3232 2
Q ss_pred CCCCCCc--------cccccchHHHHHHHhHcCC----CCcccc---ccC--CCCc---HHHHHHHHHHHHHcCcccccC
Q 000854 508 RPLNQEP--------EIHRVHLGIAVLRILALGI----RDVQGF---DFI--DAPS---AKAIEMAIRNLVQLGAIKLNN 567 (1252)
Q Consensus 508 ~~~~~~P--------EI~r~~L~~~vL~lk~lgi----~~~~~f---~~l--dpP~---~~~l~~Al~~L~~lgal~~~~ 567 (1252)
+...+.| ++.+.+ +|...+.|. .++..| .|+ ++++ .+.+..|++.|.+.|+|+.+
T Consensus 388 l~~~~~pi~S~l~~~~~~~~~----~l~~i~~g~~~~~~d~~~~l~~tf~~~~~~~~~l~~~v~~~l~~L~~~~~i~~~- 462 (674)
T PRK01172 388 LSGEPEPVISYMGSQRKVRFN----TLAAISMGLASSMEDLILFYNETLMAIQNGVDEIDYYIESSLKFLKENGFIKGD- 462 (674)
T ss_pred HcCCCCceeecCCCcccHHHH----HHHHHHhcccCCHHHHHHHHHhhhhHhcCchHHHHHHHHHHHHHHHHCCCcccC-
Confidence 2222222 222222 334444443 444444 333 4332 57789999999999999854
Q ss_pred CcccccHhHHhhhccCCChHhHHHHHHHhhcc
Q 000854 568 GVFELTEEGKFLVKLGIEPRLGKLILSCFRRR 599 (1252)
Q Consensus 568 ~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~ 599 (1252)
+.+.+|++|+.++.+|++|..++.+..++...
T Consensus 463 ~~~~~t~lG~~~s~~~l~~~t~~~~~~~l~~~ 494 (674)
T PRK01172 463 VTLRATRLGKLTSDLYIDPESALILKSAFDHD 494 (674)
T ss_pred CcEeECHHHHHHHHhCCCHHHHHHHHHHhhcc
Confidence 45789999999999999999999999888654
No 22
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=100.00 E-value=3.3e-41 Score=407.95 Aligned_cols=332 Identities=18% Similarity=0.228 Sum_probs=260.7
Q ss_pred ccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc--cCCeEE
Q 000854 137 FRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA--AEQSIV 214 (1252)
Q Consensus 137 ~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~--~~~~IL 214 (1252)
.+|++++ +.+.+++++.++++..|++.|+++++.++.+++ ++++||||||||+++..++++.... ...+++
T Consensus 4 ~~f~~l~------l~~~l~~~l~~~g~~~~t~iQ~~ai~~~l~g~d-vi~~a~TGsGKT~a~~lpil~~l~~~~~~~~~l 76 (460)
T PRK11776 4 TAFSTLP------LPPALLANLNELGYTEMTPIQAQSLPAILAGKD-VIAQAKTGSGKTAAFGLGLLQKLDVKRFRVQAL 76 (460)
T ss_pred CChhhcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhcCCC-EEEECCCCCcHHHHHHHHHHHHhhhccCCceEE
Confidence 4577666 777799999999999999999999999887765 5557999999999877777764322 234789
Q ss_pred ecCcHHHHHHHHHHHHHHHhcCCCCCceEEE-ecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEcc
Q 000854 215 CTQPRKIAAISLAQRVREESRGCYEDDSVIC-YPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDE 287 (1252)
Q Consensus 215 v~qPrR~LA~qva~rv~~~~~~~~~~~~vg~-~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDE 287 (1252)
+++|||+||.|+++.+........ +..+.. +.... .....+++|+|+|||+|.+++.... .++++++||+||
T Consensus 77 il~PtreLa~Q~~~~~~~~~~~~~-~~~v~~~~Gg~~~~~~~~~l~~~~~IvV~Tp~rl~~~l~~~~~~l~~l~~lViDE 155 (460)
T PRK11776 77 VLCPTRELADQVAKEIRRLARFIP-NIKVLTLCGGVPMGPQIDSLEHGAHIIVGTPGRILDHLRKGTLDLDALNTLVLDE 155 (460)
T ss_pred EEeCCHHHHHHHHHHHHHHHhhCC-CcEEEEEECCCChHHHHHHhcCCCCEEEEChHHHHHHHHcCCccHHHCCEEEEEC
Confidence 999999999999999887653221 112221 11111 1123568999999999999987665 789999999999
Q ss_pred ccccccchhhHHHHHHHHHhccCCCcEEeeccCCCH--HHHHhhhhcCCe-EEEecc--cceeEEEEecCCCCCCccccc
Q 000854 288 AHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADA--HQLSKYFYDCGI-SHVVGR--NFPVDVRYVPCATAGTSAVAS 362 (1252)
Q Consensus 288 aHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~--~~l~~~f~~~~v-i~i~gr--~~pV~i~y~~~~~s~~~~~~~ 362 (1252)
|| ++++.+|...+...+...+++.|+++||||++. ..+...+...+. +.+... ...++..|.....
T Consensus 156 ad-~~l~~g~~~~l~~i~~~~~~~~q~ll~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~i~~~~~~~~~-------- 226 (460)
T PRK11776 156 AD-RMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVESTHDLPAIEQRFYEVSP-------- 226 (460)
T ss_pred HH-HHhCcCcHHHHHHHHHhCCcccEEEEEEecCcHHHHHHHHHhcCCCEEEEECcCCCCCCeeEEEEEeCc--------
Confidence 99 788999988888877778888999999999864 345555444443 333221 1223333332211
Q ss_pred hHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhh
Q 000854 363 YVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAET 441 (1252)
Q Consensus 363 ~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~ 441 (1252)
..+...+..+.....++++||||+++++++.+++.|...++.+..+||+|++.+|..+++.| +|+.+|||||+++++
T Consensus 227 --~~k~~~l~~ll~~~~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~~~vLVaTdv~~r 304 (460)
T PRK11776 227 --DERLPALQRLLLHHQPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRSCSVLVATDVAAR 304 (460)
T ss_pred --HHHHHHHHHHHHhcCCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCCCcEEEEeccccc
Confidence 22445555666666778999999999999999999999999999999999999999999999 899999999999999
Q ss_pred cCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 442 SLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 442 GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
|||+|++++||++|+|... .+|+||+|||||.| .|.||.|+++++.
T Consensus 305 GiDi~~v~~VI~~d~p~~~------------------~~yiqR~GRtGR~g~~G~ai~l~~~~e~ 351 (460)
T PRK11776 305 GLDIKALEAVINYELARDP------------------EVHVHRIGRTGRAGSKGLALSLVAPEEM 351 (460)
T ss_pred ccchhcCCeEEEecCCCCH------------------hHhhhhcccccCCCCcceEEEEEchhHH
Confidence 9999999999999997754 88999999999997 8999999998754
No 23
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=3.7e-41 Score=403.34 Aligned_cols=333 Identities=14% Similarity=0.155 Sum_probs=254.0
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc-------
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI------- 207 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~------- 207 (1252)
...+|++++ +++.+++++.++|+..|+++|+++|+.++.++++++ +||||||||+++..++++...
T Consensus 6 ~~~~f~~~~------l~~~l~~~l~~~g~~~pt~iQ~~aip~il~g~dvi~-~ApTGsGKTla~llp~l~~l~~~~~~~~ 78 (423)
T PRK04837 6 TEQKFSDFA------LHPQVVEALEKKGFHNCTPIQALALPLTLAGRDVAG-QAQTGTGKTMAFLTATFHYLLSHPAPED 78 (423)
T ss_pred CCCCHhhCC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCcEEE-ECCCCchHHHHHHHHHHHHHHhcccccc
Confidence 345677766 777899999999999999999999999887766555 799999999987666654211
Q ss_pred --ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc------cccCCCeEEEEChHHHHHHHhcCC-CCC
Q 000854 208 --AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR-DLS 278 (1252)
Q Consensus 208 --~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~ 278 (1252)
..+.++++++|||+||.|+++.+........ ..++....... ....+++|+|+|||+|++++.... .++
T Consensus 79 ~~~~~~~~lil~PtreLa~Qi~~~~~~l~~~~~--~~v~~~~gg~~~~~~~~~l~~~~~IlV~TP~~l~~~l~~~~~~l~ 156 (423)
T PRK04837 79 RKVNQPRALIMAPTRELAVQIHADAEPLAQATG--LKLGLAYGGDGYDKQLKVLESGVDILIGTTGRLIDYAKQNHINLG 156 (423)
T ss_pred cccCCceEEEECCcHHHHHHHHHHHHHHhccCC--ceEEEEECCCCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcccc
Confidence 1245899999999999999998887754332 22332222111 123457999999999999987655 789
Q ss_pred ceeEEEEccccccccchhhHHHHHHHHHhcc--CCCcEEeeccCCCHHH--HH-hhhhcCCeEEEeccc---ceeEEEEe
Q 000854 279 RISCIIVDEAHERSLNTDLLLALVKDLLCRR--FDLRLVIMSATADAHQ--LS-KYFYDCGISHVVGRN---FPVDVRYV 350 (1252)
Q Consensus 279 ~ls~IVIDEaHER~l~~d~ll~llk~l~~~~--~~lqiIlmSATld~~~--l~-~~f~~~~vi~i~gr~---~pV~i~y~ 350 (1252)
++++||||||| ++++.+|...+...+...+ ...+.+++|||++... +. .++.+...+.+.... ..+...+.
T Consensus 157 ~v~~lViDEad-~l~~~~f~~~i~~i~~~~~~~~~~~~~l~SAT~~~~~~~~~~~~~~~p~~i~v~~~~~~~~~i~~~~~ 235 (423)
T PRK04837 157 AIQVVVLDEAD-RMFDLGFIKDIRWLFRRMPPANQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPEQKTGHRIKEELF 235 (423)
T ss_pred cccEEEEecHH-HHhhcccHHHHHHHHHhCCCccceeEEEEeccCCHHHHHHHHHHCCCCEEEEEcCCCcCCCceeEEEE
Confidence 99999999999 7888888777765555443 2456789999987543 22 333333233332111 11111111
Q ss_pred cCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCc
Q 000854 351 PCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGR 429 (1252)
Q Consensus 351 ~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~ 429 (1252)
. .....+...+..+......+++||||+++..++.+++.|...++.+..+||+|++++|..+++.| .|+
T Consensus 236 ~----------~~~~~k~~~l~~ll~~~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~ 305 (423)
T PRK04837 236 Y----------PSNEEKMRLLQTLIEEEWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGD 305 (423)
T ss_pred e----------CCHHHHHHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCC
Confidence 1 11234455565666556678999999999999999999999999999999999999999999999 899
Q ss_pred eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 430 RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 430 ~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
.+|||||+++++|||+|+|++||++++|... ++|+||+|||||.| .|.++.|+++++.
T Consensus 306 ~~vLVaTdv~~rGiDip~v~~VI~~d~P~s~------------------~~yiqR~GR~gR~G~~G~ai~~~~~~~~ 364 (423)
T PRK04837 306 LDILVATDVAARGLHIPAVTHVFNYDLPDDC------------------EDYVHRIGRTGRAGASGHSISLACEEYA 364 (423)
T ss_pred CcEEEEechhhcCCCccccCEEEEeCCCCch------------------hheEeccccccCCCCCeeEEEEeCHHHH
Confidence 9999999999999999999999999997644 88999999999997 9999999998864
No 24
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=100.00 E-value=3.3e-41 Score=385.67 Aligned_cols=337 Identities=20% Similarity=0.261 Sum_probs=273.5
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc----cccc-
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS----GIAA- 209 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~----~~~~- 209 (1252)
.+..|.++. +...++++++..++..|+.+|++.|+.++.+++++. .|.||||||++++.++++. .++.
T Consensus 67 ~~~kF~dlp------ls~~t~kgLke~~fv~~teiQ~~~Ip~aL~G~DvlG-AAkTGSGKTLAFlvPvlE~L~r~kWs~~ 139 (758)
T KOG0343|consen 67 TIKKFADLP------LSQKTLKGLKEAKFVKMTEIQRDTIPMALQGHDVLG-AAKTGSGKTLAFLVPVLEALYRLKWSPT 139 (758)
T ss_pred hhhhHHhCC------CchHHHHhHhhcCCccHHHHHHhhcchhccCccccc-ccccCCCceeeehHHHHHHHHHcCCCCC
Confidence 344566655 667799999999999999999999999999999988 6999999999977666664 3333
Q ss_pred -CCeEEecCcHHHHHHHHHHHHHHHhcCC--CCCceEEEe-cCCCccccCCCeEEEEChHHHHHHHhcCC--CCCceeEE
Q 000854 210 -EQSIVCTQPRKIAAISLAQRVREESRGC--YEDDSVICY-PSFSSAQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCI 283 (1252)
Q Consensus 210 -~~~ILv~qPrR~LA~qva~rv~~~~~~~--~~~~~vg~~-~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~I 283 (1252)
+-.+||+.|||+||.|+.+.+.+..... ..|..+|+. ..++...-...+|+|||||+|+++|...+ .-+++.++
T Consensus 140 DGlGalIISPTRELA~QtFevL~kvgk~h~fSaGLiiGG~~~k~E~eRi~~mNILVCTPGRLLQHmde~~~f~t~~lQmL 219 (758)
T KOG0343|consen 140 DGLGALIISPTRELALQTFEVLNKVGKHHDFSAGLIIGGKDVKFELERISQMNILVCTPGRLLQHMDENPNFSTSNLQML 219 (758)
T ss_pred CCceeEEecchHHHHHHHHHHHHHHhhccccccceeecCchhHHHHHhhhcCCeEEechHHHHHHhhhcCCCCCCcceEE
Confidence 3478999999999999999998875322 223333331 12333334568999999999999999988 56789999
Q ss_pred EEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC--CHHHHHhhhhcCCeEEEec----ccce--eEEEEecCCCC
Q 000854 284 IVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA--DAHQLSKYFYDCGISHVVG----RNFP--VDVRYVPCATA 355 (1252)
Q Consensus 284 VIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl--d~~~l~~~f~~~~vi~i~g----r~~p--V~i~y~~~~~s 355 (1252)
|+|||| |+++++|-..+-.++...++..|+++||||. .+..+++.-...|.+.-.. ...| ....|..
T Consensus 220 vLDEAD-R~LDMGFk~tL~~Ii~~lP~~RQTLLFSATqt~svkdLaRLsL~dP~~vsvhe~a~~atP~~L~Q~y~~---- 294 (758)
T KOG0343|consen 220 VLDEAD-RMLDMGFKKTLNAIIENLPKKRQTLLFSATQTKSVKDLARLSLKDPVYVSVHENAVAATPSNLQQSYVI---- 294 (758)
T ss_pred EeccHH-HHHHHhHHHHHHHHHHhCChhheeeeeecccchhHHHHHHhhcCCCcEEEEeccccccChhhhhheEEE----
Confidence 999999 9999999999999999999999999999995 4666777644444332211 1111 1222222
Q ss_pred CCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC--CCCCeeEeecCCCCHHhhhhhcccC-CCceEE
Q 000854 356 GTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFD--APSAVALPFHGQLSFDEQFCVFKSY-PGRRKV 432 (1252)
Q Consensus 356 ~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~--~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kV 432 (1252)
..+++++..++....++...++|||+.|.+++..+++.++ .+|+.+..|||.|++..|..++..| ..+.-|
T Consensus 295 ------v~l~~Ki~~L~sFI~shlk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~~~~v 368 (758)
T KOG0343|consen 295 ------VPLEDKIDMLWSFIKSHLKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRKRAVV 368 (758)
T ss_pred ------EehhhHHHHHHHHHHhccccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHhcceE
Confidence 2357888999999999999999999999999999999997 4789999999999999999999999 778899
Q ss_pred EEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhcc
Q 000854 433 IFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFET 507 (1252)
Q Consensus 433 LVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~ 507 (1252)
|+|||+++||+|+|.|++||+++.|.+. ++|+||+||++|.. .|.|+.+.++.+.+.
T Consensus 369 LF~TDv~aRGLDFpaVdwViQ~DCPedv------------------~tYIHRvGRtAR~~~~G~sll~L~psEeE~ 426 (758)
T KOG0343|consen 369 LFCTDVAARGLDFPAVDWVIQVDCPEDV------------------DTYIHRVGRTARYKERGESLLMLTPSEEEA 426 (758)
T ss_pred EEeehhhhccCCCcccceEEEecCchhH------------------HHHHHHhhhhhcccCCCceEEEEcchhHHH
Confidence 9999999999999999999999887655 99999999999986 999999999887543
No 25
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=100.00 E-value=2e-40 Score=400.32 Aligned_cols=332 Identities=19% Similarity=0.228 Sum_probs=255.7
Q ss_pred cccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc--------c
Q 000854 138 RFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA--------A 209 (1252)
Q Consensus 138 ~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~--------~ 209 (1252)
+|++++ +.+++++.+.++++..|+..|+++|+.++.+++ ++++||||||||+++..++++.... .
T Consensus 2 ~f~~l~------l~~~l~~~l~~~g~~~pt~iQ~~ai~~il~g~d-vlv~apTGsGKTla~~lpil~~l~~~~~~~~~~~ 74 (456)
T PRK10590 2 SFDSLG------LSPDILRAVAEQGYREPTPIQQQAIPAVLEGRD-LMASAQTGTGKTAGFTLPLLQHLITRQPHAKGRR 74 (456)
T ss_pred CHHHcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCC-EEEECCCCCcHHHHHHHHHHHHhhhcccccccCC
Confidence 466655 677799999999999999999999999887765 5558999999999877666653211 1
Q ss_pred CCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEE
Q 000854 210 EQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCI 283 (1252)
Q Consensus 210 ~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~I 283 (1252)
..++|+++|||+||.|+.+.+......... .......... .....+++|+|+|||+|++.+.... .++++++|
T Consensus 75 ~~~aLil~PtreLa~Qi~~~~~~~~~~~~~-~~~~~~gg~~~~~~~~~l~~~~~IiV~TP~rL~~~~~~~~~~l~~v~~l 153 (456)
T PRK10590 75 PVRALILTPTRELAAQIGENVRDYSKYLNI-RSLVVFGGVSINPQMMKLRGGVDVLVATPGRLLDLEHQNAVKLDQVEIL 153 (456)
T ss_pred CceEEEEeCcHHHHHHHHHHHHHHhccCCC-EEEEEECCcCHHHHHHHHcCCCcEEEEChHHHHHHHHcCCcccccceEE
Confidence 237999999999999999999887543221 1122211111 1123468999999999999887665 78999999
Q ss_pred EEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHHhhhhcCC-eEEEecccc---eeEEEEecCCCCCC
Q 000854 284 IVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLSKYFYDCG-ISHVVGRNF---PVDVRYVPCATAGT 357 (1252)
Q Consensus 284 VIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~~~f~~~~-vi~i~gr~~---pV~i~y~~~~~s~~ 357 (1252)
|||||| ++++.++...+...+....++.|+++||||++.+ .+...+...+ .+.+..+.. .+...+...
T Consensus 154 ViDEah-~ll~~~~~~~i~~il~~l~~~~q~l~~SAT~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~i~~~~~~~----- 227 (456)
T PRK10590 154 VLDEAD-RMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTASEQVTQHVHFV----- 227 (456)
T ss_pred EeecHH-HHhccccHHHHHHHHHhCCccCeEEEEeCCCcHHHHHHHHHHcCCCeEEEEecccccccceeEEEEEc-----
Confidence 999999 8888888888777777777888999999998753 4444333333 333322211 111122111
Q ss_pred ccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEec
Q 000854 358 SAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFAT 436 (1252)
Q Consensus 358 ~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVAT 436 (1252)
........+..+.......++||||+++.+++.+++.|...++.+..+||+|++++|.++++.| +|+.+|||||
T Consensus 228 -----~~~~k~~~l~~l~~~~~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~~~iLVaT 302 (456)
T PRK10590 228 -----DKKRKRELLSQMIGKGNWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGDIRVLVAT 302 (456)
T ss_pred -----CHHHHHHHHHHHHHcCCCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEc
Confidence 1123344555556556678999999999999999999999999999999999999999999999 8999999999
Q ss_pred hhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 437 NVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 437 niae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
+++++|||+|+|++||++++|... .+|+||+|||||.+ .|.|+.+++.++..
T Consensus 303 dv~~rGiDip~v~~VI~~~~P~~~------------------~~yvqR~GRaGR~g~~G~ai~l~~~~d~~ 355 (456)
T PRK10590 303 DIAARGLDIEELPHVVNYELPNVP------------------EDYVHRIGRTGRAAATGEALSLVCVDEHK 355 (456)
T ss_pred cHHhcCCCcccCCEEEEeCCCCCH------------------HHhhhhccccccCCCCeeEEEEecHHHHH
Confidence 999999999999999999987654 88999999999997 89999999987643
No 26
>PRK00254 ski2-like helicase; Provisional
Probab=100.00 E-value=1.8e-39 Score=411.81 Aligned_cols=428 Identities=15% Similarity=0.112 Sum_probs=294.7
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
++..+.+.+++.++..|.+.|.+++...+..++++++++|||||||+++..+++......+.++++++|+++||.|.+++
T Consensus 8 l~~~~~~~l~~~g~~~l~~~Q~~ai~~~~~~g~nvlv~apTGsGKT~~~~l~il~~l~~~~~~~l~l~P~~aLa~q~~~~ 87 (720)
T PRK00254 8 VDERIKRVLKERGIEELYPPQAEALKSGVLEGKNLVLAIPTASGKTLVAEIVMVNKLLREGGKAVYLVPLKALAEEKYRE 87 (720)
T ss_pred CCHHHHHHHHhCCCCCCCHHHHHHHHHHHhCCCcEEEECCCCcHHHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHHH
Confidence 66778999999999999999999999877778888889999999999887776665444467899999999999999999
Q ss_pred HHHHhcCCCCCceEEEecC-CC--ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHH
Q 000854 230 VREESRGCYEDDSVICYPS-FS--SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDL 305 (1252)
Q Consensus 230 v~~~~~~~~~~~~vg~~~~-~~--~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l 305 (1252)
+.... . .+..++...+ .. .....+++|+|+||+++...+.... .++++++||+||+| ...+.+....+...+
T Consensus 88 ~~~~~-~--~g~~v~~~~Gd~~~~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~~l~lvViDE~H-~l~~~~rg~~le~il 163 (720)
T PRK00254 88 FKDWE-K--LGLRVAMTTGDYDSTDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKLVVADEIH-LIGSYDRGATLEMIL 163 (720)
T ss_pred HHHHh-h--cCCEEEEEeCCCCCchhhhccCCEEEEcHHHHHHHHhCCchhhhcCCEEEEcCcC-ccCCccchHHHHHHH
Confidence 87642 1 1233333221 11 1112457999999999988776544 78999999999999 455444444444444
Q ss_pred HhccCCCcEEeeccCC-CHHHHHhhhhcCCeEEEecccceeEE--EEecCCCCCCccccchHHHHHHHHHHhhhcCCCCc
Q 000854 306 LCRRFDLRLVIMSATA-DAHQLSKYFYDCGISHVVGRNFPVDV--RYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGT 382 (1252)
Q Consensus 306 ~~~~~~lqiIlmSATl-d~~~l~~~f~~~~vi~i~gr~~pV~i--~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~ 382 (1252)
.....+.|+|+||||+ |++.+++|++. +.+....+..|... .+.............+.......+.+.. ..+++
T Consensus 164 ~~l~~~~qiI~lSATl~n~~~la~wl~~-~~~~~~~rpv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i--~~~~~ 240 (720)
T PRK00254 164 THMLGRAQILGLSATVGNAEELAEWLNA-ELVVSDWRPVKLRKGVFYQGFLFWEDGKIERFPNSWESLVYDAV--KKGKG 240 (720)
T ss_pred HhcCcCCcEEEEEccCCCHHHHHHHhCC-ccccCCCCCCcceeeEecCCeeeccCcchhcchHHHHHHHHHHH--HhCCC
Confidence 4556779999999996 68889999863 33222223222211 1111000000000111122233333333 24689
Q ss_pred EEEEeCCHHHHHHHHHHcCC---------------------------------CCCeeEeecCCCCHHhhhhhcccC-CC
Q 000854 383 ILAFLTSKMEVEWACEKFDA---------------------------------PSAVALPFHGQLSFDEQFCVFKSY-PG 428 (1252)
Q Consensus 383 iLVFl~s~~eie~la~~L~~---------------------------------~~~~v~~LHg~Ls~~eR~~v~~~f-~G 428 (1252)
+||||+|++.++.++..|.. ....+.++||+|++++|..+++.| +|
T Consensus 241 vLVF~~sr~~~~~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~~gv~~hHagl~~~eR~~ve~~F~~G 320 (720)
T PRK00254 241 ALVFVNTRRSAEKEALELAKKIKRFLTKPELRALKELADSLEENPTNEKLKKALRGGVAFHHAGLGRTERVLIEDAFREG 320 (720)
T ss_pred EEEEEcChHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHhcCCCcHHHHHHHhhCEEEeCCCCCHHHHHHHHHHHHCC
Confidence 99999999999887655521 123589999999999999999999 89
Q ss_pred ceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhh-
Q 000854 429 RRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSD- 504 (1252)
Q Consensus 429 ~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d- 504 (1252)
.++|||||+++++|||+|++++||... .+|+ ..+ ..+++..+|.||+|||||.+ .|.++.+.+.++
T Consensus 321 ~i~VLvaT~tLa~Gvnipa~~vVI~~~----~~~~-~~~-----~~~~~~~~~~Qm~GRAGR~~~d~~G~~ii~~~~~~~ 390 (720)
T PRK00254 321 LIKVITATPTLSAGINLPAFRVIIRDT----KRYS-NFG-----WEDIPVLEIQQMMGRAGRPKYDEVGEAIIVATTEEP 390 (720)
T ss_pred CCeEEEeCcHHhhhcCCCceEEEECCc----eEcC-CCC-----ceeCCHHHHHHhhhccCCCCcCCCceEEEEecCcch
Confidence 999999999999999999999999643 2332 111 13446689999999999974 799999987543
Q ss_pred ---hccCC---------CCCCccccccchHHHHHHHhHcC-CCCcc--------ccccCCCCc----HHHHHHHHHHHHH
Q 000854 505 ---FETRP---------LNQEPEIHRVHLGIAVLRILALG-IRDVQ--------GFDFIDAPS----AKAIEMAIRNLVQ 559 (1252)
Q Consensus 505 ---~~~~~---------~~~~PEI~r~~L~~~vL~lk~lg-i~~~~--------~f~~ldpP~----~~~l~~Al~~L~~ 559 (1252)
++.+. ..+.++. |...++...+.| +.+.. .|.+...|+ .+.+..+++.|.+
T Consensus 391 ~~~~~~~~~~~pe~l~s~l~~es~----l~~~ll~~i~~~~~~~~~~~~~~l~~Tf~~~~~~~~~~~~~~v~~~l~~L~~ 466 (720)
T PRK00254 391 SKLMERYIFGKPEKLFSMLSNESA----FRSQVLALITNFGVSNFKELVNFLERTFYAHQRKDLYSLEEKAKEIVYFLLE 466 (720)
T ss_pred HHHHHHHHhCCchhhhccCCchHH----HHHHHHHHHHhCCCCCHHHHHHHHHhCHHHHhhcChHhHHHHHHHHHHHHHH
Confidence 22221 1122223 334444444443 23221 122222344 3567788999999
Q ss_pred cCcccccC-CcccccHhHHhhhccCCChHhHHHHHHHhhc
Q 000854 560 LGAIKLNN-GVFELTEEGKFLVKLGIEPRLGKLILSCFRR 598 (1252)
Q Consensus 560 lgal~~~~-~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~ 598 (1252)
.|+|+.++ +.+.+|++|+.++.++++|..++.+..++..
T Consensus 467 ~~~i~~~~~~~~~~t~lG~~~s~~~i~~~t~~~~~~~l~~ 506 (720)
T PRK00254 467 NEFIDIDLEDRFIPLPLGIRTSQLYIDPLTAKKFKDAFPK 506 (720)
T ss_pred CCCeEEcCCCCEeeChHHHHHHHHhCCHHHHHHHHHHHHh
Confidence 99997643 5688999999999999999999999887653
No 27
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=100.00 E-value=4.2e-40 Score=395.53 Aligned_cols=332 Identities=17% Similarity=0.213 Sum_probs=257.8
Q ss_pred cccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc------cccCC
Q 000854 138 RFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG------IAAEQ 211 (1252)
Q Consensus 138 ~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~------~~~~~ 211 (1252)
+|++++ +.+.+++.+.+.++..|++.|+++|+.++.+++ ++++||||||||+++..+++... .....
T Consensus 2 ~f~~l~------l~~~l~~~l~~~g~~~p~~iQ~~ai~~~~~g~d-~l~~apTGsGKT~~~~lp~l~~l~~~~~~~~~~~ 74 (434)
T PRK11192 2 TFSELE------LDESLLEALQDKGYTRPTAIQAEAIPPALDGRD-VLGSAPTGTGKTAAFLLPALQHLLDFPRRKSGPP 74 (434)
T ss_pred CHhhcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCC-EEEECCCCChHHHHHHHHHHHHHhhccccCCCCc
Confidence 466655 677899999999999999999999999998766 55579999999998655554321 12245
Q ss_pred eEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC------ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEE
Q 000854 212 SIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS------SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCII 284 (1252)
Q Consensus 212 ~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~------~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IV 284 (1252)
++++++||++||.|+++.+........ ..++...+.. .....+.+|+|+|||+|++.+.... .+.++++||
T Consensus 75 ~~lil~Pt~eLa~Q~~~~~~~l~~~~~--~~v~~~~gg~~~~~~~~~l~~~~~IlV~Tp~rl~~~~~~~~~~~~~v~~lV 152 (434)
T PRK11192 75 RILILTPTRELAMQVADQARELAKHTH--LDIATITGGVAYMNHAEVFSENQDIVVATPGRLLQYIKEENFDCRAVETLI 152 (434)
T ss_pred eEEEECCcHHHHHHHHHHHHHHHccCC--cEEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCcCcccCCEEE
Confidence 899999999999999999888764322 2232221111 1123467899999999999987766 688999999
Q ss_pred EccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH---HHHhhhhcCCeE-EEeccc---ceeEEEEecCCCCCC
Q 000854 285 VDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH---QLSKYFYDCGIS-HVVGRN---FPVDVRYVPCATAGT 357 (1252)
Q Consensus 285 IDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~---~l~~~f~~~~vi-~i~gr~---~pV~i~y~~~~~s~~ 357 (1252)
||||| ++++.+|...+.......+...|+++||||++.. .+..++...++. .+.... ..+...+..
T Consensus 153 iDEah-~~l~~~~~~~~~~i~~~~~~~~q~~~~SAT~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~~~~~------ 225 (434)
T PRK11192 153 LDEAD-RMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDAVQDFAERLLNDPVEVEAEPSRRERKKIHQWYYR------ 225 (434)
T ss_pred EECHH-HHhCCCcHHHHHHHHHhCccccEEEEEEeecCHHHHHHHHHHHccCCEEEEecCCcccccCceEEEEE------
Confidence 99999 8888888877777766677778999999998754 344444333332 111110 011111111
Q ss_pred ccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEec
Q 000854 358 SAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFAT 436 (1252)
Q Consensus 358 ~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVAT 436 (1252)
.+....+...+..+......+++||||+++.+++.+++.|...++.+..+||+|++.+|..+++.| +|+.+|||||
T Consensus 226 ---~~~~~~k~~~l~~l~~~~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~~~vLVaT 302 (434)
T PRK11192 226 ---ADDLEHKTALLCHLLKQPEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGRVNVLVAT 302 (434)
T ss_pred ---eCCHHHHHHHHHHHHhcCCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCCCcEEEEc
Confidence 112345666777777666778999999999999999999999999999999999999999999999 8999999999
Q ss_pred hhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 437 NVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 437 niae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
+++++|||+|+|++||++++|. |...|+||+|||||.| .|.++.+++..+..
T Consensus 303 d~~~~GiDip~v~~VI~~d~p~------------------s~~~yiqr~GR~gR~g~~g~ai~l~~~~d~~ 355 (434)
T PRK11192 303 DVAARGIDIDDVSHVINFDMPR------------------SADTYLHRIGRTGRAGRKGTAISLVEAHDHL 355 (434)
T ss_pred cccccCccCCCCCEEEEECCCC------------------CHHHHhhcccccccCCCCceEEEEecHHHHH
Confidence 9999999999999999999865 4489999999999997 89999999887764
No 28
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=100.00 E-value=5.5e-40 Score=407.33 Aligned_cols=332 Identities=18% Similarity=0.227 Sum_probs=259.3
Q ss_pred cccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEe
Q 000854 138 RFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVC 215 (1252)
Q Consensus 138 ~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv 215 (1252)
+|++++ +.+.+++++.++++..|++.|+++|+.++.+++ ++++||||||||+++..++++... ....++||
T Consensus 7 ~f~~l~------L~~~ll~al~~~G~~~ptpiQ~~ai~~ll~g~d-vl~~ApTGsGKT~af~lpll~~l~~~~~~~~~LI 79 (629)
T PRK11634 7 TFADLG------LKAPILEALNDLGYEKPSPIQAECIPHLLNGRD-VLGMAQTGSGKTAAFSLPLLHNLDPELKAPQILV 79 (629)
T ss_pred CHhhcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHHcCCC-EEEEcCCCCcHHHHHHHHHHHHhhhccCCCeEEE
Confidence 466665 778899999999999999999999999887765 555899999999998777765422 23458999
Q ss_pred cCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc-----cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEcccc
Q 000854 216 TQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS-----AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAH 289 (1252)
Q Consensus 216 ~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaH 289 (1252)
++|||+||.|+++.+............+..+..... ....+++|+|+|||+|++++.... .++++++|||||||
T Consensus 80 L~PTreLa~Qv~~~l~~~~~~~~~i~v~~~~gG~~~~~q~~~l~~~~~IVVgTPgrl~d~l~r~~l~l~~l~~lVlDEAd 159 (629)
T PRK11634 80 LAPTRELAVQVAEAMTDFSKHMRGVNVVALYGGQRYDVQLRALRQGPQIVVGTPGRLLDHLKRGTLDLSKLSGLVLDEAD 159 (629)
T ss_pred EeCcHHHHHHHHHHHHHHHhhcCCceEEEEECCcCHHHHHHHhcCCCCEEEECHHHHHHHHHcCCcchhhceEEEeccHH
Confidence 999999999999999887643322222222322211 123468999999999999998766 78999999999999
Q ss_pred ccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHH-hhhhcCCeEEEecccc---eeEEEEecCCCCCCccccch
Q 000854 290 ERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLS-KYFYDCGISHVVGRNF---PVDVRYVPCATAGTSAVASY 363 (1252)
Q Consensus 290 ER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~-~~f~~~~vi~i~gr~~---pV~i~y~~~~~s~~~~~~~~ 363 (1252)
.+++.+|...+..++...+++.|+++||||++.. .+. .|+.+...+.+..... .+...|... .
T Consensus 160 -~ml~~gf~~di~~Il~~lp~~~q~llfSAT~p~~i~~i~~~~l~~~~~i~i~~~~~~~~~i~q~~~~v----------~ 228 (629)
T PRK11634 160 -EMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPQEVRIQSSVTTRPDISQSYWTV----------W 228 (629)
T ss_pred -HHhhcccHHHHHHHHHhCCCCCeEEEEEccCChhHHHHHHHHcCCCeEEEccCccccCCceEEEEEEe----------c
Confidence 6888888888888887788889999999998743 233 4444443343332211 122222211 1
Q ss_pred HHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhc
Q 000854 364 VSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETS 442 (1252)
Q Consensus 364 ~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~G 442 (1252)
...+...+..++......++||||+++.+++.+++.|...++.+..+||+|++.+|.++++.| +|+.+|||||+++++|
T Consensus 229 ~~~k~~~L~~~L~~~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~~~ILVATdv~arG 308 (629)
T PRK11634 229 GMRKNEALVRFLEAEDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGRLDILIATDVAARG 308 (629)
T ss_pred hhhHHHHHHHHHHhcCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCCCCEEEEcchHhcC
Confidence 123344455555556678999999999999999999999999999999999999999999999 8999999999999999
Q ss_pred CCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 443 LTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 443 IDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
||+|+|++||++++|... ++|+||+|||||.| .|.++.++++.+.
T Consensus 309 IDip~V~~VI~~d~P~~~------------------e~yvqRiGRtGRaGr~G~ai~~v~~~e~ 354 (629)
T PRK11634 309 LDVERISLVVNYDIPMDS------------------ESYVHRIGRTGRAGRAGRALLFVENRER 354 (629)
T ss_pred CCcccCCEEEEeCCCCCH------------------HHHHHHhccccCCCCcceEEEEechHHH
Confidence 999999999999987644 89999999999997 7999999987654
No 29
>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=8e-41 Score=357.28 Aligned_cols=343 Identities=16% Similarity=0.219 Sum_probs=272.6
Q ss_pred cCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-cc-
Q 000854 130 YDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-GI- 207 (1252)
Q Consensus 130 ~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-~~- 207 (1252)
++.-....+|+++| +..++++++...|+..|..+|+.+|+.++.+++++. +|..|+|||..+..-++.. ..
T Consensus 20 s~~~~v~~~F~~Mg------l~edlLrgiY~yGfekPS~IQqrAi~~IlkGrdVia-QaqSGTGKTa~~si~vlq~~d~~ 92 (400)
T KOG0328|consen 20 SEKVKVIPTFDDMG------LKEDLLRGIYAYGFEKPSAIQQRAIPQILKGRDVIA-QAQSGTGKTATFSISVLQSLDIS 92 (400)
T ss_pred ccCcccccchhhcC------chHHHHHHHHHhccCCchHHHhhhhhhhhcccceEE-EecCCCCceEEEEeeeeeecccc
Confidence 44455677899888 888999999999999999999999999999988776 8999999996533222221 11
Q ss_pred ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc--eEEEecCCC--ccccCCCeEEEEChHHHHHHHhcCC-CCCceeE
Q 000854 208 AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD--SVICYPSFS--SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISC 282 (1252)
Q Consensus 208 ~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~--~vg~~~~~~--~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~ 282 (1252)
....+++|+.|||+||.|+.+.+..+.+...... .+|+..-.+ .....+.+++.+|||++++++.... .-+.+++
T Consensus 93 ~r~tQ~lilsPTRELa~Qi~~vi~alg~~mnvq~hacigg~n~gedikkld~G~hvVsGtPGrv~dmikr~~L~tr~vkm 172 (400)
T KOG0328|consen 93 VRETQALILSPTRELAVQIQKVILALGDYMNVQCHACIGGKNLGEDIKKLDYGQHVVSGTPGRVLDMIKRRSLRTRAVKM 172 (400)
T ss_pred cceeeEEEecChHHHHHHHHHHHHHhcccccceEEEEecCCccchhhhhhcccceEeeCCCchHHHHHHhccccccceeE
Confidence 2246899999999999999999988764322211 111111111 2233578999999999999997766 6788999
Q ss_pred EEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHH--hhhhcCCeEEEeccc-ce---eEEEEecCCCCC
Q 000854 283 IIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLS--KYFYDCGISHVVGRN-FP---VDVRYVPCATAG 356 (1252)
Q Consensus 283 IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~--~~f~~~~vi~i~gr~-~p---V~i~y~~~~~s~ 356 (1252)
+|+||||| +++.+|-.++.......+|+.|++++|||++.+.+. +.|...|+.....|. -+ ++.+|....
T Consensus 173 lVLDEaDe-mL~kgfk~Qiydiyr~lp~~~Qvv~~SATlp~eilemt~kfmtdpvrilvkrdeltlEgIKqf~v~ve--- 248 (400)
T KOG0328|consen 173 LVLDEADE-MLNKGFKEQIYDIYRYLPPGAQVVLVSATLPHEILEMTEKFMTDPVRILVKRDELTLEGIKQFFVAVE--- 248 (400)
T ss_pred EEeccHHH-HHHhhHHHHHHHHHHhCCCCceEEEEeccCcHHHHHHHHHhcCCceeEEEecCCCchhhhhhheeeec---
Confidence 99999995 788899999999999999999999999999976544 555544443222211 11 222333221
Q ss_pred CccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEe
Q 000854 357 TSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFA 435 (1252)
Q Consensus 357 ~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVA 435 (1252)
..+.+.+.+..+.....-.+.+|||+|+..++++.+.+++..+.|..+||+|++++|.+++..| +|+.+||++
T Consensus 249 ------~EewKfdtLcdLYd~LtItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~SrvLit 322 (400)
T KOG0328|consen 249 ------KEEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKSRVLIT 322 (400)
T ss_pred ------hhhhhHhHHHHHhhhhehheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCceEEEE
Confidence 1234677777777777788999999999999999999999999999999999999999999999 899999999
Q ss_pred chhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhcc
Q 000854 436 TNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFET 507 (1252)
Q Consensus 436 Tniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~ 507 (1252)
||+-+||+|+|.|.+||||++|... +.|+||+||.||.| .|.++.++..+|...
T Consensus 323 TDVwaRGiDv~qVslviNYDLP~nr------------------e~YIHRIGRSGRFGRkGvainFVk~~d~~~ 377 (400)
T KOG0328|consen 323 TDVWARGIDVQQVSLVINYDLPNNR------------------ELYIHRIGRSGRFGRKGVAINFVKSDDLRI 377 (400)
T ss_pred echhhccCCcceeEEEEecCCCccH------------------HHHhhhhccccccCCcceEEEEecHHHHHH
Confidence 9999999999999999999997654 88999999999997 999999999988653
No 30
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=100.00 E-value=3.9e-40 Score=403.18 Aligned_cols=336 Identities=16% Similarity=0.214 Sum_probs=251.8
Q ss_pred cCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc-----
Q 000854 132 ANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG----- 206 (1252)
Q Consensus 132 ~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~----- 206 (1252)
.+.++.+|++++ +++.+++.+.+.|+..|++.|+++|+.++.++++ +++||||||||+++..+++...
T Consensus 116 ~p~pi~~f~~~~------l~~~l~~~L~~~g~~~ptpiQ~~aip~il~g~dv-iv~ApTGSGKTlayllPil~~l~~~~~ 188 (518)
T PLN00206 116 VPPPILSFSSCG------LPPKLLLNLETAGYEFPTPIQMQAIPAALSGRSL-LVSADTGSGKTASFLVPIISRCCTIRS 188 (518)
T ss_pred CCchhcCHHhCC------CCHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCE-EEEecCCCCccHHHHHHHHHHHHhhcc
Confidence 345667777766 7778999999999999999999999999876655 5579999999998766665421
Q ss_pred ----cccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-C
Q 000854 207 ----IAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-D 276 (1252)
Q Consensus 207 ----~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~ 276 (1252)
...+.++++++|||+||.|+.+.+......... ..+....+.. .....+.+|+|+|||+|++.+.... .
T Consensus 189 ~~~~~~~~~~aLIL~PTreLa~Qi~~~~~~l~~~~~~-~~~~~~gG~~~~~q~~~l~~~~~IiV~TPgrL~~~l~~~~~~ 267 (518)
T PLN00206 189 GHPSEQRNPLAMVLTPTRELCVQVEDQAKVLGKGLPF-KTALVVGGDAMPQQLYRIQQGVELIVGTPGRLIDLLSKHDIE 267 (518)
T ss_pred ccccccCCceEEEEeCCHHHHHHHHHHHHHHhCCCCc-eEEEEECCcchHHHHHHhcCCCCEEEECHHHHHHHHHcCCcc
Confidence 113568999999999999999888877543321 1122211111 1123468999999999999987655 8
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCH--HHHHhhhhcCCeEEEecccc-e---eEEEEe
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADA--HQLSKYFYDCGISHVVGRNF-P---VDVRYV 350 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~-p---V~i~y~ 350 (1252)
++++++||||||| ++++.+|...+.+.+... ++.|++++|||++. +.++..+...++....+... + +...+.
T Consensus 268 l~~v~~lViDEad-~ml~~gf~~~i~~i~~~l-~~~q~l~~SATl~~~v~~l~~~~~~~~~~i~~~~~~~~~~~v~q~~~ 345 (518)
T PLN00206 268 LDNVSVLVLDEVD-CMLERGFRDQVMQIFQAL-SQPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAI 345 (518)
T ss_pred chheeEEEeecHH-HHhhcchHHHHHHHHHhC-CCCcEEEEEeeCCHHHHHHHHHhCCCCEEEEeCCCCCCCcceeEEEE
Confidence 9999999999999 788888877766655444 67899999999874 45666665444433222211 1 111111
Q ss_pred cCCCCCCccccchHHHHHHHHHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCC-CCCeeEeecCCCCHHhhhhhcccC-
Q 000854 351 PCATAGTSAVASYVSDVVRMVGEVHTT--EKEGTILAFLTSKMEVEWACEKFDA-PSAVALPFHGQLSFDEQFCVFKSY- 426 (1252)
Q Consensus 351 ~~~~s~~~~~~~~~~~~~~~l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~-~~~~v~~LHg~Ls~~eR~~v~~~f- 426 (1252)
... .......+..++.. ...+++||||+++..++.+++.|.. .++.+..+||+|++++|..+++.|
T Consensus 346 ~~~----------~~~k~~~l~~~l~~~~~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr 415 (518)
T PLN00206 346 WVE----------TKQKKQKLFDILKSKQHFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFL 415 (518)
T ss_pred ecc----------chhHHHHHHHHHHhhcccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHH
Confidence 110 01112223333322 2346899999999999999999974 688999999999999999999999
Q ss_pred CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 427 PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 427 ~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
.|+.+|||||+++++|||+|+|++||++|+|.. .++|+||+|||||.| .|.++.++++++.
T Consensus 416 ~G~~~ILVaTdvl~rGiDip~v~~VI~~d~P~s------------------~~~yihRiGRaGR~g~~G~ai~f~~~~~~ 477 (518)
T PLN00206 416 VGEVPVIVATGVLGRGVDLLRVRQVIIFDMPNT------------------IKEYIHQIGRASRMGEKGTAIVFVNEEDR 477 (518)
T ss_pred CCCCCEEEEecHhhccCCcccCCEEEEeCCCCC------------------HHHHHHhccccccCCCCeEEEEEEchhHH
Confidence 899999999999999999999999999998764 489999999999997 8999999998764
No 31
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=9.7e-40 Score=402.70 Aligned_cols=330 Identities=15% Similarity=0.147 Sum_probs=251.7
Q ss_pred cccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc---------c
Q 000854 138 RFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI---------A 208 (1252)
Q Consensus 138 ~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~---------~ 208 (1252)
+|++++ +.+.+++.+.+.++..|+.+|+++|+.++.++++++ +||||||||+++..++++... .
T Consensus 10 ~f~~l~------l~~~l~~~L~~~g~~~ptpiQ~~~ip~~l~G~Dvi~-~ApTGSGKTlafllpil~~l~~~~~~~~~~~ 82 (572)
T PRK04537 10 TFSSFD------LHPALLAGLESAGFTRCTPIQALTLPVALPGGDVAG-QAQTGTGKTLAFLVAVMNRLLSRPALADRKP 82 (572)
T ss_pred ChhhcC------CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEE-EcCCCCcHHHHHHHHHHHHHHhccccccccc
Confidence 566665 777899999999999999999999999888776555 799999999987776665321 1
Q ss_pred cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE-ecCCC-----ccccCCCeEEEEChHHHHHHHhcCC--CCCce
Q 000854 209 AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC-YPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR--DLSRI 280 (1252)
Q Consensus 209 ~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~-~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~l 280 (1252)
...++||++|||+||.|+++.+.++..... ..++. +.... .....+.+|+|+|||+|++.+.... .+..+
T Consensus 83 ~~~raLIl~PTreLa~Qi~~~~~~l~~~~~--i~v~~l~Gg~~~~~q~~~l~~~~dIiV~TP~rL~~~l~~~~~~~l~~v 160 (572)
T PRK04537 83 EDPRALILAPTRELAIQIHKDAVKFGADLG--LRFALVYGGVDYDKQRELLQQGVDVIIATPGRLIDYVKQHKVVSLHAC 160 (572)
T ss_pred CCceEEEEeCcHHHHHHHHHHHHHHhccCC--ceEEEEECCCCHHHHHHHHhCCCCEEEECHHHHHHHHHhccccchhhe
Confidence 135899999999999999999888754322 22222 11111 1123457999999999999987653 68889
Q ss_pred eEEEEccccccccchhhHHHHHHHHHhccC--CCcEEeeccCCCHHHH---HhhhhcCCeEEEecccc---eeEEEEecC
Q 000854 281 SCIIVDEAHERSLNTDLLLALVKDLLCRRF--DLRLVIMSATADAHQL---SKYFYDCGISHVVGRNF---PVDVRYVPC 352 (1252)
Q Consensus 281 s~IVIDEaHER~l~~d~ll~llk~l~~~~~--~lqiIlmSATld~~~l---~~~f~~~~vi~i~gr~~---pV~i~y~~~ 352 (1252)
++||||||| ++++.+|...+...+..... +.|+++||||++.... ..++.+...+.+..... .+...+...
T Consensus 161 ~~lViDEAh-~lld~gf~~~i~~il~~lp~~~~~q~ll~SATl~~~v~~l~~~~l~~p~~i~v~~~~~~~~~i~q~~~~~ 239 (572)
T PRK04537 161 EICVLDEAD-RMFDLGFIKDIRFLLRRMPERGTRQTLLFSATLSHRVLELAYEHMNEPEKLVVETETITAARVRQRIYFP 239 (572)
T ss_pred eeeEecCHH-HHhhcchHHHHHHHHHhcccccCceEEEEeCCccHHHHHHHHHHhcCCcEEEeccccccccceeEEEEec
Confidence 999999999 77888887777665554443 6899999999875432 23443322232222111 111111111
Q ss_pred CCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceE
Q 000854 353 ATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRK 431 (1252)
Q Consensus 353 ~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~k 431 (1252)
...+....+..++......++||||+++..++.+++.|...++.+..+||+|++.+|.++++.| +|+.+
T Consensus 240 ----------~~~~k~~~L~~ll~~~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~~~ 309 (572)
T PRK04537 240 ----------ADEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQLE 309 (572)
T ss_pred ----------CHHHHHHHHHHHHhcccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCCCe
Confidence 1233444555556656778999999999999999999999999999999999999999999999 89999
Q ss_pred EEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 432 VIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 432 VLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
|||||+++++|||+|+|++||++++|.. ..+|+||+|||||.| .|.|+.|+++.+.
T Consensus 310 VLVaTdv~arGIDip~V~~VInyd~P~s------------------~~~yvqRiGRaGR~G~~G~ai~~~~~~~~ 366 (572)
T PRK04537 310 ILVATDVAARGLHIDGVKYVYNYDLPFD------------------AEDYVHRIGRTARLGEEGDAISFACERYA 366 (572)
T ss_pred EEEEehhhhcCCCccCCCEEEEcCCCCC------------------HHHHhhhhcccccCCCCceEEEEecHHHH
Confidence 9999999999999999999999998654 489999999999997 9999999988653
No 32
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2e-39 Score=356.57 Aligned_cols=340 Identities=17% Similarity=0.237 Sum_probs=261.5
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc--cCCe
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA--AEQS 212 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~--~~~~ 212 (1252)
...+|+++|+.+| +.+.++.++...|+++|+..|+.++++++.+. +|.||||||+++..++++.... .+--
T Consensus 5 t~~~F~~LGl~~W------lve~l~~l~i~~pTpiQ~~cIpkILeGrdcig-~AkTGsGKT~AFaLPil~rLsedP~giF 77 (442)
T KOG0340|consen 5 TAKPFSILGLSPW------LVEQLKALGIKKPTPIQQACIPKILEGRDCIG-CAKTGSGKTAAFALPILNRLSEDPYGIF 77 (442)
T ss_pred ccCchhhcCccHH------HHHHHHHhcCCCCCchHhhhhHHHhccccccc-ccccCCCcchhhhHHHHHhhccCCCcce
Confidence 4578999995555 89999999999999999999999999998888 7999999999988888875322 2336
Q ss_pred EEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe----cCCCccccCCCeEEEEChHHHHHHHhcCC-----CCCceeEE
Q 000854 213 IVCTQPRKIAAISLAQRVREESRGCYEDDSVICY----PSFSSAQHFDSKVIYMTDHCLLQHFMNDR-----DLSRISCI 283 (1252)
Q Consensus 213 ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~----~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-----~L~~ls~I 283 (1252)
.+++.|||+||.|+++++............+.+. ..+....+.+++++++|||+|-.++.++. .+.++.++
T Consensus 78 alvlTPTrELA~QiaEQF~alGk~l~lK~~vivGG~d~i~qa~~L~~rPHvVvatPGRlad~l~sn~~~~~~~~~rlkfl 157 (442)
T KOG0340|consen 78 ALVLTPTRELALQIAEQFIALGKLLNLKVSVIVGGTDMIMQAAILSDRPHVVVATPGRLADHLSSNLGVCSWIFQRLKFL 157 (442)
T ss_pred EEEecchHHHHHHHHHHHHHhcccccceEEEEEccHHHhhhhhhcccCCCeEecCccccccccccCCccchhhhhceeeE
Confidence 7899999999999999999886544433333221 12223345689999999999999998874 78899999
Q ss_pred EEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCCC----Ccc
Q 000854 284 IVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAG----TSA 359 (1252)
Q Consensus 284 VIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~----~~~ 359 (1252)
|+|||| |+++.+|-..+.-.....++..|.+++|||++.. +...++ +++-.- +.....-.+..... ...
T Consensus 158 VlDEAD-rvL~~~f~d~L~~i~e~lP~~RQtLlfSATitd~-i~ql~~-~~i~k~----~a~~~e~~~~vstvetL~q~y 230 (442)
T KOG0340|consen 158 VLDEAD-RVLAGCFPDILEGIEECLPKPRQTLLFSATITDT-IKQLFG-CPITKS----IAFELEVIDGVSTVETLYQGY 230 (442)
T ss_pred Eecchh-hhhccchhhHHhhhhccCCCccceEEEEeehhhH-HHHhhc-CCcccc----cceEEeccCCCCchhhhhhhe
Confidence 999999 9999999888777777778888999999998643 333332 222110 11111100100000 000
Q ss_pred ccchHHHHHHHHHHhh---hcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEe
Q 000854 360 VASYVSDVVRMVGEVH---TTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFA 435 (1252)
Q Consensus 360 ~~~~~~~~~~~l~~i~---~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVA 435 (1252)
+......+-..+.+++ ++...+.++||+++..+|+.++..|+..++.+..+||.|++.+|...+.+| ++..+||+|
T Consensus 231 I~~~~~vkdaYLv~~Lr~~~~~~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~~~ilia 310 (442)
T KOG0340|consen 231 ILVSIDVKDAYLVHLLRDFENKENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNAARILIA 310 (442)
T ss_pred eecchhhhHHHHHHHHhhhhhccCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcCccEEEE
Confidence 0000111112222222 223679999999999999999999999999999999999999999999999 899999999
Q ss_pred chhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 436 TNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 436 Tniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
||+|+||+|||.|..|||+++|+.+ .+|+||+||++|+| .|.++.++++.|.+
T Consensus 311 TDVAsRGLDIP~V~LVvN~diPr~P------------------~~yiHRvGRtARAGR~G~aiSivt~rDv~ 364 (442)
T KOG0340|consen 311 TDVASRGLDIPTVELVVNHDIPRDP------------------KDYIHRVGRTARAGRKGMAISIVTQRDVE 364 (442)
T ss_pred echhhcCCCCCceeEEEecCCCCCH------------------HHHHHhhcchhcccCCcceEEEechhhHH
Confidence 9999999999999999999999977 88999999999997 89999999987653
No 33
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=100.00 E-value=2.1e-39 Score=369.58 Aligned_cols=326 Identities=17% Similarity=0.228 Sum_probs=256.6
Q ss_pred hhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc----cc--ccCCeEEecCcHHHH
Q 000854 149 RIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS----GI--AAEQSIVCTQPRKIA 222 (1252)
Q Consensus 149 rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~----~~--~~~~~ILv~qPrR~L 222 (1252)
.+.+..+++++++|+..-+.+|+..|+..+.+.++++ .|.||||||++++.+..+. .+ ..+..++++.|||+|
T Consensus 88 ~LS~~t~kAi~~~GF~~MT~VQ~~ti~pll~gkDvl~-~AKTGtGKTlAFLiPaie~l~k~~~~~r~~~~vlIi~PTREL 166 (543)
T KOG0342|consen 88 SLSPLTLKAIKEMGFETMTPVQQKTIPPLLEGKDVLA-AAKTGTGKTLAFLLPAIELLRKLKFKPRNGTGVLIICPTREL 166 (543)
T ss_pred ccCHHHHHHHHhcCccchhHHHHhhcCccCCCcccee-eeccCCCceeeehhHHHHHHHhcccCCCCCeeEEEecccHHH
Confidence 4788899999999999999999999999999986555 7999999999865555443 22 134478999999999
Q ss_pred HHHHHHHHHHHhcCCCCCceEEEecCCCc------cccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEccccccccc
Q 000854 223 AISLAQRVREESRGCYEDDSVICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAHERSLN 294 (1252)
Q Consensus 223 A~qva~rv~~~~~~~~~~~~vg~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaHER~l~ 294 (1252)
|.|++....+++.... +..+++..+..+ ....+++|+|+|||+|++++++.+ ...+++++|+|||| |.++
T Consensus 167 A~Q~~~eak~Ll~~h~-~~~v~~viGG~~~~~e~~kl~k~~niliATPGRLlDHlqNt~~f~~r~~k~lvlDEAD-rlLd 244 (543)
T KOG0342|consen 167 AMQIFAEAKELLKYHE-SITVGIVIGGNNFSVEADKLVKGCNILIATPGRLLDHLQNTSGFLFRNLKCLVLDEAD-RLLD 244 (543)
T ss_pred HHHHHHHHHHHHhhCC-CcceEEEeCCccchHHHHHhhccccEEEeCCchHHhHhhcCCcchhhccceeEeecch-hhhh
Confidence 9999999999875432 233444333222 223479999999999999999987 56777899999999 9999
Q ss_pred hhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHHhhhhcC-Ce-EEEecccce-----eEEEEecCCCCCCccccchHH
Q 000854 295 TDLLLALVKDLLCRRFDLRLVIMSATADAH--QLSKYFYDC-GI-SHVVGRNFP-----VDVRYVPCATAGTSAVASYVS 365 (1252)
Q Consensus 295 ~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~~~f~~~-~v-i~i~gr~~p-----V~i~y~~~~~s~~~~~~~~~~ 365 (1252)
.+|...+.+++...+...|.+++|||.+.+ .++...... ++ +.+.....+ ++.-|...+. ..
T Consensus 245 ~GF~~di~~Ii~~lpk~rqt~LFSAT~~~kV~~l~~~~L~~d~~~v~~~d~~~~~The~l~Qgyvv~~~---------~~ 315 (543)
T KOG0342|consen 245 IGFEEDVEQIIKILPKQRQTLLFSATQPSKVKDLARGALKRDPVFVNVDDGGERETHERLEQGYVVAPS---------DS 315 (543)
T ss_pred cccHHHHHHHHHhccccceeeEeeCCCcHHHHHHHHHhhcCCceEeecCCCCCcchhhcccceEEeccc---------cc
Confidence 999999999999999999999999998754 344433222 21 122111111 2222322221 12
Q ss_pred HHHHHHHHhhhc-CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcC
Q 000854 366 DVVRMVGEVHTT-EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSL 443 (1252)
Q Consensus 366 ~~~~~l~~i~~~-~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GI 443 (1252)
. ..++..+++. ....++||||+|...+..+++.|+...+.|..+||++++..|..++..| ..+.-||||||+++||+
T Consensus 316 ~-f~ll~~~LKk~~~~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaesgIL~cTDVaARGl 394 (543)
T KOG0342|consen 316 R-FSLLYTFLKKNIKRYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAESGILVCTDVAARGL 394 (543)
T ss_pred h-HHHHHHHHHHhcCCceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhcccceEEecchhhccC
Confidence 2 2333333333 3448999999999999999999999999999999999999999999999 78899999999999999
Q ss_pred CCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 444 TIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 444 DIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
|+|+|++||++|.|.+. ++|+||+||+||.| .|.++.+..+.+.
T Consensus 395 D~P~V~~VvQ~~~P~d~------------------~~YIHRvGRTaR~gk~G~alL~l~p~El 439 (543)
T KOG0342|consen 395 DIPDVDWVVQYDPPSDP------------------EQYIHRVGRTAREGKEGKALLLLAPWEL 439 (543)
T ss_pred CCCCceEEEEeCCCCCH------------------HHHHHHhccccccCCCceEEEEeChhHH
Confidence 99999999999998877 99999999999987 9999999988764
No 34
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6.4e-39 Score=362.91 Aligned_cols=343 Identities=16% Similarity=0.218 Sum_probs=265.8
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc-----cccCC--eEEecCcHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG-----IAAEQ--SIVCTQPRKIA 222 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~-----~~~~~--~ILv~qPrR~L 222 (1252)
+++++++++...|+..-++.|..+|+..+.+.|+++ .|+||||||++++.++++-. ..... ..+++.|||+|
T Consensus 13 L~~~l~~~l~~~GF~~mTpVQa~tIPlll~~KDVvv-eavTGSGKTlAFllP~le~i~rr~~~~~~~~vgalIIsPTREL 91 (567)
T KOG0345|consen 13 LSPWLLEALDESGFEKMTPVQAATIPLLLKNKDVVV-EAVTGSGKTLAFLLPMLEIIYRREAKTPPGQVGALIISPTREL 91 (567)
T ss_pred ccHHHHHHHHhcCCcccCHHHHhhhHHHhcCCceEE-EcCCCCCchhhHHHHHHHHHHhhccCCCccceeEEEecCcHHH
Confidence 667899999999999999999999999887777666 89999999999888887642 12222 57899999999
Q ss_pred HHHHHHHHHHHhcC---CCCCceEEEecCCCc---cccCCCeEEEEChHHHHHHHhcCC---CCCceeEEEEcccccccc
Q 000854 223 AISLAQRVREESRG---CYEDDSVICYPSFSS---AQHFDSKVIYMTDHCLLQHFMNDR---DLSRISCIIVDEAHERSL 293 (1252)
Q Consensus 223 A~qva~rv~~~~~~---~~~~~~vg~~~~~~~---~~~~~t~Iiv~Tpg~Ll~~L~~~~---~L~~ls~IVIDEaHER~l 293 (1252)
|.|+.+.+...... ......+|+....++ ....+++|+|+|||+|.++++... .+..++++|+|||| |.+
T Consensus 92 a~QI~~V~~~F~~~l~~l~~~l~vGG~~v~~Di~~fkee~~nIlVgTPGRL~di~~~~~~~l~~rsLe~LVLDEAD-rLl 170 (567)
T KOG0345|consen 92 ARQIREVAQPFLEHLPNLNCELLVGGRSVEEDIKTFKEEGPNILVGTPGRLLDILQREAEKLSFRSLEILVLDEAD-RLL 170 (567)
T ss_pred HHHHHHHHHHHHHhhhccceEEEecCccHHHHHHHHHHhCCcEEEeCchhHHHHHhchhhhccccccceEEecchH-hHh
Confidence 99998877766533 111122332111111 123578999999999999998744 45599999999999 999
Q ss_pred chhhHHHHHHHHHhccCCCcEEeeccCCC--HHHHHhhhhcCCeE-EEeccc---ce--eEEEEecCCCCCCccccchHH
Q 000854 294 NTDLLLALVKDLLCRRFDLRLVIMSATAD--AHQLSKYFYDCGIS-HVVGRN---FP--VDVRYVPCATAGTSAVASYVS 365 (1252)
Q Consensus 294 ~~d~ll~llk~l~~~~~~lqiIlmSATld--~~~l~~~f~~~~vi-~i~gr~---~p--V~i~y~~~~~s~~~~~~~~~~ 365 (1252)
+++|...+..++..+++..++=++|||.+ .+.+.......|+- .+.... .| +..+|.... ..
T Consensus 171 dmgFe~~~n~ILs~LPKQRRTGLFSATq~~~v~dL~raGLRNpv~V~V~~k~~~~tPS~L~~~Y~v~~----------a~ 240 (567)
T KOG0345|consen 171 DMGFEASVNTILSFLPKQRRTGLFSATQTQEVEDLARAGLRNPVRVSVKEKSKSATPSSLALEYLVCE----------AD 240 (567)
T ss_pred cccHHHHHHHHHHhcccccccccccchhhHHHHHHHHhhccCceeeeecccccccCchhhcceeeEec----------HH
Confidence 99999999999999999999999999976 44455554444432 222111 23 445555443 24
Q ss_pred HHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC--CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhc
Q 000854 366 DVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA--PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETS 442 (1252)
Q Consensus 366 ~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~--~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~G 442 (1252)
.+...+.+++.+...+++|||.+|...++..+..|.. ....+..+||.|++.+|.++++.| .....+++|||+|+||
T Consensus 241 eK~~~lv~~L~~~~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~~~~~vl~~TDVaARG 320 (567)
T KOG0345|consen 241 EKLSQLVHLLNNNKDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRKLSNGVLFCTDVAARG 320 (567)
T ss_pred HHHHHHHHHHhccccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHhccCceEEeehhhhcc
Confidence 5666677777778889999999999999988887764 567899999999999999999999 6678999999999999
Q ss_pred CCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh--hcc-CCCCCCccccc
Q 000854 443 LTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD--FET-RPLNQEPEIHR 518 (1252)
Q Consensus 443 IDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d--~~~-~~~~~~PEI~r 518 (1252)
||||+|++||++|.|++. ++++||+|||||.| .|.++.|..+.+ |-. |.-...|++.+
T Consensus 321 lDip~iD~VvQ~DpP~~~------------------~~FvHR~GRTaR~gr~G~Aivfl~p~E~aYveFl~i~~~v~le~ 382 (567)
T KOG0345|consen 321 LDIPGIDLVVQFDPPKDP------------------SSFVHRCGRTARAGREGNAIVFLNPREEAYVEFLRIKGKVELER 382 (567)
T ss_pred CCCCCceEEEecCCCCCh------------------hHHHhhcchhhhccCccceEEEecccHHHHHHHHHhcCccchhh
Confidence 999999999999999977 88999999999997 898888877644 323 44555676666
Q ss_pred cchH
Q 000854 519 VHLG 522 (1252)
Q Consensus 519 ~~L~ 522 (1252)
...+
T Consensus 383 ~~~e 386 (567)
T KOG0345|consen 383 IDTE 386 (567)
T ss_pred hccc
Confidence 5443
No 35
>PTZ00424 helicase 45; Provisional
Probab=100.00 E-value=1.3e-38 Score=378.32 Aligned_cols=336 Identities=15% Similarity=0.150 Sum_probs=253.0
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCCe
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQS 212 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ 212 (1252)
...+|++++ +++.+++++.++++..|++.|++++..++.+++++ ++||||||||+++..+++.... ..+.+
T Consensus 26 ~~~~~~~l~------l~~~~~~~l~~~~~~~~~~~Q~~ai~~i~~~~d~i-i~apTGsGKT~~~~l~~l~~~~~~~~~~~ 98 (401)
T PTZ00424 26 IVDSFDALK------LNEDLLRGIYSYGFEKPSAIQQRGIKPILDGYDTI-GQAQSGTGKTATFVIAALQLIDYDLNACQ 98 (401)
T ss_pred ccCCHhhCC------CCHHHHHHHHHcCCCCCCHHHHHHHHHHhCCCCEE-EECCCCChHHHHHHHHHHHHhcCCCCCce
Confidence 356787777 66779999999999999999999999988877765 5799999999987666655321 23568
Q ss_pred EEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE-ecCC-----CccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEE
Q 000854 213 IVCTQPRKIAAISLAQRVREESRGCYEDDSVIC-YPSF-----SSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIV 285 (1252)
Q Consensus 213 ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~-~~~~-----~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVI 285 (1252)
+++++|+++||.|+.+.+........ ..+.. .... ......+.+|+|+||++|.+.+.... .++++++|||
T Consensus 99 ~lil~Pt~~L~~Q~~~~~~~~~~~~~--~~~~~~~g~~~~~~~~~~~~~~~~Ivv~Tp~~l~~~l~~~~~~l~~i~lvVi 176 (401)
T PTZ00424 99 ALILAPTRELAQQIQKVVLALGDYLK--VRCHACVGGTVVRDDINKLKAGVHMVVGTPGRVYDMIDKRHLRVDDLKLFIL 176 (401)
T ss_pred EEEECCCHHHHHHHHHHHHHHhhhcC--ceEEEEECCcCHHHHHHHHcCCCCEEEECcHHHHHHHHhCCcccccccEEEE
Confidence 99999999999999988877653221 11111 1111 01122457999999999999887665 7899999999
Q ss_pred ccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHH--HH-hhhhcCCeEEEeccc---ceeEEEEecCCCCCCcc
Q 000854 286 DEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQ--LS-KYFYDCGISHVVGRN---FPVDVRYVPCATAGTSA 359 (1252)
Q Consensus 286 DEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~--l~-~~f~~~~vi~i~gr~---~pV~i~y~~~~~s~~~~ 359 (1252)
|||| +..+.++...+...+....++.|++++|||++.+. +. .++.+...+.+.... ..+...+....
T Consensus 177 DEah-~~~~~~~~~~~~~i~~~~~~~~~~i~~SAT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------ 249 (401)
T PTZ00424 177 DEAD-EMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKDELTLEGIRQFYVAVE------ 249 (401)
T ss_pred ecHH-HHHhcchHHHHHHHHhhCCCCcEEEEEEecCCHHHHHHHHHHcCCCEEEEeCCCCcccCCceEEEEecC------
Confidence 9999 66666676666666666778899999999987543 22 333222222222211 11112222111
Q ss_pred ccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechh
Q 000854 360 VASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNV 438 (1252)
Q Consensus 360 ~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATni 438 (1252)
........+..+.......++||||+++++++.+++.|...++.+..+||+|++++|..+++.| +|+.+|||||++
T Consensus 250 ---~~~~~~~~l~~~~~~~~~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~~~vLvaT~~ 326 (401)
T PTZ00424 250 ---KEEWKFDTLCDLYETLTITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGSTRVLITTDL 326 (401)
T ss_pred ---hHHHHHHHHHHHHHhcCCCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEEccc
Confidence 1122333444455555668899999999999999999998899999999999999999999999 899999999999
Q ss_pred hhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhcc
Q 000854 439 AETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFET 507 (1252)
Q Consensus 439 ae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~ 507 (1252)
+++|||+|++++||++++|. |..+|.||+|||||.+ .|.|+.|+++++.+.
T Consensus 327 l~~GiDip~v~~VI~~~~p~------------------s~~~y~qr~GRagR~g~~G~~i~l~~~~~~~~ 378 (401)
T PTZ00424 327 LARGIDVQQVSLVINYDLPA------------------SPENYIHRIGRSGRFGRKGVAINFVTPDDIEQ 378 (401)
T ss_pred ccCCcCcccCCEEEEECCCC------------------CHHHEeecccccccCCCCceEEEEEcHHHHHH
Confidence 99999999999999998865 4488999999999997 999999999987653
No 36
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=100.00 E-value=3.4e-38 Score=383.12 Aligned_cols=325 Identities=17% Similarity=0.212 Sum_probs=245.4
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc---------cCCeEEecCcHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA---------AEQSIVCTQPRK 220 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~---------~~~~ILv~qPrR 220 (1252)
+++.+++.+.+.|+..|+..|+++|..++.++++++ ++|||||||+++...+++.... ...++++++|||
T Consensus 94 l~~~l~~~l~~~g~~~~~~iQ~~ai~~~~~G~dvi~-~apTGSGKTlay~lpil~~l~~~~~~~~~~~~~~~aLil~Ptr 172 (475)
T PRK01297 94 LAPELMHAIHDLGFPYCTPIQAQVLGYTLAGHDAIG-RAQTGTGKTAAFLISIINQLLQTPPPKERYMGEPRALIIAPTR 172 (475)
T ss_pred CCHHHHHHHHHCCCCCCCHHHHHHHHHHhCCCCEEE-ECCCCChHHHHHHHHHHHHHHhcCcccccccCCceEEEEeCcH
Confidence 788899999999999999999999998888776655 7999999999877666553211 145899999999
Q ss_pred HHHHHHHHHHHHHhcCCCCCceEEEecCCC------ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEcccccccc
Q 000854 221 IAAISLAQRVREESRGCYEDDSVICYPSFS------SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSL 293 (1252)
Q Consensus 221 ~LA~qva~rv~~~~~~~~~~~~vg~~~~~~------~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l 293 (1252)
+||.|+++.+..+...... ....+....+ ......++|+|+||++|++.+.... .++++++||||||| +.+
T Consensus 173 eLa~Q~~~~~~~l~~~~~~-~v~~~~gg~~~~~~~~~~~~~~~~Iiv~TP~~Ll~~~~~~~~~l~~l~~lViDEah-~l~ 250 (475)
T PRK01297 173 ELVVQIAKDAAALTKYTGL-NVMTFVGGMDFDKQLKQLEARFCDILVATPGRLLDFNQRGEVHLDMVEVMVLDEAD-RML 250 (475)
T ss_pred HHHHHHHHHHHHhhccCCC-EEEEEEccCChHHHHHHHhCCCCCEEEECHHHHHHHHHcCCcccccCceEEechHH-HHH
Confidence 9999999999887533221 1111222111 1123457999999999998876654 88999999999999 677
Q ss_pred chhhHHHHHHHHHhcc--CCCcEEeeccCCCHH--HHHhhhhcCCe-EEEecccc---eeEEEEecCCCCCCccccchHH
Q 000854 294 NTDLLLALVKDLLCRR--FDLRLVIMSATADAH--QLSKYFYDCGI-SHVVGRNF---PVDVRYVPCATAGTSAVASYVS 365 (1252)
Q Consensus 294 ~~d~ll~llk~l~~~~--~~lqiIlmSATld~~--~l~~~f~~~~v-i~i~gr~~---pV~i~y~~~~~s~~~~~~~~~~ 365 (1252)
+.++...+.+.+.... .+.|++++|||++.+ .+.+.+...+. +.+..... .+..++.... ..
T Consensus 251 ~~~~~~~l~~i~~~~~~~~~~q~i~~SAT~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~----------~~ 320 (475)
T PRK01297 251 DMGFIPQVRQIIRQTPRKEERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDTVEQHVYAVA----------GS 320 (475)
T ss_pred hcccHHHHHHHHHhCCCCCCceEEEEEeecCHHHHHHHHHhccCCEEEEeccCcCCCCcccEEEEEec----------ch
Confidence 7777666655554442 357999999997643 33333333332 22222111 1111111110 12
Q ss_pred HHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCC
Q 000854 366 DVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLT 444 (1252)
Q Consensus 366 ~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GID 444 (1252)
+....+..+.......++||||+++++++.+++.|...++.+..+||++++++|.++++.| +|+.+|||||+++++|||
T Consensus 321 ~k~~~l~~ll~~~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~~~vLvaT~~l~~GID 400 (475)
T PRK01297 321 DKYKLLYNLVTQNPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGKIRVLVATDVAGRGIH 400 (475)
T ss_pred hHHHHHHHHHHhcCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCCCcEEEEccccccCCc
Confidence 3344555555556678999999999999999999999999999999999999999999999 899999999999999999
Q ss_pred CCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 445 IPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 445 IP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
||++++||++|+|.. .++|+||+|||||.| .|.++.+++++|.
T Consensus 401 i~~v~~VI~~~~P~s------------------~~~y~Qr~GRaGR~g~~g~~i~~~~~~d~ 444 (475)
T PRK01297 401 IDGISHVINFTLPED------------------PDDYVHRIGRTGRAGASGVSISFAGEDDA 444 (475)
T ss_pred ccCCCEEEEeCCCCC------------------HHHHHHhhCccCCCCCCceEEEEecHHHH
Confidence 999999999998764 499999999999997 8999999998753
No 37
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.6e-39 Score=367.64 Aligned_cols=339 Identities=19% Similarity=0.214 Sum_probs=246.5
Q ss_pred CcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc------
Q 000854 133 NVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG------ 206 (1252)
Q Consensus 133 ~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~------ 206 (1252)
..++..|..++ +...+|+++..+|+..|+.+|...|+.++.+..+++-.|+||||||+++-.++++..
T Consensus 177 ~~DvsAW~~l~------lp~~iL~aL~~~gFs~Pt~IQsl~lp~ai~gk~DIlGaAeTGSGKTLAFGIPiv~~l~~~s~~ 250 (731)
T KOG0347|consen 177 KVDVSAWKNLF------LPMEILRALSNLGFSRPTEIQSLVLPAAIRGKVDILGAAETGSGKTLAFGIPIVERLLESSDD 250 (731)
T ss_pred ccChHHHhcCC------CCHHHHHHHHhcCCCCCccchhhcccHhhccchhcccccccCCCceeeecchhhhhhhhccch
Confidence 34455566443 778899999999999999999999999999987777789999999999766666511
Q ss_pred ---c----ccCC--eEEecCcHHHHHHHHHHHHHHHhcCCCC--CceEEEe--cCCCccccCCCeEEEEChHHHHHHHhc
Q 000854 207 ---I----AAEQ--SIVCTQPRKIAAISLAQRVREESRGCYE--DDSVICY--PSFSSAQHFDSKVIYMTDHCLLQHFMN 273 (1252)
Q Consensus 207 ---~----~~~~--~ILv~qPrR~LA~qva~rv~~~~~~~~~--~~~vg~~--~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~ 273 (1252)
. .... ..+|+.|||+||.|+.+.+......... -..+|+. ..++...+..++|+|+|||+|+.++..
T Consensus 251 s~e~~~~~~k~~k~~~LV~tPTRELa~QV~~Hl~ai~~~t~i~v~si~GGLavqKQqRlL~~~p~IVVATPGRlweli~e 330 (731)
T KOG0347|consen 251 SQELSNTSAKYVKPIALVVTPTRELAHQVKQHLKAIAEKTQIRVASITGGLAVQKQQRLLNQRPDIVVATPGRLWELIEE 330 (731)
T ss_pred HhhhhhHHhccCcceeEEecChHHHHHHHHHHHHHhccccCeEEEEeechhHHHHHHHHHhcCCCEEEecchHHHHHHHh
Confidence 0 1122 3899999999999999999887642211 1112221 122223345789999999999999977
Q ss_pred CC----CCCceeEEEEccccccccchhhHHHHHHHHHh-----ccCCCcEEeeccCCCHHHHHhhhhc-----------C
Q 000854 274 DR----DLSRISCIIVDEAHERSLNTDLLLALVKDLLC-----RRFDLRLVIMSATADAHQLSKYFYD-----------C 333 (1252)
Q Consensus 274 ~~----~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-----~~~~lqiIlmSATld~~~l~~~f~~-----------~ 333 (1252)
+. .+++++++|+||+| |++.-+.+..+-+.+.. ..+..|.+++|||++....+..-.. .
T Consensus 331 ~n~~l~~~k~vkcLVlDEaD-RmvekghF~Els~lL~~L~e~~~~~qrQTlVFSATlt~~~~~~~~~~~k~~~k~~~~~~ 409 (731)
T KOG0347|consen 331 DNTHLGNFKKVKCLVLDEAD-RMVEKGHFEELSKLLKHLNEEQKNRQRQTLVFSATLTLVLQQPLSSSRKKKDKEDELNA 409 (731)
T ss_pred hhhhhhhhhhceEEEEccHH-HHhhhccHHHHHHHHHHhhhhhcccccceEEEEEEeehhhcChhHHhhhccchhhhhhH
Confidence 65 68899999999999 99988766555444432 3456899999999653221111000 0
Q ss_pred Ce---E-EEecccceeEEEEecCCCCCCccccchHHHHHHHHHH-----------hhhcCCCCcEEEEeCCHHHHHHHHH
Q 000854 334 GI---S-HVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGE-----------VHTTEKEGTILAFLTSKMEVEWACE 398 (1252)
Q Consensus 334 ~v---i-~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~-----------i~~~~~~g~iLVFl~s~~eie~la~ 398 (1252)
++ + .+--+..|.-+...+... ....+.+...+ .+-..-+|++|||||+++.+.+++-
T Consensus 410 kiq~Lmk~ig~~~kpkiiD~t~q~~--------ta~~l~Es~I~C~~~eKD~ylyYfl~ryPGrTlVF~NsId~vKRLt~ 481 (731)
T KOG0347|consen 410 KIQHLMKKIGFRGKPKIIDLTPQSA--------TASTLTESLIECPPLEKDLYLYYFLTRYPGRTLVFCNSIDCVKRLTV 481 (731)
T ss_pred HHHHHHHHhCccCCCeeEecCcchh--------HHHHHHHHhhcCCccccceeEEEEEeecCCceEEEechHHHHHHHHH
Confidence 00 0 000011222222222110 01111111110 1122457999999999999999999
Q ss_pred HcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccC
Q 000854 399 KFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVS 477 (1252)
Q Consensus 399 ~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iS 477 (1252)
.|...++..+++|+.|.+.+|.+.+++| .....||+|||+|+||+|||+|.+||||..|+..
T Consensus 482 ~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~~VLiaTDVAARGLDIp~V~HVIHYqVPrts----------------- 544 (731)
T KOG0347|consen 482 LLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPSGVLIATDVAARGLDIPGVQHVIHYQVPRTS----------------- 544 (731)
T ss_pred HHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCCeEEEeehhhhccCCCCCcceEEEeecCCcc-----------------
Confidence 9999999999999999999999999999 7788999999999999999999999999999866
Q ss_pred HhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 478 QSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 478 kasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
+-|+||+||++|++ .|..+.|+.+.+
T Consensus 545 -eiYVHRSGRTARA~~~Gvsvml~~P~e 571 (731)
T KOG0347|consen 545 -EIYVHRSGRTARANSEGVSVMLCGPQE 571 (731)
T ss_pred -ceeEecccccccccCCCeEEEEeChHH
Confidence 67899999999997 999999998865
No 38
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.7e-37 Score=344.52 Aligned_cols=342 Identities=19% Similarity=0.256 Sum_probs=269.2
Q ss_pred CcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-------
Q 000854 133 NVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS------- 205 (1252)
Q Consensus 133 ~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~------- 205 (1252)
+.+..+|++. | .-.+++++++++.|+..|+++|.++.+-+|++.+.+.| |.||+|||++.+..-..+
T Consensus 215 PnP~ctFddA--F---q~~pevmenIkK~GFqKPtPIqSQaWPI~LQG~DliGV-AQTgtgKtL~~L~pg~ihi~aqp~~ 288 (629)
T KOG0336|consen 215 PNPVCTFDDA--F---QCYPEVMENIKKTGFQKPTPIQSQAWPILLQGIDLIGV-AQTGTGKTLAFLLPGFIHIDAQPKR 288 (629)
T ss_pred CCCcCcHHHH--H---hhhHHHHHHHHhccCCCCCcchhcccceeecCcceEEE-EecCCCcCHHHhccceeeeeccchh
Confidence 3344556641 1 34678999999999999999999999999999988885 999999998754322111
Q ss_pred -ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCC
Q 000854 206 -GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLS 278 (1252)
Q Consensus 206 -~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~ 278 (1252)
....+..++++.|||+||.|+.-.+.++.-. +-..+..+.... .....+..|+++|||+|.+....+. .|.
T Consensus 289 ~~qr~~p~~lvl~ptreLalqie~e~~kysyn--g~ksvc~ygggnR~eqie~lkrgveiiiatPgrlndL~~~n~i~l~ 366 (629)
T KOG0336|consen 289 REQRNGPGVLVLTPTRELALQIEGEVKKYSYN--GLKSVCVYGGGNRNEQIEDLKRGVEIIIATPGRLNDLQMDNVINLA 366 (629)
T ss_pred hhccCCCceEEEeccHHHHHHHHhHHhHhhhc--CcceEEEecCCCchhHHHHHhcCceEEeeCCchHhhhhhcCeeeee
Confidence 1223568999999999999999988887522 222333333222 1234678999999999998877666 899
Q ss_pred ceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC--HHHHHhhhhcCCeEEEecccceeEEEEecCCCCC
Q 000854 279 RISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD--AHQLSKYFYDCGISHVVGRNFPVDVRYVPCATAG 356 (1252)
Q Consensus 279 ~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld--~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~ 356 (1252)
.+.++|+|||| ||+|++|-.++.++++..+|+.|+++.|||-+ +..++.-+...|++...|...-+.+.-....
T Consensus 367 siTYlVlDEAD-rMLDMgFEpqIrkilldiRPDRqtvmTSATWP~~VrrLa~sY~Kep~~v~vGsLdL~a~~sVkQ~--- 442 (629)
T KOG0336|consen 367 SITYLVLDEAD-RMLDMGFEPQIRKILLDIRPDRQTVMTSATWPEGVRRLAQSYLKEPMIVYVGSLDLVAVKSVKQN--- 442 (629)
T ss_pred eeEEEEecchh-hhhcccccHHHHHHhhhcCCcceeeeecccCchHHHHHHHHhhhCceEEEecccceeeeeeeeee---
Confidence 99999999999 99999999999999999999999999999966 4556654445677777776544433222111
Q ss_pred CccccchHHHHHHHHHHhhh-cCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEE
Q 000854 357 TSAVASYVSDVVRMVGEVHT-TEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIF 434 (1252)
Q Consensus 357 ~~~~~~~~~~~~~~l~~i~~-~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLV 434 (1252)
.....-.++...+..+.. .....++||||..+-.++.+...|.-.|+.+-.+||+-++.+|+..++.| +|+.+|||
T Consensus 443 --i~v~~d~~k~~~~~~f~~~ms~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~vrILv 520 (629)
T KOG0336|consen 443 --IIVTTDSEKLEIVQFFVANMSSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGEVRILV 520 (629)
T ss_pred --EEecccHHHHHHHHHHHHhcCCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCceEEEE
Confidence 011111233344433333 25678999999999999999999998999999999999999999999999 89999999
Q ss_pred echhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 435 ATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 435 ATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|||++.||+|+|||++|+||++|... ++|+||+||+||+| .|.++.+++..|..
T Consensus 521 aTDlaSRGlDv~DiTHV~NyDFP~nI------------------eeYVHRvGrtGRaGr~G~sis~lt~~D~~ 575 (629)
T KOG0336|consen 521 ATDLASRGLDVPDITHVYNYDFPRNI------------------EEYVHRVGRTGRAGRTGTSISFLTRNDWS 575 (629)
T ss_pred EechhhcCCCchhcceeeccCCCccH------------------HHHHHHhcccccCCCCcceEEEEehhhHH
Confidence 99999999999999999999999876 89999999999997 99999999999875
No 39
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.7e-38 Score=342.47 Aligned_cols=334 Identities=17% Similarity=0.146 Sum_probs=266.8
Q ss_pred ccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccC--CeEE
Q 000854 137 FRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAE--QSIV 214 (1252)
Q Consensus 137 ~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~--~~IL 214 (1252)
+.|+++. +.+.++..+++.|+..|.++|.++|+.++.+++++. .|..|+|||.++..++++...... -+.+
T Consensus 85 ~efEd~~------Lkr~LLmgIfe~G~ekPSPiQeesIPiaLtGrdiLa-RaKNGTGKT~a~~IP~Lekid~~~~~IQ~~ 157 (459)
T KOG0326|consen 85 NEFEDYC------LKRELLMGIFEKGFEKPSPIQEESIPIALTGRDILA-RAKNGTGKTAAYCIPVLEKIDPKKNVIQAI 157 (459)
T ss_pred ccHHHhh------hhHHHHHHHHHhccCCCCCccccccceeecchhhhh-hccCCCCCccceechhhhhcCccccceeEE
Confidence 4456544 788899999999999999999999999998877666 799999999997777877543322 2678
Q ss_pred ecCcHHHHHHHHHHHHHHHhcCCCCCce--EEEecCCCcc--ccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEcccc
Q 000854 215 CTQPRKIAAISLAQRVREESRGCYEDDS--VICYPSFSSA--QHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAH 289 (1252)
Q Consensus 215 v~qPrR~LA~qva~rv~~~~~~~~~~~~--vg~~~~~~~~--~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaH 289 (1252)
|++|||+||.|+.+.+.+.......... .|+..-.++. .....+++|+|||++++...+.- .+++...+|+||||
T Consensus 158 ilVPtrelALQtSqvc~~lskh~~i~vmvttGGT~lrDDI~Rl~~~VH~~vgTPGRIlDL~~KgVa~ls~c~~lV~DEAD 237 (459)
T KOG0326|consen 158 ILVPTRELALQTSQVCKELSKHLGIKVMVTTGGTSLRDDIMRLNQTVHLVVGTPGRILDLAKKGVADLSDCVILVMDEAD 237 (459)
T ss_pred EEeecchhhHHHHHHHHHHhcccCeEEEEecCCcccccceeeecCceEEEEcCChhHHHHHhcccccchhceEEEechhh
Confidence 8999999999999888777644432111 1221112221 33567999999999999987776 89999999999999
Q ss_pred ccccchhhHHHHHHHHHhccCCCcEEeeccCCCH--HHHH-hhhhcCCeEEEecccc--eeEEEEecCCCCCCccccchH
Q 000854 290 ERSLNTDLLLALVKDLLCRRFDLRLVIMSATADA--HQLS-KYFYDCGISHVVGRNF--PVDVRYVPCATAGTSAVASYV 364 (1252)
Q Consensus 290 ER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~--~~l~-~~f~~~~vi~i~gr~~--pV~i~y~~~~~s~~~~~~~~~ 364 (1252)
.+++.+|...+.+.+...+++.|++++|||.+. ..|. +|+.++-.+....... -|..+|.-.. .
T Consensus 238 -KlLs~~F~~~~e~li~~lP~~rQillySATFP~tVk~Fm~~~l~kPy~INLM~eLtl~GvtQyYafV~----------e 306 (459)
T KOG0326|consen 238 -KLLSVDFQPIVEKLISFLPKERQILLYSATFPLTVKGFMDRHLKKPYEINLMEELTLKGVTQYYAFVE----------E 306 (459)
T ss_pred -hhhchhhhhHHHHHHHhCCccceeeEEecccchhHHHHHHHhccCcceeehhhhhhhcchhhheeeec----------h
Confidence 899999999999999999999999999999763 3343 4444333333322221 2223332221 2
Q ss_pred HHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcC
Q 000854 365 SDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSL 443 (1252)
Q Consensus 365 ~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GI 443 (1252)
..++..+..+.....-.+.||||++...+|.+|..+.+.|+.+...|+.|.++.|.+||..| +|..+.|||||.+.|||
T Consensus 307 ~qKvhCLntLfskLqINQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~crnLVctDL~TRGI 386 (459)
T KOG0326|consen 307 RQKVHCLNTLFSKLQINQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGKCRNLVCTDLFTRGI 386 (459)
T ss_pred hhhhhhHHHHHHHhcccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccccceeeehhhhhccc
Confidence 34555666666666778999999999999999999999999999999999999999999999 89999999999999999
Q ss_pred CCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 444 TIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 444 DIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
||++|++|||+|+||.. ++|.||+||+||.| .|.++.|++-+|..
T Consensus 387 DiqavNvVINFDfpk~a------------------EtYLHRIGRsGRFGhlGlAInLityedrf 432 (459)
T KOG0326|consen 387 DIQAVNVVINFDFPKNA------------------ETYLHRIGRSGRFGHLGLAINLITYEDRF 432 (459)
T ss_pred ccceeeEEEecCCCCCH------------------HHHHHHccCCccCCCcceEEEEEehhhhh
Confidence 99999999999999977 89999999999998 99999999987654
No 40
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=3e-37 Score=352.63 Aligned_cols=348 Identities=19% Similarity=0.226 Sum_probs=251.9
Q ss_pred cCcccccccccCCCchhhhcHHHHHHHHH-ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc----
Q 000854 132 ANVDVFRFEDCQRFDWSRIQAFIVRECKR-LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG---- 206 (1252)
Q Consensus 132 ~~~~~~~f~~lg~~~~~rl~~~ll~~l~~-~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~---- 206 (1252)
..+.-..|..+| +++.+...+.. ++..-|+.+|+++|+..+.++|+++ .++||||||+++..++.+..
T Consensus 131 ~~fts~~f~~LG------L~~~lv~~L~~~m~i~~pTsVQkq~IP~lL~grD~lV-~aQTGSGKTLAYllPiVq~Lq~m~ 203 (708)
T KOG0348|consen 131 APFTSAAFASLG------LHPHLVSHLNTKMKISAPTSVQKQAIPVLLEGRDALV-RAQTGSGKTLAYLLPIVQSLQAME 203 (708)
T ss_pred cccccccchhcC------CCHHHHHHHHHHhccCccchHhhcchhhhhcCcceEE-EcCCCCcccHHHHHHHHHHHHhcC
Confidence 334445566666 78888888865 8999999999999999999766655 89999999999777766531
Q ss_pred ----cccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccc------cCCCeEEEEChHHHHHHHhcCC-
Q 000854 207 ----IAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQ------HFDSKVIYMTDHCLLQHFMNDR- 275 (1252)
Q Consensus 207 ----~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~------~~~t~Iiv~Tpg~Ll~~L~~~~- 275 (1252)
...+.-++|++|||+||.|+++.+.++...+. -..-|+..+.+... +++.+|+|+|||+|+++|.+..
T Consensus 204 ~ki~Rs~G~~ALVivPTREL~~Q~y~~~qKLl~~~h-WIVPg~lmGGEkkKSEKARLRKGiNILIgTPGRLvDHLknT~~ 282 (708)
T KOG0348|consen 204 PKIQRSDGPYALVIVPTRELALQIYETVQKLLKPFH-WIVPGVLMGGEKKKSEKARLRKGINILIGTPGRLVDHLKNTKS 282 (708)
T ss_pred ccccccCCceEEEEechHHHHHHHHHHHHHHhcCce-EEeeceeecccccccHHHHHhcCceEEEcCchHHHHHHhccch
Confidence 23456789999999999999999999875432 11122233444433 3578999999999999999887
Q ss_pred -CCCceeEEEEccccccccchhhHHHHHHHHHhc-------------cCCCcEEeeccCCC--HHHHHhhhhcCCeEEEe
Q 000854 276 -DLSRISCIIVDEAHERSLNTDLLLALVKDLLCR-------------RFDLRLVIMSATAD--AHQLSKYFYDCGISHVV 339 (1252)
Q Consensus 276 -~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~-------------~~~lqiIlmSATld--~~~l~~~f~~~~vi~i~ 339 (1252)
.++++.+||+||+| |.++.+|-..+-.++... ++.+|-+++|||++ +..+++.-...|+..-.
T Consensus 283 i~~s~LRwlVlDEaD-rlleLGfekdit~Il~~v~~~~~~e~~~~~lp~q~q~mLlSATLtd~V~rLa~~sLkDpv~I~l 361 (708)
T KOG0348|consen 283 IKFSRLRWLVLDEAD-RLLELGFEKDITQILKAVHSIQNAECKDPKLPHQLQNMLLSATLTDGVNRLADLSLKDPVYISL 361 (708)
T ss_pred heeeeeeEEEecchh-HHHhccchhhHHHHHHHHhhccchhcccccccHHHHhHhhhhhhHHHHHHHhhccccCceeeec
Confidence 78899999999999 999998876665554332 12478899999976 45566554444433220
Q ss_pred c----ccc----------------eeEEEEecCCCCCCccc---cchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHH
Q 000854 340 G----RNF----------------PVDVRYVPCATAGTSAV---ASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWA 396 (1252)
Q Consensus 340 g----r~~----------------pV~i~y~~~~~s~~~~~---~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~l 396 (1252)
. ... +++..-.|+........ .-.+-....++....+.....++|||+.+.+.++.-
T Consensus 362 d~s~~~~~p~~~a~~ev~~~~~~~~l~~~~iPeqL~qry~vVPpKLRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFH 441 (708)
T KOG0348|consen 362 DKSHSQLNPKDKAVQEVDDGPAGDKLDSFAIPEQLLQRYTVVPPKLRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFH 441 (708)
T ss_pred cchhhhcCcchhhhhhcCCcccccccccccCcHHhhhceEecCCchhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHH
Confidence 0 000 01111111110000000 111223444555566667778999999999999988
Q ss_pred HHHcCC----------------------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEE
Q 000854 397 CEKFDA----------------------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVID 453 (1252)
Q Consensus 397 a~~L~~----------------------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId 453 (1252)
+..|.. .+.+++-|||+|++++|..+|+.| .....||+|||+|+||+|+|+|++||.
T Consensus 442 y~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~~VLLcTDVAaRGLDlP~V~~vVQ 521 (708)
T KOG0348|consen 442 YSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRRAVLLCTDVAARGLDLPHVGLVVQ 521 (708)
T ss_pred HHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccceEEEehhhhhccCCCCCcCeEEE
Confidence 777642 235688999999999999999999 677889999999999999999999999
Q ss_pred cCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 454 SGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 454 ~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|+.|- |.++|+||+||++|.| .|.+..+..+.+.+
T Consensus 522 Yd~P~------------------s~adylHRvGRTARaG~kG~alLfL~P~Eae 557 (708)
T KOG0348|consen 522 YDPPF------------------STADYLHRVGRTARAGEKGEALLFLLPSEAE 557 (708)
T ss_pred eCCCC------------------CHHHHHHHhhhhhhccCCCceEEEecccHHH
Confidence 87754 5599999999999998 88888887765543
No 41
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=6e-37 Score=347.58 Aligned_cols=337 Identities=20% Similarity=0.264 Sum_probs=271.1
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-------cc
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-------GI 207 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-------~~ 207 (1252)
++.+|+.+| ....++.++++..+..|+++|.++++.++.+++++-| |.||||||.++....+.+ ..
T Consensus 221 pvtsfeh~g------fDkqLm~airk~Ey~kptpiq~qalptalsgrdvigI-AktgSgktaAfi~pm~~himdq~eL~~ 293 (731)
T KOG0339|consen 221 PVTSFEHFG------FDKQLMTAIRKSEYEKPTPIQCQALPTALSGRDVIGI-AKTGSGKTAAFIWPMIVHIMDQPELKP 293 (731)
T ss_pred CcchhhhcC------chHHHHHHHhhhhcccCCcccccccccccccccchhe-eeccCcchhHHHHHHHHHhcchhhhcC
Confidence 445566555 5567899999999999999999999999999999986 999999999876665532 11
Q ss_pred ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCCcee
Q 000854 208 AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRIS 281 (1252)
Q Consensus 208 ~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls 281 (1252)
+.++..++++|||+||.|+.....++.+.... ..+..|.+.. +....++.|+|||||+|++++.... .+.+++
T Consensus 294 g~gPi~vilvPTrela~Qi~~eaKkf~K~ygl-~~v~~ygGgsk~eQ~k~Lk~g~EivVaTPgRlid~VkmKatn~~rvS 372 (731)
T KOG0339|consen 294 GEGPIGVILVPTRELASQIFSEAKKFGKAYGL-RVVAVYGGGSKWEQSKELKEGAEIVVATPGRLIDMVKMKATNLSRVS 372 (731)
T ss_pred CCCCeEEEEeccHHHHHHHHHHHHHhhhhccc-eEEEeecCCcHHHHHHhhhcCCeEEEechHHHHHHHHhhcccceeee
Confidence 34557788999999999999988887644333 3344444322 1233679999999999999986655 899999
Q ss_pred EEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC--HHHHHhhhhcCCeEEEecccc----eeEEEEecCCCC
Q 000854 282 CIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD--AHQLSKYFYDCGISHVVGRNF----PVDVRYVPCATA 355 (1252)
Q Consensus 282 ~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld--~~~l~~~f~~~~vi~i~gr~~----pV~i~y~~~~~s 355 (1252)
++|+||++ |+++++|..++-.+....+|+.|.++||||.. .+.+++-+...|+-.+.|..- .++......
T Consensus 373 ~LV~DEad-rmfdmGfe~qVrSI~~hirpdrQtllFsaTf~~kIe~lard~L~dpVrvVqg~vgean~dITQ~V~V~--- 448 (731)
T KOG0339|consen 373 YLVLDEAD-RMFDMGFEPQVRSIKQHIRPDRQTLLFSATFKKKIEKLARDILSDPVRVVQGEVGEANEDITQTVSVC--- 448 (731)
T ss_pred EEEEechh-hhhccccHHHHHHHHhhcCCcceEEEeeccchHHHHHHHHHHhcCCeeEEEeehhccccchhheeeec---
Confidence 99999999 99999999999999999999999999999976 556776666667766655321 111111111
Q ss_pred CCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEE
Q 000854 356 GTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIF 434 (1252)
Q Consensus 356 ~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLV 434 (1252)
.........++.++......|++|||++.+.+++.++..|...++.+..+||+|.+.+|.+++..| .+...|+|
T Consensus 449 -----~s~~~Kl~wl~~~L~~f~S~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~~~Vlv 523 (731)
T KOG0339|consen 449 -----PSEEKKLNWLLRHLVEFSSEGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKRKPVLV 523 (731)
T ss_pred -----cCcHHHHHHHHHHhhhhccCCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcCCceEE
Confidence 111233334455555666789999999999999999999999999999999999999999999999 77789999
Q ss_pred echhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 435 ATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 435 ATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|||++++|+|||+++.||++++.+.. +.|.||+||+||.| .|.+|.|+|+.|.+
T Consensus 524 atDvaargldI~~ikTVvnyD~ardI------------------dththrigrtgRag~kGvayTlvTeKDa~ 578 (731)
T KOG0339|consen 524 ATDVAARGLDIPSIKTVVNYDFARDI------------------DTHTHRIGRTGRAGEKGVAYTLVTEKDAE 578 (731)
T ss_pred EeeHhhcCCCccccceeecccccchh------------------HHHHHHhhhcccccccceeeEEechhhHH
Confidence 99999999999999999999997755 78999999999998 99999999998764
No 42
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=7.2e-37 Score=337.93 Aligned_cols=344 Identities=18% Similarity=0.246 Sum_probs=274.6
Q ss_pred CcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcC-CeEEEEcCCCChhhHHHHHHHHhccc--
Q 000854 131 DANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGE-QILVLIGETGCGKSTQLVQFLADSGI-- 207 (1252)
Q Consensus 131 ~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~-~vvII~apTGSGKTtqipq~Lle~~~-- 207 (1252)
+.-.+..+|++++ +.+++++++..+++..|..+|..+++-.+... +++|-++..|+|||+++..-++....
T Consensus 84 sPlyS~ksFeeL~------LkPellkgly~M~F~kPskIQe~aLPlll~~Pp~nlIaQsqsGtGKTaaFvL~MLsrvd~~ 157 (477)
T KOG0332|consen 84 SPLYSAKSFEELR------LKPELLKGLYAMKFQKPSKIQETALPLLLAEPPQNLIAQSQSGTGKTAAFVLTMLSRVDPD 157 (477)
T ss_pred CCccccccHHhhC------CCHHHHhHHHHhccCCcchHHHhhcchhhcCCchhhhhhhcCCCchhHHHHHHHHHhcCcc
Confidence 3344667788776 88899999999999999999999999888764 78888999999999998887776422
Q ss_pred ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccc---cCCCeEEEEChHHHHHHHhcCC--CCCceeE
Q 000854 208 AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQ---HFDSKVIYMTDHCLLQHFMNDR--DLSRISC 282 (1252)
Q Consensus 208 ~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~---~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~ 282 (1252)
-..++.+|+.|+|+||.|+.+.+.+..+-+ +....|..+..... .-..+|+++|||.+++++..-. .+..+++
T Consensus 158 ~~~PQ~iCLaPtrELA~Q~~eVv~eMGKf~--~ita~yair~sk~~rG~~i~eqIviGTPGtv~Dlm~klk~id~~kikv 235 (477)
T KOG0332|consen 158 VVVPQCICLAPTRELAPQTGEVVEEMGKFT--ELTASYAIRGSKAKRGNKLTEQIVIGTPGTVLDLMLKLKCIDLEKIKV 235 (477)
T ss_pred ccCCCceeeCchHHHHHHHHHHHHHhcCce--eeeEEEEecCcccccCCcchhheeeCCCccHHHHHHHHHhhChhhceE
Confidence 234589999999999999999887764333 33445544443222 2246899999999999887633 7889999
Q ss_pred EEEccccccccchh-hHHHHHHHHHhccCCCcEEeeccCCCH--HHHH-hhhhcCCeEEEecc---cceeEEEEecCCCC
Q 000854 283 IIVDEAHERSLNTD-LLLALVKDLLCRRFDLRLVIMSATADA--HQLS-KYFYDCGISHVVGR---NFPVDVRYVPCATA 355 (1252)
Q Consensus 283 IVIDEaHER~l~~d-~ll~llk~l~~~~~~lqiIlmSATld~--~~l~-~~f~~~~vi~i~gr---~~pV~i~y~~~~~s 355 (1252)
+|+|||+ .++++. |...-+++....+++.|++++|||.+. ..|+ +...++..+.+..+ .+++..+|..+..
T Consensus 236 fVlDEAD-~Mi~tqG~~D~S~rI~~~lP~~~QllLFSATf~e~V~~Fa~kivpn~n~i~Lk~eel~L~~IkQlyv~C~~- 313 (477)
T KOG0332|consen 236 FVLDEAD-VMIDTQGFQDQSIRIMRSLPRNQQLLLFSATFVEKVAAFALKIVPNANVIILKREELALDNIKQLYVLCAC- 313 (477)
T ss_pred EEecchh-hhhhcccccccchhhhhhcCCcceEEeeechhHHHHHHHHHHhcCCCceeeeehhhccccchhhheeeccc-
Confidence 9999999 677764 656666666667789999999999763 3344 33345555555432 4677777877654
Q ss_pred CCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEE
Q 000854 356 GTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIF 434 (1252)
Q Consensus 356 ~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLV 434 (1252)
.+++.+.+.++.....-|+.||||.|++.+.+++..+...|..|..+||+|.-++|..+.+.| .|+.||||
T Consensus 314 --------~~~K~~~l~~lyg~~tigqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~kVLi 385 (477)
T KOG0332|consen 314 --------RDDKYQALVNLYGLLTIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKEKVLI 385 (477)
T ss_pred --------hhhHHHHHHHHHhhhhhhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcceEEE
Confidence 456667777777667789999999999999999999999999999999999999999999999 89999999
Q ss_pred echhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 435 ATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 435 ATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
+||+.+||||++.|.+||||++|-...-.| .-+.|+||+||+||.| .|.+|.|+..++
T Consensus 386 tTnV~ARGiDv~qVs~VvNydlP~~~~~~p------------D~etYlHRiGRtGRFGkkG~a~n~v~~~~ 444 (477)
T KOG0332|consen 386 TTNVCARGIDVAQVSVVVNYDLPVKYTGEP------------DYETYLHRIGRTGRFGKKGLAINLVDDKD 444 (477)
T ss_pred EechhhcccccceEEEEEecCCccccCCCC------------CHHHHHHHhcccccccccceEEEeecccC
Confidence 999999999999999999999997332212 3389999999999998 999999987653
No 43
>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=4.1e-36 Score=379.39 Aligned_cols=328 Identities=16% Similarity=0.145 Sum_probs=235.1
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecCcHHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQPRKIAAISLAQ 228 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~qPrR~LA~qva~ 228 (1252)
+.+.+.+.+++.|+..|+..|+++|+.++.+++++ +++|||||||.++..++++... ..+.++|++.|||+||.|+.+
T Consensus 21 l~~~l~~~L~~~g~~~p~~~Q~~ai~~il~G~nvv-v~apTGSGKTla~~LPiL~~l~~~~~~~aL~l~PtraLa~q~~~ 99 (742)
T TIGR03817 21 AHPDVVAALEAAGIHRPWQHQARAAELAHAGRHVV-VATGTASGKSLAYQLPVLSALADDPRATALYLAPTKALAADQLR 99 (742)
T ss_pred CCHHHHHHHHHcCCCcCCHHHHHHHHHHHCCCCEE-EECCCCCcHHHHHHHHHHHHHhhCCCcEEEEEcChHHHHHHHHH
Confidence 67889999999999999999999999887766555 4799999999987777665432 234689999999999999999
Q ss_pred HHHHHhcCCCCCceEEEecCCCc-----cccCCCeEEEEChHHHHHHHhcC-----CCCCceeEEEEccccccccch--h
Q 000854 229 RVREESRGCYEDDSVICYPSFSS-----AQHFDSKVIYMTDHCLLQHFMND-----RDLSRISCIIVDEAHERSLNT--D 296 (1252)
Q Consensus 229 rv~~~~~~~~~~~~vg~~~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~-----~~L~~ls~IVIDEaHER~l~~--d 296 (1252)
++.+.. . .+..+..+.+... ....+++|+++||++|...+... ..++++++||||||| ++.+. .
T Consensus 100 ~l~~l~-~--~~i~v~~~~Gdt~~~~r~~i~~~~~IivtTPd~L~~~~L~~~~~~~~~l~~l~~vViDEah-~~~g~fg~ 175 (742)
T TIGR03817 100 AVRELT-L--RGVRPATYDGDTPTEERRWAREHARYVLTNPDMLHRGILPSHARWARFLRRLRYVVIDECH-SYRGVFGS 175 (742)
T ss_pred HHHHhc-c--CCeEEEEEeCCCCHHHHHHHhcCCCEEEEChHHHHHhhccchhHHHHHHhcCCEEEEeChh-hccCccHH
Confidence 998874 1 1222332222111 12345899999999997544322 148899999999999 44331 1
Q ss_pred hHHHHHHHHHh----ccCCCcEEeeccCCC-HHHHHhhhhcCCeEEEecccce---eEEEE-ecCCCC---CC--ccccc
Q 000854 297 LLLALVKDLLC----RRFDLRLVIMSATAD-AHQLSKYFYDCGISHVVGRNFP---VDVRY-VPCATA---GT--SAVAS 362 (1252)
Q Consensus 297 ~ll~llk~l~~----~~~~lqiIlmSATld-~~~l~~~f~~~~vi~i~gr~~p---V~i~y-~~~~~s---~~--~~~~~ 362 (1252)
.+..+++.+.. ...+.|+|++|||++ +..+.+.+.+.++..+.....| ..+.+ .+.... .. .....
T Consensus 176 ~~~~il~rL~ri~~~~g~~~q~i~~SATi~n~~~~~~~l~g~~~~~i~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~r~~ 255 (742)
T TIGR03817 176 HVALVLRRLRRLCARYGASPVFVLASATTADPAAAASRLIGAPVVAVTEDGSPRGARTVALWEPPLTELTGENGAPVRRS 255 (742)
T ss_pred HHHHHHHHHHHHHHhcCCCCEEEEEecCCCCHHHHHHHHcCCCeEEECCCCCCcCceEEEEecCCccccccccccccccc
Confidence 12223333322 345689999999964 5556666655665555432222 22221 221100 00 00011
Q ss_pred hHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCC--------CCeeEeecCCCCHHhhhhhcccC-CCceEEE
Q 000854 363 YVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAP--------SAVALPFHGQLSFDEQFCVFKSY-PGRRKVI 433 (1252)
Q Consensus 363 ~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~--------~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVL 433 (1252)
........+..+.. .+.++||||+|++.++.+++.|+.. +..+..|||++++++|.++++.| +|+.++|
T Consensus 256 ~~~~~~~~l~~l~~--~~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~i~vL 333 (742)
T TIGR03817 256 ASAEAADLLADLVA--EGARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGELLGV 333 (742)
T ss_pred hHHHHHHHHHHHHH--CCCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCCceEE
Confidence 12334445555543 3679999999999999999877532 56788999999999999999999 8999999
Q ss_pred EechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecCh
Q 000854 434 FATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSK 502 (1252)
Q Consensus 434 VATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~ 502 (1252)
||||++++|||||++++||++|+|.+. ++|+||+|||||.| .|.++.+.+.
T Consensus 334 VaTd~lerGIDI~~vd~VI~~~~P~s~------------------~~y~qRiGRaGR~G~~g~ai~v~~~ 385 (742)
T TIGR03817 334 ATTNALELGVDISGLDAVVIAGFPGTR------------------ASLWQQAGRAGRRGQGALVVLVARD 385 (742)
T ss_pred EECchHhccCCcccccEEEEeCCCCCH------------------HHHHHhccccCCCCCCcEEEEEeCC
Confidence 999999999999999999999987644 99999999999997 8999998863
No 44
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=5.5e-37 Score=356.02 Aligned_cols=344 Identities=18% Similarity=0.200 Sum_probs=256.8
Q ss_pred ccccCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc
Q 000854 127 KESYDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG 206 (1252)
Q Consensus 127 ~~~~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~ 206 (1252)
.+..+.+..+..|++ ..+...+..++++.++..|+++||.+|+....+++.+. +|+||||||.+++.++++..
T Consensus 64 ~~G~~~p~~i~~f~~------~~l~~~l~~ni~~~~~~~ptpvQk~sip~i~~Grdl~a-cAqTGsGKT~aFLiPii~~~ 136 (482)
T KOG0335|consen 64 VSGRDVPPHIPTFDE------AILGEALAGNIKRSGYTKPTPVQKYSIPIISGGRDLMA-CAQTGSGKTAAFLIPIISYL 136 (482)
T ss_pred ccCCccCCCcccccc------cchhHHHhhccccccccCCCcceeeccceeecCCceEE-EccCCCcchHHHHHHHHHHH
Confidence 344455555555553 23667788889999999999999999998877776655 89999999999777666532
Q ss_pred cc------------cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEec----CCCccccCCCeEEEEChHHHHHH
Q 000854 207 IA------------AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYP----SFSSAQHFDSKVIYMTDHCLLQH 270 (1252)
Q Consensus 207 ~~------------~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~----~~~~~~~~~t~Iiv~Tpg~Ll~~ 270 (1252)
.. ..+.++++.|||+||.|++++..+..........+.|.. ........+++|+|+|||+|.+.
T Consensus 137 ~~~~~~~~~~~~~~~~P~~lIlapTReL~~Qi~nea~k~~~~s~~~~~~~ygg~~~~~q~~~~~~gcdIlvaTpGrL~d~ 216 (482)
T KOG0335|consen 137 LDEGPEDRGESGGGVYPRALILAPTRELVDQIYNEARKFSYLSGMKSVVVYGGTDLGAQLRFIKRGCDILVATPGRLKDL 216 (482)
T ss_pred HhcCcccCcccCCCCCCceEEEeCcHHHhhHHHHHHHhhcccccceeeeeeCCcchhhhhhhhccCccEEEecCchhhhh
Confidence 11 135899999999999999999999864433333333322 11222345799999999999999
Q ss_pred HhcCC-CCCceeEEEEccccccccc-hhhHHHHHHHHHhcc----CCCcEEeeccCCCH--HHHHhhhhcC-CeEE---E
Q 000854 271 FMNDR-DLSRISCIIVDEAHERSLN-TDLLLALVKDLLCRR----FDLRLVIMSATADA--HQLSKYFYDC-GISH---V 338 (1252)
Q Consensus 271 L~~~~-~L~~ls~IVIDEaHER~l~-~d~ll~llk~l~~~~----~~lqiIlmSATld~--~~l~~~f~~~-~vi~---i 338 (1252)
+.... .|.++.++|||||| |++| ++|...+-+++.... .+.|.++||||.+. ..++.+|... .+.. .
T Consensus 217 ~e~g~i~l~~~k~~vLDEAD-rMlD~mgF~p~Ir~iv~~~~~~~~~~~qt~mFSAtfp~~iq~l~~~fl~~~yi~laV~r 295 (482)
T KOG0335|consen 217 IERGKISLDNCKFLVLDEAD-RMLDEMGFEPQIRKIVEQLGMPPKNNRQTLLFSATFPKEIQRLAADFLKDNYIFLAVGR 295 (482)
T ss_pred hhcceeehhhCcEEEecchH-HhhhhccccccHHHHhcccCCCCccceeEEEEeccCChhhhhhHHHHhhccceEEEEee
Confidence 97777 89999999999999 9999 999999888886643 36899999999663 3355555432 1211 1
Q ss_pred ecccc-eeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCC-----cEEEEeCCHHHHHHHHHHcCCCCCeeEeecC
Q 000854 339 VGRNF-PVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEG-----TILAFLTSKMEVEWACEKFDAPSAVALPFHG 412 (1252)
Q Consensus 339 ~gr~~-pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g-----~iLVFl~s~~eie~la~~L~~~~~~v~~LHg 412 (1252)
.|+.. .+......... .......++++.........+ .++|||.+++.+..++..|...++...++||
T Consensus 296 vg~~~~ni~q~i~~V~~------~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg 369 (482)
T KOG0335|consen 296 VGSTSENITQKILFVNE------MEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHG 369 (482)
T ss_pred eccccccceeEeeeecc------hhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecc
Confidence 12222 12211111110 111122222222111111234 8999999999999999999999999999999
Q ss_pred CCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCC
Q 000854 413 QLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRT 491 (1252)
Q Consensus 413 ~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~ 491 (1252)
..++.+|.+.++.| .|+..|+|||++++||+|||+|++||+|++|... .+|+||+||+||.
T Consensus 370 ~~tq~er~~al~~Fr~g~~pvlVaT~VaaRGlDi~~V~hVInyDmP~d~------------------d~YvHRIGRTGR~ 431 (482)
T KOG0335|consen 370 DRTQIEREQALNDFRNGKAPVLVATNVAARGLDIPNVKHVINYDMPADI------------------DDYVHRIGRTGRV 431 (482)
T ss_pred hhhhhHHHHHHHHhhcCCcceEEEehhhhcCCCCCCCceeEEeecCcch------------------hhHHHhccccccC
Confidence 99999999999999 8999999999999999999999999999999874 8899999999999
Q ss_pred C-CCeEEEecCh
Q 000854 492 E-PGRCYRLYSK 502 (1252)
Q Consensus 492 ~-~G~c~~Lyt~ 502 (1252)
| .|.+..|+..
T Consensus 432 Gn~G~atsf~n~ 443 (482)
T KOG0335|consen 432 GNGGRATSFFNE 443 (482)
T ss_pred CCCceeEEEecc
Confidence 8 8999999983
No 45
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=100.00 E-value=1.2e-35 Score=372.83 Aligned_cols=328 Identities=18% Similarity=0.202 Sum_probs=227.8
Q ss_pred cccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecC
Q 000854 138 RFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQ 217 (1252)
Q Consensus 138 ~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~q 217 (1252)
.|.+ ..|||......+++. .+|+.-+.+.|++.|..++.++++++ ++|||+|||+++..+++.. .+.+||+.
T Consensus 436 ~W~~-~~fpw~~~L~~~lk~--~FG~~sFRp~Q~eaI~aiL~GrDVLV-imPTGSGKSLcYQLPAL~~----~GiTLVIS 507 (1195)
T PLN03137 436 KWSS-RNFPWTKKLEVNNKK--VFGNHSFRPNQREIINATMSGYDVFV-LMPTGGGKSLTYQLPALIC----PGITLVIS 507 (1195)
T ss_pred cccc-cCCCchHHHHHHHHH--HcCCCCCCHHHHHHHHHHHcCCCEEE-EcCCCccHHHHHHHHHHHc----CCcEEEEe
Confidence 3655 458886544444443 35777778889888888887776555 6999999998765555543 35789999
Q ss_pred cHHHHHHHHHHHHHHHhcCCCCCceEEE-ecCCC--c-------c--ccCCCeEEEEChHHHH------HHHhcCCCCCc
Q 000854 218 PRKIAAISLAQRVREESRGCYEDDSVIC-YPSFS--S-------A--QHFDSKVIYMTDHCLL------QHFMNDRDLSR 279 (1252)
Q Consensus 218 PrR~LA~qva~rv~~~~~~~~~~~~vg~-~~~~~--~-------~--~~~~t~Iiv~Tpg~Ll------~~L~~~~~L~~ 279 (1252)
|+++|+.+....+... + ....+ ..... . . .....+|+|+|||+|. +.+........
T Consensus 508 PLiSLmqDQV~~L~~~--G----I~Aa~L~s~~s~~eq~~ilr~l~s~~g~~~ILyvTPERL~~~d~ll~~L~~L~~~~~ 581 (1195)
T PLN03137 508 PLVSLIQDQIMNLLQA--N----IPAASLSAGMEWAEQLEILQELSSEYSKYKLLYVTPEKVAKSDSLLRHLENLNSRGL 581 (1195)
T ss_pred CHHHHHHHHHHHHHhC--C----CeEEEEECCCCHHHHHHHHHHHHhcCCCCCEEEEChHHhhcchHHHHHHHhhhhccc
Confidence 9999987443333332 1 11111 11110 0 0 1145799999999975 22322223456
Q ss_pred eeEEEEccccccccc--hhhHHHHH--HHHHhccCCCcEEeeccCCCHHH---HHhhhhcCCeEEEecccceeEEEEecC
Q 000854 280 ISCIIVDEAHERSLN--TDLLLALV--KDLLCRRFDLRLVIMSATADAHQ---LSKYFYDCGISHVVGRNFPVDVRYVPC 352 (1252)
Q Consensus 280 ls~IVIDEaHER~l~--~d~ll~ll--k~l~~~~~~lqiIlmSATld~~~---l~~~f~~~~vi~i~gr~~pV~i~y~~~ 352 (1252)
+++|||||||+ ..+ .||...+. ..+....++.+++++|||++... +.+.+.......+.......+++|...
T Consensus 582 LslIVIDEAHc-VSqWGhDFRpdYr~L~~Lr~~fp~vPilALTATAT~~V~eDI~~~L~l~~~~vfr~Sf~RpNL~y~Vv 660 (1195)
T PLN03137 582 LARFVIDEAHC-VSQWGHDFRPDYQGLGILKQKFPNIPVLALTATATASVKEDVVQALGLVNCVVFRQSFNRPNLWYSVV 660 (1195)
T ss_pred cceeccCcchh-hhhcccchHHHHHHHHHHHHhCCCCCeEEEEecCCHHHHHHHHHHcCCCCcEEeecccCccceEEEEe
Confidence 89999999995 333 35655543 34555678899999999988653 334443222222222222223444433
Q ss_pred CCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceE
Q 000854 353 ATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRK 431 (1252)
Q Consensus 353 ~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~k 431 (1252)
.. .......+... +.....++++||||.++++++.+++.|...++.+.+|||+|++++|..+++.| .|+.+
T Consensus 661 ~k-----~kk~le~L~~~---I~~~~~~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Gei~ 732 (1195)
T PLN03137 661 PK-----TKKCLEDIDKF---IKENHFDECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDEIN 732 (1195)
T ss_pred cc-----chhHHHHHHHH---HHhcccCCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCCCc
Confidence 21 01111222222 22233467899999999999999999999999999999999999999999999 89999
Q ss_pred EEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 432 VIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 432 VLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|||||++++||||+|+|++||++++|+.. ++|.||+|||||.| +|.|+.||+..|+.
T Consensus 733 VLVATdAFGMGIDkPDVR~VIHydlPkSi------------------EsYyQriGRAGRDG~~g~cILlys~~D~~ 790 (1195)
T PLN03137 733 IICATVAFGMGINKPDVRFVIHHSLPKSI------------------EGYHQECGRAGRDGQRSSCVLYYSYSDYI 790 (1195)
T ss_pred EEEEechhhcCCCccCCcEEEEcCCCCCH------------------HHHHhhhcccCCCCCCceEEEEecHHHHH
Confidence 99999999999999999999999998854 89999999999998 99999999988763
No 46
>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=5e-35 Score=354.65 Aligned_cols=308 Identities=19% Similarity=0.189 Sum_probs=220.5
Q ss_pred HccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC
Q 000854 160 RLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE 239 (1252)
Q Consensus 160 ~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~ 239 (1252)
.+|+..|.+.|+++|..++.++++ ++++|||||||+++..+++.. ++.++|+.|+|+|+.|..+++....
T Consensus 6 ~~g~~~~r~~Q~~ai~~~l~g~dv-lv~apTGsGKTl~y~lp~l~~----~~~~lVi~P~~~L~~dq~~~l~~~g----- 75 (470)
T TIGR00614 6 VFGLSSFRPVQLEVINAVLLGRDC-FVVMPTGGGKSLCYQLPALCS----DGITLVISPLISLMEDQVLQLKASG----- 75 (470)
T ss_pred hcCCCCCCHHHHHHHHHHHcCCCE-EEEcCCCCcHhHHHHHHHHHc----CCcEEEEecHHHHHHHHHHHHHHcC-----
Confidence 467888999999999999888765 557999999998755554432 3568899999999999888886542
Q ss_pred CceEEEecCCCc----------cccCCCeEEEEChHHHHHHH--hcCC-CCCceeEEEEccccccccc--hhhHHHH--H
Q 000854 240 DDSVICYPSFSS----------AQHFDSKVIYMTDHCLLQHF--MNDR-DLSRISCIIVDEAHERSLN--TDLLLAL--V 302 (1252)
Q Consensus 240 ~~~vg~~~~~~~----------~~~~~t~Iiv~Tpg~Ll~~L--~~~~-~L~~ls~IVIDEaHER~l~--~d~ll~l--l 302 (1252)
..+........ ......+|+|+||+++.... .... ...++++|||||||+ ..+ .+|...+ +
T Consensus 76 -i~~~~l~~~~~~~~~~~i~~~~~~~~~~il~~TPe~l~~~~~~~~~l~~~~~i~~iViDEaH~-i~~~g~~fr~~~~~l 153 (470)
T TIGR00614 76 -IPATFLNSSQSKEQQKNVLTDLKDGKIKLLYVTPEKCSASNRLLQTLEERKGITLIAVDEAHC-ISQWGHDFRPDYKAL 153 (470)
T ss_pred -CcEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECHHHHcCchhHHHHHHhcCCcCEEEEeCCcc-cCccccccHHHHHHH
Confidence 11222111110 12245799999999875321 1111 467899999999994 433 2344443 2
Q ss_pred HHHHhccCCCcEEeeccCCCHHHHH---hhhh-cCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcC
Q 000854 303 KDLLCRRFDLRLVIMSATADAHQLS---KYFY-DCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTE 378 (1252)
Q Consensus 303 k~l~~~~~~lqiIlmSATld~~~l~---~~f~-~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~ 378 (1252)
..+....++.+++++|||++..... +.+. ..+.+...+...| .+.|..... ......+....+ ....
T Consensus 154 ~~l~~~~~~~~~l~lTAT~~~~~~~di~~~l~l~~~~~~~~s~~r~-nl~~~v~~~-----~~~~~~~l~~~l---~~~~ 224 (470)
T TIGR00614 154 GSLKQKFPNVPIMALTATASPSVREDILRQLNLKNPQIFCTSFDRP-NLYYEVRRK-----TPKILEDLLRFI---RKEF 224 (470)
T ss_pred HHHHHHcCCCceEEEecCCCHHHHHHHHHHcCCCCCcEEeCCCCCC-CcEEEEEeC-----CccHHHHHHHHH---HHhc
Confidence 3345567899999999999875443 3332 1233322222222 222222211 011222222222 2234
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCC
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMV 457 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~p 457 (1252)
++..+||||+++++++.+++.|+..++.+..+||+|++++|..+++.| .|+.+|||||+++++|||+|+|++||++++|
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~~~vLVaT~~~~~GID~p~V~~VI~~~~P 304 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDEIQVVVATVAFGMGINKPDVRFVIHYSLP 304 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCCCcEEEEechhhccCCcccceEEEEeCCC
Confidence 566779999999999999999999999999999999999999999999 8999999999999999999999999999997
Q ss_pred ccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 458 KESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 458 k~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
+.. ++|.||+|||||.| +|.|+.+|++.|..
T Consensus 305 ~s~------------------~~y~Qr~GRaGR~G~~~~~~~~~~~~d~~ 336 (470)
T TIGR00614 305 KSM------------------ESYYQESGRAGRDGLPSECHLFYAPADIN 336 (470)
T ss_pred CCH------------------HHHHhhhcCcCCCCCCceEEEEechhHHH
Confidence 744 89999999999998 99999999988653
No 47
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=100.00 E-value=9.1e-34 Score=325.90 Aligned_cols=444 Identities=18% Similarity=0.190 Sum_probs=318.3
Q ss_pred ccCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc
Q 000854 129 SYDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA 208 (1252)
Q Consensus 129 ~~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~ 208 (1252)
.+++..+..+.+++. ++++..+-++..|+.--++.|..++-.-+..+++.+|+++|+||||+..-..=+.....
T Consensus 186 a~~~~~~r~~vdeLd------ipe~fk~~lk~~G~~eLlPVQ~laVe~GLLeG~nllVVSaTasGKTLIgElAGi~~~l~ 259 (830)
T COG1202 186 AETDEVERVPVDELD------IPEKFKRMLKREGIEELLPVQVLAVEAGLLEGENLLVVSATASGKTLIGELAGIPRLLS 259 (830)
T ss_pred ccccccccccccccC------CcHHHHHHHHhcCcceecchhhhhhhhccccCCceEEEeccCCCcchHHHhhCcHHHHh
Confidence 344444545556555 56666666777778888888999999999999888889999999998643332333344
Q ss_pred cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc--eEEEec---CC---CccccCCCeEEEEChHHHHHHHhcCCCCCce
Q 000854 209 AEQSIVCTQPRKIAAISLAQRVREESRGCYEDD--SVICYP---SF---SSAQHFDSKVIYMTDHCLLQHFMNDRDLSRI 280 (1252)
Q Consensus 209 ~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~--~vg~~~---~~---~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~l 280 (1252)
.+++.++++|.-+||.|-++.+.+......... .||... +. ......+++|+|+|.+-+-..|.....+.++
T Consensus 260 ~g~KmlfLvPLVALANQKy~dF~~rYs~LglkvairVG~srIk~~~~pv~~~t~~dADIIVGTYEGiD~lLRtg~~lgdi 339 (830)
T COG1202 260 GGKKMLFLVPLVALANQKYEDFKERYSKLGLKVAIRVGMSRIKTREEPVVVDTSPDADIIVGTYEGIDYLLRTGKDLGDI 339 (830)
T ss_pred CCCeEEEEehhHHhhcchHHHHHHHhhcccceEEEEechhhhcccCCccccCCCCCCcEEEeechhHHHHHHcCCccccc
Confidence 577999999999999999999988764433322 223211 11 1223467899999999887777777899999
Q ss_pred eEEEEccccccccch----hhHHHHHHHHHhccCCCcEEeeccC-CCHHHHHhhhhcCCeEEEecccceeEEEEecCCCC
Q 000854 281 SCIIVDEAHERSLNT----DLLLALVKDLLCRRFDLRLVIMSAT-ADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATA 355 (1252)
Q Consensus 281 s~IVIDEaHER~l~~----d~ll~llk~l~~~~~~lqiIlmSAT-ld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s 355 (1252)
+.|||||+| +++. .-+.+++.++....|+.|+|.+||| .|++.+++.++ ...+....|..|++-+..-...
T Consensus 340 GtVVIDEiH--tL~deERG~RLdGLI~RLr~l~~~AQ~i~LSATVgNp~elA~~l~-a~lV~y~~RPVplErHlvf~~~- 415 (830)
T COG1202 340 GTVVIDEIH--TLEDEERGPRLDGLIGRLRYLFPGAQFIYLSATVGNPEELAKKLG-AKLVLYDERPVPLERHLVFARN- 415 (830)
T ss_pred ceEEeeeee--eccchhcccchhhHHHHHHHhCCCCeEEEEEeecCChHHHHHHhC-CeeEeecCCCCChhHeeeeecC-
Confidence 999999999 2322 2366777888888999999999999 58999999985 5666777777776655443321
Q ss_pred CCccccchHHHHHHHHHHhh--------hcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-
Q 000854 356 GTSAVASYVSDVVRMVGEVH--------TTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY- 426 (1252)
Q Consensus 356 ~~~~~~~~~~~~~~~l~~i~--------~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f- 426 (1252)
-.++.+.+..+. ...-.|++|||.+|+..|+.++..|...|+.+.|||++|+..+|+.+...|
T Consensus 416 --------e~eK~~ii~~L~k~E~~~~sskg~rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~ 487 (830)
T COG1202 416 --------ESEKWDIIARLVKREFSTESSKGYRGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFA 487 (830)
T ss_pred --------chHHHHHHHHHHHHHHhhhhccCcCCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHh
Confidence 122222222222 223469999999999999999999999999999999999999999999999
Q ss_pred CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChh
Q 000854 427 PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKS 503 (1252)
Q Consensus 427 ~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~ 503 (1252)
.++..++|+|.+++.|+|+|.-.+|..+ -.+...|.|..++.||.|||||.+ .|+.|.+..+.
T Consensus 488 ~q~l~~VVTTAAL~AGVDFPASQVIFEs--------------LaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvepg 553 (830)
T COG1202 488 AQELAAVVTTAALAAGVDFPASQVIFES--------------LAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEPG 553 (830)
T ss_pred cCCcceEeehhhhhcCCCCchHHHHHHH--------------HHcccccCCHHHHHHHhcccCCCCcccCceEEEEecCC
Confidence 8999999999999999999977766643 124557999999999999999995 89999998764
Q ss_pred h-hcc-CCCC----------CCcccccc------chHHHHHHHhHcCCC-------CccccccCCCCcHHHHHHHHHHHH
Q 000854 504 D-FET-RPLN----------QEPEIHRV------HLGIAVLRILALGIR-------DVQGFDFIDAPSAKAIEMAIRNLV 558 (1252)
Q Consensus 504 d-~~~-~~~~----------~~PEI~r~------~L~~~vL~lk~lgi~-------~~~~f~~ldpP~~~~l~~Al~~L~ 558 (1252)
. |.. |.+. ..||-..+ .++++ |. .-|+. .+... .+-+ .-....++..|+
T Consensus 554 ~~Y~~~m~~TEdevA~kLL~s~~e~V~vey~ee~e~e~v-LA--~~~v~~s~~~i~~v~~~-~~g~--~~~~~k~l~~Le 627 (830)
T COG1202 554 KKYHASMEETEDEVAFKLLESEPEPVIVEYDEEDEEENV-LA--SAGVTNSLSVIERVNSL-MLGA--AFDPKKALSKLE 627 (830)
T ss_pred hhhcccccccHHHHHHHHhcCCCCcceeccCcHHHHHHH-HH--HhhhcCcHHHHhhcChh-hccc--cCCHHHHHHHHH
Confidence 3 222 2211 11111111 12222 22 11211 11111 1110 123567899999
Q ss_pred HcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhh
Q 000854 559 QLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMA 612 (1252)
Q Consensus 559 ~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls 612 (1252)
..|+|..+|+..++|+.|+.++..-+.|.-+..|..++.-+ ..-+-|++.+.
T Consensus 628 e~g~i~~~G~~v~~T~yGrava~~Fl~p~~a~~Ir~~v~~~--~~pl~i~~~l~ 679 (830)
T COG1202 628 EYGMIKKKGNIVRPTPYGRAVAMSFLGPSEAEFIREGVLAS--MDPLRIAAELE 679 (830)
T ss_pred hcCCeeccCCEeeeccccceeEEeecCchHHHHHHHhhhcc--CChHhHhhccc
Confidence 99999988888999999999999999999999998875222 22356666553
No 48
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=100.00 E-value=4.9e-34 Score=355.23 Aligned_cols=315 Identities=18% Similarity=0.212 Sum_probs=223.8
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
+...+++.. +|+..|.+.|++.|..++.++++++ ++|||||||+++..+++.. .+.++++.|+++|+.|..+.
T Consensus 12 ~~~~~l~~~--fG~~~~r~~Q~~ai~~il~g~dvlv-~apTGsGKTl~y~lpal~~----~g~tlVisPl~sL~~dqv~~ 84 (607)
T PRK11057 12 LAKQVLQET--FGYQQFRPGQQEIIDAVLSGRDCLV-VMPTGGGKSLCYQIPALVL----DGLTLVVSPLISLMKDQVDQ 84 (607)
T ss_pred HHHHHHHHH--cCCCCCCHHHHHHHHHHHcCCCEEE-EcCCCchHHHHHHHHHHHc----CCCEEEEecHHHHHHHHHHH
Confidence 444555543 6888888899999988887766555 6999999998654444432 34688899999999998888
Q ss_pred HHHHhcCCCCCceEEEecC-C---------CccccCCCeEEEEChHHHHHH-HhcCCCCCceeEEEEccccccccc-hhh
Q 000854 230 VREESRGCYEDDSVICYPS-F---------SSAQHFDSKVIYMTDHCLLQH-FMNDRDLSRISCIIVDEAHERSLN-TDL 297 (1252)
Q Consensus 230 v~~~~~~~~~~~~vg~~~~-~---------~~~~~~~t~Iiv~Tpg~Ll~~-L~~~~~L~~ls~IVIDEaHER~l~-~d~ 297 (1252)
+.... ..+..... . ........+++|+||++|... +.......++++|||||||+.+-. .+|
T Consensus 85 l~~~g------i~~~~~~s~~~~~~~~~~~~~~~~g~~~il~~tPe~l~~~~~~~~l~~~~l~~iVIDEaH~i~~~G~~f 158 (607)
T PRK11057 85 LLANG------VAAACLNSTQTREQQLEVMAGCRTGQIKLLYIAPERLMMDNFLEHLAHWNPALLAVDEAHCISQWGHDF 158 (607)
T ss_pred HHHcC------CcEEEEcCCCCHHHHHHHHHHHhCCCCcEEEEChHHhcChHHHHHHhhCCCCEEEEeCccccccccCcc
Confidence 77642 11211111 1 011224578999999998732 222223457899999999953321 234
Q ss_pred HHH--HHHHHHhccCCCcEEeeccCCCHHHHH---hhhh-cCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHH
Q 000854 298 LLA--LVKDLLCRRFDLRLVIMSATADAHQLS---KYFY-DCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMV 371 (1252)
Q Consensus 298 ll~--llk~l~~~~~~lqiIlmSATld~~~l~---~~f~-~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l 371 (1252)
... .+..+....++.++++||||++..... +.+. ..+.+.+.+...| .+.|..... ..... .+
T Consensus 159 r~~y~~L~~l~~~~p~~~~v~lTAT~~~~~~~di~~~l~l~~~~~~~~~~~r~-nl~~~v~~~------~~~~~----~l 227 (607)
T PRK11057 159 RPEYAALGQLRQRFPTLPFMALTATADDTTRQDIVRLLGLNDPLIQISSFDRP-NIRYTLVEK------FKPLD----QL 227 (607)
T ss_pred cHHHHHHHHHHHhCCCCcEEEEecCCChhHHHHHHHHhCCCCeEEEECCCCCC-cceeeeeec------cchHH----HH
Confidence 333 244455567899999999998865433 3222 2344433332222 222221110 01112 22
Q ss_pred HHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeE
Q 000854 372 GEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKF 450 (1252)
Q Consensus 372 ~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~ 450 (1252)
..+.....++++||||+|+++++.+++.|+..++.+.++||+|++++|.++++.| .|+.+|||||+++++|||+|+|++
T Consensus 228 ~~~l~~~~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~~~VLVaT~a~~~GIDip~V~~ 307 (607)
T PRK11057 228 MRYVQEQRGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDDLQIVVATVAFGMGINKPNVRF 307 (607)
T ss_pred HHHHHhcCCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCCCCEEEEechhhccCCCCCcCE
Confidence 2233345678999999999999999999999999999999999999999999999 899999999999999999999999
Q ss_pred EEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 451 VIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 451 VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
||++++|+. .++|.||+|||||.| +|.|+.+|+..+..
T Consensus 308 VI~~d~P~s------------------~~~y~Qr~GRaGR~G~~~~~ill~~~~d~~ 346 (607)
T PRK11057 308 VVHFDIPRN------------------IESYYQETGRAGRDGLPAEAMLFYDPADMA 346 (607)
T ss_pred EEEeCCCCC------------------HHHHHHHhhhccCCCCCceEEEEeCHHHHH
Confidence 999998764 489999999999998 89999999998754
No 49
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=100.00 E-value=7.8e-36 Score=329.30 Aligned_cols=341 Identities=18% Similarity=0.211 Sum_probs=254.7
Q ss_pred cccCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHH----HHH
Q 000854 128 ESYDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQ----FLA 203 (1252)
Q Consensus 128 ~~~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq----~Ll 203 (1252)
+.++.+.++.+|.++. ....+++.+++.|..-|+++|-+-++-++.+++.+.| |-||||||+.+.. +.+
T Consensus 161 eGd~ipPPIksF~eMK------FP~~~L~~lk~KGI~~PTpIQvQGlPvvLsGRDmIGI-AfTGSGKTlvFvLP~imf~L 233 (610)
T KOG0341|consen 161 EGDDIPPPIKSFKEMK------FPKPLLRGLKKKGIVHPTPIQVQGLPVVLSGRDMIGI-AFTGSGKTLVFVLPVIMFAL 233 (610)
T ss_pred eCCCCCCchhhhhhcc------CCHHHHHHHHhcCCCCCCceeecCcceEeecCceeeE-EeecCCceEEEeHHHHHHHH
Confidence 3345566778888754 5667999999999999999999999999999998886 9999999975222 223
Q ss_pred hc------ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC---C-----CceEEEe--cCCCccccCCCeEEEEChHHH
Q 000854 204 DS------GIAAEQSIVCTQPRKIAAISLAQRVREESRGCY---E-----DDSVICY--PSFSSAQHFDSKVIYMTDHCL 267 (1252)
Q Consensus 204 e~------~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~---~-----~~~vg~~--~~~~~~~~~~t~Iiv~Tpg~L 267 (1252)
+. ..+.++--++++|.|+||.|..+-+........ . ...+|+. ..+.+..+.+.+|+|+|||+|
T Consensus 234 eqE~~lPf~~~EGP~gLiicPSRELArQt~~iie~~~~~L~e~g~P~lRs~LciGG~~v~eql~~v~~GvHivVATPGRL 313 (610)
T KOG0341|consen 234 EQEMMLPFARGEGPYGLIICPSRELARQTHDIIEQYVAALQEAGYPELRSLLCIGGVPVREQLDVVRRGVHIVVATPGRL 313 (610)
T ss_pred HHHhcCccccCCCCeeEEEcCcHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhhcCccHHHHHHHHhcCeeEEEcCcchH
Confidence 32 123355667777999999999887766542110 0 0111111 112233456899999999999
Q ss_pred HHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH--HHHhhhhcCCeEEEecccce
Q 000854 268 LQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH--QLSKYFYDCGISHVVGRNFP 344 (1252)
Q Consensus 268 l~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~--~l~~~f~~~~vi~i~gr~~p 344 (1252)
.++|.+.. .|.-.+++.+|||| |++|++|-..+-.++.......|+++||||++.+ .|++--.-.|+..-.||.-.
T Consensus 314 ~DmL~KK~~sLd~CRyL~lDEAD-RmiDmGFEddir~iF~~FK~QRQTLLFSATMP~KIQ~FAkSALVKPvtvNVGRAGA 392 (610)
T KOG0341|consen 314 MDMLAKKIMSLDACRYLTLDEAD-RMIDMGFEDDIRTIFSFFKGQRQTLLFSATMPKKIQNFAKSALVKPVTVNVGRAGA 392 (610)
T ss_pred HHHHHHhhccHHHHHHhhhhhHH-HHhhccchhhHHHHHHHHhhhhheeeeeccccHHHHHHHHhhcccceEEecccccc
Confidence 99998776 88889999999999 9999999888777766655678999999999854 23322222333333333222
Q ss_pred eEEEEecCCCCCCccccchHHH---HHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhh
Q 000854 345 VDVRYVPCATAGTSAVASYVSD---VVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFC 421 (1252)
Q Consensus 345 V~i~y~~~~~s~~~~~~~~~~~---~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~ 421 (1252)
....... .-.|+.. ++.++.-+ .....++|||+..+.+++.+.++|--.|..++.+||+-++++|..
T Consensus 393 AsldViQ--------evEyVkqEaKiVylLeCL--QKT~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ 462 (610)
T KOG0341|consen 393 ASLDVIQ--------EVEYVKQEAKIVYLLECL--QKTSPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHY 462 (610)
T ss_pred cchhHHH--------HHHHHHhhhhhhhHHHHh--ccCCCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHH
Confidence 1111111 0122222 12222212 255679999999999999999999989999999999999999999
Q ss_pred hcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEe
Q 000854 422 VFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRL 499 (1252)
Q Consensus 422 v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~L 499 (1252)
.++.| .|+..||||||+|..|+|+|++.+||||++|.+. ++|+||+||+||.| .|.+-+|
T Consensus 463 ai~afr~gkKDVLVATDVASKGLDFp~iqHVINyDMP~eI------------------ENYVHRIGRTGRsg~~GiATTf 524 (610)
T KOG0341|consen 463 AIEAFRAGKKDVLVATDVASKGLDFPDIQHVINYDMPEEI------------------ENYVHRIGRTGRSGKTGIATTF 524 (610)
T ss_pred HHHHHhcCCCceEEEecchhccCCCccchhhccCCChHHH------------------HHHHHHhcccCCCCCcceeeee
Confidence 99999 8999999999999999999999999999999876 89999999999997 9999999
Q ss_pred cChhh
Q 000854 500 YSKSD 504 (1252)
Q Consensus 500 yt~~d 504 (1252)
+.+..
T Consensus 525 INK~~ 529 (610)
T KOG0341|consen 525 INKNQ 529 (610)
T ss_pred ecccc
Confidence 88763
No 50
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1e-34 Score=326.13 Aligned_cols=333 Identities=19% Similarity=0.190 Sum_probs=262.2
Q ss_pred ccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc--------cc
Q 000854 137 FRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG--------IA 208 (1252)
Q Consensus 137 ~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~--------~~ 208 (1252)
.+|+++| +.+.+++++.+.|+..|+-+|+.+|+-++++.+++. .|.||||||.++..++++.. ..
T Consensus 19 ktFe~~g------LD~RllkAi~~lG~ekpTlIQs~aIplaLEgKDvva-rArTGSGKT~AYliPllqkll~~k~t~~~e 91 (569)
T KOG0346|consen 19 KTFEEFG------LDSRLLKAITKLGWEKPTLIQSSAIPLALEGKDVVA-RARTGSGKTAAYLIPLLQKLLAEKKTNDGE 91 (569)
T ss_pred ccHHHhC------CCHHHHHHHHHhCcCCcchhhhcccchhhcCcceee-eeccCCCchHHHHHHHHHHHHHhhhccccc
Confidence 6788888 888999999999999999999999999999996665 89999999998666665431 12
Q ss_pred cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE-EecCCC-----ccccCCCeEEEEChHHHHHHHhcCC--CCCce
Q 000854 209 AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI-CYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR--DLSRI 280 (1252)
Q Consensus 209 ~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg-~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~l 280 (1252)
.+...++++|||+||+|++..+.++...|.....+. ...... ......++|+|+||+.+++++..+. .+..+
T Consensus 92 ~~~sa~iLvPTkEL~qQvy~viekL~~~c~k~lr~~nl~s~~sdsv~~~~L~d~pdIvV~TP~~ll~~~~~~~~~~~~~l 171 (569)
T KOG0346|consen 92 QGPSAVILVPTKELAQQVYKVIEKLVEYCSKDLRAINLASSMSDSVNSVALMDLPDIVVATPAKLLRHLAAGVLEYLDSL 171 (569)
T ss_pred ccceeEEEechHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccchHHHHHHHccCCCeEEeChHHHHHHHhhccchhhhhe
Confidence 244788999999999999999988765443211111 110111 1123568999999999999998887 78899
Q ss_pred eEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC--HHHHHhhhhcCCeEE-Eecccce----eEEEEecCC
Q 000854 281 SCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD--AHQLSKYFYDCGISH-VVGRNFP----VDVRYVPCA 353 (1252)
Q Consensus 281 s~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld--~~~l~~~f~~~~vi~-i~gr~~p----V~i~y~~~~ 353 (1252)
+++|+|||| -.+..++-..+.+.....++..|.++||||++ ...+.+.|...|++. +.....| +..++..+.
T Consensus 172 ~~LVvDEAD-LllsfGYeedlk~l~~~LPr~~Q~~LmSATl~dDv~~LKkL~l~nPviLkl~e~el~~~dqL~Qy~v~cs 250 (569)
T KOG0346|consen 172 SFLVVDEAD-LLLSFGYEEDLKKLRSHLPRIYQCFLMSATLSDDVQALKKLFLHNPVILKLTEGELPNPDQLTQYQVKCS 250 (569)
T ss_pred eeEEechhh-hhhhcccHHHHHHHHHhCCchhhheeehhhhhhHHHHHHHHhccCCeEEEeccccCCCcccceEEEEEec
Confidence 999999999 77888888888888888899999999999964 566888887777652 2222222 233333332
Q ss_pred CCCCccccchHHHHHHHHHHhh-hcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceE
Q 000854 354 TAGTSAVASYVSDVVRMVGEVH-TTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRK 431 (1252)
Q Consensus 354 ~s~~~~~~~~~~~~~~~l~~i~-~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~k 431 (1252)
. +++...+..++ ...-.|++|||+|+.+.+.++.-.|...|+....+.|.||..-|.-+++.| .|..+
T Consensus 251 e----------~DKflllyallKL~LI~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~Yd 320 (569)
T KOG0346|consen 251 E----------EDKFLLLYALLKLRLIRGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGLYD 320 (569)
T ss_pred c----------chhHHHHHHHHHHHHhcCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCccee
Confidence 1 22222222222 123479999999999999999999999999999999999999999999999 79999
Q ss_pred EEEechh-----------------------------------hhhcCCCCCeeEEEEcCCCccccccCCCCcccceeccc
Q 000854 432 VIFATNV-----------------------------------AETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRV 476 (1252)
Q Consensus 432 VLVATni-----------------------------------ae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~i 476 (1252)
+|||||. .+||||+.+|..|||+|+|.+.
T Consensus 321 ivIAtD~s~~~~~~eee~kgk~~e~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~---------------- 384 (569)
T KOG0346|consen 321 IVIATDDSADGDKLEEEVKGKSDEKNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETV---------------- 384 (569)
T ss_pred EEEEccCccchhhhhccccccccccCCCCccccccccCchhchhccccchheeeeeecCCCCch----------------
Confidence 9999992 5799999999999999998866
Q ss_pred CHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 477 SQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 477 Skasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
.+|+||+||++|.+ +|.+..|+.+.+.
T Consensus 385 --~sYIHRvGRTaRg~n~GtalSfv~P~e~ 412 (569)
T KOG0346|consen 385 --TSYIHRVGRTARGNNKGTALSFVSPKEE 412 (569)
T ss_pred --HHHHHhccccccCCCCCceEEEecchHH
Confidence 89999999999997 9999999988654
No 51
>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=6.8e-33 Score=345.10 Aligned_cols=306 Identities=22% Similarity=0.210 Sum_probs=218.8
Q ss_pred ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 161 LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
+|+.-+.+.|++.|..++.++++ ++++|||+|||+++..+.+.. .+.++|+.|+++|+.|..+.+....
T Consensus 9 fg~~~fr~~Q~~~i~~il~g~dv-lv~~PTG~GKTl~y~lpal~~----~g~~lVisPl~sL~~dq~~~l~~~g------ 77 (591)
T TIGR01389 9 FGYDDFRPGQEEIISHVLDGRDV-LVVMPTGGGKSLCYQVPALLL----KGLTVVISPLISLMKDQVDQLRAAG------ 77 (591)
T ss_pred cCCCCCCHHHHHHHHHHHcCCCE-EEEcCCCccHhHHHHHHHHHc----CCcEEEEcCCHHHHHHHHHHHHHcC------
Confidence 67788888899999888877765 557999999998755554432 3467888999999999888887642
Q ss_pred ceEEEecC-CCc---------cccCCCeEEEEChHHHHHHH-hcCCCCCceeEEEEcccccccc-chhhHHHH--HHHHH
Q 000854 241 DSVICYPS-FSS---------AQHFDSKVIYMTDHCLLQHF-MNDRDLSRISCIIVDEAHERSL-NTDLLLAL--VKDLL 306 (1252)
Q Consensus 241 ~~vg~~~~-~~~---------~~~~~t~Iiv~Tpg~Ll~~L-~~~~~L~~ls~IVIDEaHER~l-~~d~ll~l--lk~l~ 306 (1252)
..+.+... ... ......+|+|+||++|.... .......++++|||||||+-+- ..+|...+ +..+.
T Consensus 78 i~~~~~~s~~~~~~~~~~~~~l~~~~~~il~~tpe~l~~~~~~~~l~~~~l~~iViDEaH~i~~~g~~frp~y~~l~~l~ 157 (591)
T TIGR01389 78 VAAAYLNSTLSAKEQQDIEKALVNGELKLLYVAPERLEQDYFLNMLQRIPIALVAVDEAHCVSQWGHDFRPEYQRLGSLA 157 (591)
T ss_pred CcEEEEeCCCCHHHHHHHHHHHhCCCCCEEEEChhHhcChHHHHHHhcCCCCEEEEeCCcccccccCccHHHHHHHHHHH
Confidence 12222111 110 12245789999999986432 2222456899999999995332 23454443 23344
Q ss_pred hccCCCcEEeeccCCCHHHH---Hhhhhc-CCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCc
Q 000854 307 CRRFDLRLVIMSATADAHQL---SKYFYD-CGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGT 382 (1252)
Q Consensus 307 ~~~~~lqiIlmSATld~~~l---~~~f~~-~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~ 382 (1252)
...++.+++++|||.+.... .+++.- .+...+.+... .++.|..... .. ....+........+++
T Consensus 158 ~~~~~~~vi~lTAT~~~~~~~~i~~~l~~~~~~~~~~~~~r-~nl~~~v~~~------~~----~~~~l~~~l~~~~~~~ 226 (591)
T TIGR01389 158 ERFPQVPRIALTATADAETRQDIRELLRLADANEFITSFDR-PNLRFSVVKK------NN----KQKFLLDYLKKHRGQS 226 (591)
T ss_pred HhCCCCCEEEEEeCCCHHHHHHHHHHcCCCCCCeEecCCCC-CCcEEEEEeC------CC----HHHHHHHHHHhcCCCC
Confidence 45667789999999876554 344431 22222222222 2233322111 11 1122223333344788
Q ss_pred EEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCcccc
Q 000854 383 ILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESY 461 (1252)
Q Consensus 383 iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ 461 (1252)
+||||+|+++++.+++.|...++.+.++||+|++++|..+++.| .|+.+|||||+++++|||+|+|++||++++|+..
T Consensus 227 ~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~~~vlVaT~a~~~GID~p~v~~VI~~~~p~s~- 305 (591)
T TIGR01389 227 GIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDDVKVMVATNAFGMGIDKPNVRFVIHYDMPGNL- 305 (591)
T ss_pred EEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCCCcEEEEechhhccCcCCCCCEEEEcCCCCCH-
Confidence 99999999999999999999999999999999999999999999 8999999999999999999999999999987643
Q ss_pred ccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 462 FEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 462 ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
++|.||+|||||.| +|.|+.+|+..+..
T Consensus 306 -----------------~~y~Q~~GRaGR~G~~~~~il~~~~~d~~ 334 (591)
T TIGR01389 306 -----------------ESYYQEAGRAGRDGLPAEAILLYSPADIA 334 (591)
T ss_pred -----------------HHHhhhhccccCCCCCceEEEecCHHHHH
Confidence 89999999999998 89999999998864
No 52
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=100.00 E-value=1.3e-33 Score=346.64 Aligned_cols=342 Identities=16% Similarity=0.248 Sum_probs=269.8
Q ss_pred ccCcCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc---
Q 000854 129 SYDANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS--- 205 (1252)
Q Consensus 129 ~~~~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~--- 205 (1252)
+-+.+..+.+|.++| +...++..++++++..|+++|.++||.++.+++++.+ |.||||||.++.++++.+
T Consensus 357 g~~~pkpv~sW~q~g------l~~~il~tlkkl~y~k~~~IQ~qAiP~ImsGrdvIgv-akTgSGKT~af~LPmirhi~d 429 (997)
T KOG0334|consen 357 GKECPKPVTSWTQCG------LSSKILETLKKLGYEKPTPIQAQAIPAIMSGRDVIGV-AKTGSGKTLAFLLPMIRHIKD 429 (997)
T ss_pred cCCCCcccchHhhCC------chHHHHHHHHHhcCCCCcchhhhhcchhccCcceEEe-eccCCccchhhhcchhhhhhc
Confidence 345667788898888 8888999999999999999999999999999888885 999999999875555432
Q ss_pred ----ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc-----cccCCCeEEEEChHHHHHHHhcCC-
Q 000854 206 ----GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS-----AQHFDSKVIYMTDHCLLQHFMNDR- 275 (1252)
Q Consensus 206 ----~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~~- 275 (1252)
..+.++..++++|||+||.|+.+.+..+...... ..+-.|.+... ....++.|+|||||++++.+..+.
T Consensus 430 Qr~~~~gdGPi~li~aPtrela~QI~r~~~kf~k~l~i-r~v~vygg~~~~~qiaelkRg~eIvV~tpGRmiD~l~~n~g 508 (997)
T KOG0334|consen 430 QRPLEEGDGPIALILAPTRELAMQIHREVRKFLKLLGI-RVVCVYGGSGISQQIAELKRGAEIVVCTPGRMIDILCANSG 508 (997)
T ss_pred CCChhhCCCceEEEEcCCHHHHHHHHHHHHHHHhhcCc-eEEEecCCccHHHHHHHHhcCCceEEeccchhhhhHhhcCC
Confidence 1234667899999999999999999998754222 22222332221 133569999999999999885544
Q ss_pred ---CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCH--HHHHhhhhcCCeEEEec-cc---ceeE
Q 000854 276 ---DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADA--HQLSKYFYDCGISHVVG-RN---FPVD 346 (1252)
Q Consensus 276 ---~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~--~~l~~~f~~~~vi~i~g-r~---~pV~ 346 (1252)
.+.++.++|+|||| |+++..|.....+++...+|+.|++++|||.+. +.++.-....|+-.+.+ +. -.|+
T Consensus 509 rvtnlrR~t~lv~deaD-rmfdmgfePq~~~Ii~nlrpdrQtvlfSatfpr~m~~la~~vl~~Pveiiv~~~svV~k~V~ 587 (997)
T KOG0334|consen 509 RVTNLRRVTYLVLDEAD-RMFDMGFEPQITRILQNLRPDRQTVLFSATFPRSMEALARKVLKKPVEIIVGGRSVVCKEVT 587 (997)
T ss_pred ccccccccceeeechhh-hhheeccCcccchHHhhcchhhhhhhhhhhhhHHHHHHHHHhhcCCeeEEEccceeEeccce
Confidence 67777799999999 999999999999988889999999999999774 44555555566654333 21 1222
Q ss_pred EEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC
Q 000854 347 VRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY 426 (1252)
Q Consensus 347 i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f 426 (1252)
..+.... ...+....++.-+......+++||||..+..|..+.+.|.+.++.+..+||+.++.+|..+++.|
T Consensus 588 q~v~V~~--------~e~eKf~kL~eLl~e~~e~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~df 659 (997)
T KOG0334|consen 588 QVVRVCA--------IENEKFLKLLELLGERYEDGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDF 659 (997)
T ss_pred EEEEEec--------CchHHHHHHHHHHHHHhhcCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHH
Confidence 2222221 11223333333334445689999999999999999999999999999999999999999999999
Q ss_pred -CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 427 -PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 427 -~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
++..++||||+++++|+|++++..||+|++|..- +.|+||.|||||+| .|.||.|.++++
T Consensus 660 K~~~~~LLvaTsvvarGLdv~~l~Lvvnyd~pnh~------------------edyvhR~gRTgragrkg~AvtFi~p~q 721 (997)
T KOG0334|consen 660 KNGVVNLLVATSVVARGLDVKELILVVNYDFPNHY------------------EDYVHRVGRTGRAGRKGAAVTFITPDQ 721 (997)
T ss_pred hccCceEEEehhhhhcccccccceEEEEcccchhH------------------HHHHHHhcccccCCccceeEEEeChHH
Confidence 8999999999999999999999999999998743 77999999999997 899999999854
Q ss_pred h
Q 000854 505 F 505 (1252)
Q Consensus 505 ~ 505 (1252)
.
T Consensus 722 ~ 722 (997)
T KOG0334|consen 722 L 722 (997)
T ss_pred h
Confidence 3
No 53
>COG1204 Superfamily II helicase [General function prediction only]
Probab=100.00 E-value=6e-32 Score=338.69 Aligned_cols=415 Identities=19% Similarity=0.232 Sum_probs=282.7
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
--...||.++-..+.++.+++|++|||||||..+...++......+.++++++|+|+||.+.+++++++- ..|..|+
T Consensus 31 el~~~qq~av~~~~~~~~N~li~aPTgsGKTlIA~lai~~~l~~~~~k~vYivPlkALa~Ek~~~~~~~~---~~GirV~ 107 (766)
T COG1204 31 ELFNPQQEAVEKGLLSDENVLISAPTGSGKTLIALLAILSTLLEGGGKVVYIVPLKALAEEKYEEFSRLE---ELGIRVG 107 (766)
T ss_pred HhhHHHHHHhhccccCCCcEEEEcCCCCchHHHHHHHHHHHHHhcCCcEEEEeChHHHHHHHHHHhhhHH---hcCCEEE
Confidence 3445688888888888899999999999999987777766544446799999999999999999999321 1234455
Q ss_pred EecCCCc---cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccch----hhHHHHHHHHHhccCCCcEEe
Q 000854 245 CYPSFSS---AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNT----DLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 245 ~~~~~~~---~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~----d~ll~llk~l~~~~~~lqiIl 316 (1252)
...+... ..-.+++|+|+||+.+-..+.+.+ .+.++++|||||+| +++. -.+..+..+.....+..|+++
T Consensus 108 ~~TgD~~~~~~~l~~~~ViVtT~EK~Dsl~R~~~~~~~~V~lvViDEiH--~l~d~~RG~~lE~iv~r~~~~~~~~rivg 185 (766)
T COG1204 108 ISTGDYDLDDERLARYDVIVTTPEKLDSLTRKRPSWIEEVDLVVIDEIH--LLGDRTRGPVLESIVARMRRLNELIRIVG 185 (766)
T ss_pred EecCCcccchhhhccCCEEEEchHHhhHhhhcCcchhhcccEEEEeeee--ecCCcccCceehhHHHHHHhhCcceEEEE
Confidence 4333222 123579999999999988887776 78899999999999 2222 245666666666677799999
Q ss_pred eccC-CCHHHHHhhhhcCCeEEEecccceeEEE--------EecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEe
Q 000854 317 MSAT-ADAHQLSKYFYDCGISHVVGRNFPVDVR--------YVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFL 387 (1252)
Q Consensus 317 mSAT-ld~~~l~~~f~~~~vi~i~gr~~pV~i~--------y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl 387 (1252)
+||| .|.+.+++|++..+. .+..+|+..+ +.....................+...+ ..++++||||
T Consensus 186 LSATlpN~~evA~wL~a~~~---~~~~rp~~l~~~v~~~~~~~~~~~~~k~~~~~~~~~~~~~v~~~~--~~~~qvLvFv 260 (766)
T COG1204 186 LSATLPNAEEVADWLNAKLV---ESDWRPVPLRRGVPYVGAFLGADGKKKTWPLLIDNLALELVLESL--AEGGQVLVFV 260 (766)
T ss_pred EeeecCCHHHHHHHhCCccc---ccCCCCcccccCCccceEEEEecCccccccccchHHHHHHHHHHH--hcCCeEEEEE
Confidence 9999 579999999975443 2233333321 111100000000111122222232222 5789999999
Q ss_pred CCHHHHHHHHHHcCC---------------------C----------------CCeeEeecCCCCHHhhhhhcccC-CCc
Q 000854 388 TSKMEVEWACEKFDA---------------------P----------------SAVALPFHGQLSFDEQFCVFKSY-PGR 429 (1252)
Q Consensus 388 ~s~~eie~la~~L~~---------------------~----------------~~~v~~LHg~Ls~~eR~~v~~~f-~G~ 429 (1252)
++++.+...++.++. . ...+..||++|+.++|..+.+.| .|+
T Consensus 261 ~sR~~a~~~A~~l~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~l~e~v~~GvafHhAGL~~~~R~~vE~~Fr~g~ 340 (766)
T COG1204 261 HSRKEAEKTAKKLRIKMSATLSDDEKIVLDEGASPILIPETPTSEDEELAELVLRGVAFHHAGLPREDRQLVEDAFRKGK 340 (766)
T ss_pred ecCchHHHHHHHHHHHHhhcCChhhhhhccccccccccccccccchHHHHHHHHhCccccccCCCHHHHHHHHHHHhcCC
Confidence 999999988877751 0 12467899999999999999999 899
Q ss_pred eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEec-Chhhh
Q 000854 430 RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLY-SKSDF 505 (1252)
Q Consensus 430 ~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Ly-t~~d~ 505 (1252)
++||+||++++.|+|.|.-++||.. ...|||..| ..++++-+++|+.|||||.| -|..+.+. +.++.
T Consensus 341 ikVlv~TpTLA~GVNLPA~~VIIk~----~~~y~~~~g-----~~~i~~~dv~QM~GRAGRPg~d~~G~~~i~~~~~~~~ 411 (766)
T COG1204 341 IKVLVSTPTLAAGVNLPARTVIIKD----TRRYDPKGG-----IVDIPVLDVLQMAGRAGRPGYDDYGEAIILATSHDEL 411 (766)
T ss_pred ceEEEechHHhhhcCCcceEEEEee----eEEEcCCCC-----eEECchhhHhhccCcCCCCCcCCCCcEEEEecCccch
Confidence 9999999999999999987777742 346777444 35678899999999999996 45555554 32222
Q ss_pred c---cCCCCCCccccccch------HHHHHHHhHcCCC----Ccccc---ccCC------CCcHHHHHHHHHHHHHcC-c
Q 000854 506 E---TRPLNQEPEIHRVHL------GIAVLRILALGIR----DVQGF---DFID------APSAKAIEMAIRNLVQLG-A 562 (1252)
Q Consensus 506 ~---~~~~~~~PEI~r~~L------~~~vL~lk~lgi~----~~~~f---~~ld------pP~~~~l~~Al~~L~~lg-a 562 (1252)
+ .......||...+.| ...++.+.+.|-. ....| -+.. --....+..+++.|.+.+ .
T Consensus 412 ~~~~~~~~~~~~e~~~s~l~~~~~~~~~l~~v~~~~~~v~~~~~~~f~~~t~~~~~~~~~~~~~~~i~~~~~~L~~~~~~ 491 (766)
T COG1204 412 EYLAELYIQSEPEPIESKLGDELNLRTFLLGVISVGDAVSWLELTDFYERTFYNPQTYGEGMLREEILASLRYLEENGLI 491 (766)
T ss_pred hHHHHHhhccCcchHHHhhcccccchheEEEEEeccchhhHHHHHHHHHHHHhhhhhccccchHHHHHHHHHHHHhccce
Confidence 2 233344444422111 1111111111100 00001 0111 124567788999999986 7
Q ss_pred ccccCCcccccHhHHhhhccCCChHhHHHHHHHhhc
Q 000854 563 IKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRR 598 (1252)
Q Consensus 563 l~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~ 598 (1252)
++...+.+..|++|+.+++++++|..++.+...+..
T Consensus 492 ~~~~~~~~~ate~g~~~s~~yi~~~sa~~~~~~l~~ 527 (766)
T COG1204 492 LDADWEALHATELGKLVSRLYIDPESAKIFRDLLAE 527 (766)
T ss_pred eeccccccchhHHHHHhhhccCCHHHHHHHHHHHHH
Confidence 777777899999999999999999999998877654
No 54
>PRK13767 ATP-dependent helicase; Provisional
Probab=100.00 E-value=1.2e-31 Score=344.84 Aligned_cols=327 Identities=19% Similarity=0.184 Sum_probs=219.1
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--------ccCCeEEecCcHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--------AAEQSIVCTQPRKI 221 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--------~~~~~ILv~qPrR~ 221 (1252)
+++. +++..+.++..|++.|++++..++.++ +++++||||||||+++..++++... ..+.+++++.|+|+
T Consensus 18 l~~~-v~~~~~~~~~~~tpiQ~~Ai~~il~g~-nvli~APTGSGKTlaa~Lpil~~l~~~~~~~~~~~~~~~LyIsPtra 95 (876)
T PRK13767 18 LRPY-VREWFKEKFGTFTPPQRYAIPLIHEGK-NVLISSPTGSGKTLAAFLAIIDELFRLGREGELEDKVYCLYVSPLRA 95 (876)
T ss_pred cCHH-HHHHHHHccCCCCHHHHHHHHHHHcCC-CEEEECCCCCcHHHHHHHHHHHHHHhhccccCCCCCeEEEEEcCHHH
Confidence 4443 344455577889999999999876655 5666899999999987666654311 22457999999999
Q ss_pred HHHHHHHHHHHHh----------cCCCCCceEEEecCCCc------cccCCCeEEEEChHHHHHHHhcCC---CCCceeE
Q 000854 222 AAISLAQRVREES----------RGCYEDDSVICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR---DLSRISC 282 (1252)
Q Consensus 222 LA~qva~rv~~~~----------~~~~~~~~vg~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~---~L~~ls~ 282 (1252)
||.|+.+++.+.. +....+..++...+... .....++|+++|||+|...+.+.. .++++++
T Consensus 96 La~di~~~L~~~l~~i~~~~~~~g~~~~~i~v~v~~Gdt~~~~r~~~l~~~p~IlVtTPE~L~~ll~~~~~~~~l~~l~~ 175 (876)
T PRK13767 96 LNNDIHRNLEEPLTEIREIAKERGEELPEIRVAIRTGDTSSYEKQKMLKKPPHILITTPESLAILLNSPKFREKLRTVKW 175 (876)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCcCCeeEEEEcCCCCHHHHHHHHhCCCCEEEecHHHHHHHhcChhHHHHHhcCCE
Confidence 9999988765321 11111222332222111 112357999999999976664432 5789999
Q ss_pred EEEccccccccchh---hHHHHHHHHHhc-cCCCcEEeeccCCC-HHHHHhhhhcC-------CeEEEecc-cceeEEEE
Q 000854 283 IIVDEAHERSLNTD---LLLALVKDLLCR-RFDLRLVIMSATAD-AHQLSKYFYDC-------GISHVVGR-NFPVDVRY 349 (1252)
Q Consensus 283 IVIDEaHER~l~~d---~ll~llk~l~~~-~~~lqiIlmSATld-~~~l~~~f~~~-------~vi~i~gr-~~pV~i~y 349 (1252)
|||||+| ...+.. .+...+.++... .++.|+|++|||+. .+.+++|+.+. ++..+.+. ..+..+..
T Consensus 176 VVIDE~H-~l~~~~RG~~l~~~L~rL~~l~~~~~q~IglSATl~~~~~va~~L~~~~~~~~~r~~~iv~~~~~k~~~i~v 254 (876)
T PRK13767 176 VIVDEIH-SLAENKRGVHLSLSLERLEELAGGEFVRIGLSATIEPLEEVAKFLVGYEDDGEPRDCEIVDARFVKPFDIKV 254 (876)
T ss_pred EEEechh-hhccCccHHHHHHHHHHHHHhcCCCCeEEEEecccCCHHHHHHHhcCccccCCCCceEEEccCCCccceEEE
Confidence 9999999 444332 233334444433 36789999999964 57788887542 12222211 11111111
Q ss_pred e-cCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC------CCCeeEeecCCCCHHhhhhh
Q 000854 350 V-PCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA------PSAVALPFHGQLSFDEQFCV 422 (1252)
Q Consensus 350 ~-~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~------~~~~v~~LHg~Ls~~eR~~v 422 (1252)
. +...................+..+. ...+++||||+|+..++.++..|.+ .+..+..+||+|++++|..+
T Consensus 255 ~~p~~~l~~~~~~~~~~~l~~~L~~~i--~~~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~v 332 (876)
T PRK13767 255 ISPVDDLIHTPAEEISEALYETLHELI--KEHRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEV 332 (876)
T ss_pred eccCccccccccchhHHHHHHHHHHHH--hcCCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHH
Confidence 1 1000000000111122333443333 2467899999999999999998875 24679999999999999999
Q ss_pred cccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC----CCeEE
Q 000854 423 FKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE----PGRCY 497 (1252)
Q Consensus 423 ~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~----~G~c~ 497 (1252)
++.| +|+.+|||||+++++|||+|+|++||++|.|+. .++|+||+|||||.. .|.++
T Consensus 333 e~~fk~G~i~vLVaTs~Le~GIDip~Vd~VI~~~~P~s------------------v~~ylQRiGRaGR~~g~~~~g~ii 394 (876)
T PRK13767 333 EEKLKRGELKVVVSSTSLELGIDIGYIDLVVLLGSPKS------------------VSRLLQRIGRAGHRLGEVSKGRII 394 (876)
T ss_pred HHHHHcCCCeEEEECChHHhcCCCCCCcEEEEeCCCCC------------------HHHHHHhcccCCCCCCCCCcEEEE
Confidence 9999 899999999999999999999999999988764 489999999999862 46666
Q ss_pred Ee
Q 000854 498 RL 499 (1252)
Q Consensus 498 ~L 499 (1252)
..
T Consensus 395 ~~ 396 (876)
T PRK13767 395 VV 396 (876)
T ss_pred Ec
Confidence 64
No 55
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.5e-33 Score=308.81 Aligned_cols=336 Identities=16% Similarity=0.232 Sum_probs=263.4
Q ss_pred cccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc--cccCCeE
Q 000854 136 VFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG--IAAEQSI 213 (1252)
Q Consensus 136 ~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~--~~~~~~I 213 (1252)
+.+|++++ +.+.+|+++...|+..|..+||.+|+.++.+.++.+ ++.+|+|||.++...++... -....++
T Consensus 25 vdsfddm~------L~e~LLrgiy~yGFekPSaIQqraI~p~i~G~dv~~-qaqsgTgKt~af~i~iLq~iD~~~ke~qa 97 (397)
T KOG0327|consen 25 VDSFDDMN------LKESLLRGIYAYGFEKPSAIQQRAILPCIKGHDVIA-QAQSGTGKTAAFLISILQQIDMSVKETQA 97 (397)
T ss_pred hhhhhhcC------CCHHHHhHHHhhccCCchHHHhccccccccCCceeE-eeeccccchhhhHHHHHhhcCcchHHHHH
Confidence 34788877 888999999999999999999999999999887766 89999999988655555432 1234589
Q ss_pred EecCcHHHHHHHHHHHHHHHhcCCCC--CceEEEecC--CCcc-ccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEcc
Q 000854 214 VCTQPRKIAAISLAQRVREESRGCYE--DDSVICYPS--FSSA-QHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDE 287 (1252)
Q Consensus 214 Lv~qPrR~LA~qva~rv~~~~~~~~~--~~~vg~~~~--~~~~-~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDE 287 (1252)
++++|+|+||.|+.+.+..+...... ...+|+... .... .....+|+++|||+++.++.... ....+.++|+||
T Consensus 98 lilaPtreLa~qi~~v~~~lg~~~~~~v~~~igg~~~~~~~~~i~~~~~hivvGTpgrV~dml~~~~l~~~~iKmfvlDE 177 (397)
T KOG0327|consen 98 LILAPTRELAQQIQKVVRALGDHMDVSVHACIGGTNVRREDQALLKDKPHIVVGTPGRVFDMLNRGSLSTDGIKMFVLDE 177 (397)
T ss_pred HHhcchHHHHHHHHHHHHhhhcccceeeeeecCcccchhhhhhhhccCceeecCCchhHHHhhccccccccceeEEeecc
Confidence 99999999999999777666422111 111221111 1111 22357999999999999997766 566699999999
Q ss_pred ccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHH--HHhhhhcCCeEEEecccc----eeEEEEecCCCCCCcccc
Q 000854 288 AHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQ--LSKYFYDCGISHVVGRNF----PVDVRYVPCATAGTSAVA 361 (1252)
Q Consensus 288 aHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~--l~~~f~~~~vi~i~gr~~----pV~i~y~~~~~s~~~~~~ 361 (1252)
|+| ++..+|...+.......+++.|++++|||++.+. +.+-|...|+.....+.. -+..+|.....
T Consensus 178 aDE-mLs~gfkdqI~~if~~lp~~vQv~l~SAT~p~~vl~vt~~f~~~pv~i~vkk~~ltl~gikq~~i~v~k------- 249 (397)
T KOG0327|consen 178 ADE-MLSRGFKDQIYDIFQELPSDVQVVLLSATMPSDVLEVTKKFMREPVRILVKKDELTLEGIKQFYINVEK------- 249 (397)
T ss_pred hHh-hhccchHHHHHHHHHHcCcchhheeecccCcHHHHHHHHHhccCceEEEecchhhhhhheeeeeeeccc-------
Confidence 995 7788899999999888999999999999988665 445565555443322211 11122222111
Q ss_pred chHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhh
Q 000854 362 SYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAE 440 (1252)
Q Consensus 362 ~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae 440 (1252)
+++...+..++. .-.+.+|||+|+..+..+...|...++.+..+||.|.+.+|..+...| .|..+|||.|+.++
T Consensus 250 ---~~k~~~l~dl~~--~~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gssrvlIttdl~a 324 (397)
T KOG0327|consen 250 ---EEKLDTLCDLYR--RVTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGSSRVLITTDLLA 324 (397)
T ss_pred ---cccccHHHHHHH--hhhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCCceEEeeccccc
Confidence 125566666665 668899999999999999999999999999999999999999999999 89999999999999
Q ss_pred hcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhccCC
Q 000854 441 TSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFETRP 509 (1252)
Q Consensus 441 ~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~~~ 509 (1252)
+|+|+-++..||++++|... ++|+||+||+||.| +|..+.++++++...+.
T Consensus 325 rgidv~~~slvinydlP~~~------------------~~yihR~gr~gr~grkg~~in~v~~~d~~~lk 376 (397)
T KOG0327|consen 325 RGIDVQQVSLVVNYDLPARK------------------ENYIHRIGRAGRFGRKGVAINFVTEEDVRDLK 376 (397)
T ss_pred cccchhhcceeeeeccccch------------------hhhhhhcccccccCCCceeeeeehHhhHHHHH
Confidence 99999999999999998655 89999999999997 99999999998876543
No 56
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=100.00 E-value=2.7e-32 Score=310.83 Aligned_cols=330 Identities=18% Similarity=0.191 Sum_probs=232.5
Q ss_pred HHHHHHHHHccCCCChHHHHHHHHHHHhc--------CCeEEEEcCCCChhhHHHHHHHHhccc---ccCCeEEecCcHH
Q 000854 152 AFIVRECKRLEDGLPIYMYRQDILRRIYG--------EQILVLIGETGCGKSTQLVQFLADSGI---AAEQSIVCTQPRK 220 (1252)
Q Consensus 152 ~~ll~~l~~~~~~lP~~~qq~~I~~al~~--------~~vvII~apTGSGKTtqipq~Lle~~~---~~~~~ILv~qPrR 220 (1252)
..+.+.+.+++...-.+.|...++..+.. .+++.|.||||||||+++..++..... -..-+.+|++|+|
T Consensus 146 a~~~q~l~k~~is~~FPVQ~aVlp~ll~~~~~p~~~r~rDIcV~ApTGSGKTLaY~iPIVQ~L~~R~v~~LRavVivPtr 225 (620)
T KOG0350|consen 146 ATIDQLLVKMAISRLFPVQYAVLPSLLEEIRSPPPSRPRDICVNAPTGSGKTLAYVIPIVQLLSSRPVKRLRAVVIVPTR 225 (620)
T ss_pred HHHHHHHHHhhcccccchHHHHHHHHHHhhcCCCCCCCCceEEecCCCCCceeeehhHHHHHHccCCccceEEEEEeeHH
Confidence 45667788888877777787777666542 346777999999999885555544321 1234789999999
Q ss_pred HHHHHHHHHHHHHhcCCCCCceEEEecCCCcc-------cc----CCCeEEEEChHHHHHHHhcCC--CCCceeEEEEcc
Q 000854 221 IAAISLAQRVREESRGCYEDDSVICYPSFSSA-------QH----FDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDE 287 (1252)
Q Consensus 221 ~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~-------~~----~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDE 287 (1252)
+||.|+++.+.+...+.. ..|+......+. .. ...+|+|+|||+|+++|.+.+ .|++++++||||
T Consensus 226 ~L~~QV~~~f~~~~~~tg--L~V~~~sgq~sl~~E~~qL~~~~~~~~~DIlVaTPGRLVDHl~~~k~f~Lk~LrfLVIDE 303 (620)
T KOG0350|consen 226 ELALQVYDTFKRLNSGTG--LAVCSLSGQNSLEDEARQLASDPPECRIDILVATPGRLVDHLNNTKSFDLKHLRFLVIDE 303 (620)
T ss_pred HHHHHHHHHHHHhccCCc--eEEEecccccchHHHHHHHhcCCCccccceEEcCchHHHHhccCCCCcchhhceEEEech
Confidence 999999999999875443 335443332221 11 135999999999999998766 899999999999
Q ss_pred ccccccchhh---HHHHHHHH------------Hh-------------------ccCCCcEEeeccCC--CHHHHHhhhh
Q 000854 288 AHERSLNTDL---LLALVKDL------------LC-------------------RRFDLRLVIMSATA--DAHQLSKYFY 331 (1252)
Q Consensus 288 aHER~l~~d~---ll~llk~l------------~~-------------------~~~~lqiIlmSATl--d~~~l~~~f~ 331 (1252)
|| |+++..| +..++..+ .. ..+.+.-+.+|||+ ++..+.++-.
T Consensus 304 AD-Rll~qsfQ~Wl~~v~~~~~~~k~~~~~~nii~~~~~~~pt~~~e~~t~~~~~~~~l~kL~~satLsqdP~Kl~~l~l 382 (620)
T KOG0350|consen 304 AD-RLLDQSFQEWLDTVMSLCKTMKRVACLDNIIRQRQAPQPTVLSELLTKLGKLYPPLWKLVFSATLSQDPSKLKDLTL 382 (620)
T ss_pred HH-HHHHHHHHHHHHHHHHHhCCchhhcChhhhhhhcccCCchhhHHHHhhcCCcCchhHhhhcchhhhcChHHHhhhhc
Confidence 99 8877533 22222111 11 11334567888884 5667776654
Q ss_pred cCC-eEEEecccceeEEEEe-cCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC----CCCC
Q 000854 332 DCG-ISHVVGRNFPVDVRYV-PCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFD----APSA 405 (1252)
Q Consensus 332 ~~~-vi~i~gr~~pV~i~y~-~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~----~~~~ 405 (1252)
+.| ++.+.+. .-..|. |...+..... .......-.+.......+..++|+|+++...+.+++..|. ...+
T Consensus 383 ~~Prl~~v~~~---~~~ryslp~~l~~~~vv-~~~~~kpl~~~~lI~~~k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~ 458 (620)
T KOG0350|consen 383 HIPRLFHVSKP---LIGRYSLPSSLSHRLVV-TEPKFKPLAVYALITSNKLNRTLCFVNSVSSANRLAHVLKVEFCSDNF 458 (620)
T ss_pred CCCceEEeecc---cceeeecChhhhhceee-cccccchHhHHHHHHHhhcceEEEEecchHHHHHHHHHHHHHhccccc
Confidence 444 4444321 112222 1111100000 0011122234444555678899999999999999988775 5677
Q ss_pred eeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHH
Q 000854 406 VALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQR 484 (1252)
Q Consensus 406 ~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR 484 (1252)
.+..+.|+++...|.+.+..| .|.++||||||+++||||+.+|+.||+|++|... .+|+||
T Consensus 459 ~~s~~t~~l~~k~r~k~l~~f~~g~i~vLIcSD~laRGiDv~~v~~VINYd~P~~~------------------ktyVHR 520 (620)
T KOG0350|consen 459 KVSEFTGQLNGKRRYKMLEKFAKGDINVLICSDALARGIDVNDVDNVINYDPPASD------------------KTYVHR 520 (620)
T ss_pred hhhhhhhhhhHHHHHHHHHHHhcCCceEEEehhhhhcCCcccccceEeecCCCchh------------------hHHHHh
Confidence 888899999999999999999 8999999999999999999999999999987644 889999
Q ss_pred hcccCCCC-CCeEEEecChhhhc
Q 000854 485 AGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 485 ~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
+||+||+| .|.||.+.+..+..
T Consensus 521 ~GRTARAgq~G~a~tll~~~~~r 543 (620)
T KOG0350|consen 521 AGRTARAGQDGYAITLLDKHEKR 543 (620)
T ss_pred hcccccccCCceEEEeeccccch
Confidence 99999998 99999999987643
No 57
>KOG4284 consensus DEAD box protein [Transcription]
Probab=100.00 E-value=2e-32 Score=317.38 Aligned_cols=338 Identities=14% Similarity=0.155 Sum_probs=264.0
Q ss_pred chhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc--cccCCeEEecCcHHHHH
Q 000854 146 DWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG--IAAEQSIVCTQPRKIAA 223 (1252)
Q Consensus 146 ~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~--~~~~~~ILv~qPrR~LA 223 (1252)
+..++..+++..+++.++.+|+.+|..+|+.++.+-+ +||+|..|+|||+.+....++.. .....++++++|||++|
T Consensus 28 e~l~l~r~vl~glrrn~f~~ptkiQaaAIP~~~~kmD-liVQaKSGTGKTlVfsv~av~sl~~~~~~~q~~Iv~PTREia 106 (980)
T KOG4284|consen 28 EQLALWREVLLGLRRNAFALPTKIQAAAIPAIFSKMD-LIVQAKSGTGKTLVFSVLAVESLDSRSSHIQKVIVTPTREIA 106 (980)
T ss_pred HHHHHHHHHHHHHHhhcccCCCchhhhhhhhhhcccc-eEEEecCCCCceEEEEeeeehhcCcccCcceeEEEecchhhh
Confidence 3345888999999999999999999999998886655 45599999999976443333331 22345789999999999
Q ss_pred HHHHHHHHHHhcCCCCCceEEEec----CCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchh-h
Q 000854 224 ISLAQRVREESRGCYEDDSVICYP----SFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTD-L 297 (1252)
Q Consensus 224 ~qva~rv~~~~~~~~~~~~vg~~~----~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d-~ 297 (1252)
.|+.+.+........+...-.+.+ ..+...-..++|+|+|||++.++...+. ..+.++++|+|||| ..+++. |
T Consensus 107 VQI~~tv~~v~~sf~g~~csvfIGGT~~~~d~~rlk~~rIvIGtPGRi~qL~el~~~n~s~vrlfVLDEAD-kL~~t~sf 185 (980)
T KOG4284|consen 107 VQIKETVRKVAPSFTGARCSVFIGGTAHKLDLIRLKQTRIVIGTPGRIAQLVELGAMNMSHVRLFVLDEAD-KLMDTESF 185 (980)
T ss_pred hHHHHHHHHhcccccCcceEEEecCchhhhhhhhhhhceEEecCchHHHHHHHhcCCCccceeEEEeccHH-hhhchhhH
Confidence 999999998864333322222211 2223334579999999999999988777 89999999999999 677754 5
Q ss_pred HHHHHHHHHhccCCCcEEeeccCCC---HHHHHhhhhcCCeEEEeccc---ceeEEEEecCCCCCCccccchHHHHHHHH
Q 000854 298 LLALVKDLLCRRFDLRLVIMSATAD---AHQLSKYFYDCGISHVVGRN---FPVDVRYVPCATAGTSAVASYVSDVVRMV 371 (1252)
Q Consensus 298 ll~llk~l~~~~~~lqiIlmSATld---~~~l~~~f~~~~vi~i~gr~---~pV~i~y~~~~~s~~~~~~~~~~~~~~~l 371 (1252)
...+-.++..++...|++.+|||.+ .+.|++|+.++..+....+. +-+..+|..... ..........+.+.+
T Consensus 186 q~~In~ii~slP~~rQv~a~SATYp~nLdn~Lsk~mrdp~lVr~n~~d~~L~GikQyv~~~~s--~nnsveemrlklq~L 263 (980)
T KOG4284|consen 186 QDDINIIINSLPQIRQVAAFSATYPRNLDNLLSKFMRDPALVRFNADDVQLFGIKQYVVAKCS--PNNSVEEMRLKLQKL 263 (980)
T ss_pred HHHHHHHHHhcchhheeeEEeccCchhHHHHHHHHhcccceeecccCCceeechhheeeeccC--CcchHHHHHHHHHHH
Confidence 5666666777888899999999976 45688888766665554332 223333333221 112223345677888
Q ss_pred HHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeE
Q 000854 372 GEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKF 450 (1252)
Q Consensus 372 ~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~ 450 (1252)
.++.+.-+-.+.||||+....|+.++..|...|+.+..+.|.|++.+|..+++.+ .-..+|||+||..+||||-|+|+.
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 8888888889999999999999999999999999999999999999999999998 667899999999999999999999
Q ss_pred EEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 451 VIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 451 VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
|||-|.|.+- .+|.||+|||||.| .|.+++++..+..
T Consensus 344 VVNiD~p~d~------------------eTY~HRIGRAgRFG~~G~aVT~~~~~~e 381 (980)
T KOG4284|consen 344 VVNIDAPADE------------------ETYFHRIGRAGRFGAHGAAVTLLEDERE 381 (980)
T ss_pred EEecCCCcch------------------HHHHHHhhhcccccccceeEEEeccchh
Confidence 9999887644 88999999999998 8999999876543
No 58
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=100.00 E-value=1.9e-31 Score=293.24 Aligned_cols=411 Identities=20% Similarity=0.271 Sum_probs=268.4
Q ss_pred hhhhhhhhHhHHHhhhhhhcCCCCchhhhhhhhHhhhhhhHHHHHHHHHHHHHhhccccccccCCCccccccccccCcCc
Q 000854 55 KWLKMKDDKCDEIANVSNRLGSRNSYAVFCELNERKKGLFKEREMIMRRVREFKNGMHCVLKYLDDPQNVAKKESYDANV 134 (1252)
Q Consensus 55 ~~~~~l~~l~~el~~~~~~~~~~~~~~~~~~~~~kkk~~~~ek~~~~~r~~e~~~~l~~l~~~l~~~~~~~~~~~~~~~~ 134 (1252)
++..++.++..|+..++ -+.+++.++|.++.+.++.++++++-.- +++.+. ....+-+-
T Consensus 8 ~ls~el~~i~~ei~~id---------~qiqel~~kkqel~qkkk~i~kkielk~---------~edsda---g~~~eyd~ 66 (695)
T KOG0353|consen 8 ALSEELADIDGEIGAID---------IQIQELREKKQELIQKKKAIEKKIELKC---------LEDSDA---GASNEYDR 66 (695)
T ss_pred HHHHHHHhhccchhHHH---------HHHHHHHHHHHHHHHHHHHHHHHHhhhh---------cccccc---cccccccC
Confidence 34455566666665554 2334477888889888888888886321 111111 11122244
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHH--HHHHHHhcccccCCe
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQ--LVQFLADSGIAAEQS 212 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtq--ipq~Lle~~~~~~~~ 212 (1252)
+...|+. ..|||+.....++++.+++....|. |..+|...+.+.+.++ ..|||.|||+. +|..+. .+.
T Consensus 67 spaawdk-d~fpws~e~~~ilk~~f~lekfrpl--q~~ain~~ma~ed~~l-il~tgggkslcyqlpal~a------dg~ 136 (695)
T KOG0353|consen 67 SPAAWDK-DDFPWSDEAKDILKEQFHLEKFRPL--QLAAINATMAGEDAFL-ILPTGGGKSLCYQLPALCA------DGF 136 (695)
T ss_pred Ccccccc-CCCCCchHHHHHHHHHhhHHhcChh--HHHHhhhhhccCceEE-EEeCCCccchhhhhhHHhc------CCc
Confidence 5566887 6799999999999999999999998 6666666666666666 58999999975 444332 345
Q ss_pred EEecCcHHHHHHHHHHHHHHHhcCCCC--Cc----eEEEecCCCccccCCCeEEEEChHHH------HHHHhcCCCCCce
Q 000854 213 IVCTQPRKIAAISLAQRVREESRGCYE--DD----SVICYPSFSSAQHFDSKVIYMTDHCL------LQHFMNDRDLSRI 280 (1252)
Q Consensus 213 ILv~qPrR~LA~qva~rv~~~~~~~~~--~~----~vg~~~~~~~~~~~~t~Iiv~Tpg~L------l~~L~~~~~L~~l 280 (1252)
.+++.|...|.....-.+..+.-.... .. .+..............+++|+||+.+ ++.|........+
T Consensus 137 alvi~plislmedqil~lkqlgi~as~lnansske~~k~v~~~i~nkdse~kliyvtpekiaksk~~mnkleka~~~~~~ 216 (695)
T KOG0353|consen 137 ALVICPLISLMEDQILQLKQLGIDASMLNANSSKEEAKRVEAAITNKDSEFKLIYVTPEKIAKSKKFMNKLEKALEAGFF 216 (695)
T ss_pred eEeechhHHHHHHHHHHHHHhCcchhhccCcccHHHHHHHHHHHcCCCceeEEEEecHHHHHHHHHHHHHHHHHhhccee
Confidence 788889988876655555554311000 00 00000000011223578999999976 4455555567788
Q ss_pred eEEEEcccccc-----ccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHH---hhhhcCCeEEEe-cccceeEEEEec
Q 000854 281 SCIIVDEAHER-----SLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLS---KYFYDCGISHVV-GRNFPVDVRYVP 351 (1252)
Q Consensus 281 s~IVIDEaHER-----~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~---~~f~~~~vi~i~-gr~~pV~i~y~~ 351 (1252)
..|.|||+||. .+.+|+ ..+.++.+++++..+|+++||.....+. +.+.-...+.+. |..+ .+++|..
T Consensus 217 ~~iaidevhccsqwghdfr~dy--~~l~ilkrqf~~~~iigltatatn~vl~d~k~il~ie~~~tf~a~fnr-~nl~yev 293 (695)
T KOG0353|consen 217 KLIAIDEVHCCSQWGHDFRPDY--KALGILKRQFKGAPIIGLTATATNHVLDDAKDILCIEAAFTFRAGFNR-PNLKYEV 293 (695)
T ss_pred EEEeecceeehhhhCcccCcch--HHHHHHHHhCCCCceeeeehhhhcchhhHHHHHHhHHhhheeecccCC-CCceeEe
Confidence 99999999973 333443 1244455689999999999996654443 222211112222 2222 2344443
Q ss_pred CCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCce
Q 000854 352 CATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRR 430 (1252)
Q Consensus 352 ~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~ 430 (1252)
... .+...+..++++.++ .....+...||||-++++++.++..|+..|+.+..||+.|.|++|.-+.+.| .|++
T Consensus 294 ~qk--p~n~dd~~edi~k~i---~~~f~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~ei 368 (695)
T KOG0353|consen 294 RQK--PGNEDDCIEDIAKLI---KGDFAGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGEI 368 (695)
T ss_pred eeC--CCChHHHHHHHHHHh---ccccCCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccce
Confidence 321 223345555555544 4456788999999999999999999999999999999999999999999999 8999
Q ss_pred EEEEechhhhhcCCCCCeeEEEEcCCCc--cccccCCC---------------C----cccceecccCH---h-hHHHHh
Q 000854 431 KVIFATNVAETSLTIPGVKFVIDSGMVK--ESYFEPGT---------------G----MNVLRVCRVSQ---S-SANQRA 485 (1252)
Q Consensus 431 kVLVATniae~GIDIP~V~~VId~g~pk--~~~ydp~~---------------~----~~~L~~~~iSk---a-sy~QR~ 485 (1252)
+|+|||-++++|||.|+|++||+..+|| ++||.... | ++.|.++.-=+ + --....
T Consensus 369 qvivatvafgmgidkpdvrfvihhsl~ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekes 448 (695)
T KOG0353|consen 369 QVIVATVAFGMGIDKPDVRFVIHHSLPKSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKES 448 (695)
T ss_pred EEEEEEeeecccCCCCCeeEEEecccchhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhc
Confidence 9999999999999999999999999998 34442110 0 00000000000 0 000178
Q ss_pred cccCCCC-CCeEEEecChhh
Q 000854 486 GRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 486 GRAGR~~-~G~c~~Lyt~~d 504 (1252)
|||||.+ +..|+.+|.-.|
T Consensus 449 gragrd~~~a~cilyy~~~d 468 (695)
T KOG0353|consen 449 GRAGRDDMKADCILYYGFAD 468 (695)
T ss_pred cccccCCCcccEEEEechHH
Confidence 9999997 999999997654
No 59
>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=99.98 E-value=9.9e-31 Score=325.43 Aligned_cols=341 Identities=17% Similarity=0.142 Sum_probs=218.4
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC
Q 000854 162 EDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVCTQPRKIAAISLAQRVREESRGCYE 239 (1252)
Q Consensus 162 ~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~ 239 (1252)
|+. |++.|++.|..++.+++.+++.+|||||||.++..+++.... ....++++++|||+||.|+++.+.+.......
T Consensus 13 G~~-PtpiQ~~~i~~il~G~~~v~~~apTGSGKTaa~aafll~~~~~~~~~~rLv~~vPtReLa~Qi~~~~~~~~k~l~~ 91 (844)
T TIGR02621 13 GYS-PFPWQLSLAERFVAGQPPESCSTPTGLGKTSIIAAWLLAVEIGAKVPRRLVYVVNRRTVVDQVTEEAEKIGERLPD 91 (844)
T ss_pred CCC-CCHHHHHHHHHHHcCCCcceEecCCCCcccHHHHHhhccccccccccceEEEeCchHHHHHHHHHHHHHHHHHhcc
Confidence 565 999999999999988878888899999999876655553211 12236667889999999999998887643210
Q ss_pred ---------------------CceEEE-ecCCCc-----cccCCCeEEEEChHHHHHHHhcC-------------CCCCc
Q 000854 240 ---------------------DDSVIC-YPSFSS-----AQHFDSKVIYMTDHCLLQHFMND-------------RDLSR 279 (1252)
Q Consensus 240 ---------------------~~~vg~-~~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~-------------~~L~~ 279 (1252)
...+.. +++... ....+++|+|+|+.++.+..... ..+++
T Consensus 92 ~~~~~~~~~~~~~~~~~~~~~~l~v~~l~GG~~~~~q~~~l~~~p~IIVgT~D~i~sr~L~~gYg~~~~~~pi~ag~L~~ 171 (844)
T TIGR02621 92 VPEVEAALWALCSTRPEKKDRPLAISTLRGQFADNDEWMLDPHRPAVIVGTVDMIGSRLLFSGYGCGFKSRPLHAGFLGQ 171 (844)
T ss_pred cchhhhhhhhhhccccccccCCeEEEEEECCCChHHHHHhcCCCCcEEEECHHHHcCCccccccccccccccchhhhhcc
Confidence 111211 222111 12346799999977665444310 03788
Q ss_pred eeEEEEccccccccchhhHHHHHHHHHhc--cC---CCcEEeeccCCCHH--HHHhhhhcCCe-EEEecccce--eEEEE
Q 000854 280 ISCIIVDEAHERSLNTDLLLALVKDLLCR--RF---DLRLVIMSATADAH--QLSKYFYDCGI-SHVVGRNFP--VDVRY 349 (1252)
Q Consensus 280 ls~IVIDEaHER~l~~d~ll~llk~l~~~--~~---~lqiIlmSATld~~--~l~~~f~~~~v-i~i~gr~~p--V~i~y 349 (1252)
+++||+|||| ++++|...+..++... ++ ++|+++||||++.+ .+...+...+. +.+...... -..+|
T Consensus 172 v~~LVLDEAD---Ld~gF~~~l~~Il~~l~rp~~~rprQtLLFSAT~p~ei~~l~~~~~~~p~~i~V~~~~l~a~ki~q~ 248 (844)
T TIGR02621 172 DALIVHDEAH---LEPAFQELLKQIMNEQQRPPDFLPLRVVELTATSRTDGPDRTTLLSAEDYKHPVLKKRLAAKKIVKL 248 (844)
T ss_pred ceEEEEehhh---hccccHHHHHHHHHhcccCcccccceEEEEecCCCccHHHHHHHHccCCceeecccccccccceEEE
Confidence 9999999999 6677777666666542 23 26999999998743 33333433332 222211111 11122
Q ss_pred ecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhh-----hhcc
Q 000854 350 VPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQF-----CVFK 424 (1252)
Q Consensus 350 ~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~-----~v~~ 424 (1252)
.+... ..........+..+.. ..++++||||||+++++.+++.|++.++ ..+||+|++.+|. ++++
T Consensus 249 v~v~~------e~Kl~~lv~~L~~ll~-e~g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~ 319 (844)
T TIGR02621 249 VPPSD------EKFLSTMVKELNLLMK-DSGGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFN 319 (844)
T ss_pred EecCh------HHHHHHHHHHHHHHHh-hCCCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHH
Confidence 22111 1112223333333332 4568999999999999999999987776 8999999999999 7788
Q ss_pred cC-C----Cc-------eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC
Q 000854 425 SY-P----GR-------RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE 492 (1252)
Q Consensus 425 ~f-~----G~-------~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~ 492 (1252)
.| + |+ .+|||||+++|+||||+. ++||+...| .++|+||+||+||.|
T Consensus 320 ~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLDId~-d~VI~d~aP--------------------~esyIQRiGRtgR~G 378 (844)
T TIGR02621 320 RFLPQMLSGSRARPQQGTVYLVCTSAGEVGVNISA-DHLVCDLAP--------------------FESMQQRFGRVNRFG 378 (844)
T ss_pred HHhccccccccccccccceEEeccchhhhcccCCc-ceEEECCCC--------------------HHHHHHHhcccCCCC
Confidence 88 5 43 689999999999999997 777764322 278999999999996
Q ss_pred C--CeEEEecChhhhcc-CCCCCCccccccchHHHHHHHhHcCCCCc
Q 000854 493 P--GRCYRLYSKSDFET-RPLNQEPEIHRVHLGIAVLRILALGIRDV 536 (1252)
Q Consensus 493 ~--G~c~~Lyt~~d~~~-~~~~~~PEI~r~~L~~~vL~lk~lgi~~~ 536 (1252)
. |..+.+++.+.-.. -...-.|++++..+..+.+...-.|..+.
T Consensus 379 ~~~~~~i~vv~~~~~~~~~~~vY~~~~l~~t~~~L~~~~~~~~~~~~ 425 (844)
T TIGR02621 379 ELQACQIAVVHLDLGKDQDFDVYGKKIDKSTWSTLKKLQQLKGKNKR 425 (844)
T ss_pred CCCCceEEEEeeccCCCcccCCCCHHHHHHHHHHHHHHHhccccCCH
Confidence 3 33355554321111 11112356766655555554444443333
No 60
>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=99.98 E-value=4.2e-31 Score=337.22 Aligned_cols=297 Identities=18% Similarity=0.176 Sum_probs=214.6
Q ss_pred CChHHHHHHHHHHHhc-----CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC
Q 000854 165 LPIYMYRQDILRRIYG-----EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE 239 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~-----~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~ 239 (1252)
.|+..|+++|..++.+ ..+.+++|+||||||.++..+++... ..+.++++++||++||.|.++.+.+.+....
T Consensus 451 ~~T~~Q~~aI~~I~~d~~~~~~~d~Ll~adTGsGKT~val~a~l~al-~~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~- 528 (926)
T TIGR00580 451 EETPDQLKAIEEIKADMESPRPMDRLVCGDVGFGKTEVAMRAAFKAV-LDGKQVAVLVPTTLLAQQHFETFKERFANFP- 528 (926)
T ss_pred CCCHHHHHHHHHHHhhhcccCcCCEEEECCCCccHHHHHHHHHHHHH-HhCCeEEEEeCcHHHHHHHHHHHHHHhccCC-
Confidence 4899999999998875 24667799999999988766655432 2357899999999999999999998775432
Q ss_pred CceEEEecCCCc----------cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc
Q 000854 240 DDSVICYPSFSS----------AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR 309 (1252)
Q Consensus 240 ~~~vg~~~~~~~----------~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~ 309 (1252)
..+....+... ....+.+|+|+||..+ ..+..++++++|||||+| |. .. .....+...+
T Consensus 529 -i~v~~Lsg~~~~~e~~~~~~~l~~g~~dIVIGTp~ll----~~~v~f~~L~llVIDEah-rf-gv----~~~~~L~~~~ 597 (926)
T TIGR00580 529 -VTIELLSRFRSAKEQNEILKELASGKIDILIGTHKLL----QKDVKFKDLGLLIIDEEQ-RF-GV----KQKEKLKELR 597 (926)
T ss_pred -cEEEEEeccccHHHHHHHHHHHHcCCceEEEchHHHh----hCCCCcccCCEEEeeccc-cc-ch----hHHHHHHhcC
Confidence 22322222111 0123579999999533 344478899999999999 42 21 2223344456
Q ss_pred CCCcEEeeccCCCHHHHHhhhhc---CCeEEEe-cccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEE
Q 000854 310 FDLRLVIMSATADAHQLSKYFYD---CGISHVV-GRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILA 385 (1252)
Q Consensus 310 ~~lqiIlmSATld~~~l~~~f~~---~~vi~i~-gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLV 385 (1252)
++.++++||||+.+..+...+.+ ..++..+ ....|+..++.+.. ...+...+..-. ..+++++|
T Consensus 598 ~~~~vL~~SATpiprtl~~~l~g~~d~s~I~~~p~~R~~V~t~v~~~~----------~~~i~~~i~~el--~~g~qv~i 665 (926)
T TIGR00580 598 TSVDVLTLSATPIPRTLHMSMSGIRDLSIIATPPEDRLPVRTFVMEYD----------PELVREAIRREL--LRGGQVFY 665 (926)
T ss_pred CCCCEEEEecCCCHHHHHHHHhcCCCcEEEecCCCCccceEEEEEecC----------HHHHHHHHHHHH--HcCCeEEE
Confidence 78999999999877766533222 1222221 22345555544321 011111221111 35689999
Q ss_pred EeCCHHHHHHHHHHcCC--CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccc
Q 000854 386 FLTSKMEVEWACEKFDA--PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYF 462 (1252)
Q Consensus 386 Fl~s~~eie~la~~L~~--~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~y 462 (1252)
|||++++++.+++.|++ +++.+..+||+|++++|.++++.| +|+.+|||||+++++|||+|++++||..+.++-
T Consensus 666 f~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk~~ILVaT~iie~GIDIp~v~~VIi~~a~~~--- 742 (926)
T TIGR00580 666 VHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNANTIIIERADKF--- 742 (926)
T ss_pred EECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCCCCEEEECChhhcccccccCCEEEEecCCCC---
Confidence 99999999999999986 478999999999999999999999 899999999999999999999999998765431
Q ss_pred cCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChh
Q 000854 463 EPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKS 503 (1252)
Q Consensus 463 dp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~ 503 (1252)
+.++|.||+||+||.+ .|.||.++++.
T Consensus 743 --------------gls~l~Qr~GRvGR~g~~g~aill~~~~ 770 (926)
T TIGR00580 743 --------------GLAQLYQLRGRVGRSKKKAYAYLLYPHQ 770 (926)
T ss_pred --------------CHHHHHHHhcCCCCCCCCeEEEEEECCc
Confidence 2367899999999997 99999999764
No 61
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=1.1e-30 Score=304.78 Aligned_cols=343 Identities=18% Similarity=0.220 Sum_probs=255.0
Q ss_pred cCcccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc----
Q 000854 132 ANVDVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI---- 207 (1252)
Q Consensus 132 ~~~~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~---- 207 (1252)
....+.+|.++. .++ ..+..+++++...++.-|+.+|+++|+-.+...+++. +||||||||+++..+++....
T Consensus 127 ~~~~l~~f~~lt-~~~-~~~~~ll~nl~~~~F~~Pt~iq~~aipvfl~~r~~lA-capTGsgKtlaf~~Pil~~L~~~~~ 203 (593)
T KOG0344|consen 127 LPPPLLSFSDLT-YDY-SMNKRLLENLQELGFDEPTPIQKQAIPVFLEKRDVLA-CAPTGSGKTLAFNLPILQHLKDLSQ 203 (593)
T ss_pred CCCccccccccc-hhh-hhcHHHHHhHhhCCCCCCCcccchhhhhhhcccceEE-eccCCCcchhhhhhHHHHHHHHhhc
Confidence 345566676432 112 3567789999999999999999999998887766655 899999999986655554321
Q ss_pred ---ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE--ec---CC--CccccCCCeEEEEChHHHHHHHhcCC--
Q 000854 208 ---AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC--YP---SF--SSAQHFDSKVIYMTDHCLLQHFMNDR-- 275 (1252)
Q Consensus 208 ---~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~--~~---~~--~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-- 275 (1252)
..+-+++|+.|+|+||.|++..+.++......+..+.. +. .. ........+|++.||-++...+...+
T Consensus 204 ~~~~~gl~a~Il~ptreLa~Qi~re~~k~~~~~~t~~~a~~~~~~~~~~qk~a~~~~~k~dili~TP~ri~~~~~~~~~~ 283 (593)
T KOG0344|consen 204 EKHKVGLRALILSPTRELAAQIYREMRKYSIDEGTSLRAAQFSKPAYPSQKPAFLSDEKYDILISTPMRIVGLLGLGKLN 283 (593)
T ss_pred ccCccceEEEEecchHHHHHHHHHHHHhcCCCCCCchhhhhcccccchhhccchhHHHHHHHHhcCHHHHHHHhcCCCcc
Confidence 22348999999999999999999887521111111111 00 00 01112357999999999999998776
Q ss_pred -CCCceeEEEEccccccccch-hhHHHHHHHHHh-ccCCCcEEeeccCCC--HHHHHhhhhcCCeEEEecccce----eE
Q 000854 276 -DLSRISCIIVDEAHERSLNT-DLLLALVKDLLC-RRFDLRLVIMSATAD--AHQLSKYFYDCGISHVVGRNFP----VD 346 (1252)
Q Consensus 276 -~L~~ls~IVIDEaHER~l~~-d~ll~llk~l~~-~~~~lqiIlmSATld--~~~l~~~f~~~~vi~i~gr~~p----V~ 346 (1252)
.++.+.++|+||+| +.++. .|..++..++.. ..+++++-+||||.+ .+.+++......+..+.|.... |+
T Consensus 284 idl~~V~~lV~dEaD-~lfe~~~f~~Qla~I~sac~s~~i~~a~FSat~~~~VEE~~~~i~~~~~~vivg~~~sa~~~V~ 362 (593)
T KOG0344|consen 284 IDLSKVEWLVVDEAD-LLFEPEFFVEQLADIYSACQSPDIRVALFSATISVYVEEWAELIKSDLKRVIVGLRNSANETVD 362 (593)
T ss_pred chhheeeeEeechHH-hhhChhhHHHHHHHHHHHhcCcchhhhhhhccccHHHHHHHHHhhccceeEEEecchhHhhhhh
Confidence 89999999999999 88887 777777666654 457899999999976 4445554443333333333211 11
Q ss_pred EEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHc-CCCCCeeEeecCCCCHHhhhhhccc
Q 000854 347 VRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKF-DAPSAVALPFHGQLSFDEQFCVFKS 425 (1252)
Q Consensus 347 i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L-~~~~~~v~~LHg~Ls~~eR~~v~~~ 425 (1252)
....-. .....+.-.+.++....-..++|||+.+.+.+..+...| .-.++.+..+||..++.+|...+++
T Consensus 363 QelvF~---------gse~~K~lA~rq~v~~g~~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~ 433 (593)
T KOG0344|consen 363 QELVFC---------GSEKGKLLALRQLVASGFKPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMER 433 (593)
T ss_pred hhheee---------ecchhHHHHHHHHHhccCCCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHH
Confidence 111100 011234445556666677899999999999999999999 6788999999999999999999999
Q ss_pred C-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChh
Q 000854 426 Y-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKS 503 (1252)
Q Consensus 426 f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~ 503 (1252)
| .|+++|++||++++||||+-+|+.||++|+|... .+|+||+||+||++ .|.+|++|+++
T Consensus 434 FR~g~IwvLicTdll~RGiDf~gvn~VInyD~p~s~------------------~syihrIGRtgRag~~g~Aitfytd~ 495 (593)
T KOG0344|consen 434 FRIGKIWVLICTDLLARGIDFKGVNLVINYDFPQSD------------------LSYIHRIGRTGRAGRSGKAITFYTDQ 495 (593)
T ss_pred HhccCeeEEEehhhhhccccccCcceEEecCCCchh------------------HHHHHHhhccCCCCCCcceEEEeccc
Confidence 9 8999999999999999999999999999997754 88999999999997 99999999995
Q ss_pred hh
Q 000854 504 DF 505 (1252)
Q Consensus 504 d~ 505 (1252)
+.
T Consensus 496 d~ 497 (593)
T KOG0344|consen 496 DM 497 (593)
T ss_pred cc
Confidence 54
No 62
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.97 E-value=4.3e-30 Score=323.30 Aligned_cols=306 Identities=16% Similarity=0.167 Sum_probs=215.2
Q ss_pred HHHHHHccCCCChHHHHHHHHHHHhcC-----CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 155 VRECKRLEDGLPIYMYRQDILRRIYGE-----QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 155 l~~l~~~~~~lP~~~qq~~I~~al~~~-----~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
.++..+.-...|+..|++++..+..+- .+.+++||||||||.++...++... ..+.++++++||++||.|+++.
T Consensus 251 ~~~~~~~l~f~lt~~Q~~ai~~I~~d~~~~~~~~~Ll~~~TGSGKT~va~~~il~~~-~~g~q~lilaPT~~LA~Q~~~~ 329 (681)
T PRK10917 251 LKKFLASLPFELTGAQKRVVAEILADLASPKPMNRLLQGDVGSGKTVVAALAALAAI-EAGYQAALMAPTEILAEQHYEN 329 (681)
T ss_pred HHHHHHhCCCCCCHHHHHHHHHHHHhhhccCCceEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEeccHHHHHHHHHH
Confidence 344443333468999999999988763 3677799999999998766665532 3467899999999999999999
Q ss_pred HHHHhcCCCCCceEEEecCCCc----------cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHH
Q 000854 230 VREESRGCYEDDSVICYPSFSS----------AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLL 299 (1252)
Q Consensus 230 v~~~~~~~~~~~~vg~~~~~~~----------~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll 299 (1252)
+.+.+... +..++...+... ......+|+|+||+.+.+ ...++++++|||||+| |. .....
T Consensus 330 l~~l~~~~--~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~----~v~~~~l~lvVIDE~H-rf-g~~qr- 400 (681)
T PRK10917 330 LKKLLEPL--GIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQD----DVEFHNLGLVIIDEQH-RF-GVEQR- 400 (681)
T ss_pred HHHHHhhc--CcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcc----cchhcccceEEEechh-hh-hHHHH-
Confidence 99887443 223443332222 112358999999988743 2257899999999999 43 22222
Q ss_pred HHHHHHHhccCCCcEEeeccCCCHHHHHh-hhhcCCeEEEe---cccceeEEEEecCCCCCCccccchHHHHHHHHHHhh
Q 000854 300 ALVKDLLCRRFDLRLVIMSATADAHQLSK-YFYDCGISHVV---GRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVH 375 (1252)
Q Consensus 300 ~llk~l~~~~~~lqiIlmSATld~~~l~~-~f~~~~vi~i~---gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~ 375 (1252)
..+.....+.++++||||+.+..++- .++...+..+. ....|+...+..... .......+....
T Consensus 401 ---~~l~~~~~~~~iL~~SATp~prtl~~~~~g~~~~s~i~~~p~~r~~i~~~~~~~~~---------~~~~~~~i~~~~ 468 (681)
T PRK10917 401 ---LALREKGENPHVLVMTATPIPRTLAMTAYGDLDVSVIDELPPGRKPITTVVIPDSR---------RDEVYERIREEI 468 (681)
T ss_pred ---HHHHhcCCCCCEEEEeCCCCHHHHHHHHcCCCceEEEecCCCCCCCcEEEEeCccc---------HHHHHHHHHHHH
Confidence 22333345689999999987766553 22332222222 212345554443311 223333333322
Q ss_pred hcCCCCcEEEEeCCHH--------HHHHHHHHcCCC--CCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCC
Q 000854 376 TTEKEGTILAFLTSKM--------EVEWACEKFDAP--SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLT 444 (1252)
Q Consensus 376 ~~~~~g~iLVFl~s~~--------eie~la~~L~~~--~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GID 444 (1252)
..+.+++||||..+ .++.+++.|.+. ++.+..+||+|++++|..+++.| +|+.+|||||+++++|||
T Consensus 469 --~~g~q~~v~~~~ie~s~~l~~~~~~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GiD 546 (681)
T PRK10917 469 --AKGRQAYVVCPLIEESEKLDLQSAEETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGEIDILVATTVIEVGVD 546 (681)
T ss_pred --HcCCcEEEEEcccccccchhHHHHHHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECcceeeCcc
Confidence 45679999999654 445566666543 47899999999999999999999 899999999999999999
Q ss_pred CCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecC
Q 000854 445 IPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYS 501 (1252)
Q Consensus 445 IP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt 501 (1252)
+|++++||+++.++. +.+++.||+||+||.+ +|.||.+++
T Consensus 547 ip~v~~VIi~~~~r~-----------------gls~lhQ~~GRvGR~g~~g~~ill~~ 587 (681)
T PRK10917 547 VPNATVMVIENAERF-----------------GLAQLHQLRGRVGRGAAQSYCVLLYK 587 (681)
T ss_pred cCCCcEEEEeCCCCC-----------------CHHHHHHHhhcccCCCCceEEEEEEC
Confidence 999999999877542 2367899999999997 999999996
No 63
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.97 E-value=2e-30 Score=337.30 Aligned_cols=296 Identities=18% Similarity=0.188 Sum_probs=207.9
Q ss_pred CChHHHHHHHHHHHhc-----CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC
Q 000854 165 LPIYMYRQDILRRIYG-----EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE 239 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~-----~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~ 239 (1252)
.|+..|+++|..++.+ ..+++++|+||||||.++...+... ...+.++++++||++||.|+++.+.+.+....
T Consensus 600 ~~T~~Q~~aI~~il~d~~~~~~~d~Ll~a~TGsGKT~val~aa~~~-~~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~- 677 (1147)
T PRK10689 600 ETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLA-VENHKQVAVLVPTTLLAQQHYDNFRDRFANWP- 677 (1147)
T ss_pred CCCHHHHHHHHHHHHHhhcCCCCCEEEEcCCCcCHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHhhccCC-
Confidence 6899999999998886 2456778999999998654433322 23467899999999999999999998764332
Q ss_pred CceEEEecCCCcc----------ccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc
Q 000854 240 DDSVICYPSFSSA----------QHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR 309 (1252)
Q Consensus 240 ~~~vg~~~~~~~~----------~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~ 309 (1252)
..+....+.... .....+|+|+||+.+ ..+..++++++|||||+| |. .... ...+...+
T Consensus 678 -v~i~~l~g~~s~~e~~~il~~l~~g~~dIVVgTp~lL----~~~v~~~~L~lLVIDEah-rf-G~~~----~e~lk~l~ 746 (1147)
T PRK10689 678 -VRIEMLSRFRSAKEQTQILAEAAEGKIDILIGTHKLL----QSDVKWKDLGLLIVDEEH-RF-GVRH----KERIKAMR 746 (1147)
T ss_pred -ceEEEEECCCCHHHHHHHHHHHHhCCCCEEEECHHHH----hCCCCHhhCCEEEEechh-hc-chhH----HHHHHhcC
Confidence 223222222111 113579999999754 233367899999999999 43 2221 23344567
Q ss_pred CCCcEEeeccCCCHHHHHh---hhhcCCeEEEecc-cceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEE
Q 000854 310 FDLRLVIMSATADAHQLSK---YFYDCGISHVVGR-NFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILA 385 (1252)
Q Consensus 310 ~~lqiIlmSATld~~~l~~---~f~~~~vi~i~gr-~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLV 385 (1252)
++.++++||||+.+..+.. .+.+..++..+.. ..++...+.... ........+.++ ..+++++|
T Consensus 747 ~~~qvLl~SATpiprtl~l~~~gl~d~~~I~~~p~~r~~v~~~~~~~~---------~~~~k~~il~el---~r~gqv~v 814 (1147)
T PRK10689 747 ADVDILTLTATPIPRTLNMAMSGMRDLSIIATPPARRLAVKTFVREYD---------SLVVREAILREI---LRGGQVYY 814 (1147)
T ss_pred CCCcEEEEcCCCCHHHHHHHHhhCCCcEEEecCCCCCCCceEEEEecC---------cHHHHHHHHHHH---hcCCeEEE
Confidence 7899999999987665432 1222323332221 233433332211 011122223333 24689999
Q ss_pred EeCCHHHHHHHHHHcCCC--CCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccc
Q 000854 386 FLTSKMEVEWACEKFDAP--SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYF 462 (1252)
Q Consensus 386 Fl~s~~eie~la~~L~~~--~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~y 462 (1252)
|||+++.++.+++.|.+. +..+..+||+|++++|.+++..| +|+.+|||||+++++|||+|+|++||..+-. .|
T Consensus 815 f~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk~~VLVaTdIierGIDIP~v~~VIi~~ad---~f 891 (1147)
T PRK10689 815 LYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERAD---HF 891 (1147)
T ss_pred EECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcCCCEEEECchhhcccccccCCEEEEecCC---CC
Confidence 999999999999999764 78899999999999999999999 8999999999999999999999999932110 01
Q ss_pred cCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecCh
Q 000854 463 EPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSK 502 (1252)
Q Consensus 463 dp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~ 502 (1252)
+.++|.||+||+||.+ .|.||.+++.
T Consensus 892 --------------glaq~~Qr~GRvGR~g~~g~a~ll~~~ 918 (1147)
T PRK10689 892 --------------GLAQLHQLRGRVGRSHHQAYAWLLTPH 918 (1147)
T ss_pred --------------CHHHHHHHhhccCCCCCceEEEEEeCC
Confidence 2267899999999997 9999998865
No 64
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.97 E-value=6.8e-30 Score=333.54 Aligned_cols=289 Identities=19% Similarity=0.216 Sum_probs=194.1
Q ss_pred EEcCCCChhhHHHHHHHHhccc------------ccCCeEEecCcHHHHHHHHHHHHHHHhc----------CCCCCceE
Q 000854 186 LIGETGCGKSTQLVQFLADSGI------------AAEQSIVCTQPRKIAAISLAQRVREESR----------GCYEDDSV 243 (1252)
Q Consensus 186 I~apTGSGKTtqipq~Lle~~~------------~~~~~ILv~qPrR~LA~qva~rv~~~~~----------~~~~~~~v 243 (1252)
|+||||||||+++..++++... ..+.++|++.|+|+|+.|+.+.+..... ....+..+
T Consensus 1 V~APTGSGKTLAA~LpaL~~Ll~~~~~~~~~~~~~~~~raLYISPLKALa~Dv~~~L~~pl~~i~~~~~~~g~~~~~i~V 80 (1490)
T PRK09751 1 VIAPTGSGKTLAAFLYALDRLFREGGEDTREAHKRKTSRILYISPIKALGTDVQRNLQIPLKGIADERRRRGETEVNLRV 80 (1490)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHhcccccccccccCCCCEEEEEeChHHHHHHHHHHHHHHHHhhhhhhhhcccccCceEE
Confidence 4699999999987665544321 1246899999999999999998865221 11123334
Q ss_pred EEecCCCc------cccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEccccccccchh---hHHHHHHHHHh-ccCC
Q 000854 244 ICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAHERSLNTD---LLLALVKDLLC-RRFD 311 (1252)
Q Consensus 244 g~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaHER~l~~d---~ll~llk~l~~-~~~~ 311 (1252)
+...+... .....++|+|+|||+|..++.+.. .++++++|||||+| ...+.. .+...+.++.. ...+
T Consensus 81 ~vrtGDt~~~eR~rll~~ppdILVTTPEsL~~LLtsk~r~~L~~Vr~VIVDE~H-~L~g~kRG~~Lel~LeRL~~l~~~~ 159 (1490)
T PRK09751 81 GIRTGDTPAQERSKLTRNPPDILITTPESLYLMLTSRARETLRGVETVIIDEVH-AVAGSKRGAHLALSLERLDALLHTS 159 (1490)
T ss_pred EEEECCCCHHHHHHHhcCCCCEEEecHHHHHHHHhhhhhhhhccCCEEEEecHH-HhcccccccHHHHHHHHHHHhCCCC
Confidence 43322211 122468999999999988775432 78999999999999 444432 12233333433 3467
Q ss_pred CcEEeeccCC-CHHHHHhhhhcC-CeEEEe-c--ccceeEEEEecCCC-CCCcc-------------ccchHHHHH-HHH
Q 000854 312 LRLVIMSATA-DAHQLSKYFYDC-GISHVV-G--RNFPVDVRYVPCAT-AGTSA-------------VASYVSDVV-RMV 371 (1252)
Q Consensus 312 lqiIlmSATl-d~~~l~~~f~~~-~vi~i~-g--r~~pV~i~y~~~~~-s~~~~-------------~~~~~~~~~-~~l 371 (1252)
.|+|++|||+ |.+.+++|+.+. ++..+. . +..++.+. .+... ..... .......+. ..+
T Consensus 160 ~QrIgLSATI~n~eevA~~L~g~~pv~Iv~~~~~r~~~l~v~-vp~~d~~~~~~~~~~~~~~~~~~r~~~i~~~v~~~il 238 (1490)
T PRK09751 160 AQRIGLSATVRSASDVAAFLGGDRPVTVVNPPAMRHPQIRIV-VPVANMDDVSSVASGTGEDSHAGREGSIWPYIETGIL 238 (1490)
T ss_pred CeEEEEEeeCCCHHHHHHHhcCCCCEEEECCCCCcccceEEE-EecCchhhccccccccccccchhhhhhhhHHHHHHHH
Confidence 8999999996 577889998653 332222 1 22233322 22111 00000 000000111 112
Q ss_pred HHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCC---------------------------------CCeeEeecCCCCHHh
Q 000854 372 GEVHTTEKEGTILAFLTSKMEVEWACEKFDAP---------------------------------SAVALPFHGQLSFDE 418 (1252)
Q Consensus 372 ~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~---------------------------------~~~v~~LHg~Ls~~e 418 (1252)
..+ ...+++||||||+..++.++..|++. ...+..|||+|++++
T Consensus 239 ~~i---~~~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkee 315 (1490)
T PRK09751 239 DEV---LRHRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQ 315 (1490)
T ss_pred HHH---hcCCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHH
Confidence 112 34689999999999999999887642 123678999999999
Q ss_pred hhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC--CCe
Q 000854 419 QFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE--PGR 495 (1252)
Q Consensus 419 R~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~--~G~ 495 (1252)
|..+++.| +|+.++||||+.+++||||++|++||++|.|+ |.++|+||+|||||.. .+.
T Consensus 316 R~~IE~~fK~G~LrvLVATssLELGIDIg~VDlVIq~gsP~------------------sVas~LQRiGRAGR~~gg~s~ 377 (1490)
T PRK09751 316 RAITEQALKSGELRCVVATSSLELGIDMGAVDLVIQVATPL------------------SVASGLQRIGRAGHQVGGVSK 377 (1490)
T ss_pred HHHHHHHHHhCCceEEEeCcHHHccCCcccCCEEEEeCCCC------------------CHHHHHHHhCCCCCCCCCccE
Confidence 99999999 89999999999999999999999999998765 4599999999999973 344
Q ss_pred EE
Q 000854 496 CY 497 (1252)
Q Consensus 496 c~ 497 (1252)
++
T Consensus 378 gl 379 (1490)
T PRK09751 378 GL 379 (1490)
T ss_pred EE
Confidence 55
No 65
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.97 E-value=3.8e-30 Score=308.96 Aligned_cols=311 Identities=20% Similarity=0.192 Sum_probs=216.0
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhH--HHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKST--QLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVR 231 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTt--qipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~ 231 (1252)
+++.........|- |+++++.+.+++++++..|||+|||. |+|..+. .+..||+.|.-.|.....+.+.
T Consensus 8 ~L~~~fGy~~FR~g---Q~evI~~~l~g~d~lvvmPTGgGKSlCyQiPAll~------~G~TLVVSPLiSLM~DQV~~l~ 78 (590)
T COG0514 8 VLKQVFGYASFRPG---QQEIIDALLSGKDTLVVMPTGGGKSLCYQIPALLL------EGLTLVVSPLISLMKDQVDQLE 78 (590)
T ss_pred HHHHHhCccccCCC---HHHHHHHHHcCCcEEEEccCCCCcchHhhhHHHhc------CCCEEEECchHHHHHHHHHHHH
Confidence 45555554445554 44566666666666667999999996 5776665 2468888999998765555554
Q ss_pred HHhcCCCCCceEEEecC----CCc------cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccc-hhhHH
Q 000854 232 EESRGCYEDDSVICYPS----FSS------AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLN-TDLLL 299 (1252)
Q Consensus 232 ~~~~~~~~~~~vg~~~~----~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~-~d~ll 299 (1252)
... ..+.+... .+. ......+++|.+|++|..--..+. .-..++++|||||||-+-. .||..
T Consensus 79 ~~G------i~A~~lnS~l~~~e~~~v~~~l~~g~~klLyisPErl~~~~f~~~L~~~~i~l~vIDEAHCiSqWGhdFRP 152 (590)
T COG0514 79 AAG------IRAAYLNSTLSREERQQVLNQLKSGQLKLLYISPERLMSPRFLELLKRLPISLVAIDEAHCISQWGHDFRP 152 (590)
T ss_pred HcC------ceeehhhcccCHHHHHHHHHHHhcCceeEEEECchhhcChHHHHHHHhCCCceEEechHHHHhhcCCccCH
Confidence 432 11111110 000 112347999999999853211111 2457899999999984433 36665
Q ss_pred HHH--HHHHhccCCCcEEeeccCCCHHHHHhhhh----cCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHH
Q 000854 300 ALV--KDLLCRRFDLRLVIMSATADAHQLSKYFY----DCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGE 373 (1252)
Q Consensus 300 ~ll--k~l~~~~~~lqiIlmSATld~~~l~~~f~----~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~ 373 (1252)
.+. ..+....++++++.+|||.+.....+... +.+.+.+.+...| +++|..... .. .......+..
T Consensus 153 ~Y~~lg~l~~~~~~~p~~AlTATA~~~v~~DI~~~L~l~~~~~~~~sfdRp-Ni~~~v~~~------~~-~~~q~~fi~~ 224 (590)
T COG0514 153 DYRRLGRLRAGLPNPPVLALTATATPRVRDDIREQLGLQDANIFRGSFDRP-NLALKVVEK------GE-PSDQLAFLAT 224 (590)
T ss_pred hHHHHHHHHhhCCCCCEEEEeCCCChHHHHHHHHHhcCCCcceEEecCCCc-hhhhhhhhc------cc-HHHHHHHHHh
Confidence 553 34455677999999999988665444332 2223333332222 333333221 00 1111112222
Q ss_pred hhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEE
Q 000854 374 VHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVI 452 (1252)
Q Consensus 374 i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VI 452 (1252)
......++.||||.|++.++.+++.|...|+.+..|||+|+.++|..+.+.| +++.+|+|||+++++|||.|||++||
T Consensus 225 -~~~~~~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~~~iiVAT~AFGMGIdKpdVRfVi 303 (590)
T COG0514 225 -VLPQLSKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDEIKVMVATNAFGMGIDKPDVRFVI 303 (590)
T ss_pred -hccccCCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCCCcEEEEeccccCccCCCCceEEE
Confidence 2245678899999999999999999999999999999999999999999999 89999999999999999999999999
Q ss_pred EcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhc
Q 000854 453 DSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 453 d~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~ 506 (1252)
|+++|+.. ++|.|.+|||||+| +..|+.||++.|..
T Consensus 304 H~~lP~s~------------------EsYyQE~GRAGRDG~~a~aill~~~~D~~ 340 (590)
T COG0514 304 HYDLPGSI------------------ESYYQETGRAGRDGLPAEAILLYSPEDIR 340 (590)
T ss_pred EecCCCCH------------------HHHHHHHhhccCCCCcceEEEeeccccHH
Confidence 99998855 99999999999998 99999999998864
No 66
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.97 E-value=8.3e-30 Score=318.67 Aligned_cols=305 Identities=18% Similarity=0.190 Sum_probs=210.1
Q ss_pred HHHccCCCChHHHHHHHHHHHhcC-----CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 158 CKRLEDGLPIYMYRQDILRRIYGE-----QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 158 l~~~~~~lP~~~qq~~I~~al~~~-----~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
+..+.+ .|+..|+++|.+++.+- .+.+++||||||||.++...++.. ...+.++++++||++||.|+++.+.+
T Consensus 229 ~~~lpf-~lt~~Q~~ai~~I~~~~~~~~~~~~Ll~g~TGSGKT~va~l~il~~-~~~g~qvlilaPT~~LA~Q~~~~~~~ 306 (630)
T TIGR00643 229 LASLPF-KLTRAQKRVVKEILQDLKSDVPMNRLLQGDVGSGKTLVAALAMLAA-IEAGYQVALMAPTEILAEQHYNSLRN 306 (630)
T ss_pred HHhCCC-CCCHHHHHHHHHHHHHhccCCCccEEEECCCCCcHHHHHHHHHHHH-HHcCCcEEEECCHHHHHHHHHHHHHH
Confidence 344555 69999999999988762 246789999999999876665543 23466899999999999999999998
Q ss_pred HhcCCCCCceEEEecCCCc----------cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHH
Q 000854 233 ESRGCYEDDSVICYPSFSS----------AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALV 302 (1252)
Q Consensus 233 ~~~~~~~~~~vg~~~~~~~----------~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~ll 302 (1252)
.+.... ..+....+... ......+|+|+||+.+.+ ...+.++++|||||+| |. .......+.
T Consensus 307 l~~~~g--i~v~lltg~~~~~~r~~~~~~i~~g~~~IiVgT~~ll~~----~~~~~~l~lvVIDEaH-~f-g~~qr~~l~ 378 (630)
T TIGR00643 307 LLAPLG--IEVALLTGSLKGKRRKELLETIASGQIHLVVGTHALIQE----KVEFKRLALVIIDEQH-RF-GVEQRKKLR 378 (630)
T ss_pred HhcccC--cEEEEEecCCCHHHHHHHHHHHhCCCCCEEEecHHHHhc----cccccccceEEEechh-hc-cHHHHHHHH
Confidence 875322 22332221111 122357999999998753 2357899999999999 32 222222222
Q ss_pred HHHHhccCCCcEEeeccCCCHHHHHhh-hhcCCeEE---EecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcC
Q 000854 303 KDLLCRRFDLRLVIMSATADAHQLSKY-FYDCGISH---VVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTE 378 (1252)
Q Consensus 303 k~l~~~~~~lqiIlmSATld~~~l~~~-f~~~~vi~---i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~ 378 (1252)
... ....+.++++||||+.+..++.. ++...... .+....|+...+..... .......+.... .
T Consensus 379 ~~~-~~~~~~~~l~~SATp~prtl~l~~~~~l~~~~i~~~p~~r~~i~~~~~~~~~---------~~~~~~~i~~~l--~ 446 (630)
T TIGR00643 379 EKG-QGGFTPHVLVMSATPIPRTLALTVYGDLDTSIIDELPPGRKPITTVLIKHDE---------KDIVYEFIEEEI--A 446 (630)
T ss_pred Hhc-ccCCCCCEEEEeCCCCcHHHHHHhcCCcceeeeccCCCCCCceEEEEeCcch---------HHHHHHHHHHHH--H
Confidence 111 11126789999999766655422 22222111 12223455555443211 122222222211 3
Q ss_pred CCCcEEEEeCCH--------HHHHHHHHHcCC--CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCC
Q 000854 379 KEGTILAFLTSK--------MEVEWACEKFDA--PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPG 447 (1252)
Q Consensus 379 ~~g~iLVFl~s~--------~eie~la~~L~~--~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~ 447 (1252)
.+.+++|||+.. ..++.+++.|.+ .+..+..+||+|++++|..+++.| .|+.+|||||+++++|||+|+
T Consensus 447 ~g~q~~v~~~~i~~s~~~~~~~a~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~~~ILVaT~vie~GvDiP~ 526 (630)
T TIGR00643 447 KGRQAYVVYPLIEESEKLDLKAAEALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREGEVDILVATTVIEVGVDVPN 526 (630)
T ss_pred hCCcEEEEEccccccccchHHHHHHHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcCCCCEEEECceeecCcccCC
Confidence 567899999976 345566666654 478899999999999999999999 899999999999999999999
Q ss_pred eeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecC
Q 000854 448 VKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYS 501 (1252)
Q Consensus 448 V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt 501 (1252)
+++||+++.++. +.+++.||+|||||.+ +|.||.++.
T Consensus 527 v~~VIi~~~~r~-----------------gls~lhQ~~GRvGR~g~~g~~il~~~ 564 (630)
T TIGR00643 527 ATVMVIEDAERF-----------------GLSQLHQLRGRVGRGDHQSYCLLVYK 564 (630)
T ss_pred CcEEEEeCCCcC-----------------CHHHHHHHhhhcccCCCCcEEEEEEC
Confidence 999998876542 2378899999999987 999999984
No 67
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.97 E-value=1.9e-29 Score=312.39 Aligned_cols=312 Identities=21% Similarity=0.208 Sum_probs=225.5
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-------cCCeEEecCcHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-------AEQSIVCTQPRKIA 222 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-------~~~~ILv~qPrR~L 222 (1252)
+++.+.+.+.+. +.-|+..|..+|+.+..+.++++ +||||||||.++..+++..... .+-.++++.|.|+|
T Consensus 8 l~~~v~~~~~~~-~~~~t~~Q~~a~~~i~~G~nvLi-iAPTGsGKTeAAfLpil~~l~~~~~~~~~~~i~~lYIsPLkAL 85 (814)
T COG1201 8 LDPRVREWFKRK-FTSLTPPQRYAIPEIHSGENVLI-IAPTGSGKTEAAFLPVINELLSLGKGKLEDGIYALYISPLKAL 85 (814)
T ss_pred cCHHHHHHHHHh-cCCCCHHHHHHHHHHhCCCceEE-EcCCCCChHHHHHHHHHHHHHhccCCCCCCceEEEEeCcHHHH
Confidence 556566665555 99999999999999986665555 6999999998866666543221 12478999999999
Q ss_pred HHHHHHHHHHHhcCCCCCceEEEecC----CC--ccccCCCeEEEEChHHHHHHHhcCC---CCCceeEEEEccccc---
Q 000854 223 AISLAQRVREESRGCYEDDSVICYPS----FS--SAQHFDSKVIYMTDHCLLQHFMNDR---DLSRISCIIVDEAHE--- 290 (1252)
Q Consensus 223 A~qva~rv~~~~~~~~~~~~vg~~~~----~~--~~~~~~t~Iiv~Tpg~Ll~~L~~~~---~L~~ls~IVIDEaHE--- 290 (1252)
+..+-.++........ ..+....+ .+ ......++|+++||+.|.-.+.+.. .|+++.+|||||+|+
T Consensus 86 n~Di~~rL~~~~~~~G--~~v~vRhGDT~~~er~r~~~~PPdILiTTPEsL~lll~~~~~r~~l~~vr~VIVDEiHel~~ 163 (814)
T COG1201 86 NNDIRRRLEEPLRELG--IEVAVRHGDTPQSEKQKMLKNPPHILITTPESLAILLNSPKFRELLRDVRYVIVDEIHALAE 163 (814)
T ss_pred HHHHHHHHHHHHHHcC--CccceecCCCChHHhhhccCCCCcEEEeChhHHHHHhcCHHHHHHhcCCcEEEeehhhhhhc
Confidence 9999999987664222 22221111 11 1122458999999999987765543 799999999999996
Q ss_pred --cccchhhHHHHHHHHHhccCCCcEEeeccC-CCHHHHHhhhhcCC----eEEEec-ccceeEEEEecCCCCCCccccc
Q 000854 291 --RSLNTDLLLALVKDLLCRRFDLRLVIMSAT-ADAHQLSKYFYDCG----ISHVVG-RNFPVDVRYVPCATAGTSAVAS 362 (1252)
Q Consensus 291 --R~l~~d~ll~llk~l~~~~~~lqiIlmSAT-ld~~~l~~~f~~~~----vi~i~g-r~~pV~i~y~~~~~s~~~~~~~ 362 (1252)
|+...... +.++...-++.|.|++||| .+.+.+++|+.+.. ++.+.+ +...+++.......... ..
T Consensus 164 sKRG~~Lsl~---LeRL~~l~~~~qRIGLSATV~~~~~varfL~g~~~~~~Iv~~~~~k~~~i~v~~p~~~~~~~---~~ 237 (814)
T COG1201 164 SKRGVQLALS---LERLRELAGDFQRIGLSATVGPPEEVAKFLVGFGDPCEIVDVSAAKKLEIKVISPVEDLIYD---EE 237 (814)
T ss_pred cccchhhhhh---HHHHHhhCcccEEEeehhccCCHHHHHHHhcCCCCceEEEEcccCCcceEEEEecCCccccc---cc
Confidence 33332233 3334333448999999999 46888999997553 233322 22223332222211000 11
Q ss_pred hHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCC-CeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhh
Q 000854 363 YVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPS-AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAE 440 (1252)
Q Consensus 363 ~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~-~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae 440 (1252)
........+.++.+ ....+|||+||+..++.++..|+..+ ..+..+||+++.++|..++++| +|+.+++|||+.+|
T Consensus 238 ~~~~~~~~i~~~v~--~~~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~lravV~TSSLE 315 (814)
T COG1201 238 LWAALYERIAELVK--KHRTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGELKAVVATSSLE 315 (814)
T ss_pred hhHHHHHHHHHHHh--hcCcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCCceEEEEccchh
Confidence 22334445555553 34599999999999999999998765 8899999999999999999999 89999999999999
Q ss_pred hcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCC
Q 000854 441 TSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRT 491 (1252)
Q Consensus 441 ~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~ 491 (1252)
-|||+.+|+.||+++-|++. +...||+||+|+.
T Consensus 316 LGIDiG~vdlVIq~~SP~sV------------------~r~lQRiGRsgHr 348 (814)
T COG1201 316 LGIDIGDIDLVIQLGSPKSV------------------NRFLQRIGRAGHR 348 (814)
T ss_pred hccccCCceEEEEeCCcHHH------------------HHHhHhccccccc
Confidence 99999999999999988755 8889999999987
No 68
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.97 E-value=9.5e-31 Score=293.27 Aligned_cols=335 Identities=18% Similarity=0.173 Sum_probs=256.9
Q ss_pred ccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc---ccCCeE
Q 000854 137 FRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI---AAEQSI 213 (1252)
Q Consensus 137 ~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~---~~~~~I 213 (1252)
.+|..+| +...+++++.+.++..|+++|++.|+..+++.+++. .|-||||||.++..++++... ..+.+.
T Consensus 21 g~fqsmg------L~~~v~raI~kkg~~~ptpiqRKTipliLe~~dvv~-martgsgktaaf~ipm~e~Lk~~s~~g~Ra 93 (529)
T KOG0337|consen 21 GGFQSMG------LDYKVLRAIHKKGFNTPTPIQRKTIPLILEGRDVVG-MARTGSGKTAAFLIPMIEKLKSHSQTGLRA 93 (529)
T ss_pred CCccccC------CCHHHHHHHHHhhcCCCCchhcccccceeeccccce-eeecCCcchhhHHHHHHHHHhhccccccce
Confidence 4566655 888999999999999999999999999999999988 599999999997777665432 234689
Q ss_pred EecCcHHHHHHHHHHHHHHHhcCCCCCce--EEEecCCC--ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccc
Q 000854 214 VCTQPRKIAAISLAQRVREESRGCYEDDS--VICYPSFS--SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEA 288 (1252)
Q Consensus 214 Lv~qPrR~LA~qva~rv~~~~~~~~~~~~--vg~~~~~~--~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEa 288 (1252)
+++.|+|+||.|+.+.+++...+...... +|+....+ .....+++|+++|||+++.....-. .|+.+.+||+||+
T Consensus 94 lilsptreLa~qtlkvvkdlgrgt~lr~s~~~ggD~~eeqf~~l~~npDii~ATpgr~~h~~vem~l~l~sveyVVfdEa 173 (529)
T KOG0337|consen 94 LILSPTRELALQTLKVVKDLGRGTKLRQSLLVGGDSIEEQFILLNENPDIIIATPGRLLHLGVEMTLTLSSVEYVVFDEA 173 (529)
T ss_pred eeccCcHHHHHHHHHHHHHhccccchhhhhhcccchHHHHHHHhccCCCEEEecCceeeeeehheeccccceeeeeehhh
Confidence 99999999999999999988654333222 22211111 1234579999999999986553333 7899999999999
Q ss_pred cccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEecCCCC----CCccccchH
Q 000854 289 HERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVPCATA----GTSAVASYV 364 (1252)
Q Consensus 289 HER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s----~~~~~~~~~ 364 (1252)
+ |.+.++|...+-+++.+.+.+.|.++||||++... .++-. .|-..|+-+....+..- +........
T Consensus 174 d-rlfemgfqeql~e~l~rl~~~~QTllfSatlp~~l-v~fak-------aGl~~p~lVRldvetkise~lk~~f~~~~~ 244 (529)
T KOG0337|consen 174 D-RLFEMGFQEQLHEILSRLPESRQTLLFSATLPRDL-VDFAK-------AGLVPPVLVRLDVETKISELLKVRFFRVRK 244 (529)
T ss_pred h-HHHhhhhHHHHHHHHHhCCCcceEEEEeccCchhh-HHHHH-------ccCCCCceEEeehhhhcchhhhhheeeecc
Confidence 9 99999999999999999999999999999988552 22221 12233444332211110 000001112
Q ss_pred HHHHHHHHHhhhc-CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhc
Q 000854 365 SDVVRMVGEVHTT-EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETS 442 (1252)
Q Consensus 365 ~~~~~~l~~i~~~-~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~G 442 (1252)
+++...+..+... ..+.+++||+++..+++.+...|+..++.+..++|.|++..|..-+..| .++..++|.|++|+||
T Consensus 245 a~K~aaLl~il~~~~~~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~k~~~lvvTdvaaRG 324 (529)
T KOG0337|consen 245 AEKEAALLSILGGRIKDKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGRKTSILVVTDVAARG 324 (529)
T ss_pred HHHHHHHHHHHhccccccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCCccceEEEehhhhcc
Confidence 3344445444432 3356899999999999999999999999999999999999999999999 6888999999999999
Q ss_pred CCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 443 LTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 443 IDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
+|||..+-||++++|... .-++||+||+.|.| .|.+|.++...+.
T Consensus 325 ~diplldnvinyd~p~~~------------------klFvhRVgr~aragrtg~aYs~V~~~~~ 370 (529)
T KOG0337|consen 325 LDIPLLDNVINYDFPPDD------------------KLFVHRVGRVARAGRTGRAYSLVASTDD 370 (529)
T ss_pred CCCccccccccccCCCCC------------------ceEEEEecchhhccccceEEEEEecccc
Confidence 999999999999997654 33679999999998 9999999988754
No 69
>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=99.97 E-value=3.1e-29 Score=293.84 Aligned_cols=288 Identities=19% Similarity=0.205 Sum_probs=188.2
Q ss_pred eEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE------ecCC-----C
Q 000854 183 ILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC------YPSF-----S 250 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~------~~~~-----~ 250 (1252)
+++|+||||||||+++.++++.... ....+++++.|+|+|+.|+++++...++...+ ...+. .... +
T Consensus 1 ~vvi~apTGsGKT~~~~~~~l~~~~~~~~~~ii~v~P~~~L~~q~~~~l~~~f~~~~~-~~~~~~~~~~~~~~~~~~~~~ 79 (358)
T TIGR01587 1 LLVIEAPTGYGKTEAALLWALHSIKSQKADRVIIALPTRATINAMYRRAKELFGSNLG-LLHSSSSFKRIKEMGDSEEFE 79 (358)
T ss_pred CEEEEeCCCCCHHHHHHHHHHHHHhhCCCCeEEEEeehHHHHHHHHHHHHHHhCcccE-EeeccHHHHHHhccCCchhHH
Confidence 3677899999999998888775422 23568999999999999999999997642111 00000 0000 0
Q ss_pred c---------cccCCCeEEEEChHHHHHHHhcCC-----CCC--ceeEEEEccccccccch--hhHHHHHHHHHhccCCC
Q 000854 251 S---------AQHFDSKVIYMTDHCLLQHFMNDR-----DLS--RISCIIVDEAHERSLNT--DLLLALVKDLLCRRFDL 312 (1252)
Q Consensus 251 ~---------~~~~~t~Iiv~Tpg~Ll~~L~~~~-----~L~--~ls~IVIDEaHER~l~~--d~ll~llk~l~~~~~~l 312 (1252)
. ......+|+++||++++..+.... .+. ..++||+||+| +..+. +++..+++.+. ..+.
T Consensus 80 ~~~~~~~~~~~~~~~~~I~v~T~~~l~~~~~~~~~~~~~~~~~~~~~~iViDE~h-~~~~~~~~~l~~~l~~l~--~~~~ 156 (358)
T TIGR01587 80 HLFPLYIHSNDKLFLDPITVCTIDQVLKSVFGEFGHYEFTLASIANSLLIFDEVH-FYDEYTLALILAVLEVLK--DNDV 156 (358)
T ss_pred HHHHHHhhchhhhhhCCeeeCCHHHHHHHHhcccchHHHHHHHhcCCEEEEeCCC-CCCHHHHHHHHHHHHHHH--HcCC
Confidence 0 001236799999999988776521 111 23799999999 45443 33444444443 3578
Q ss_pred cEEeeccCCCHHHHHhhhhcCCeEEEeccccee-------EEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEE
Q 000854 313 RLVIMSATADAHQLSKYFYDCGISHVVGRNFPV-------DVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILA 385 (1252)
Q Consensus 313 qiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV-------~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLV 385 (1252)
|+++||||++ +.+.+++.......... ..+. ...+..... ...........++.. ...++++||
T Consensus 157 ~~i~~SATlp-~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~~l~~~---~~~~~~~lV 227 (358)
T TIGR01587 157 PILLMSATLP-KFLKEYAEKIGYVEFNE-PLDLKEERRFERHRFIKIES----DKVGEISSLERLLEF---IKKGGKIAI 227 (358)
T ss_pred CEEEEecCch-HHHHHHHhcCCCccccc-CCCCccccccccccceeecc----ccccCHHHHHHHHHH---hhCCCeEEE
Confidence 9999999987 45666654322111110 0010 000000000 000111112222211 145789999
Q ss_pred EeCCHHHHHHHHHHcCCCCC--eeEeecCCCCHHhhhhh----cccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCc
Q 000854 386 FLTSKMEVEWACEKFDAPSA--VALPFHGQLSFDEQFCV----FKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVK 458 (1252)
Q Consensus 386 Fl~s~~eie~la~~L~~~~~--~v~~LHg~Ls~~eR~~v----~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk 458 (1252)
||+++++++.+++.|++.+. .+..+||++++.+|.++ ++.| +|+.+|||||+++++||||| +++||+...
T Consensus 228 f~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~~~ilvaT~~~~~GiDi~-~~~vi~~~~-- 304 (358)
T TIGR01587 228 IVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNEKFVIVATQVIEASLDIS-ADVMITELA-- 304 (358)
T ss_pred EECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCCCeEEEECcchhceeccC-CCEEEEcCC--
Confidence 99999999999999976554 59999999999999764 7788 78999999999999999996 788887533
Q ss_pred cccccCCCCcccceecccCHhhHHHHhcccCCCC--C---CeEEEecChhh
Q 000854 459 ESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE--P---GRCYRLYSKSD 504 (1252)
Q Consensus 459 ~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~--~---G~c~~Lyt~~d 504 (1252)
+.++|+||+||+||.| . |..|.++...+
T Consensus 305 ------------------~~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~ 337 (358)
T TIGR01587 305 ------------------PIDSLIQRLGRLHRYGRKNGENFEVYIITIAPE 337 (358)
T ss_pred ------------------CHHHHHHHhccccCCCCCCCCCCeEEEEeecCC
Confidence 3378999999999985 2 36777776554
No 70
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.96 E-value=1.8e-28 Score=282.62 Aligned_cols=314 Identities=21% Similarity=0.254 Sum_probs=220.7
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCC
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSF 249 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~ 249 (1252)
+|..|......+ +++|+.|||-|||+.+...+...-...++++++++||+-|+.|-++.+.+.++- .....+...+..
T Consensus 19 YQ~~i~a~al~~-NtLvvlPTGLGKT~IA~~V~~~~l~~~~~kvlfLAPTKPLV~Qh~~~~~~v~~i-p~~~i~~ltGev 96 (542)
T COG1111 19 YQLNIAAKALFK-NTLVVLPTGLGKTFIAAMVIANRLRWFGGKVLFLAPTKPLVLQHAEFCRKVTGI-PEDEIAALTGEV 96 (542)
T ss_pred HHHHHHHHHhhc-CeEEEecCCccHHHHHHHHHHHHHHhcCCeEEEecCCchHHHHHHHHHHHHhCC-ChhheeeecCCC
Confidence 444444444444 445568999999987655554332222348999999999999999999998742 222223222221
Q ss_pred Cc----cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC--C
Q 000854 250 SS----AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA--D 322 (1252)
Q Consensus 250 ~~----~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl--d 322 (1252)
.. ....+.+|+|+||..+.+-|.... .+.+++++|+|||| |....--.-.+.+.......+..+++||||+ +
T Consensus 97 ~p~~R~~~w~~~kVfvaTPQvveNDl~~Grid~~dv~~lifDEAH-RAvGnyAYv~Va~~y~~~~k~~~ilgLTASPGs~ 175 (542)
T COG1111 97 RPEEREELWAKKKVFVATPQVVENDLKAGRIDLDDVSLLIFDEAH-RAVGNYAYVFVAKEYLRSAKNPLILGLTASPGSD 175 (542)
T ss_pred ChHHHHHHHhhCCEEEeccHHHHhHHhcCccChHHceEEEechhh-hccCcchHHHHHHHHHHhccCceEEEEecCCCCC
Confidence 11 123468999999999998887776 89999999999999 8877766777777777777889999999995 5
Q ss_pred HHHHHhhhhcCCeEEEeccc----------ceeEEEEecCCCC----------------------------CCc------
Q 000854 323 AHQLSKYFYDCGISHVVGRN----------FPVDVRYVPCATA----------------------------GTS------ 358 (1252)
Q Consensus 323 ~~~l~~~f~~~~vi~i~gr~----------~pV~i~y~~~~~s----------------------------~~~------ 358 (1252)
.+.+.+...+..+-++.-++ ..+++.+.+.... ...
T Consensus 176 ~ekI~eV~~nLgIe~vevrTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~~kd 255 (542)
T COG1111 176 LEKIQEVVENLGIEKVEVRTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPVSKKD 255 (542)
T ss_pred HHHHHHHHHhCCcceEEEecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccCcccHhH
Confidence 66677766665554443222 1233333322210 000
Q ss_pred --------------------------------------------------------------------------------
Q 000854 359 -------------------------------------------------------------------------------- 358 (1252)
Q Consensus 359 -------------------------------------------------------------------------------- 358 (1252)
T Consensus 256 l~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~sk~a~~l~~d~~~~~al~ 335 (542)
T COG1111 256 LLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGSKAAKSLLADPYFKRALR 335 (542)
T ss_pred HHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccchHHHHHHhcChhhHHHHH
Confidence
Q ss_pred ---------cccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeE-ee--------cCCCCHHhhh
Q 000854 359 ---------AVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVAL-PF--------HGQLSFDEQF 420 (1252)
Q Consensus 359 ---------~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~-~L--------Hg~Ls~~eR~ 420 (1252)
...+.++....++.+.....++.++|||++-++.++.+.+.|.+.+..+. -+ ..||++.+|.
T Consensus 336 ~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMsQkeQ~ 415 (542)
T COG1111 336 LLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMSQKEQK 415 (542)
T ss_pred HHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccCHHHHH
Confidence 00000111112222223334567999999999999999999988776653 22 3579999999
Q ss_pred hhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEe
Q 000854 421 CVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRL 499 (1252)
Q Consensus 421 ~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~L 499 (1252)
++++.| .|..+|||||+++|.|+|||+|++||-|+... |.--++||.|||||.++|..|.|
T Consensus 416 eiI~~Fr~Ge~nVLVaTSVgEEGLDIp~vDlVifYEpvp------------------SeIR~IQR~GRTGR~r~Grv~vL 477 (542)
T COG1111 416 EIIDQFRKGEYNVLVATSVGEEGLDIPEVDLVIFYEPVP------------------SEIRSIQRKGRTGRKRKGRVVVL 477 (542)
T ss_pred HHHHHHhcCCceEEEEcccccccCCCCcccEEEEecCCc------------------HHHHHHHhhCccccCCCCeEEEE
Confidence 999999 89999999999999999999999999776533 33668999999999999999999
Q ss_pred cChhh
Q 000854 500 YSKSD 504 (1252)
Q Consensus 500 yt~~d 504 (1252)
+++.+
T Consensus 478 vt~gt 482 (542)
T COG1111 478 VTEGT 482 (542)
T ss_pred EecCc
Confidence 99873
No 71
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.96 E-value=1.1e-28 Score=300.28 Aligned_cols=468 Identities=19% Similarity=0.209 Sum_probs=303.4
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc---------ccCCeEEecCcHHHHHHHHHHHHHHHhcCCC
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI---------AAEQSIVCTQPRKIAAISLAQRVREESRGCY 238 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~---------~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~ 238 (1252)
.+|...++.+...+.+++||||||||||-.+..-++..-. ....+|++++|+++||..+++.+.+.+...
T Consensus 113 ~iQS~vFp~aY~SneNMLIcAPTGsGKT~la~L~ILr~ik~~~~~~~i~k~~fKiVYIaPmKALa~Em~~~~~kkl~~~- 191 (1230)
T KOG0952|consen 113 RIQSEVFPVAYKSNENMLICAPTGSGKTVLAELCILRTIKEHEEQGDIAKDDFKIVYIAPMKALAAEMVDKFSKKLAPL- 191 (1230)
T ss_pred HHHHHhhhhhhcCCCCEEEECCCCCCchHHHHHHHHHHHHhhccccccccCCceEEEEechHHHHHHHHHHHhhhcccc-
Confidence 4688899999999999999999999999765554443211 134589999999999999999999876422
Q ss_pred CCceEEEecCCCc---cccCCCeEEEEChHHH---HHHHhcCC-CCCceeEEEEccccccccch---hhHHHHHHHHH--
Q 000854 239 EDDSVICYPSFSS---AQHFDSKVIYMTDHCL---LQHFMNDR-DLSRISCIIVDEAHERSLNT---DLLLALVKDLL-- 306 (1252)
Q Consensus 239 ~~~~vg~~~~~~~---~~~~~t~Iiv~Tpg~L---l~~L~~~~-~L~~ls~IVIDEaHER~l~~---d~ll~llk~l~-- 306 (1252)
|..|+-..+... ..-..++|+|+||+.. .|.-..+. .++.+.+|||||+| ++.- -.+..++.+.+
T Consensus 192 -gi~v~ELTGD~ql~~tei~~tqiiVTTPEKwDvvTRk~~~d~~l~~~V~LviIDEVH--lLhd~RGpvlEtiVaRtlr~ 268 (1230)
T KOG0952|consen 192 -GISVRELTGDTQLTKTEIADTQIIVTTPEKWDVVTRKSVGDSALFSLVRLVIIDEVH--LLHDDRGPVLETIVARTLRL 268 (1230)
T ss_pred -cceEEEecCcchhhHHHHHhcCEEEecccceeeeeeeeccchhhhhheeeEEeeeeh--hhcCcccchHHHHHHHHHHH
Confidence 334443222211 1234699999999975 22222222 78889999999999 2222 12333333332
Q ss_pred --hccCCCcEEeeccC-CCHHHHHhhhhc---CCeEEEecccceeEEEEecCCCCCC--ccccchH-HHHHHHHHHhhhc
Q 000854 307 --CRRFDLRLVIMSAT-ADAHQLSKYFYD---CGISHVVGRNFPVDVRYVPCATAGT--SAVASYV-SDVVRMVGEVHTT 377 (1252)
Q Consensus 307 --~~~~~lqiIlmSAT-ld~~~l~~~f~~---~~vi~i~gr~~pV~i~y~~~~~s~~--~~~~~~~-~~~~~~l~~i~~~ 377 (1252)
..-..+|+|++||| +|.++++.|+.- .+++.+.++..|+.+.......... ....... +-..+.+.+.+
T Consensus 269 vessqs~IRivgLSATlPN~eDvA~fL~vn~~~glfsFd~~yRPvpL~~~~iG~k~~~~~~~~~~~d~~~~~kv~e~~-- 346 (1230)
T KOG0952|consen 269 VESSQSMIRIVGLSATLPNYEDVARFLRVNPYAGLFSFDQRYRPVPLTQGFIGIKGKKNRQQKKNIDEVCYDKVVEFL-- 346 (1230)
T ss_pred HHhhhhheEEEEeeccCCCHHHHHHHhcCCCccceeeecccccccceeeeEEeeecccchhhhhhHHHHHHHHHHHHH--
Confidence 23457899999999 468999999975 4577778877777655332211111 1111111 11222222222
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCC--------------C--C-------CeeEeecCCCCHHhhhhhcccC-CCceEEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDA--------------P--S-------AVALPFHGQLSFDEQFCVFKSY-PGRRKVI 433 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~--------------~--~-------~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVL 433 (1252)
..+.+++|||.++.+..+.|+.|.+ . . .....+|+||..++|..+.+.| .|.++|+
T Consensus 347 ~~g~qVlvFvhsR~~Ti~tA~~l~~~a~~~g~~~~f~~~~~~k~l~elf~~g~~iHhAGm~r~DR~l~E~~F~~G~i~vL 426 (1230)
T KOG0952|consen 347 QEGHQVLVFVHSRNETIRTAKKLRERAETNGEKDLFLPSPRNKQLKELFQQGMGIHHAGMLRSDRQLVEKEFKEGHIKVL 426 (1230)
T ss_pred HcCCeEEEEEecChHHHHHHHHHHHHHHhcCcccccCCChhhHHHHHHHHhhhhhcccccchhhHHHHHHHHhcCCceEE
Confidence 5678999999999999998888752 0 1 3467799999999999999999 8999999
Q ss_pred EechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhhc---c
Q 000854 434 FATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDFE---T 507 (1252)
Q Consensus 434 VATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~~---~ 507 (1252)
+||..++.|+++|+--++|-. +..||+..|.- ...+--+.+|..|||||.+ .|..+.+-+.+..+ +
T Consensus 427 ~cTaTLAwGVNLPA~aViIKG----T~~ydsskg~f----~dlgilDVlQifGRAGRPqFd~~G~giIiTt~dkl~~Y~s 498 (1230)
T KOG0952|consen 427 CCTATLAWGVNLPAYAVIIKG----TQVYDSSKGSF----VDLGILDVLQIFGRAGRPQFDSSGEGIIITTRDKLDHYES 498 (1230)
T ss_pred EecceeeeccCCcceEEEecC----CcccccccCce----eeehHHHHHHHHhccCCCCCCCCceEEEEecccHHHHHHH
Confidence 999999999999987777743 45788877521 1124467789999999984 77777776655433 3
Q ss_pred CCCCCCc---------------cccc---cchHHHHHHHhH------cCCCCcccc-----ccCCCCcH-----HHHHHH
Q 000854 508 RPLNQEP---------------EIHR---VHLGIAVLRILA------LGIRDVQGF-----DFIDAPSA-----KAIEMA 553 (1252)
Q Consensus 508 ~~~~~~P---------------EI~r---~~L~~~vL~lk~------lgi~~~~~f-----~~ldpP~~-----~~l~~A 553 (1252)
+...+.| ||-- +++++.+=.++. |+ +|+..+ ....-|.. +.+..+
T Consensus 499 Ll~~~~piES~~~~~L~dnLnAEi~LgTVt~VdeAVeWL~yTylYVRm~-KNP~~Ygi~~~~l~~dp~l~s~~~~l~~~~ 577 (1230)
T KOG0952|consen 499 LLTGQNPIESQLLPCLIDNLNAEISLGTVTNVDEAVEWLKYTYLYVRMR-KNPMAYGISYEELEPDPRLESHRRELCLVA 577 (1230)
T ss_pred HHcCCChhHHHHHHHHHHhhhhheeeceeecHHHHHHHhhceeEEEEec-cChHHhhhhhhcccCCchHHHHHHHHHHHH
Confidence 4433333 1111 111222211111 11 111111 11222222 344566
Q ss_pred HHHHHHcCcc--cccCCcccccHhHHhhhccCCChHhHHHHHHHhh-ccchhhHHHHHHHhhccCccccccCCchHHHHH
Q 000854 554 IRNLVQLGAI--KLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFR-RRLGREGLVLAAVMANASSIFCRVGSDDEKIKA 630 (1252)
Q Consensus 554 l~~L~~lgal--~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~-~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a 630 (1252)
+..|.+...+ |..+..+..|++||.|+.+++.-+..+.++.... +--.++++.|++.....+.+-+| . ++++..
T Consensus 578 ~~~L~~~qmi~~D~~t~~~~stdlGR~aS~yYik~ETme~~nn~~k~~~se~~iL~lis~aeEfs~ik~R--~-eE~k~l 654 (1230)
T KOG0952|consen 578 AMELDKVQMIRFDERTGYLKSTDLGRVASNYYIKYETMETFNNLPKSFYSEDDILALISMAEEFSQIKVR--E-EEKKEL 654 (1230)
T ss_pred HHHhhhhheEEEecccceEcccchhhhhhhhhhhhHHHHHHHhcccccCCHHHHHHHHHhhHhhhhhhhh--h-hhHHHH
Confidence 7777666444 5666678999999999999999999999999887 55677788888765544444333 2 222233
Q ss_pred Hhh------hhhhcCCCCcHHHHHHHHHH
Q 000854 631 DCL------KVQFCHRNGDLFTLLSVYRE 653 (1252)
Q Consensus 631 ~~~------~~~f~~~~gD~ltll~~y~~ 653 (1252)
+.+ +..|....|+.-.++.+|..
T Consensus 655 ~el~~~~~~~~~~~~~~gk~nil~q~~Is 683 (1230)
T KOG0952|consen 655 KELNEDSCEKYPFGGEKGKVNILLQAYIS 683 (1230)
T ss_pred HHHHhcccccccccccchhHHHHHHhhhh
Confidence 332 23343446788888888754
No 72
>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=6.6e-27 Score=274.16 Aligned_cols=286 Identities=16% Similarity=0.157 Sum_probs=186.5
Q ss_pred HHHHHHHHHhcC-CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC--CceEEEe
Q 000854 170 YRQDILRRIYGE-QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE--DDSVICY 246 (1252)
Q Consensus 170 qq~~I~~al~~~-~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~--~~~vg~~ 246 (1252)
|.+++..+..++ ++++++||||||||.++..+++.. ..+++++.|+++|+.|.++++.+....... +..+...
T Consensus 2 Q~~~~~~~~~~~~~~~~i~apTGsGKT~~~~~~~l~~----~~~~~~~~P~~aL~~~~~~~~~~~~~~~~~~~~~~v~~~ 77 (357)
T TIGR03158 2 QVATFEALQSKDADIIFNTAPTGAGKTLAWLTPLLHG----ENDTIALYPTNALIEDQTEAIKEFVDVFKPERDVNLLHV 77 (357)
T ss_pred HHHHHHHHHcCCCCEEEEECCCCCCHHHHHHHHHHHc----CCCEEEEeChHHHHHHHHHHHHHHHHhcCCCCCceEEEe
Confidence 455555555555 368889999999999876666643 346789999999999999998887632211 1111111
Q ss_pred cCC--------C------------------ccccCCCeEEEEChHHHHHHHhc---CC------CCCceeEEEEcccccc
Q 000854 247 PSF--------S------------------SAQHFDSKVIYMTDHCLLQHFMN---DR------DLSRISCIIVDEAHER 291 (1252)
Q Consensus 247 ~~~--------~------------------~~~~~~t~Iiv~Tpg~Ll~~L~~---~~------~L~~ls~IVIDEaHER 291 (1252)
.+. . ......+.|+++||++|...+.. .+ .+.++++||+||+|+.
T Consensus 78 ~g~~~~d~~~~~~~~~~~~~g~~~~~~~r~~~~~~~p~illT~p~~l~~llr~~~~~~~~~~~~~~~~~~~iV~DE~H~~ 157 (357)
T TIGR03158 78 SKATLKDIKEYANDKVGSSKGEKLYNLLRNPIGTSTPIILLTNPDIFVYLTRFAYIDRGDIAAGFYTKFSTVIFDEFHLY 157 (357)
T ss_pred cCCchHHHHHhhhhhcccCccchhhhhHHHHHhcCCCCEEEecHHHHHHHHhhhccCcccchhhhhcCCCEEEEeccccc
Confidence 110 0 00012467888889988654432 12 3689999999999974
Q ss_pred ccch-hhH---HHHHHHHHhccCCCcEEeeccCCCHHHHHhhh----hcCCeEEEeccc--c------------------
Q 000854 292 SLNT-DLL---LALVKDLLCRRFDLRLVIMSATADAHQLSKYF----YDCGISHVVGRN--F------------------ 343 (1252)
Q Consensus 292 ~l~~-d~l---l~llk~l~~~~~~lqiIlmSATld~~~l~~~f----~~~~vi~i~gr~--~------------------ 343 (1252)
.... +.+ +.....+.......++++||||++.......- .+.++..+.|+. +
T Consensus 158 ~~~~~~~~~~~l~~~~~~~~~~~~~~~i~lSAT~~~~~~~~l~~~~~~~~~~~~v~g~~~~~~~~~~~~~~~~~~~~~~~ 237 (357)
T TIGR03158 158 DAKQLVGMLFLLAYMQLIRFFECRRKFVFLSATPDPALILRLQNAKQAGVKIAPIDGEKYQFPDNPELEADNKTQSFRPV 237 (357)
T ss_pred CcccchhhhhhhHHHHHHHhhhcCCcEEEEecCCCHHHHHHHHhccccCceeeeecCcccccCCChhhhcccccccccee
Confidence 4322 122 23334333333457999999999865333221 234566666661 1
Q ss_pred --eeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCC--CCeeEeecCCCCHHhh
Q 000854 344 --PVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAP--SAVALPFHGQLSFDEQ 419 (1252)
Q Consensus 344 --pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~--~~~v~~LHg~Ls~~eR 419 (1252)
++++.+.+... .....+......+.+..+..+++++||||+|+++++.+++.|++. ++.+..+||.+++.+|
T Consensus 238 ~~~i~~~~~~~~~----~~~~~l~~l~~~i~~~~~~~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R 313 (357)
T TIGR03158 238 LPPVELELIPAPD----FKEEELSELAEEVIERFRQLPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDR 313 (357)
T ss_pred ccceEEEEEeCCc----hhHHHHHHHHHHHHHHHhccCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHH
Confidence 34444443211 111122333333433343346789999999999999999999875 4578899999999999
Q ss_pred hhhcccCCCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccC
Q 000854 420 FCVFKSYPGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAG 489 (1252)
Q Consensus 420 ~~v~~~f~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAG 489 (1252)
.++. +..|||||+++++|||+|++ +||. + |. +.++|+||+||+|
T Consensus 314 ~~~~-----~~~iLVaTdv~~rGiDi~~~-~vi~-~-p~------------------~~~~yiqR~GR~g 357 (357)
T TIGR03158 314 ERAM-----QFDILLGTSTVDVGVDFKRD-WLIF-S-AR------------------DAAAFWQRLGRLG 357 (357)
T ss_pred HHhc-----cCCEEEEecHHhcccCCCCc-eEEE-C-CC------------------CHHHHhhhcccCC
Confidence 8764 57899999999999999987 5552 2 32 3489999999998
No 73
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.95 E-value=1.6e-27 Score=266.76 Aligned_cols=318 Identities=18% Similarity=0.156 Sum_probs=220.4
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce-E
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS-V 243 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~-v 243 (1252)
+-+.-|.+++..++.++++|.|++|||+|||+.+-.+.+-. ++..||+.|.-+|.....+.+..+--.+..-.+ .
T Consensus 20 FKs~LQE~A~~c~VK~k~DVyVsMPTGaGKSLCyQLPaL~~----~gITIV~SPLiALIkDQiDHL~~LKVp~~SLNSKl 95 (641)
T KOG0352|consen 20 FKSRLQEQAINCIVKRKCDVYVSMPTGAGKSLCYQLPALVH----GGITIVISPLIALIKDQIDHLKRLKVPCESLNSKL 95 (641)
T ss_pred hcChHHHHHHHHHHhccCcEEEeccCCCchhhhhhchHHHh----CCeEEEehHHHHHHHHHHHHHHhcCCchhHhcchh
Confidence 44556899999999999999999999999997543332222 235678889988877666666554211100000 0
Q ss_pred EEecC-----CCccccCCCeEEEEChHHHH-----HHHhcCCCCCceeEEEEccccccc-cchhhHHHHHH--HHHhccC
Q 000854 244 ICYPS-----FSSAQHFDSKVIYMTDHCLL-----QHFMNDRDLSRISCIIVDEAHERS-LNTDLLLALVK--DLLCRRF 310 (1252)
Q Consensus 244 g~~~~-----~~~~~~~~t~Iiv~Tpg~Ll-----~~L~~~~~L~~ls~IVIDEaHER~-l~~d~ll~llk--~l~~~~~ 310 (1252)
.-..+ ......+.++++|.||++-. ..|..-..-..++++|+|||||-+ +..||..++++ .+....+
T Consensus 96 St~ER~ri~~DL~~ekp~~K~LYITPE~AAt~~FQ~lLn~L~~r~~L~Y~vVDEAHCVSQWGHDFRPDYL~LG~LRS~~~ 175 (641)
T KOG0352|consen 96 STVERSRIMGDLAKEKPTIKMLYITPEGAATDGFQKLLNGLANRDVLRYIVVDEAHCVSQWGHDFRPDYLTLGSLRSVCP 175 (641)
T ss_pred hHHHHHHHHHHHHhcCCceeEEEEchhhhhhhhHHHHHHHHhhhceeeeEEechhhhHhhhccccCcchhhhhhHHhhCC
Confidence 00000 01122356899999998631 222222234467999999999833 22355555443 4555678
Q ss_pred CCcEEeeccCCCHHHHHhhhh----cCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhh---------c
Q 000854 311 DLRLVIMSATADAHQLSKYFY----DCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHT---------T 377 (1252)
Q Consensus 311 ~lqiIlmSATld~~~l~~~f~----~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~---------~ 377 (1252)
++.-+.+|||.+.+.-.+.+. ..|+..+....|.-+++|..... ..+.+......+...+-+. .
T Consensus 176 ~vpwvALTATA~~~VqEDi~~qL~L~~PVAiFkTP~FR~NLFYD~~~K---~~I~D~~~~LaDF~~~~LG~~~~~~~~~K 252 (641)
T KOG0352|consen 176 GVPWVALTATANAKVQEDIAFQLKLRNPVAIFKTPTFRDNLFYDNHMK---SFITDCLTVLADFSSSNLGKHEKASQNKK 252 (641)
T ss_pred CCceEEeecccChhHHHHHHHHHhhcCcHHhccCcchhhhhhHHHHHH---HHhhhHhHhHHHHHHHhcCChhhhhcCCC
Confidence 999999999998776555443 34554444455555555543211 0111111122222111111 1
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCC
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGM 456 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~ 456 (1252)
...|-.||||.|+++|++++-.|...|+.+..||++|...||.+|-+.| +++.-||+||+-+++|+|.|+|++|||.+.
T Consensus 253 ~~~GCGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~~PvI~AT~SFGMGVDKp~VRFViHW~~ 332 (641)
T KOG0352|consen 253 TFTGCGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNEIPVIAATVSFGMGVDKPDVRFVIHWSP 332 (641)
T ss_pred CcCcceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCCCCEEEEEeccccccCCcceeEEEecCc
Confidence 1247899999999999999999999999999999999999999999999 999999999999999999999999999988
Q ss_pred CccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhcc
Q 000854 457 VKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFET 507 (1252)
Q Consensus 457 pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~ 507 (1252)
++.. +.|-|.+|||||.| +..|-.+|+++|.+.
T Consensus 333 ~qn~------------------AgYYQESGRAGRDGk~SyCRLYYsR~D~~~ 366 (641)
T KOG0352|consen 333 SQNL------------------AGYYQESGRAGRDGKRSYCRLYYSRQDKNA 366 (641)
T ss_pred hhhh------------------HHHHHhccccccCCCccceeeeecccchHH
Confidence 7755 88999999999998 899999999988764
No 74
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.95 E-value=1.6e-26 Score=282.33 Aligned_cols=301 Identities=13% Similarity=0.076 Sum_probs=197.4
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce
Q 000854 163 DGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS 242 (1252)
Q Consensus 163 ~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~ 242 (1252)
...|.+.|++++..++.+++. ++++|||+|||..+...+.........++++++||++|+.|+.+++.+.... .....
T Consensus 112 ~~~~r~~Q~~av~~~l~~~~~-il~apTGsGKT~i~~~l~~~~~~~~~~~vLilvpt~eL~~Q~~~~l~~~~~~-~~~~~ 189 (501)
T PHA02558 112 KIEPHWYQYDAVYEGLKNNRR-LLNLPTSAGKSLIQYLLSRYYLENYEGKVLIIVPTTSLVTQMIDDFVDYRLF-PREAM 189 (501)
T ss_pred cCCCCHHHHHHHHHHHhcCce-EEEeCCCCCHHHHHHHHHHHHHhcCCCeEEEEECcHHHHHHHHHHHHHhccc-cccce
Confidence 357888899999888876655 5589999999986543321111112348999999999999999999886421 11111
Q ss_pred EEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 243 VICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 243 vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
.+...+.. ...+.+|+|+|++.+.+... ..++++++||+|||| +.....+ ..+++. .++..++++||||+.
T Consensus 190 ~~i~~g~~--~~~~~~I~VaT~qsl~~~~~--~~~~~~~~iIvDEaH-~~~~~~~-~~il~~---~~~~~~~lGLTATp~ 260 (501)
T PHA02558 190 HKIYSGTA--KDTDAPIVVSTWQSAVKQPK--EWFDQFGMVIVDECH-LFTGKSL-TSIITK---LDNCKFKFGLTGSLR 260 (501)
T ss_pred eEEecCcc--cCCCCCEEEeeHHHHhhchh--hhccccCEEEEEchh-cccchhH-HHHHHh---hhccceEEEEeccCC
Confidence 12222211 11357899999999976542 257899999999999 5554332 233332 234567999999975
Q ss_pred HHH-----HHhhhhcCCeEEEe-------cccceeEEEEecCCCCC---Cc-cccch-------------HHHHHHHHHH
Q 000854 323 AHQ-----LSKYFYDCGISHVV-------GRNFPVDVRYVPCATAG---TS-AVASY-------------VSDVVRMVGE 373 (1252)
Q Consensus 323 ~~~-----l~~~f~~~~vi~i~-------gr~~pV~i~y~~~~~s~---~~-~~~~~-------------~~~~~~~l~~ 373 (1252)
... +..+|+. ....+. |...+..+......... .. ....+ ...+...+..
T Consensus 261 ~~~~~~~~~~~~fG~-i~~~v~~~~li~~g~l~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Rn~~I~~~~~~ 339 (501)
T PHA02558 261 DGKANILQYVGLFGD-IFKPVTTSQLMEEGQVTDLKINSIFLRYPDEDRVKLKGEDYQEEIKYITSHTKRNKWIANLALK 339 (501)
T ss_pred CccccHHHHHHhhCC-ceEEecHHHHHhCCCcCCceEEEEeccCCHHHhhhhcccchHHHHHHHhccHHHHHHHHHHHHH
Confidence 321 2233432 111111 11111111111100000 00 00001 0111122222
Q ss_pred hhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEec-hhhhhcCCCCCeeEE
Q 000854 374 VHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFAT-NVAETSLTIPGVKFV 451 (1252)
Q Consensus 374 i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVAT-niae~GIDIP~V~~V 451 (1252)
+. ..++++|||+.+.++++.+++.|.+.+..+..+||+|+.++|..+++.| .|+..||||| +++++|+|+|+++.|
T Consensus 340 ~~--~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~~~vLvaT~~~l~eG~Dip~ld~v 417 (501)
T PHA02558 340 LA--KKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGKGIIIVASYGVFSTGISIKNLHHV 417 (501)
T ss_pred HH--hcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCCCeEEEEEcceeccccccccccEE
Confidence 22 3567899999999999999999999999999999999999999999989 7888999998 899999999999999
Q ss_pred EEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCe
Q 000854 452 IDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGR 495 (1252)
Q Consensus 452 Id~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~ 495 (1252)
|....++ |+..|+||+||+||.++|+
T Consensus 418 Il~~p~~------------------s~~~~~QriGR~~R~~~~K 443 (501)
T PHA02558 418 IFAHPSK------------------SKIIVLQSIGRVLRKHGSK 443 (501)
T ss_pred EEecCCc------------------chhhhhhhhhccccCCCCC
Confidence 9776544 4478999999999997654
No 75
>PRK09401 reverse gyrase; Reviewed
Probab=99.95 E-value=6.5e-27 Score=305.26 Aligned_cols=293 Identities=17% Similarity=0.135 Sum_probs=193.7
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 164 GLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
..|+..|+..++.++.++++++ +||||||||+.+...+... ...+.++++++|||+||.|+++++.+..........+
T Consensus 79 ~~pt~iQ~~~i~~il~g~dv~i-~ApTGsGKT~f~l~~~~~l-~~~g~~alIL~PTreLa~Qi~~~l~~l~~~~~~~~~~ 156 (1176)
T PRK09401 79 SKPWSLQRTWAKRLLLGESFAI-IAPTGVGKTTFGLVMSLYL-AKKGKKSYIIFPTRLLVEQVVEKLEKFGEKVGCGVKI 156 (1176)
T ss_pred CCCcHHHHHHHHHHHCCCcEEE-EcCCCCCHHHHHHHHHHHH-HhcCCeEEEEeccHHHHHHHHHHHHHHhhhcCceEEE
Confidence 3799999999999888776666 6999999997433222211 2236789999999999999999999886433222111
Q ss_pred EEecCC---C--c----c-ccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-----------hhhH-HHH
Q 000854 244 ICYPSF---S--S----A-QHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-----------TDLL-LAL 301 (1252)
Q Consensus 244 g~~~~~---~--~----~-~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-----------~d~l-l~l 301 (1252)
.+.... . . . .....+|+|+|||+|.+++. .-...++++||||||| ++++ .+|. ..+
T Consensus 157 ~~g~~~~~~~ek~~~~~~l~~~~~~IlV~Tp~rL~~~~~-~l~~~~~~~lVvDEaD-~~L~~~k~id~~l~~lGF~~~~i 234 (1176)
T PRK09401 157 LYYHSSLKKKEKEEFLERLKEGDFDILVTTSQFLSKNFD-ELPKKKFDFVFVDDVD-AVLKSSKNIDKLLYLLGFSEEDI 234 (1176)
T ss_pred EEccCCcchhHHHHHHHHHhcCCCCEEEECHHHHHHHHH-hccccccCEEEEEChH-HhhhcccchhhHHHhCCCCHHHH
Confidence 111111 0 0 0 12358999999999998876 2245569999999999 5654 3342 112
Q ss_pred HHHHHhcc------------------------CCCcEEeeccCCCHHHHH-hhhhcCCeEEEeccc---ceeEEEEecCC
Q 000854 302 VKDLLCRR------------------------FDLRLVIMSATADAHQLS-KYFYDCGISHVVGRN---FPVDVRYVPCA 353 (1252)
Q Consensus 302 lk~l~~~~------------------------~~lqiIlmSATld~~~l~-~~f~~~~vi~i~gr~---~pV~i~y~~~~ 353 (1252)
.+.+...+ .+.|++++|||+++..+. .+|.+.-.+.+.... ..+...|....
T Consensus 235 ~~i~~~i~~~~~~~~~~~~i~~l~~~i~~~~~~~~q~ilfSAT~~~~~~~~~l~~~ll~~~v~~~~~~~rnI~~~yi~~~ 314 (1176)
T PRK09401 235 EKAMELIRLKRKYEEIYEKIRELEEKIAELKDKKGVLVVSSATGRPRGNRVKLFRELLGFEVGSPVFYLRNIVDSYIVDE 314 (1176)
T ss_pred HHHHHhcccccccchhhhHHHHHHHhhhhcccCCceEEEEeCCCCccchHHHHhhccceEEecCcccccCCceEEEEEcc
Confidence 11111111 167899999998764332 233222112222111 22333443221
Q ss_pred CCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHH---HHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCc
Q 000854 354 TAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKME---VEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGR 429 (1252)
Q Consensus 354 ~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~e---ie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~ 429 (1252)
+....+..+.... +.++||||++++. ++.+++.|+..|+.+..+||+| + +.++.| +|+
T Consensus 315 ------------~k~~~L~~ll~~l-~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l---~--~~l~~F~~G~ 376 (1176)
T PRK09401 315 ------------DSVEKLVELVKRL-GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF---E--RKFEKFEEGE 376 (1176)
T ss_pred ------------cHHHHHHHHHHhc-CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH---H--HHHHHHHCCC
Confidence 1222233333322 3579999999777 9999999999999999999999 2 235899 899
Q ss_pred eEEEEe----chhhhhcCCCCC-eeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCC
Q 000854 430 RKVIFA----TNVAETSLTIPG-VKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGR 490 (1252)
Q Consensus 430 ~kVLVA----Tniae~GIDIP~-V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR 490 (1252)
.+|||| ||+++||||+|+ |++||++|+|+..+- . --...+.||.||+-+
T Consensus 377 ~~VLVatas~tdv~aRGIDiP~~IryVI~y~vP~~~~~-~-----------~~~~~~~~~~~r~~~ 430 (1176)
T PRK09401 377 VDVLVGVASYYGVLVRGIDLPERIRYAIFYGVPKFKFS-L-----------EEELAPPFLLLRLLS 430 (1176)
T ss_pred CCEEEEecCCCCceeecCCCCcceeEEEEeCCCCEEEe-c-----------cccccCHHHHHHHHh
Confidence 999999 699999999999 899999999983310 0 011457799999953
No 76
>PRK14701 reverse gyrase; Provisional
Probab=99.95 E-value=7.9e-27 Score=310.01 Aligned_cols=323 Identities=14% Similarity=0.083 Sum_probs=211.6
Q ss_pred HHHHH-ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHh
Q 000854 156 RECKR-LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 156 ~~l~~-~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~ 234 (1252)
+-+++ .|+ -|+..|++.++.++.++++++ +||||||||+....+.+.. ...+.+++++.|||+|+.|+++++....
T Consensus 70 ~~f~~~~G~-~pt~iQ~~~i~~il~G~d~li-~APTGsGKTl~~~~~al~~-~~~g~~aLVl~PTreLa~Qi~~~l~~l~ 146 (1638)
T PRK14701 70 EFFEKITGF-EFWSIQKTWAKRILRGKSFSI-VAPTGMGKSTFGAFIALFL-ALKGKKCYIILPTTLLVKQTVEKIESFC 146 (1638)
T ss_pred HHHHHhhCC-CCCHHHHHHHHHHHcCCCEEE-EEcCCCCHHHHHHHHHHHH-HhcCCeEEEEECHHHHHHHHHHHHHHHH
Confidence 33444 577 599999999999999887766 6999999998322111111 1235689999999999999999999875
Q ss_pred cCCCCCceEEEe-cCCCcc---------ccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc----------
Q 000854 235 RGCYEDDSVICY-PSFSSA---------QHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN---------- 294 (1252)
Q Consensus 235 ~~~~~~~~vg~~-~~~~~~---------~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~---------- 294 (1252)
.....+..+.+. ...... .....+|+|+|||+|.+.+..... .++++||||||| ++++
T Consensus 147 ~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~~dILV~TPgrL~~~~~~l~~-~~i~~iVVDEAD-~ml~~~knid~~L~ 224 (1638)
T PRK14701 147 EKANLDVRLVYYHSNLRKKEKEEFLERIENGDFDILVTTAQFLARNFPEMKH-LKFDFIFVDDVD-AFLKASKNIDRSLQ 224 (1638)
T ss_pred hhcCCceeEEEEeCCCCHHHHHHHHHHHhcCCCCEEEECCchhHHhHHHHhh-CCCCEEEEECce-eccccccccchhhh
Confidence 433222223322 221111 123489999999999877653222 678999999999 4543
Q ss_pred -hhhHHHHHH----HHH----------------------hccCCCc-EEeeccCCCHH-HHHhhhhcCCeEEEeccc---
Q 000854 295 -TDLLLALVK----DLL----------------------CRRFDLR-LVIMSATADAH-QLSKYFYDCGISHVVGRN--- 342 (1252)
Q Consensus 295 -~d~ll~llk----~l~----------------------~~~~~lq-iIlmSATld~~-~l~~~f~~~~vi~i~gr~--- 342 (1252)
.+|...+.. .+. ..++..+ ++++|||++.. ...++|.+.-.+.+....
T Consensus 225 llGF~~e~~~~~~~il~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ll~~SAT~~~r~~~~~l~~~~l~f~v~~~~~~l 304 (1638)
T PRK14701 225 LLGFYEEIIEKAWKIIYLKKQGNIEDAMEKREILNKEIEKIGNKIGCLIVASATGKAKGDRVKLYRELLGFEVGSGRSAL 304 (1638)
T ss_pred cCCChHHHHHHHHHhhhcccccccchhhhhhhhhhhhhhhcCCCccEEEEEecCCCchhHHHHHhhcCeEEEecCCCCCC
Confidence 356554443 211 1123344 56799998753 344555433233332221
Q ss_pred ceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHH---HHHHHHHcCCCCCeeEeecCCCCHHhh
Q 000854 343 FPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKME---VEWACEKFDAPSAVALPFHGQLSFDEQ 419 (1252)
Q Consensus 343 ~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~e---ie~la~~L~~~~~~v~~LHg~Ls~~eR 419 (1252)
..+...|..... ... ..+.++.... +.++||||++++. ++.+++.|...|+.+..+||+ |
T Consensus 305 r~i~~~yi~~~~----------~~k-~~L~~ll~~~-g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R 367 (1638)
T PRK14701 305 RNIVDVYLNPEK----------IIK-EHVRELLKKL-GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----N 367 (1638)
T ss_pred CCcEEEEEECCH----------HHH-HHHHHHHHhC-CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----H
Confidence 123333332110 111 1233333333 4689999999876 489999999999999999995 8
Q ss_pred hhhcccC-CCceEEEEec----hhhhhcCCCCC-eeEEEEcCCCcccc----ccCCCCcccceecccCHhhHHHHhcccC
Q 000854 420 FCVFKSY-PGRRKVIFAT----NVAETSLTIPG-VKFVIDSGMVKESY----FEPGTGMNVLRVCRVSQSSANQRAGRAG 489 (1252)
Q Consensus 420 ~~v~~~f-~G~~kVLVAT----niae~GIDIP~-V~~VId~g~pk~~~----ydp~~~~~~L~~~~iSkasy~QR~GRAG 489 (1252)
..+++.| +|+.+||||| ++++||||+|+ |+|||++|+|+-.+ |.+.... .+. .....++.||||
T Consensus 368 ~~~l~~F~~G~~~VLVaT~s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~-~~~-----~~~~~~~~~~a~ 441 (1638)
T PRK14701 368 KKGFDLFEEGEIDYLIGVATYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYR-ILG-----LLSEILKIEEEL 441 (1638)
T ss_pred HHHHHHHHcCCCCEEEEecCCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhh-hhc-----chHHHHHhhhhc
Confidence 8899999 8999999999 59999999999 99999999999321 1111100 010 234567889999
Q ss_pred CCC-CCeEEEecChhhhc
Q 000854 490 RTE-PGRCYRLYSKSDFE 506 (1252)
Q Consensus 490 R~~-~G~c~~Lyt~~d~~ 506 (1252)
|.| ++.|+..+.+++..
T Consensus 442 ~~g~~~~~~~~~~~~~~~ 459 (1638)
T PRK14701 442 KEGIPIEGVLDVFPEDVE 459 (1638)
T ss_pred ccCCcchhHHHhHHHHHH
Confidence 998 88887666666654
No 77
>PRK13766 Hef nuclease; Provisional
Probab=99.94 E-value=1.3e-25 Score=288.38 Aligned_cols=316 Identities=22% Similarity=0.275 Sum_probs=209.5
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecC
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPS 248 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~ 248 (1252)
.+|.++......+ +++|++|||+|||.++...+.......++++++++||++|+.|.++.+.+.++.. ....+.+.+.
T Consensus 18 ~yQ~~~~~~~l~~-n~lv~~ptG~GKT~~a~~~i~~~l~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~-~~~v~~~~g~ 95 (773)
T PRK13766 18 LYQQLLAATALKK-NTLVVLPTGLGKTAIALLVIAERLHKKGGKVLILAPTKPLVEQHAEFFRKFLNIP-EEKIVVFTGE 95 (773)
T ss_pred HHHHHHHHHHhcC-CeEEEcCCCccHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHHHHHHHHhCCC-CceEEEEeCC
Confidence 3444454444444 5566899999999875555544323346789999999999999999998875321 1111222221
Q ss_pred CCc----cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC-
Q 000854 249 FSS----AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD- 322 (1252)
Q Consensus 249 ~~~----~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld- 322 (1252)
... ....+.+|+|+||+++...+.... .+.++++||+|||| |.........+.+......+..++++||||+.
T Consensus 96 ~~~~~r~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~~~liVvDEaH-~~~~~~~~~~i~~~~~~~~~~~~il~lTaTP~~ 174 (773)
T PRK13766 96 VSPEKRAELWEKAKVIVATPQVIENDLIAGRISLEDVSLLIFDEAH-RAVGNYAYVYIAERYHEDAKNPLVLGLTASPGS 174 (773)
T ss_pred CCHHHHHHHHhCCCEEEECHHHHHHHHHcCCCChhhCcEEEEECCc-cccccccHHHHHHHHHhcCCCCEEEEEEcCCCC
Confidence 111 112357899999999988776555 68899999999999 55544333444555555556678999999963
Q ss_pred -HHHHHhhhhcCCe--EEEeccc--------ceeEEEEecCCCC-----------------------------CC-----
Q 000854 323 -AHQLSKYFYDCGI--SHVVGRN--------FPVDVRYVPCATA-----------------------------GT----- 357 (1252)
Q Consensus 323 -~~~l~~~f~~~~v--i~i~gr~--------~pV~i~y~~~~~s-----------------------------~~----- 357 (1252)
.+.+.....+..+ +.+..+. .+..+.+...... ..
T Consensus 175 ~~~~i~~~~~~L~i~~v~~~~~~~~~v~~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~ 254 (773)
T PRK13766 175 DEEKIKEVCENLGIEHVEVRTEDDPDVKPYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSK 254 (773)
T ss_pred CHHHHHHHHHhCCceEEEEcCCCChhHHhhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCH
Confidence 3333333322111 1111100 0011111000000 00
Q ss_pred -----------------cc-------------------------------------------------------------
Q 000854 358 -----------------SA------------------------------------------------------------- 359 (1252)
Q Consensus 358 -----------------~~------------------------------------------------------------- 359 (1252)
..
T Consensus 255 ~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~y~~~l~~~~~~~~~~~~~~~l~~~~~~~~ 334 (773)
T PRK13766 255 KELLGLQKKLQQEIANDDSEGYEAISILAEAMKLRHAVELLETQGVEALRRYLERLREEARSSGGSKASKRLVEDPRFRK 334 (773)
T ss_pred HHHHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHhhccccCCcHHHHHHHhCHHHHH
Confidence 00
Q ss_pred ----------ccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCC--------CCHHhhhh
Q 000854 360 ----------VASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQ--------LSFDEQFC 421 (1252)
Q Consensus 360 ----------~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~--------Ls~~eR~~ 421 (1252)
..+......+.+.++....+++++||||++++.++.+++.|...++.+..+||. |++.+|.+
T Consensus 335 ~~~~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~ 414 (773)
T PRK13766 335 AVRKAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIE 414 (773)
T ss_pred HHHHHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHH
Confidence 000000111122222223567899999999999999999998888888889886 99999999
Q ss_pred hcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEec
Q 000854 422 VFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLY 500 (1252)
Q Consensus 422 v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Ly 500 (1252)
+++.| .|+.+|||||+++++|+|+|++++||+++.+. |...|+||+||+||.++|.+|.|+
T Consensus 415 ~~~~F~~g~~~vLvaT~~~~eGldi~~~~~VI~yd~~~------------------s~~r~iQR~GR~gR~~~~~v~~l~ 476 (773)
T PRK13766 415 ILDKFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPVP------------------SEIRSIQRKGRTGRQEEGRVVVLI 476 (773)
T ss_pred HHHHHHcCCCCEEEECChhhcCCCcccCCEEEEeCCCC------------------CHHHHHHHhcccCcCCCCEEEEEE
Confidence 99999 89999999999999999999999999988754 337899999999999999999999
Q ss_pred Chhhh
Q 000854 501 SKSDF 505 (1252)
Q Consensus 501 t~~d~ 505 (1252)
++...
T Consensus 477 ~~~t~ 481 (773)
T PRK13766 477 AKGTR 481 (773)
T ss_pred eCCCh
Confidence 87654
No 78
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.94 E-value=8e-26 Score=274.26 Aligned_cols=316 Identities=18% Similarity=0.207 Sum_probs=206.7
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 163 DGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 163 ~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
..++...+|.+|..... .++++|++|||+|||.++.-.+++. .+.+.++|++++|++-|..|....+...+.+ .
T Consensus 59 ~~~~lR~YQ~eivq~AL-gkNtii~lPTG~GKTfIAa~Vm~nh~rw~p~~KiVF~aP~~pLv~QQ~a~~~~~~~~----~ 133 (746)
T KOG0354|consen 59 TNLELRNYQEELVQPAL-GKNTIIALPTGSGKTFIAAVIMKNHFEWRPKGKVVFLAPTRPLVNQQIACFSIYLIP----Y 133 (746)
T ss_pred CcccccHHHHHHhHHhh-cCCeEEEeecCCCccchHHHHHHHHHhcCCcceEEEeeCCchHHHHHHHHHhhccCc----c
Confidence 45777788888887777 6677778999999998755555443 3445689999999999998887666665422 1
Q ss_pred eEEEecCCCc------cccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEccccccccchhhHHHHHHHHHhc-cCCC
Q 000854 242 SVICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAHERSLNTDLLLALVKDLLCR-RFDL 312 (1252)
Q Consensus 242 ~vg~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~-~~~l 312 (1252)
.+........ ......+|.|+||..|.+.|.+.. .|+.++++|||||| |....--.-.+++.++.. ...-
T Consensus 134 ~~T~~l~~~~~~~~r~~i~~s~~vff~TpQil~ndL~~~~~~~ls~fs~iv~DE~H-ra~kn~~Y~~Vmr~~l~~k~~~~ 212 (746)
T KOG0354|consen 134 SVTGQLGDTVPRSNRGEIVASKRVFFRTPQILENDLKSGLHDELSDFSLIVFDECH-RTSKNHPYNNIMREYLDLKNQGN 212 (746)
T ss_pred cceeeccCccCCCchhhhhcccceEEeChHhhhhhcccccccccceEEEEEEcccc-cccccccHHHHHHHHHHhhhccc
Confidence 1111111100 112357999999999998887654 57899999999999 666555555555444443 3344
Q ss_pred cEEeeccCCC--HHHHHhhhhcCCeEEEec----------------ccceeEEE--------------------------
Q 000854 313 RLVIMSATAD--AHQLSKYFYDCGISHVVG----------------RNFPVDVR-------------------------- 348 (1252)
Q Consensus 313 qiIlmSATld--~~~l~~~f~~~~vi~i~g----------------r~~pV~i~-------------------------- 348 (1252)
|+|++|||+. .+...++..+...- +.- ...|+++.
T Consensus 213 qILgLTASpG~~~~~v~~~I~~L~as-ldvr~~ssi~~~y~~lr~~~~i~v~~~~~~~~~~~~f~~~i~p~l~~l~~~~l 291 (746)
T KOG0354|consen 213 QILGLTASPGSKLEQVQNVIDNLCAS-LDVRTESSIKSNYEELREHVQIPVDLSLCERDIEDPFGMIIEPLLQQLQEEGL 291 (746)
T ss_pred cEEEEecCCCccHHHHHHHHHhhhee-cccchhhhhhhhHHHHhccCcccCcHHHhhhhhhhhHHHHHHHHHHHHHhcCc
Confidence 9999999953 23333333221000 000 00111100
Q ss_pred ---------Eec---------CCC--CCC---------------------------------------------------
Q 000854 349 ---------YVP---------CAT--AGT--------------------------------------------------- 357 (1252)
Q Consensus 349 ---------y~~---------~~~--s~~--------------------------------------------------- 357 (1252)
|.. ... ...
T Consensus 292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~f~~~~~~~~~~~ll~~~gir~~~~l~~~~~f~~e~~~~k~~~~~~e~~ 371 (746)
T KOG0354|consen 292 IEISDKSTSYEQWVVQAEKAAAPNGPENQRNCFYALHLRKYNLALLISDGIRFVDALDYLEDFYEEVALKKYLKLELEAR 371 (746)
T ss_pred cccccccccccchhhhhhhhhccCCCccchhhHHHHHHHHHHHHHHhhcchhhHHHHhhhhhhccccchhHHHHHHhcch
Confidence 000 000 000
Q ss_pred -------------------ccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC---CCCeeEee-----
Q 000854 358 -------------------SAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA---PSAVALPF----- 410 (1252)
Q Consensus 358 -------------------~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~---~~~~v~~L----- 410 (1252)
......++...+.+.+.....+..++|||+.++..+..+...|.. .+++...+
T Consensus 372 ~~~~~~~~m~~~~~l~~~~~~~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~ 451 (746)
T KOG0354|consen 372 LIRNFTENMNELEHLSLDPPKENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGK 451 (746)
T ss_pred hhHHHHHHHHhhhhhhcCCCccChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccc
Confidence 000011111222222223345678999999999999998887762 22222222
Q ss_pred ---cCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhc
Q 000854 411 ---HGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAG 486 (1252)
Q Consensus 411 ---Hg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~G 486 (1252)
-.+|++.+|.++++.| .|+.+|||||+|+|.|+||++|+.||-||..... -..+||+|
T Consensus 452 s~~~~gmtqk~Q~evl~~Fr~G~~NvLVATSV~EEGLDI~ec~lVIcYd~~snp------------------IrmIQrrG 513 (746)
T KOG0354|consen 452 STQSTGMTQKEQKEVLDKFRDGEINVLVATSVAEEGLDIGECNLVICYDYSSNP------------------IRMVQRRG 513 (746)
T ss_pred cccccccCHHHHHHHHHHHhCCCccEEEEecchhccCCcccccEEEEecCCccH------------------HHHHHHhc
Confidence 2479999999999999 8999999999999999999999999988774432 67899999
Q ss_pred ccCCCCCCeEEEecChhh
Q 000854 487 RAGRTEPGRCYRLYSKSD 504 (1252)
Q Consensus 487 RAGR~~~G~c~~Lyt~~d 504 (1252)
| ||...|+|+.|++..+
T Consensus 514 R-gRa~ns~~vll~t~~~ 530 (746)
T KOG0354|consen 514 R-GRARNSKCVLLTTGSE 530 (746)
T ss_pred c-ccccCCeEEEEEcchh
Confidence 9 9999999999999544
No 79
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.94 E-value=1.9e-26 Score=290.97 Aligned_cols=321 Identities=20% Similarity=0.228 Sum_probs=218.5
Q ss_pred HHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhH--HHHHHHHhcccccCCeEEecCcHHHHHHHHHHH
Q 000854 152 AFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKST--QLVQFLADSGIAAEQSIVCTQPRKIAAISLAQR 229 (1252)
Q Consensus 152 ~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTt--qipq~Lle~~~~~~~~ILv~qPrR~LA~qva~r 229 (1252)
...+...+......| .|+++|...+.+++.++ .+|||+|||+ |+|..+.. +..+|+.|...|.......
T Consensus 253 ~~~l~~~Fg~~~FR~--~Q~eaI~~~l~Gkd~fv-lmpTG~GKSLCYQlPA~l~~------gitvVISPL~SLm~DQv~~ 323 (941)
T KOG0351|consen 253 ELLLKEVFGHKGFRP--NQLEAINATLSGKDCFV-LMPTGGGKSLCYQLPALLLG------GVTVVISPLISLMQDQVTH 323 (941)
T ss_pred HHHHHHHhccccCCh--hHHHHHHHHHcCCceEE-EeecCCceeeEeeccccccC------CceEEeccHHHHHHHHHHh
Confidence 334444444444444 58888886666666665 5999999996 46665543 3678889999997766555
Q ss_pred HHHHh-cCCCCCceEEEe---cCCCcccc--CCCeEEEEChHHHHH------HHhcCCCCCceeEEEEcccccccc-chh
Q 000854 230 VREES-RGCYEDDSVICY---PSFSSAQH--FDSKVIYMTDHCLLQ------HFMNDRDLSRISCIIVDEAHERSL-NTD 296 (1252)
Q Consensus 230 v~~~~-~~~~~~~~vg~~---~~~~~~~~--~~t~Iiv~Tpg~Ll~------~L~~~~~L~~ls~IVIDEaHER~l-~~d 296 (1252)
+.... ..+.....-+.. ..+..... ...+|+|+||+++.. .+......+-+.++|||||||-+- ..|
T Consensus 324 L~~~~I~a~~L~s~q~~~~~~~i~q~l~~~~~~ikilYvtPE~v~~~~~l~~~~~~L~~~~~lal~vIDEAHCVSqWgHd 403 (941)
T KOG0351|consen 324 LSKKGIPACFLSSIQTAAERLAILQKLANGNPIIKILYVTPEKVVASEGLLESLADLYARGLLALFVIDEAHCVSQWGHD 403 (941)
T ss_pred hhhcCcceeeccccccHHHHHHHHHHHhCCCCeEEEEEeCHHHhhcccchhhHHHhccCCCeeEEEEecHHHHhhhhccc
Confidence 53221 111110000000 00000111 357999999998743 222222223389999999998432 235
Q ss_pred hHHHHH--HHHHhccCCCcEEeeccCCCHHHHHhhhhc----CCeEEEecccceeEEEEecCCCCCCccccchHHHHHHH
Q 000854 297 LLLALV--KDLLCRRFDLRLVIMSATADAHQLSKYFYD----CGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRM 370 (1252)
Q Consensus 297 ~ll~ll--k~l~~~~~~lqiIlmSATld~~~l~~~f~~----~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~ 370 (1252)
|...+. ..++..++.+++|.+|||.+...-.+.... .+.+ +.....+-+++|....... .......
T Consensus 404 FRp~Yk~l~~l~~~~~~vP~iALTATAT~~v~~DIi~~L~l~~~~~-~~~sfnR~NL~yeV~~k~~-------~~~~~~~ 475 (941)
T KOG0351|consen 404 FRPSYKRLGLLRIRFPGVPFIALTATATERVREDVIRSLGLRNPEL-FKSSFNRPNLKYEVSPKTD-------KDALLDI 475 (941)
T ss_pred ccHHHHHHHHHHhhCCCCCeEEeehhccHHHHHHHHHHhCCCCcce-ecccCCCCCceEEEEeccC-------ccchHHH
Confidence 555443 334446778999999999876554444332 1222 2222333344444432210 1122233
Q ss_pred HHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCee
Q 000854 371 VGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVK 449 (1252)
Q Consensus 371 l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~ 449 (1252)
+..+....+.+.+||||.++++|+.++..|+..++.+..||++|++.+|..|...| +++.+|||||-++++|||.|||+
T Consensus 476 ~~~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~~~VivATVAFGMGIdK~DVR 555 (941)
T KOG0351|consen 476 LEESKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDKIRVIVATVAFGMGIDKPDVR 555 (941)
T ss_pred HHHhhhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCCCeEEEEEeeccCCCCCCcee
Confidence 34445557889999999999999999999999999999999999999999999999 99999999999999999999999
Q ss_pred EEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhcc
Q 000854 450 FVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFET 507 (1252)
Q Consensus 450 ~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~ 507 (1252)
+|||+++||.. +.|.|.+|||||.| +..|..||+..|+..
T Consensus 556 ~ViH~~lPks~------------------E~YYQE~GRAGRDG~~s~C~l~y~~~D~~~ 596 (941)
T KOG0351|consen 556 FVIHYSLPKSF------------------EGYYQEAGRAGRDGLPSSCVLLYGYADISE 596 (941)
T ss_pred EEEECCCchhH------------------HHHHHhccccCcCCCcceeEEecchhHHHH
Confidence 99999999955 88889999999998 999999999987754
No 80
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.93 E-value=2e-24 Score=265.32 Aligned_cols=421 Identities=18% Similarity=0.174 Sum_probs=267.9
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc---c-------ccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG---I-------AAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~---~-------~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
-++|..-...++.+..++++|||||+|||-..+.-+++.. . ....+|++++|.+.|+..+...+++....
T Consensus 311 NrIQS~v~daAl~~~EnmLlCAPTGaGKTNVAvLtiLqel~~h~r~dgs~nl~~fKIVYIAPmKaLvqE~VgsfSkRla~ 390 (1674)
T KOG0951|consen 311 NRIQSKVYDAALRGDENMLLCAPTGAGKTNVAVLTILQELGNHLREDGSVNLAPFKIVYIAPMKALVQEMVGSFSKRLAP 390 (1674)
T ss_pred hHHHHHHHHHHhcCcCcEEEeccCCCCchHHHHHHHHHHHhcccccccceecccceEEEEeeHHHHHHHHHHHHHhhccc
Confidence 3456666777888889999999999999976555554421 1 12348999999999999999888887643
Q ss_pred CCCCceEEEecCCC---ccccCCCeEEEEChHHHHHHHhcC---CCCCceeEEEEccccccccch---hhHHHHHHH---
Q 000854 237 CYEDDSVICYPSFS---SAQHFDSKVIYMTDHCLLQHFMND---RDLSRISCIIVDEAHERSLNT---DLLLALVKD--- 304 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~---~~~~~~t~Iiv~Tpg~Ll~~L~~~---~~L~~ls~IVIDEaHER~l~~---d~ll~llk~--- 304 (1252)
. |..|+-..+.. ...-..|+|+++||+..--.-.++ ...+-++.+||||+| +++- -.+..+..+
T Consensus 391 ~--GI~V~ElTgD~~l~~~qieeTqVIV~TPEK~DiITRk~gdraY~qlvrLlIIDEIH--LLhDdRGpvLESIVaRt~r 466 (1674)
T KOG0951|consen 391 L--GITVLELTGDSQLGKEQIEETQVIVTTPEKWDIITRKSGDRAYEQLVRLLIIDEIH--LLHDDRGPVLESIVARTFR 466 (1674)
T ss_pred c--CcEEEEecccccchhhhhhcceeEEeccchhhhhhcccCchhHHHHHHHHhhhhhh--hcccccchHHHHHHHHHHH
Confidence 2 34454422221 122357999999999752111221 245578999999999 3321 122222222
Q ss_pred -HHhccCCCcEEeeccCC-CHHHHHhhhhcC--CeEEEec--ccceeEEEEecCCCCCCccccchHHHHH-HHHHHhhhc
Q 000854 305 -LLCRRFDLRLVIMSATA-DAHQLSKYFYDC--GISHVVG--RNFPVDVRYVPCATAGTSAVASYVSDVV-RMVGEVHTT 377 (1252)
Q Consensus 305 -l~~~~~~lqiIlmSATl-d~~~l~~~f~~~--~vi~i~g--r~~pV~i~y~~~~~s~~~~~~~~~~~~~-~~l~~i~~~ 377 (1252)
......+.+++++|||+ |.++.+.|+.-. +++.... |.-|....|.-... ...... ....- .....++..
T Consensus 467 ~ses~~e~~RlVGLSATLPNy~DV~~Fl~v~~~glf~fd~syRpvPL~qq~Igi~e--k~~~~~-~qamNe~~yeKVm~~ 543 (1674)
T KOG0951|consen 467 RSESTEEGSRLVGLSATLPNYEDVASFLRVDPEGLFYFDSSYRPVPLKQQYIGITE--KKPLKR-FQAMNEACYEKVLEH 543 (1674)
T ss_pred HhhhcccCceeeeecccCCchhhhHHHhccCcccccccCcccCcCCccceEecccc--CCchHH-HHHHHHHHHHHHHHh
Confidence 22233578999999995 567777766422 2333322 33344444443221 111111 11111 223344555
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCC-------------------------------------CCCeeEeecCCCCHHhhh
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDA-------------------------------------PSAVALPFHGQLSFDEQF 420 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~-------------------------------------~~~~v~~LHg~Ls~~eR~ 420 (1252)
...+++|||+.++++.-+.|+.+++ ..+.+..+|+||+..+|.
T Consensus 544 agk~qVLVFVHsRkET~ktA~aIRd~~le~dtls~fmre~s~s~eilrtea~~~kn~dLkdLLpygfaIHhAGl~R~dR~ 623 (1674)
T KOG0951|consen 544 AGKNQVLVFVHSRKETAKTARAIRDKALEEDTLSRFMREDSASREILRTEAGQAKNPDLKDLLPYGFAIHHAGLNRKDRE 623 (1674)
T ss_pred CCCCcEEEEEEechHHHHHHHHHHHHHhhhhHHHHHHhcccchhhhhhhhhhcccChhHHHHhhccceeeccCCCcchHH
Confidence 6679999999999999888876651 235688899999999999
Q ss_pred hhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-----CC
Q 000854 421 CVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-----PG 494 (1252)
Q Consensus 421 ~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-----~G 494 (1252)
.+++.| .|+++|+|+|..+++|+++|+-+++|-. ...|||.+|.- .+.|..+..||.|||||.+ .|
T Consensus 624 ~~EdLf~~g~iqvlvstatlawgvnlpahtViikg----tqvy~pekg~w----~elsp~dv~qmlgragrp~~D~~geg 695 (1674)
T KOG0951|consen 624 LVEDLFADGHIQVLVSTATLAWGVNLPAHTVIIKG----TQVYDPEKGRW----TELSPLDVMQMLGRAGRPQYDTCGEG 695 (1674)
T ss_pred HHHHHHhcCceeEEEeehhhhhhcCCCcceEEecC----ccccCcccCcc----ccCCHHHHHHHHhhcCCCccCcCCce
Confidence 999999 8999999999999999999998888853 56899998842 2458889999999999983 55
Q ss_pred eEEEecChhhhc-c-CCCC-CCccccccchHHHHHHHhHcCCCCcccc-c-----------------------cCCCCc-
Q 000854 495 RCYRLYSKSDFE-T-RPLN-QEPEIHRVHLGIAVLRILALGIRDVQGF-D-----------------------FIDAPS- 546 (1252)
Q Consensus 495 ~c~~Lyt~~d~~-~-~~~~-~~PEI~r~~L~~~vL~lk~lgi~~~~~f-~-----------------------~ldpP~- 546 (1252)
..+.=+++-.|. + |.++ ++++-.-..|...+-.-+.+|+.....- + ..|++.
T Consensus 696 iiit~~se~qyyls~mn~qLpiesq~~~rl~d~lnaeiv~Gv~~~~d~~~wl~yTylyvRm~~~p~ly~~~~~~~d~~le 775 (1674)
T KOG0951|consen 696 IIITDHSELQYYLSLMNQQLPIESQFVSRLADCLNAEIVLGVRSARDAVDWLGYTYLYVRMVRNPTLYGVSPEASDRLLE 775 (1674)
T ss_pred eeccCchHhhhhHHhhhhcCCChHHHHHHhhhhhhhhhhcchhhHHHHHhhhcceeeEEeeccCchhccCCcccchHHHH
Confidence 555545544443 2 2222 2222222233322222233443322111 1 112221
Q ss_pred ---HHHHHHHHHHHHHcCccc--ccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchh
Q 000854 547 ---AKAIEMAIRNLVQLGAIK--LNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGR 602 (1252)
Q Consensus 547 ---~~~l~~Al~~L~~lgal~--~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~ 602 (1252)
.+.+..|...|.+.|+|. ...+....|.+|+..+.+++.-......-..+..-|.+
T Consensus 776 ~~r~~lvhsa~~ll~~~~li~yd~~s~~~~~telg~ias~yyi~~~s~~~yn~~L~~~~~~ 836 (1674)
T KOG0951|consen 776 QRRADLVHSAATLLDKAGLIKYDRKSGAIQATELGRIASSYYITHGSMATYNELLKETMSE 836 (1674)
T ss_pred HHHhhhHHHHHhhHhhcCccccccccCcccchhhccccceeeeecchHHHHHhhhhhhhcc
Confidence 155678899999999994 33456789999999999999766655544444444443
No 81
>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=99.93 E-value=9.3e-25 Score=285.54 Aligned_cols=278 Identities=17% Similarity=0.174 Sum_probs=183.8
Q ss_pred ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 161 LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
.....|+..|+..++.++.++++++ +||||||||+.+. .+.......+.+++++.|||+||.|+++.+.+........
T Consensus 74 ~~g~~p~~iQ~~~i~~il~G~d~vi-~ApTGsGKT~f~l-~~~~~l~~~g~~vLIL~PTreLa~Qi~~~l~~l~~~~~i~ 151 (1171)
T TIGR01054 74 AVGSEPWSIQKMWAKRVLRGDSFAI-IAPTGVGKTTFGL-AMSLFLAKKGKRCYIILPTTLLVIQVAEKISSLAEKAGVG 151 (1171)
T ss_pred hcCCCCcHHHHHHHHHHhCCCeEEE-ECCCCCCHHHHHH-HHHHHHHhcCCeEEEEeCHHHHHHHHHHHHHHHHHhcCCc
Confidence 3445799999999999888876554 7999999997432 2222112235789999999999999999999876432211
Q ss_pred c-eEEEe-cCCCcc---------ccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-----------hhhH
Q 000854 241 D-SVICY-PSFSSA---------QHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-----------TDLL 298 (1252)
Q Consensus 241 ~-~vg~~-~~~~~~---------~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-----------~d~l 298 (1252)
. .++.+ +..... ...+.+|+|+|||+|.+.+..-.. +++++|||||| ++++ .+|.
T Consensus 152 ~~~i~~~~Gg~~~~e~~~~~~~l~~~~~dIlV~Tp~rL~~~~~~l~~--~~~~iVvDEaD-~~L~~~k~vd~il~llGF~ 228 (1171)
T TIGR01054 152 TVNIGAYHSRLPTKEKKEFMERIENGDFDILITTTMFLSKNYDELGP--KFDFIFVDDVD-ALLKASKNVDKLLKLLGFS 228 (1171)
T ss_pred eeeeeeecCCCCHHHHHHHHHHHhcCCCCEEEECHHHHHHHHHHhcC--CCCEEEEeChH-hhhhccccHHHHHHHcCCC
Confidence 1 12222 221110 123489999999999987754222 89999999999 6665 3343
Q ss_pred HHHHHH-----------------------HHhccCCCc--EEeeccCCCHHHHH-hhhhcCCeEEEeccc---ceeEEEE
Q 000854 299 LALVKD-----------------------LLCRRFDLR--LVIMSATADAHQLS-KYFYDCGISHVVGRN---FPVDVRY 349 (1252)
Q Consensus 299 l~llk~-----------------------l~~~~~~lq--iIlmSATld~~~l~-~~f~~~~vi~i~gr~---~pV~i~y 349 (1252)
...+.. +...+++.| ++++|||..+.... .+|.+.-.+.+.... ..+...|
T Consensus 229 ~e~i~~il~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~li~~SAT~~p~~~~~~l~r~ll~~~v~~~~~~~r~I~~~~ 308 (1171)
T TIGR01054 229 EELIEKAWKLIRLRLKLYRALHAKKRLELLEAIPGKKRGCLIVSSATGRPRGKRAKLFRELLGFEVGGGSDTLRNVVDVY 308 (1171)
T ss_pred HHHHHHHHHHhhhccccchHHHHHHHHHHHHhhhhccCcEEEEEeCCCCccccHHHHcccccceEecCccccccceEEEE
Confidence 221111 111223334 67789994333222 333322223332221 2233344
Q ss_pred ecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCH---HHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC
Q 000854 350 VPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSK---MEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY 426 (1252)
Q Consensus 350 ~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~---~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f 426 (1252)
.... .... .+.++.+.. +.++||||+++ +.++++++.|.+.|+.+..+||+++. .+++.|
T Consensus 309 ~~~~--------~~~~----~L~~ll~~l-~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~~----~~l~~F 371 (1171)
T TIGR01054 309 VEDE--------DLKE----TLLEIVKKL-GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKPK----EDYEKF 371 (1171)
T ss_pred Eecc--------cHHH----HHHHHHHHc-CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCCH----HHHHHH
Confidence 3221 1011 222333322 36799999999 99999999999999999999999973 578999
Q ss_pred -CCceEEEEe----chhhhhcCCCCC-eeEEEEcCCCccc
Q 000854 427 -PGRRKVIFA----TNVAETSLTIPG-VKFVIDSGMVKES 460 (1252)
Q Consensus 427 -~G~~kVLVA----Tniae~GIDIP~-V~~VId~g~pk~~ 460 (1252)
+|+.+|||| ||+++||||+|+ |+|||++|+|+..
T Consensus 372 r~G~~~vLVata~~tdv~aRGIDip~~V~~vI~~~~P~~~ 411 (1171)
T TIGR01054 372 AEGEIDVLIGVASYYGTLVRGLDLPERVRYAVFLGVPKFK 411 (1171)
T ss_pred HcCCCCEEEEeccccCcccccCCCCccccEEEEECCCCEE
Confidence 899999999 599999999999 8999999999853
No 82
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.93 E-value=3.7e-24 Score=272.16 Aligned_cols=401 Identities=20% Similarity=0.206 Sum_probs=256.3
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
+..++.+.+... .|.+|.+....+..+++++|+.+||||||.++..++++.... ...+.|++-||++||....+++++
T Consensus 59 l~~~l~~~g~~~-lY~HQ~~A~~~~~~G~~vvVtTgTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~ 137 (851)
T COG1205 59 LKSALVKAGIER-LYSHQVDALRLIREGRNVVVTTGTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRE 137 (851)
T ss_pred HHHHHHHhcccc-ccHHHHHHHHHHHCCCCEEEECCCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHH
Confidence 345555555555 778888888888888888889999999999998888886543 344789999999999999999999
Q ss_pred HhcCCCCCceEEEecCCC---cc---ccCCCeEEEEChHHHHHHHhcCC-----CCCceeEEEEccccc-cccchhhHHH
Q 000854 233 ESRGCYEDDSVICYPSFS---SA---QHFDSKVIYMTDHCLLQHFMNDR-----DLSRISCIIVDEAHE-RSLNTDLLLA 300 (1252)
Q Consensus 233 ~~~~~~~~~~vg~~~~~~---~~---~~~~t~Iiv~Tpg~Ll~~L~~~~-----~L~~ls~IVIDEaHE-R~l~~d~ll~ 300 (1252)
+......+...+.+.+.. .. ....++|+++||.||..++.... .++++++||+||+|- |+....-+..
T Consensus 138 ~~~~~~~~v~~~~y~Gdt~~~~r~~~~~~pp~IllTNpdMLh~~llr~~~~~~~~~~~Lk~lVvDElHtYrGv~GS~vA~ 217 (851)
T COG1205 138 LISDLPGKVTFGRYTGDTPPEERRAIIRNPPDILLTNPDMLHYLLLRNHDAWLWLLRNLKYLVVDELHTYRGVQGSEVAL 217 (851)
T ss_pred HHHhCCCcceeeeecCCCChHHHHHHHhCCCCEEEeCHHHHHHHhccCcchHHHHHhcCcEEEEecceeccccchhHHHH
Confidence 875544333333332221 11 24579999999999988665443 678899999999993 4433333444
Q ss_pred HHHHHHh----ccCCCcEEeeccCC-CHHHHH-hhhhcCCeEE-EecccceeE----EEEecCCCC-CCccccchHHHHH
Q 000854 301 LVKDLLC----RRFDLRLVIMSATA-DAHQLS-KYFYDCGISH-VVGRNFPVD----VRYVPCATA-GTSAVASYVSDVV 368 (1252)
Q Consensus 301 llk~l~~----~~~~lqiIlmSATl-d~~~l~-~~f~~~~vi~-i~gr~~pV~----i~y~~~~~s-~~~~~~~~~~~~~ 368 (1252)
+++++.. ...++|+|.+|||. ++..+. ++++ ..... +.+...|-. +.+.|.... ......+......
T Consensus 218 llRRL~~~~~~~~~~~q~i~~SAT~~np~e~~~~l~~-~~f~~~v~~~g~~~~~~~~~~~~p~~~~~~~~~r~s~~~~~~ 296 (851)
T COG1205 218 LLRRLLRRLRRYGSPLQIICTSATLANPGEFAEELFG-RDFEVPVDEDGSPRGLRYFVRREPPIRELAESIRRSALAELA 296 (851)
T ss_pred HHHHHHHHHhccCCCceEEEEeccccChHHHHHHhcC-CcceeeccCCCCCCCceEEEEeCCcchhhhhhcccchHHHHH
Confidence 4555443 23479999999994 455444 4443 33332 443333222 112221110 0000111112222
Q ss_pred HHHHHhhhcCCCCcEEEEeCCHHHHHHHH----HHcCCCC----CeeEeecCCCCHHhhhhhcccC-CCceEEEEechhh
Q 000854 369 RMVGEVHTTEKEGTILAFLTSKMEVEWAC----EKFDAPS----AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVA 439 (1252)
Q Consensus 369 ~~l~~i~~~~~~g~iLVFl~s~~eie~la----~~L~~~~----~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATnia 439 (1252)
..+.... ..+-++|+|+.++..++.++ +.+...+ ..+..++|+|..++|.++...| .|+..++++|+++
T Consensus 297 ~~~~~~~--~~~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~~~~~st~Al 374 (851)
T COG1205 297 TLAALLV--RNGIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGELLGVIATNAL 374 (851)
T ss_pred HHHHHHH--HcCceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCccEEecchhh
Confidence 2222222 46789999999999999886 3333334 5688999999999999999999 8999999999999
Q ss_pred hhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhhccCCC--------
Q 000854 440 ETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDFETRPL-------- 510 (1252)
Q Consensus 440 e~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~~~~~~-------- 510 (1252)
+-||||.+++.||.+|+|-. |..++.||+|||||.+ .+..+..+..+-.+....
T Consensus 375 elgidiG~ldavi~~g~P~~-----------------s~~~~~Q~~GRaGR~~~~~l~~~v~~~~~~d~yy~~~p~~~~~ 437 (851)
T COG1205 375 ELGIDIGSLDAVIAYGYPGV-----------------SVLSFRQRAGRAGRRGQESLVLVVLRSDPLDSYYLRHPEELLE 437 (851)
T ss_pred hhceeehhhhhHhhcCCCCc-----------------hHHHHHHhhhhccCCCCCceEEEEeCCCccchhhhhCcHhhhh
Confidence 99999999999999998652 4488999999999997 666666665444333111
Q ss_pred --CCCccccccchHHHHH---HHhHcCCCCcccc-ccCCCCcHHHHHHHHHHHHHcCcccccCCcccccHhH
Q 000854 511 --NQEPEIHRVHLGIAVL---RILALGIRDVQGF-DFIDAPSAKAIEMAIRNLVQLGAIKLNNGVFELTEEG 576 (1252)
Q Consensus 511 --~~~PEI~r~~L~~~vL---~lk~lgi~~~~~f-~~ldpP~~~~l~~Al~~L~~lgal~~~~~~~~lT~lG 576 (1252)
...+|..+.+..+..+ .+.+......... +.+. +.........+.|..-+.+...++....++.|
T Consensus 438 ~~~~~~e~~~~~~~n~~~l~~hl~~~~~E~p~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~~~s~~~ 508 (851)
T COG1205 438 TGFGPVESVRVDDNNEYLLDGHLLCADAELPLKDRELLP-SDGSLEEEIARSLVGEGQLHHENDKYRPSSRG 508 (851)
T ss_pred cccCcccccccCCCCcchhhhhHHhhCccCCccchhccc-cchhHHHHHHhhhhccceecccCCcccccccc
Confidence 1233333333222211 1122111111111 1111 22334556666777788887666655566665
No 83
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=99.92 E-value=3.1e-25 Score=261.70 Aligned_cols=319 Identities=19% Similarity=0.206 Sum_probs=235.0
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
.-....|...+..+..++.|+|+|.|.+|||..+--.+.. .+..+.+|++|.|-++|..|-++.+..+++. ||
T Consensus 128 F~LDpFQ~~aI~Cidr~eSVLVSAHTSAGKTVVAeYAIA~-sLr~kQRVIYTSPIKALSNQKYREl~~EF~D------VG 200 (1041)
T KOG0948|consen 128 FTLDPFQSTAIKCIDRGESVLVSAHTSAGKTVVAEYAIAM-SLREKQRVIYTSPIKALSNQKYRELLEEFKD------VG 200 (1041)
T ss_pred cccCchHhhhhhhhcCCceEEEEeecCCCcchHHHHHHHH-HHHhcCeEEeeChhhhhcchhHHHHHHHhcc------cc
Confidence 3345678888899999999999999999999765433333 3445679999999999999999999999843 33
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC-C
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA-D 322 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl-d 322 (1252)
. ..++-...+.+..+|||+++|..+|-++. .+..+..||+||+| .|-|.+-..-....+..++++++.+++|||+ |
T Consensus 201 L-MTGDVTInP~ASCLVMTTEILRsMLYRGSEvmrEVaWVIFDEIH-YMRDkERGVVWEETIIllP~~vr~VFLSATiPN 278 (1041)
T KOG0948|consen 201 L-MTGDVTINPDASCLVMTTEILRSMLYRGSEVMREVAWVIFDEIH-YMRDKERGVVWEETIILLPDNVRFVFLSATIPN 278 (1041)
T ss_pred e-eecceeeCCCCceeeeHHHHHHHHHhccchHhheeeeEEeeeeh-hccccccceeeeeeEEeccccceEEEEeccCCC
Confidence 2 22233445678899999999999997776 88999999999999 4443332222223334467889999999995 6
Q ss_pred HHHHHhhhh-----cCCeEEEecccceeEEEEecCCCCC--------Cccccc---------------------------
Q 000854 323 AHQLSKYFY-----DCGISHVVGRNFPVDVRYVPCATAG--------TSAVAS--------------------------- 362 (1252)
Q Consensus 323 ~~~l~~~f~-----~~~vi~i~gr~~pV~i~y~~~~~s~--------~~~~~~--------------------------- 362 (1252)
+..|++|.. .|.++...-|..|..++..|....+ .....+
T Consensus 279 A~qFAeWI~~ihkQPcHVVYTdyRPTPLQHyifP~ggdGlylvVDek~~FrednF~~am~~l~~~~~~~~~~~~~~k~~k 358 (1041)
T KOG0948|consen 279 ARQFAEWICHIHKQPCHVVYTDYRPTPLQHYIFPAGGDGLYLVVDEKGKFREDNFQKAMSVLRKAGESDGKKKANKKGRK 358 (1041)
T ss_pred HHHHHHHHHHHhcCCceEEeecCCCCcceeeeecCCCCeeEEEEecccccchHHHHHHHHHhhccCCCcccccccccccc
Confidence 889999985 3566777778888887755532210 000000
Q ss_pred --------hHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCC------------------------------
Q 000854 363 --------YVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPS------------------------------ 404 (1252)
Q Consensus 363 --------~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~------------------------------ 404 (1252)
--.++...+..+.. ....++|||.-++++|+..|-.+.+..
T Consensus 359 G~~~~~~~~~s~i~kiVkmi~~-~~~~PVIvFSFSkkeCE~~Alqm~kldfN~deEk~~V~~iF~nAi~~LseeDr~LPq 437 (1041)
T KOG0948|consen 359 GGTGGKGPGDSDIYKIVKMIME-RNYLPVIVFSFSKKECEAYALQMSKLDFNTDEEKELVETIFNNAIDQLSEEDRELPQ 437 (1041)
T ss_pred CCcCCCCCCcccHHHHHHHHHh-hcCCceEEEEecHhHHHHHHHhhccCcCCChhHHHHHHHHHHHHHHhcChhhccchH
Confidence 00122233333332 455789999999999999987765311
Q ss_pred ---------CeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceec
Q 000854 405 ---------AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVC 474 (1252)
Q Consensus 405 ---------~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~ 474 (1252)
-.+..+||||-|--++-|.-.| .|-.|+|+||.+++.|+|.|.-++|.-. ...||.. .-.
T Consensus 438 ie~iLPLL~RGIGIHHsGLLPIlKE~IEILFqEGLvKvLFATETFsiGLNMPAkTVvFT~----~rKfDG~------~fR 507 (1041)
T KOG0948|consen 438 IENILPLLRRGIGIHHSGLLPILKEVIEILFQEGLVKVLFATETFSIGLNMPAKTVVFTA----VRKFDGK------KFR 507 (1041)
T ss_pred HHHHHHHHHhccccccccchHHHHHHHHHHHhccHHHHHHhhhhhhhccCCcceeEEEee----ccccCCc------cee
Confidence 1367799999999999998899 8999999999999999999988777632 1233332 346
Q ss_pred ccCHhhHHHHhcccCCCC---CCeEEEecChh
Q 000854 475 RVSQSSANQRAGRAGRTE---PGRCYRLYSKS 503 (1252)
Q Consensus 475 ~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~ 503 (1252)
|+|--+|+||+|||||.| .|.|+.++++.
T Consensus 508 wissGEYIQMSGRAGRRG~DdrGivIlmiDek 539 (1041)
T KOG0948|consen 508 WISSGEYIQMSGRAGRRGIDDRGIVILMIDEK 539 (1041)
T ss_pred eecccceEEecccccccCCCCCceEEEEecCc
Confidence 999999999999999997 89999999864
No 84
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=9.7e-24 Score=258.42 Aligned_cols=318 Identities=19% Similarity=0.148 Sum_probs=206.2
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
+.+..++.-...|++.|...++.++.++ |..+.||+|||+++..+++.... .+..++|+.|+++||.|.++.+...
T Consensus 92 ~rEa~~R~lg~~p~~VQ~~~~~~ll~G~---Iae~~TGeGKTla~~lp~~~~al-~G~~v~VvTptreLA~qdae~~~~l 167 (656)
T PRK12898 92 VREASGRVLGQRHFDVQLMGGLALLSGR---LAEMQTGEGKTLTATLPAGTAAL-AGLPVHVITVNDYLAERDAELMRPL 167 (656)
T ss_pred HHHHHHHHhCCCCChHHHHHHHHHhCCC---eeeeeCCCCcHHHHHHHHHHHhh-cCCeEEEEcCcHHHHHHHHHHHHHH
Confidence 3444555666789999999999999887 66899999999987777665543 3568999999999999999999987
Q ss_pred hcCCCCCceEEEecCCCc----cccCCCeEEEEChHHH-HHHH----hc-------------------C---CCCCceeE
Q 000854 234 SRGCYEDDSVICYPSFSS----AQHFDSKVIYMTDHCL-LQHF----MN-------------------D---RDLSRISC 282 (1252)
Q Consensus 234 ~~~~~~~~~vg~~~~~~~----~~~~~t~Iiv~Tpg~L-l~~L----~~-------------------~---~~L~~ls~ 282 (1252)
.... +..++......+ ....+++|+|+|..-| .+.| .. + .....+.+
T Consensus 168 ~~~l--Glsv~~i~gg~~~~~r~~~y~~dIvygT~~e~~FDyLrd~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~r~~~~ 245 (656)
T PRK12898 168 YEAL--GLTVGCVVEDQSPDERRAAYGADITYCTNKELVFDYLRDRLALGQRASDARLALESLHGRSSRSTQLLLRGLHF 245 (656)
T ss_pred Hhhc--CCEEEEEeCCCCHHHHHHHcCCCEEEECCCchhhhhccccccccccccchhhhhhhhccccCchhhhcccccce
Confidence 6432 344554332222 1224689999999755 2222 11 1 13466789
Q ss_pred EEEccccccccc-----------------hhhHHHHHHHHHhcc--------CC--------------------------
Q 000854 283 IIVDEAHERSLN-----------------TDLLLALVKDLLCRR--------FD-------------------------- 311 (1252)
Q Consensus 283 IVIDEaHER~l~-----------------~d~ll~llk~l~~~~--------~~-------------------------- 311 (1252)
.||||||--.+| .++............ .+
T Consensus 246 aIvDEvDSiLiDeartpliis~~~~~~~~~~~y~~~~~~~~~l~~~~~y~~d~~~~~v~lt~~g~~~~e~~~~~l~~~~~ 325 (656)
T PRK12898 246 AIVDEADSVLIDEARTPLIISAPAKEADEAEVYRQALELAAQLKEGEDYTIDAAEKRIELTEAGRARIAELAESLPPAWR 325 (656)
T ss_pred eEeecccceeeccCCCceEEECCCCCCchhHHHHHHHHHHHhcCCCCceEEECCCCeEEEcHHHHHHHHHHhCcchhhcc
Confidence 999999921111 111111111100000 00
Q ss_pred --------------------------------------------------------------------------------
Q 000854 312 -------------------------------------------------------------------------------- 311 (1252)
Q Consensus 312 -------------------------------------------------------------------------------- 311 (1252)
T Consensus 326 ~~~~~~~~i~~Al~A~~l~~~d~dYiV~d~~V~ivD~~TGR~~~gr~w~~GLhQaieaKE~v~i~~e~~t~a~It~q~~F 405 (656)
T PRK12898 326 GAVRREELVRQALSALHLFRRDEHYIVRDGKVVIVDEFTGRVMPDRSWEDGLHQMIEAKEGCELTDPRETLARITYQRFF 405 (656)
T ss_pred cchHHHHHHHHHHHHHHHHhcCCceEEECCeEEEEECCCCeECCCCCcChHHHHHHHHhcCCCCCcCceeeeeehHHHHH
Confidence
Q ss_pred ---CcEEeeccCCCH--HHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhc--CCCCcEE
Q 000854 312 ---LRLVIMSATADA--HQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTT--EKEGTIL 384 (1252)
Q Consensus 312 ---lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~--~~~g~iL 384 (1252)
.++-+||||... +.|.+.++ ..++.++... |..-...+. .......++...+.+.... ..+.++|
T Consensus 406 r~Y~kl~GmTGTa~~~~~El~~~y~-l~vv~IPt~k-p~~r~~~~~------~v~~t~~~K~~aL~~~i~~~~~~~~pvL 477 (656)
T PRK12898 406 RRYLRLAGMTGTAREVAGELWSVYG-LPVVRIPTNR-PSQRRHLPD------EVFLTAAAKWAAVAARVRELHAQGRPVL 477 (656)
T ss_pred HhhHHHhcccCcChHHHHHHHHHHC-CCeEEeCCCC-CccceecCC------EEEeCHHHHHHHHHHHHHHHHhcCCCEE
Confidence 255666666542 22444332 2333343221 111000000 0001112233333332222 2357899
Q ss_pred EEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCC---Cee-----EEEEcCC
Q 000854 385 AFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIP---GVK-----FVIDSGM 456 (1252)
Q Consensus 385 VFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP---~V~-----~VId~g~ 456 (1252)
|||+|+++++.+++.|.+.++.+..+||+++..++..+...+ +...|+||||+|+||+||+ +|. +||++++
T Consensus 478 Ift~t~~~se~L~~~L~~~gi~~~~Lhg~~~~rE~~ii~~ag-~~g~VlVATdmAgRGtDI~l~~~V~~~GGLhVI~~d~ 556 (656)
T PRK12898 478 VGTRSVAASERLSALLREAGLPHQVLNAKQDAEEAAIVARAG-QRGRITVATNMAGRGTDIKLEPGVAARGGLHVILTER 556 (656)
T ss_pred EEeCcHHHHHHHHHHHHHCCCCEEEeeCCcHHHHHHHHHHcC-CCCcEEEEccchhcccCcCCccchhhcCCCEEEEcCC
Confidence 999999999999999999999999999997766655554444 3346999999999999999 776 9999998
Q ss_pred CccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 457 VKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 457 pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
|... ..|.||+|||||.| +|.|+.+++.+|
T Consensus 557 P~s~------------------r~y~hr~GRTGRqG~~G~s~~~is~eD 587 (656)
T PRK12898 557 HDSA------------------RIDRQLAGRCGRQGDPGSYEAILSLED 587 (656)
T ss_pred CCCH------------------HHHHHhcccccCCCCCeEEEEEechhH
Confidence 7644 78999999999998 999999999765
No 85
>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=99.92 E-value=2.1e-23 Score=258.12 Aligned_cols=314 Identities=17% Similarity=0.131 Sum_probs=198.7
Q ss_pred HHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 156 RECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 156 ~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
++.++.-...|...|...++....+ .++.++||+|||+++..+++..... +..++|+.|++.||.|.++.+.....
T Consensus 61 Ea~~R~lglrpydVQlig~l~l~~G---~Iaem~TGeGKTLta~Lpa~l~aL~-g~~V~VVTpn~yLA~Rdae~m~~l~~ 136 (762)
T TIGR03714 61 EADKRVLGMFPYDVQVLGAIVLHQG---NIAEMKTGEGKTLTATMPLYLNALT-GKGAMLVTTNDYLAKRDAEEMGPVYE 136 (762)
T ss_pred HHHHhhcCCCccHHHHHHHHHhcCC---ceeEecCCcchHHHHHHHHHHHhhc-CCceEEeCCCHHHHHHHHHHHHHHHh
Confidence 3344444458888888877765444 3668999999998865555443333 45699999999999999999887764
Q ss_pred CCCCCceEEEecCC------C---ccccCCCeEEEEChHHH-HHHHh----c---CCCCCceeEEEEccccccccc----
Q 000854 236 GCYEDDSVICYPSF------S---SAQHFDSKVIYMTDHCL-LQHFM----N---DRDLSRISCIIVDEAHERSLN---- 294 (1252)
Q Consensus 236 ~~~~~~~vg~~~~~------~---~~~~~~t~Iiv~Tpg~L-l~~L~----~---~~~L~~ls~IVIDEaHER~l~---- 294 (1252)
.. |..++..... . .....+++|+|+||+.| .+.|. . ...+.++.++||||||..++|
T Consensus 137 ~L--GLsv~~~~~~s~~~~~~~~~rr~~y~~dIvygTp~~LgfDyLrD~l~~~~~~~~~r~l~~~IVDEaDsILiDeart 214 (762)
T TIGR03714 137 WL--GLTVSLGVVDDPDEEYDANEKRKIYNSDIVYTTNSALGFDYLIDNLASNKEGKFLRPFNYVIVDEVDSVLLDSAQT 214 (762)
T ss_pred hc--CCcEEEEECCCCccccCHHHHHHhCCCCEEEECchhhhhhHHHHHhhcchhhcccccCcEEEEecHhhHhhccCcC
Confidence 33 2334432111 1 11124689999999999 44442 1 125788999999999942121
Q ss_pred -----------hhhHHHHHHHHHhccC--------CC-------------------------------------------
Q 000854 295 -----------TDLLLALVKDLLCRRF--------DL------------------------------------------- 312 (1252)
Q Consensus 295 -----------~d~ll~llk~l~~~~~--------~l------------------------------------------- 312 (1252)
+.+.......+..+.+ +-
T Consensus 215 pliisg~~~~~~~~y~~~~~~v~~l~~~~dy~~d~~~~~v~lt~~G~~~~e~~~~~~~l~~~~~~~~~~~i~~al~A~~~ 294 (762)
T TIGR03714 215 PLVISGAPRVQSNLYHIADTFVRTLKEDVDYIFKKDKKEVWLTDKGIEKAEQYFKIDNLYSEEYFELVRHINLALRAHYL 294 (762)
T ss_pred CeeeeCCCccchHHHHHHHHHHHhcCCCCCeEEEcCCCeeeecHhHHHHHHHHcCCCccCChhhHHHHHHHHHHHHHHHH
Confidence 1111111111111111 11
Q ss_pred ------------------------------------------------------------------cEEeeccCCCH--H
Q 000854 313 ------------------------------------------------------------------RLVIMSATADA--H 324 (1252)
Q Consensus 313 ------------------------------------------------------------------qiIlmSATld~--~ 324 (1252)
++.+||.|... +
T Consensus 295 ~~~d~dYiV~~~~v~ivD~~TGr~~~gr~~~~GLhQaieaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~~~~~ 374 (762)
T TIGR03714 295 FKRNKDYVVTNGEVVLLDRITGRLLEGTKLQSGIHQAIEAKEHVELSKETRAMASITYQNLFKMFNKLSGMTGTGKVAEK 374 (762)
T ss_pred HhcCCceEEECCEEEEEECCCCcCCCCCCcchHHHHHHHhhcCCCCCCCceeeeeeeHHHHHhhCchhcccCCCChhHHH
Confidence 23333333211 1
Q ss_pred HHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCC
Q 000854 325 QLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTT--EKEGTILAFLTSKMEVEWACEKFDA 402 (1252)
Q Consensus 325 ~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~ 402 (1252)
.|.+.+ +.+++.+|.. .|+.-.-.+ ........++...+...... ..+.++||||+|++.++.++..|.+
T Consensus 375 Ef~~iY-~l~v~~IPt~-kp~~r~d~~------d~i~~~~~~K~~ai~~~i~~~~~~~~pvLIft~s~~~se~ls~~L~~ 446 (762)
T TIGR03714 375 EFIETY-SLSVVKIPTN-KPIIRIDYP------DKIYATLPEKLMATLEDVKEYHETGQPVLLITGSVEMSEIYSELLLR 446 (762)
T ss_pred HHHHHh-CCCEEEcCCC-CCeeeeeCC------CeEEECHHHHHHHHHHHHHHHhhCCCCEEEEECcHHHHHHHHHHHHH
Confidence 122111 2223333221 111110000 01111122333333332221 4678999999999999999999999
Q ss_pred CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCC---------CeeEEEEcCCCccccccCCCCcccce
Q 000854 403 PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIP---------GVKFVIDSGMVKESYFEPGTGMNVLR 472 (1252)
Q Consensus 403 ~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP---------~V~~VId~g~pk~~~ydp~~~~~~L~ 472 (1252)
.++.+..+||.+.+.++..+...+ +| +|+||||+|+||+||| ++.+|++++.|...
T Consensus 447 ~gi~~~~L~a~~~~~E~~ii~~ag~~g--~VlIATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r------------ 512 (762)
T TIGR03714 447 EGIPHNLLNAQNAAKEAQIIAEAGQKG--AVTVATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSR------------ 512 (762)
T ss_pred CCCCEEEecCCChHHHHHHHHHcCCCC--eEEEEccccccccCCCCCccccccCCeEEEEecCCCCcH------------
Confidence 999999999999999988887777 55 7999999999999999 99999998876543
Q ss_pred ecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 473 VCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 473 ~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
.+ .||+|||||.| +|.++.+++.+|
T Consensus 513 ------id-~qr~GRtGRqG~~G~s~~~is~eD 538 (762)
T TIGR03714 513 ------VD-LQLRGRSGRQGDPGSSQFFVSLED 538 (762)
T ss_pred ------HH-HHhhhcccCCCCceeEEEEEccch
Confidence 33 89999999998 999999998764
No 86
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.92 E-value=4.3e-24 Score=266.46 Aligned_cols=317 Identities=18% Similarity=0.132 Sum_probs=204.4
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
+.++.++.-...|...|...++....++ +..+.||+|||+++..+++.... .+..+.++.|+++||.|.++.+...
T Consensus 67 vrea~~R~~g~~p~~vQl~~~~~l~~G~---Iaem~TGeGKTL~a~lp~~l~al-~G~~v~VvTpt~~LA~qd~e~~~~l 142 (790)
T PRK09200 67 VREAAKRVLGMRPYDVQLIGALVLHEGN---IAEMQTGEGKTLTATMPLYLNAL-EGKGVHLITVNDYLAKRDAEEMGQV 142 (790)
T ss_pred HHHHHHHHhCCCCchHHHHhHHHHcCCc---eeeecCCCcchHHHHHHHHHHHH-cCCCeEEEeCCHHHHHHHHHHHHHH
Confidence 3344555555699999999988766554 66899999999886666553332 3668999999999999999999888
Q ss_pred hcCCCCCceEEEecCCCc-----cccCCCeEEEEChHHH-HHHHhc----C---CCCCceeEEEEccccccccc------
Q 000854 234 SRGCYEDDSVICYPSFSS-----AQHFDSKVIYMTDHCL-LQHFMN----D---RDLSRISCIIVDEAHERSLN------ 294 (1252)
Q Consensus 234 ~~~~~~~~~vg~~~~~~~-----~~~~~t~Iiv~Tpg~L-l~~L~~----~---~~L~~ls~IVIDEaHER~l~------ 294 (1252)
.... |..++....... ....+++|+|+||+.| .+.|.. . ..+..+.++||||||...+|
T Consensus 143 ~~~l--Gl~v~~i~g~~~~~~~r~~~y~~dIvygT~~~l~fDyLrd~~~~~~~~~~~r~~~~~IvDEaDsiLiDea~tpl 220 (790)
T PRK09200 143 YEFL--GLTVGLNFSDIDDASEKKAIYEADIIYTTNSELGFDYLRDNLADSKEDKVQRPLNYAIIDEIDSILLDEAQTPL 220 (790)
T ss_pred Hhhc--CCeEEEEeCCCCcHHHHHHhcCCCEEEECCccccchhHHhccccchhhhcccccceEEEeccccceeccCCCce
Confidence 7443 345555333222 1224589999999988 333322 1 25688999999999932222
Q ss_pred ---------hhhHHHHHHHHHhcc--------CCCcEEeec---------------------------------------
Q 000854 295 ---------TDLLLALVKDLLCRR--------FDLRLVIMS--------------------------------------- 318 (1252)
Q Consensus 295 ---------~d~ll~llk~l~~~~--------~~lqiIlmS--------------------------------------- 318 (1252)
..+.....+.+.... .+.+.+.+|
T Consensus 221 iisg~~~~~~~~y~~~~~~~~~l~~~~dy~~d~~~~~~~lt~~g~~~~e~~~~i~~l~~~~~~~~~~~i~~Al~A~~~~~ 300 (790)
T PRK09200 221 IISGKPRVQSNLYHIAAKFVKTLEEDVDYEFDEEKKEVWLTDQGIEKAESYFGIDNLYSLEHQVLYRHIILALRAHVLFK 300 (790)
T ss_pred eeeCCCccccHHHHHHHHHHHhcccCCCeEEecCCCeEEecHhHHHHHHHhcCCccccChhhhHHHHHHHHHHHHHHHhh
Confidence 011111111111111 112223222
Q ss_pred ----------------------------------------------------------------------cCCCH--HHH
Q 000854 319 ----------------------------------------------------------------------ATADA--HQL 326 (1252)
Q Consensus 319 ----------------------------------------------------------------------ATld~--~~l 326 (1252)
.|... +.|
T Consensus 301 ~d~dYiV~~~~v~ivD~~TGr~~~gr~~s~GlhQaieaKe~v~i~~e~~t~a~It~q~~fr~Y~kl~GmTGTa~t~~~e~ 380 (790)
T PRK09200 301 RDVDYIVYDGEIVLVDRFTGRVLPGRKLQDGLHQAIEAKEGVEITEENRTMASITIQNLFRMFPKLSGMTGTAKTEEKEF 380 (790)
T ss_pred cCCcEEEECCEEEEEECCCCcCCCCCccChHHHHHHHHhcCCCcCCCceehhhhhHHHHHHHhHHHhccCCCChHHHHHH
Confidence 22110 001
Q ss_pred HhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCCCC
Q 000854 327 SKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTT--EKEGTILAFLTSKMEVEWACEKFDAPS 404 (1252)
Q Consensus 327 ~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~~~ 404 (1252)
.+.+ +.+++.+|.. .|+.-.-. .........++...+...... ..+.++||||+|++.++.+++.|.+.+
T Consensus 381 ~~~Y-~l~v~~IPt~-kp~~r~d~------~~~i~~~~~~K~~al~~~i~~~~~~~~pvLIf~~t~~~se~l~~~L~~~g 452 (790)
T PRK09200 381 FEVY-NMEVVQIPTN-RPIIRIDY------PDKVFVTLDEKYKAVIEEVKERHETGRPVLIGTGSIEQSETFSKLLDEAG 452 (790)
T ss_pred HHHh-CCcEEECCCC-CCcccccC------CCeEEcCHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCC
Confidence 1110 1122222211 01100000 001111123333333332222 457899999999999999999999999
Q ss_pred CeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCC---CCee-----EEEEcCCCccccccCCCCcccceecc
Q 000854 405 AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTI---PGVK-----FVIDSGMVKESYFEPGTGMNVLRVCR 475 (1252)
Q Consensus 405 ~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDI---P~V~-----~VId~g~pk~~~ydp~~~~~~L~~~~ 475 (1252)
+.+..+||.+.+.++..+...+ +| +|+||||+|+||+|| |+|. +||++++|...
T Consensus 453 i~~~~L~~~~~~~e~~~i~~ag~~g--~VlIATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~--------------- 515 (790)
T PRK09200 453 IPHNLLNAKNAAKEAQIIAEAGQKG--AVTVATNMAGRGTDIKLGEGVHELGGLAVIGTERMESR--------------- 515 (790)
T ss_pred CCEEEecCCccHHHHHHHHHcCCCC--eEEEEccchhcCcCCCcccccccccCcEEEeccCCCCH---------------
Confidence 9999999999998888777776 55 799999999999999 7999 99999987644
Q ss_pred cCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 476 VSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 476 iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
..|.||+|||||.| +|.++.+++.+|
T Consensus 516 ---r~y~qr~GRtGR~G~~G~s~~~is~eD 542 (790)
T PRK09200 516 ---RVDLQLRGRSGRQGDPGSSQFFISLED 542 (790)
T ss_pred ---HHHHHhhccccCCCCCeeEEEEEcchH
Confidence 88999999999998 999999998765
No 87
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.91 E-value=3.1e-24 Score=227.41 Aligned_cols=292 Identities=16% Similarity=0.194 Sum_probs=206.3
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc--cCCeEEecCcHHHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA--AEQSIVCTQPRKIAAISLA 227 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~--~~~~ILv~qPrR~LA~qva 227 (1252)
+.+++++++-.-|+.-|...|++.|++++.+-+++. +|..|-|||..+...-+..... ....++|+..||+||-|+.
T Consensus 49 lkpellraivdcgfehpsevqhecipqailgmdvlc-qaksgmgktavfvl~tlqqiepv~g~vsvlvmchtrelafqi~ 127 (387)
T KOG0329|consen 49 LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLC-QAKSGMGKTAVFVLATLQQIEPVDGQVSVLVMCHTRELAFQIS 127 (387)
T ss_pred cCHHHHHHHHhccCCCchHhhhhhhhHHhhcchhhe-ecccCCCceeeeehhhhhhcCCCCCeEEEEEEeccHHHHHHHH
Confidence 678899999999999999999999999999998877 8999999997765555543222 2336889999999999998
Q ss_pred HHHHHHhcCCCCCceEEEecCCC-----ccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHH
Q 000854 228 QRVREESRGCYEDDSVICYPSFS-----SAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLAL 301 (1252)
Q Consensus 228 ~rv~~~~~~~~~~~~vg~~~~~~-----~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~l 301 (1252)
+................++++.. ......++|+|+|||+++....+.. .++++++.|+||++...-..|....+
T Consensus 128 ~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk~vkhFvlDEcdkmle~lDMrRDv 207 (387)
T KOG0329|consen 128 KEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLKNVKHFVLDECDKMLEQLDMRRDV 207 (387)
T ss_pred HHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhcceeehhhHHHHHHHHHHHHHH
Confidence 76655443222222222222211 1122368999999999999887776 89999999999999544446777777
Q ss_pred HHHHHhccCCCcEEeeccCCCHH--HHHhhhhcCCeEEEecccceeEEEEecCCCC-CCccccchH----HHHHHHHHHh
Q 000854 302 VKDLLCRRFDLRLVIMSATADAH--QLSKYFYDCGISHVVGRNFPVDVRYVPCATA-GTSAVASYV----SDVVRMVGEV 374 (1252)
Q Consensus 302 lk~l~~~~~~lqiIlmSATld~~--~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s-~~~~~~~~~----~~~~~~l~~i 374 (1252)
..+....+.+-|++.+|||++.+ ...+-|.. .|.+++......- -.+....|+ .++-+.+..+
T Consensus 208 QEifr~tp~~KQvmmfsatlskeiRpvC~kFmQ----------dPmEi~vDdE~KLtLHGLqQ~YvkLke~eKNrkl~dL 277 (387)
T KOG0329|consen 208 QEIFRMTPHEKQVMMFSATLSKEIRPVCHKFMQ----------DPMEIFVDDEAKLTLHGLQQYYVKLKENEKNRKLNDL 277 (387)
T ss_pred HHHhhcCcccceeeeeeeecchhhHHHHHhhhc----------CchhhhccchhhhhhhhHHHHHHhhhhhhhhhhhhhh
Confidence 77777788899999999998754 23333332 2333332221110 000000111 1222333344
Q ss_pred hhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCCCeeEEEEc
Q 000854 375 HTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIPGVKFVIDS 454 (1252)
Q Consensus 375 ~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP~V~~VId~ 454 (1252)
+....-.+++||+.+...+ + | .++ +|||++++||+||..|+.|+||
T Consensus 278 Ld~LeFNQVvIFvKsv~Rl---------------------~----------f-~kr--~vat~lfgrgmdiervNi~~NY 323 (387)
T KOG0329|consen 278 LDVLEFNQVVIFVKSVQRL---------------------S----------F-QKR--LVATDLFGRGMDIERVNIVFNY 323 (387)
T ss_pred hhhhhhcceeEeeehhhhh---------------------h----------h-hhh--hHHhhhhccccCcccceeeecc
Confidence 4444567899999886551 0 2 123 8999999999999999999999
Q ss_pred CCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 455 GMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 455 g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
|+|... .+|.||.|||||.| .|.++.+.+.+.
T Consensus 324 dmp~~~------------------DtYlHrv~rAgrfGtkglaitfvs~e~ 356 (387)
T KOG0329|consen 324 DMPEDS------------------DTYLHRVARAGRFGTKGLAITFVSDEN 356 (387)
T ss_pred CCCCCc------------------hHHHHHhhhhhccccccceeehhcchh
Confidence 998866 88999999999998 999999988654
No 88
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=99.91 E-value=1.9e-23 Score=252.11 Aligned_cols=319 Identities=15% Similarity=0.148 Sum_probs=221.3
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
.-....|++.+..+..++.|+|.|+|.+|||..+-..+. ......++.++|.|-++|..|-.+.+++.++.. |
T Consensus 296 FelD~FQk~Ai~~lerg~SVFVAAHTSAGKTvVAEYAia-laq~h~TR~iYTSPIKALSNQKfRDFk~tF~Dv------g 368 (1248)
T KOG0947|consen 296 FELDTFQKEAIYHLERGDSVFVAAHTSAGKTVVAEYAIA-LAQKHMTRTIYTSPIKALSNQKFRDFKETFGDV------G 368 (1248)
T ss_pred CCccHHHHHHHHHHHcCCeEEEEecCCCCcchHHHHHHH-HHHhhccceEecchhhhhccchHHHHHHhcccc------c
Confidence 334455666666777777888899999999986543332 223456799999999999999999999877432 2
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC-CC
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT-AD 322 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT-ld 322 (1252)
-...+.+..+.+.+++||+++|..+|-+.. .++++.+||+|||| ..-|.+-..-....+...++.+++|++||| +|
T Consensus 369 -LlTGDvqinPeAsCLIMTTEILRsMLYrgadliRDvE~VIFDEVH-YiND~eRGvVWEEViIMlP~HV~~IlLSATVPN 446 (1248)
T KOG0947|consen 369 -LLTGDVQINPEASCLIMTTEILRSMLYRGADLIRDVEFVIFDEVH-YINDVERGVVWEEVIIMLPRHVNFILLSATVPN 446 (1248)
T ss_pred -eeecceeeCCCcceEeehHHHHHHHHhcccchhhccceEEEeeee-ecccccccccceeeeeeccccceEEEEeccCCC
Confidence 123445566788999999999999997776 78899999999999 222222222223344557889999999999 56
Q ss_pred HHHHHhhhhc---CCeEEEeccccee--EEEEecCCC-------C--------------C--------------------
Q 000854 323 AHQLSKYFYD---CGISHVVGRNFPV--DVRYVPCAT-------A--------------G-------------------- 356 (1252)
Q Consensus 323 ~~~l~~~f~~---~~vi~i~gr~~pV--~i~y~~~~~-------s--------------~-------------------- 356 (1252)
...|++|.+. ..+..+....+|| ++++..... . .
T Consensus 447 ~~EFA~WIGRtK~K~IyViST~kRPVPLEh~l~t~~~l~kiidq~g~fl~~~~~~a~~~~~~~ak~~~~~~~~~~~~rgs 526 (1248)
T KOG0947|consen 447 TLEFADWIGRTKQKTIYVISTSKRPVPLEHYLYTKKSLFKIIDQNGIFLLKGIKDAKDSLKKEAKFVDVEKSDARGGRGS 526 (1248)
T ss_pred hHHHHHHhhhccCceEEEEecCCCccceEEEEEeccceehhhcccchhhhhcchhhhhhhcccccccccccccccccccc
Confidence 8889999974 2333333334444 433221100 0 0
Q ss_pred ----------Cc------cccchH--HHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCC---------------
Q 000854 357 ----------TS------AVASYV--SDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAP--------------- 403 (1252)
Q Consensus 357 ----------~~------~~~~~~--~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~--------------- 403 (1252)
.+ .....- .....++.++. ...--+++|||-+++.|++.++.|...
T Consensus 527 ~~~ggk~~~~~g~~r~~~~~~nrr~~~~~l~lin~L~-k~~lLP~VvFvFSkkrCde~a~~L~~~nL~~~~EKseV~lfl 605 (1248)
T KOG0947|consen 527 QKRGGKTNYHNGGSRGSGIGKNRRKQPTWLDLINHLR-KKNLLPVVVFVFSKKRCDEYADYLTNLNLTDSKEKSEVHLFL 605 (1248)
T ss_pred cccCCcCCCCCCCcccccccccccccchHHHHHHHHh-hcccCceEEEEEccccHHHHHHHHhccCcccchhHHHHHHHH
Confidence 00 000000 11333444433 345579999999999999999887531
Q ss_pred ------------------------CCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCc
Q 000854 404 ------------------------SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVK 458 (1252)
Q Consensus 404 ------------------------~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk 458 (1252)
.-.+..+|||+-|--+.-|+..| .|-.|||+||-++++|||.|.-.+|+++ +.|
T Consensus 606 ~k~~~rLk~~DR~LPQvl~m~~ll~RGiaVHH~GlLPivKE~VE~LFqrGlVKVLFATETFAMGVNMPARtvVF~S-l~K 684 (1248)
T KOG0947|consen 606 SKAVARLKGEDRNLPQVLSMRSLLLRGIAVHHGGLLPIVKEVVELLFQRGLVKVLFATETFAMGVNMPARTVVFSS-LRK 684 (1248)
T ss_pred HHHHHhcChhhccchHHHHHHHHHhhcchhhcccchHHHHHHHHHHHhcCceEEEeehhhhhhhcCCCceeEEeee-hhh
Confidence 01367899999999999999999 8999999999999999999998888875 322
Q ss_pred cccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChh
Q 000854 459 ESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKS 503 (1252)
Q Consensus 459 ~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~ 503 (1252)
.|... -......+|.||+|||||.| .|+.+.+....
T Consensus 685 ---hDG~e------fR~L~PGEytQMAGRAGRRGlD~tGTVii~~~~~ 723 (1248)
T KOG0947|consen 685 ---HDGNE------FRELLPGEYTQMAGRAGRRGLDETGTVIIMCKDS 723 (1248)
T ss_pred ---ccCcc------eeecCChhHHhhhccccccccCcCceEEEEecCC
Confidence 11111 12335589999999999997 88888877643
No 89
>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=99.91 E-value=8.8e-23 Score=252.59 Aligned_cols=304 Identities=16% Similarity=0.126 Sum_probs=190.9
Q ss_pred HHHHHHHHHHHhcC--CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE
Q 000854 168 YMYRQDILRRIYGE--QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC 245 (1252)
Q Consensus 168 ~~qq~~I~~al~~~--~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~ 245 (1252)
+-|++++-.++.++ +..+|++|||+|||.+....+... ..++||++|+.+|+.|..+++.+... ... ..++.
T Consensus 258 pYQ~eAl~~~~~~gr~r~GIIvLPtGaGKTlvai~aa~~l----~k~tLILvps~~Lv~QW~~ef~~~~~-l~~-~~I~~ 331 (732)
T TIGR00603 258 PYQEKSLSKMFGNGRARSGIIVLPCGAGKSLVGVTAACTV----KKSCLVLCTSAVSVEQWKQQFKMWST-IDD-SQICR 331 (732)
T ss_pred HHHHHHHHHHHhcCCCCCcEEEeCCCCChHHHHHHHHHHh----CCCEEEEeCcHHHHHHHHHHHHHhcC-CCC-ceEEE
Confidence 34555555555433 355667999999998876555433 35789999999999999999988642 111 22333
Q ss_pred ecCCC-ccccCCCeEEEEChHHHHHHHhcC-------CCC--CceeEEEEccccccccchhhHHHHHHHHHhccCCCcEE
Q 000854 246 YPSFS-SAQHFDSKVIYMTDHCLLQHFMND-------RDL--SRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLV 315 (1252)
Q Consensus 246 ~~~~~-~~~~~~t~Iiv~Tpg~Ll~~L~~~-------~~L--~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiI 315 (1252)
+.... ........|+|+|..++.....+. ..+ ..+++||+|||| +.....+ ..++.. ......+
T Consensus 332 ~tg~~k~~~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEvH-~lpA~~f-r~il~~----l~a~~RL 405 (732)
T TIGR00603 332 FTSDAKERFHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEVH-VVPAAMF-RRVLTI----VQAHCKL 405 (732)
T ss_pred EecCcccccccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEccc-cccHHHH-HHHHHh----cCcCcEE
Confidence 22221 111224689999999875322111 112 467899999999 5543222 222222 2344679
Q ss_pred eeccCCCH-----HHHHhhhhcCCeEEEe-------cccceeEEEEecCCCCC-------------CccccchHHHHHHH
Q 000854 316 IMSATADA-----HQLSKYFYDCGISHVV-------GRNFPVDVRYVPCATAG-------------TSAVASYVSDVVRM 370 (1252)
Q Consensus 316 lmSATld~-----~~l~~~f~~~~vi~i~-------gr~~pV~i~y~~~~~s~-------------~~~~~~~~~~~~~~ 370 (1252)
++|||+.. ..+..++ ++.++... |..-|+...-...+... ..........+...
T Consensus 406 GLTATP~ReD~~~~~L~~Li-GP~vye~~~~eLi~~G~LA~~~~~ev~v~~t~~~~~~yl~~~~~~k~~l~~~np~K~~~ 484 (732)
T TIGR00603 406 GLTATLVREDDKITDLNFLI-GPKLYEANWMELQKKGFIANVQCAEVWCPMTPEFYREYLRENSRKRMLLYVMNPNKFRA 484 (732)
T ss_pred EEeecCcccCCchhhhhhhc-CCeeeecCHHHHHhCCccccceEEEEEecCCHHHHHHHHHhcchhhhHHhhhChHHHHH
Confidence 99999631 1232233 33333321 22223222111111100 00000000122333
Q ss_pred HHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-C-CceEEEEechhhhhcCCCC
Q 000854 371 VGEVHTT--EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-P-GRRKVIFATNVAETSLTIP 446 (1252)
Q Consensus 371 l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~-G~~kVLVATniae~GIDIP 446 (1252)
+..+... ..+.++||||.....++.+++.|. +..+||++++.+|.++++.| . +..++||+|+++.+|||+|
T Consensus 485 ~~~Li~~he~~g~kiLVF~~~~~~l~~~a~~L~-----~~~I~G~ts~~ER~~il~~Fr~~~~i~vLv~SkVgdeGIDlP 559 (732)
T TIGR00603 485 CQFLIRFHEQRGDKIIVFSDNVFALKEYAIKLG-----KPFIYGPTSQQERMQILQNFQHNPKVNTIFLSKVGDTSIDLP 559 (732)
T ss_pred HHHHHHHHhhcCCeEEEEeCCHHHHHHHHHHcC-----CceEECCCCHHHHHHHHHHHHhCCCccEEEEecccccccCCC
Confidence 3333332 367899999999999999999884 34589999999999999999 5 4789999999999999999
Q ss_pred CeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCC-CeE-------EEecChhhhc
Q 000854 447 GVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEP-GRC-------YRLYSKSDFE 506 (1252)
Q Consensus 447 ~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~-G~c-------~~Lyt~~d~~ 506 (1252)
++++||+.+.| +-|+.+|+||+||++|.++ |.+ |.|++++..+
T Consensus 560 ~a~vvI~~s~~-----------------~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E 610 (732)
T TIGR00603 560 EANVLIQISSH-----------------YGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQE 610 (732)
T ss_pred CCCEEEEeCCC-----------------CCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchH
Confidence 99999987543 1266899999999999974 333 8888876543
No 90
>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=5.2e-23 Score=253.14 Aligned_cols=319 Identities=19% Similarity=0.124 Sum_probs=204.2
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
+.++.++.-...|...|....+....+. +..++||+|||+++..+++-.... +..+.++.|+++||.|.++.+...
T Consensus 45 vrEa~~R~lg~~p~~vQlig~~~l~~G~---Iaem~TGeGKTLva~lpa~l~aL~-G~~V~VvTpt~~LA~qdae~~~~l 120 (745)
T TIGR00963 45 VREASKRVLGMRPFDVQLIGGIALHKGK---IAEMKTGEGKTLTATLPAYLNALT-GKGVHVVTVNDYLAQRDAEWMGQV 120 (745)
T ss_pred HHHHHHHHhCCCccchHHhhhhhhcCCc---eeeecCCCccHHHHHHHHHHHHHh-CCCEEEEcCCHHHHHHHHHHHHHH
Confidence 3445555556789999998888765554 558999999998865555322222 457999999999999999999988
Q ss_pred hcCCCCCceEEEecCCCc----cccCCCeEEEEChHHH-HHHHhcC-------CCCCceeEEEEccccccccch------
Q 000854 234 SRGCYEDDSVICYPSFSS----AQHFDSKVIYMTDHCL-LQHFMND-------RDLSRISCIIVDEAHERSLNT------ 295 (1252)
Q Consensus 234 ~~~~~~~~~vg~~~~~~~----~~~~~t~Iiv~Tpg~L-l~~L~~~-------~~L~~ls~IVIDEaHER~l~~------ 295 (1252)
.... +..++......+ .....++|+|+||+.| ++.|... ..++++.++||||||.-.+|.
T Consensus 121 ~~~L--GLsv~~i~g~~~~~~r~~~y~~dIvyGT~~rlgfDyLrd~~~~~~~~~~~r~l~~aIIDEaDs~LIDeaRtpLi 198 (745)
T TIGR00963 121 YRFL--GLSVGLILSGMSPEERREAYACDITYGTNNELGFDYLRDNMAHSKEEKVQRPFHFAIIDEVDSILIDEARTPLI 198 (745)
T ss_pred hccC--CCeEEEEeCCCCHHHHHHhcCCCEEEECCCchhhHHHhcccccchhhhhccccceeEeecHHHHhHHhhhhHHh
Confidence 7443 345554332211 1223579999999999 7777554 267889999999999322211
Q ss_pred ---------hhHHHHHHHHHhcc--------CCC----------------------------------------------
Q 000854 296 ---------DLLLALVKDLLCRR--------FDL---------------------------------------------- 312 (1252)
Q Consensus 296 ---------d~ll~llk~l~~~~--------~~l---------------------------------------------- 312 (1252)
............+. .+-
T Consensus 199 isg~~~~~~~ly~~a~~i~r~L~~~~dy~~de~~k~v~Lt~~G~~~~e~~~~~~~ly~~~~~~~~~~i~~Al~A~~l~~~ 278 (745)
T TIGR00963 199 ISGPAEKSTELYLQANRFAKALEKEVHYEVDEKNRAVLLTEKGIKKAEDLLGVDNLYDLENSPLIHYINNALKAKELFEK 278 (745)
T ss_pred hcCCCCCchHHHHHHHHHHHhhccCCCeEEecCCCceeECHHHHHHHHHHcCCccccChhhhHHHHHHHHHHHHHHHHhc
Confidence 01111111110000 011
Q ss_pred ---------------------------------------------------------------cEEeeccCCCH--HHHH
Q 000854 313 ---------------------------------------------------------------RLVIMSATADA--HQLS 327 (1252)
Q Consensus 313 ---------------------------------------------------------------qiIlmSATld~--~~l~ 327 (1252)
++.+||.|... +.|.
T Consensus 279 d~dYiV~d~~V~ivD~~TGR~~~gr~ws~GLhQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~ 358 (745)
T TIGR00963 279 DVDYIVRDGEVVIVDEFTGRIMEGRRWSDGLHQAIEAKEGVEIQNENQTLATITYQNFFRLYEKLSGMTGTAKTEEEEFE 358 (745)
T ss_pred CCcEEEECCEEEEEECCCCcCCCCCccchHHHHHHHHhcCCCcCCCceeeeeeeHHHHHhhCchhhccCCCcHHHHHHHH
Confidence 22222222211 1111
Q ss_pred hhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCee
Q 000854 328 KYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVA 407 (1252)
Q Consensus 328 ~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v 407 (1252)
+.+ +.+++.+|.. .|+.-.-.+... ..........++..+.+.+ ..+.++||||+++..++.++..|.+.++..
T Consensus 359 ~iY-~l~vv~IPtn-kp~~R~d~~d~i--~~t~~~k~~ai~~~i~~~~--~~grpvLV~t~si~~se~ls~~L~~~gi~~ 432 (745)
T TIGR00963 359 KIY-NLEVVVVPTN-RPVIRKDLSDLV--YKTEEEKWKAVVDEIKERH--AKGQPVLVGTTSVEKSELLSNLLKERGIPH 432 (745)
T ss_pred HHh-CCCEEEeCCC-CCeeeeeCCCeE--EcCHHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHcCCCe
Confidence 111 1222222211 111100000000 0000111122223232333 568899999999999999999999999999
Q ss_pred EeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCC-------eeEEEEcCCCccccccCCCCcccceecccCHh
Q 000854 408 LPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPG-------VKFVIDSGMVKESYFEPGTGMNVLRVCRVSQS 479 (1252)
Q Consensus 408 ~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~-------V~~VId~g~pk~~~ydp~~~~~~L~~~~iSka 479 (1252)
..+||. +.+|...+..| .+...|+||||+|+||+||+. ..+||++++|. |+.
T Consensus 433 ~~Lna~--q~~rEa~ii~~ag~~g~VtIATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~------------------s~r 492 (745)
T TIGR00963 433 NVLNAK--NHEREAEIIAQAGRKGAVTIATNMAGRGTDIKLEEVKELGGLYVIGTERHE------------------SRR 492 (745)
T ss_pred EEeeCC--hHHHHHHHHHhcCCCceEEEEeccccCCcCCCccchhhcCCcEEEecCCCC------------------cHH
Confidence 999999 77888888888 677899999999999999998 55999998865 458
Q ss_pred hHHHHhcccCCCC-CCeEEEecChhh
Q 000854 480 SANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 480 sy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
.|.||+|||||.| ||.+..+++.+|
T Consensus 493 i~~q~~GRtGRqG~~G~s~~~ls~eD 518 (745)
T TIGR00963 493 IDNQLRGRSGRQGDPGSSRFFLSLED 518 (745)
T ss_pred HHHHHhccccCCCCCcceEEEEeccH
Confidence 8999999999998 999999998875
No 91
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=99.90 E-value=1.3e-22 Score=254.98 Aligned_cols=327 Identities=17% Similarity=0.161 Sum_probs=230.4
Q ss_pred HHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC
Q 000854 159 KRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCY 238 (1252)
Q Consensus 159 ~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~ 238 (1252)
...++.++. .|++.+.+|..++.|+|+||||||||...--++.. ....++++++|.|.++|..|.+..+....+..
T Consensus 114 ~~~~F~LD~--fQ~~a~~~Ler~esVlV~ApTssGKTvVaeyAi~~-al~~~qrviYTsPIKALsNQKyrdl~~~fgdv- 189 (1041)
T COG4581 114 REYPFELDP--FQQEAIAILERGESVLVCAPTSSGKTVVAEYAIAL-ALRDGQRVIYTSPIKALSNQKYRDLLAKFGDV- 189 (1041)
T ss_pred HhCCCCcCH--HHHHHHHHHhCCCcEEEEccCCCCcchHHHHHHHH-HHHcCCceEeccchhhhhhhHHHHHHHHhhhh-
Confidence 334555544 55666677888888888999999999764433332 23446679999999999999999999887533
Q ss_pred CCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 239 EDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 239 ~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
...+|.. ..+-...+++.++++|+++|.+++..+. .+.++..||+||+| .+-+.+-.......+...+..+++|+|
T Consensus 190 -~~~vGL~-TGDv~IN~~A~clvMTTEILRnMlyrg~~~~~~i~~ViFDEvH-yi~D~eRG~VWEE~Ii~lP~~v~~v~L 266 (1041)
T COG4581 190 -ADMVGLM-TGDVSINPDAPCLVMTTEILRNMLYRGSESLRDIEWVVFDEVH-YIGDRERGVVWEEVIILLPDHVRFVFL 266 (1041)
T ss_pred -hhhccce-ecceeeCCCCceEEeeHHHHHHHhccCcccccccceEEEEeee-eccccccchhHHHHHHhcCCCCcEEEE
Confidence 2223432 2334455789999999999999998775 89999999999999 444444444445555667888999999
Q ss_pred ccC-CCHHHHHhhhh-----cCCeEEEecccceeEEEEecCCC-----C-CCc-cccchHHH------------------
Q 000854 318 SAT-ADAHQLSKYFY-----DCGISHVVGRNFPVDVRYVPCAT-----A-GTS-AVASYVSD------------------ 366 (1252)
Q Consensus 318 SAT-ld~~~l~~~f~-----~~~vi~i~gr~~pV~i~y~~~~~-----s-~~~-~~~~~~~~------------------ 366 (1252)
||| .|++.|+.|+. ++.++....|..|...++.+... . ... ....+...
T Consensus 267 SATv~N~~EF~~Wi~~~~~~~~~vv~t~~RpvPL~~~~~~~~~l~~lvde~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~ 346 (1041)
T COG4581 267 SATVPNAEEFAEWIQRVHSQPIHVVSTEHRPVPLEHFVYVGKGLFDLVDEKKKFNAENFPSANRSLSCFSEKVRETDDGD 346 (1041)
T ss_pred eCCCCCHHHHHHHHHhccCCCeEEEeecCCCCCeEEEEecCCceeeeecccccchhhcchhhhhhhhccchhccccCccc
Confidence 999 57999999997 23345555666677766655421 0 000 00000000
Q ss_pred --------------------HHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC------------------------
Q 000854 367 --------------------VVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA------------------------ 402 (1252)
Q Consensus 367 --------------------~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~------------------------ 402 (1252)
....+..+ .....-++|+|+-++..|+..+..+..
T Consensus 347 ~~~~a~~~~~~~~~~~~~~~~~~iv~~l-~~~~~lP~I~F~FSr~~Ce~~a~~~~~ldl~~~~~~e~~i~~ii~~~i~~L 425 (1041)
T COG4581 347 VGRYARRTKALRGSAKGPAGRPEIVNKL-DKDNLLPAIVFSFSRRGCEEAAQILSTLDLVLTEEKERAIREIIDHAIGDL 425 (1041)
T ss_pred cccccccccccCCcccccccchHHHhhh-hhhcCCceEEEEEchhhHHHHHHHhcccccccCCcHHHHHHHHHHHHHhhc
Confidence 01111111 123456899999999999988766541
Q ss_pred ----CCC-------------eeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccC
Q 000854 403 ----PSA-------------VALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEP 464 (1252)
Q Consensus 403 ----~~~-------------~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp 464 (1252)
.++ .+..+|++|=|..+..+...| .|-+||++||.+++.|+|.|.-++|+ +++.|- |
T Consensus 426 ~~ed~~lp~~~~~~~~~L~RGiavHH~GlLP~~K~~vE~Lfq~GLvkvvFaTeT~s~GiNmPartvv~-~~l~K~---d- 500 (1041)
T COG4581 426 AEEDRELPLQILEISALLLRGIAVHHAGLLPAIKELVEELFQEGLVKVVFATETFAIGINMPARTVVF-TSLSKF---D- 500 (1041)
T ss_pred ChhhhcCcccHHHHHHHHhhhhhhhccccchHHHHHHHHHHhccceeEEeehhhhhhhcCCcccceee-eeeEEe---c-
Confidence 111 245799999999999999999 89999999999999999999655555 555442 2
Q ss_pred CCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChh
Q 000854 465 GTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKS 503 (1252)
Q Consensus 465 ~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~ 503 (1252)
.-.-.|+|..+|.|++|||||.| .|..+...++.
T Consensus 501 -----G~~~r~L~~gEy~QmsGRAGRRGlD~~G~vI~~~~~~ 537 (1041)
T COG4581 501 -----GNGHRWLSPGEYTQMSGRAGRRGLDVLGTVIVIEPPF 537 (1041)
T ss_pred -----CCceeecChhHHHHhhhhhccccccccceEEEecCCC
Confidence 12235789999999999999997 89998886554
No 92
>PRK09694 helicase Cas3; Provisional
Probab=99.90 E-value=2.5e-22 Score=254.76 Aligned_cols=302 Identities=16% Similarity=0.167 Sum_probs=180.5
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce
Q 000854 164 GLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS 242 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~ 242 (1252)
..|.+.|+.. .....+...++|.||||+|||.+...+.... ..+...++++..||++.+.++++|+.+..........
T Consensus 285 ~~p~p~Q~~~-~~~~~~pgl~ileApTGsGKTEAAL~~A~~l~~~~~~~gi~~aLPT~Atan~m~~Rl~~~~~~~f~~~~ 363 (878)
T PRK09694 285 YQPRQLQTLV-DALPLQPGLTIIEAPTGSGKTEAALAYAWRLIDQGLADSIIFALPTQATANAMLSRLEALASKLFPSPN 363 (878)
T ss_pred CCChHHHHHH-HhhccCCCeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCeEEEECcHHHHHHHHHHHHHHHHHHhcCCCc
Confidence 3566666644 3333456788999999999998865554331 1223458999999999999999999864321111111
Q ss_pred EEEecCC---------------C------------------ccccCCCeEEEEChHHHHHHHhcCC--CCCce----eEE
Q 000854 243 VICYPSF---------------S------------------SAQHFDSKVIYMTDHCLLQHFMNDR--DLSRI----SCI 283 (1252)
Q Consensus 243 vg~~~~~---------------~------------------~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~l----s~I 283 (1252)
++..... . .+..--.+|+|+|...++......+ .+..+ ++|
T Consensus 364 v~L~Hg~a~l~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~kr~llapi~V~TiDQlL~a~l~~kh~~lR~~~La~svv 443 (878)
T PRK09694 364 LILAHGNSRFNHLFQSLKSRAATEQGQEEAWVQCCEWLSQSNKRVFLGQIGVCTIDQVLISVLPVKHRFIRGFGLGRSVL 443 (878)
T ss_pred eEeecCcchhhhhhhhhhcccccccccchhhhHHHHHHhhhhhhhhcCCEEEcCHHHHHHHHHccchHHHHHHhhccCeE
Confidence 2111000 0 0000126899999988875443332 22222 589
Q ss_pred EEccccccccch-hhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhh---cCCeEEEecccceeE------------E
Q 000854 284 IVDEAHERSLNT-DLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFY---DCGISHVVGRNFPVD------------V 347 (1252)
Q Consensus 284 VIDEaHER~l~~-d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~---~~~vi~i~gr~~pV~------------i 347 (1252)
||||+|.....+ .++..+++.+. ..+.++|+||||++.....+++. ..... .....||.- .
T Consensus 444 IiDEVHAyD~ym~~lL~~~L~~l~--~~g~~vIllSATLP~~~r~~L~~a~~~~~~~-~~~~~YPlvt~~~~~~~~~~~~ 520 (878)
T PRK09694 444 IVDEVHAYDAYMYGLLEAVLKAQA--QAGGSVILLSATLPATLKQKLLDTYGGHDPV-ELSSAYPLITWRGVNGAQRFDL 520 (878)
T ss_pred EEechhhCCHHHHHHHHHHHHHHH--hcCCcEEEEeCCCCHHHHHHHHHHhcccccc-ccccccccccccccccceeeec
Confidence 999999422222 23333444432 24578999999998654433322 11000 000011110 0
Q ss_pred EEecCCCCCCcc--c-----c--chHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCC---CeeEeecCCCC
Q 000854 348 RYVPCATAGTSA--V-----A--SYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPS---AVALPFHGQLS 415 (1252)
Q Consensus 348 ~y~~~~~s~~~~--~-----~--~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~---~~v~~LHg~Ls 415 (1252)
...+........ . . ......+..+.... ..++++||||||++.++.+++.|++.. ..+..+||+++
T Consensus 521 ~~~~~~~~~~~~v~v~~~~~~~~~~~~~~l~~i~~~~--~~g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~ 598 (878)
T PRK09694 521 SAHPEQLPARFTIQLEPICLADMLPDLTLLQRMIAAA--NAGAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFT 598 (878)
T ss_pred cccccccCcceEEEEEeeccccccCHHHHHHHHHHHH--hcCCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCC
Confidence 000000000000 0 0 00122222222211 457899999999999999999998643 67999999999
Q ss_pred HHhhh----hhcccC--CCc---eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhc
Q 000854 416 FDEQF----CVFKSY--PGR---RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAG 486 (1252)
Q Consensus 416 ~~eR~----~v~~~f--~G~---~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~G 486 (1252)
+.+|. ++++.| +|+ .+|||||+++|+||||+ ++++|....| .++++||+|
T Consensus 599 ~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDId-~DvlItdlaP--------------------idsLiQRaG 657 (878)
T PRK09694 599 LNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDLD-FDWLITQLCP--------------------VDLLFQRLG 657 (878)
T ss_pred HHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeecC-CCeEEECCCC--------------------HHHHHHHHh
Confidence 99994 456667 354 48999999999999994 7888864332 378999999
Q ss_pred ccCCCC
Q 000854 487 RAGRTE 492 (1252)
Q Consensus 487 RAGR~~ 492 (1252)
|+||.+
T Consensus 658 R~~R~~ 663 (878)
T PRK09694 658 RLHRHH 663 (878)
T ss_pred ccCCCC
Confidence 999985
No 93
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.89 E-value=7.2e-22 Score=248.43 Aligned_cols=311 Identities=19% Similarity=0.222 Sum_probs=194.4
Q ss_pred CChHHHHHHHHHHHhc--CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce
Q 000854 165 LPIYMYRQDILRRIYG--EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS 242 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~--~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~ 242 (1252)
.++..|++++.....+ ++++++.|+||||||.++.+.+.+. ...+.++++++|+++|+.|+.+++.+.++. ..
T Consensus 144 ~Lt~~Q~~ai~~i~~~~~~~~~Ll~~~TGSGKT~v~l~~i~~~-l~~g~~vLvLvPt~~L~~Q~~~~l~~~fg~----~v 218 (679)
T PRK05580 144 TLNPEQAAAVEAIRAAAGFSPFLLDGVTGSGKTEVYLQAIAEV-LAQGKQALVLVPEIALTPQMLARFRARFGA----PV 218 (679)
T ss_pred CCCHHHHHHHHHHHhccCCCcEEEECCCCChHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHHhCC----CE
Confidence 3556677776666653 5678889999999998876655443 234678999999999999999999886521 11
Q ss_pred EEEecCCCc---------cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchh----h-HHHHHHHHHhc
Q 000854 243 VICYPSFSS---------AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTD----L-LLALVKDLLCR 308 (1252)
Q Consensus 243 vg~~~~~~~---------~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d----~-ll~llk~l~~~ 308 (1252)
..+...... ......+|+|+|++.+. ..++++++|||||+|+-+...+ + ...+ ......
T Consensus 219 ~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~------~p~~~l~liVvDEeh~~s~~~~~~p~y~~r~v-a~~ra~ 291 (679)
T PRK05580 219 AVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF------LPFKNLGLIIVDEEHDSSYKQQEGPRYHARDL-AVVRAK 291 (679)
T ss_pred EEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc------ccccCCCEEEEECCCccccccCcCCCCcHHHH-HHHHhh
Confidence 222222111 12235799999998875 2477899999999996433221 1 1111 222334
Q ss_pred cCCCcEEeeccCCCHHHHHhhhhc-CCeEEEeccc----ceeEEEEecCCCC-CCccccchHHHHHHHHHHhhhcCCCCc
Q 000854 309 RFDLRLVIMSATADAHQLSKYFYD-CGISHVVGRN----FPVDVRYVPCATA-GTSAVASYVSDVVRMVGEVHTTEKEGT 382 (1252)
Q Consensus 309 ~~~lqiIlmSATld~~~l~~~f~~-~~vi~i~gr~----~pV~i~y~~~~~s-~~~~~~~~~~~~~~~l~~i~~~~~~g~ 382 (1252)
..+.++|++|||++.+.+.....+ ...+....+. .| .+........ .............+.+.+.+ ..+.+
T Consensus 292 ~~~~~~il~SATps~~s~~~~~~g~~~~~~l~~r~~~~~~p-~v~~id~~~~~~~~~~~~ls~~l~~~i~~~l--~~g~q 368 (679)
T PRK05580 292 LENIPVVLGSATPSLESLANAQQGRYRLLRLTKRAGGARLP-EVEIIDMRELLRGENGSFLSPPLLEAIKQRL--ERGEQ 368 (679)
T ss_pred ccCCCEEEEcCCCCHHHHHHHhccceeEEEeccccccCCCC-eEEEEechhhhhhcccCCCCHHHHHHHHHHH--HcCCe
Confidence 578999999999998877654322 2223333222 22 2222211000 00000001122223332222 45568
Q ss_pred EEEEeCCHH------------------------------------------------------------HHHHHHHHcCC
Q 000854 383 ILAFLTSKM------------------------------------------------------------EVEWACEKFDA 402 (1252)
Q Consensus 383 iLVFl~s~~------------------------------------------------------------eie~la~~L~~ 402 (1252)
+|||+|.+. .++++++.|++
T Consensus 369 vll~~nrrGy~~~~~C~~Cg~~~~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~Cg~~~l~~~g~G~e~~~e~l~~ 448 (679)
T PRK05580 369 VLLFLNRRGYAPFLLCRDCGWVAECPHCDASLTLHRFQRRLRCHHCGYQEPIPKACPECGSTDLVPVGPGTERLEEELAE 448 (679)
T ss_pred EEEEEcCCCCCCceEhhhCcCccCCCCCCCceeEECCCCeEECCCCcCCCCCCCCCCCCcCCeeEEeeccHHHHHHHHHH
Confidence 999988532 23344444443
Q ss_pred --CCCeeEeecCCCCH--HhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEE--EcCCCcc-ccccCCCCcccceec
Q 000854 403 --PSAVALPFHGQLSF--DEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVI--DSGMVKE-SYFEPGTGMNVLRVC 474 (1252)
Q Consensus 403 --~~~~v~~LHg~Ls~--~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VI--d~g~pk~-~~ydp~~~~~~L~~~ 474 (1252)
++..+..+|+++++ ++++++++.| +|+.+|||+|+++++|+|+|+|+.|+ |.|.+.. +-|+ ..-.
T Consensus 449 ~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~~~ILVgT~~iakG~d~p~v~lV~il~aD~~l~~pdfr--a~Er----- 521 (679)
T PRK05580 449 LFPEARILRIDRDTTRRKGALEQLLAQFARGEADILIGTQMLAKGHDFPNVTLVGVLDADLGLFSPDFR--ASER----- 521 (679)
T ss_pred hCCCCcEEEEeccccccchhHHHHHHHHhcCCCCEEEEChhhccCCCCCCcCEEEEEcCchhccCCccc--hHHH-----
Confidence 36788999999874 5788999999 89999999999999999999999985 5554321 1111 1111
Q ss_pred ccCHhhHHHHhcccCCCC-CCeEEEe
Q 000854 475 RVSQSSANQRAGRAGRTE-PGRCYRL 499 (1252)
Q Consensus 475 ~iSkasy~QR~GRAGR~~-~G~c~~L 499 (1252)
.-+.|.|++|||||.+ +|.++..
T Consensus 522 --~~~~l~q~~GRagR~~~~g~viiq 545 (679)
T PRK05580 522 --TFQLLTQVAGRAGRAEKPGEVLIQ 545 (679)
T ss_pred --HHHHHHHHHhhccCCCCCCEEEEE
Confidence 1267899999999975 8888853
No 94
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=99.87 E-value=1.9e-22 Score=226.01 Aligned_cols=272 Identities=18% Similarity=0.194 Sum_probs=179.9
Q ss_pred eEEecCcHHHHHHHHHHHHHHHhcCCC---CC--ceEEEec--CCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEE
Q 000854 212 SIVCTQPRKIAAISLAQRVREESRGCY---ED--DSVICYP--SFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCI 283 (1252)
Q Consensus 212 ~ILv~qPrR~LA~qva~rv~~~~~~~~---~~--~~vg~~~--~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~I 283 (1252)
..+++.|.|++|.|+.+.+.+...... .. ..+|... .+-.....+++|+|+|||+|++.+.... .+.+..++
T Consensus 288 ~avivepsrelaEqt~N~i~~Fk~h~~np~~r~lLmiggv~~r~Q~~ql~~g~~ivvGtpgRl~~~is~g~~~lt~crFl 367 (725)
T KOG0349|consen 288 EAVIVEPSRELAEQTHNQIEEFKMHTSNPEVRSLLMIGGVLKRTQCKQLKDGTHIVVGTPGRLLQPISKGLVTLTHCRFL 367 (725)
T ss_pred ceeEecCcHHHHHHHHhhHHHHHhhcCChhhhhhhhhhhHHhHHHHHHhhcCceeeecCchhhhhhhhccceeeeeeEEE
Confidence 578999999999999998776542211 00 1122111 1222334679999999999999987766 78899999
Q ss_pred EEccccccccc---hhhHHHHHHHHHhc---cCCCcEEeeccCC---CHHHHHhhhhcCCe-EEEecc-cceeEEEEecC
Q 000854 284 IVDEAHERSLN---TDLLLALVKDLLCR---RFDLRLVIMSATA---DAHQLSKYFYDCGI-SHVVGR-NFPVDVRYVPC 352 (1252)
Q Consensus 284 VIDEaHER~l~---~d~ll~llk~l~~~---~~~lqiIlmSATl---d~~~l~~~f~~~~v-i~i~gr-~~pV~i~y~~~ 352 (1252)
|+||++ -.+. .|++..+-..+... ...+|.++.|||+ ++..+.+-...-|. +...|. ..|-+++..+.
T Consensus 368 vlDead-~lL~qgy~d~I~r~h~qip~~tsdg~rlq~~vCsatlh~feVkk~~ervmhfptwVdLkgeD~vpetvHhvv~ 446 (725)
T KOG0349|consen 368 VLDEAD-LLLGQGYDDKIYRFHGQIPHMTSDGFRLQSPVCSATLHIFEVKKVGERVMHFPTWVDLKGEDLVPETVHHVVK 446 (725)
T ss_pred Eecchh-hhhhcccHHHHHHHhccchhhhcCCcccccceeeeEEeEEEeeehhhhhccCceeEecccccccchhhcccee
Confidence 999999 3333 34444444443332 2358999999994 34444433322221 111111 11111111110
Q ss_pred CC--C-------------------C-----CccccchHHHHHHHHH-----HhhhcCCCCcEEEEeCCHHHHHHHHHHcC
Q 000854 353 AT--A-------------------G-----TSAVASYVSDVVRMVG-----EVHTTEKEGTILAFLTSKMEVEWACEKFD 401 (1252)
Q Consensus 353 ~~--s-------------------~-----~~~~~~~~~~~~~~l~-----~i~~~~~~g~iLVFl~s~~eie~la~~L~ 401 (1252)
.. + . .............++. ...+...-.+.||||.|+.+|+.+-+.+.
T Consensus 447 lv~p~~d~sw~~lr~~i~td~vh~kdn~~pg~~Spe~~s~a~kilkgEy~v~ai~~h~mdkaiifcrtk~dcDnLer~~~ 526 (725)
T KOG0349|consen 447 LVCPSVDGSWCDLRQFIETDKVHTKDNLLPGQVSPENPSSATKILKGEYGVVAIRRHAMDKAIIFCRTKQDCDNLERMMN 526 (725)
T ss_pred ecCCccCccHHHHhhhhccCCcccccccccccCCCCChhhhhHHhcCchhhhhhhhhccCceEEEEeccccchHHHHHHH
Confidence 00 0 0 0000011111111110 11223456789999999999999999987
Q ss_pred CC---CCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccC
Q 000854 402 AP---SAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVS 477 (1252)
Q Consensus 402 ~~---~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iS 477 (1252)
+. .+.++++||+..|.+|+..++.| .+..+.|+|||+|+||+||.++-++|+..+|.++
T Consensus 527 qkgg~~~scvclhgDrkP~Erk~nle~Fkk~dvkflictdvaargldi~g~p~~invtlpd~k----------------- 589 (725)
T KOG0349|consen 527 QKGGKHYSCVCLHGDRKPDERKANLESFKKFDVKFLICTDVAARGLDITGLPFMINVTLPDDK----------------- 589 (725)
T ss_pred HcCCccceeEEEecCCChhHHHHHHHhhhhcCeEEEEEehhhhccccccCCceEEEEecCccc-----------------
Confidence 53 47899999999999999999999 7999999999999999999999999998887765
Q ss_pred HhhHHHHhcccCCCC-CCeEEEecCh
Q 000854 478 QSSANQRAGRAGRTE-PGRCYRLYSK 502 (1252)
Q Consensus 478 kasy~QR~GRAGR~~-~G~c~~Lyt~ 502 (1252)
.+|+||+||+||+. -|.++.|+.-
T Consensus 590 -~nyvhrigrvgraermglaislvat 614 (725)
T KOG0349|consen 590 -TNYVHRIGRVGRAERMGLAISLVAT 614 (725)
T ss_pred -chhhhhhhccchhhhcceeEEEeec
Confidence 78999999999984 8999888653
No 95
>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=99.87 E-value=2.1e-21 Score=236.52 Aligned_cols=289 Identities=19% Similarity=0.260 Sum_probs=181.3
Q ss_pred EEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc---------cccCC
Q 000854 186 LIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS---------AQHFD 256 (1252)
Q Consensus 186 I~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~---------~~~~~ 256 (1252)
+.|+||||||..+...+.+. ...+.+++++.|+++|+.|+++++.+.++. ....+...... .....
T Consensus 2 L~g~TGsGKT~v~l~~i~~~-l~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~----~v~vlhs~~~~~er~~~~~~~~~g~ 76 (505)
T TIGR00595 2 LFGVTGSGKTEVYLQAIEKV-LALGKSVLVLVPEIALTPQMIQRFKYRFGS----QVAVLHSGLSDSEKLQAWRKVKNGE 76 (505)
T ss_pred ccCCCCCCHHHHHHHHHHHH-HHcCCeEEEEeCcHHHHHHHHHHHHHHhCC----cEEEEECCCCHHHHHHHHHHHHcCC
Confidence 57999999998876655433 344678999999999999999999886531 11222222111 11235
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHH----HHHHHHHhccCCCcEEeeccCCCHHHHHhhhhc
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLL----ALVKDLLCRRFDLRLVIMSATADAHQLSKYFYD 332 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll----~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~ 332 (1252)
.+|+|+|+..+.. .+.++++|||||+|+-+...+-.. --+........+.++|++|||+..+.+.....+
T Consensus 77 ~~IVVGTrsalf~------p~~~l~lIIVDEeh~~sykq~~~p~y~ar~~a~~ra~~~~~~vil~SATPsles~~~~~~g 150 (505)
T TIGR00595 77 ILVVIGTRSALFL------PFKNLGLIIVDEEHDSSYKQEEGPRYHARDVAVYRAKKFNCPVVLGSATPSLESYHNAKQK 150 (505)
T ss_pred CCEEECChHHHcC------cccCCCEEEEECCCccccccccCCCCcHHHHHHHHHHhcCCCEEEEeCCCCHHHHHHHhcC
Confidence 7899999987742 477899999999996443221100 001223334568999999999988877655432
Q ss_pred C-CeEEEec----ccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHH---------------
Q 000854 333 C-GISHVVG----RNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKME--------------- 392 (1252)
Q Consensus 333 ~-~vi~i~g----r~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~e--------------- 392 (1252)
. ....... ...| .+....-.... ..........+.+.+.+ ..++++|||+|++.-
T Consensus 151 ~~~~~~l~~r~~~~~~p-~v~vid~~~~~--~~~~ls~~l~~~i~~~l--~~g~qvLvflnrrGya~~~~C~~Cg~~~~C 225 (505)
T TIGR00595 151 AYRLLVLTRRVSGRKPP-EVKLIDMRKEP--RQSFLSPELITAIEQTL--AAGEQSILFLNRRGYSKNLLCRSCGYILCC 225 (505)
T ss_pred CeEEeechhhhcCCCCC-eEEEEeccccc--ccCCccHHHHHHHHHHH--HcCCcEEEEEeCCcCCCeeEhhhCcCccCC
Confidence 2 1222221 1122 22222211100 00111223333443333 456789999876542
Q ss_pred ---------------------------------------------HHHHHHHcCC--CCCeeEeecCCCCHHhh--hhhc
Q 000854 393 ---------------------------------------------VEWACEKFDA--PSAVALPFHGQLSFDEQ--FCVF 423 (1252)
Q Consensus 393 ---------------------------------------------ie~la~~L~~--~~~~v~~LHg~Ls~~eR--~~v~ 423 (1252)
++++.+.|.+ ++..+..+|++++..++ ..++
T Consensus 226 ~~C~~~l~~h~~~~~l~Ch~Cg~~~~~~~~Cp~C~s~~l~~~g~Gte~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l 305 (505)
T TIGR00595 226 PNCDVSLTYHKKEGKLRCHYCGYQEPIPKTCPQCGSEDLVYKGYGTEQVEEELAKLFPGARIARIDSDTTSRKGAHEALL 305 (505)
T ss_pred CCCCCceEEecCCCeEEcCCCcCcCCCCCCCCCCCCCeeEeecccHHHHHHHHHhhCCCCcEEEEecccccCccHHHHHH
Confidence 3455555544 36789999999987766 8899
Q ss_pred ccC-CCceEEEEechhhhhcCCCCCeeEEE--EcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEE
Q 000854 424 KSY-PGRRKVIFATNVAETSLTIPGVKFVI--DSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYR 498 (1252)
Q Consensus 424 ~~f-~G~~kVLVATniae~GIDIP~V~~VI--d~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~ 498 (1252)
+.| +|+.+|||+|+++++|+|+|+|+.|+ |+|..-. -|.- ....-.-+.+.|++|||||.+ +|.++.
T Consensus 306 ~~f~~g~~~ILVgT~~i~kG~d~~~v~lV~vl~aD~~l~---~pd~-----ra~E~~~~ll~q~~GRagR~~~~g~vii 376 (505)
T TIGR00595 306 NQFANGKADILIGTQMIAKGHHFPNVTLVGVLDADSGLH---SPDF-----RAAERGFQLLTQVAGRAGRAEDPGQVII 376 (505)
T ss_pred HHHhcCCCCEEEeCcccccCCCCCcccEEEEEcCccccc---Cccc-----chHHHHHHHHHHHHhccCCCCCCCEEEE
Confidence 999 89999999999999999999999885 6553210 0100 000011267899999999975 888874
No 96
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.86 E-value=1.2e-20 Score=226.64 Aligned_cols=310 Identities=17% Similarity=0.180 Sum_probs=217.3
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcC-----CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGE-----QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQ 228 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~-----~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~ 228 (1252)
+++++.+.-.+.+|..|++.+-++..+= -+=+++|.-|||||..+...++.. ...+.++...+||-+||.|-++
T Consensus 251 l~~~~~~~LPF~LT~aQ~~vi~EI~~Dl~~~~~M~RLlQGDVGSGKTvVA~laml~a-i~~G~Q~ALMAPTEILA~QH~~ 329 (677)
T COG1200 251 LLAKFLAALPFKLTNAQKRVIKEILADLASPVPMNRLLQGDVGSGKTVVALLAMLAA-IEAGYQAALMAPTEILAEQHYE 329 (677)
T ss_pred HHHHHHHhCCCCccHHHHHHHHHHHhhhcCchhhHHHhccCcCCCHHHHHHHHHHHH-HHcCCeeEEeccHHHHHHHHHH
Confidence 4444444444566888888887776542 123568999999998766655543 4457789999999999999999
Q ss_pred HHHHHhcCCCCCceEEEecCCC----------ccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhH
Q 000854 229 RVREESRGCYEDDSVICYPSFS----------SAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLL 298 (1252)
Q Consensus 229 rv~~~~~~~~~~~~vg~~~~~~----------~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~l 298 (1252)
.+.+.+.... ..|+.-.+.. ...+...+|+|+|...+ +.+-.++++.++|+||=| |.-
T Consensus 330 ~~~~~l~~~~--i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALi----Qd~V~F~~LgLVIiDEQH-RFG----- 397 (677)
T COG1200 330 SLRKWLEPLG--IRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALI----QDKVEFHNLGLVIIDEQH-RFG----- 397 (677)
T ss_pred HHHHHhhhcC--CeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhh----hcceeecceeEEEEeccc-ccc-----
Confidence 9999885433 2344322111 11234589999997544 333489999999999999 321
Q ss_pred HHHHHHHHhccC-CCcEEeeccCCCHHHHH-hhhhcCCe---EEEecccceeEEEEecCCCCCCccccchHHHHHHHHHH
Q 000854 299 LALVKDLLCRRF-DLRLVIMSATADAHQLS-KYFYDCGI---SHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGE 373 (1252)
Q Consensus 299 l~llk~l~~~~~-~lqiIlmSATld~~~l~-~~f~~~~v---i~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~ 373 (1252)
..--..+..+.. .+.++.||||+-+..++ ..|++..+ -+.|.-..|+.....+... ...+...+..
T Consensus 398 V~QR~~L~~KG~~~Ph~LvMTATPIPRTLAlt~fgDldvS~IdElP~GRkpI~T~~i~~~~---------~~~v~e~i~~ 468 (677)
T COG1200 398 VHQRLALREKGEQNPHVLVMTATPIPRTLALTAFGDLDVSIIDELPPGRKPITTVVIPHER---------RPEVYERIRE 468 (677)
T ss_pred HHHHHHHHHhCCCCCcEEEEeCCCchHHHHHHHhccccchhhccCCCCCCceEEEEecccc---------HHHHHHHHHH
Confidence 111122333444 67899999997776666 55555443 2344445788888777533 3334444433
Q ss_pred hhhcCCCCcEEEEeCCHHHHH--------HHHHHcCC--CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhc
Q 000854 374 VHTTEKEGTILAFLTSKMEVE--------WACEKFDA--PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETS 442 (1252)
Q Consensus 374 i~~~~~~g~iLVFl~s~~eie--------~la~~L~~--~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~G 442 (1252)
-+ ..+.++.|-||-.++.+ .+++.|+. .+..+..+||.|+++++++|++.| +|+.+|||||.+.|-|
T Consensus 469 ei--~~GrQaY~VcPLIeESE~l~l~~a~~~~~~L~~~~~~~~vgL~HGrm~~~eKd~vM~~Fk~~e~~ILVaTTVIEVG 546 (677)
T COG1200 469 EI--AKGRQAYVVCPLIEESEKLELQAAEELYEELKSFLPELKVGLVHGRMKPAEKDAVMEAFKEGEIDILVATTVIEVG 546 (677)
T ss_pred HH--HcCCEEEEEeccccccccchhhhHHHHHHHHHHHcccceeEEEecCCChHHHHHHHHHHHcCCCcEEEEeeEEEec
Confidence 33 46789999999776554 44555553 467799999999999999999999 8999999999999999
Q ss_pred CCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 443 LTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 443 IDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
||+|+.++.|..+- ++ .--++..|-.||+||.. ++.|+.+|.+..
T Consensus 547 VdVPnATvMVIe~A--------ER---------FGLaQLHQLRGRVGRG~~qSyC~Ll~~~~~ 592 (677)
T COG1200 547 VDVPNATVMVIENA--------ER---------FGLAQLHQLRGRVGRGDLQSYCVLLYKPPL 592 (677)
T ss_pred ccCCCCeEEEEech--------hh---------hhHHHHHHhccccCCCCcceEEEEEeCCCC
Confidence 99999999885332 11 12277899999999986 999999998753
No 97
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.86 E-value=2.7e-20 Score=223.93 Aligned_cols=292 Identities=17% Similarity=0.148 Sum_probs=188.4
Q ss_pred hHHHHHHHHHHHhc---CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 167 IYMYRQDILRRIYG---EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 167 ~~~qq~~I~~al~~---~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
-..|++++-..... ++..++++|||+|||......+.... .++++++||++|+.|.++++....... ..+
T Consensus 38 r~yQ~~al~a~~~~~~~~~~gvivlpTGaGKT~va~~~~~~~~----~~~Lvlv~~~~L~~Qw~~~~~~~~~~~---~~~ 110 (442)
T COG1061 38 RPYQEEALDALVKNRRTERRGVIVLPTGAGKTVVAAEAIAELK----RSTLVLVPTKELLDQWAEALKKFLLLN---DEI 110 (442)
T ss_pred cHHHHHHHHHHHhhcccCCceEEEeCCCCCHHHHHHHHHHHhc----CCEEEEECcHHHHHHHHHHHHHhcCCc---ccc
Confidence 33444444444442 66666789999999988776665542 349999999999999998887765321 123
Q ss_pred EEecCCCccccCCCeEEEEChHHHHHH-HhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCc-EEeeccCC
Q 000854 244 ICYPSFSSAQHFDSKVIYMTDHCLLQH-FMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLR-LVIMSATA 321 (1252)
Q Consensus 244 g~~~~~~~~~~~~t~Iiv~Tpg~Ll~~-L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lq-iIlmSATl 321 (1252)
|.+......... ..|+|+|...+.+. .......+++++||+|||| +..... ...+...+ .... +++||||+
T Consensus 111 g~~~~~~~~~~~-~~i~vat~qtl~~~~~l~~~~~~~~~liI~DE~H-h~~a~~-~~~~~~~~----~~~~~~LGLTATp 183 (442)
T COG1061 111 GIYGGGEKELEP-AKVTVATVQTLARRQLLDEFLGNEFGLIIFDEVH-HLPAPS-YRRILELL----SAAYPRLGLTATP 183 (442)
T ss_pred ceecCceeccCC-CcEEEEEhHHHhhhhhhhhhcccccCEEEEEccc-cCCcHH-HHHHHHhh----hcccceeeeccCc
Confidence 333332222222 57999999999875 2222234479999999999 444322 23333333 2233 99999995
Q ss_pred CH---HHHHhhhhcC--CeEEEe-------cccceeEEEEecCCCCC---------Ccc-------------------cc
Q 000854 322 DA---HQLSKYFYDC--GISHVV-------GRNFPVDVRYVPCATAG---------TSA-------------------VA 361 (1252)
Q Consensus 322 d~---~~l~~~f~~~--~vi~i~-------gr~~pV~i~y~~~~~s~---------~~~-------------------~~ 361 (1252)
.- .....++... .+..+. |..-|............ ... ..
T Consensus 184 ~R~D~~~~~~l~~~~g~~vy~~~~~~li~~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (442)
T COG1061 184 EREDGGRIGDLFDLIGPIVYEVSLKELIDEGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGTLRAENEARRIA 263 (442)
T ss_pred eeecCCchhHHHHhcCCeEeecCHHHHHhCCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhhhhHHHHHHHHh
Confidence 41 1222222211 222222 22233332222211100 000 00
Q ss_pred chHHHHHHHHHHhhhcC-CCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhh
Q 000854 362 SYVSDVVRMVGEVHTTE-KEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVA 439 (1252)
Q Consensus 362 ~~~~~~~~~l~~i~~~~-~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATnia 439 (1252)
.........+..+.... .+.+++||+....+++.++..+...+. +..+.+..+..+|..+++.| .|..++||++.++
T Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~~~~lv~~~vl 342 (442)
T COG1061 264 IASERKIAAVRGLLLKHARGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGGIKVLVTVKVL 342 (442)
T ss_pred hccHHHHHHHHHHHHHhcCCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCCCCEEEEeeec
Confidence 00011222222222222 467999999999999999999998888 88999999999999999999 7789999999999
Q ss_pred hhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCC
Q 000854 440 ETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRT 491 (1252)
Q Consensus 440 e~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~ 491 (1252)
..|+|+|+++.+|..... -|+..|.||+||.-|.
T Consensus 343 ~EGvDiP~~~~~i~~~~t------------------~S~~~~~Q~lGR~LR~ 376 (442)
T COG1061 343 DEGVDIPDADVLIILRPT------------------GSRRLFIQRLGRGLRP 376 (442)
T ss_pred cceecCCCCcEEEEeCCC------------------CcHHHHHHHhhhhccC
Confidence 999999999999975432 3668899999999995
No 98
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.85 E-value=2.9e-20 Score=233.76 Aligned_cols=295 Identities=18% Similarity=0.244 Sum_probs=216.1
Q ss_pred hHHHHHHHHHHHh---cCC--eEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 167 IYMYRQDILRRIY---GEQ--ILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 167 ~~~qq~~I~~al~---~~~--vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
|+.|..+|-+... +.. +=+|||.-|-|||..++-..... ...+++|.+++||-.||.|-++.+++.+.+..+
T Consensus 596 T~DQl~AI~eVk~DM~~~kpMDRLiCGDVGFGKTEVAmRAAFkA-V~~GKQVAvLVPTTlLA~QHy~tFkeRF~~fPV-- 672 (1139)
T COG1197 596 TPDQLKAIEEVKRDMESGKPMDRLICGDVGFGKTEVAMRAAFKA-VMDGKQVAVLVPTTLLAQQHYETFKERFAGFPV-- 672 (1139)
T ss_pred CHHHHHHHHHHHHHhccCCcchheeecCcCCcHHHHHHHHHHHH-hcCCCeEEEEcccHHhHHHHHHHHHHHhcCCCe--
Confidence 4455555544433 221 23558999999998877665543 345689999999999999999999998876654
Q ss_pred eEEEecCCCccc----------cCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCC
Q 000854 242 SVICYPSFSSAQ----------HFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFD 311 (1252)
Q Consensus 242 ~vg~~~~~~~~~----------~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~ 311 (1252)
.|..-.|+.... ....+|+|+|. +.|.++-.+++++++||||=|.-++. --..+...+.+
T Consensus 673 ~I~~LSRF~s~kE~~~il~~la~G~vDIvIGTH----rLL~kdv~FkdLGLlIIDEEqRFGVk------~KEkLK~Lr~~ 742 (1139)
T COG1197 673 RIEVLSRFRSAKEQKEILKGLAEGKVDIVIGTH----RLLSKDVKFKDLGLLIIDEEQRFGVK------HKEKLKELRAN 742 (1139)
T ss_pred eEEEecccCCHHHHHHHHHHHhcCCccEEEech----HhhCCCcEEecCCeEEEechhhcCcc------HHHHHHHHhcc
Confidence 455555655432 24589999995 44556668999999999999942222 23334456789
Q ss_pred CcEEeeccCCCHHHHHhhhhc---CCeEEE-ecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEe
Q 000854 312 LRLVIMSATADAHQLSKYFYD---CGISHV-VGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFL 387 (1252)
Q Consensus 312 lqiIlmSATld~~~l~~~f~~---~~vi~i-~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl 387 (1252)
+-++-||||+=+..+.--+.+ ..++.. |...+||..+..+... ..+.+ .++.++ ..+|++-.-.
T Consensus 743 VDvLTLSATPIPRTL~Msm~GiRdlSvI~TPP~~R~pV~T~V~~~d~-------~~ire--AI~REl---~RgGQvfYv~ 810 (1139)
T COG1197 743 VDVLTLSATPIPRTLNMSLSGIRDLSVIATPPEDRLPVKTFVSEYDD-------LLIRE--AILREL---LRGGQVFYVH 810 (1139)
T ss_pred CcEEEeeCCCCcchHHHHHhcchhhhhccCCCCCCcceEEEEecCCh-------HHHHH--HHHHHH---hcCCEEEEEe
Confidence 999999999665555422222 234444 3566889888877642 11111 122233 5689999999
Q ss_pred CCHHHHHHHHHHcCC--CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccC
Q 000854 388 TSKMEVEWACEKFDA--PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEP 464 (1252)
Q Consensus 388 ~s~~eie~la~~L~~--~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp 464 (1252)
|.+++++.+++.|+. +..++...||.|+..+-++++..| +|+.+|||||.|.|+|||||+++.+|--+-- .|
T Consensus 811 NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~~dVLv~TTIIEtGIDIPnANTiIIe~AD---~f-- 885 (1139)
T COG1197 811 NRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGEYDVLVCTTIIETGIDIPNANTIIIERAD---KF-- 885 (1139)
T ss_pred cchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCCCCEEEEeeeeecCcCCCCCceEEEeccc---cc--
Confidence 999999999999985 678899999999999999999999 9999999999999999999999998832210 01
Q ss_pred CCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChh
Q 000854 465 GTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKS 503 (1252)
Q Consensus 465 ~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~ 503 (1252)
|+ ++.-|-.||+||.. .|.||.+|++.
T Consensus 886 --GL----------sQLyQLRGRVGRS~~~AYAYfl~p~~ 913 (1139)
T COG1197 886 --GL----------AQLYQLRGRVGRSNKQAYAYFLYPPQ 913 (1139)
T ss_pred --cH----------HHHHHhccccCCccceEEEEEeecCc
Confidence 22 77789999999986 99999999875
No 99
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=99.84 E-value=3e-20 Score=227.01 Aligned_cols=310 Identities=17% Similarity=0.172 Sum_probs=206.0
Q ss_pred HHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE-EEecCCCcc-c
Q 000854 176 RRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV-ICYPSFSSA-Q 253 (1252)
Q Consensus 176 ~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v-g~~~~~~~~-~ 253 (1252)
..+.++.+.|..+||+.|||++.-..++......+..++.+.|.-..+..-...+..+... .|..| +|++++... .
T Consensus 235 ~~~~e~~nliys~Pts~gktlvaeilml~~~l~~rr~~llilp~vsiv~Ek~~~l~~~~~~--~G~~ve~y~g~~~p~~~ 312 (1008)
T KOG0950|consen 235 PRLLERKNLIYSLPTSAGKTLVAEILMLREVLCRRRNVLLILPYVSIVQEKISALSPFSID--LGFPVEEYAGRFPPEKR 312 (1008)
T ss_pred hhhhcccceEEeCCCccchHHHHHHHHHHHHHHHhhceeEecceeehhHHHHhhhhhhccc--cCCcchhhcccCCCCCc
Confidence 3445788889999999999998766666655555567777778877766666666665422 22222 333343332 3
Q ss_pred cCCCeEEEEChHH---HHHHHhcCCCCCceeEEEEccccccccch---hhHHHHHHHHHh--ccCCCcEEeeccCC-CHH
Q 000854 254 HFDSKVIYMTDHC---LLQHFMNDRDLSRISCIIVDEAHERSLNT---DLLLALVKDLLC--RRFDLRLVIMSATA-DAH 324 (1252)
Q Consensus 254 ~~~t~Iiv~Tpg~---Ll~~L~~~~~L~~ls~IVIDEaHER~l~~---d~ll~llk~l~~--~~~~lqiIlmSATl-d~~ 324 (1252)
.+...+.+||.++ |.+.+.....+..++.|||||.| ...+. ..+..++..+.. ....+|+|+||||+ |..
T Consensus 313 ~k~~sv~i~tiEkanslin~lie~g~~~~~g~vvVdElh-mi~d~~rg~~lE~~l~k~~y~~~~~~~~iIGMSATi~N~~ 391 (1008)
T KOG0950|consen 313 RKRESVAIATIEKANSLINSLIEQGRLDFLGMVVVDELH-MIGDKGRGAILELLLAKILYENLETSVQIIGMSATIPNNS 391 (1008)
T ss_pred ccceeeeeeehHhhHhHHHHHHhcCCccccCcEEEeeee-eeeccccchHHHHHHHHHHHhccccceeEeeeecccCChH
Confidence 3567899999986 56666666678889999999999 33332 123333433333 23346899999995 678
Q ss_pred HHHhhhhcCCeEEEecccceeEEEEecCCCCCCcc--ccchHHHHHHHHHHh-------------hhcC-CCCcEEEEeC
Q 000854 325 QLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSA--VASYVSDVVRMVGEV-------------HTTE-KEGTILAFLT 388 (1252)
Q Consensus 325 ~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~--~~~~~~~~~~~l~~i-------------~~~~-~~g~iLVFl~ 388 (1252)
.+++|+. +.+ ...+..||+..-.....+.-.. ....+..+....... .+.. .+.++|||||
T Consensus 392 lL~~~L~-A~~--y~t~fRPv~L~E~ik~G~~i~~~~r~~~lr~ia~l~~~~~g~~dpD~~v~L~tet~~e~~~~lvfc~ 468 (1008)
T KOG0950|consen 392 LLQDWLD-AFV--YTTRFRPVPLKEYIKPGSLIYESSRNKVLREIANLYSSNLGDEDPDHLVGLCTETAPEGSSVLVFCP 468 (1008)
T ss_pred HHHHHhh-hhh--eecccCcccchhccCCCcccccchhhHHHHHhhhhhhhhcccCCCcceeeehhhhhhcCCeEEEEcC
Confidence 8888886 222 2334455554322221100000 000011111000000 0111 2346999999
Q ss_pred CHHHHHHHHHHcCC--------------------------------------CCCeeEeecCCCCHHhhhhhcccC-CCc
Q 000854 389 SKMEVEWACEKFDA--------------------------------------PSAVALPFHGQLSFDEQFCVFKSY-PGR 429 (1252)
Q Consensus 389 s~~eie~la~~L~~--------------------------------------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~ 429 (1252)
+++.|+.++..+.. ..+.+..+|++++.++|+.|...| .|.
T Consensus 469 sk~~ce~~a~~~~~~vpk~~~~e~~~~~~~~~s~s~~lr~~~~~ld~Vl~~ti~~GvAyHhaGLT~eER~~iE~afr~g~ 548 (1008)
T KOG0950|consen 469 SKKNCENVASLIAKKVPKHIKSEKRLGLWELLSISNLLRRIPGILDPVLAKTIPYGVAYHHAGLTSEEREIIEAAFREGN 548 (1008)
T ss_pred cccchHHHHHHHHHHhhHhhhhhhhhhHHHHHHHHhHhhcCCcccchHHheeccccceecccccccchHHHHHHHHHhcC
Confidence 99999988755421 124688999999999999999999 899
Q ss_pred eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhh
Q 000854 430 RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDF 505 (1252)
Q Consensus 430 ~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~ 505 (1252)
..|++||++++.|++.|..+++|.+-+.- ....++.+|.||+|||||+| -|.++..+.+.+.
T Consensus 549 i~vl~aTSTlaaGVNLPArRVIiraP~~g--------------~~~l~~~~YkQM~GRAGR~gidT~GdsiLI~k~~e~ 613 (1008)
T KOG0950|consen 549 IFVLVATSTLAAGVNLPARRVIIRAPYVG--------------REFLTRLEYKQMVGRAGRTGIDTLGDSILIIKSSEK 613 (1008)
T ss_pred eEEEEecchhhccCcCCcceeEEeCCccc--------------cchhhhhhHHhhhhhhhhcccccCcceEEEeeccch
Confidence 99999999999999999999999764322 23457789999999999996 8999999998875
No 100
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.83 E-value=1.4e-19 Score=235.90 Aligned_cols=312 Identities=17% Similarity=0.220 Sum_probs=188.0
Q ss_pred ChHHHHHHHHHHH---h-cCCeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecCcHHHHHHHHHHHHHHHhcCCC--
Q 000854 166 PIYMYRQDILRRI---Y-GEQILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQPRKIAAISLAQRVREESRGCY-- 238 (1252)
Q Consensus 166 P~~~qq~~I~~al---~-~~~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~-- 238 (1252)
+-+.|.++|-.+. . +++..+|+++||||||..+...+.... .....+||+++||++|+.|..+.+........
T Consensus 414 lR~YQ~~AI~ai~~a~~~g~r~~Ll~maTGSGKT~tai~li~~L~~~~~~~rVLfLvDR~~L~~Qa~~~F~~~~~~~~~~ 493 (1123)
T PRK11448 414 LRYYQEDAIQAVEKAIVEGQREILLAMATGTGKTRTAIALMYRLLKAKRFRRILFLVDRSALGEQAEDAFKDTKIEGDQT 493 (1123)
T ss_pred CCHHHHHHHHHHHHHHHhccCCeEEEeCCCCCHHHHHHHHHHHHHhcCccCeEEEEecHHHHHHHHHHHHHhcccccccc
Confidence 5666776664443 2 445677789999999965443332211 12245899999999999999998877531111
Q ss_pred CCceEEEecCCCccccCCCeEEEEChHHHHHHHhcC------CCCCceeEEEEccccccccchh---------------h
Q 000854 239 EDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMND------RDLSRISCIIVDEAHERSLNTD---------------L 297 (1252)
Q Consensus 239 ~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~------~~L~~ls~IVIDEaHER~l~~d---------------~ 297 (1252)
.....+...-.+.......+|+|+|...|.+.+... ..+..+++||||||| |+...| +
T Consensus 494 ~~~i~~i~~L~~~~~~~~~~I~iaTiQtl~~~~~~~~~~~~~~~~~~fdlIIiDEaH-Rs~~~d~~~~~~~~~~~~~~~~ 572 (1123)
T PRK11448 494 FASIYDIKGLEDKFPEDETKVHVATVQGMVKRILYSDDPMDKPPVDQYDCIIVDEAH-RGYTLDKEMSEGELQFRDQLDY 572 (1123)
T ss_pred hhhhhchhhhhhhcccCCCCEEEEEHHHHHHhhhccccccccCCCCcccEEEEECCC-CCCccccccccchhccchhhhH
Confidence 000011100011112345899999999988765321 256789999999999 775211 1
Q ss_pred HHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEe-------cccc----eeEEEE---------ecCC----
Q 000854 298 LLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYDCGISHVV-------GRNF----PVDVRY---------VPCA---- 353 (1252)
Q Consensus 298 ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~-------gr~~----pV~i~y---------~~~~---- 353 (1252)
.. ..+.++.. .+...|+||||+... ..++|+ .++.... |..- |..+.- ....
T Consensus 573 ~~-~yr~iL~y-FdA~~IGLTATP~r~-t~~~FG-~pv~~Ysl~eAI~DG~Lv~~~~p~~i~t~~~~~gi~~~~~e~~~~ 648 (1123)
T PRK11448 573 VS-KYRRVLDY-FDAVKIGLTATPALH-TTEIFG-EPVYTYSYREAVIDGYLIDHEPPIRIETRLSQEGIHFEKGEEVEV 648 (1123)
T ss_pred HH-HHHHHHhh-cCccEEEEecCCccc-hhHHhC-CeeEEeeHHHHHhcCCcccCcCCEEEEEEeccccccccccchhhh
Confidence 12 22333332 356789999998643 345665 3343221 2221 111110 0000
Q ss_pred C---CCC---ccccch-----------------HHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCC-------
Q 000854 354 T---AGT---SAVASY-----------------VSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAP------- 403 (1252)
Q Consensus 354 ~---s~~---~~~~~~-----------------~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~------- 403 (1252)
. ... ....+. ...+...+.+......++++||||.++++++.+++.|.+.
T Consensus 649 ~~~~~~~i~~~~l~d~~~~~~~~~~~~vi~~~~~~~i~~~l~~~l~~~~~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~ 728 (1123)
T PRK11448 649 INTQTGEIDLATLEDEVDFEVEDFNRRVITESFNRVVCEELAKYLDPTGEGKTLIFAATDAHADMVVRLLKEAFKKKYGQ 728 (1123)
T ss_pred cchhhhhhhhccCcHHHhhhHHHHHHHHhhHHHHHHHHHHHHHHHhccCCCcEEEEEcCHHHHHHHHHHHHHHHHhhcCC
Confidence 0 000 000000 0011111222222234589999999999999888776431
Q ss_pred --CCeeEeecCCCCHHhhhhhcccC-CCce-EEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHh
Q 000854 404 --SAVALPFHGQLSFDEQFCVFKSY-PGRR-KVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQS 479 (1252)
Q Consensus 404 --~~~v~~LHg~Ls~~eR~~v~~~f-~G~~-kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSka 479 (1252)
+..+..+||+.+ ++..+++.| ++.. +|+|+++++.+|+|+|.|..||....++ |+.
T Consensus 729 ~~~~~v~~itg~~~--~~~~li~~Fk~~~~p~IlVsvdmL~TG~DvP~v~~vVf~rpvk------------------S~~ 788 (1123)
T PRK11448 729 VEDDAVIKITGSID--KPDQLIRRFKNERLPNIVVTVDLLTTGIDVPSICNLVFLRRVR------------------SRI 788 (1123)
T ss_pred cCccceEEEeCCcc--chHHHHHHHhCCCCCeEEEEecccccCCCcccccEEEEecCCC------------------CHH
Confidence 224566888875 466789999 6654 8999999999999999999999876654 558
Q ss_pred hHHHHhcccCCCCC--Ce-EEEecCh
Q 000854 480 SANQRAGRAGRTEP--GR-CYRLYSK 502 (1252)
Q Consensus 480 sy~QR~GRAGR~~~--G~-c~~Lyt~ 502 (1252)
.|.||+||+.|..+ |+ .+.++.-
T Consensus 789 lf~QmIGRgtR~~~~~~K~~f~I~D~ 814 (1123)
T PRK11448 789 LYEQMLGRATRLCPEIGKTHFRIFDA 814 (1123)
T ss_pred HHHHHHhhhccCCccCCCceEEEEeh
Confidence 89999999999866 43 4555554
No 101
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=99.83 E-value=3.9e-19 Score=196.52 Aligned_cols=291 Identities=18% Similarity=0.252 Sum_probs=192.8
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS 251 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~ 251 (1252)
..++..+.++...+|.|-||+|||..+-+-+.. ....+.+|.+..||-.-+..++.|+++.+.++... ..+...++
T Consensus 107 ~~l~q~i~~k~~~lv~AV~GaGKTEMif~~i~~-al~~G~~vciASPRvDVclEl~~Rlk~aF~~~~I~---~Lyg~S~~ 182 (441)
T COG4098 107 NQLVQYIKQKEDTLVWAVTGAGKTEMIFQGIEQ-ALNQGGRVCIASPRVDVCLELYPRLKQAFSNCDID---LLYGDSDS 182 (441)
T ss_pred HHHHHHHHhcCcEEEEEecCCCchhhhHHHHHH-HHhcCCeEEEecCcccchHHHHHHHHHhhccCCee---eEecCCch
Confidence 456777888889999999999999765554432 23447789999999999999999999987655332 22232222
Q ss_pred cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhh
Q 000854 252 AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 252 ~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~ 331 (1252)
. -.+.++|+|+..|++.- ..++++||||||.--+..|-.+...-. ....++--+|.||||.+.+...+...
T Consensus 183 ~--fr~plvVaTtHQLlrFk------~aFD~liIDEVDAFP~~~d~~L~~Av~-~ark~~g~~IylTATp~k~l~r~~~~ 253 (441)
T COG4098 183 Y--FRAPLVVATTHQLLRFK------QAFDLLIIDEVDAFPFSDDQSLQYAVK-KARKKEGATIYLTATPTKKLERKILK 253 (441)
T ss_pred h--ccccEEEEehHHHHHHH------hhccEEEEeccccccccCCHHHHHHHH-HhhcccCceEEEecCChHHHHHHhhh
Confidence 2 23899999999999854 357999999999644444443332211 11345667899999987665554443
Q ss_pred c-CCeEEEecccc----eeEEEEecCCCCCCccccchHHH--HH-HHHHHhhh-cCCCCcEEEEeCCHHHHHHHHHHcCC
Q 000854 332 D-CGISHVVGRNF----PVDVRYVPCATAGTSAVASYVSD--VV-RMVGEVHT-TEKEGTILAFLTSKMEVEWACEKFDA 402 (1252)
Q Consensus 332 ~-~~vi~i~gr~~----pV~i~y~~~~~s~~~~~~~~~~~--~~-~~l~~i~~-~~~~g~iLVFl~s~~eie~la~~L~~ 402 (1252)
+ ...+.++.|.+ |+.-+.--.. ....+.. +- .+...+.+ ...+.++|||+|+....+.+++.|+.
T Consensus 254 g~~~~~klp~RfH~~pLpvPkf~w~~~------~~k~l~r~kl~~kl~~~lekq~~~~~P~liF~p~I~~~eq~a~~lk~ 327 (441)
T COG4098 254 GNLRILKLPARFHGKPLPVPKFVWIGN------WNKKLQRNKLPLKLKRWLEKQRKTGRPVLIFFPEIETMEQVAAALKK 327 (441)
T ss_pred CCeeEeecchhhcCCCCCCCceEEecc------HHHHhhhccCCHHHHHHHHHHHhcCCcEEEEecchHHHHHHHHHHHh
Confidence 2 22344444332 2221111110 0011100 00 11112221 24568999999999999999999943
Q ss_pred --CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHh
Q 000854 403 --PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQS 479 (1252)
Q Consensus 403 --~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSka 479 (1252)
....+...||. ...|.+..+.| +|+.++|++|.|+|||+|+|+|+++|-..= ... .|.+
T Consensus 328 ~~~~~~i~~Vhs~--d~~R~EkV~~fR~G~~~lLiTTTILERGVTfp~vdV~Vlgae--h~v--------------fTes 389 (441)
T COG4098 328 KLPKETIASVHSE--DQHRKEKVEAFRDGKITLLITTTILERGVTFPNVDVFVLGAE--HRV--------------FTES 389 (441)
T ss_pred hCCccceeeeecc--CccHHHHHHHHHcCceEEEEEeehhhcccccccceEEEecCC--ccc--------------ccHH
Confidence 34556788886 45677778889 899999999999999999999998773211 122 3779
Q ss_pred hHHHHhcccCCC--C-CCeEEEe
Q 000854 480 SANQRAGRAGRT--E-PGRCYRL 499 (1252)
Q Consensus 480 sy~QR~GRAGR~--~-~G~c~~L 499 (1252)
+.+|.+||+||. . .|..+.+
T Consensus 390 aLVQIaGRvGRs~~~PtGdv~FF 412 (441)
T COG4098 390 ALVQIAGRVGRSLERPTGDVLFF 412 (441)
T ss_pred HHHHHhhhccCCCcCCCCcEEEE
Confidence 999999999998 2 5654433
No 102
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.80 E-value=1.3e-18 Score=217.15 Aligned_cols=337 Identities=16% Similarity=0.142 Sum_probs=194.0
Q ss_pred HHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 157 ECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 157 ~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
+.++.-...|...|--.-+.. ..++ |..++||+|||+++..+++..... +..+.++.|+++||.|.++.+......
T Consensus 74 a~~R~lg~~~ydvQliGg~~L-h~G~--Iaem~TGeGKTL~a~Lpa~~~al~-G~~V~VvTpn~yLA~qd~e~m~~l~~~ 149 (896)
T PRK13104 74 VSLRTLGLRHFDVQLIGGMVL-HEGN--IAEMRTGEGKTLVATLPAYLNAIS-GRGVHIVTVNDYLAKRDSQWMKPIYEF 149 (896)
T ss_pred HHHHHcCCCcchHHHhhhhhh-ccCc--cccccCCCCchHHHHHHHHHHHhc-CCCEEEEcCCHHHHHHHHHHHHHHhcc
Confidence 334444456666666555433 2233 347999999999876666644333 456889999999999999999988643
Q ss_pred CCCCceEEEecCCCc----cccCCCeEEEEChHHH-HHHHhcCC--CC-----CceeEEEEccccccccc----------
Q 000854 237 CYEDDSVICYPSFSS----AQHFDSKVIYMTDHCL-LQHFMNDR--DL-----SRISCIIVDEAHERSLN---------- 294 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~----~~~~~t~Iiv~Tpg~L-l~~L~~~~--~L-----~~ls~IVIDEaHER~l~---------- 294 (1252)
. |..++....... .....++|+|+|||.| ++.|..+. .+ ..+.++||||||.-.+|
T Consensus 150 l--GLtv~~i~gg~~~~~r~~~y~~dIvygT~grlgfDyLrd~~~~~~~~~v~r~l~~~IvDEaDsiLIDeArtPLIISg 227 (896)
T PRK13104 150 L--GLTVGVIYPDMSHKEKQEAYKADIVYGTNNEYGFDYLRDNMAFSLTDKVQRELNFAIVDEVDSILIDEARTPLIISG 227 (896)
T ss_pred c--CceEEEEeCCCCHHHHHHHhCCCEEEECChhhhHHHHhcCCccchHhhhccccceEEeccHhhhhhhccCCceeeeC
Confidence 3 345555332221 1223589999999999 88886653 22 58999999999932222
Q ss_pred -----hhhHHHHH---HHHHhc-----------cCCCcEEeeccC--------C-------------CHHH---------
Q 000854 295 -----TDLLLALV---KDLLCR-----------RFDLRLVIMSAT--------A-------------DAHQ--------- 325 (1252)
Q Consensus 295 -----~d~ll~ll---k~l~~~-----------~~~lqiIlmSAT--------l-------------d~~~--------- 325 (1252)
.+...... +.+... ..+.+.+.+|-. + +...
T Consensus 228 ~~~~~~~~y~~~~~~v~~l~~~~~~~~~~dy~idek~~~v~Lte~G~~~~e~~~~~~~il~~~~~l~~~~~~~~~~~i~~ 307 (896)
T PRK13104 228 AAEDSSELYIKINSLIPQLKKQEEEGDEGDYTIDEKQKQAHLTDAGHLHIEELLTKAKLLDPGESLYHASNIMLMHHVNA 307 (896)
T ss_pred CCccchHHHHHHHHHHHHHHhccccCCCCCEEEEcCCCceEEchHHHHHHHHHHHhCCccCCcccccCchhhhHHHHHHH
Confidence 12222222 222111 012233434332 0 0000
Q ss_pred -HH-hhhh---------cCCeEEEe---cc-----cce------------------------------------------
Q 000854 326 -LS-KYFY---------DCGISHVV---GR-----NFP------------------------------------------ 344 (1252)
Q Consensus 326 -l~-~~f~---------~~~vi~i~---gr-----~~p------------------------------------------ 344 (1252)
+. .++. +..++.+. || .+.
T Consensus 308 aL~A~~lf~~d~dYiV~dg~V~iVDe~TGR~m~grr~s~GLHQaiEaKE~v~i~~e~~t~AsIT~Qn~Fr~Y~kLsGMTG 387 (896)
T PRK13104 308 ALKAHAMFHRDIDYIVKDNQVVIVDEHTGRTMPGRRWSEGLHQAVEAKEGVPIQNENQTLASITFQNFFRMYNKLSGMTG 387 (896)
T ss_pred HHHHHHHhcCCCceEEECCEEEEEECCCCCcCCCCCcChHHHHHHHHHcCCCCCCCceeeeeehHHHHHHhcchhccCCC
Confidence 00 1110 01111111 11 110
Q ss_pred --------------eEEEEecCCCC-----CCcccc----chHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC
Q 000854 345 --------------VDVRYVPCATA-----GTSAVA----SYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFD 401 (1252)
Q Consensus 345 --------------V~i~y~~~~~s-----~~~~~~----~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~ 401 (1252)
..+...|.... ...... .....++..+...+ ..+.++||||+|++.++.++..|.
T Consensus 388 Ta~te~~Ef~~iY~l~Vv~IPtnkp~~R~d~~d~v~~t~~~k~~av~~~i~~~~--~~g~PVLVgt~Sie~sE~ls~~L~ 465 (896)
T PRK13104 388 TADTEAYEFQQIYNLEVVVIPTNRSMIRKDEADLVYLTQADKFQAIIEDVRECG--VRKQPVLVGTVSIEASEFLSQLLK 465 (896)
T ss_pred CChhHHHHHHHHhCCCEEECCCCCCcceecCCCeEEcCHHHHHHHHHHHHHHHH--hCCCCEEEEeCcHHHHHHHHHHHH
Confidence 00111111110 000011 11122333333333 578899999999999999999999
Q ss_pred CCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCe---eEEEEcCCCcc-----------------c
Q 000854 402 APSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGV---KFVIDSGMVKE-----------------S 460 (1252)
Q Consensus 402 ~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V---~~VId~g~pk~-----------------~ 460 (1252)
+.++....|||.+.+.++..+.+.| +| .|+||||+|+||+||.== .+-+. ..+.+ .
T Consensus 466 ~~gi~h~vLnak~~q~Ea~iia~Ag~~G--~VtIATNmAGRGtDI~Lggn~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 542 (896)
T PRK13104 466 KENIKHQVLNAKFHEKEAQIIAEAGRPG--AVTIATNMAGRGTDIVLGGSLAADLA-NLPADASEQEKEAVKKEWQKRHD 542 (896)
T ss_pred HcCCCeEeecCCCChHHHHHHHhCCCCC--cEEEeccCccCCcceecCCchhhhhh-ccccchhhHHHHHHHHHhhhhhh
Confidence 9999999999999999999999999 77 499999999999999510 00000 00000 0
Q ss_pred cccCCCCccccee-cccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 461 YFEPGTGMNVLRV-CRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 461 ~ydp~~~~~~L~~-~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
.--..-|+..+.+ ..-|+.-=.|-.|||||.| ||.+-.+.+-+|
T Consensus 543 ~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGDPGss~f~lSleD 588 (896)
T PRK13104 543 EVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGDPGSSRFYLSLED 588 (896)
T ss_pred HHHHcCCCEEEeeccCchHHHHHHhccccccCCCCCceEEEEEcCc
Confidence 0000122333322 2345555569999999999 999887777654
No 103
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=99.80 E-value=2.1e-18 Score=220.44 Aligned_cols=110 Identities=12% Similarity=0.116 Sum_probs=96.8
Q ss_pred HHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHc-CCCCCeeEeecCCCCHHhhhhhcccC-C--CceEEEEechhhhhcC
Q 000854 368 VRMVGEVHTTEKEGTILAFLTSKMEVEWACEKF-DAPSAVALPFHGQLSFDEQFCVFKSY-P--GRRKVIFATNVAETSL 443 (1252)
Q Consensus 368 ~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L-~~~~~~v~~LHg~Ls~~eR~~v~~~f-~--G~~kVLVATniae~GI 443 (1252)
+..+.++.+...+.++||||+++..+..+++.| ...|+.+..+||+|++.+|.++++.| . |..+|||||+++++|+
T Consensus 481 i~~L~~~L~~~~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIsTdvgseGl 560 (956)
T PRK04914 481 VEWLIDFLKSHRSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLCSEIGSEGR 560 (956)
T ss_pred HHHHHHHHHhcCCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEechhhccCC
Confidence 334555555566789999999999999999999 46799999999999999999999999 4 4689999999999999
Q ss_pred CCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCe
Q 000854 444 TIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGR 495 (1252)
Q Consensus 444 DIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~ 495 (1252)
|++.+++||++++|..+ ..|.||+||+||.| .|.
T Consensus 561 Nlq~a~~VInfDlP~nP------------------~~~eQRIGR~~RiGQ~~~ 595 (956)
T PRK04914 561 NFQFASHLVLFDLPFNP------------------DLLEQRIGRLDRIGQKHD 595 (956)
T ss_pred CcccccEEEEecCCCCH------------------HHHHHHhcccccCCCCce
Confidence 99999999999998765 88999999999997 443
No 104
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.78 E-value=9.2e-18 Score=208.78 Aligned_cols=107 Identities=27% Similarity=0.281 Sum_probs=96.4
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCC---CCee----
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTI---PGVK---- 449 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDI---P~V~---- 449 (1252)
..+.++||||+|+..++.++..|.+.++....+||++...++..+.+.+ +|. |+||||+|+||+|| ++|.
T Consensus 438 ~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~g~--VtIATnmAGRGtDI~l~~~V~~~GG 515 (796)
T PRK12906 438 AKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQRGA--VTIATNMAGRGTDIKLGPGVKELGG 515 (796)
T ss_pred hCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCCce--EEEEeccccCCCCCCCCcchhhhCC
Confidence 4789999999999999999999999999999999999988888887777 564 99999999999999 5899
Q ss_pred -EEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 450 -FVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 450 -~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
+||++.+|. |+..+.||.|||||.| ||.+..+++.+|
T Consensus 516 LhVI~te~pe------------------s~ri~~Ql~GRtGRqG~~G~s~~~~sleD 554 (796)
T PRK12906 516 LAVIGTERHE------------------SRRIDNQLRGRSGRQGDPGSSRFYLSLED 554 (796)
T ss_pred cEEEeeecCC------------------cHHHHHHHhhhhccCCCCcceEEEEeccc
Confidence 999988765 4588999999999998 999999988774
No 105
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.78 E-value=5.4e-18 Score=211.53 Aligned_cols=334 Identities=16% Similarity=0.076 Sum_probs=195.5
Q ss_pred HHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHh
Q 000854 155 VRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 155 l~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~ 234 (1252)
.++.++.-...|...|--..+... .++ +..++||+|||+++..+++-.... +..+-++.|++.||.|.++.+....
T Consensus 71 rEa~~R~lg~~~~dvQlig~l~L~-~G~--Iaem~TGeGKTLva~lpa~l~aL~-G~~V~IvTpn~yLA~rd~e~~~~l~ 146 (830)
T PRK12904 71 REASKRVLGMRHFDVQLIGGMVLH-EGK--IAEMKTGEGKTLVATLPAYLNALT-GKGVHVVTVNDYLAKRDAEWMGPLY 146 (830)
T ss_pred HHHHHHHhCCCCCccHHHhhHHhc-CCc--hhhhhcCCCcHHHHHHHHHHHHHc-CCCEEEEecCHHHHHHHHHHHHHHH
Confidence 344555555678888877776443 333 447999999998755555322222 3457788999999999999999886
Q ss_pred cCCCCCceEEEecCCCcc----ccCCCeEEEEChHHH-HHHHhcCC-------CCCceeEEEEccccccccc--------
Q 000854 235 RGCYEDDSVICYPSFSSA----QHFDSKVIYMTDHCL-LQHFMNDR-------DLSRISCIIVDEAHERSLN-------- 294 (1252)
Q Consensus 235 ~~~~~~~~vg~~~~~~~~----~~~~t~Iiv~Tpg~L-l~~L~~~~-------~L~~ls~IVIDEaHER~l~-------- 294 (1252)
... |..++......+. ....++|+|+|++.| ++.|.... .++.+.++||||||...+|
T Consensus 147 ~~L--Glsv~~i~~~~~~~er~~~y~~dI~ygT~~elgfDyLrd~~~~~~~~~~~r~~~~aIvDEaDsiLIDeArtpLii 224 (830)
T PRK12904 147 EFL--GLSVGVILSGMSPEERREAYAADITYGTNNEFGFDYLRDNMVFSLEERVQRGLNYAIVDEVDSILIDEARTPLII 224 (830)
T ss_pred hhc--CCeEEEEcCCCCHHHHHHhcCCCeEEECCcchhhhhhhcccccchhhhcccccceEEEechhhheeccCCCceee
Confidence 433 3445543322211 123589999999999 77775443 3678999999999932221
Q ss_pred -------hhhHHHHHHHHHhccC--------CCcEEee------------------------------------------
Q 000854 295 -------TDLLLALVKDLLCRRF--------DLRLVIM------------------------------------------ 317 (1252)
Q Consensus 295 -------~d~ll~llk~l~~~~~--------~lqiIlm------------------------------------------ 317 (1252)
.++...+.+.+..... +-+.+.+
T Consensus 225 Sg~~~~~~~~y~~~~~~v~~l~~~~dy~vde~~~~v~lte~G~~~~e~~~~~~~ly~~~~~~~~~~i~~AL~A~~l~~~d 304 (830)
T PRK12904 225 SGPAEDSSELYKRANKIVPTLEKEGDYTVDEKSRTVGLTEEGIEKAEKLLGIENLYDPENIALVHHLNQALRAHELFKRD 304 (830)
T ss_pred ECCCCcccHHHHHHHHHHHhcCCCCCeEEEcCCCeeeECHHHHHHHHHHhCCccccChhhhHHHHHHHHHHHHHHHHhcC
Confidence 1122222222211111 1223333
Q ss_pred -------------------------------------------------------------------ccCCCH--HHHHh
Q 000854 318 -------------------------------------------------------------------SATADA--HQLSK 328 (1252)
Q Consensus 318 -------------------------------------------------------------------SATld~--~~l~~ 328 (1252)
|.|... +.|.+
T Consensus 305 ~dYiV~dg~V~ivDe~TGR~~~gr~ws~GLHQaiEaKE~v~i~~e~~t~a~It~qn~Fr~Y~kl~GmTGTa~te~~E~~~ 384 (830)
T PRK12904 305 VDYIVKDGEVVIVDEFTGRLMPGRRYSDGLHQAIEAKEGVKIQNENQTLASITFQNYFRMYEKLAGMTGTADTEAEEFRE 384 (830)
T ss_pred CcEEEECCEEEEEECCCCccCCCCccchHHHHHHHHhcCCCCCCCceeeeeeeHHHHHHhcchhcccCCCcHHHHHHHHH
Confidence 333211 11111
Q ss_pred hhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCCCCCe
Q 000854 329 YFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTT--EKEGTILAFLTSKMEVEWACEKFDAPSAV 406 (1252)
Q Consensus 329 ~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~~~~~ 406 (1252)
.+ +.+++.+|.. .|+.-.-.| ........++...+...... ..+.++||||+|+..++.+++.|...++.
T Consensus 385 iY-~l~vv~IPtn-kp~~r~d~~------d~i~~t~~~K~~aI~~~I~~~~~~grpVLIft~Si~~se~Ls~~L~~~gi~ 456 (830)
T PRK12904 385 IY-NLDVVVIPTN-RPMIRIDHP------DLIYKTEKEKFDAVVEDIKERHKKGQPVLVGTVSIEKSELLSKLLKKAGIP 456 (830)
T ss_pred Hh-CCCEEEcCCC-CCeeeeeCC------CeEEECHHHHHHHHHHHHHHHHhcCCCEEEEeCcHHHHHHHHHHHHHCCCc
Confidence 11 1222222221 111111001 01111122333333333222 56789999999999999999999999999
Q ss_pred eEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCe---eEEEEcCCC---------------c-cccccCCC
Q 000854 407 ALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGV---KFVIDSGMV---------------K-ESYFEPGT 466 (1252)
Q Consensus 407 v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V---~~VId~g~p---------------k-~~~ydp~~ 466 (1252)
...+||. +.+|...+..| .+...|+||||+|+||+||+== .+.....+. + ...--..-
T Consensus 457 ~~vLnak--q~eREa~Iia~Ag~~g~VtIATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~G 534 (830)
T PRK12904 457 HNVLNAK--NHEREAEIIAQAGRPGAVTIATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAG 534 (830)
T ss_pred eEeccCc--hHHHHHHHHHhcCCCceEEEecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcC
Confidence 9999996 77888888889 6788999999999999999732 000000000 0 00000012
Q ss_pred Ccccceec-ccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 467 GMNVLRVC-RVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 467 ~~~~L~~~-~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
|+.++.+. +-|+.-=.|-.|||||.| ||.+-.+.+-+|
T Consensus 535 GLhVigTerhesrRid~QlrGRagRQGdpGss~f~lSleD 574 (830)
T PRK12904 535 GLHVIGTERHESRRIDNQLRGRSGRQGDPGSSRFYLSLED 574 (830)
T ss_pred CCEEEecccCchHHHHHHhhcccccCCCCCceeEEEEcCc
Confidence 33333332 445566679999999998 999888877654
No 106
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=99.75 E-value=1.8e-17 Score=210.71 Aligned_cols=293 Identities=16% Similarity=0.142 Sum_probs=172.6
Q ss_pred eEEEEcCCCChhhHHHHHHHHhcccc---cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce--EEE----ecCCCcc-
Q 000854 183 ILVLIGETGCGKSTQLVQFLADSGIA---AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS--VIC----YPSFSSA- 252 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~~~~---~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~--vg~----~~~~~~~- 252 (1252)
.+++.||||+|||++...+....... ...+++.+.|+|.+..++++++....+....... -+. +......
T Consensus 216 ~~vl~aPTG~GKT~asl~~a~~~~~~~~~~~~r~i~vlP~~t~ie~~~~r~~~~~~~~~~~~~~~h~~~~~~~~~~~~~~ 295 (733)
T COG1203 216 LVVLEAPTGYGKTEASLILALALLDEKIKLKSRVIYVLPFRTIIEDMYRRAKEIFGLFSVIGKSLHSSSKEPLLLEPDQD 295 (733)
T ss_pred cEEEEeCCCCChHHHHHHHHHHHhhccccccceEEEEccHHHHHHHHHHHHHhhhcccccccccccccccchhhhccccc
Confidence 78889999999999865555433222 4679999999999999999999876532211111 000 0000000
Q ss_pred -----------ccCCCeEEEEChHHHHHHHhcCCCC-----CceeEEEEccccccccchh-hHHHHHHHHHh-ccCCCcE
Q 000854 253 -----------QHFDSKVIYMTDHCLLQHFMNDRDL-----SRISCIIVDEAHERSLNTD-LLLALVKDLLC-RRFDLRL 314 (1252)
Q Consensus 253 -----------~~~~t~Iiv~Tpg~Ll~~L~~~~~L-----~~ls~IVIDEaHER~l~~d-~ll~llk~l~~-~~~~lqi 314 (1252)
...-..+.++||-..+......... -..+.+|+||+| +++.+ .+..++..+.. ..-+.++
T Consensus 296 ~~~~~~~~ds~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~S~vIlDE~h--~~~~~~~~~~l~~~i~~l~~~g~~i 373 (733)
T COG1203 296 ILLTLTTNDSYKKLLLALIVVTPIQILIFSVKGFKFEFLALLLTSLVILDEVH--LYADETMLAALLALLEALAEAGVPV 373 (733)
T ss_pred cceeEEecccccceeccccccCHhHhhhhhccccchHHHHHHHhhchhhccHH--hhcccchHHHHHHHHHHHHhCCCCE
Confidence 0001234444444333321111111 134789999999 33333 33333333322 3357899
Q ss_pred EeeccCCCHH---HHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHH
Q 000854 315 VIMSATADAH---QLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKM 391 (1252)
Q Consensus 315 IlmSATld~~---~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~ 391 (1252)
|+||||++.. .+.+++.....+.......|....+.....................+ ......+++++|-|||++
T Consensus 374 ll~SATlP~~~~~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~kvlvI~NTV~ 451 (733)
T COG1203 374 LLMSATLPPFLKEKLKKALGKGREVVENAKFCPKEDEPGLKRKERVDVEDGPQEELIELI--SEEVKEGKKVLVIVNTVD 451 (733)
T ss_pred EEEecCCCHHHHHHHHHHHhcccceeccccccccccccccccccchhhhhhhhHhhhhcc--hhhhccCCcEEEEEecHH
Confidence 9999998854 34444443222221111000000000000000000000000011111 112256799999999999
Q ss_pred HHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-----CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCC
Q 000854 392 EVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-----PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGT 466 (1252)
Q Consensus 392 eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-----~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~ 466 (1252)
.|.++++.|+..+..+..+||.+...+|.+.++.. .+...|+|||++.|.|+||. .+++|
T Consensus 452 ~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~~~IvVaTQVIEagvDid-fd~mI-------------- 516 (733)
T COG1203 452 RAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNEGFIVVATQVIEAGVDID-FDVLI-------------- 516 (733)
T ss_pred HHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccCCeEEEEeeEEEEEeccc-cCeee--------------
Confidence 99999999998777899999999999999888742 35679999999999999997 66666
Q ss_pred CcccceecccCHhhHHHHhcccCCCC---CCeEEEec
Q 000854 467 GMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLY 500 (1252)
Q Consensus 467 ~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Ly 500 (1252)
+.+.+..+.+||+||.+|.| +|..|..-
T Consensus 517 ------Te~aPidSLIQR~GRv~R~g~~~~~~~~v~~ 547 (733)
T COG1203 517 ------TELAPIDSLIQRAGRVNRHGKKENGKIYVYN 547 (733)
T ss_pred ------ecCCCHHHHHHHHHHHhhcccccCCceeEee
Confidence 23445588999999999997 44544443
No 107
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.71 E-value=3.8e-16 Score=194.73 Aligned_cols=116 Identities=21% Similarity=0.176 Sum_probs=94.0
Q ss_pred HHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCC
Q 000854 367 VVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTI 445 (1252)
Q Consensus 367 ~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDI 445 (1252)
+++.+..++ ..+.++||||.|...++.++..|...++....+|+.++..++..+.+.| +|. |+||||+|+||+||
T Consensus 438 ii~ei~~~~--~~GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G~--VtIATnmAGRGTDI 513 (908)
T PRK13107 438 IIKDIKDCR--ERGQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTGA--VTIATNMAGRGTDI 513 (908)
T ss_pred HHHHHHHHH--HcCCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCCc--EEEecCCcCCCcce
Confidence 444444444 4688999999999999999999999999999999999999999999999 776 99999999999999
Q ss_pred CC-------------------------------------eeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhccc
Q 000854 446 PG-------------------------------------VKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRA 488 (1252)
Q Consensus 446 P~-------------------------------------V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRA 488 (1252)
.= ==+||-+..+. |+.-=.|-.|||
T Consensus 514 kLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhe------------------SrRID~QLrGRa 575 (908)
T PRK13107 514 VLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHE------------------SRRIDNQLRGRA 575 (908)
T ss_pred ecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCc------------------hHHHHhhhhccc
Confidence 61 12555444333 334445999999
Q ss_pred CCCC-CCeEEEecChhh
Q 000854 489 GRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 489 GR~~-~G~c~~Lyt~~d 504 (1252)
||.| ||.+-.+.+-+|
T Consensus 576 GRQGDPGss~f~lSlED 592 (908)
T PRK13107 576 GRQGDAGSSRFYLSMED 592 (908)
T ss_pred ccCCCCCceeEEEEeCc
Confidence 9998 999888887654
No 108
>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=99.71 E-value=2.4e-16 Score=170.01 Aligned_cols=170 Identities=18% Similarity=0.182 Sum_probs=126.0
Q ss_pred hcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc----cCCeEEecCcHHHHHHH
Q 000854 150 IQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA----AEQSIVCTQPRKIAAIS 225 (1252)
Q Consensus 150 l~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~----~~~~ILv~qPrR~LA~q 225 (1252)
++..+.+.+.+++...|...|++++..... ++++++.+|||+|||..+..+++..... .+.++++++|+++|+.|
T Consensus 6 ~~~~i~~~l~~~~~~~~~~~Q~~~~~~~~~-~~~~li~~~TG~GKT~~~~~~~l~~~~~~~~~~~~~viii~p~~~L~~q 84 (203)
T cd00268 6 LSPELLRGIYALGFEKPTPIQARAIPPLLS-GRDVIGQAQTGSGKTAAFLIPILEKLDPSPKKDGPQALILAPTRELALQ 84 (203)
T ss_pred CCHHHHHHHHHcCCCCCCHHHHHHHHHHhc-CCcEEEECCCCCcHHHHHHHHHHHHHHhhcccCCceEEEEcCCHHHHHH
Confidence 566789999999999999999999988887 5566778999999998765555543222 35689999999999999
Q ss_pred HHHHHHHHhcCCCCCceEEEe-cCCCc-----cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhH
Q 000854 226 LAQRVREESRGCYEDDSVICY-PSFSS-----AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLL 298 (1252)
Q Consensus 226 va~rv~~~~~~~~~~~~vg~~-~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~l 298 (1252)
+++.+....... +..+... ..... ....+.+|+|+||+.|++.+.+.. .+.+++++|+||+| .+.+.++.
T Consensus 85 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~~~~~~l~~lIvDE~h-~~~~~~~~ 161 (203)
T cd00268 85 IAEVARKLGKHT--NLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGKLDLSKVKYLVLDEAD-RMLDMGFE 161 (203)
T ss_pred HHHHHHHHhccC--CceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCCCChhhCCEEEEeChH-HhhccChH
Confidence 999988875321 2222221 11111 112367999999999999887665 78899999999999 44455555
Q ss_pred HHHHHHHHhccCCCcEEeeccCCCH
Q 000854 299 LALVKDLLCRRFDLRLVIMSATADA 323 (1252)
Q Consensus 299 l~llk~l~~~~~~lqiIlmSATld~ 323 (1252)
..+...+....++.+++++|||++.
T Consensus 162 ~~~~~~~~~l~~~~~~~~~SAT~~~ 186 (203)
T cd00268 162 DQIREILKLLPKDRQTLLFSATMPK 186 (203)
T ss_pred HHHHHHHHhCCcccEEEEEeccCCH
Confidence 5555555556668999999999873
No 109
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=99.68 E-value=1.3e-15 Score=190.14 Aligned_cols=137 Identities=14% Similarity=0.032 Sum_probs=96.7
Q ss_pred hcHHHHHHHH-----HccCCCC---hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHH
Q 000854 150 IQAFIVRECK-----RLEDGLP---IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKI 221 (1252)
Q Consensus 150 l~~~ll~~l~-----~~~~~lP---~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~ 221 (1252)
+...+.+.+. ..|+..| ++.|.+.|..++.+.+ ++..++||+|||+++..+++..... +..++++.|+|+
T Consensus 69 l~re~~~r~lg~~~~~~G~~~p~~~tp~qvQ~I~~i~l~~g-vIAeaqTGeGKTLAf~LP~l~~aL~-g~~v~IVTpTrE 146 (970)
T PRK12899 69 VVKNVCRRLAGTPVEVSGYHQQWDMVPYDVQILGAIAMHKG-FITEMQTGEGKTLTAVMPLYLNALT-GKPVHLVTVNDY 146 (970)
T ss_pred CCHHHHHHHhccccccccccCCCCCChHHHHHhhhhhcCCC-eEEEeCCCCChHHHHHHHHHHHHhh-cCCeEEEeCCHH
Confidence 4445555554 5788889 7777777777777766 5558999999999977777654433 234788899999
Q ss_pred HHHHHHHHHHHHhcCCCCCceEEEecCCCcc----ccCCCeEEEEChHHH-HHHHhcCC-CCC-------ceeEEEEccc
Q 000854 222 AAISLAQRVREESRGCYEDDSVICYPSFSSA----QHFDSKVIYMTDHCL-LQHFMNDR-DLS-------RISCIIVDEA 288 (1252)
Q Consensus 222 LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~----~~~~t~Iiv~Tpg~L-l~~L~~~~-~L~-------~ls~IVIDEa 288 (1252)
||.|.++.+....... +..++......+. ...+++|+|+|||+| ++++.... .++ .+.++|||||
T Consensus 147 LA~Qdae~m~~L~k~l--GLsV~~i~GG~~~~eq~~~y~~DIVygTPgRLgfDyLrd~~~~~~~~~~vqr~~~~~IIDEA 224 (970)
T PRK12899 147 LAQRDCEWVGSVLRWL--GLTTGVLVSGSPLEKRKEIYQCDVVYGTASEFGFDYLRDNSIATRKEEQVGRGFYFAIIDEV 224 (970)
T ss_pred HHHHHHHHHHHHHhhc--CCeEEEEeCCCCHHHHHHHcCCCEEEECCChhHHHHhhCCCCCcCHHHhhcccccEEEEech
Confidence 9999999998876432 2334432221111 123589999999999 98887663 333 5689999999
Q ss_pred cc
Q 000854 289 HE 290 (1252)
Q Consensus 289 HE 290 (1252)
|.
T Consensus 225 Ds 226 (970)
T PRK12899 225 DS 226 (970)
T ss_pred hh
Confidence 93
No 110
>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=99.65 E-value=2e-15 Score=157.32 Aligned_cols=156 Identities=19% Similarity=0.217 Sum_probs=106.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY 246 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~ 246 (1252)
+.|++.+..++ +++.+++.||||+|||+++..+++..... ...++++++|+++++.|+.+++........ .......
T Consensus 2 ~~Q~~~~~~i~-~~~~~li~aptGsGKT~~~~~~~l~~~~~~~~~~~lii~P~~~l~~q~~~~~~~~~~~~~-~~~~~~~ 79 (169)
T PF00270_consen 2 PLQQEAIEAII-SGKNVLISAPTGSGKTLAYILPALNRLQEGKDARVLIIVPTRALAEQQFERLRKFFSNTN-VRVVLLH 79 (169)
T ss_dssp HHHHHHHHHHH-TTSEEEEECSTTSSHHHHHHHHHHHHHHTTSSSEEEEEESSHHHHHHHHHHHHHHTTTTT-SSEEEES
T ss_pred HHHHHHHHHHH-cCCCEEEECCCCCccHHHHHHHHHhhhccCCCceEEEEeecccccccccccccccccccc-ccccccc
Confidence 45666666666 56667789999999999987777654333 235899999999999999999998875411 1222222
Q ss_pred cCCCcc------ccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHh--ccCCCcEEee
Q 000854 247 PSFSSA------QHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLC--RRFDLRLVIM 317 (1252)
Q Consensus 247 ~~~~~~------~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~--~~~~lqiIlm 317 (1252)
...... ...+.+|+|+||++|++.+.... .+.++++||+||+|+ ....++...+...+.. ..++.++++|
T Consensus 80 ~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~~~~~iViDE~h~-l~~~~~~~~~~~i~~~~~~~~~~~~i~~ 158 (169)
T PF00270_consen 80 GGQSISEDQREVLSNQADILVTTPEQLLDLISNGKINISRLSLIVIDEAHH-LSDETFRAMLKSILRRLKRFKNIQIILL 158 (169)
T ss_dssp TTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGTTESEEEEETHHH-HHHTTHHHHHHHHHHHSHTTTTSEEEEE
T ss_pred ccccccccccccccccccccccCcchhhccccccccccccceeeccCcccc-cccccHHHHHHHHHHHhcCCCCCcEEEE
Confidence 222111 12469999999999999987743 566799999999994 3332333333222222 2346899999
Q ss_pred ccCCCHHHHH
Q 000854 318 SATADAHQLS 327 (1252)
Q Consensus 318 SATld~~~l~ 327 (1252)
|||++ ..+.
T Consensus 159 SAT~~-~~~~ 167 (169)
T PF00270_consen 159 SATLP-SNVE 167 (169)
T ss_dssp ESSST-HHHH
T ss_pred eeCCC-hhHh
Confidence 99998 5544
No 111
>PF07717 OB_NTP_bind: Oligonucleotide/oligosaccharide-binding (OB)-fold; InterPro: IPR011709 This domain is found towards the C terminus of the DEAD-box helicases (IPR011545 from INTERPRO). In these helicases it appears to be always found in association with IPR007502 from INTERPRO. ; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=99.64 E-value=2.8e-16 Score=154.88 Aligned_cols=107 Identities=27% Similarity=0.392 Sum_probs=74.6
Q ss_pred HHHHHHHHHhhccccCcccc---C--CCCCCcccHHHHHHHHHHhcchhhhhhccCCCCCeEEEecCeeEEECCCCcccc
Q 000854 684 KELETCLEKELAIIIPSYWL---W--NPHKYTEYDKWLKEIILSALAENVAMFSGYDQLGYEVAMTGQHVQLHPSCSLLI 758 (1252)
Q Consensus 684 ~QL~~~L~~elg~~~~~~~~---~--n~~~~~~~~~~i~~~L~agf~~NVAr~~~~~~~gY~~~~~g~~v~IHPSSvL~~ 758 (1252)
+||.++| +++|++..+... . .++.+..+...|+++|++|||||||++... ..|.++..+..|+|||+|++
T Consensus 1 ~QL~~il-~~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~aG~~~nvA~~~~~--~~y~~~~~~~~v~iHPsS~l-- 75 (114)
T PF07717_consen 1 KQLLRIL-ERIGFVPQSASSQSISQRPPNENRDQWELIRAALCAGFYPNVARRDNK--GSYKTLSNGQPVFIHPSSVL-- 75 (114)
T ss_dssp HHHHHHH-HHTT----------TTST-----HTHCHHHHHHHHHHHCCCEEEE-TT--SSEEETTTG-EEEE-TTSTT--
T ss_pred CHHHHHH-HHcCCCCCccccccccccccccccccHHHHHHHHHHhhhhheEEeCCC--CCEEEecCCCEEEEecCccc--
Confidence 4777777 557776543311 0 011111345789999999999999987633 34888878889999999998
Q ss_pred cCCCCCEEEEEEecccccceeeeecccCHhhHhhhCC
Q 000854 759 FGQKPTWVVFGELLSVNNQYLVCVTAFDFDSLSTLCP 795 (1252)
Q Consensus 759 f~~~PewVVy~Elv~Tsk~Ylr~vt~Id~~wL~~l~p 795 (1252)
++.+|+||+|+|++.|++.||++||+|+++||..++|
T Consensus 76 ~~~~p~~vvy~e~~~t~k~y~~~~t~I~~~wl~~~~~ 112 (114)
T PF07717_consen 76 FKKPPKWVVYHELVRTSKPYMRDVTAISPEWLLLFAP 112 (114)
T ss_dssp TTTT-SEEEEEEEEESSSEEEEEEEE--HHHHHHH-T
T ss_pred cccccccchhhhheecCCcEEEECcCCCHHHHHHHcc
Confidence 8889999999999999999999999999999999998
No 112
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=99.64 E-value=2.9e-15 Score=182.21 Aligned_cols=157 Identities=17% Similarity=0.238 Sum_probs=104.1
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC--CceEE
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVCTQPRKIAAISLAQRVREESRGCYE--DDSVI 244 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~--~~~vg 244 (1252)
..|.+.+..+..+.-++|+|||.+|||.+-+ +..+..+ ...+-|+++.|+++|..|++..+......... +.+.-
T Consensus 514 ~WQ~elLDsvDr~eSavIVAPTSaGKTfisf-Y~iEKVLResD~~VVIyvaPtKaLVnQvsa~VyaRF~~~t~~rg~sl~ 592 (1330)
T KOG0949|consen 514 EWQRELLDSVDRNESAVIVAPTSAGKTFISF-YAIEKVLRESDSDVVIYVAPTKALVNQVSANVYARFDTKTFLRGVSLL 592 (1330)
T ss_pred HHHHHHhhhhhcccceEEEeeccCCceeccH-HHHHHHHhhcCCCEEEEecchHHHhhhhhHHHHHhhccCccccchhhH
Confidence 3466777888888888888999999997533 3333221 23457889999999999999888766532221 21111
Q ss_pred E-ecCCCccccCCCeEEEEChHHHHHHHhcCC----CCCceeEEEEccccccccch-h-hHHHHHHHHHhccCCCcEEee
Q 000854 245 C-YPSFSSAQHFDSKVIYMTDHCLLQHFMNDR----DLSRISCIIVDEAHERSLNT-D-LLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 245 ~-~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~----~L~~ls~IVIDEaHER~l~~-d-~ll~llk~l~~~~~~lqiIlm 317 (1252)
. ..+.-....-+++|+|+-|+.+-..|.+-| +..++++||+||+|.-+-.- + +.+.++ .--..+++++
T Consensus 593 g~ltqEYsinp~nCQVLITvPecleslLlspp~~q~~cerIRyiIfDEVH~iG~~ed~l~~Eqll-----~li~CP~L~L 667 (1330)
T KOG0949|consen 593 GDLTQEYSINPWNCQVLITVPECLESLLLSPPHHQKFCERIRYIIFDEVHLIGNEEDGLLWEQLL-----LLIPCPFLVL 667 (1330)
T ss_pred hhhhHHhcCCchhceEEEEchHHHHHHhcCchhhhhhhhcceEEEechhhhccccccchHHHHHH-----HhcCCCeeEE
Confidence 1 111111122368999999999988887643 78999999999999422111 1 222222 2235789999
Q ss_pred ccCC-CHHHHHhhhh
Q 000854 318 SATA-DAHQLSKYFY 331 (1252)
Q Consensus 318 SATl-d~~~l~~~f~ 331 (1252)
|||+ |+..+..|++
T Consensus 668 SATigN~~l~qkWln 682 (1330)
T KOG0949|consen 668 SATIGNPNLFQKWLN 682 (1330)
T ss_pred ecccCCHHHHHHHHH
Confidence 9994 6888888886
No 113
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.63 E-value=2.2e-14 Score=174.97 Aligned_cols=333 Identities=15% Similarity=0.145 Sum_probs=201.4
Q ss_pred CCChHHHHHHHHHHHh----cCCeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecCcHHHHHHHHHHHHHHHhcCCC
Q 000854 164 GLPIYMYRQDILRRIY----GEQILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQPRKIAAISLAQRVREESRGCY 238 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~----~~~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~ 238 (1252)
.-|-+-|+.+|-...+ +++-+++++.||+|||..+.+++.... .+.-++||+++-|++|..|....+.......
T Consensus 164 i~~RyyQ~~AI~rv~Eaf~~g~~raLlvMATGTGKTrTAiaii~rL~r~~~~KRVLFLaDR~~Lv~QA~~af~~~~P~~- 242 (875)
T COG4096 164 IGPRYYQIIAIRRVIEAFSKGQNRALLVMATGTGKTRTAIAIIDRLIKSGWVKRVLFLADRNALVDQAYGAFEDFLPFG- 242 (875)
T ss_pred ccchHHHHHHHHHHHHHHhcCCceEEEEEecCCCcceeHHHHHHHHHhcchhheeeEEechHHHHHHHHHHHHHhCCCc-
Confidence 4466777777755442 445678889999999965444443221 1224689999999999999998888775321
Q ss_pred CCceEEEecCCCccccCCCeEEEEChHHHHHHHhcC-C-----CCCceeEEEEccccccccchhhHHHHHHHHHhccCCC
Q 000854 239 EDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMND-R-----DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDL 312 (1252)
Q Consensus 239 ~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~-~-----~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~l 312 (1252)
..+.. -.+......++|.++|...+...+... . .-..+++||||||| |++....- +++.-+. .
T Consensus 243 --~~~n~--i~~~~~~~s~~i~lsTyqt~~~~~~~~~~~~~~f~~g~FDlIvIDEaH-Rgi~~~~~-~I~dYFd-----A 311 (875)
T COG4096 243 --TKMNK--IEDKKGDTSSEIYLSTYQTMTGRIEQKEDEYRRFGPGFFDLIVIDEAH-RGIYSEWS-SILDYFD-----A 311 (875)
T ss_pred --cceee--eecccCCcceeEEEeehHHHHhhhhccccccccCCCCceeEEEechhh-hhHHhhhH-HHHHHHH-----H
Confidence 11111 111222235799999999988776544 1 44568999999999 88776543 2222221 1
Q ss_pred cEEeeccCCCHH---HHHhhhhcCCeEEEe-------ccc-----ceeEEEEe-----cCCCC-----------------
Q 000854 313 RLVIMSATADAH---QLSKYFYDCGISHVV-------GRN-----FPVDVRYV-----PCATA----------------- 355 (1252)
Q Consensus 313 qiIlmSATld~~---~l~~~f~~~~vi~i~-------gr~-----~pV~i~y~-----~~~~s----------------- 355 (1252)
-++++|||+... .--.||.+.|+.... |.. ..+...+. +...+
T Consensus 312 ~~~gLTATP~~~~d~~T~~~F~g~Pt~~YsleeAV~DGfLvpy~vi~i~~~~~~~G~~~~~~serek~~g~~i~~dd~~~ 391 (875)
T COG4096 312 ATQGLTATPKETIDRSTYGFFNGEPTYAYSLEEAVEDGFLVPYKVIRIDTDFDLDGWKPDAGSEREKLQGEAIDEDDQNF 391 (875)
T ss_pred HHHhhccCcccccccccccccCCCcceeecHHHHhhccccCCCCceEEeeeccccCcCcCccchhhhhhccccCcccccc
Confidence 234559996532 123567555543221 111 11111111 00000
Q ss_pred ------CCccccchHHHHHHHHHHhhhc--CC--CCcEEEEeCCHHHHHHHHHHcCC-----CCCeeEeecCCCCHHhhh
Q 000854 356 ------GTSAVASYVSDVVRMVGEVHTT--EK--EGTILAFLTSKMEVEWACEKFDA-----PSAVALPFHGQLSFDEQF 420 (1252)
Q Consensus 356 ------~~~~~~~~~~~~~~~l~~i~~~--~~--~g~iLVFl~s~~eie~la~~L~~-----~~~~v~~LHg~Ls~~eR~ 420 (1252)
.........+.+...+.+.+.. .. .+++||||.+..+++.+.+.|.+ .+--+..+.|.-...+
T Consensus 392 ~~~d~dr~~v~~~~~~~V~r~~~~~l~~~~~g~~~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~~~~q-- 469 (875)
T COG4096 392 EARDFDRTLVIPFRTETVARELTEYLKRGATGDEIGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDAEQAQ-- 469 (875)
T ss_pred cccccchhccccchHHHHHHHHHHHhccccCCCccCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccchhhH--
Confidence 0001112234455566666655 22 47999999999999999998864 2233555666543332
Q ss_pred hhcccC-C--CceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-----
Q 000854 421 CVFKSY-P--GRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE----- 492 (1252)
Q Consensus 421 ~v~~~f-~--G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~----- 492 (1252)
..++.| . .-.+|.++.+.+.||||+|.|..+|-.-..+ |+.-|.||+||+-|..
T Consensus 470 ~~Id~f~~ke~~P~IaitvdlL~TGiDvpev~nlVF~r~Vr------------------SktkF~QMvGRGTRl~~~~~~ 531 (875)
T COG4096 470 ALIDNFIDKEKYPRIAITVDLLTTGVDVPEVVNLVFDRKVR------------------SKTKFKQMVGRGTRLCPDLGG 531 (875)
T ss_pred HHHHHHHhcCCCCceEEehhhhhcCCCchheeeeeehhhhh------------------hHHHHHHHhcCccccCccccC
Confidence 234555 2 3458999999999999999998888543322 6688999999999983
Q ss_pred CC---eEEEecChh---hhccCCCCCCccccccchHHHHHHH
Q 000854 493 PG---RCYRLYSKS---DFETRPLNQEPEIHRVHLGIAVLRI 528 (1252)
Q Consensus 493 ~G---~c~~Lyt~~---d~~~~~~~~~PEI~r~~L~~~vL~l 528 (1252)
|| ..|.++.-. ++-.|.+...+.-.+..++.-++.-
T Consensus 532 ~~~dK~~F~ifDf~~~~~~~~~~~~~~e~~~~~~l~~rLF~~ 573 (875)
T COG4096 532 PEQDKEFFTIFDFVDNTEYFEMDPEMREGRVRVSLEQRLFAD 573 (875)
T ss_pred ccccceeEEEEEhhhhhhhhccCcccccccccchHHHHHhhh
Confidence 22 344444432 2334666667777777777655543
No 114
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=99.63 E-value=6.1e-17 Score=194.81 Aligned_cols=452 Identities=7% Similarity=-0.161 Sum_probs=327.7
Q ss_pred chhhhcHHHHHHHHHc--------cCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc----cCCeE
Q 000854 146 DWSRIQAFIVRECKRL--------EDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA----AEQSI 213 (1252)
Q Consensus 146 ~~~rl~~~ll~~l~~~--------~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~----~~~~I 213 (1252)
+.......+++.+... ..-.|+.+..+.|++++..+.+.++.+.||||||++.++++++.-.. ..+.+
T Consensus 378 pva~~~~~i~q~v~dn~v~~I~getgcgk~tq~aq~iLe~~~~ns~g~~~na~v~qprrisaisiaerva~er~e~~g~t 457 (1282)
T KOG0921|consen 378 PVAQYRSEILQAVAENRVVIIKGETGCGKSTQVAQFLLESFLENSNGASFNAVVSQPRRISAISLAERVANERGEEVGET 457 (1282)
T ss_pred cHHHHHHHHHHHHhcCceeeEeecccccchhHHHHHHHHHHhhccccccccceeccccccchHHHHHHHHHhhHHhhccc
Confidence 3333445566665542 34578999999999999999999999999999999999999886322 23478
Q ss_pred EecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc-cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccc
Q 000854 214 VCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS-AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERS 292 (1252)
Q Consensus 214 Lv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~-~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~ 292 (1252)
+..+||++.|...+.++.-+.. ...+...++...+.. ......-+..+|.+.|+..+..+ +....+.+.||.|+++
T Consensus 458 vgy~vRf~Sa~prpyg~i~fct-vgvllr~~e~glrg~sh~i~deiherdv~~dfll~~lr~--m~~ty~dl~v~lmsat 534 (1282)
T KOG0921|consen 458 CGYNVRFDSATPRPYGSIMFCT-VGVLLRMMENGLRGISHVIIDEIHERDVDTDFVLIVLRE--MISTYRDLRVVLMSAT 534 (1282)
T ss_pred ccccccccccccccccceeeec-cchhhhhhhhcccccccccchhhhhhccchHHHHHHHHh--hhccchhhhhhhhhcc
Confidence 8999999999888877665531 111222222222221 22233456678888888877665 4566788999999999
Q ss_pred cchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhcCCeEEEecccceeEEEEec------CC-----C-------
Q 000854 293 LNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYDCGISHVVGRNFPVDVRYVP------CA-----T------- 354 (1252)
Q Consensus 293 l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~~~vi~i~gr~~pV~i~y~~------~~-----~------- 354 (1252)
+|+|++..++..+ +++.++++|.+...|-.++-.++..+++++.++++-++.. .. .
T Consensus 535 IdTd~f~~~f~~~------p~~~~~grt~pvq~F~led~~~~~~~vp~~~~~~k~k~~~~~~~~~~ddK~~n~n~~~dd~ 608 (1282)
T KOG0921|consen 535 IDTDLFTNFFSSI------PDVTVHGRTFPVQSFFLEDIIQMTQFVPSEPSQKKRKKDDDEEDEEVDDKGRNMNILCDPS 608 (1282)
T ss_pred cchhhhhhhhccc------cceeeccccccHHHHHHHHhhhhhhccCCCcCccchhhcccccCchhhhcccccccccChh
Confidence 9999999888765 4568999999999988888788888888887766543210 00 0
Q ss_pred ------------CCCccccchHHHHHHHH------HHhhhcCCCCcEEEEeCCHHHHHHH------HHHcCCCCCeeEee
Q 000854 355 ------------AGTSAVASYVSDVVRMV------GEVHTTEKEGTILAFLTSKMEVEWA------CEKFDAPSAVALPF 410 (1252)
Q Consensus 355 ------------s~~~~~~~~~~~~~~~l------~~i~~~~~~g~iLVFl~s~~eie~l------a~~L~~~~~~v~~L 410 (1252)
+.........+.....+ ..+..-.+++..|+|++++.-.... ++.|-.+...+.+.
T Consensus 609 ~~~~~~~am~~~se~d~~f~l~Eal~~~i~s~~i~gailvflpgwa~i~~L~~~ll~~~~fg~~~~y~ilp~Hsq~~~~e 688 (1282)
T KOG0921|consen 609 YNESTRTAMSRLSEKDIPFGLIEALLNDIASRNIDGAVLVFLPGWAEIMTLCNRLLEHQEFGQANKYEILPLHSQLTSQE 688 (1282)
T ss_pred hcchhhhhhhcchhhcchhHHHHHHHhhhcccCCccceeeecCchHHhhhhhhhhhhhhhhccchhcccccchhhcccHh
Confidence 12223333333322221 1233336788999999988765433 34565566778899
Q ss_pred cCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccC
Q 000854 411 HGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAG 489 (1252)
Q Consensus 411 Hg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAG 489 (1252)
|..+...++..+++.. ++.+++...|+..++.|.+-++.+|+++...+...+-....++.....|-+...-.||.||++
T Consensus 689 qrkvf~~~p~gv~kii~stniaetsiTidd~v~vid~cka~~~~~~s~nn~~~~Atvw~sktn~eqr~gr~grvR~G~~f 768 (1282)
T KOG0921|consen 689 QRKVFEPVPEGVTKIILSTNIAETSITIDDVVYVIDSCKAKEKLFTSHNNMTHYATVWASKTNLEQRKGRAGRVRPGFCF 768 (1282)
T ss_pred hhhccCcccccccccccccceeeEeeeecceeEEEeeeeeeeeeeccccceeeeeeecccccchHhhcccCceecccccc
Confidence 9999999999999988 899999999999999999999999999998887777677778888888999999999999999
Q ss_pred CCCCCeEEEecChhhhccCCCCCCccccccchHHHHHHHhHcCCCCcccc--ccCCCCcHHHHHHHHHHHHHcCcccccC
Q 000854 490 RTEPGRCYRLYSKSDFETRPLNQEPEIHRVHLGIAVLRILALGIRDVQGF--DFIDAPSAKAIEMAIRNLVQLGAIKLNN 567 (1252)
Q Consensus 490 R~~~G~c~~Lyt~~d~~~~~~~~~PEI~r~~L~~~vL~lk~lgi~~~~~f--~~ldpP~~~~l~~Al~~L~~lgal~~~~ 567 (1252)
|...+.||.++.......|...+.+||.++.+....+.++-+-.+.+..+ +.+.+|+... ..+..|...+.+...+
T Consensus 769 ~lcs~arF~~l~~~~t~em~r~plhemalTikll~l~SI~~fl~kal~~~p~dav~e~e~~l--~~m~~ld~n~elt~lg 846 (1282)
T KOG0921|consen 769 HLCSRARFEALEDHGTAEMFRTPLHEIALTIKLLRLGSIGEFLGKALQPPPYDAVIEAEAVL--REMGALDANDELTPLG 846 (1282)
T ss_pred cccHHHHHHHHHhcCcHhhhcCccHHHHhhHHHHHhhhHHHHHhhccCCCchhhccCchHHH--HHhhhhhccCcccchh
Confidence 99999999999999999999999999999887766666655434445445 4556655544 4444455555444433
Q ss_pred CcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHH
Q 000854 568 GVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAA 609 (1252)
Q Consensus 568 ~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA 609 (1252)
...+|++++.....|+.|..+++....+.+-..+....+++
T Consensus 847 -~~la~l~iep~~~k~~~lg~~~g~~~~m~~~as~~s~~~~~ 887 (1282)
T KOG0921|consen 847 -RMLARLPIEPRIGKMMILGTALGAGSVMCDVASAMSFPTPF 887 (1282)
T ss_pred -hhhhhccCcccccceeeechhhccchhhhhhhccccccccc
Confidence 45799999999999999999998766554433333344443
No 115
>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=99.58 E-value=8e-14 Score=175.88 Aligned_cols=301 Identities=13% Similarity=0.141 Sum_probs=172.6
Q ss_pred CCChHHHHHHHHHHHhc---------CCeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 164 GLPIYMYRQDILRRIYG---------EQILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~---------~~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
..|.+.|..++-.++.. ++..+|..+||||||..+...+... ......+|++++||++|..|+.+.+...
T Consensus 237 ~~~r~~Q~~av~~~~~~~~~~~~~~~~~~gli~~~TGsGKT~t~~~la~~l~~~~~~~~vl~lvdR~~L~~Q~~~~f~~~ 316 (667)
T TIGR00348 237 PYQRYMQYRAVKKIVESITRKTWGKDERGGLIWHTQGSGKTLTMLFAARKALELLKNPKVFFVVDRRELDYQLMKEFQSL 316 (667)
T ss_pred eehHHHHHHHHHHHHHHHHhcccCCCCceeEEEEecCCCccHHHHHHHHHHHhhcCCCeEEEEECcHHHHHHHHHHHHhh
Confidence 45777787776555432 4567888999999996543332211 1233568999999999999999999886
Q ss_pred hcCCCCCceEEEecCCCc-cccCCCeEEEEChHHHHHHHhcC--C-CCCc-eeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 234 SRGCYEDDSVICYPSFSS-AQHFDSKVIYMTDHCLLQHFMND--R-DLSR-ISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 234 ~~~~~~~~~vg~~~~~~~-~~~~~t~Iiv~Tpg~Ll~~L~~~--~-~L~~-ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
...+.. .++....... ......+|+|+|...|.+.+... . .... --+||+|||| |+....+.. .+...
T Consensus 317 ~~~~~~--~~~s~~~L~~~l~~~~~~iivtTiQk~~~~~~~~~~~~~~~~~~~lvIvDEaH-rs~~~~~~~----~l~~~ 389 (667)
T TIGR00348 317 QKDCAE--RIESIAELKRLLEKDDGGIIITTIQKFDKKLKEEEEKFPVDRKEVVVIFDEAH-RSQYGELAK----NLKKA 389 (667)
T ss_pred CCCCCc--ccCCHHHHHHHHhCCCCCEEEEEhHHhhhhHhhhhhccCCCCCCEEEEEEcCc-cccchHHHH----HHHhh
Confidence 422111 0110000000 11234689999999997644321 1 1111 1289999999 776554332 23334
Q ss_pred cCCCcEEeeccCCCH----HHHHhhhh---cCCeEEEe-----cccceeEEEEecCCCCC---Ccc--------------
Q 000854 309 RFDLRLVIMSATADA----HQLSKYFY---DCGISHVV-----GRNFPVDVRYVPCATAG---TSA-------------- 359 (1252)
Q Consensus 309 ~~~lqiIlmSATld~----~~l~~~f~---~~~vi~i~-----gr~~pV~i~y~~~~~s~---~~~-------------- 359 (1252)
.|+...++||||+-. ... ..|+ +..+.... ...+.+.+.|.+..... ...
T Consensus 390 ~p~a~~lGfTaTP~~~~d~~t~-~~f~~~fg~~i~~Y~~~~AI~dG~~~~i~Y~~~~~~~~~~~~~l~~~~~~~~~~~~~ 468 (667)
T TIGR00348 390 LKNASFFGFTGTPIFKKDRDTS-LTFAYVFGRYLHRYFITDAIRDGLTVKIDYEDRLPEDHLDRKKLDAFFDEIFELLPE 468 (667)
T ss_pred CCCCcEEEEeCCCccccccccc-ccccCCCCCeEEEeeHHHHhhcCCeeeEEEEecchhhccChHHHHHHHHHHHHhhhc
Confidence 578899999999632 112 2222 12221111 01123333343322100 000
Q ss_pred -ccch---------------------HHHHHH-HHHHhhhc--CCCCcEEEEeCCHHHHHHHHHHcCCC-----CCeeEe
Q 000854 360 -VASY---------------------VSDVVR-MVGEVHTT--EKEGTILAFLTSKMEVEWACEKFDAP-----SAVALP 409 (1252)
Q Consensus 360 -~~~~---------------------~~~~~~-~l~~i~~~--~~~g~iLVFl~s~~eie~la~~L~~~-----~~~v~~ 409 (1252)
..+. +..++. .+.+.... ...++.+|||.++..|..+++.|.+. +.....
T Consensus 469 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ia~~i~~h~~~~~~~~~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv 548 (667)
T TIGR00348 469 RIREITKESLKEKLQKTKKILFNEDRLESIAKDIAEHYAKFKELFKFKAMVVAISRYACVEEKNALDEELNEKFEASAIV 548 (667)
T ss_pred cccHHHHHHHHHHHHHHHhhhcChHHHHHHHHHHHHHHHHhhhcccCceeEEEecHHHHHHHHHHHHhhcccccCCeeEE
Confidence 0000 001111 11121111 23589999999999999888877432 234455
Q ss_pred ecCCCCHH---------------------hhhhhcccC--CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCC
Q 000854 410 FHGQLSFD---------------------EQFCVFKSY--PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGT 466 (1252)
Q Consensus 410 LHg~Ls~~---------------------eR~~v~~~f--~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~ 466 (1252)
++++.+.+ ....+.+.| ++..+|||.++.+.+|+|.|.+..++-.-
T Consensus 549 ~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~~~ilIVvdmllTGFDaP~l~tLyldK----------- 617 (667)
T TIGR00348 549 MTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEENPKLLIVVDMLLTGFDAPILNTLYLDK----------- 617 (667)
T ss_pred ecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCCceEEEEEcccccccCCCccceEEEec-----------
Confidence 55543322 123567778 36789999999999999999998887422
Q ss_pred CcccceecccCHhhHHHHhcccCCC
Q 000854 467 GMNVLRVCRVSQSSANQRAGRAGRT 491 (1252)
Q Consensus 467 ~~~~L~~~~iSkasy~QR~GRAGR~ 491 (1252)
|+.-..++|.+||+-|.
T Consensus 618 --------plk~h~LlQai~R~nR~ 634 (667)
T TIGR00348 618 --------PLKYHGLLQAIARTNRI 634 (667)
T ss_pred --------cccccHHHHHHHHhccc
Confidence 12224578999999994
No 116
>PF04408 HA2: Helicase associated domain (HA2); InterPro: IPR007502 This presumed domain is about 90 amino acid residues in length. It is found as a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.; GO: 0004386 helicase activity; PDB: 3I4U_A 2XAU_B 3KX2_B.
Probab=99.57 E-value=5.5e-15 Score=143.07 Aligned_cols=93 Identities=31% Similarity=0.448 Sum_probs=67.2
Q ss_pred HHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhccchhhHHHHHHHhhccCccccccCCchHHHHHH
Q 000854 552 MAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRRRLGREGLVLAAVMANASSIFCRVGSDDEKIKAD 631 (1252)
Q Consensus 552 ~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a~ 631 (1252)
+|++.|+.+|||+.++ .||++|+.|+.||++|++||||+.+..++|.+++++|||+|+. +++|..+...+++.+.+
T Consensus 1 ~A~~~L~~Lgald~~~---~lT~lG~~~~~lPl~p~~a~~Ll~~~~~~~~~~~~~iaa~ls~-~~~f~~~~~~~~~~~~~ 76 (102)
T PF04408_consen 1 KALELLKSLGALDENG---NLTPLGRKMSQLPLDPRLAKMLLYGIQFGCLDEALIIAAILSV-RSPFINPDDKEENAEQD 76 (102)
T ss_dssp -HHHHHHHTTSB-TTS----B-HHHHHHTTSSS-HHHHHHHHHHHHCT-HHHHHHHHHHHTS-S--B---CCGHHHHHH-
T ss_pred CHHHHHHHCCCCCCCC---CcCHHHHHHHHCCCchHhHhHhhhccccccHHHHHHHHHHHcC-CCcccCccHHHHHHHHH
Confidence 4889999999998766 7999999999999999999999999999999999999999987 88997755544444433
Q ss_pred hhhhh---------hcCCCCcHHHHH
Q 000854 632 CLKVQ---------FCHRNGDLFTLL 648 (1252)
Q Consensus 632 ~~~~~---------f~~~~gD~ltll 648 (1252)
..+.+ +.+..|||+|+|
T Consensus 77 ~~~~~~~~~~~~~~~~~~~sDhltlL 102 (102)
T PF04408_consen 77 NAKKKFRIKQARKKFSDDESDHLTLL 102 (102)
T ss_dssp -HHHTT----------BTTBHHHHHH
T ss_pred HHHHHhhhhhcccccCCCCCCHHhcC
Confidence 33333 478899999986
No 117
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.55 E-value=1.9e-14 Score=180.02 Aligned_cols=114 Identities=20% Similarity=0.190 Sum_probs=100.6
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCC
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGM 456 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~ 456 (1252)
..+.++||||++++.++.+++.|.+.++.+..+||++++.+|.++++.| .|+..|+|||+++++|+|+|++++||.++-
T Consensus 440 ~~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G~i~VLV~t~~L~rGfDiP~v~lVvi~Da 519 (655)
T TIGR00631 440 ARNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDA 519 (655)
T ss_pred cCCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcCCceEEEEcChhcCCeeeCCCcEEEEeCc
Confidence 4578999999999999999999999999999999999999999999999 899999999999999999999999998762
Q ss_pred CccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhh
Q 000854 457 VKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSD 504 (1252)
Q Consensus 457 pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d 504 (1252)
-.. ..|-|..+|+||+|||||..+|.++.+++..+
T Consensus 520 dif-------------G~p~~~~~~iqriGRagR~~~G~vi~~~~~~~ 554 (655)
T TIGR00631 520 DKE-------------GFLRSERSLIQTIGRAARNVNGKVIMYADKIT 554 (655)
T ss_pred ccc-------------cCCCCHHHHHHHhcCCCCCCCCEEEEEEcCCC
Confidence 111 01335589999999999999999999988643
No 118
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=99.55 E-value=5.4e-14 Score=163.93 Aligned_cols=279 Identities=18% Similarity=0.181 Sum_probs=175.6
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeE
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKV 259 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~I 259 (1252)
.+.+++-+|||.||||.-++|-+.+. ..-++.-|.|.||.++++++.+..-.|... .|-..++.......+..
T Consensus 190 ~RkIi~H~GPTNSGKTy~ALqrl~~a-----ksGvycGPLrLLA~EV~~r~na~gipCdL~--TGeE~~~~~~~~~~a~h 262 (700)
T KOG0953|consen 190 RRKIIMHVGPTNSGKTYRALQRLKSA-----KSGVYCGPLRLLAHEVYDRLNALGIPCDLL--TGEERRFVLDNGNPAQH 262 (700)
T ss_pred hheEEEEeCCCCCchhHHHHHHHhhh-----ccceecchHHHHHHHHHHHhhhcCCCcccc--ccceeeecCCCCCcccc
Confidence 34567778999999999888877654 345667899999999999999986444321 11111111111233567
Q ss_pred EEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc-cCCCcEEeeccCCCHHHHHhhhhcCCeEEE
Q 000854 260 IYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR-RFDLRLVIMSATADAHQLSKYFYDCGISHV 338 (1252)
Q Consensus 260 iv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~-~~~lqiIlmSATld~~~l~~~f~~~~vi~i 338 (1252)
+=||-+|.- .-..+++.||||++ .+-|.+-.-+.-+.++.. ...+.+-+=-|-++ .+.+.. ..
T Consensus 263 vScTVEM~s-------v~~~yeVAViDEIQ-mm~Dp~RGwAWTrALLGl~AdEiHLCGepsvld--lV~~i~------k~ 326 (700)
T KOG0953|consen 263 VSCTVEMVS-------VNTPYEVAVIDEIQ-MMRDPSRGWAWTRALLGLAADEIHLCGEPSVLD--LVRKIL------KM 326 (700)
T ss_pred eEEEEEEee-------cCCceEEEEehhHH-hhcCcccchHHHHHHHhhhhhhhhccCCchHHH--HHHHHH------hh
Confidence 778877652 23468999999999 455543333333333221 11222222111111 111211 12
Q ss_pred ecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCe-eEeecCCCCHH
Q 000854 339 VGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAV-ALPFHGQLSFD 417 (1252)
Q Consensus 339 ~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~-v~~LHg~Ls~~ 417 (1252)
.|. .+++++...-. .-.+++ .+..-+.+-.+|.++| |-|+++|-.+...+.+.+.. +..+||+|||+
T Consensus 327 TGd--~vev~~YeRl~------pL~v~~---~~~~sl~nlk~GDCvV-~FSkk~I~~~k~kIE~~g~~k~aVIYGsLPPe 394 (700)
T KOG0953|consen 327 TGD--DVEVREYERLS------PLVVEE---TALGSLSNLKPGDCVV-AFSKKDIFTVKKKIEKAGNHKCAVIYGSLPPE 394 (700)
T ss_pred cCC--eeEEEeecccC------cceehh---hhhhhhccCCCCCeEE-EeehhhHHHHHHHHHHhcCcceEEEecCCCCc
Confidence 222 23333222211 000111 1112233456788877 55788999999999876655 99999999999
Q ss_pred hhhhhcccC---CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC--
Q 000854 418 EQFCVFKSY---PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-- 492 (1252)
Q Consensus 418 eR~~v~~~f---~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-- 492 (1252)
.|..--..| ++..+|+||||+.++|+|+. |+-||-+.+-| |+ .-.+.+++.++..|-+|||||.+
T Consensus 395 Tr~aQA~~FNd~~~e~dvlVAsDAIGMGLNL~-IrRiiF~sl~K---ys------g~e~~~it~sqikQIAGRAGRf~s~ 464 (700)
T KOG0953|consen 395 TRLAQAALFNDPSNECDVLVASDAIGMGLNLN-IRRIIFYSLIK---YS------GRETEDITVSQIKQIAGRAGRFGSK 464 (700)
T ss_pred hhHHHHHHhCCCCCccceEEeecccccccccc-eeEEEEeeccc---CC------cccceeccHHHHHHHhhcccccccC
Confidence 988777777 48899999999999999995 77777666644 22 22456788899999999999985
Q ss_pred --CCeEEEecChh
Q 000854 493 --PGRCYRLYSKS 503 (1252)
Q Consensus 493 --~G~c~~Lyt~~ 503 (1252)
.|..-.|+.++
T Consensus 465 ~~~G~vTtl~~eD 477 (700)
T KOG0953|consen 465 YPQGEVTTLHSED 477 (700)
T ss_pred CcCceEEEeeHhh
Confidence 67777777654
No 119
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=99.52 E-value=1.3e-12 Score=161.60 Aligned_cols=272 Identities=19% Similarity=0.202 Sum_probs=173.4
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC-CCce
Q 000854 164 GLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCY-EDDS 242 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~-~~~~ 242 (1252)
..|...|+-=.-..+.+....+ .||||.||||-...+-+-.+ ..+.+++++.||+.|+.|+++++.+...... ....
T Consensus 81 ~~~ws~QR~WakR~~rg~SFai-iAPTGvGKTTfg~~~sl~~a-~kgkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~ 158 (1187)
T COG1110 81 FRPWSAQRVWAKRLVRGKSFAI-IAPTGVGKTTFGLLMSLYLA-KKGKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVL 158 (1187)
T ss_pred CCchHHHHHHHHHHHcCCceEE-EcCCCCchhHHHHHHHHHHH-hcCCeEEEEecCHHHHHHHHHHHHHHHhhcCCccee
Confidence 3566666665556666666655 59999999986433322221 2357899999999999999999998863322 2222
Q ss_pred EEEecCCCc---------cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccc---cccchhhHHHHH--------
Q 000854 243 VICYPSFSS---------AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHE---RSLNTDLLLALV-------- 302 (1252)
Q Consensus 243 vg~~~~~~~---------~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHE---R~l~~d~ll~ll-------- 302 (1252)
++|...... ..+.+.+|+|+|.+.|...+..-.. -++++|++|.||. .+-+.|-++.++
T Consensus 159 ~~yh~~l~~~ekee~le~i~~gdfdIlitTs~FL~k~~e~L~~-~kFdfifVDDVDA~LkaskNvDriL~LlGf~eE~i~ 237 (1187)
T COG1110 159 VVYHSALPTKEKEEALERIESGDFDILITTSQFLSKRFEELSK-LKFDFIFVDDVDAILKASKNVDRLLRLLGFSEEVIE 237 (1187)
T ss_pred eeeccccchHHHHHHHHHHhcCCccEEEEeHHHHHhhHHHhcc-cCCCEEEEccHHHHHhccccHHHHHHHcCCCHHHHH
Confidence 333222111 1234689999999998776644333 3789999999993 111222111111
Q ss_pred --------HH-HH---------------------hccCCCcEEeeccCCCH-----HHHHhhhhcCCeEEEecccceeEE
Q 000854 303 --------KD-LL---------------------CRRFDLRLVIMSATADA-----HQLSKYFYDCGISHVVGRNFPVDV 347 (1252)
Q Consensus 303 --------k~-l~---------------------~~~~~lqiIlmSATld~-----~~l~~~f~~~~vi~i~gr~~pV~i 347 (1252)
+. +. ...+.-++|.+|||..+ ..|.+.++ -.+=....-...+..
T Consensus 238 ~a~~~~~lr~~~~~~~~~~~~~e~~~~~e~~~~~~r~k~g~LvvsSATg~~rg~R~~LfReLlg-FevG~~~~~LRNIvD 316 (1187)
T COG1110 238 SAYELIKLRRKLYGEKRAERVREELREVEREREKKRRKLGILVVSSATGKPRGSRLKLFRELLG-FEVGSGGEGLRNIVD 316 (1187)
T ss_pred HHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhccCCceEEEeeccCCCCCchHHHHHHHhC-CccCccchhhhheee
Confidence 00 00 01134678999999543 33444443 110000001123333
Q ss_pred EEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCC---HHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcc
Q 000854 348 RYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTS---KMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFK 424 (1252)
Q Consensus 348 ~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s---~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~ 424 (1252)
.|... ...+..++++..+ +..+|||++. ++.++++++.|+..|+.+..+|+. ..+.++
T Consensus 317 ~y~~~---------~~~e~~~elvk~l-----G~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~-----~~~~le 377 (1187)
T COG1110 317 IYVES---------ESLEKVVELVKKL-----GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-----KEEALE 377 (1187)
T ss_pred eeccC---------ccHHHHHHHHHHh-----CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----chhhhh
Confidence 34332 1234444444332 3468999999 899999999999999999999984 367789
Q ss_pred cC-CCceEEEEec----hhhhhcCCCCC-eeEEEEcCCCc
Q 000854 425 SY-PGRRKVIFAT----NVAETSLTIPG-VKFVIDSGMVK 458 (1252)
Q Consensus 425 ~f-~G~~kVLVAT----niae~GIDIP~-V~~VId~g~pk 458 (1252)
.| .|+.+++|.. .++-||||+|. ++|+|-+|.|+
T Consensus 378 ~F~~GeidvLVGvAsyYG~lVRGlDLP~rirYaIF~GvPk 417 (1187)
T COG1110 378 DFEEGEVDVLVGVASYYGVLVRGLDLPHRIRYAVFYGVPK 417 (1187)
T ss_pred hhccCceeEEEEecccccceeecCCchhheeEEEEecCCc
Confidence 99 8999999986 58999999996 58999999996
No 120
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=99.51 E-value=3.4e-13 Score=167.77 Aligned_cols=301 Identities=18% Similarity=0.193 Sum_probs=178.0
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe-----cCCCccccC
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY-----PSFSSAQHF 255 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~-----~~~~~~~~~ 255 (1252)
....++.|-||||||..+.+.+.+. ...++++|+++|-..|..|+.+++...++.......-+.. ..+....+.
T Consensus 217 ~~~~Ll~GvTGSGKTEvYl~~i~~~-L~~GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G 295 (730)
T COG1198 217 FAPFLLDGVTGSGKTEVYLEAIAKV-LAQGKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRG 295 (730)
T ss_pred ccceeEeCCCCCcHHHHHHHHHHHH-HHcCCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcC
Confidence 4778889999999999888777553 4557899999999999999999999987522111111110 011112335
Q ss_pred CCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchh---hHHH-HHHHHHhccCCCcEEeeccCCCHHHHHhhhh
Q 000854 256 DSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTD---LLLA-LVKDLLCRRFDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d---~ll~-llk~l~~~~~~lqiIlmSATld~~~l~~~f~ 331 (1252)
..+|+++|---+. .-++++++|||||=|+-+.-.+ ...+ -+..+.....+.++|+-|||...+.+.+-..
T Consensus 296 ~~~vVIGtRSAlF------~Pf~~LGLIIvDEEHD~sYKq~~~prYhARdvA~~Ra~~~~~pvvLgSATPSLES~~~~~~ 369 (730)
T COG1198 296 EARVVIGTRSALF------LPFKNLGLIIVDEEHDSSYKQEDGPRYHARDVAVLRAKKENAPVVLGSATPSLESYANAES 369 (730)
T ss_pred CceEEEEechhhc------CchhhccEEEEeccccccccCCcCCCcCHHHHHHHHHHHhCCCEEEecCCCCHHHHHhhhc
Confidence 6899999954443 1578999999999996333221 1110 1122223445789999999999888776643
Q ss_pred c-CCeEEEecccc---eeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHH--------------
Q 000854 332 D-CGISHVVGRNF---PVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEV-------------- 393 (1252)
Q Consensus 332 ~-~~vi~i~gr~~---pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~ei-------------- 393 (1252)
+ -..+....|.. +.++....................++.+.+-+ ..+.++|+|+|.+.-.
T Consensus 370 g~y~~~~L~~R~~~a~~p~v~iiDmr~e~~~~~~~lS~~Ll~~i~~~l--~~geQ~llflnRRGys~~l~C~~Cg~v~~C 447 (730)
T COG1198 370 GKYKLLRLTNRAGRARLPRVEIIDMRKEPLETGRSLSPALLEAIRKTL--ERGEQVLLFLNRRGYAPLLLCRDCGYIAEC 447 (730)
T ss_pred CceEEEEccccccccCCCcceEEeccccccccCccCCHHHHHHHHHHH--hcCCeEEEEEccCCccceeecccCCCcccC
Confidence 3 12333343332 33333333222111000001222333332222 4567788888765422
Q ss_pred ----------------------------------------------HHHHHHcCC--CCCeeEeecCCCCHHh--hhhhc
Q 000854 394 ----------------------------------------------EWACEKFDA--PSAVALPFHGQLSFDE--QFCVF 423 (1252)
Q Consensus 394 ----------------------------------------------e~la~~L~~--~~~~v~~LHg~Ls~~e--R~~v~ 423 (1252)
+++.+.|.. ++..+.-+-++.+... -...+
T Consensus 448 p~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~~L~~~G~GterieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l 527 (730)
T COG1198 448 PNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSEHLRAVGPGTERIEEELKRLFPGARIIRIDSDTTRRKGALEDLL 527 (730)
T ss_pred CCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCCeeEEecccHHHHHHHHHHHCCCCcEEEEccccccchhhHHHHH
Confidence 111111111 3455666666654432 34567
Q ss_pred ccC-CCceEEEEechhhhhcCCCCCeeEEE--EcCCCccccccCCCCcccceecccCHhhHHHHhcccCCC-CCCeEEE
Q 000854 424 KSY-PGRRKVIFATNVAETSLTIPGVKFVI--DSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRT-EPGRCYR 498 (1252)
Q Consensus 424 ~~f-~G~~kVLVATniae~GIDIP~V~~VI--d~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~-~~G~c~~ 498 (1252)
..| +|+..|||.|.+++.|.|+|+|+.|. |.|.-- ..-|.+..-. .-.-+.|=+|||||. .+|..+.
T Consensus 528 ~~~~~ge~dILiGTQmiaKG~~fp~vtLVgvl~aD~~L-~~~DfRA~Er-------~fqll~QvaGRAgR~~~~G~VvI 598 (730)
T COG1198 528 DQFANGEADILIGTQMIAKGHDFPNVTLVGVLDADTGL-GSPDFRASER-------TFQLLMQVAGRAGRAGKPGEVVI 598 (730)
T ss_pred HHHhCCCCCeeecchhhhcCCCcccceEEEEEechhhh-cCCCcchHHH-------HHHHHHHHHhhhccCCCCCeEEE
Confidence 788 89999999999999999999999876 332210 0011111111 125678999999998 4887654
No 121
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.48 E-value=2e-13 Score=171.79 Aligned_cols=112 Identities=22% Similarity=0.205 Sum_probs=100.9
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCC
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGM 456 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~ 456 (1252)
..+.++||||++++.++.+++.|...++.+..+||++++.+|..+++.| +|+..|+|||+++++|+|+|++++||.++.
T Consensus 444 ~~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g~i~vlV~t~~L~rGfdlp~v~lVii~d~ 523 (652)
T PRK05298 444 AKGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDIPEVSLVAILDA 523 (652)
T ss_pred hCCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcCCceEEEEeCHHhCCccccCCcEEEEeCC
Confidence 4578899999999999999999999999999999999999999999999 899999999999999999999999998875
Q ss_pred CccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecCh
Q 000854 457 VKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSK 502 (1252)
Q Consensus 457 pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~ 502 (1252)
+... .|.+..+|+||+|||||...|.|+.+++.
T Consensus 524 eifG-------------~~~~~~~yiqr~GR~gR~~~G~~i~~~~~ 556 (652)
T PRK05298 524 DKEG-------------FLRSERSLIQTIGRAARNVNGKVILYADK 556 (652)
T ss_pred cccc-------------cCCCHHHHHHHhccccCCCCCEEEEEecC
Confidence 3321 13456889999999999989999999984
No 122
>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=99.48 E-value=7.1e-12 Score=162.79 Aligned_cols=135 Identities=17% Similarity=0.204 Sum_probs=90.0
Q ss_pred cchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC----CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEe
Q 000854 361 ASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA----PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFA 435 (1252)
Q Consensus 361 ~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~----~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVA 435 (1252)
..+...+...+..+.. ..+|++|||++|.+..+.+++.|.. .++.+. ..+.. ..|.++++.| .++..||++
T Consensus 656 ~~~~~~ia~~i~~l~~-~~~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~l--~q~~~-~~r~~ll~~F~~~~~~iLlg 731 (850)
T TIGR01407 656 EEYAQEIASYIIEITA-ITSPKILVLFTSYEMLHMVYDMLNELPEFEGYEVL--AQGIN-GSRAKIKKRFNNGEKAILLG 731 (850)
T ss_pred HHHHHHHHHHHHHHHH-hcCCCEEEEeCCHHHHHHHHHHHhhhccccCceEE--ecCCC-ccHHHHHHHHHhCCCeEEEE
Confidence 3455566677766654 3568999999999999999998864 233333 22332 5788899999 788999999
Q ss_pred chhhhhcCCCCCee--EEEEcCCCccccccCCC----------Cccccee--cccCHhhHHHHhcccCCCC--CCeEEEe
Q 000854 436 TNVAETSLTIPGVK--FVIDSGMVKESYFEPGT----------GMNVLRV--CRVSQSSANQRAGRAGRTE--PGRCYRL 499 (1252)
Q Consensus 436 Tniae~GIDIP~V~--~VId~g~pk~~~ydp~~----------~~~~L~~--~~iSkasy~QR~GRAGR~~--~G~c~~L 499 (1252)
|+.+.+|||+|+.. .||-.++|-..--||.. |-+.... .|-..-...|-+||.=|.. .|..+.+
T Consensus 732 t~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~il 811 (850)
T TIGR01407 732 TSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIVIL 811 (850)
T ss_pred cceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEEEE
Confidence 99999999999876 66677877432111110 0011100 1222355789999999986 5654443
No 123
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=99.47 E-value=1.6e-12 Score=167.62 Aligned_cols=110 Identities=12% Similarity=0.160 Sum_probs=94.1
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-C---CceEEEEechhhhhcCCCCCeeEEEEc
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-P---GRRKVIFATNVAETSLTIPGVKFVIDS 454 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~---G~~kVLVATniae~GIDIP~V~~VId~ 454 (1252)
.+.++|||+........+...|...++....+||+++.++|..+++.| . +...+|++|.+++.|||+...++||.+
T Consensus 486 ~g~KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~~~s~~~VfLLSTrAGGlGINLt~Ad~VIiy 565 (1033)
T PLN03142 486 RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATADIVILY 565 (1033)
T ss_pred cCCeEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhccccCCceEEEEeccccccCCchhhCCEEEEe
Confidence 467999999998888888888888899999999999999999999999 2 234679999999999999999999998
Q ss_pred CCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhhc
Q 000854 455 GMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDFE 506 (1252)
Q Consensus 455 g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~~ 506 (1252)
+.+ ||| +...|+.||+-|.| +=.+|+|+++...+
T Consensus 566 D~d----WNP--------------~~d~QAidRaHRIGQkk~V~VyRLIt~gTIE 602 (1033)
T PLN03142 566 DSD----WNP--------------QVDLQAQDRAHRIGQKKEVQVFRFCTEYTIE 602 (1033)
T ss_pred CCC----CCh--------------HHHHHHHHHhhhcCCCceEEEEEEEeCCcHH
Confidence 774 333 77889999999997 44688888886554
No 124
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=99.43 E-value=8.3e-12 Score=153.20 Aligned_cols=320 Identities=21% Similarity=0.166 Sum_probs=187.5
Q ss_pred HHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 154 IVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 154 ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
+.++.++.-...|...|--..+..+.++ +..+.||+|||+.+..+++-... .+..|-++.|+..||.+=++.+...
T Consensus 67 vREa~~R~lg~r~ydvQlig~l~Ll~G~---VaEM~TGEGKTLvA~l~a~l~AL-~G~~VhvvT~NdyLA~RDae~m~~l 142 (764)
T PRK12326 67 AREAAERTLGLRPFDVQLLGALRLLAGD---VIEMATGEGKTLAGAIAAAGYAL-QGRRVHVITVNDYLARRDAEWMGPL 142 (764)
T ss_pred HHHHHHHHcCCCcchHHHHHHHHHhCCC---cccccCCCCHHHHHHHHHHHHHH-cCCCeEEEcCCHHHHHHHHHHHHHH
Confidence 3445555556788888888887776542 34799999999875544443332 3567888899999999999999887
Q ss_pred hcCCCCCceEEEecCCCcc----ccCCCeEEEEChHH-----HHHHHhcCC---CCCceeEEEEccccccccc-------
Q 000854 234 SRGCYEDDSVICYPSFSSA----QHFDSKVIYMTDHC-----LLQHFMNDR---DLSRISCIIVDEAHERSLN------- 294 (1252)
Q Consensus 234 ~~~~~~~~~vg~~~~~~~~----~~~~t~Iiv~Tpg~-----Ll~~L~~~~---~L~~ls~IVIDEaHER~l~------- 294 (1252)
... .|..++........ ..-.++|+|+|..- |.+.+.... ....+.+.||||||.-.+|
T Consensus 143 y~~--LGLsvg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~R~~~faIVDEvDSiLIDeArtPLi 220 (764)
T PRK12326 143 YEA--LGLTVGWITEESTPEERRAAYACDVTYASVNEIGFDVLRDQLVTDVADLVSPNPDVAIIDEADSVLVDEALVPLV 220 (764)
T ss_pred HHh--cCCEEEEECCCCCHHHHHHHHcCCCEEcCCcccccccchhhhccChHhhcCCccceeeecchhhheeccccCcee
Confidence 643 34566654332221 12358999999864 344443222 4567889999999932111
Q ss_pred -------hhhHHHHHHHHHhccC--------CC-----------------------------------------------
Q 000854 295 -------TDLLLALVKDLLCRRF--------DL----------------------------------------------- 312 (1252)
Q Consensus 295 -------~d~ll~llk~l~~~~~--------~l----------------------------------------------- 312 (1252)
.+....+.+....+.+ +-
T Consensus 221 ISg~~~~~~~y~~~~~~v~~L~~~~dy~ide~~k~v~LTe~G~~~~e~~l~~~~ly~~~~~~~~~~~i~~AL~A~~l~~~ 300 (764)
T PRK12326 221 LAGSTPGEAPRGEIAELVRRLREGKDYEIDDDGRNVHLTDKGARKVEKALGGIDLYSEEHVGTTLTQVNVALHAHALLQR 300 (764)
T ss_pred eeCCCcchhHHHHHHHHHHhcCcCCcEEEEcCCCeeEecHHHHHHHHHHcCCccccCcchhHHHHHHHHHHHHHHHHHhc
Confidence 0111111111111111 11
Q ss_pred ---------------------------------------------------------------cEEeeccCCC--HHHHH
Q 000854 313 ---------------------------------------------------------------RLVIMSATAD--AHQLS 327 (1252)
Q Consensus 313 ---------------------------------------------------------------qiIlmSATld--~~~l~ 327 (1252)
++-+||.|.. .+.|.
T Consensus 301 d~dYiV~dgeV~iVDe~TGRvm~grrwsdGLHQaIEaKE~v~i~~e~~t~AsIT~QnfFr~Y~kLsGMTGTa~t~~~Ef~ 380 (764)
T PRK12326 301 DVHYIVRDGKVHLINASRGRIAQLQRWPDGLQAAVEAKEGLETTETGEVLDTITVQALIGRYPTVCGMTGTAVAAGEQLR 380 (764)
T ss_pred CCcEEEECCEEEEEECCCCCcCCCCccChHHHHHHHHHcCCCCCCCceeeehhhHHHHHHhcchheeecCCChhHHHHHH
Confidence 2333333321 11122
Q ss_pred hhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCee
Q 000854 328 KYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVA 407 (1252)
Q Consensus 328 ~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v 407 (1252)
+.+ +.+++.+|.. .|+.-.-.++.. ..........+++.+...+ ..+.+|||.+.+..+.+.+++.|.+.++..
T Consensus 381 ~iY-~l~Vv~IPtn-kp~~R~d~~d~i--y~t~~~k~~Aii~ei~~~~--~~GrPVLVgt~sI~~SE~ls~~L~~~gI~h 454 (764)
T PRK12326 381 QFY-DLGVSVIPPN-KPNIREDEADRV--YATAAEKNDAIVEHIAEVH--ETGQPVLVGTHDVAESEELAERLRAAGVPA 454 (764)
T ss_pred HHh-CCcEEECCCC-CCceeecCCCce--EeCHHHHHHHHHHHHHHHH--HcCCCEEEEeCCHHHHHHHHHHHHhCCCcc
Confidence 211 1223322221 111111001000 0001112223333343443 578899999999999999999999999988
Q ss_pred EeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCC---------------CeeEEEEcCCCccccccCCCCcccce
Q 000854 408 LPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIP---------------GVKFVIDSGMVKESYFEPGTGMNVLR 472 (1252)
Q Consensus 408 ~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP---------------~V~~VId~g~pk~~~ydp~~~~~~L~ 472 (1252)
..|++.-...| ..+...--..-.|.||||.|+||.||. +=-+||-+.++.
T Consensus 455 ~vLNAk~~~~E-A~IIa~AG~~gaVTIATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerhe-------------- 519 (764)
T PRK12326 455 VVLNAKNDAEE-ARIIAEAGKYGAVTVSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHR-------------- 519 (764)
T ss_pred eeeccCchHhH-HHHHHhcCCCCcEEEEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCc--------------
Confidence 88888744333 333333322347999999999999996 223666555443
Q ss_pred ecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 473 VCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 473 ~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
|+.-=.|-.|||||.| ||.+-.+.+-+|
T Consensus 520 ----SrRID~QLrGRaGRQGDpGss~f~lSleD 548 (764)
T PRK12326 520 ----SERLDNQLRGRAGRQGDPGSSVFFVSLED 548 (764)
T ss_pred ----hHHHHHHHhcccccCCCCCceeEEEEcch
Confidence 4444569999999998 999888777654
No 125
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=99.40 E-value=8.9e-12 Score=145.47 Aligned_cols=167 Identities=21% Similarity=0.205 Sum_probs=121.7
Q ss_pred CcEEeeccCCCHHHHHhhhhc--CCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCC
Q 000854 312 LRLVIMSATADAHQLSKYFYD--CGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTS 389 (1252)
Q Consensus 312 lqiIlmSATld~~~l~~~f~~--~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s 389 (1252)
.|+|..|||+....+..--+. -.++.-.|-..|. +...|. ...+++.+.-+..- ...+.++||-+-|
T Consensus 387 ~q~i~VSATPg~~E~e~s~~~vveQiIRPTGLlDP~-ievRp~--------~~QvdDL~~EI~~r--~~~~eRvLVTtLT 455 (663)
T COG0556 387 PQTIYVSATPGDYELEQSGGNVVEQIIRPTGLLDPE-IEVRPT--------KGQVDDLLSEIRKR--VAKNERVLVTTLT 455 (663)
T ss_pred CCEEEEECCCChHHHHhccCceeEEeecCCCCCCCc-eeeecC--------CCcHHHHHHHHHHH--HhcCCeEEEEeeh
Confidence 689999999876555432111 0111112222222 122222 12234433333222 2556899999999
Q ss_pred HHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCc
Q 000854 390 KMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGM 468 (1252)
Q Consensus 390 ~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~ 468 (1252)
++.++.+.+.|.+.|+++..+||++..-+|.+++... .|...|||.-|.+-.|+|+|.|..|...|--|+-+.
T Consensus 456 KkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G~~DvLVGINLLREGLDiPEVsLVAIlDADKeGFL------ 529 (663)
T COG0556 456 KKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLGEFDVLVGINLLREGLDLPEVSLVAILDADKEGFL------ 529 (663)
T ss_pred HHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcCCccEEEeehhhhccCCCcceeEEEEeecCccccc------
Confidence 9999999999999999999999999999999999999 799999999999999999999999986665555433
Q ss_pred ccceecccCHhhHHHHhcccCCCCCCeEEEecCh
Q 000854 469 NVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSK 502 (1252)
Q Consensus 469 ~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~ 502 (1252)
-|..+.+|-+|||+|.-.|+++.+...
T Consensus 530 -------Rse~SLIQtIGRAARN~~GkvIlYAD~ 556 (663)
T COG0556 530 -------RSERSLIQTIGRAARNVNGKVILYADK 556 (663)
T ss_pred -------cccchHHHHHHHHhhccCCeEEEEchh
Confidence 245778999999999999998876543
No 126
>cd00046 DEXDc DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Probab=99.40 E-value=3.7e-12 Score=126.25 Aligned_cols=135 Identities=24% Similarity=0.223 Sum_probs=94.9
Q ss_pred eEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccc------cC
Q 000854 183 ILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQ------HF 255 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~------~~ 255 (1252)
.+++.+|||+|||+++..++...... ...++++++|++.++.+..+.+...... ...+.......... ..
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~ 78 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGE---GIKVGYLIGGTSIKQQEKLLSG 78 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhC---CcEEEEEecCcchhHHHHHhcC
Confidence 46778999999999887777664332 4568999999999999999988887643 22333333332222 35
Q ss_pred CCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 256 DSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
..+|+++|++.+.+.+.... ....+++||+||+| ......................+++++|||+
T Consensus 79 ~~~i~i~t~~~~~~~~~~~~~~~~~~~~iiiDE~h-~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 79 KTDIVVGTPGRLLDELERLKLSLKKLDLLILDEAH-RLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred CCCEEEECcHHHHHHHHcCCcchhcCCEEEEeCHH-HHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence 78999999999988776554 55678999999999 3333333222222333456778999999995
No 127
>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=99.38 E-value=1.1e-12 Score=130.24 Aligned_cols=103 Identities=34% Similarity=0.450 Sum_probs=93.8
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCC
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMV 457 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~p 457 (1252)
.++++|||+++...++.+++.|.+.+..+..+||+++..+|..+++.| ++..+||++|+++++|+|+|+++.||..+.
T Consensus 27 ~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~ili~t~~~~~G~d~~~~~~vi~~~~- 105 (131)
T cd00079 27 KGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGEIVVLVATDVIARGIDLPNVSVVINYDL- 105 (131)
T ss_pred CCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCCCcEEEEcChhhcCcChhhCCEEEEeCC-
Confidence 578999999999999999999988889999999999999999999999 788999999999999999999999998766
Q ss_pred ccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEe
Q 000854 458 KESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRL 499 (1252)
Q Consensus 458 k~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~L 499 (1252)
+.+..++.|++||+||.+ .|.|+.+
T Consensus 106 -----------------~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 106 -----------------PWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred -----------------CCCHHHheecccccccCCCCceEEeC
Confidence 335588999999999998 8887653
No 128
>smart00847 HA2 Helicase associated domain (HA2) Add an annotation. This presumed domain is about 90 amino acid residues in length. It is found is a diverse set of RNA helicases. Its function is unknown, however it seems likely to be involved in nucleic acid binding.
Probab=99.37 E-value=1.2e-12 Score=123.96 Aligned_cols=90 Identities=30% Similarity=0.447 Sum_probs=75.6
Q ss_pred HHHHHHHHcCcccccCCcccccHhHHhhhccCCChHhHHHHHHHhhc-cchhhHHHHHHHhhccCccccccCCchHHHHH
Q 000854 552 MAIRNLVQLGAIKLNNGVFELTEEGKFLVKLGIEPRLGKLILSCFRR-RLGREGLVLAAVMANASSIFCRVGSDDEKIKA 630 (1252)
Q Consensus 552 ~Al~~L~~lgal~~~~~~~~lT~lGr~~a~lPldp~l~k~ll~~~~~-~c~~~~l~IaA~ls~~~~~f~~~~~~~~~~~a 630 (1252)
+|++.|+.+||||.++ .+|++|+.|+.||+||++||||+.+..+ +|.+++++|+|+++. .++|.++ ..+.+.
T Consensus 1 ~A~~~L~~LgAld~~~---~lT~lG~~m~~lPl~Prla~~Ll~a~~~~~c~~~~~~i~a~ls~-~~~~~~~---~~~~~~ 73 (92)
T smart00847 1 AALELLYELGALDDDG---RLTPLGRKMAELPLDPRLAKMLLAAAELFGCLDEILTIAAMLSV-GDPFPRP---EKRAEA 73 (92)
T ss_pred CHHHHHHHCCCcCCCC---CcCHHHHHHHHCCCChHHHHHHHHHHhhcCcHHHHHHHHHHhcC-CCCcCCc---hHHHHH
Confidence 3789999999998754 7999999999999999999999999999 899999999998864 4466433 445566
Q ss_pred HhhhhhhcCC-CCcHHHHH
Q 000854 631 DCLKVQFCHR-NGDLFTLL 648 (1252)
Q Consensus 631 ~~~~~~f~~~-~gD~ltll 648 (1252)
...+..|.+. .|||++++
T Consensus 74 ~~~~~~~~~~~~~D~~~~l 92 (92)
T smart00847 74 DAARRRFASGRESDHLTLL 92 (92)
T ss_pred HHHHHHccCCCCCChhhhC
Confidence 6677788888 89999864
No 129
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.36 E-value=1.7e-11 Score=129.12 Aligned_cols=159 Identities=20% Similarity=0.151 Sum_probs=107.3
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 162 EDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 162 ~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
+...|...|++.+...+.....+++.++||+|||+.+..++.+.... ...+++++.|++.++.|+.+++.........
T Consensus 5 ~~~~~~~~Q~~~~~~~~~~~~~~~i~~~~GsGKT~~~~~~~~~~~~~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~- 83 (201)
T smart00487 5 GFEPLRPYQKEAIEALLSGLRDVILAAPTGSGKTLAALLPALEALKRGKGKRVLVLVPTRELAEQWAEELKKLGPSLGL- 83 (201)
T ss_pred CCCCCCHHHHHHHHHHHcCCCcEEEECCCCCchhHHHHHHHHHHhcccCCCcEEEEeCCHHHHHHHHHHHHHHhccCCe-
Confidence 34456666666666655553777779999999999877777665332 2468999999999999999999887633211
Q ss_pred ceEEEecCCCc------cccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCc
Q 000854 241 DSVICYPSFSS------AQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLR 313 (1252)
Q Consensus 241 ~~vg~~~~~~~------~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lq 313 (1252)
........... ......+++++|++.+.+.+.... ...+++++|+||+|... ...+...+...+....+..+
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~~~~~~~~~~iIiDE~h~~~-~~~~~~~~~~~~~~~~~~~~ 162 (201)
T smart00487 84 KVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLENDLLELSNVDLVILDEAHRLL-DGGFGDQLEKLLKLLPKNVQ 162 (201)
T ss_pred EEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcCCcCHhHCCEEEEECHHHHh-cCCcHHHHHHHHHhCCccce
Confidence 11212122111 122223999999999999887765 67788999999999422 21333444444444457889
Q ss_pred EEeeccCCC
Q 000854 314 LVIMSATAD 322 (1252)
Q Consensus 314 iIlmSATld 322 (1252)
+++||||+.
T Consensus 163 ~v~~saT~~ 171 (201)
T smart00487 163 LLLLSATPP 171 (201)
T ss_pred EEEEecCCc
Confidence 999999984
No 130
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.36 E-value=1.9e-12 Score=162.64 Aligned_cols=168 Identities=20% Similarity=0.164 Sum_probs=118.4
Q ss_pred CcEEeeccCCCH--HHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCC
Q 000854 312 LRLVIMSATADA--HQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTS 389 (1252)
Q Consensus 312 lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s 389 (1252)
.++-+||.|... ..|.+.+ +.+++.+|.. .|+.-.-.++.. ..........++..+...+ ..+.++||||+|
T Consensus 534 ~kLaGMTGTA~te~~Ef~~iY-~L~Vv~IPTn-rP~~R~D~~d~v--y~t~~eK~~Ali~~I~~~~--~~grpVLIft~S 607 (1025)
T PRK12900 534 KKLAGMTGTAETEASEFFEIY-KLDVVVIPTN-KPIVRKDMDDLV--YKTRREKYNAIVLKVEELQ--KKGQPVLVGTAS 607 (1025)
T ss_pred hhhcccCCCChhHHHHHHHHh-CCcEEECCCC-CCcceecCCCeE--ecCHHHHHHHHHHHHHHHh--hCCCCEEEEeCc
Confidence 378899999643 3344443 4667777643 233222111110 0000111222333333333 467899999999
Q ss_pred HHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCC---CeeE-----EEEcCCCccc
Q 000854 390 KMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIP---GVKF-----VIDSGMVKES 460 (1252)
Q Consensus 390 ~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP---~V~~-----VId~g~pk~~ 460 (1252)
+..++.+++.|...++....+|+ .+.+|...+..| .+...|+||||+|+||+||+ +|.. ||++..|
T Consensus 608 ve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~~g~VtIATNMAGRGtDIkl~~~V~~vGGL~VIgterh--- 682 (1025)
T PRK12900 608 VEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQKGAVTIATNMAGRGTDIKLGEGVRELGGLFILGSERH--- 682 (1025)
T ss_pred HHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCCCCeEEEeccCcCCCCCcCCccchhhhCCceeeCCCCC---
Confidence 99999999999999999999997 577888888899 67789999999999999999 5543 3665553
Q ss_pred cccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhhh
Q 000854 461 YFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSDF 505 (1252)
Q Consensus 461 ~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d~ 505 (1252)
-|+..|.||+|||||.| ||.+..+++.+|.
T Consensus 683 ---------------es~Rid~Ql~GRtGRqGdpGsS~ffvSleD~ 713 (1025)
T PRK12900 683 ---------------ESRRIDRQLRGRAGRQGDPGESVFYVSLEDE 713 (1025)
T ss_pred ---------------chHHHHHHHhhhhhcCCCCcceEEEechhHH
Confidence 35577999999999998 9999999998764
No 131
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.33 E-value=3.2e-12 Score=148.28 Aligned_cols=311 Identities=14% Similarity=0.084 Sum_probs=191.0
Q ss_pred cCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHH------HHh
Q 000854 162 EDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVR------EES 234 (1252)
Q Consensus 162 ~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~------~~~ 234 (1252)
...-..+..+.++++.+..+..+++.-.|.+||++.......+. ........++..|+.++++.-.+-.. .++
T Consensus 282 ~~~E~~~~~~~~~~~~~~~G~~~~~~~~~~~GK~~~~~~~s~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~V~~~~I~~~ 361 (1034)
T KOG4150|consen 282 NTGESGIAISLELLKFASEGRADGGNEARQAGKGTCPTSGSRKFQTLCHATNSLLPSEMVEHLRNGSKGQVVHVEVIKAR 361 (1034)
T ss_pred ccccchhhhhHHHHhhhhhcccccccchhhcCCccCcccchhhhhhcCcccceecchhHHHHhhccCCceEEEEEehhhh
Confidence 33445556677777777778788888999999997521111110 11223456777788887654322110 111
Q ss_pred cCCCCCceEEEecCCCc-----cccCCCeEEEEChHHHHHHHhcCC-----CCCceeEEEEccccccccchh-hHHHHHH
Q 000854 235 RGCYEDDSVICYPSFSS-----AQHFDSKVIYMTDHCLLQHFMNDR-----DLSRISCIIVDEAHERSLNTD-LLLALVK 303 (1252)
Q Consensus 235 ~~~~~~~~vg~~~~~~~-----~~~~~t~Iiv~Tpg~Ll~~L~~~~-----~L~~ls~IVIDEaHER~l~~d-~ll~llk 303 (1252)
+.. .|..+..... ..+.+.+++|..|.+.......+. .+-...++++||+|-...-+. .....++
T Consensus 362 K~A----~V~~~D~~sE~~~~A~~R~~~~~~~s~~~~~~s~~L~~~~~~~~~~~~~~~~~~~~~~~Y~~~~~~~~~~~~R 437 (1034)
T KOG4150|consen 362 KSA----YVEMSDKLSETTKSALKRIGLNTLYSHQAEAISAALAKSLCYNVPVFEELCKDTNSCALYLFPTKALAQDQLR 437 (1034)
T ss_pred hcc----eeecccCCCchhHHHHHhcCcceeecCHHHHHHHHhhhccccccHHHHHHHhcccceeeeecchhhHHHHHHH
Confidence 111 1111111111 123467899999988765543322 344567899999994222222 2222233
Q ss_pred HHHh------ccCCCcEEeeccCCC--HHHHHhhhhc--CCeEEEecccceeEE--EEecCCCC-CCccccchHHHHHHH
Q 000854 304 DLLC------RRFDLRLVIMSATAD--AHQLSKYFYD--CGISHVVGRNFPVDV--RYVPCATA-GTSAVASYVSDVVRM 370 (1252)
Q Consensus 304 ~l~~------~~~~lqiIlmSATld--~~~l~~~f~~--~~vi~i~gr~~pV~i--~y~~~~~s-~~~~~~~~~~~~~~~ 370 (1252)
.+.. ...+++++-.|||.. ....++.|+- ...+++.|....-+. .+.|.... ........+.+...+
T Consensus 438 ~L~~L~~~F~~~~~~~~~~~~~~~K~~~~~~~~~~~~~E~~Li~~DGSPs~~K~~V~WNP~~~P~~~~~~~~~i~E~s~~ 517 (1034)
T KOG4150|consen 438 ALSDLIKGFEASINMGVYDGDTPYKDRTRLRSELANLSELELVTIDGSPSSEKLFVLWNPSAPPTSKSEKSSKVVEVSHL 517 (1034)
T ss_pred HHHHHHHHHHhhcCcceEeCCCCcCCHHHHHHHhcCCcceEEEEecCCCCccceEEEeCCCCCCcchhhhhhHHHHHHHH
Confidence 3332 345799999999953 3445555542 345666666544333 34443221 111222333444444
Q ss_pred HHHhhhcCCCCcEEEEeCCHHHHHHHHHHcC----CCC----CeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhh
Q 000854 371 VGEVHTTEKEGTILAFLTSKMEVEWACEKFD----APS----AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAET 441 (1252)
Q Consensus 371 l~~i~~~~~~g~iLVFl~s~~eie~la~~L~----~~~----~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~ 441 (1252)
+.++. ..+-++|.||++++-|+.+...-+ +-+ -.+..|.|+-..++|.++.... .|+.+-|+|||++|-
T Consensus 518 ~~~~i--~~~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G~L~giIaTNALEL 595 (1034)
T KOG4150|consen 518 FAEMV--QHGLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGGKLCGIIATNALEL 595 (1034)
T ss_pred HHHHH--HcCCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCCeeeEEEecchhhh
Confidence 44443 457799999999998886543322 111 2367789999999999999875 999999999999999
Q ss_pred cCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeE
Q 000854 442 SLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRC 496 (1252)
Q Consensus 442 GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c 496 (1252)
||||.+.+.|+..|+|- |.+++.|..|||||.. +..+
T Consensus 596 GIDIG~LDAVl~~GFP~------------------S~aNl~QQ~GRAGRRNk~SLa 633 (1034)
T KOG4150|consen 596 GIDIGHLDAVLHLGFPG------------------SIANLWQQAGRAGRRNKPSLA 633 (1034)
T ss_pred ccccccceeEEEccCch------------------hHHHHHHHhccccccCCCceE
Confidence 99999999999999954 5599999999999985 4443
No 132
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.33 E-value=7.2e-13 Score=121.20 Aligned_cols=76 Identities=26% Similarity=0.365 Sum_probs=69.4
Q ss_pred HcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccC
Q 000854 399 KFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVS 477 (1252)
Q Consensus 399 ~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iS 477 (1252)
.|+..++.+..+||++++++|..+++.| ++..+|||||+++++|||+|++++||.++.|. |
T Consensus 2 ~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gid~~~~~~vi~~~~~~------------------~ 63 (78)
T PF00271_consen 2 FLEKKGIKVAIIHGDMSQKERQEILKKFNSGEIRVLIATDILGEGIDLPDASHVIFYDPPW------------------S 63 (78)
T ss_dssp HHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSSSEEEESCGGTTSSTSTTESEEEESSSES------------------S
T ss_pred ChHHCCCcEEEEECCCCHHHHHHHHHHhhccCceEEEeeccccccccccccccccccccCC------------------C
Confidence 4556789999999999999999999999 88899999999999999999999999998744 4
Q ss_pred HhhHHHHhcccCCCC
Q 000854 478 QSSANQRAGRAGRTE 492 (1252)
Q Consensus 478 kasy~QR~GRAGR~~ 492 (1252)
..+|.|++||+||.|
T Consensus 64 ~~~~~Q~~GR~~R~g 78 (78)
T PF00271_consen 64 PEEYIQRIGRAGRIG 78 (78)
T ss_dssp HHHHHHHHTTSSTTT
T ss_pred HHHHHHHhhcCCCCC
Confidence 599999999999975
No 133
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.30 E-value=5.9e-10 Score=143.59 Aligned_cols=133 Identities=14% Similarity=0.162 Sum_probs=87.4
Q ss_pred cchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecC-CCCHHhhhhhcccC-CCceEEEEechh
Q 000854 361 ASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHG-QLSFDEQFCVFKSY-PGRRKVIFATNV 438 (1252)
Q Consensus 361 ~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg-~Ls~~eR~~v~~~f-~G~~kVLVATni 438 (1252)
..+.+.+.+.+..+. ..+|++||+.+|.+..+.+++.|......+ ...| +.+ +.++.+.| .+...||++|+.
T Consensus 630 ~~~~~~~~~~i~~~~--~~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~~---~~~l~~~F~~~~~~vLlG~~s 703 (820)
T PRK07246 630 EVYAEEIAKRLEELK--QLQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNGT---AYNIKKRFDRGEQQILLGLGS 703 (820)
T ss_pred HHHHHHHHHHHHHHH--hcCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCcc---HHHHHHHHHcCCCeEEEecch
Confidence 445666777776655 467999999999999999999887554444 2333 232 44577788 677889999999
Q ss_pred hhhcCCCC--CeeEEEEcCCCccccccCCC----------Cccccee--cccCHhhHHHHhcccCCCC--CCeEEEe
Q 000854 439 AETSLTIP--GVKFVIDSGMVKESYFEPGT----------GMNVLRV--CRVSQSSANQRAGRAGRTE--PGRCYRL 499 (1252)
Q Consensus 439 ae~GIDIP--~V~~VId~g~pk~~~ydp~~----------~~~~L~~--~~iSkasy~QR~GRAGR~~--~G~c~~L 499 (1252)
+-.|||+| +...||-.++|-..-.||-. |-+.... .|--.-...|-+||.=|.. .|..+.+
T Consensus 704 FwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~il 780 (820)
T PRK07246 704 FWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVLIL 780 (820)
T ss_pred hhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEEEE
Confidence 99999997 35566667776432222211 1111111 1222356789999999985 6765543
No 134
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.30 E-value=4.8e-11 Score=137.59 Aligned_cols=298 Identities=16% Similarity=0.211 Sum_probs=177.0
Q ss_pred HHHHHHHHHhcC---CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe
Q 000854 170 YRQDILRRIYGE---QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY 246 (1252)
Q Consensus 170 qq~~I~~al~~~---~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~ 246 (1252)
+|+.-+..+-+| +.-||+.|.|+|||+.-.-.+ -.-.++++|+...-+.+.|...++.... .........+.
T Consensus 306 YQEksL~KMFGNgRARSGiIVLPCGAGKtLVGvTAa----~tikK~clvLcts~VSVeQWkqQfk~ws-ti~d~~i~rFT 380 (776)
T KOG1123|consen 306 YQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGVTAA----CTIKKSCLVLCTSAVSVEQWKQQFKQWS-TIQDDQICRFT 380 (776)
T ss_pred hHHHHHHHHhCCCcccCceEEEecCCCCceeeeeee----eeecccEEEEecCccCHHHHHHHHHhhc-ccCccceEEee
Confidence 444444444443 334556799999996532211 1224567777788888999998887764 22223333333
Q ss_pred cCCCccccCCCeEEEEChHHHH-------------HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCc
Q 000854 247 PSFSSAQHFDSKVIYMTDHCLL-------------QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLR 313 (1252)
Q Consensus 247 ~~~~~~~~~~t~Iiv~Tpg~Ll-------------~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lq 313 (1252)
.........++.|+|+|..|+. +.|. -...+++++||+| .+.......++.++..- -
T Consensus 381 sd~Ke~~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~----~~EWGllllDEVH--vvPA~MFRRVlsiv~aH----c 450 (776)
T KOG1123|consen 381 SDAKERFPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLR----GREWGLLLLDEVH--VVPAKMFRRVLSIVQAH----C 450 (776)
T ss_pred ccccccCCCCCcEEEEeeehhhhcccccHHHHHHHHHHh----cCeeeeEEeehhc--cchHHHHHHHHHHHHHH----h
Confidence 3333334456789999987763 3332 3468999999999 34444444445444332 2
Q ss_pred EEeeccCCCH--HHHH--hhhhcCCeEEE-----e--cccceeEE---------E----EecCCCCCC---ccccchHHH
Q 000854 314 LVIMSATADA--HQLS--KYFYDCGISHV-----V--GRNFPVDV---------R----YVPCATAGT---SAVASYVSD 366 (1252)
Q Consensus 314 iIlmSATld~--~~l~--~~f~~~~vi~i-----~--gr~~pV~i---------~----y~~~~~s~~---~~~~~~~~~ 366 (1252)
-+++|||+-. +.+. +|+-++.+.+. . |..-.|.- . |+....... ....+.-..
T Consensus 451 KLGLTATLvREDdKI~DLNFLIGPKlYEAnWmdL~~kGhIA~VqCaEVWCpMt~eFy~eYL~~~t~kr~lLyvMNP~KFr 530 (776)
T KOG1123|consen 451 KLGLTATLVREDDKITDLNFLIGPKLYEANWMDLQKKGHIAKVQCAEVWCPMTPEFYREYLRENTRKRMLLYVMNPNKFR 530 (776)
T ss_pred hccceeEEeeccccccccceeecchhhhccHHHHHhCCceeEEeeeeeecCCCHHHHHHHHhhhhhhhheeeecCcchhH
Confidence 4789999421 1121 12211111110 0 10001110 0 111000000 001111122
Q ss_pred HHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC--CCceEEEEechhhhhcCC
Q 000854 367 VVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY--PGRRKVIFATNVAETSLT 444 (1252)
Q Consensus 367 ~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~G~~kVLVATniae~GID 444 (1252)
.-+.+...|.. .+.+||||....-.....+-.|.++ .++|..++.+|.+|++.| +..++-|+-.-++.++||
T Consensus 531 aCqfLI~~HE~-RgDKiIVFsDnvfALk~YAikl~Kp-----fIYG~Tsq~ERm~ILqnFq~n~~vNTIFlSKVgDtSiD 604 (776)
T KOG1123|consen 531 ACQFLIKFHER-RGDKIIVFSDNVFALKEYAIKLGKP-----FIYGPTSQNERMKILQNFQTNPKVNTIFLSKVGDTSID 604 (776)
T ss_pred HHHHHHHHHHh-cCCeEEEEeccHHHHHHHHHHcCCc-----eEECCCchhHHHHHHHhcccCCccceEEEeeccCcccc
Confidence 33445555553 6789999999988777777777653 578999999999999999 678899999999999999
Q ss_pred CCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-------CCeEEEecChhhh
Q 000854 445 IPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-------PGRCYRLYSKSDF 505 (1252)
Q Consensus 445 IP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-------~G~c~~Lyt~~d~ 505 (1252)
+|..++.|+-.- . --|+.+-.||.||.-|+. ....|.|++++..
T Consensus 605 LPEAnvLIQISS----H-------------~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTq 655 (776)
T KOG1123|consen 605 LPEANVLIQISS----H-------------GGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQ 655 (776)
T ss_pred CCcccEEEEEcc----c-------------ccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchH
Confidence 999999996321 1 235667779999999883 3456666666543
No 135
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=99.28 E-value=6e-11 Score=148.95 Aligned_cols=126 Identities=13% Similarity=0.040 Sum_probs=80.7
Q ss_pred HHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC
Q 000854 159 KRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCY 238 (1252)
Q Consensus 159 ~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~ 238 (1252)
++.-.-.|...|--.-+... .+ -|..+.||+|||+.+..+++-... .+..|-++.|+..||.+=++.+......
T Consensus 76 ~R~lGm~~ydVQliGg~~Lh-~G--~iaEM~TGEGKTLvA~l~a~l~al-~G~~VhvvT~ndyLA~RD~e~m~~l~~~-- 149 (913)
T PRK13103 76 KRVMGMRHFDVQLIGGMTLH-EG--KIAEMRTGEGKTLVGTLAVYLNAL-SGKGVHVVTVNDYLARRDANWMRPLYEF-- 149 (913)
T ss_pred HHHhCCCcchhHHHhhhHhc-cC--ccccccCCCCChHHHHHHHHHHHH-cCCCEEEEeCCHHHHHHHHHHHHHHhcc--
Confidence 33334567666665544432 22 244799999999875544443322 3567888899999999999999988743
Q ss_pred CCceEEEecCCCcc----ccCCCeEEEEChHHH-HHHHhcCC-------CCCceeEEEEccccc
Q 000854 239 EDDSVICYPSFSSA----QHFDSKVIYMTDHCL-LQHFMNDR-------DLSRISCIIVDEAHE 290 (1252)
Q Consensus 239 ~~~~vg~~~~~~~~----~~~~t~Iiv~Tpg~L-l~~L~~~~-------~L~~ls~IVIDEaHE 290 (1252)
.|..++........ ..-.++|+|+|..-+ .+.|..+- ....+.++||||+|.
T Consensus 150 lGl~v~~i~~~~~~~err~~Y~~dI~YGT~~e~gFDYLrD~~~~~~~~~vqr~l~~aIVDEvDs 213 (913)
T PRK13103 150 LGLSVGIVTPFQPPEEKRAAYAADITYGTNNEFGFDYLRDNMAFSLDDKFQRELNFAVIDEVDS 213 (913)
T ss_pred cCCEEEEECCCCCHHHHHHHhcCCEEEEcccccccchhhccceechhhhcccccceeEechhhh
Confidence 34566654332211 123489999999875 22222221 447889999999993
No 136
>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=99.23 E-value=4.3e-10 Score=142.33 Aligned_cols=90 Identities=18% Similarity=0.041 Sum_probs=65.4
Q ss_pred EEEEeCCHHHHHHHHHHcCC------CCCeeEeecCCCCHHhhhhhcccC---------------------------CCc
Q 000854 383 ILAFLTSKMEVEWACEKFDA------PSAVALPFHGQLSFDEQFCVFKSY---------------------------PGR 429 (1252)
Q Consensus 383 iLVFl~s~~eie~la~~L~~------~~~~v~~LHg~Ls~~eR~~v~~~f---------------------------~G~ 429 (1252)
.||=+++++.+-.++..|.. ..+.+..|||..+...|..+++.. .+.
T Consensus 759 GliR~anI~p~V~~A~~L~~~~~~~~~~i~~~~yHSr~~l~~Rs~~E~~Ld~~L~R~~~~~~~~~~~i~~~l~~~~~~~~ 838 (1110)
T TIGR02562 759 GLIRVANIDPLIRLAQFLYALLAEEKYQIHLCCYHAQDPLLLRSYIERRLDQLLTRHKPEQLFQDDEIIDLMQNSPALNH 838 (1110)
T ss_pred EEEEEcCchHHHHHHHHHHhhccccCCceeEEEecccChHHHHHHHHHHHHHHhcccChhhhhchHHHHHHHhcccccCC
Confidence 46777777777777766642 235578899999877777655321 146
Q ss_pred eEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCC
Q 000854 430 RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEP 493 (1252)
Q Consensus 430 ~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~ 493 (1252)
..|+|||.+.|.|+|++ .+++|- .+.+..+.+||+||..|.+.
T Consensus 839 ~~i~v~Tqv~E~g~D~d-fd~~~~--------------------~~~~~~sliQ~aGR~~R~~~ 881 (1110)
T TIGR02562 839 LFIVLATPVEEVGRDHD-YDWAIA--------------------DPSSMRSIIQLAGRVNRHRL 881 (1110)
T ss_pred CeEEEEeeeEEEEeccc-CCeeee--------------------ccCcHHHHHHHhhccccccc
Confidence 69999999999999996 555542 24456889999999999863
No 137
>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=99.21 E-value=4.8e-11 Score=120.65 Aligned_cols=135 Identities=16% Similarity=0.198 Sum_probs=86.4
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCC-CccccCCCe
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSF-SSAQHFDSK 258 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~-~~~~~~~t~ 258 (1252)
.++..+|...+|+|||..++.-++......+.++|++.|||.+|..+++.++.. .+.+.... ......+.-
T Consensus 3 kg~~~~~d~hpGaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL~~~--------~~~~~t~~~~~~~~g~~~ 74 (148)
T PF07652_consen 3 KGELTVLDLHPGAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEALKGL--------PVRFHTNARMRTHFGSSI 74 (148)
T ss_dssp TTEEEEEE--TTSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHTTTS--------SEEEESTTSS----SSSS
T ss_pred CCceeEEecCCCCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHHhcC--------CcccCceeeeccccCCCc
Confidence 456778899999999997444444555677889999999999888887766432 13332211 123345678
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCH
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADA 323 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~ 323 (1252)
|.++|.+.+.+.+.+...+.++++||+||+|-.+..+-...+.++..... ...++|+||||++.
T Consensus 75 i~vMc~at~~~~~~~p~~~~~yd~II~DEcH~~Dp~sIA~rg~l~~~~~~-g~~~~i~mTATPPG 138 (148)
T PF07652_consen 75 IDVMCHATYGHFLLNPCRLKNYDVIIMDECHFTDPTSIAARGYLRELAES-GEAKVIFMTATPPG 138 (148)
T ss_dssp EEEEEHHHHHHHHHTSSCTTS-SEEEECTTT--SHHHHHHHHHHHHHHHT-TS-EEEEEESS-TT
T ss_pred ccccccHHHHHHhcCcccccCccEEEEeccccCCHHHHhhheeHHHhhhc-cCeeEEEEeCCCCC
Confidence 99999999998887755889999999999994222222344445554333 35789999999764
No 138
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=99.17 E-value=1.2e-09 Score=136.28 Aligned_cols=107 Identities=21% Similarity=0.204 Sum_probs=80.4
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCC-ceEEEEechhhhhcCCCCCee-------
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPG-RRKVIFATNVAETSLTIPGVK------- 449 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G-~~kVLVATniae~GIDIP~V~------- 449 (1252)
..+.++||.+.|.+..+.++..|.+.++....|++.-...|-.-| .. .| .-.|.||||.|+||.||.--.
T Consensus 424 ~~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~e~EA~II-a~-AG~~GaVTIATNMAGRGTDI~Lg~~V~~~GG 501 (925)
T PRK12903 424 KKGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQNAREAEII-AK-AGQKGAITIATNMAGRGTDIKLSKEVLELGG 501 (925)
T ss_pred hcCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccchhhHHHHH-Hh-CCCCCeEEEecccccCCcCccCchhHHHcCC
Confidence 468899999999999999999999999988888886433332222 22 23 358999999999999996322
Q ss_pred -EEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 450 -FVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 450 -~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
+||-+..+... .-=.|-.|||||.| ||.+-.+.+-+|
T Consensus 502 LhVIgTerheSr------------------RIDnQLrGRaGRQGDpGss~f~lSLeD 540 (925)
T PRK12903 502 LYVLGTDKAESR------------------RIDNQLRGRSGRQGDVGESRFFISLDD 540 (925)
T ss_pred cEEEecccCchH------------------HHHHHHhcccccCCCCCcceEEEecch
Confidence 77776654433 33459999999998 998877776554
No 139
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=99.16 E-value=4.1e-10 Score=141.09 Aligned_cols=324 Identities=13% Similarity=0.090 Sum_probs=201.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEec
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYP 247 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~ 247 (1252)
.+|.+.+...-+.+++++|.+|+|||||...-..++. .....+++++.|..+.+..++..+...+... .|..+.-..
T Consensus 1146 ~iqtqVf~~~y~~nd~v~vga~~gsgkt~~ae~a~l~--~~~~~~~vyi~p~~~i~~~~~~~w~~~f~~~-~G~~~~~l~ 1222 (1674)
T KOG0951|consen 1146 PIQTQVFTSLYNTNDNVLVGAPNGSGKTACAELALLR--PDTIGRAVYIAPLEEIADEQYRDWEKKFSKL-LGLRIVKLT 1222 (1674)
T ss_pred CceEEEEeeeecccceEEEecCCCCchhHHHHHHhcC--CccceEEEEecchHHHHHHHHHHHHHhhccc-cCceEEecC
Confidence 3466666666778999999999999999887766665 3345689999999999998888887766444 333332211
Q ss_pred C---CCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-h---hhHHHHHHHHHhccCCCcEEeeccC
Q 000854 248 S---FSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-T---DLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 248 ~---~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-~---d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+ .+.+.....+|+++||+.+-.. + ....+++.|.||.|.-+-. . ..+..+..+....-+++|++.+|..
T Consensus 1223 ge~s~~lkl~~~~~vii~tpe~~d~l-q---~iQ~v~l~i~d~lh~igg~~g~v~evi~S~r~ia~q~~k~ir~v~ls~~ 1298 (1674)
T KOG0951|consen 1223 GETSLDLKLLQKGQVIISTPEQWDLL-Q---SIQQVDLFIVDELHLIGGVYGAVYEVICSMRYIASQLEKKIRVVALSSS 1298 (1674)
T ss_pred CccccchHHhhhcceEEechhHHHHH-h---hhhhcceEeeehhhhhcccCCceEEEEeeHHHHHHHHHhheeEEEeehh
Confidence 1 2222334689999999986432 2 5678899999999942200 0 1111111222223456899999877
Q ss_pred -CCHHHHHhhhhcCCeEEEeccc--ceeEEEEecCCCCCCc-cccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHH
Q 000854 321 -ADAHQLSKYFYDCGISHVVGRN--FPVDVRYVPCATAGTS-AVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWA 396 (1252)
Q Consensus 321 -ld~~~l~~~f~~~~vi~i~gr~--~pV~i~y~~~~~s~~~-~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~l 396 (1252)
.++..+ -++....++...... .|.+++......+... ............+... ...+.+.+||+|+++.+..+
T Consensus 1299 lana~d~-ig~s~~~v~Nf~p~~R~~Pl~i~i~~~~~~~~~~~~~am~~~~~~ai~~~--a~~~k~~~vf~p~rk~~~~~ 1375 (1674)
T KOG0951|consen 1299 LANARDL-IGASSSGVFNFSPSVRPVPLEIHIQSVDISHFESRMLAMTKPTYTAIVRH--AGNRKPAIVFLPTRKHARLV 1375 (1674)
T ss_pred hccchhh-ccccccceeecCcccCCCceeEEEEEeccchhHHHHHHhhhhHHHHHHHH--hcCCCCeEEEeccchhhhhh
Confidence 456666 344445666665444 4444443332211000 0000111111122111 14678999999999999887
Q ss_pred HHHcCC------------------------CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEE
Q 000854 397 CEKFDA------------------------PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFV 451 (1252)
Q Consensus 397 a~~L~~------------------------~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~V 451 (1252)
+..|-. ....|. |-+|+..++..+-.-| .|.++|+|...- -.|+-...--+|
T Consensus 1376 a~~~~~~s~~~~~~~l~~~~e~~~~~l~e~l~~gvg--~e~~s~~d~~iv~~l~e~g~i~v~v~s~~-~~~~~~~~~lVv 1452 (1674)
T KOG0951|consen 1376 AVDLVTFSHADEPDYLLSELEECDETLRESLKHGVG--HEGLSSNDQEIVQQLFEAGAIQVCVMSRD-CYGTKLKAHLVV 1452 (1674)
T ss_pred hhccchhhccCcHHHHHHHHhcchHhhhhccccccc--ccccCcchHHHHHHHHhcCcEEEEEEEcc-cccccccceEEE
Confidence 654421 112233 8899999999988889 799999888765 777766544444
Q ss_pred EEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhh--h-ccCCCCCCc
Q 000854 452 IDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSD--F-ETRPLNQEP 514 (1252)
Q Consensus 452 Id~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d--~-~~~~~~~~P 514 (1252)
|. | +.+||.+.... .+.+-++..|+.|+|.| .|.|+.+....+ | ..+...+.|
T Consensus 1453 vm-g---t~~ydg~e~~~----~~y~i~~ll~m~G~a~~--~~k~vi~~~~~~k~yykkfl~e~lP 1508 (1674)
T KOG0951|consen 1453 VM-G---TQYYDGKEHSY----EDYPIAELLQMVGLASG--AGKCVIMCHTPKKEYYKKFLYEPLP 1508 (1674)
T ss_pred Ee-c---ceeeccccccc----ccCchhHHHHHhhhhcC--CccEEEEecCchHHHHHHhccCcCc
Confidence 43 2 45777655422 34566899999999998 678888766433 2 345554555
No 140
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=99.14 E-value=1.4e-09 Score=136.39 Aligned_cols=129 Identities=12% Similarity=-0.032 Sum_probs=80.9
Q ss_pred HHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 156 RECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 156 ~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
++.++.-...|...|--..+.. ++--|..+.||.|||+++..+.+-.+. .+..|-|+.+...||..-++.+.....
T Consensus 67 Ea~~R~lG~r~ydvQlig~l~L---~~G~IaEm~TGEGKTL~a~l~ayl~aL-~G~~VhVvT~NdyLA~RD~e~m~pvy~ 142 (870)
T CHL00122 67 EASFRTLGLRHFDVQLIGGLVL---NDGKIAEMKTGEGKTLVATLPAYLNAL-TGKGVHIVTVNDYLAKRDQEWMGQIYR 142 (870)
T ss_pred HHHHHHhCCCCCchHhhhhHhh---cCCccccccCCCCchHHHHHHHHHHHh-cCCceEEEeCCHHHHHHHHHHHHHHHH
Confidence 3444444456777776665533 233455899999999875444432222 255677778999999988888877653
Q ss_pred CCCCCceEEEecCCCc----cccCCCeEEEEChH-----HHHHHHhcCC---CCCceeEEEEccccc
Q 000854 236 GCYEDDSVICYPSFSS----AQHFDSKVIYMTDH-----CLLQHFMNDR---DLSRISCIIVDEAHE 290 (1252)
Q Consensus 236 ~~~~~~~vg~~~~~~~----~~~~~t~Iiv~Tpg-----~Ll~~L~~~~---~L~~ls~IVIDEaHE 290 (1252)
. .|.++|......+ ...-.++|+|+|.. .|.+.+...+ ....+.+.||||||-
T Consensus 143 ~--LGLsvg~i~~~~~~~err~aY~~DItYgTn~e~gFDyLRDnm~~~~~~~v~r~~~faIVDEvDS 207 (870)
T CHL00122 143 F--LGLTVGLIQEGMSSEERKKNYLKDITYVTNSELGFDYLRDNMALSLSDVVQRPFNYCIIDEVDS 207 (870)
T ss_pred H--cCCceeeeCCCCChHHHHHhcCCCCEecCCccccccchhhccCcChHHhhccccceeeeecchh
Confidence 2 2455665432222 12235799999985 4555443222 456788999999993
No 141
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.13 E-value=5.5e-11 Score=108.22 Aligned_cols=80 Identities=36% Similarity=0.473 Sum_probs=71.0
Q ss_pred HHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCccccee
Q 000854 395 WACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRV 473 (1252)
Q Consensus 395 ~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~ 473 (1252)
.+++.|...++.+..+||++++++|..+++.| .+..+||++|+++++|+|+|+++.||.++.+
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~~~vli~t~~~~~Gi~~~~~~~vi~~~~~---------------- 65 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLP---------------- 65 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCCCeEEEECChhhCCcChhcCCEEEEeCCC----------------
Confidence 35566666789999999999999999999999 7888999999999999999999999998763
Q ss_pred cccCHhhHHHHhcccCCCC
Q 000854 474 CRVSQSSANQRAGRAGRTE 492 (1252)
Q Consensus 474 ~~iSkasy~QR~GRAGR~~ 492 (1252)
.+..+|.|++||++|.+
T Consensus 66 --~~~~~~~Q~~gR~~R~g 82 (82)
T smart00490 66 --WSPASYIQRIGRAGRAG 82 (82)
T ss_pred --CCHHHHHHhhcccccCC
Confidence 35589999999999964
No 142
>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3.1.21.3 from EC), the Res subunit of type III endonucleases (3.1.21.5 from EC), and the B subunit of excinuclease ABC (uvrB) [, , ].; GO: 0003677 DNA binding, 0005524 ATP binding, 0016787 hydrolase activity; PDB: 2Y3T_B 2W74_B 2FWR_A 2FZ4_A 3UWX_B 3H1T_A 3B6E_A 2FDC_A 1D9Z_A 1T5L_B ....
Probab=99.12 E-value=2e-10 Score=120.80 Aligned_cols=132 Identities=15% Similarity=0.147 Sum_probs=84.0
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCce-------EE--EecCC--
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDS-------VI--CYPSF-- 249 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~-------vg--~~~~~-- 249 (1252)
+..+++.+|||||||..+..++.+... ++++++|+..++.|..+.+............ .. .....
T Consensus 25 ~~~~ll~~~tGsGKT~~~~~~~~~l~~----~~l~~~p~~~l~~Q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (184)
T PF04851_consen 25 ERRVLLNAPTGSGKTIIALALILELAR----KVLIVAPNISLLEQWYDEFDDFGSEKYNFFEKSIKPAYDSKEFISIQDD 100 (184)
T ss_dssp CSEEEEEESTTSSHHHHHHHHHHHHHC----EEEEEESSHHHHHHHHHHHHHHSTTSEEEEE--GGGCCE-SEEETTTTE
T ss_pred CCCEEEEECCCCCcChhhhhhhhcccc----ceeEecCHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccc
Confidence 578888999999999887765555432 8999999999999999998554321110000 00 00000
Q ss_pred ----CccccCCCeEEEEChHHHHHHHhcCC------------CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCc
Q 000854 250 ----SSAQHFDSKVIYMTDHCLLQHFMNDR------------DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLR 313 (1252)
Q Consensus 250 ----~~~~~~~t~Iiv~Tpg~Ll~~L~~~~------------~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lq 313 (1252)
........++.+.|...|........ .....++||+|||| +.....-...++. .+...
T Consensus 101 ~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~vI~DEaH-~~~~~~~~~~i~~-----~~~~~ 174 (184)
T PF04851_consen 101 ISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARRSYKLLKNKFDLVIIDEAH-HYPSDSSYREIIE-----FKAAF 174 (184)
T ss_dssp EEHHHHHCBSS-SEEEEEHHHHHHHHHH---------GCHHGGGGSESEEEEETGG-CTHHHHHHHHHHH-----SSCCE
T ss_pred cccccccccccccchhhHHHHHHhhcccccccccchhhhhhhccccCCEEEEehhh-hcCCHHHHHHHHc-----CCCCe
Confidence 00122457899999999987654311 34577899999999 4444332222222 66788
Q ss_pred EEeeccCCC
Q 000854 314 LVIMSATAD 322 (1252)
Q Consensus 314 iIlmSATld 322 (1252)
+|+||||+.
T Consensus 175 ~l~lTATp~ 183 (184)
T PF04851_consen 175 ILGLTATPF 183 (184)
T ss_dssp EEEEESS-S
T ss_pred EEEEEeCcc
Confidence 999999964
No 143
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=99.04 E-value=1.3e-08 Score=127.48 Aligned_cols=129 Identities=14% Similarity=0.024 Sum_probs=81.5
Q ss_pred HHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 156 RECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 156 ~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
++.++.-...|...|--.-+.. ++=-|..+.||-|||+.+..+++-.+.. +..|-++.+..-||..=++.+.....
T Consensus 76 Ea~~R~lG~r~ydVQliGgl~L---h~G~IAEM~TGEGKTL~atlpaylnAL~-GkgVhVVTvNdYLA~RDae~m~~vy~ 151 (939)
T PRK12902 76 EASKRVLGMRHFDVQLIGGMVL---HEGQIAEMKTGEGKTLVATLPSYLNALT-GKGVHVVTVNDYLARRDAEWMGQVHR 151 (939)
T ss_pred HHHHHHhCCCcchhHHHhhhhh---cCCceeeecCCCChhHHHHHHHHHHhhc-CCCeEEEeCCHHHHHhHHHHHHHHHH
Confidence 4444444567777776655544 2223448999999998755444444333 44566667778888887777776653
Q ss_pred CCCCCceEEEecCCCc----cccCCCeEEEEChHHH-----HHHHhcCC---CCCceeEEEEccccc
Q 000854 236 GCYEDDSVICYPSFSS----AQHFDSKVIYMTDHCL-----LQHFMNDR---DLSRISCIIVDEAHE 290 (1252)
Q Consensus 236 ~~~~~~~vg~~~~~~~----~~~~~t~Iiv~Tpg~L-----l~~L~~~~---~L~~ls~IVIDEaHE 290 (1252)
. .|.+||....... ...-.++|+|+|..-| .+.+.... ....+.+.||||||.
T Consensus 152 ~--LGLtvg~i~~~~~~~err~aY~~DItYgTn~e~gFDYLRDnm~~~~~~~vqR~~~faIVDEvDS 216 (939)
T PRK12902 152 F--LGLSVGLIQQDMSPEERKKNYACDITYATNSELGFDYLRDNMATDISEVVQRPFNYCVIDEVDS 216 (939)
T ss_pred H--hCCeEEEECCCCChHHHHHhcCCCeEEecCCcccccchhhhhcccccccccCccceEEEecccc
Confidence 2 2456666432211 1224689999999765 55554332 567889999999993
No 144
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.03 E-value=7.8e-09 Score=135.48 Aligned_cols=138 Identities=17% Similarity=0.203 Sum_probs=89.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCC--eeEeecCCCCHHhhhhhcccC-CCceEEEEech
Q 000854 361 ASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSA--VALPFHGQLSFDEQFCVFKSY-PGRRKVIFATN 437 (1252)
Q Consensus 361 ~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~--~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATn 437 (1252)
..+...+.+.+..+.. ..+|++|||.+|.+..+.+++.|..... ....+--+++...|.++.+.| .++..||++|.
T Consensus 734 ~~~~~~la~~i~~l~~-~~~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~~iLlG~~ 812 (928)
T PRK08074 734 EEYIEEVAAYIAKIAK-ATKGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDKAILLGTS 812 (928)
T ss_pred HHHHHHHHHHHHHHHH-hCCCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCCeEEEecC
Confidence 4455666677766654 4578999999999999999999864321 111122234445577888888 67788999999
Q ss_pred hhhhcCCCCCe--eEEEEcCCCccccccCCC----------Ccccce--ecccCHhhHHHHhcccCCCC--CCeEEEe
Q 000854 438 VAETSLTIPGV--KFVIDSGMVKESYFEPGT----------GMNVLR--VCRVSQSSANQRAGRAGRTE--PGRCYRL 499 (1252)
Q Consensus 438 iae~GIDIP~V--~~VId~g~pk~~~ydp~~----------~~~~L~--~~~iSkasy~QR~GRAGR~~--~G~c~~L 499 (1252)
.+..|||+|+- +.||-.++|-..--||.. |-+... ..|...-...|-+||.=|.. .|..+.+
T Consensus 813 sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~il 890 (928)
T PRK08074 813 SFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVFVL 890 (928)
T ss_pred cccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEEEe
Confidence 99999999974 788877776421111110 111110 11222345689999999986 5655533
No 145
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=99.02 E-value=8.1e-09 Score=125.02 Aligned_cols=303 Identities=16% Similarity=0.183 Sum_probs=177.7
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHh--cccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc-----
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLAD--SGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS----- 251 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle--~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~----- 251 (1252)
.++-+.|+.-+-|-|||.|...++.- ...+..+.-+|++|.-.|.. ....+++.. ..-..+.|++..+.
T Consensus 184 engingILaDEMGLGKTlQtIs~l~yl~~~~~~~GPfLVi~P~StL~N-W~~Ef~rf~---P~l~~~~~~Gdk~eR~~~~ 259 (971)
T KOG0385|consen 184 ENGINGILADEMGLGKTLQTISLLGYLKGRKGIPGPFLVIAPKSTLDN-WMNEFKRFT---PSLNVVVYHGDKEERAALR 259 (971)
T ss_pred hcCcccEeehhcccchHHHHHHHHHHHHHhcCCCCCeEEEeeHhhHHH-HHHHHHHhC---CCcceEEEeCCHHHHHHHH
Confidence 34455777889999999984443321 11233456777789876643 344455543 33334444432211
Q ss_pred ---cccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHH-HHHHHHhccCCCcEEeeccCC------
Q 000854 252 ---AQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLA-LVKDLLCRRFDLRLVIMSATA------ 321 (1252)
Q Consensus 252 ---~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~-llk~l~~~~~~lqiIlmSATl------ 321 (1252)
......+|+++|.++.++.-.-- .--..+++|||||| |.-+....+. .++. +.-..-+++|.|+
T Consensus 260 r~~~~~~~fdV~iTsYEi~i~dk~~l-k~~~W~ylvIDEaH-RiKN~~s~L~~~lr~----f~~~nrLLlTGTPLQNNL~ 333 (971)
T KOG0385|consen 260 RDIMLPGRFDVCITSYEIAIKDKSFL-KKFNWRYLVIDEAH-RIKNEKSKLSKILRE----FKTDNRLLLTGTPLQNNLH 333 (971)
T ss_pred HHhhccCCCceEeehHHHHHhhHHHH-hcCCceEEEechhh-hhcchhhHHHHHHHH----hcccceeEeeCCcccccHH
Confidence 12236899999999987642111 11256899999999 8887754433 3333 3334457888991
Q ss_pred ---------------CHHHHHhhhhcCCeE---------E--------------Eeccccee-E-EEEecCCCC------
Q 000854 322 ---------------DAHQLSKYFYDCGIS---------H--------------VVGRNFPV-D-VRYVPCATA------ 355 (1252)
Q Consensus 322 ---------------d~~~l~~~f~~~~vi---------~--------------i~gr~~pV-~-i~y~~~~~s------ 355 (1252)
+.+.|..||...... + +....-|. + ..|.+-...
T Consensus 334 ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~ 413 (971)
T KOG0385|consen 334 ELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLHKVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYK 413 (971)
T ss_pred HHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHHhhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHH
Confidence 235566777531100 0 00000000 0 011110000
Q ss_pred -----------CCcc-c---------------------------cchH--HH------HHHHHHHhhh--cCCCCcEEEE
Q 000854 356 -----------GTSA-V---------------------------ASYV--SD------VVRMVGEVHT--TEKEGTILAF 386 (1252)
Q Consensus 356 -----------~~~~-~---------------------------~~~~--~~------~~~~l~~i~~--~~~~g~iLVF 386 (1252)
..+. . .+|. ++ +..++..++. ...+.++|||
T Consensus 414 ~iL~kdl~~~n~~~~~~k~kL~NI~mQLRKccnHPYLF~g~ePg~pyttdehLv~nSGKm~vLDkLL~~Lk~~GhRVLIF 493 (971)
T KOG0385|consen 414 AILMKDLDALNGEGKGEKTKLQNIMMQLRKCCNHPYLFDGAEPGPPYTTDEHLVTNSGKMLVLDKLLPKLKEQGHRVLIF 493 (971)
T ss_pred HHHHhcchhhcccccchhhHHHHHHHHHHHhcCCccccCCCCCCCCCCcchHHHhcCcceehHHHHHHHHHhCCCeEEEe
Confidence 0000 0 0000 00 0111111111 1456789999
Q ss_pred eCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC--CC--ceEEEEechhhhhcCCCCCeeEEEEcCCCccccc
Q 000854 387 LTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY--PG--RRKVIFATNVAETSLTIPGVKFVIDSGMVKESYF 462 (1252)
Q Consensus 387 l~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~G--~~kVLVATniae~GIDIP~V~~VId~g~pk~~~y 462 (1252)
-.=....+-+-....-.++...-+.|+++.++|...++.| ++ +.-.+++|-+.+-|||+-..+.||-|+- -+
T Consensus 494 SQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~~~s~~FiFlLSTRAGGLGINL~aADtVIlyDS----DW 569 (971)
T KOG0385|consen 494 SQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNAPPSEKFIFLLSTRAGGLGINLTAADTVILYDS----DW 569 (971)
T ss_pred HHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCCCCcceEEEEEeccccccccccccccEEEEecC----CC
Confidence 6555555555555555788899999999999999999999 34 5577899999999999999999996643 45
Q ss_pred cCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 463 EPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 463 dp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
||...+ ++.+|+-|.|...+=.+|+|+++...+
T Consensus 570 NPQ~DL-----------QAmDRaHRIGQ~K~V~V~RLitentVE 602 (971)
T KOG0385|consen 570 NPQVDL-----------QAMDRAHRIGQKKPVVVYRLITENTVE 602 (971)
T ss_pred Cchhhh-----------HHHHHHHhhCCcCceEEEEEeccchHH
Confidence 554443 455888888888899999999987654
No 146
>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=99.00 E-value=3.4e-08 Score=122.80 Aligned_cols=302 Identities=21% Similarity=0.213 Sum_probs=176.9
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCcccc-CCC
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQH-FDS 257 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~-~~t 257 (1252)
..+.+.+|.+|.|||||+++..|+.+....+..+++++..||.++.+++.++.... .. .-+-|......... ...
T Consensus 47 ~~~~V~vVRSpMGTGKTtaLi~wLk~~l~~~~~~VLvVShRrSL~~sL~~rf~~~~--l~--gFv~Y~d~~~~~i~~~~~ 122 (824)
T PF02399_consen 47 QKRGVLVVRSPMGTGKTTALIRWLKDALKNPDKSVLVVSHRRSLTKSLAERFKKAG--LS--GFVNYLDSDDYIIDGRPY 122 (824)
T ss_pred CCCCeEEEECCCCCCcHHHHHHHHHHhccCCCCeEEEEEhHHHHHHHHHHHHhhcC--CC--cceeeecccccccccccc
Confidence 46788999999999999999998877533456799999999999999999998753 11 11222111111111 123
Q ss_pred eEEEEChHHHHHHHhcCCCCCceeEEEEccccccccch---------hhHHHHHHHHHhccCCCcEEeeccCCCHHH---
Q 000854 258 KVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNT---------DLLLALVKDLLCRRFDLRLVIMSATADAHQ--- 325 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~---------d~ll~llk~l~~~~~~lqiIlmSATld~~~--- 325 (1252)
+-+++.-+.|.+.. ...+.++++|||||+-. .+.. .....+++.+ .+..-++|+|-||++...
T Consensus 123 ~rLivqIdSL~R~~--~~~l~~yDvVIIDEv~s-vL~qL~S~Tm~~~~~v~~~L~~l--I~~ak~VI~~DA~ln~~tvdF 197 (824)
T PF02399_consen 123 DRLIVQIDSLHRLD--GSLLDRYDVVIIDEVMS-VLNQLFSPTMRQREEVDNLLKEL--IRNAKTVIVMDADLNDQTVDF 197 (824)
T ss_pred CeEEEEehhhhhcc--cccccccCEEEEehHHH-HHHHHhHHHHhhHHHHHHHHHHH--HHhCCeEEEecCCCCHHHHHH
Confidence 55666666776543 33688899999999983 1111 1112222222 233468999999998654
Q ss_pred HHhhhhcCCeEEEecc----ccee-EEEEecCCC--------------CCC----------ccccchHHHHHHHHHHhhh
Q 000854 326 LSKYFYDCGISHVVGR----NFPV-DVRYVPCAT--------------AGT----------SAVASYVSDVVRMVGEVHT 376 (1252)
Q Consensus 326 l~~~f~~~~vi~i~gr----~~pV-~i~y~~~~~--------------s~~----------~~~~~~~~~~~~~l~~i~~ 376 (1252)
++..-++.++..+.+. .|.- ...+.+.-. ... .....+..+.......+..
T Consensus 198 l~~~Rp~~~i~vI~n~y~~~~fs~R~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tF~~~L~~ 277 (824)
T PF02399_consen 198 LASCRPDENIHVIVNTYASPGFSNRRCTFLRSLGTDTLAAALNPEDENADTSPTPKHSPDPTATAAISNDETTFFSELLA 277 (824)
T ss_pred HHHhCCCCcEEEEEeeeecCCcccceEEEecccCcHHHHHHhCCcccccccCCCcCCCCccccccccccchhhHHHHHHH
Confidence 3332223333222221 1110 111111100 000 0000000111111111111
Q ss_pred c-CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCCCeeEEEEcC
Q 000854 377 T-EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIPGVKFVIDSG 455 (1252)
Q Consensus 377 ~-~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP~V~~VId~g 455 (1252)
. ..+..|-||+.|...++.+++........|..++|.-+.. .+ +.| ++.+|++=|.+...|+++.+..+=--+.
T Consensus 278 ~L~~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~---dv-~~W-~~~~VviYT~~itvG~Sf~~~HF~~~f~ 352 (824)
T PF02399_consen 278 RLNAGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLE---DV-ESW-KKYDVVIYTPVITVGLSFEEKHFDSMFA 352 (824)
T ss_pred HHhCCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCcc---cc-ccc-cceeEEEEeceEEEEeccchhhceEEEE
Confidence 1 4567788999999999988888877788899888865554 22 223 4689999999999999997654332233
Q ss_pred CCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 456 MVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 456 ~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
+.+...+-| +..+..|+.||.-.......|..+......
T Consensus 353 yvk~~~~gp------------d~~s~~Q~lgRvR~l~~~ei~v~~d~~~~~ 391 (824)
T PF02399_consen 353 YVKPMSYGP------------DMVSVYQMLGRVRSLLDNEIYVYIDASGAR 391 (824)
T ss_pred EecCCCCCC------------cHHHHHHHHHHHHhhccCeEEEEEeccccc
Confidence 333222211 224577999999777778878777766443
No 147
>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=98.95 E-value=1.9e-07 Score=116.20 Aligned_cols=126 Identities=13% Similarity=0.066 Sum_probs=81.1
Q ss_pred hHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-C----CceEEEEech
Q 000854 363 YVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-P----GRRKVIFATN 437 (1252)
Q Consensus 363 ~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~----G~~kVLVATn 437 (1252)
+.+.+.+.+..+.. ..+|.+||-++|...++.+++.|...--..+...|..++ +...++.| . |...||++|+
T Consensus 454 ~~~~~~~~~~~~~~-~~~G~~lvLfTS~~~~~~~~~~l~~~l~~~~l~qg~~~~--~~~l~~~f~~~~~~~~~~vL~gt~ 530 (636)
T TIGR03117 454 WLENVSLSTAAILR-KAQGGTLVLTTAFSHISAIGQLVELGIPAEIVIQSEKNR--LASAEQQFLALYANGIQPVLIAAG 530 (636)
T ss_pred HHHHHHHHHHHHHH-HcCCCEEEEechHHHHHHHHHHHHhhcCCCEEEeCCCcc--HHHHHHHHHHhhcCCCCcEEEeCC
Confidence 45556666666654 567899999999999999999886422123445565432 33355556 2 5689999999
Q ss_pred hhhhcCCC----------CCeeEEEEcCCCccccccCC--------CCcccceecccCHhhHHHHhcccCCCC
Q 000854 438 VAETSLTI----------PGVKFVIDSGMVKESYFEPG--------TGMNVLRVCRVSQSSANQRAGRAGRTE 492 (1252)
Q Consensus 438 iae~GIDI----------P~V~~VId~g~pk~~~ydp~--------~~~~~L~~~~iSkasy~QR~GRAGR~~ 492 (1252)
-+-.|||+ +.++.||..-+|-.. -||- .|-......|-..-...|-+||.=|..
T Consensus 531 sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~-~dp~a~~~~~~~~g~~~f~~~p~a~i~lkQg~GRLIR~~ 602 (636)
T TIGR03117 531 GAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGL-NRSLSMLKRIRKTSVRPWEIINESLMMLRQGLGRLVRHP 602 (636)
T ss_pred ccccccccCCccCCCCCCCcccEEEEEeCCCCc-CChHHHHHHHHhcCCChHhhhHHHHHHHHHhcCceeecC
Confidence 99999999 347888877776322 2221 122222222333455678888888873
No 148
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=98.89 E-value=2.9e-07 Score=117.40 Aligned_cols=133 Identities=18% Similarity=0.207 Sum_probs=85.9
Q ss_pred cchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCC-CCCeeEeecCCCCHHhhhhhcccC-----CCceEEEE
Q 000854 361 ASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDA-PSAVALPFHGQLSFDEQFCVFKSY-----PGRRKVIF 434 (1252)
Q Consensus 361 ~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~-~~~~v~~LHg~Ls~~eR~~v~~~f-----~G~~kVLV 434 (1252)
..+...+.+.+..+.. .+|.+|||++|.+..+.++..|.. .+..+ ..+|.. .+..+++.| .++..||+
T Consensus 517 ~~~~~~~~~~i~~l~~--~~gg~LVlFtSy~~l~~v~~~l~~~~~~~l-l~Q~~~---~~~~ll~~f~~~~~~~~~~VL~ 590 (697)
T PRK11747 517 EAHTAEMAEFLPELLE--KHKGSLVLFASRRQMQKVADLLPRDLRLML-LVQGDQ---PRQRLLEKHKKRVDEGEGSVLF 590 (697)
T ss_pred HHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHhcCCcE-EEeCCc---hHHHHHHHHHHHhccCCCeEEE
Confidence 3456677777777776 445589999999999999988863 23333 345543 345555444 36778999
Q ss_pred echhhhhcCCCCC--eeEEEEcCCCccccccCCC----------Ccccce--ecccCHhhHHHHhcccCCCC--CCeEEE
Q 000854 435 ATNVAETSLTIPG--VKFVIDSGMVKESYFEPGT----------GMNVLR--VCRVSQSSANQRAGRAGRTE--PGRCYR 498 (1252)
Q Consensus 435 ATniae~GIDIP~--V~~VId~g~pk~~~ydp~~----------~~~~L~--~~~iSkasy~QR~GRAGR~~--~G~c~~ 498 (1252)
+|..+..|||+|+ .+.||..++|-..--||.. |-+... ..|--.-...|-+||.=|.. .|..+.
T Consensus 591 g~~sf~EGVD~pGd~l~~vII~kLPF~~p~dp~~~ar~~~~~~~g~~~F~~~~lP~A~~kl~Qg~GRlIRs~~D~G~i~i 670 (697)
T PRK11747 591 GLQSFAEGLDLPGDYLTQVIITKIPFAVPDSPVEATLAEWLKSRGGNPFMEISVPDASFKLIQAVGRLIRSEQDRGRVTI 670 (697)
T ss_pred EeccccccccCCCCceEEEEEEcCCCCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHhccccccCCceEEEEE
Confidence 9999999999987 7899888887532222211 101110 01112234789999999985 565544
Q ss_pred e
Q 000854 499 L 499 (1252)
Q Consensus 499 L 499 (1252)
+
T Consensus 671 l 671 (697)
T PRK11747 671 L 671 (697)
T ss_pred E
Confidence 3
No 149
>COG4889 Predicted helicase [General function prediction only]
Probab=98.88 E-value=1.7e-09 Score=131.24 Aligned_cols=320 Identities=17% Similarity=0.138 Sum_probs=172.5
Q ss_pred HHHHHccCCCChHHHHHHHHHHHhcC---CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 156 RECKRLEDGLPIYMYRQDILRRIYGE---QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 156 ~~l~~~~~~lP~~~qq~~I~~al~~~---~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.++.-.....|.+.||.+|-.++++- +--=+.+..|+|||...+...-... ..++++++|.-.|-.|..+.+..
T Consensus 152 ~nl~l~~~kk~R~hQq~Aid~a~~~F~~n~RGkLIMAcGTGKTfTsLkisEala---~~~iL~LvPSIsLLsQTlrew~~ 228 (1518)
T COG4889 152 DNLPLKKPKKPRPHQQTAIDAAKEGFSDNDRGKLIMACGTGKTFTSLKISEALA---AARILFLVPSISLLSQTLREWTA 228 (1518)
T ss_pred cccccCCCCCCChhHHHHHHHHHhhcccccCCcEEEecCCCccchHHHHHHHHh---hhheEeecchHHHHHHHHHHHhh
Confidence 34444456678889999998888652 2222236789999976544332211 26899999999999998888776
Q ss_pred HhcCCCCCceEEEec---C-CCc------------------------cccCCCeEEEEChHHHHHHHhcC-CCCCceeEE
Q 000854 233 ESRGCYEDDSVICYP---S-FSS------------------------AQHFDSKVIYMTDHCLLQHFMND-RDLSRISCI 283 (1252)
Q Consensus 233 ~~~~~~~~~~vg~~~---~-~~~------------------------~~~~~t~Iiv~Tpg~Ll~~L~~~-~~L~~ls~I 283 (1252)
..........|.... + -++ ....+--|+|+|...+.+.-... ..+..+++|
T Consensus 229 ~~~l~~~a~aVcSD~kvsrs~eDik~sdl~~p~sT~~~~il~~~~~~~k~~~~~vvFsTYQSl~~i~eAQe~G~~~fDli 308 (1518)
T COG4889 229 QKELDFRASAVCSDDKVSRSAEDIKASDLPIPVSTDLEDILSEMEHRQKANGLTVVFSTYQSLPRIKEAQEAGLDEFDLI 308 (1518)
T ss_pred ccCccceeEEEecCccccccccccccccCCCCCcccHHHHHHHHHHhhccCCcEEEEEcccchHHHHHHHHcCCCCccEE
Confidence 531111001111000 0 000 00113458899988886654322 268899999
Q ss_pred EEccccccccchhhHHHHHHHHHhc-----cCCCcEEeeccCCCH--HHHHhhhhc--------------CCeEEEeccc
Q 000854 284 IVDEAHERSLNTDLLLALVKDLLCR-----RFDLRLVIMSATADA--HQLSKYFYD--------------CGISHVVGRN 342 (1252)
Q Consensus 284 VIDEaHER~l~~d~ll~llk~l~~~-----~~~lqiIlmSATld~--~~l~~~f~~--------------~~vi~i~gr~ 342 (1252)
|.|||| |+....+.-.=-..+.+. -+..+.+.||||+-. +....--.+ .+.++--|..
T Consensus 309 icDEAH-RTtGa~~a~dd~saFt~vHs~~niKa~kRlYmTATPkiy~eS~K~kAkd~s~~l~SMDDe~~fGeef~rl~Fg 387 (1518)
T COG4889 309 ICDEAH-RTTGATLAGDDKSAFTRVHSDQNIKAAKRLYMTATPKIYSESSKAKAKDHSAELSSMDDELTFGEEFHRLGFG 387 (1518)
T ss_pred Eecchh-ccccceecccCcccceeecCcchhHHHHhhhcccCchhhchhhhhhhhhccceeeccchhhhhchhhhcccHH
Confidence 999999 654321110000000000 022466789999321 100000000 0111111110
Q ss_pred ----------ceeEEEEecCCC---------C--CCccccchHHHHHHHHHHhhhc--------------CCCCcEEEEe
Q 000854 343 ----------FPVDVRYVPCAT---------A--GTSAVASYVSDVVRMVGEVHTT--------------EKEGTILAFL 387 (1252)
Q Consensus 343 ----------~pV~i~y~~~~~---------s--~~~~~~~~~~~~~~~l~~i~~~--------------~~~g~iLVFl 387 (1252)
|.|-+.-..... + ..+...+....++-.-.-+.+. .+-.+.|-||
T Consensus 388 eAv~rdlLTDYKVmvlaVd~~~i~~~~~~~~~~~~~~L~~dd~~kIvG~wnGlakr~g~~n~~~~~~~d~ap~~RAIaF~ 467 (1518)
T COG4889 388 EAVERDLLTDYKVMVLAVDKEVIAGVLQSVLSGPSKGLALDDVSKIVGCWNGLAKRNGEDNDLKNIKADTAPMQRAIAFA 467 (1518)
T ss_pred HHHHhhhhccceEEEEEechhhhhhhhhhhccCcccccchhhhhhhhhhhhhhhhhccccccccCCcCCchHHHHHHHHH
Confidence 111111111000 0 0011111111111111111111 1124678899
Q ss_pred CCHHHHHHHHHHcC-----------C--CC--CeeEeecCCCCHHhhhhhcc---cC-CCceEEEEechhhhhcCCCCCe
Q 000854 388 TSKMEVEWACEKFD-----------A--PS--AVALPFHGQLSFDEQFCVFK---SY-PGRRKVIFATNVAETSLTIPGV 448 (1252)
Q Consensus 388 ~s~~eie~la~~L~-----------~--~~--~~v~~LHg~Ls~~eR~~v~~---~f-~G~~kVLVATniae~GIDIP~V 448 (1252)
.+.++...+++.+. + .+ +.+-...|.|...+|.+.+. .| +.+.+||-.--.+..|||+|..
T Consensus 468 k~I~tSK~i~~sFe~Vve~Y~~Elk~d~~nL~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlSNaRcLSEGVDVPaL 547 (1518)
T COG4889 468 KDIKTSKQIAESFETVVEAYDEELKKDFKNLKISIDHVDGTMNALERLDLLELKNTFEPNECKILSNARCLSEGVDVPAL 547 (1518)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEeecccccccHHHHHHHHhccCCCCcchheeeccchhhhcCCCcccc
Confidence 88887766665542 1 23 44555668899888866554 34 5788999888999999999999
Q ss_pred eEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEE
Q 000854 449 KFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCY 497 (1252)
Q Consensus 449 ~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~ 497 (1252)
+-||- |||++. .-+.+|-+||.-|..+|+-|
T Consensus 548 DsViF--------f~pr~s----------mVDIVQaVGRVMRKa~gK~y 578 (1518)
T COG4889 548 DSVIF--------FDPRSS----------MVDIVQAVGRVMRKAKGKKY 578 (1518)
T ss_pred ceEEE--------ecCchh----------HHHHHHHHHHHHHhCcCCcc
Confidence 99994 556553 36778999999999777643
No 150
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.75 E-value=8.1e-08 Score=120.79 Aligned_cols=131 Identities=13% Similarity=0.104 Sum_probs=86.7
Q ss_pred cCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCc---------cccCCCe
Q 000854 188 GETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSS---------AQHFDSK 258 (1252)
Q Consensus 188 apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~---------~~~~~t~ 258 (1252)
+-+|||||..+.+.+.+. ...++++|++.|...++.|+.+++.+.++. ...+.+...... ......+
T Consensus 167 ~~~GSGKTevyl~~i~~~-l~~Gk~vLvLvPEi~lt~q~~~rl~~~f~~---~~v~~lhS~l~~~~R~~~w~~~~~G~~~ 242 (665)
T PRK14873 167 ALPGEDWARRLAAAAAAT-LRAGRGALVVVPDQRDVDRLEAALRALLGA---GDVAVLSAGLGPADRYRRWLAVLRGQAR 242 (665)
T ss_pred cCCCCcHHHHHHHHHHHH-HHcCCeEEEEecchhhHHHHHHHHHHHcCC---CcEEEECCCCCHHHHHHHHHHHhCCCCc
Confidence 346999999887766543 445678999999999999999999987631 122233222211 1234578
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchh---hHHHH-HHHHHhccCCCcEEeeccCCCHHHHHh
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTD---LLLAL-VKDLLCRRFDLRLVIMSATADAHQLSK 328 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d---~ll~l-lk~l~~~~~~lqiIlmSATld~~~l~~ 328 (1252)
|+++|-.-++- -+.++++|||||=|+-++..+ ..... +........+.++|+.|||...+.+..
T Consensus 243 IViGtRSAvFa------P~~~LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTPSles~~~ 310 (665)
T PRK14873 243 VVVGTRSAVFA------PVEDLGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHARTAEAQAL 310 (665)
T ss_pred EEEEcceeEEe------ccCCCCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCCCHHHHHH
Confidence 99999654431 578899999999996333322 11111 122223456899999999999887654
No 151
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=98.63 E-value=3e-06 Score=103.93 Aligned_cols=115 Identities=20% Similarity=0.227 Sum_probs=94.5
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcC-CCCCeeEeecCCCCHHhhhhhcccC-CC--ceEEEEechhhhhcCCCCCeeEEEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFD-APSAVALPFHGQLSFDEQFCVFKSY-PG--RRKVIFATNVAETSLTIPGVKFVID 453 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~-~~~~~v~~LHg~Ls~~eR~~v~~~f-~G--~~kVLVATniae~GIDIP~V~~VId 453 (1252)
..+.++|+|..++....-+-..|. ..++..+-+.|..+...|..+.++| .+ ..-.|++|-+.+-|+|+-+.+-||.
T Consensus 544 kqg~rvllFsqs~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~~s~~VFLLTTrvGGLGlNLTgAnRVII 623 (923)
T KOG0387|consen 544 KQGDRVLLFSQSRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNEDESIFVFLLTTRVGGLGLNLTGANRVII 623 (923)
T ss_pred hCCCEEEEehhHHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCCCceEEEEEEecccccccccccCceEEE
Confidence 345699999999999988888888 6899999999999999999999999 33 3456889999999999999999998
Q ss_pred cCCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhcc
Q 000854 454 SGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFET 507 (1252)
Q Consensus 454 ~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~~ 507 (1252)
+|. -+||.+.+ ++.-|+-|-|-...=..|+|.+....++
T Consensus 624 fDP----dWNPStD~-----------QAreRawRiGQkkdV~VYRL~t~gTIEE 662 (923)
T KOG0387|consen 624 FDP----DWNPSTDN-----------QARERAWRIGQKKDVVVYRLMTAGTIEE 662 (923)
T ss_pred ECC----CCCCccch-----------HHHHHHHhhcCccceEEEEEecCCcHHH
Confidence 765 56665543 4557777777777778999999876653
No 152
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=98.60 E-value=5.9e-06 Score=105.43 Aligned_cols=134 Identities=15% Similarity=0.209 Sum_probs=89.8
Q ss_pred chHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCC-eeEeecCCCCHHhhhhhcccC-C-CceEEEEechh
Q 000854 362 SYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSA-VALPFHGQLSFDEQFCVFKSY-P-GRRKVIFATNV 438 (1252)
Q Consensus 362 ~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~-~v~~LHg~Ls~~eR~~v~~~f-~-G~~kVLVATni 438 (1252)
....+....+..+.. ..++.+|||++|.+..+.+++.+..... .....+|..+.. ..++.| . ++.-++|+|..
T Consensus 462 ~~~~~~~~~i~~~~~-~~~~~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~~~~---~~l~~f~~~~~~~~lv~~gs 537 (654)
T COG1199 462 ELLAKLAAYLREILK-ASPGGVLVLFPSYEYLKRVAERLKDERSTLPVLTQGEDERE---ELLEKFKASGEGLILVGGGS 537 (654)
T ss_pred HHHHHHHHHHHHHHh-hcCCCEEEEeccHHHHHHHHHHHhhcCccceeeecCCCcHH---HHHHHHHHhcCCeEEEeecc
Confidence 456667777777766 4455999999999999999999986554 345566665544 556666 2 22289999999
Q ss_pred hhhcCCCCCe--eEEEEcCCCccccccC----------CCCcc--cceecccCHhhHHHHhcccCCCC--CCeEEEe
Q 000854 439 AETSLTIPGV--KFVIDSGMVKESYFEP----------GTGMN--VLRVCRVSQSSANQRAGRAGRTE--PGRCYRL 499 (1252)
Q Consensus 439 ae~GIDIP~V--~~VId~g~pk~~~ydp----------~~~~~--~L~~~~iSkasy~QR~GRAGR~~--~G~c~~L 499 (1252)
+..|||+|+= +.||..++|-..--|| +.|-+ .....+.......|-+||+=|.. .|..+.+
T Consensus 538 f~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~ivll 614 (654)
T COG1199 538 FWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIVLL 614 (654)
T ss_pred ccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEEEe
Confidence 9999999875 7777778774321111 11100 11122334467789999999975 5666655
No 153
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=98.58 E-value=3.1e-06 Score=106.01 Aligned_cols=99 Identities=17% Similarity=0.225 Sum_probs=71.9
Q ss_pred CHHHHHHHHHHc-CCCCCeeEeecCCCCHHhhhhhcccC--C-Cc-eEEEEechhhhhcCCCCCeeEEEEcCCCcccccc
Q 000854 389 SKMEVEWACEKF-DAPSAVALPFHGQLSFDEQFCVFKSY--P-GR-RKVIFATNVAETSLTIPGVKFVIDSGMVKESYFE 463 (1252)
Q Consensus 389 s~~eie~la~~L-~~~~~~v~~LHg~Ls~~eR~~v~~~f--~-G~-~kVLVATniae~GIDIP~V~~VId~g~pk~~~yd 463 (1252)
.......+.+.+ +-.|..++.+||.|+..+|+.+.+.| + +. .-.+.+|-+.+.||++=+..-||-+|. .+|
T Consensus 603 ny~~tldl~e~~~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~----dWN 678 (776)
T KOG0390|consen 603 NYTQTLDLFEQLCRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDP----DWN 678 (776)
T ss_pred cHHHHHHHHHHHHhhcCceEEEEcCCCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCC----CCC
Confidence 333343333333 33589999999999999999999999 2 33 456677889999999999999998765 444
Q ss_pred CCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhh
Q 000854 464 PGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDF 505 (1252)
Q Consensus 464 p~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~ 505 (1252)
| +.=.|-++||=|.| +-..|+|.+....
T Consensus 679 P--------------a~d~QAmaR~~RdGQKk~v~iYrLlatGti 709 (776)
T KOG0390|consen 679 P--------------AVDQQAMARAWRDGQKKPVYIYRLLATGTI 709 (776)
T ss_pred c--------------hhHHHHHHHhccCCCcceEEEEEeecCCCc
Confidence 4 33346667776664 7778899887643
No 154
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=98.53 E-value=2e-06 Score=109.28 Aligned_cols=132 Identities=17% Similarity=0.183 Sum_probs=101.3
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC--C--CceEEEEechhhhhcCCCCCeeEEEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY--P--GRRKVIFATNVAETSLTIPGVKFVID 453 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~--G~~kVLVATniae~GIDIP~V~~VId 453 (1252)
..+.+||||-.=+...+-++++|...++..--+-|++..+.|+..++.| + .....|+||-+.+-|||+-..+.||.
T Consensus 697 ~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~SddFvFLLSTRAGGLGINLatADTVII 776 (1373)
T KOG0384|consen 697 EGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDSDDFVFLLSTRAGGLGINLATADTVII 776 (1373)
T ss_pred cCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCCCceEEEEecccCcccccccccceEEE
Confidence 3567999999888888999999999999999999999999999999999 3 45689999999999999999999997
Q ss_pred cCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhhcc-CCCCCCccccccchHHHHHHHh
Q 000854 454 SGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDFET-RPLNQEPEIHRVHLGIAVLRIL 529 (1252)
Q Consensus 454 ~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~~~-~~~~~~PEI~r~~L~~~vL~lk 529 (1252)
+|- -+||.+.+ |-..||-|-| .=..|||+|+..++. |-+..- +..-|+.+|++..
T Consensus 777 FDS----DWNPQNDL--------------QAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk---~KmvLD~aVIQ~m 835 (1373)
T KOG0384|consen 777 FDS----DWNPQNDL--------------QAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAK---LKMVLDHAVIQRM 835 (1373)
T ss_pred eCC----CCCcchHH--------------HHHHHHHhhcccceEEEEEEecCCchHHHHHHHHH---HHhhhHHHHHHhh
Confidence 753 56665544 5555555554 567999999988763 322111 1234667777654
Q ss_pred H
Q 000854 530 A 530 (1252)
Q Consensus 530 ~ 530 (1252)
.
T Consensus 836 ~ 836 (1373)
T KOG0384|consen 836 D 836 (1373)
T ss_pred c
Confidence 3
No 155
>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=98.48 E-value=4.8e-06 Score=106.91 Aligned_cols=131 Identities=18% Similarity=0.147 Sum_probs=84.0
Q ss_pred chHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCC--------eeEeecCCCCHHhhhhhcccC-C----C
Q 000854 362 SYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSA--------VALPFHGQLSFDEQFCVFKSY-P----G 428 (1252)
Q Consensus 362 ~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~--------~v~~LHg~Ls~~eR~~v~~~f-~----G 428 (1252)
.+...+...+..+... .+|.+|||.||....+.+++.+...+. .+. .-+ -...++..+++.| . +
T Consensus 505 ~~~~~l~~~i~~~~~~-~pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~-~E~-~~~~~~~~~l~~f~~~~~~~ 581 (705)
T TIGR00604 505 SLVRNLGELLVEFSKI-IPDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIF-VET-KDAQETSDALERYKQAVSEG 581 (705)
T ss_pred HHHHHHHHHHHHHhhc-CCCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEE-EeC-CCcchHHHHHHHHHHHHhcC
Confidence 3556666667666653 468999999999999998887764321 121 111 1124677788888 2 4
Q ss_pred ceEEEEec--hhhhhcCCCCC--eeEEEEcCCCccccccCCCC--ccccee--------ccc---CHhhHHHHhcccCCC
Q 000854 429 RRKVIFAT--NVAETSLTIPG--VKFVIDSGMVKESYFEPGTG--MNVLRV--------CRV---SQSSANQRAGRAGRT 491 (1252)
Q Consensus 429 ~~kVLVAT--niae~GIDIP~--V~~VId~g~pk~~~ydp~~~--~~~L~~--------~~i---Skasy~QR~GRAGR~ 491 (1252)
.-.|++|+ ..+..|||++| .+.||-.|+|-....||... +..+.. .|. ......|-+||+=|.
T Consensus 582 ~gavL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~ 661 (705)
T TIGR00604 582 RGAVLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRH 661 (705)
T ss_pred CceEEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccC
Confidence 55799999 88999999987 68898899986433332211 001100 111 124567999999998
Q ss_pred CCCe
Q 000854 492 EPGR 495 (1252)
Q Consensus 492 ~~G~ 495 (1252)
..-.
T Consensus 662 ~~D~ 665 (705)
T TIGR00604 662 KDDY 665 (705)
T ss_pred cCce
Confidence 7433
No 156
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=98.43 E-value=4.3e-06 Score=97.76 Aligned_cols=281 Identities=14% Similarity=0.136 Sum_probs=161.0
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecC
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPS 248 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~ 248 (1252)
-|++-+.-+++.+.-+++.-+-|-|||.|++....- +.....+++++|--.. ...++.+...+..+.....+.....
T Consensus 202 FQreGv~faL~RgGR~llADeMGLGKTiQAlaIA~y--yraEwplliVcPAsvr-ftWa~al~r~lps~~pi~vv~~~~D 278 (689)
T KOG1000|consen 202 FQREGVIFALERGGRILLADEMGLGKTIQALAIARY--YRAEWPLLIVCPASVR-FTWAKALNRFLPSIHPIFVVDKSSD 278 (689)
T ss_pred hhhhhHHHHHhcCCeEEEecccccchHHHHHHHHHH--HhhcCcEEEEecHHHh-HHHHHHHHHhcccccceEEEecccC
Confidence 488889999998888888999999999886543321 2223457788887443 4466666666544433111111111
Q ss_pred CCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccc-cccc---hhhHHHHHHHHHhccCCCcEEeeccCCCHH
Q 000854 249 FSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHE-RSLN---TDLLLALVKDLLCRRFDLRLVIMSATADAH 324 (1252)
Q Consensus 249 ~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHE-R~l~---~d~ll~llk~l~~~~~~lqiIlmSATld~~ 324 (1252)
.....-....|.|++.+++..+- .--.-..+.+||+||.|. +... +-....+++. -.++|++|.|+...
T Consensus 279 ~~~~~~t~~~v~ivSye~ls~l~-~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~------akhvILLSGTPavS 351 (689)
T KOG1000|consen 279 PLPDVCTSNTVAIVSYEQLSLLH-DILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKV------AKHVILLSGTPAVS 351 (689)
T ss_pred CccccccCCeEEEEEHHHHHHHH-HHHhcccceEEEEechhhhhccchhhhhhhhhHHHH------hhheEEecCCcccC
Confidence 11111233578888988874321 111233589999999992 1111 1222222322 24789999994321
Q ss_pred H----HH--------------h----hhhcCC---eEEEecccc-------------------------e---eEEEEec
Q 000854 325 Q----LS--------------K----YFYDCG---ISHVVGRNF-------------------------P---VDVRYVP 351 (1252)
Q Consensus 325 ~----l~--------------~----~f~~~~---vi~i~gr~~-------------------------p---V~i~y~~ 351 (1252)
. +. + |-.+.. .....|-+. | -++.|.-
T Consensus 352 RP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~qLPpKrr~Vv~~~ 431 (689)
T KOG1000|consen 352 RPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLKQLPPKRREVVYVS 431 (689)
T ss_pred CchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHhhCCccceEEEEEc
Confidence 1 11 1 100000 000011000 0 0011111
Q ss_pred CCCCCCccccchHH---------------------------HHHHHHH-Hhh-----hcCCCCcEEEEeCCHHHHHHHHH
Q 000854 352 CATAGTSAVASYVS---------------------------DVVRMVG-EVH-----TTEKEGTILAFLTSKMEVEWACE 398 (1252)
Q Consensus 352 ~~~s~~~~~~~~~~---------------------------~~~~~l~-~i~-----~~~~~g~iLVFl~s~~eie~la~ 398 (1252)
... ......+.+. .++..+. ++. -..++.+.+||+.-..-.+.+..
T Consensus 432 ~gr-~da~~~~lv~~a~~~t~~~~~e~~~~~l~l~y~~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~ 510 (689)
T KOG1000|consen 432 GGR-IDARMDDLVKAAADYTKVNSMERKHESLLLFYSLTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQV 510 (689)
T ss_pred CCc-cchHHHHHHHHhhhcchhhhhhhhhHHHHHHHHHhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHH
Confidence 000 0000000000 0111111 122 23467899999999998999999
Q ss_pred HcCCCCCeeEeecCCCCHHhhhhhcccC--CCceE-EEEechhhhhcCCCCCeeEEEEcCCCccc
Q 000854 399 KFDAPSAVALPFHGQLSFDEQFCVFKSY--PGRRK-VIFATNVAETSLTIPGVKFVIDSGMVKES 460 (1252)
Q Consensus 399 ~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~G~~k-VLVATniae~GIDIP~V~~VId~g~pk~~ 460 (1252)
.+.+.++...-+.|..++.+|...-+.| +.+.+ -|++-.++++|+|+...+.||-..++.++
T Consensus 511 ~~~~r~vg~IRIDGst~s~~R~ll~qsFQ~seev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnP 575 (689)
T KOG1000|consen 511 EVNKRKVGSIRIDGSTPSHRRTLLCQSFQTSEEVRVAVLSITAAGVGLTLTAASVVVFAELHWNP 575 (689)
T ss_pred HHHHcCCCeEEecCCCCchhHHHHHHHhccccceEEEEEEEeecccceeeeccceEEEEEecCCC
Confidence 9999999999999999999999999999 44444 46677889999999999999988775544
No 157
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.28 E-value=1.3e-05 Score=99.15 Aligned_cols=204 Identities=24% Similarity=0.344 Sum_probs=138.5
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCcccc-ceEEEEecCchhhcccc-ccCCeeec-Cceeee
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKD-KWGRVTFLTPDTAGKAT-ELNGVEYN-GSLLKV 1001 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~~~~ 1001 (1252)
++|-|-+... ++++++|...+++. |.|..+ |+ ..|...++ -.|.|+|.+++.|.+|. .+||.++. |-.|+|
T Consensus 59 ~~lFVgnLp~-~~tEd~L~~~F~~~--G~I~~v-rl--~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V 132 (578)
T TIGR01648 59 CEVFVGKIPR-DLYEDELVPLFEKA--GPIYEL-RL--MMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGV 132 (578)
T ss_pred CEEEeCCCCC-CCCHHHHHHHHHhh--CCEEEE-EE--EECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccc
Confidence 5666665443 68999999999765 667776 44 22222233 37999999999999995 58999996 677776
Q ss_pred ecccc----ccCCCCcccc-----------ccceeeeeeccc----ccCCceeEEEecCCCch-hhhhhcc--cccccee
Q 000854 1002 VPSRA----TLGGDNKMYT-----------FPAVKAKVYWPR----RLSKGFAVVKCDATDVE-FLVKDFF--DLAIGGR 1059 (1252)
Q Consensus 1002 ~~~~~----~~~~~~~~~~-----------~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~-~~~~~~~--~~~~~~~ 1059 (1252)
..+.. .+|+..+..+ ++.+...|..|+ ..++|||.|.+++++.. ..++... .+.+.||
T Consensus 133 ~~S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr 212 (578)
T TIGR01648 133 CISVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGH 212 (578)
T ss_pred cccccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCc
Confidence 54321 1255433221 234555566554 35799999999886543 3344332 3567889
Q ss_pred EEEEecCccc----------cceEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhcc
Q 000854 1060 YVRCEIGRRS----------MDAVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRF 1129 (1252)
Q Consensus 1060 ~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1129 (1252)
-+.++.+... ...|+|.+||.+++|++|.+.|...+.=.|-++-.+|
T Consensus 213 ~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r----------------------- 269 (578)
T TIGR01648 213 VIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR----------------------- 269 (578)
T ss_pred eEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec-----------------------
Confidence 8888755432 3459999999999999999999876333443332221
Q ss_pred CCCCCCCCCceEEEEcCCCCcchhhhheeeecccccHHHHHHHhhhcCcccCCc
Q 000854 1130 MPKRNSHANCCRVQVFPPEPKDAFMKAFITFDGRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
| -|||+|+- +-+|.+|+++|+|+.+-|+
T Consensus 270 ---------------------g---fAFVeF~s--~e~A~kAi~~lnG~~i~Gr 297 (578)
T TIGR01648 270 ---------------------D---YAFVHFED--REDAVKAMDELNGKELEGS 297 (578)
T ss_pred ---------------------C---eEEEEeCC--HHHHHHHHHHhCCCEECCE
Confidence 2 28999986 4688899999999999885
No 158
>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=98.24 E-value=0.00018 Score=86.35 Aligned_cols=237 Identities=16% Similarity=0.127 Sum_probs=155.8
Q ss_pred CCeEEEEChHHHHHHHhc------CC-CCCceeEEEEccccc-cccchhhHHHHHHHHHhccCC----------------
Q 000854 256 DSKVIYMTDHCLLQHFMN------DR-DLSRISCIIVDEAHE-RSLNTDLLLALVKDLLCRRFD---------------- 311 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~------~~-~L~~ls~IVIDEaHE-R~l~~d~ll~llk~l~~~~~~---------------- 311 (1252)
+++|++++|=-|...+.. +. .|+.+.++|||.||- -|.+.+.+..+++.+-..+.+
T Consensus 131 ~SDIIiASPLGLr~~i~~~~~~~~d~DFLSSIEv~iiD~ad~l~MQNW~Hv~~v~~~lN~~P~~~~~~DfsRVR~w~Ldg 210 (442)
T PF06862_consen 131 SSDIIIASPLGLRMIIGEEGEKKRDYDFLSSIEVLIIDQADVLLMQNWEHVLHVFEHLNLQPKKSHDTDFSRVRPWYLDG 210 (442)
T ss_pred cCCEEEEChHHHHHHhccccccccccchhheeeeEeechhhHHHHhhHHHHHHHHHHhccCCCCCCCCCHHHHHHHHHcC
Confidence 579999999776665553 11 899999999999993 345667777777766544421
Q ss_pred -----CcEEeeccCCCHHHHH---hhhhc-CCeEEEec----------ccceeEEEEecCCCC-CCccccchHHHHHH-H
Q 000854 312 -----LRLVIMSATADAHQLS---KYFYD-CGISHVVG----------RNFPVDVRYVPCATA-GTSAVASYVSDVVR-M 370 (1252)
Q Consensus 312 -----lqiIlmSATld~~~l~---~~f~~-~~vi~i~g----------r~~pV~i~y~~~~~s-~~~~~~~~~~~~~~-~ 370 (1252)
.|+|++|+..+++..+ .+..+ .+.+.+.. -..++...|.....+ ..........--.. .
T Consensus 211 ~a~~~RQtii~S~~~~pe~~slf~~~~~N~~G~v~~~~~~~~~g~i~~v~~~v~Q~F~r~~~~s~~~~~d~Rf~yF~~~i 290 (442)
T PF06862_consen 211 QAKYYRQTIIFSSFQTPEINSLFNRHCQNYAGKVRLKPPYEASGVISQVVVQVRQVFQRFDCSSPADDPDARFKYFTKKI 290 (442)
T ss_pred cchheeEeEEecCCCCHHHHHHHHhhCcCccceEEEeeccccceeeeccccCCceEEEEecCCCcchhhhHHHHHHHHHH
Confidence 6999999998876433 22221 12222211 112233333321111 00111111111112 2
Q ss_pred HHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhh--hhcCCCCC
Q 000854 371 VGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVA--ETSLTIPG 447 (1252)
Q Consensus 371 l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATnia--e~GIDIP~ 447 (1252)
+-.+.+....+.+|||+||--+--.+-+.|++.++....+|--.++.+-.++-..| .|+.+||+-|-=+ =+=..|.+
T Consensus 291 LP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~~~iLL~TER~HFfrRy~irG 370 (442)
T PF06862_consen 291 LPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGRKPILLYTERFHFFRRYRIRG 370 (442)
T ss_pred HHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCCceEEEEEhHHhhhhhceecC
Confidence 22222256779999999999999999999999999999999999999988888888 9999999999533 24467889
Q ss_pred eeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCC----CCCCeEEEecChhhhcc
Q 000854 448 VKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGR----TEPGRCYRLYSKSDFET 507 (1252)
Q Consensus 448 V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR----~~~G~c~~Lyt~~d~~~ 507 (1252)
|+.||-|++|..+.|- .+...+.+.... .....|..||++-|...
T Consensus 371 i~~viFY~~P~~p~fY---------------~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~ 419 (442)
T PF06862_consen 371 IRHVIFYGPPENPQFY---------------SELLNMLDESSGGEVDAADATVTVLYSKYDALR 419 (442)
T ss_pred CcEEEEECCCCChhHH---------------HHHHhhhcccccccccccCceEEEEecHhHHHH
Confidence 9999999999866441 444454444432 13789999999876543
No 159
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=98.15 E-value=5.9e-06 Score=105.28 Aligned_cols=168 Identities=20% Similarity=0.155 Sum_probs=107.9
Q ss_pred CcEEeeccCCCH--HHHHhhhhcCCeEEEecccceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCC
Q 000854 312 LRLVIMSATADA--HQLSKYFYDCGISHVVGRNFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTS 389 (1252)
Q Consensus 312 lqiIlmSATld~--~~l~~~f~~~~vi~i~gr~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s 389 (1252)
.++-+||.|... ..|.+.+ +.+++.||.. .|+.-.-.++.. ..........++.-+..++ ..+.++||-+.|
T Consensus 564 ~kLsGMTGTA~tea~Ef~~IY-~L~Vv~IPTn-rP~~R~D~~D~v--y~t~~eK~~Aii~ei~~~~--~~GrPVLVGT~S 637 (1112)
T PRK12901 564 HKLAGMTGTAETEAGEFWDIY-KLDVVVIPTN-RPIARKDKEDLV--YKTKREKYNAVIEEITELS--EAGRPVLVGTTS 637 (1112)
T ss_pred chhcccCCCCHHHHHHHHHHh-CCCEEECCCC-CCcceecCCCeE--ecCHHHHHHHHHHHHHHHH--HCCCCEEEEeCc
Confidence 378899999653 3344444 4667777643 233211111110 0011122334444454444 578899999999
Q ss_pred HHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCCceEEEEechhhhhcCCCC--------CeeEEEEcCCCcccc
Q 000854 390 KMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPGRRKVIFATNVAETSLTIP--------GVKFVIDSGMVKESY 461 (1252)
Q Consensus 390 ~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G~~kVLVATniae~GIDIP--------~V~~VId~g~pk~~~ 461 (1252)
.+..+.+++.|...++..-.|++.....|-.-|-+.= ..-.|-||||.|+||-||. +=-+||-+..+
T Consensus 638 Ve~SE~lS~~L~~~gI~H~VLNAK~h~~EAeIVA~AG-~~GaVTIATNMAGRGTDIkLg~~V~e~GGL~VIgTerh---- 712 (1112)
T PRK12901 638 VEISELLSRMLKMRKIPHNVLNAKLHQKEAEIVAEAG-QPGTVTIATNMAGRGTDIKLSPEVKAAGGLAIIGTERH---- 712 (1112)
T ss_pred HHHHHHHHHHHHHcCCcHHHhhccchhhHHHHHHhcC-CCCcEEEeccCcCCCcCcccchhhHHcCCCEEEEccCC----
Confidence 9999999999999888877777765444443332322 2347999999999999996 22366655443
Q ss_pred ccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 462 FEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 462 ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
-|+.--.|-.|||||.| ||.+-.+.+-+|
T Consensus 713 --------------eSrRID~QLrGRaGRQGDPGsS~f~lSLED 742 (1112)
T PRK12901 713 --------------ESRRVDRQLRGRAGRQGDPGSSQFYVSLED 742 (1112)
T ss_pred --------------CcHHHHHHHhcccccCCCCCcceEEEEccc
Confidence 34455679999999998 999877777554
No 160
>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=98.01 E-value=4.8e-05 Score=86.71 Aligned_cols=133 Identities=21% Similarity=0.133 Sum_probs=72.6
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHH---hccc-ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCC-----
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLA---DSGI-AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFS----- 250 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Ll---e~~~-~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~----- 250 (1252)
...-.++.-++|+|||.++..++. .... .....+||++|. .+..+....+.+....... .+..+....
T Consensus 24 ~~~g~lL~de~GlGKT~~~i~~~~~l~~~~~~~~~~~~LIv~P~-~l~~~W~~E~~~~~~~~~~--~v~~~~~~~~~~~~ 100 (299)
T PF00176_consen 24 PPRGGLLADEMGLGKTITAIALISYLKNEFPQRGEKKTLIVVPS-SLLSQWKEEIEKWFDPDSL--RVIIYDGDSERRRL 100 (299)
T ss_dssp TT-EEEE---TTSSHHHHHHHHHHHHHHCCTTSS-S-EEEEE-T-TTHHHHHHHHHHHSGT-TS---EEEESSSCHHHHT
T ss_pred CCCCEEEEECCCCCchhhhhhhhhhhhhccccccccceeEeecc-chhhhhhhhhccccccccc--cccccccccccccc
Confidence 345677788999999988666554 2211 112258888899 5557788888777532111 233323222
Q ss_pred -ccccCCCeEEEEChHHHH--------HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 251 -SAQHFDSKVIYMTDHCLL--------QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 251 -~~~~~~t~Iiv~Tpg~Ll--------~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
.......+++++|.+.+. ..+. . -++++||+||+|. .-+.+.. ..+.+.... ....++||||+
T Consensus 101 ~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~---~-~~~~~vIvDEaH~-~k~~~s~--~~~~l~~l~-~~~~~lLSgTP 172 (299)
T PF00176_consen 101 SKNQLPKYDVVITTYETLRKARKKKDKEDLK---Q-IKWDRVIVDEAHR-LKNKDSK--RYKALRKLR-ARYRWLLSGTP 172 (299)
T ss_dssp TSSSCCCSSEEEEEHHHHH--TSTHTTHHHH---T-SEEEEEEETTGGG-GTTTTSH--HHHHHHCCC-ECEEEEE-SS-
T ss_pred cccccccceeeeccccccccccccccccccc---c-ccceeEEEecccc-ccccccc--ccccccccc-cceEEeecccc
Confidence 223356789999999998 1221 2 3589999999993 3222211 112222222 56778999995
Q ss_pred CH
Q 000854 322 DA 323 (1252)
Q Consensus 322 d~ 323 (1252)
-.
T Consensus 173 ~~ 174 (299)
T PF00176_consen 173 IQ 174 (299)
T ss_dssp SS
T ss_pred cc
Confidence 43
No 161
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=98.00 E-value=0.00014 Score=91.25 Aligned_cols=208 Identities=18% Similarity=0.276 Sum_probs=136.5
Q ss_pred EEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeeecc
Q 000854 926 TVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVVPS 1004 (1252)
Q Consensus 926 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 1004 (1252)
||.|-+.+.+ +++.+|..++.+. |.|.++. +-..+.....-..|.|+|.+++.|.+|+ ++|+..+.|..++|..+
T Consensus 2 sl~VgnLp~~-vte~~L~~~F~~~--G~v~~v~-v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s 77 (562)
T TIGR01628 2 SLYVGDLDPD-VTEAKLYDLFKPF--GPVLSVR-VCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWS 77 (562)
T ss_pred eEEEeCCCCC-CCHHHHHHHHHhc--CCEEEEE-EEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecc
Confidence 5677765544 5799999999666 6677773 3111111122348999999999999996 69999999999999755
Q ss_pred ccc------------cCCCCccc----------cc-cceeeeeeccc-ccCCceeEEEecCC-Cchhhhhhcccccccee
Q 000854 1005 RAT------------LGGDNKMY----------TF-PAVKAKVYWPR-RLSKGFAVVKCDAT-DVEFLVKDFFDLAIGGR 1059 (1252)
Q Consensus 1005 ~~~------------~~~~~~~~----------~~-~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 1059 (1252)
... +++..+.. .| .-+..+|.... ..|||||.|.-... +++-.+...-+..++|+
T Consensus 78 ~~~~~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~ 157 (562)
T TIGR01628 78 QRDPSLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDK 157 (562)
T ss_pred cccccccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCc
Confidence 311 11111100 11 12345665543 34899999998664 45555555666677888
Q ss_pred EEEEecCcc----------ccceEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhcc
Q 000854 1060 YVRCEIGRR----------SMDAVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRF 1129 (1252)
Q Consensus 1060 ~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1129 (1252)
-++++...+ ...+|+|+||+.+++|++|.+.|...- .|.++.+.+... +
T Consensus 158 ~i~v~~~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG--~i~~~~i~~~~~--g----------------- 216 (562)
T TIGR01628 158 EVYVGRFIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKFG--EITSAAVMKDGS--G----------------- 216 (562)
T ss_pred eEEEeccccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhcC--CEEEEEEEECCC--C-----------------
Confidence 887754332 235699999999999999998887643 244444433211 0
Q ss_pred CCCCCCCCCceEEEEcCCCCcchhhhheeeecccccHHHHHHHhhhcCcccC
Q 000854 1130 MPKRNSHANCCRVQVFPPEPKDAFMKAFITFDGRLHLEAAKALEQLEGKVLP 1181 (1252)
Q Consensus 1130 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1181 (1252)
.+-=-|+|+|+- |-.|.+|++.++|+.+.
T Consensus 217 ---------------------~~~G~afV~F~~--~e~A~~Av~~l~g~~i~ 245 (562)
T TIGR01628 217 ---------------------RSRGFAFVNFEK--HEDAAKAVEEMNGKKIG 245 (562)
T ss_pred ---------------------CcccEEEEEECC--HHHHHHHHHHhCCcEec
Confidence 010127888986 56789999999999998
No 162
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=97.99 E-value=0.00012 Score=93.37 Aligned_cols=109 Identities=19% Similarity=0.266 Sum_probs=78.2
Q ss_pred CCcEEEEeCCHHHHHHHHHHcCCC---CCeeEeecCCCCHHhhhhhcccC-CC-ceEE-EEechhhhhcCCCCCeeEEEE
Q 000854 380 EGTILAFLTSKMEVEWACEKFDAP---SAVALPFHGQLSFDEQFCVFKSY-PG-RRKV-IFATNVAETSLTIPGVKFVID 453 (1252)
Q Consensus 380 ~g~iLVFl~s~~eie~la~~L~~~---~~~v~~LHg~Ls~~eR~~v~~~f-~G-~~kV-LVATniae~GIDIP~V~~VId 453 (1252)
+.++||||.=+..++-+..-|.+. ...-.-+.|+.++.+|.++.++| ++ .+.| +++|-+.+-|+|+-+.+.||-
T Consensus 1340 qHRiLIFcQlK~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~DptIDvLlLTThVGGLGLNLTGADTVVF 1419 (1549)
T KOG0392|consen 1340 QHRILIFCQLKSMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPTIDVLLLTTHVGGLGLNLTGADTVVF 1419 (1549)
T ss_pred cceeEEeeeHHHHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCceeEEEEeeeccccccccCCCceEEE
Confidence 358999999999888887776543 23344789999999999999999 43 5655 567799999999999999994
Q ss_pred cCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhhc
Q 000854 454 SGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDFE 506 (1252)
Q Consensus 454 ~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~~ 506 (1252)
.. --+||-+. .|-+-||-|-| .=-+|||+++...+
T Consensus 1420 vE----HDWNPMrD--------------LQAMDRAHRIGQKrvVNVyRlItrGTLE 1457 (1549)
T KOG0392|consen 1420 VE----HDWNPMRD--------------LQAMDRAHRIGQKRVVNVYRLITRGTLE 1457 (1549)
T ss_pred Ee----cCCCchhh--------------HHHHHHHHhhcCceeeeeeeehhcccHH
Confidence 31 12344332 26566666654 44578888776543
No 163
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=97.93 E-value=0.00029 Score=82.67 Aligned_cols=109 Identities=13% Similarity=0.191 Sum_probs=76.2
Q ss_pred cEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-C--CceEEEEechhhhhcCCCCCeeEEEEcCCCc
Q 000854 382 TILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-P--GRRKVIFATNVAETSLTIPGVKFVIDSGMVK 458 (1252)
Q Consensus 382 ~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~--G~~kVLVATniae~GIDIP~V~~VId~g~pk 458 (1252)
+.|||-.=....+-+.-.|.+.|+.++.|-|+|++..|...++.| + ..+-.|++-.+.+..+|+-....|...+.
T Consensus 640 KsIVFSQFTSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~c~vfLvSLkAGGVALNLteASqVFmmDP-- 717 (791)
T KOG1002|consen 640 KSIVFSQFTSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDIDCRVFLVSLKAGGVALNLTEASQVFMMDP-- 717 (791)
T ss_pred hhhhHHHHHHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCCeEEEEEEeccCceEeeechhceeEeecc--
Confidence 344444333333334445566899999999999999999999999 2 45667788888888899988899987643
Q ss_pred cccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhh
Q 000854 459 ESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDF 505 (1252)
Q Consensus 459 ~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~ 505 (1252)
.+||.-. -++.-|+-|.|.-+|-+.++|+-+...
T Consensus 718 --WWNpaVe-----------~Qa~DRiHRIGQ~rPvkvvrf~iEnsi 751 (791)
T KOG1002|consen 718 --WWNPAVE-----------WQAQDRIHRIGQYRPVKVVRFCIENSI 751 (791)
T ss_pred --cccHHHH-----------hhhhhhHHhhcCccceeEEEeehhccH
Confidence 4544322 233456666666678888888876543
No 164
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=97.93 E-value=0.00029 Score=87.02 Aligned_cols=113 Identities=20% Similarity=0.284 Sum_probs=90.5
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCC---CceEEEEechhhhhcCCCCCeeEEEEcC
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYP---GRRKVIFATNVAETSLTIPGVKFVIDSG 455 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~---G~~kVLVATniae~GIDIP~V~~VId~g 455 (1252)
.+.+||||-.=....+-+-..|...++...-|-|..+-.+|+.+++.|. .-.-.|++|-+.+-|||+-..++||-+|
T Consensus 776 ~G~RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTqV~~RQ~lId~Fn~d~difVFLLSTKAGG~GINLt~An~VIihD 855 (941)
T KOG0389|consen 776 KGDRVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQVNDRQDLIDEFNTDKDIFVFLLSTKAGGFGINLTCANTVIIHD 855 (941)
T ss_pred cCCEEEEeeHHHHHHHHHHHHHHhcCceEEeecCCccchHHHHHHHhhccCCceEEEEEeeccCcceecccccceEEEee
Confidence 4578999976666566666677778899999999999999999999992 3346789999999999999999999887
Q ss_pred CCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 456 MVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 456 ~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
. .|||... -++.-|+-|.|.++|=..|+|+++...+
T Consensus 856 ~----dFNP~dD-----------~QAEDRcHRvGQtkpVtV~rLItk~TIE 891 (941)
T KOG0389|consen 856 I----DFNPYDD-----------KQAEDRCHRVGQTKPVTVYRLITKSTIE 891 (941)
T ss_pred c----CCCCccc-----------chhHHHHHhhCCcceeEEEEEEecCcHH
Confidence 6 4555443 3455677777777899999999987654
No 165
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.92 E-value=0.00022 Score=93.93 Aligned_cols=133 Identities=17% Similarity=0.159 Sum_probs=84.0
Q ss_pred CeEEEEcCCCChhhHH---HHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCcc-ccCCC
Q 000854 182 QILVLIGETGCGKSTQ---LVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSA-QHFDS 257 (1252)
Q Consensus 182 ~vvII~apTGSGKTtq---ipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~-~~~~t 257 (1252)
+.-+|.=-||||||.. +...+++. .....|++++-|+.|-.|+.+.+...................... .....
T Consensus 274 ~~G~IWHtqGSGKTlTm~~~A~~l~~~--~~~~~v~fvvDR~dLd~Q~~~~f~~~~~~~~~~~~~~s~~~Lk~~l~~~~~ 351 (962)
T COG0610 274 KGGYIWHTQGSGKTLTMFKLARLLLEL--PKNPKVLFVVDRKDLDDQTSDEFQSFGKVAFNDPKAESTSELKELLEDGKG 351 (962)
T ss_pred CceEEEeecCCchHHHHHHHHHHHHhc--cCCCeEEEEechHHHHHHHHHHHHHHHHhhhhcccccCHHHHHHHHhcCCC
Confidence 3467788999999975 33344443 456789999999999999999998875332211000000000000 11246
Q ss_pred eEEEEChHHHHHHHhcCC---CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 258 KVIYMTDHCLLQHFMNDR---DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~---~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
.|+|+|-..|-....... .-.+==+||+|||| |+........ ++. ..++...+++|.|+
T Consensus 352 ~ii~TTIQKf~~~~~~~~~~~~~~~~ivvI~DEaH-RSQ~G~~~~~-~~~---~~~~a~~~gFTGTP 413 (962)
T COG0610 352 KIIVTTIQKFNKAVKEDELELLKRKNVVVIIDEAH-RSQYGELAKL-LKK---ALKKAIFIGFTGTP 413 (962)
T ss_pred cEEEEEecccchhhhcccccccCCCcEEEEEechh-hccccHHHHH-HHH---HhccceEEEeeCCc
Confidence 899999998877665541 12222378999999 8876544333 322 34568899999994
No 166
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.89 E-value=0.0003 Score=82.80 Aligned_cols=129 Identities=22% Similarity=0.325 Sum_probs=86.0
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeec-ccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeee
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKF-AVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1002 (1252)
.+|.|.+. ...+++++|..++++. |-|..+ |+ .... ....-.+|.|+|.+++.|.+|+ ++||..+.|..|+|-
T Consensus 4 ~~l~V~nL-p~~~~e~~l~~~F~~~--G~i~~v-~i~~d~~-~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~ 78 (352)
T TIGR01661 4 TNLIVNYL-PQTMTQEEIRSLFTSI--GEIESC-KLVRDKV-TGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVS 78 (352)
T ss_pred cEEEEeCC-CCCCCHHHHHHHHHcc--CCEEEE-EEEEcCC-CCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEE
Confidence 45667665 5678999999999664 667776 33 2111 1123359999999999999996 699999999999994
Q ss_pred ccc---c-------ccCCCCccc----------cc-cceeeeeeccc--ccCCceeEEEecCC-Cchhhhhhccccccce
Q 000854 1003 PSR---A-------TLGGDNKMY----------TF-PAVKAKVYWPR--RLSKGFAVVKCDAT-DVEFLVKDFFDLAIGG 1058 (1252)
Q Consensus 1003 ~~~---~-------~~~~~~~~~----------~~-~~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1058 (1252)
... . .+||..+.. +| +-+..++.+-+ ..++|||.|+.+.. |++-.++..-+..++|
T Consensus 79 ~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g 158 (352)
T TIGR01661 79 YARPSSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSG 158 (352)
T ss_pred eecccccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 322 1 114443221 23 33456665544 35899999998765 4556666565566666
No 167
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=97.89 E-value=9.8e-05 Score=93.30 Aligned_cols=107 Identities=25% Similarity=0.192 Sum_probs=74.1
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCCCc-eEEEEechhhhhcCCCCCee-------
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYPGR-RKVIFATNVAETSLTIPGVK------- 449 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~G~-~kVLVATniae~GIDIP~V~------- 449 (1252)
..++++||-..+.+..+.+.+.|.+.++.-..+.+.-...+-..+- ..|. -.|=||||.|+||-||---.
T Consensus 427 ~~gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h~~EA~Iia--~AG~~gaVTiATNMAGRGTDIkLg~~~~~V~~ 504 (822)
T COG0653 427 EKGQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNHAREAEIIA--QAGQPGAVTIATNMAGRGTDIKLGGNPEFVME 504 (822)
T ss_pred hcCCCEEEcCcceecchhHHHHHHhcCCCceeeccccHHHHHHHHh--hcCCCCccccccccccCCcccccCCCHHHHHH
Confidence 5789999999999999999999998888776676665433333332 3333 36889999999999994221
Q ss_pred ----EEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-CCeEEEecChhh
Q 000854 450 ----FVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-PGRCYRLYSKSD 504 (1252)
Q Consensus 450 ----~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-~G~c~~Lyt~~d 504 (1252)
+||-..... |+.==.|-.||+||.| ||..-.+.+-+|
T Consensus 505 lGGL~VIgTERhE------------------SRRIDnQLRGRsGRQGDpG~S~F~lSleD 546 (822)
T COG0653 505 LGGLHVIGTERHE------------------SRRIDNQLRGRAGRQGDPGSSRFYLSLED 546 (822)
T ss_pred hCCcEEEecccch------------------hhHHHHHhhcccccCCCcchhhhhhhhHH
Confidence 344332222 2222349999999998 898765555544
No 168
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=97.83 E-value=6.1e-06 Score=103.75 Aligned_cols=208 Identities=14% Similarity=0.103 Sum_probs=118.3
Q ss_pred eEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEec---CCCccccCCCe
Q 000854 183 ILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYP---SFSSAQHFDSK 258 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~---~~~~~~~~~t~ 258 (1252)
.+++-+|||+|||..+...+... ...++.+++++.|-..+.....+.+...... . |..++-.. .-+-.....++
T Consensus 945 ~~~~g~ptgsgkt~~ae~a~~~~~~~~p~~kvvyIap~kalvker~~Dw~~r~~~-~-g~k~ie~tgd~~pd~~~v~~~~ 1022 (1230)
T KOG0952|consen 945 NFLLGAPTGSGKTVVAELAIFRALSYYPGSKVVYIAPDKALVKERSDDWSKRDEL-P-GIKVIELTGDVTPDVKAVREAD 1022 (1230)
T ss_pred hhhhcCCccCcchhHHHHHHHHHhccCCCccEEEEcCCchhhcccccchhhhccc-C-CceeEeccCccCCChhheecCc
Confidence 34456999999998765555432 2234579999999999999988888776522 1 23332211 11112234689
Q ss_pred EEEEChHHHHHHH---hcCCCCCceeEEEEccccccccchhhHHHHHHHH-----HhccCCCcEEeec-cCCCHHHHHhh
Q 000854 259 VIYMTDHCLLQHF---MNDRDLSRISCIIVDEAHERSLNTDLLLALVKDL-----LCRRFDLRLVIMS-ATADAHQLSKY 329 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L---~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l-----~~~~~~lqiIlmS-ATld~~~l~~~ 329 (1252)
++++||+..-... ++...+.+++.+|+||.|+-.-+.+-.+.++... ....+.+|++++| |-.++..+++|
T Consensus 1023 ~~ittpek~dgi~Rsw~~r~~v~~v~~iv~de~hllg~~rgPVle~ivsr~n~~s~~t~~~vr~~glsta~~na~dla~w 1102 (1230)
T KOG0952|consen 1023 IVITTPEKWDGISRSWQTRKYVQSVSLIVLDEIHLLGEDRGPVLEVIVSRMNYISSQTEEPVRYLGLSTALANANDLADW 1102 (1230)
T ss_pred eEEcccccccCccccccchhhhccccceeecccccccCCCcceEEEEeeccccCccccCcchhhhhHhhhhhccHHHHHH
Confidence 9999998875443 4444889999999999995333322111111111 1122446777665 55788999999
Q ss_pred hhcCCeEEEecccce--eEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHH
Q 000854 330 FYDCGISHVVGRNFP--VDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVE 394 (1252)
Q Consensus 330 f~~~~vi~i~gr~~p--V~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie 394 (1252)
++..+.........| .++++...+. ..........-......+....+..++|||+.++....
T Consensus 1103 l~~~~~~nf~~svrpvp~~~~i~gfp~--~~~cprm~smnkpa~qaik~~sp~~p~lifv~srrqtr 1167 (1230)
T KOG0952|consen 1103 LNIKDMYNFRPSVRPVPLEVHIDGFPG--QHYCPRMMSMNKPAFQAIKTHSPIKPVLIFVSSRRQTR 1167 (1230)
T ss_pred hCCCCcCCCCcccccCCceEeecCCCc--hhcchhhhhcccHHHHHHhcCCCCCceEEEeecccccc
Confidence 986655333222333 3333332221 00111111111111222334467799999999877544
No 169
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=97.74 E-value=0.00044 Score=86.88 Aligned_cols=207 Identities=21% Similarity=0.280 Sum_probs=131.9
Q ss_pred EEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCcc-ccceEEEEecCchhhccc-cccCCeeecCceeeeec
Q 000854 926 TVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDE-KDKWGRVTFLTPDTAGKA-TELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 926 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 1003 (1252)
+|.|.+.. ..+|+++|..++++. |-|.++ |. ..+.+. ....|.|.|.+++.|.+| .++||..+.|..++|.+
T Consensus 90 ~vfV~nLp-~~~~~~~L~~~F~~~--G~i~~~-~i--~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~ 163 (562)
T TIGR01628 90 NIFVKNLD-KSVDNKALFDTFSKF--GNILSC-KV--ATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGR 163 (562)
T ss_pred ceEEcCCC-ccCCHHHHHHHHHhc--CCccee-Ee--eecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEec
Confidence 45666653 467899999999765 445444 22 111111 234799999999999999 48999999999999865
Q ss_pred ccccc---------------CCCCccc----------ccccee-eee-ecccccCCceeEEEecCCC-chhhhhhccccc
Q 000854 1004 SRATL---------------GGDNKMY----------TFPAVK-AKV-YWPRRLSKGFAVVKCDATD-VEFLVKDFFDLA 1055 (1252)
Q Consensus 1004 ~~~~~---------------~~~~~~~----------~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 1055 (1252)
..... +|..... .|-.|. +++ ..+...++|||.|.....+ +.-.+.-.-...
T Consensus 164 ~~~~~~~~~~~~~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~ 243 (562)
T TIGR01628 164 FIKKHEREAAPLKKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKK 243 (562)
T ss_pred cccccccccccccCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcE
Confidence 43221 2221111 122222 222 2345578999999987654 555566566667
Q ss_pred cc----eeEEEEecCcccc-----------------------ceEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecC
Q 000854 1056 IG----GRYVRCEIGRRSM-----------------------DAVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGD 1108 (1252)
Q Consensus 1056 ~~----~~~~~~~~~~~~~-----------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1108 (1252)
++ |+.+.+...++.. ..|+|.|||..++|++|.+.|...- .|.++
T Consensus 244 i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~G--~i~~~------ 315 (562)
T TIGR01628 244 IGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSECG--EITSA------ 315 (562)
T ss_pred ecccccceeeEeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhcC--CeEEE------
Confidence 77 7777665443222 2488888888888888877775432 23333
Q ss_pred cCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeecccccHHHHHHHhhhcCcccCC
Q 000854 1109 AVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFDGRLHLEAAKALEQLEGKVLPG 1182 (1252)
Q Consensus 1109 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1182 (1252)
.|+......+-=-|||+|+-. -+|.+|+++++|+.+-|
T Consensus 316 ----------------------------------~i~~d~~g~~~g~gfV~f~~~--~~A~~A~~~~~g~~~~g 353 (562)
T TIGR01628 316 ----------------------------------KVMLDEKGVSRGFGFVCFSNP--EEANRAVTEMHGRMLGG 353 (562)
T ss_pred ----------------------------------EEEECCCCCcCCeEEEEeCCH--HHHHHHHHHhcCCeeCC
Confidence 333332222223468999864 68999999999999987
No 170
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=97.66 E-value=0.0001 Score=80.09 Aligned_cols=121 Identities=26% Similarity=0.307 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHhcC-CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe
Q 000854 168 YMYRQDILRRIYGE-QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY 246 (1252)
Q Consensus 168 ~~qq~~I~~al~~~-~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~ 246 (1252)
..|++++..++.++ ++.+|+|+.|+|||+.+-. +.+.....+.+|+++.||..++..+.+.....
T Consensus 4 ~~Q~~a~~~~l~~~~~~~~l~G~aGtGKT~~l~~-~~~~~~~~g~~v~~~apT~~Aa~~L~~~~~~~------------- 69 (196)
T PF13604_consen 4 EEQREAVRAILTSGDRVSVLQGPAGTGKTTLLKA-LAEALEAAGKRVIGLAPTNKAAKELREKTGIE------------- 69 (196)
T ss_dssp HHHHHHHHHHHHCTCSEEEEEESTTSTHHHHHHH-HHHHHHHTT--EEEEESSHHHHHHHHHHHTS--------------
T ss_pred HHHHHHHHHHHhcCCeEEEEEECCCCCHHHHHHH-HHHHHHhCCCeEEEECCcHHHHHHHHHhhCcc-------------
Confidence 45777777776655 5888899999999986543 32222223578999999999888877653210
Q ss_pred cCCCccccCCCeEEEEChHHHHHHHhc-----CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 247 PSFSSAQHFDSKVIYMTDHCLLQHFMN-----DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 247 ~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~-----~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
..|-..++..... .+.+...++|||||+- +++...+..+++.+.. .+.|+|++-=+
T Consensus 70 --------------a~Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEas--mv~~~~~~~ll~~~~~--~~~klilvGD~ 130 (196)
T PF13604_consen 70 --------------AQTIHSFLYRIPNGDDEGRPELPKKDVLIVDEAS--MVDSRQLARLLRLAKK--SGAKLILVGDP 130 (196)
T ss_dssp --------------EEEHHHHTTEECCEECCSSCC-TSTSEEEESSGG--G-BHHHHHHHHHHS-T---T-EEEEEE-T
T ss_pred --------------hhhHHHHHhcCCcccccccccCCcccEEEEeccc--ccCHHHHHHHHHHHHh--cCCEEEEECCc
Confidence 0111111110000 0014566799999998 6777666666655432 35677776544
No 171
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=97.54 E-value=9.9e-05 Score=73.77 Aligned_cols=114 Identities=21% Similarity=0.336 Sum_probs=58.1
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccc-----cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccc
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIA-----AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQ 253 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~-----~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~ 253 (1252)
+++..++|.||+|+|||+.+-.++.+.... ....+.+..|...-...+...+...++.....
T Consensus 2 ~~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~------------- 68 (131)
T PF13401_consen 2 QSQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS------------- 68 (131)
T ss_dssp -----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-------------
T ss_pred CCCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-------------
Confidence 356778889999999999877666543210 22234455555544566666666665321111
Q ss_pred cCCCeEEEEChHH----HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 254 HFDSKVIYMTDHC----LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 254 ~~~t~Iiv~Tpg~----Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
-.|... +.+.+... ...+|||||+|. ... .-....++.+.. ..++++|+..-
T Consensus 69 -------~~~~~~l~~~~~~~l~~~----~~~~lviDe~~~-l~~-~~~l~~l~~l~~-~~~~~vvl~G~ 124 (131)
T PF13401_consen 69 -------RQTSDELRSLLIDALDRR----RVVLLVIDEADH-LFS-DEFLEFLRSLLN-ESNIKVVLVGT 124 (131)
T ss_dssp -------TS-HHHHHHHHHHHHHHC----TEEEEEEETTHH-HHT-HHHHHHHHHHTC-SCBEEEEEEES
T ss_pred -------cCCHHHHHHHHHHHHHhc----CCeEEEEeChHh-cCC-HHHHHHHHHHHh-CCCCeEEEEEC
Confidence 122333 33333333 227999999994 223 333333444433 55666665543
No 172
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=97.51 E-value=0.00096 Score=86.07 Aligned_cols=66 Identities=12% Similarity=0.121 Sum_probs=51.4
Q ss_pred CCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 256 DSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
...|+++||.+|..-|..+. .+++++.||||||| |...+--.--+++......++.-+.+|||.+.
T Consensus 7 ~ggi~~~T~rIl~~DlL~~ri~~~~itgiiv~~Ah-r~~~~~~eaFI~rlyr~~n~~gfIkafSdsP~ 73 (814)
T TIGR00596 7 EGGIFSITSRILVVDLLTGIIPPELITGILVLRAD-RIIESSQEAFILRLYRQKNKTGFIKAFSDNPE 73 (814)
T ss_pred cCCEEEEechhhHhHHhcCCCCHHHccEEEEeecc-cccccccHHHHHHHHHHhCCCcceEEecCCCc
Confidence 46799999999976665555 89999999999999 77665544445555556677788999999955
No 173
>PF13245 AAA_19: Part of AAA domain
Probab=97.48 E-value=0.00022 Score=65.61 Aligned_cols=57 Identities=26% Similarity=0.432 Sum_probs=43.1
Q ss_pred HHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc---cccCCeEEecCcHHHHHHHHHHHH
Q 000854 174 ILRRIYGEQILVLIGETGCGKSTQLVQFLADSG---IAAEQSIVCTQPRKIAAISLAQRV 230 (1252)
Q Consensus 174 I~~al~~~~vvII~apTGSGKTtqipq~Lle~~---~~~~~~ILv~qPrR~LA~qva~rv 230 (1252)
|..++.++++++|.||.|||||+.+...+.+.. ...+.+|+++.|++.++..+.+++
T Consensus 3 v~~al~~~~~~vv~g~pGtGKT~~~~~~i~~l~~~~~~~~~~vlv~a~t~~aa~~l~~rl 62 (76)
T PF13245_consen 3 VRRALAGSPLFVVQGPPGTGKTTTLAARIAELLAARADPGKRVLVLAPTRAAADELRERL 62 (76)
T ss_pred HHHHHhhCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCCCeEEEECCCHHHHHHHHHHH
Confidence 444666678888899999999976555544322 112668999999999999999888
No 174
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.37 E-value=0.0051 Score=76.28 Aligned_cols=181 Identities=17% Similarity=0.141 Sum_probs=108.5
Q ss_pred cCeeeEEEEecCCCCCCChHHHHHHHhhccC----------cceeeeeecccCCCCccccceEEEEecCchhhccccccC
Q 000854 921 ERRFLTVDVYHSNANILDDKELLMFLEKNAS----------GSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATELN 990 (1252)
Q Consensus 921 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 990 (1252)
...-.+|+|-+... .+++.+|..||.+..+ +.|-+++. . ....+|.|+|-+++.|..|+.||
T Consensus 172 ~~~~r~lyVgnLp~-~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~---~----~~kg~afVeF~~~e~A~~Al~l~ 243 (509)
T TIGR01642 172 TRQARRLYVGGIPP-EFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI---N----KEKNFAFLEFRTVEEATFAMALD 243 (509)
T ss_pred CccccEEEEeCCCC-CCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE---C----CCCCEEEEEeCCHHHHhhhhcCC
Confidence 45567899999764 5788999999987522 22333321 1 12358999999999999999999
Q ss_pred CeeecCceeeeecccccc---CCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCc
Q 000854 991 GVEYNGSLLKVVPSRATL---GGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGR 1067 (1252)
Q Consensus 991 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1067 (1252)
|+.|.|-.|||....... .+. ... ........|+.. . . .. .-....
T Consensus 244 g~~~~g~~l~v~r~~~~~~~~~~~-~~~--~~~~~~~~~~~~-----~----------~--------~~-----~~~~~~ 292 (509)
T TIGR01642 244 SIIYSNVFLKIRRPHDYIPVPQIT-PEV--SQKNPDDNAKNV-----E----------K--------LV-----NSTTVL 292 (509)
T ss_pred CeEeeCceeEecCccccCCccccC-CCC--CCCCCccccccc-----c----------c--------cc-----ccccCC
Confidence 999999999996432221 000 000 000001111100 0 0 00 000112
Q ss_pred cccceEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCC
Q 000854 1068 RSMDAVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPP 1147 (1252)
Q Consensus 1068 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1147 (1252)
.....|+|.|||..++|++|.+.|...- .|..+.+++....+. .
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G--~i~~~~~~~~~~~g~-----------------------~----------- 336 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFG--DLKAFNLIKDIATGL-----------------------S----------- 336 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcC--CeeEEEEEecCCCCC-----------------------c-----------
Confidence 2346799999999999999999998754 355555554321100 0
Q ss_pred CCcchhhhheeeecccccHHHHHHHhhhcCcccCCc
Q 000854 1148 EPKDAFMKAFITFDGRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1148 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
+ -=|||+|.- +-.|.+|++.|+|..+-|.
T Consensus 337 --~---g~afv~f~~--~~~a~~A~~~l~g~~~~~~ 365 (509)
T TIGR01642 337 --K---GYAFCEYKD--PSVTDVAIAALNGKDTGDN 365 (509)
T ss_pred --C---eEEEEEECC--HHHHHHHHHHcCCCEECCe
Confidence 1 127777754 4567788888888877654
No 175
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=97.34 E-value=0.00085 Score=84.45 Aligned_cols=135 Identities=19% Similarity=0.191 Sum_probs=80.3
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHH---hcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLA---DSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Ll---e~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
+..|+.++..++. +.+++|+|++|+||||.+...+. +........|+++.||.-+|..+.+.+..........
T Consensus 154 ~d~Qk~Av~~a~~-~~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~--- 229 (615)
T PRK10875 154 VDWQKVAAAVALT-RRISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLT--- 229 (615)
T ss_pred CHHHHHHHHHHhc-CCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccc---
Confidence 3567777777765 57888899999999997654443 2111223578999999999999888776644221100
Q ss_pred EEecCCCccccCCCeEEEEChHHHHHHHhc-------CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 244 ICYPSFSSAQHFDSKVIYMTDHCLLQHFMN-------DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 244 g~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~-------~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
.........-..|-.+|+..... ....-.+++|||||+- |++...+..+++. .+++.|+|+
T Consensus 230 -------~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIvDEaS--Mvd~~lm~~ll~a---l~~~~rlIl 297 (615)
T PRK10875 230 -------DEQKKRIPEEASTLHRLLGAQPGSQRLRYHAGNPLHLDVLVVDEAS--MVDLPMMARLIDA---LPPHARVIF 297 (615)
T ss_pred -------hhhhhcCCCchHHHHHHhCcCCCccchhhccccCCCCCeEEEChHh--cccHHHHHHHHHh---cccCCEEEE
Confidence 00000001112333333322111 1123356899999998 7887776666654 456677777
Q ss_pred e
Q 000854 317 M 317 (1252)
Q Consensus 317 m 317 (1252)
+
T Consensus 298 v 298 (615)
T PRK10875 298 L 298 (615)
T ss_pred e
Confidence 5
No 176
>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=97.29 E-value=0.00068 Score=80.23 Aligned_cols=94 Identities=16% Similarity=0.277 Sum_probs=62.0
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEE
Q 000854 182 QILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVI 260 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Ii 260 (1252)
++++|.|..|||||+.+...+.+. ....+..++++.+...+...+.+.+..... .......
T Consensus 2 ~v~~I~G~aGTGKTvla~~l~~~l~~~~~~~~~~~l~~n~~l~~~l~~~l~~~~~------------------~~~~~~~ 63 (352)
T PF09848_consen 2 QVILITGGAGTGKTVLALNLAKELQNSEEGKKVLYLCGNHPLRNKLREQLAKKYN------------------PKLKKSD 63 (352)
T ss_pred eEEEEEecCCcCHHHHHHHHHHHhhccccCCceEEEEecchHHHHHHHHHhhhcc------------------cchhhhh
Confidence 578999999999998776655543 123455777888888888877777766430 0111223
Q ss_pred EEChHHHHHHHh-cCCCCCceeEEEEccccccccc
Q 000854 261 YMTDHCLLQHFM-NDRDLSRISCIIVDEAHERSLN 294 (1252)
Q Consensus 261 v~Tpg~Ll~~L~-~~~~L~~ls~IVIDEaHER~l~ 294 (1252)
+..+..+...+. .......+++||||||| |...
T Consensus 64 ~~~~~~~i~~~~~~~~~~~~~DviivDEAq-rl~~ 97 (352)
T PF09848_consen 64 FRKPTSFINNYSESDKEKNKYDVIIVDEAQ-RLRT 97 (352)
T ss_pred hhhhHHHHhhcccccccCCcCCEEEEehhH-hhhh
Confidence 444444544333 33467789999999999 6665
No 177
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=97.29 E-value=0.0012 Score=82.95 Aligned_cols=134 Identities=20% Similarity=0.256 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHH---hcccc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLA---DSGIA-AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Ll---e~~~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
..|+.++..++ .+++++|+|+.|+||||.+...+. ..... ...+|+++.||.-+|..+.+.+..........
T Consensus 148 ~~Qk~A~~~al-~~~~~vitGgpGTGKTt~v~~ll~~l~~~~~~~~~~~I~l~APTGkAA~rL~e~~~~~~~~l~~~--- 223 (586)
T TIGR01447 148 NWQKVAVALAL-KSNFSLITGGPGTGKTTTVARLLLALVKQSPKQGKLRIALAAPTGKAAARLAESLRKAVKNLAAA--- 223 (586)
T ss_pred HHHHHHHHHHh-hCCeEEEEcCCCCCHHHHHHHHHHHHHHhccccCCCcEEEECCcHHHHHHHHHHHHhhhcccccc---
Confidence 34555655555 468888999999999997544432 22111 12479999999999988888776643211100
Q ss_pred EEecCCCccccCCCeEEEEChHHHHHHHhc-------CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 244 ICYPSFSSAQHFDSKVIYMTDHCLLQHFMN-------DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 244 g~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~-------~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
........+-..|-.+|+..... ......+++||||||= |++...+..+++. .+++.|+|+
T Consensus 224 -------~~~~~~~~~~a~TiHrlLg~~~~~~~~~~~~~~~l~~dvlIiDEaS--Mvd~~l~~~ll~a---l~~~~rlIl 291 (586)
T TIGR01447 224 -------EALIAALPSEAVTIHRLLGIKPDTKRFRHHERNPLPLDVLVVDEAS--MVDLPLMAKLLKA---LPPNTKLIL 291 (586)
T ss_pred -------hhhhhccccccchhhhhhcccCCcchhhhcccCCCcccEEEEcccc--cCCHHHHHHHHHh---cCCCCEEEE
Confidence 00000011223343344322111 1123367999999997 7887766666554 356667766
Q ss_pred e
Q 000854 317 M 317 (1252)
Q Consensus 317 m 317 (1252)
+
T Consensus 292 v 292 (586)
T TIGR01447 292 L 292 (586)
T ss_pred E
Confidence 4
No 178
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.24 E-value=0.0035 Score=74.75 Aligned_cols=326 Identities=15% Similarity=0.157 Sum_probs=187.1
Q ss_pred ccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhH-----H----HHHHHHhc--------------------------
Q 000854 161 LEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKST-----Q----LVQFLADS-------------------------- 205 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTt-----q----ipq~Lle~-------------------------- 205 (1252)
.....|+..-|.++..++.+-++++ .||++-|.- . ++..++..
T Consensus 211 ~K~s~pltalQ~~L~~~m~~YrDl~--y~~~s~kn~~e~R~lYclH~lNHi~K~r~~IL~Nn~r~~Sqk~g~~~~~~frD 288 (698)
T KOG2340|consen 211 QKKSEPLTALQKELFKIMFNYRDLL--YPTRSQKNGEEYRSLYCLHALNHILKTRDLILGNNRRLASQKEGENPDESFRD 288 (698)
T ss_pred ccccCcchHHHHHHHHHHHhhhhhc--cccccccccchhhhhHHHHHHHHHHHHHHHHhcchHhhhhhhcCCCCchhhhh
Confidence 5678999999999999999988877 477776551 1 22222210
Q ss_pred -ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC-ceEEEecCCCccc------------------------------
Q 000854 206 -GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYED-DSVICYPSFSSAQ------------------------------ 253 (1252)
Q Consensus 206 -~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~-~~vg~~~~~~~~~------------------------------ 253 (1252)
++ ...+|++++|+|+.|-.+.+.+...+.+...+ ..|.-..++...-
T Consensus 289 QG~-tRpkVLivvpfRe~A~riVn~lis~l~G~~q~k~~V~Nk~RF~~eys~~te~~~~~~~kP~D~~~lf~GNtDD~Fr 367 (698)
T KOG2340|consen 289 QGF-TRPKVLIVVPFRESAYRIVNLLISLLSGDDQGKSEVWNKKRFEGEYSGPTELPPPRAKKPEDFEELFSGNTDDAFR 367 (698)
T ss_pred cCC-CCceEEEEecchHHHHHHHHHHHHHhcCccccchhhhhhhhhchhcCCCcccCCCCCCCchhHHHHhcCCCcchhh
Confidence 00 13479999999999999999888875332221 1121111111100
Q ss_pred ---------------cCCCeEEEEChHHHHHHHhc--CC-----CCCceeEEEEccccc-cccchhhHHHHHHHHHhccC
Q 000854 254 ---------------HFDSKVIYMTDHCLLQHFMN--DR-----DLSRISCIIVDEAHE-RSLNTDLLLALVKDLLCRRF 310 (1252)
Q Consensus 254 ---------------~~~t~Iiv~Tpg~Ll~~L~~--~~-----~L~~ls~IVIDEaHE-R~l~~d~ll~llk~l~~~~~ 310 (1252)
-.+.+|+||+|=-|.-.+.+ +. .|+.+.++|||-||- -+.+..-++.++..+..++.
T Consensus 368 iGl~ftkKtikLys~fy~SDIlVaSPLGLRmil~n~gdkkrd~dfLSSIEl~iIDQa~~~l~QNwEhl~~ifdHLn~~P~ 447 (698)
T KOG2340|consen 368 IGLAFTKKTIKLYSKFYKSDILVASPLGLRMILGNTGDKKRDFDFLSSIELLIIDQADIMLMQNWEHLLHIFDHLNLQPS 447 (698)
T ss_pred hhHHHHHHHHHHHhhhcccCeEEecchhhhhhhcCCCcccccchhhhhhhhhhhhhHHHHHHhhHHHHHHHHHHhhcCcc
Confidence 01468999999554333331 11 788999999999992 11223344444444433332
Q ss_pred C---------------------CcEEeeccCCCHH---HHHhhhhcC-CeEE---Ee------cccceeEEEEecCCCCC
Q 000854 311 D---------------------LRLVIMSATADAH---QLSKYFYDC-GISH---VV------GRNFPVDVRYVPCATAG 356 (1252)
Q Consensus 311 ~---------------------lqiIlmSATld~~---~l~~~f~~~-~vi~---i~------gr~~pV~i~y~~~~~s~ 356 (1252)
+ .|++++|+-.++. .|..|..+. +.+. +. .-..|+...+.......
T Consensus 448 k~h~~DfSRVR~wyL~~qsr~~rQtl~Fs~y~~~~~nS~fn~~c~N~~Gkv~~~~~~~~gsi~~v~~~l~Qvf~ri~~~s 527 (698)
T KOG2340|consen 448 KQHDVDFSRVRMWYLDGQSRYFRQTLLFSRYSHPLFNSLFNQYCQNMAGKVKARNLQSGGSISNVGIPLCQVFQRIEVKS 527 (698)
T ss_pred cccCCChhheehheeccHHHHHHHHHHHHhhccHHHHHHHHHhhhhhcceeeeccccCCCchhhccchhhhhhhheeccC
Confidence 1 4677777765433 222222211 1110 00 00112221111110000
Q ss_pred -CccccchHHHHHHH-HHHhhhcCCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-CCceEEE
Q 000854 357 -TSAVASYVSDVVRM-VGEVHTTEKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-PGRRKVI 433 (1252)
Q Consensus 357 -~~~~~~~~~~~~~~-l~~i~~~~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVL 433 (1252)
.........--+.. +-.+. ......+||+.|+--+--++-..+++..+....+|---+...-.++-.-| .|..+|+
T Consensus 528 i~~~~D~RFkyFv~~ImPq~~-k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr~~vl 606 (698)
T KOG2340|consen 528 IIETPDARFKYFVDKIMPQLI-KRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGRKSVL 606 (698)
T ss_pred cccCchHHHHHHHHhhchhhc-ccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcCceEE
Confidence 00000001111111 11111 23356789999999999999999987776655555444444444444556 8889999
Q ss_pred Eechhh--hhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC-----CCeEEEecChhhh
Q 000854 434 FATNVA--ETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE-----PGRCYRLYSKSDF 505 (1252)
Q Consensus 434 VATnia--e~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~-----~G~c~~Lyt~~d~ 505 (1252)
+-|.-+ =+--+|.+|+-||-|++|..+.| -++.+.+.+|+.-.| .-.|-.||++-|-
T Consensus 607 LyTER~hffrR~~ikGVk~vVfYqpP~~P~F---------------YsEiinm~~k~~~~gn~d~d~~t~~ilytKyD~ 670 (698)
T KOG2340|consen 607 LYTERAHFFRRYHIKGVKNVVFYQPPNNPHF---------------YSEIINMSDKTTSQGNTDLDIFTVRILYTKYDR 670 (698)
T ss_pred EEehhhhhhhhheecceeeEEEecCCCCcHH---------------HHHHHhhhhhhhccCCccccceEEEEEeechhh
Confidence 999654 36679999999999999986644 177888998885443 3468889998654
No 179
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=97.16 E-value=0.0036 Score=73.86 Aligned_cols=156 Identities=21% Similarity=0.267 Sum_probs=105.1
Q ss_pred eeeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeec-ccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceee
Q 000854 923 RFLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKF-AVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLK 1000 (1252)
Q Consensus 923 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 1000 (1252)
.-++|.|.+.. ++++|.+|..++++. |-|..+ |+ .... .....-.|.|+|.+++.|.+|. +|||.++.|..|+
T Consensus 106 ~~~~LfVgnLp-~~~te~~L~~lF~~~--G~V~~v-~i~~d~~-tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~ 180 (346)
T TIGR01659 106 SGTNLIVNYLP-QDMTDRELYALFRTI--GPINTC-RIMRDYK-TGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK 180 (346)
T ss_pred CCcEEEEeCCC-CCCCHHHHHHHHHhc--CCEEEE-EEEecCC-CCccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence 34567776643 457899999999765 446666 22 2111 1112236999999999999996 7999999999998
Q ss_pred eeccccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCc
Q 000854 1001 VVPSRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDK 1080 (1252)
Q Consensus 1001 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1080 (1252)
|..... ++ . + .....|+|++||.
T Consensus 181 V~~a~p--~~-------------------~------------~------------------------~~~~~lfV~nLp~ 203 (346)
T TIGR01659 181 VSYARP--GG-------------------E------------S------------------------IKDTNLYVTNLPR 203 (346)
T ss_pred eecccc--cc-------------------c------------c------------------------cccceeEEeCCCC
Confidence 863211 00 0 0 0012489999999
Q ss_pred cCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeee
Q 000854 1081 ELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITF 1160 (1252)
Q Consensus 1081 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1160 (1252)
.++|+||.+.+...- .|.++.++|......| + =-|+|+|
T Consensus 204 ~vtee~L~~~F~~fG--~V~~v~i~~d~~tg~~------------------------------------k---G~aFV~F 242 (346)
T TIGR01659 204 TITDDQLDTIFGKYG--QIVQKNILRDKLTGTP------------------------------------R---GVAFVRF 242 (346)
T ss_pred cccHHHHHHHHHhcC--CEEEEEEeecCCCCcc------------------------------------c---eEEEEEE
Confidence 999999999887654 3455555543221111 1 0288999
Q ss_pred cccccHHHHHHHhhhcCcccCCc
Q 000854 1161 DGRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1161 ~~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
+- +-+|.+|++.|+|..+.|.
T Consensus 243 ~~--~e~A~~Ai~~lng~~~~g~ 263 (346)
T TIGR01659 243 NK--REEAQEAISALNNVIPEGG 263 (346)
T ss_pred CC--HHHHHHHHHHhCCCccCCC
Confidence 75 5788999999999999885
No 180
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=97.16 E-value=0.0012 Score=71.73 Aligned_cols=126 Identities=22% Similarity=0.273 Sum_probs=73.6
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEec-CCCccccCCCeE
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYP-SFSSAQHFDSKV 259 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~-~~~~~~~~~t~I 259 (1252)
+++++.||||+||||.+.......... ..-.++.+-..|+.|.+..+.+++.++ +..+. ....
T Consensus 2 ~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~-------vp~~~~~~~~-------- 66 (196)
T PF00448_consen 2 KVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILG-------VPFYVARTES-------- 66 (196)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHT-------EEEEESSTTS--------
T ss_pred EEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhc-------cccchhhcch--------
Confidence 367788999999999866655443222 222456677788888887788888762 21111 1000
Q ss_pred EEEChHHHHH-HHhcCCCCCceeEEEEccccccccch-hhHHHHHHHHHhccCCCcEEeeccCCCHHHHH
Q 000854 260 IYMTDHCLLQ-HFMNDRDLSRISCIIVDEAHERSLNT-DLLLALVKDLLCRRFDLRLVIMSATADAHQLS 327 (1252)
Q Consensus 260 iv~Tpg~Ll~-~L~~~~~L~~ls~IVIDEaHER~l~~-d~ll~llk~l~~~~~~lqiIlmSATld~~~l~ 327 (1252)
.|..+++ .+.. ..-+++++|+||-+- |+... +.+..+.+.+....+.--++.||||...+.+.
T Consensus 67 ---~~~~~~~~~l~~-~~~~~~D~vlIDT~G-r~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~ 131 (196)
T PF00448_consen 67 ---DPAEIAREALEK-FRKKGYDLVLIDTAG-RSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLE 131 (196)
T ss_dssp ---CHHHHHHHHHHH-HHHTTSSEEEEEE-S-SSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHH
T ss_pred ---hhHHHHHHHHHH-HhhcCCCEEEEecCC-cchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHH
Confidence 2333332 2221 123457999999998 55543 44444444444445667788899997655543
No 181
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.12 E-value=0.036 Score=65.91 Aligned_cols=126 Identities=17% Similarity=0.165 Sum_probs=71.6
Q ss_pred HhcCCeEEEEcCCCChhhHHHHHHHHhcccccC-CeE-Eec-CcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCcccc
Q 000854 178 IYGEQILVLIGETGCGKSTQLVQFLADSGIAAE-QSI-VCT-QPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQH 254 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqipq~Lle~~~~~~-~~I-Lv~-qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~ 254 (1252)
+..+.++++.||||+||||.+..+........+ .+| +++ -+.|..+.+..+.+.+.++ ..+
T Consensus 134 ~~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~g-----v~~----------- 197 (374)
T PRK14722 134 MERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILG-----VPV----------- 197 (374)
T ss_pred ccCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcC-----Cce-----------
Confidence 346778889999999999986655543221111 233 233 3345556555555555431 011
Q ss_pred CCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh-ccCCCcEEeeccCCCHHHHH
Q 000854 255 FDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC-RRFDLRLVIMSATADAHQLS 327 (1252)
Q Consensus 255 ~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-~~~~lqiIlmSATld~~~l~ 327 (1252)
..+.+++-+...+. .+.+.++|+||++- +....+.+...+..+.. ..+.-.++.+|||...+.+.
T Consensus 198 ----~~~~~~~~l~~~l~---~l~~~DlVLIDTaG-~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~ 263 (374)
T PRK14722 198 ----HAVKDGGDLQLALA---ELRNKHMVLIDTIG-MSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLN 263 (374)
T ss_pred ----EecCCcccHHHHHH---HhcCCCEEEEcCCC-CCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHH
Confidence 12233333433332 24567999999998 55444455555555533 23345688899997665544
No 182
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=97.07 E-value=0.00087 Score=81.33 Aligned_cols=62 Identities=18% Similarity=0.426 Sum_probs=46.8
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHH
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVR 231 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~ 231 (1252)
.|++++..++...+..+|.||+|+|||+.+...+... ...+.+|+|..|+.+++..+.+++.
T Consensus 189 SQk~Av~~~~~~k~l~~I~GPPGTGKT~TlvEiI~ql-vk~~k~VLVcaPSn~AVdNiverl~ 250 (649)
T KOG1803|consen 189 SQKAAVSFAINNKDLLIIHGPPGTGKTRTLVEIISQL-VKQKKRVLVCAPSNVAVDNIVERLT 250 (649)
T ss_pred HHHHHHHHHhccCCceEeeCCCCCCceeeHHHHHHHH-HHcCCeEEEEcCchHHHHHHHHHhc
Confidence 4555666666666899999999999997765555443 3346799999999999888888643
No 183
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=97.07 E-value=0.0066 Score=74.26 Aligned_cols=170 Identities=25% Similarity=0.264 Sum_probs=109.2
Q ss_pred CeeeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccccCCeeecCceeee
Q 000854 922 RRFLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATELNGVEYNGSLLKV 1001 (1252)
Q Consensus 922 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1001 (1252)
..-.+|.|.+.+. .+++.+|..++++. |.|-++.=.... .......-|.|+|.+++.|.+|+++||..|.|..+.|
T Consensus 87 ~~~~~l~V~nlp~-~~~~~~l~~~F~~~--G~v~~v~i~~d~-~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v 162 (457)
T TIGR01622 87 RDDRTVFVLQLAL-KARERDLYEFFSKV--GKVRDVQCIKDR-NSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIV 162 (457)
T ss_pred cCCcEEEEeCCCC-CCCHHHHHHHHHhc--CCeeEEEEeecC-CCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEE
Confidence 3456899998765 47899999999775 467777322221 1222345799999999999999999999999999998
Q ss_pred eccccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCcc
Q 000854 1002 VPSRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDKE 1081 (1252)
Q Consensus 1002 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1081 (1252)
-++.....- +.++ .+. . .+ .......|+|.|||..
T Consensus 163 ~~~~~~~~~--------~~~~--------~~~----------~------------~~-------~~p~~~~l~v~nl~~~ 197 (457)
T TIGR01622 163 QSSQAEKNR--------AAKA--------ATH----------Q------------PG-------DIPNFLKLYVGNLHFN 197 (457)
T ss_pred eecchhhhh--------hhhc--------ccc----------c------------CC-------CCCCCCEEEEcCCCCC
Confidence 765432110 0000 000 0 00 0011456999999999
Q ss_pred CChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeec
Q 000854 1082 LSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFD 1161 (1252)
Q Consensus 1082 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1161 (1252)
++|++|.+.|...- .|.++.+++. +....+-=-|+|+|.
T Consensus 198 ~te~~l~~~f~~~G--~i~~v~~~~d---------------------------------------~~~g~~~g~afV~f~ 236 (457)
T TIGR01622 198 ITEQELRQIFEPFG--DIEDVQLHRD---------------------------------------PETGRSKGFGFIQFH 236 (457)
T ss_pred CCHHHHHHHHHhcC--CeEEEEEEEc---------------------------------------CCCCccceEEEEEEC
Confidence 99999988876422 1222222211 111011113789997
Q ss_pred ccccHHHHHHHhhhcCcccCCc
Q 000854 1162 GRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1162 ~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
- +-+|.+|++.|+|..+-|.
T Consensus 237 ~--~e~A~~A~~~l~g~~i~g~ 256 (457)
T TIGR01622 237 D--AEEAKEALEVMNGFELAGR 256 (457)
T ss_pred C--HHHHHHHHHhcCCcEECCE
Confidence 6 5788889999999888773
No 184
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=97.05 E-value=0.0036 Score=80.69 Aligned_cols=120 Identities=23% Similarity=0.176 Sum_probs=70.3
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccC--CeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAE--QSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~--~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
...|++++-.+ ..+.+++|+|+.|+||||.+-..+... ...+ ..|+++.||.-+|..+.+ ..+ ..
T Consensus 325 ~~~Q~~Ai~~~-~~~~~~iitGgpGTGKTt~l~~i~~~~-~~~~~~~~v~l~ApTg~AA~~L~e----~~g-~~------ 391 (720)
T TIGR01448 325 SEEQKQALDTA-IQHKVVILTGGPGTGKTTITRAIIELA-EELGGLLPVGLAAPTGRAAKRLGE----VTG-LT------ 391 (720)
T ss_pred CHHHHHHHHHH-HhCCeEEEECCCCCCHHHHHHHHHHHH-HHcCCCceEEEEeCchHHHHHHHH----hcC-Cc------
Confidence 45566665555 566799999999999999754333211 1112 578889999888865543 211 00
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHh------cCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFM------NDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~------~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
-.|-.+++.... ........++||||||+ |++...+..+++. .+++.|+|++-
T Consensus 392 ----------------a~Tih~lL~~~~~~~~~~~~~~~~~~~llIvDEaS--Mvd~~~~~~Ll~~---~~~~~rlilvG 450 (720)
T TIGR01448 392 ----------------ASTIHRLLGYGPDTFRHNHLEDPIDCDLLIVDESS--MMDTWLALSLLAA---LPDHARLLLVG 450 (720)
T ss_pred ----------------cccHHHHhhccCCccchhhhhccccCCEEEEeccc--cCCHHHHHHHHHh---CCCCCEEEEEC
Confidence 011111111100 00112356899999999 7887766666553 45677888765
Q ss_pred cC
Q 000854 319 AT 320 (1252)
Q Consensus 319 AT 320 (1252)
=+
T Consensus 451 D~ 452 (720)
T TIGR01448 451 DT 452 (720)
T ss_pred cc
Confidence 44
No 185
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=97.03 E-value=0.0072 Score=60.12 Aligned_cols=48 Identities=15% Similarity=0.179 Sum_probs=28.2
Q ss_pred HHHHHHHHhc--CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 171 RQDILRRIYG--EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 171 q~~I~~al~~--~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
...+...+.. +..++|.||+|+|||+.+-...... ...+..++++...
T Consensus 7 ~~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~-~~~~~~v~~~~~~ 56 (151)
T cd00009 7 IEALREALELPPPKNLLLYGPPGTGKTTLARAIANEL-FRPGAPFLYLNAS 56 (151)
T ss_pred HHHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh-hcCCCCeEEEehh
Confidence 3444445544 6788889999999997554433322 2223455555443
No 186
>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=97.02 E-value=0.0038 Score=80.74 Aligned_cols=120 Identities=23% Similarity=0.197 Sum_probs=74.9
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY 246 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~ 246 (1252)
...|++++-.++.++++++|+|++|+||||.+-..+ +.....+..|+.+.||--+|..+.+ .. +..
T Consensus 354 s~~Q~~Av~~i~~s~~~~il~G~aGTGKTtll~~i~-~~~~~~g~~V~~~ApTg~Aa~~L~~----~~-g~~-------- 419 (744)
T TIGR02768 354 SEEQYEAVRHVTGSGDIAVVVGRAGTGKSTMLKAAR-EAWEAAGYRVIGAALSGKAAEGLQA----ES-GIE-------- 419 (744)
T ss_pred CHHHHHHHHHHhcCCCEEEEEecCCCCHHHHHHHHH-HHHHhCCCeEEEEeCcHHHHHHHHh----cc-CCc--------
Confidence 456777776666667899999999999998654332 2212235689999999887766542 11 100
Q ss_pred cCCCccccCCCeEEEEChHHHHHHHhcC-CCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 247 PSFSSAQHFDSKVIYMTDHCLLQHFMND-RDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 247 ~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~-~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
-.|-..++..+... ..+...++|||||+- |++...+..+++... ..+.++|++-
T Consensus 420 --------------a~Ti~~~~~~~~~~~~~~~~~~llIvDEas--Mv~~~~~~~Ll~~~~--~~~~kliLVG 474 (744)
T TIGR02768 420 --------------SRTLASLEYAWANGRDLLSDKDVLVIDEAG--MVGSRQMARVLKEAE--EAGAKVVLVG 474 (744)
T ss_pred --------------eeeHHHHHhhhccCcccCCCCcEEEEECcc--cCCHHHHHHHHHHHH--hcCCEEEEEC
Confidence 01222222212222 246678999999998 788777766666543 2456777765
No 187
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=97.01 E-value=0.0027 Score=80.52 Aligned_cols=110 Identities=17% Similarity=0.172 Sum_probs=81.6
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC--C--CceEEEEechhhhhcCCCCCeeEEEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY--P--GRRKVIFATNVAETSLTIPGVKFVID 453 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~--G~~kVLVATniae~GIDIP~V~~VId 453 (1252)
..++++|.|+.-..-..-+-..|.-.++.-.-+-|....++|-..++.| + .-...|++|-+.+.|+|.-..+.||.
T Consensus 724 atgHRVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtvii 803 (1157)
T KOG0386|consen 724 ATGHRVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVII 803 (1157)
T ss_pred hcCcchhhHHHHHHHHHHHHHHHhhhhhheeeecCCcchhhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEE
Confidence 3467888888766555556666666778888899999999999988888 3 34689999999999999999999986
Q ss_pred cCCCccccccCCCCcccceecccCHhhHHHHhcccCCCC---CCeEEEecChhhh
Q 000854 454 SGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTE---PGRCYRLYSKSDF 505 (1252)
Q Consensus 454 ~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~---~G~c~~Lyt~~d~ 505 (1252)
++- -++| ....|+.-||-|.| .-..+++.+-..+
T Consensus 804 fds----dwnp--------------~~d~qaqdrahrigq~~evRv~rl~tv~sv 840 (1157)
T KOG0386|consen 804 FDS----DWNP--------------HQDLQAQDRAHRIGQKKEVRVLRLITVNSV 840 (1157)
T ss_pred ecC----CCCc--------------hhHHHHHHHHHHhhchhheeeeeeehhhHH
Confidence 643 2223 34457777777764 5567777765544
No 188
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=97.01 E-value=0.0067 Score=71.87 Aligned_cols=123 Identities=16% Similarity=0.242 Sum_probs=68.7
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEE-e-cCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIV-C-TQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~IL-v-~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..++++.||||+||||.+........ ..+.++. + +=|.|+.|.+.....++.. +. +-
T Consensus 241 ~~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~RiaAvEQLk~yae~l-----gi---------------pv 299 (436)
T PRK11889 241 VQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYVKTI-----GF---------------EV 299 (436)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCcchHHHHHHHHHhhhc-----CC---------------cE
Confidence 36778889999999997655443321 2233333 3 3356655443333332221 00 11
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-hhhHHHHHHHHHhccCCCcEEeeccCCCHHH
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-TDLLLALVKDLLCRRFDLRLVIMSATADAHQ 325 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-~d~ll~llk~l~~~~~~lqiIlmSATld~~~ 325 (1252)
+...+|..+.+.+..-..-.++++|+||-+= |+.. .+.+..+.+.+....|+..++.+|||.....
T Consensus 300 ~v~~d~~~L~~aL~~lk~~~~~DvVLIDTaG-Rs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d 366 (436)
T PRK11889 300 IAVRDEAAMTRALTYFKEEARVDYILIDTAG-KNYRASETVEEMIETMGQVEPDYICLTLSASMKSKD 366 (436)
T ss_pred EecCCHHHHHHHHHHHHhccCCCEEEEeCcc-ccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHH
Confidence 1233677776655432222368999999997 5444 3445555555544556656777999865544
No 189
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=96.99 E-value=0.01 Score=73.36 Aligned_cols=186 Identities=17% Similarity=0.213 Sum_probs=113.6
Q ss_pred eeeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeee
Q 000854 923 RFLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKV 1001 (1252)
Q Consensus 923 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 1001 (1252)
.-.+|.|.+.+...+++.+|...++++ |-|..+ |+ .++ +..+|.|+|.+++.|..|. .|||..+.|..|+|
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~~lF~~y--G~V~~v-ki--~~~---~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v 345 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLFNLFCVY--GNVERV-KF--MKN---KKETALIEMADPYQAQLALTHLNGVKLFGKPLRV 345 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHhc--CCeEEE-EE--EeC---CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEE
Confidence 346788888776679999999999765 667777 44 121 2468999999999999996 59999999999999
Q ss_pred eccccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecC-----ccccceEEEe
Q 000854 1002 VPSRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIG-----RRSMDAVVIS 1076 (1252)
Q Consensus 1002 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~ 1076 (1252)
..+.....-.-+. -.++.. +.++ +|+.+ .-..||-..... ......+.|+
T Consensus 346 ~~s~~~~~~~~~~---------~~~~~~-~~~~--------------~d~~~-~~~~r~~~~~~~~~~~~~~ps~~L~v~ 400 (481)
T TIGR01649 346 CPSKQQNVQPPRE---------GQLDDG-LTSY--------------KDYSS-SRNHRFKKPGSANKNNIQPPSATLHLS 400 (481)
T ss_pred EEcccccccCCCC---------CcCcCC-Cccc--------------ccccC-CccccCCCcccccccccCCCCcEEEEe
Confidence 8764432111000 000000 0000 11100 000111110000 0123458899
Q ss_pred CCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhh
Q 000854 1077 GLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKA 1156 (1252)
Q Consensus 1077 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1156 (1252)
+||..++|++|.+.++..-.-. ...|.+||-...-.- -|
T Consensus 401 NLp~~~tee~L~~lF~~~G~~~----------------------------------------i~~ik~~~~~~~~~~-~g 439 (481)
T TIGR01649 401 NIPLSVSEEDLKELFAENGVHK----------------------------------------VKKFKFFPKDNERSK-MG 439 (481)
T ss_pred cCCCCCCHHHHHHHHHhcCCcc----------------------------------------ceEEEEecCCCCcce-eE
Confidence 9999999999887766532211 123344432211111 28
Q ss_pred eeeecccccHHHHHHHhhhcCcccCCcc
Q 000854 1157 FITFDGRLHLEAAKALEQLEGKVLPGCG 1184 (1252)
Q Consensus 1157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1184 (1252)
+|.|+- .-+|.+||..|+|..|.|..
T Consensus 440 fVeF~~--~e~A~~Al~~ln~~~l~~~~ 465 (481)
T TIGR01649 440 LLEWES--VEDAVEALIALNHHQLNEPN 465 (481)
T ss_pred EEEcCC--HHHHHHHHHHhcCCccCCCC
Confidence 999988 67888999999999998763
No 190
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.97 E-value=0.0073 Score=72.17 Aligned_cols=127 Identities=20% Similarity=0.212 Sum_probs=72.6
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhccc---ccCCe--EEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccC
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGI---AAEQS--IVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHF 255 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~---~~~~~--ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~ 255 (1252)
..++++.||||+||||.+......... ..+.+ ++-+=+.|..|....+.+++.++ . .+
T Consensus 174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lg-v----pv------------ 236 (388)
T PRK12723 174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMG-I----PV------------ 236 (388)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCC-c----ce------------
Confidence 467888999999999986554432211 12233 34455667777655555544331 1 11
Q ss_pred CCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchh-hHHHHHHHHHhccCC-CcEEeeccCCCHHHHHhhhh
Q 000854 256 DSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTD-LLLALVKDLLCRRFD-LRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d-~ll~llk~l~~~~~~-lqiIlmSATld~~~l~~~f~ 331 (1252)
...-++..+...+.. +.++++|+||++. |+.... .+..+.+.+....++ -.++.+|||.....+.+.|.
T Consensus 237 ---~~~~~~~~l~~~L~~---~~~~DlVLIDTaG-r~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~ 307 (388)
T PRK12723 237 ---KAIESFKDLKEEITQ---SKDFDLVLVDTIG-KSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFH 307 (388)
T ss_pred ---EeeCcHHHHHHHHHH---hCCCCEEEEcCCC-CCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHH
Confidence 111234445444432 4678999999999 665322 233333333333333 46788999988777776654
No 191
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=96.94 E-value=0.0041 Score=81.78 Aligned_cols=123 Identities=20% Similarity=0.156 Sum_probs=78.2
Q ss_pred ChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE
Q 000854 166 PIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC 245 (1252)
Q Consensus 166 P~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~ 245 (1252)
-...|++++..++.++++++|+|..|+||||.+- .+.+.....+.+|+.+.||-.+|..+.+ .. +..
T Consensus 347 Ls~eQr~Av~~il~s~~v~vv~G~AGTGKTT~l~-~~~~~~e~~G~~V~~~ApTGkAA~~L~e----~t-Gi~------- 413 (988)
T PRK13889 347 LSGEQADALAHVTDGRDLGVVVGYAGTGKSAMLG-VAREAWEAAGYEVRGAALSGIAAENLEG----GS-GIA------- 413 (988)
T ss_pred CCHHHHHHHHHHhcCCCeEEEEeCCCCCHHHHHH-HHHHHHHHcCCeEEEecCcHHHHHHHhh----cc-Ccc-------
Confidence 3557777777777778899999999999998643 3333222235689999999887765542 10 000
Q ss_pred ecCCCccccCCCeEEEEChHHHHHHHhc-CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 246 YPSFSSAQHFDSKVIYMTDHCLLQHFMN-DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 246 ~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~-~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
-.|-..|+..... ...+...++|||||+- |+++..+..+++... ..+.++|++-=+
T Consensus 414 ---------------a~TI~sll~~~~~~~~~l~~~~vlIVDEAS--Mv~~~~m~~LL~~a~--~~garvVLVGD~ 470 (988)
T PRK13889 414 ---------------SRTIASLEHGWGQGRDLLTSRDVLVIDEAG--MVGTRQLERVLSHAA--DAGAKVVLVGDP 470 (988)
T ss_pred ---------------hhhHHHHHhhhcccccccccCcEEEEECcc--cCCHHHHHHHHHhhh--hCCCEEEEECCH
Confidence 0122233222211 1246677899999998 788877776666542 346788877644
No 192
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.89 E-value=0.0015 Score=71.23 Aligned_cols=64 Identities=22% Similarity=0.380 Sum_probs=47.3
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc-------ccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADS-------GIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~-------~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.|++++..++....+.+|.||+|+|||+.+...+... ....+.+|+++.|+..++..+.+++.+
T Consensus 5 ~Q~~Ai~~~~~~~~~~~i~GpPGTGKT~~l~~~i~~~~~~~~~~~~~~~~~il~~~~sN~avd~~~~~l~~ 75 (236)
T PF13086_consen 5 SQREAIQSALSSNGITLIQGPPGTGKTTTLASIIAQLLQRFKSRSADRGKKILVVSPSNAAVDNILERLKK 75 (236)
T ss_dssp HHHHHHHHHCTSSE-EEEE-STTSSHHHHHHHHHHHH-------HCCCSS-EEEEESSHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHcCCCCEEEECCCCCChHHHHHHHHHHhccchhhhhhhccccceeecCCchhHHHHHHHHHh
Confidence 4666776666666658889999999998766555443 134567899999999999999999887
No 193
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=96.88 E-value=0.012 Score=73.52 Aligned_cols=166 Identities=18% Similarity=0.218 Sum_probs=105.9
Q ss_pred eeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeee
Q 000854 924 FLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 924 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1002 (1252)
+++|.|.+.+ ..+++.+|..++++. |-|-+++=.-... ....--+|+|+|.+++.|.+|. ++||..+.|..|+|.
T Consensus 107 ~~rLfVGnLp-~~~tEe~Lr~lF~~f--G~I~sV~I~~D~~-TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~ 182 (612)
T TIGR01645 107 MCRVYVGSIS-FELREDTIRRAFDPF--GPIKSINMSWDPA-TGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 182 (612)
T ss_pred CCEEEEcCCC-CCCCHHHHHHHHHcc--CCEEEEEEeecCC-CCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeec
Confidence 4567777653 477899998999664 6676663111111 1123458999999999999996 599999999999996
Q ss_pred ccccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCccC
Q 000854 1003 PSRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDKEL 1082 (1252)
Q Consensus 1003 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1082 (1252)
.+... |.......|.++ ..+....|+|.|||.++
T Consensus 183 rp~~~----------p~a~~~~~~~~~------------------------------------~~~~~~rLfVgnLp~~v 216 (612)
T TIGR01645 183 RPSNM----------PQAQPIIDMVQE------------------------------------EAKKFNRIYVASVHPDL 216 (612)
T ss_pred ccccc----------cccccccccccc------------------------------------cccccceEEeecCCCCC
Confidence 32111 110000111110 11122469999999999
Q ss_pred ChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeecc
Q 000854 1083 SEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFDG 1162 (1252)
Q Consensus 1083 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1162 (1252)
+|.+|.+.|...- .|.++.+.|.... +.+. -=|||+|.-
T Consensus 217 teedLk~lFs~FG--~I~svrl~~D~~t-----------------------gksK----------------GfGFVeFe~ 255 (612)
T TIGR01645 217 SETDIKSVFEAFG--EIVKCQLARAPTG-----------------------RGHK----------------GYGFIEYNN 255 (612)
T ss_pred CHHHHHHHHhhcC--CeeEEEEEecCCC-----------------------CCcC----------------CeEEEEECC
Confidence 9999998887542 3444444442211 0000 126889986
Q ss_pred cccHHHHHHHhhhcCcccCC
Q 000854 1163 RLHLEAAKALEQLEGKVLPG 1182 (1252)
Q Consensus 1163 ~~~~~~~~~~~~~~~~~~~~ 1182 (1252)
+-+|.+|++.|+|..+-|
T Consensus 256 --~e~A~kAI~amNg~elgG 273 (612)
T TIGR01645 256 --LQSQSEAIASMNLFDLGG 273 (612)
T ss_pred --HHHHHHHHHHhCCCeeCC
Confidence 678999999999987765
No 194
>PRK10536 hypothetical protein; Provisional
Probab=96.87 E-value=0.002 Score=72.41 Aligned_cols=59 Identities=25% Similarity=0.298 Sum_probs=43.6
Q ss_pred CCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecCcHHH
Q 000854 163 DGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQPRKI 221 (1252)
Q Consensus 163 ~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~qPrR~ 221 (1252)
...|....|...+.++.+++++++.||+|||||+.+..+.++... ..-.+++++-|.-.
T Consensus 56 ~i~p~n~~Q~~~l~al~~~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~ 115 (262)
T PRK10536 56 PILARNEAQAHYLKAIESKQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQ 115 (262)
T ss_pred cccCCCHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCC
Confidence 356777788888889999999999999999999876665554321 22446778777643
No 195
>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=96.87 E-value=0.017 Score=65.63 Aligned_cols=134 Identities=16% Similarity=0.059 Sum_probs=78.6
Q ss_pred HHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHh
Q 000854 155 VRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 155 l~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~ 234 (1252)
.+..++.-...|...|.-.++....++ ++...||=|||+.+..+..-.... +..|=|+....-||..=++.+....
T Consensus 67 rea~~r~~g~~p~~vQll~~l~L~~G~---laEm~TGEGKTli~~l~a~~~AL~-G~~V~vvT~NdyLA~RD~~~~~~~y 142 (266)
T PF07517_consen 67 REAARRTLGLRPYDVQLLGALALHKGR---LAEMKTGEGKTLIAALPAALNALQ-GKGVHVVTSNDYLAKRDAEEMRPFY 142 (266)
T ss_dssp HHHHHHHTS----HHHHHHHHHHHTTS---EEEESTTSHHHHHHHHHHHHHHTT-SS-EEEEESSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCcccHHHHhhhhhcccce---eEEecCCCCcHHHHHHHHHHHHHh-cCCcEEEeccHHHhhccHHHHHHHH
Confidence 344555566788888988888764443 558999999998754443333332 3455555566678877777777766
Q ss_pred cCCCCCceEEEecCCCccc----cCCCeEEEEChHHHHH-----HHhcCC---CCCceeEEEEccccccccc
Q 000854 235 RGCYEDDSVICYPSFSSAQ----HFDSKVIYMTDHCLLQ-----HFMNDR---DLSRISCIIVDEAHERSLN 294 (1252)
Q Consensus 235 ~~~~~~~~vg~~~~~~~~~----~~~t~Iiv~Tpg~Ll~-----~L~~~~---~L~~ls~IVIDEaHER~l~ 294 (1252)
... |.+++......... .-..+|+|+|.+-+.- .+.... ....+.++||||||...+|
T Consensus 143 ~~L--Glsv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~r~~~~~ivDEvDs~LiD 212 (266)
T PF07517_consen 143 EFL--GLSVGIITSDMSSEERREAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQRGFDFAIVDEVDSILID 212 (266)
T ss_dssp HHT--T--EEEEETTTEHHHHHHHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--SSSSSEEEECTHHHHTTT
T ss_pred HHh--hhccccCccccCHHHHHHHHhCcccccccchhhHHHHHHHHhhccchhccCCCCEEEEeccceEEEe
Confidence 432 44566543332211 1247899999986632 222222 3578899999999954444
No 196
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=96.78 E-value=0.0031 Score=81.76 Aligned_cols=139 Identities=14% Similarity=0.146 Sum_probs=74.3
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEEecCcHHHHHHHHHHHHH-----HHhcCCCCCceEEE---ecCC-
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIA-AEQSIVCTQPRKIAAISLAQRVR-----EESRGCYEDDSVIC---YPSF- 249 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~ILv~qPrR~LA~qva~rv~-----~~~~~~~~~~~vg~---~~~~- 249 (1252)
++.++.+.++||+|||......+++.... .-.+.|+++|+.+.-..+.+.+. ..+.....+..+-+ ....
T Consensus 58 ~~~n~~~~M~TGtGKT~~~~~~i~~l~~~~~~~~fii~vp~~aI~egv~~~l~s~~~k~hF~~~y~~~~~~~~~~~S~k~ 137 (986)
T PRK15483 58 DKANIDIKMETGTGKTYVYTRLMYELHQKYGLFKFIIVVPTPAIKEGTRNFIQSDYAKQHFSQFYENTRIELYVINAGDK 137 (986)
T ss_pred ccceEEEEeCCCCCHHHHHHHHHHHHHHHcCCcEEEEEeCCHHHHHHHHHHhhHHHHHHHHHHHcCCceeEEEEEecCcc
Confidence 34567778999999998655554443211 23578999999887666655443 12222222222222 1111
Q ss_pred --------Ccc----------ccCCCeEEEEChHHHHHHHh--c---------C--C--CCCc-eeEEEEccccccccch
Q 000854 250 --------SSA----------QHFDSKVIYMTDHCLLQHFM--N---------D--R--DLSR-ISCIIVDEAHERSLNT 295 (1252)
Q Consensus 250 --------~~~----------~~~~t~Iiv~Tpg~Ll~~L~--~---------~--~--~L~~-ls~IVIDEaHER~l~~ 295 (1252)
... ......|+++|.++|..... . . | .+.. =-+||+||.| +.-..
T Consensus 138 ~k~gr~~~~~~i~~Fa~~~~~~~~~I~Ilv~niqa~n~~~~~~~~~D~~l~~g~~~p~~~i~~~~PivIiDEPh-~~~~~ 216 (986)
T PRK15483 138 KKSGRKNFPAQLSNFVKASRQNSNTIHVLLINAGMLNSASMTRDDYDQTLLGGFTSPVDALAATRPVVIIDEPH-RFPRD 216 (986)
T ss_pred cccccccChHHHHHHHhccccCCCceEEEEEehHHhcccccccchhhhhhccCCCChHHHHHhCCCEEEEECCC-CCCcc
Confidence 000 01146899999998865321 0 0 1 1111 1379999999 43221
Q ss_pred hhHHHHHHHHHhccCCCcEEeeccCCCH
Q 000854 296 DLLLALVKDLLCRRFDLRLVIMSATADA 323 (1252)
Q Consensus 296 d~ll~llk~l~~~~~~lqiIlmSATld~ 323 (1252)
+- -...+....|.. ++.+|||.+.
T Consensus 217 ~k---~~~~i~~lnpl~-~lrysAT~~~ 240 (986)
T PRK15483 217 NK---FYQAIEALKPQM-IIRFGATFPD 240 (986)
T ss_pred hH---HHHHHHhcCccc-EEEEeeecCC
Confidence 11 113333444433 5669999754
No 197
>PRK04296 thymidine kinase; Provisional
Probab=96.77 E-value=0.0019 Score=69.84 Aligned_cols=97 Identities=18% Similarity=0.332 Sum_probs=54.0
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH---HHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR---KIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr---R~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
.+.+++||+|+||||.+..++.... ..+.+++++-|. |.....++ .+..... ..
T Consensus 3 ~i~litG~~GsGKTT~~l~~~~~~~-~~g~~v~i~k~~~d~~~~~~~i~-------------------~~lg~~~---~~ 59 (190)
T PRK04296 3 KLEFIYGAMNSGKSTELLQRAYNYE-ERGMKVLVFKPAIDDRYGEGKVV-------------------SRIGLSR---EA 59 (190)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHHH-HcCCeEEEEeccccccccCCcEe-------------------cCCCCcc---cc
Confidence 4678899999999999888876543 235677776552 21111010 0000000 01
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHH
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDL 305 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l 305 (1252)
+.+..+.-+++.+.. .-.++++|||||+| .++.+.+..+++.+
T Consensus 60 ~~~~~~~~~~~~~~~--~~~~~dvviIDEaq--~l~~~~v~~l~~~l 102 (190)
T PRK04296 60 IPVSSDTDIFELIEE--EGEKIDCVLIDEAQ--FLDKEQVVQLAEVL 102 (190)
T ss_pred eEeCChHHHHHHHHh--hCCCCCEEEEEccc--cCCHHHHHHHHHHH
Confidence 223445556665544 33578999999998 34444344444443
No 198
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=96.71 E-value=0.0068 Score=69.31 Aligned_cols=152 Identities=16% Similarity=0.146 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHhc---------CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC
Q 000854 168 YMYRQDILRRIYG---------EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCY 238 (1252)
Q Consensus 168 ~~qq~~I~~al~~---------~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~ 238 (1252)
..|-++++-+.+. +.-.++--.||.||--++...|++.-.....+.+++...-.|-....+.++.......
T Consensus 40 ~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~Gr~r~vwvS~s~dL~~Da~RDl~DIG~~~i 119 (303)
T PF13872_consen 40 ALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRGRKRAVWVSVSNDLKYDAERDLRDIGADNI 119 (303)
T ss_pred HHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHcCCCceEEEECChhhhhHHHHHHHHhCCCcc
Confidence 3455555555433 3345666789999999988888887555555677777777777777777776642211
Q ss_pred CCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCC----CC---------CceeEEEEccccccccchhh-------H
Q 000854 239 EDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR----DL---------SRISCIIVDEAHERSLNTDL-------L 298 (1252)
Q Consensus 239 ~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~----~L---------~~ls~IVIDEaHER~l~~d~-------l 298 (1252)
...... ..........+..|+|+|.-.|...-.... .+ .-=.+||+||+|. .-+..- .
T Consensus 120 ~v~~l~-~~~~~~~~~~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivfDEcH~-akn~~~~~~~~sk~ 197 (303)
T PF13872_consen 120 PVHPLN-KFKYGDIIRLKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVFDECHK-AKNLSSGSKKPSKT 197 (303)
T ss_pred cceech-hhccCcCCCCCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEeccchh-cCCCCccCccccHH
Confidence 111110 111111122345699999988766543211 11 1125899999994 333211 1
Q ss_pred HHHHHHHHhccCCCcEEeeccCC
Q 000854 299 LALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 299 l~llk~l~~~~~~lqiIlmSATl 321 (1252)
-.....+...-|+.+++.+|||.
T Consensus 198 g~avl~LQ~~LP~ARvvY~SATg 220 (303)
T PF13872_consen 198 GIAVLELQNRLPNARVVYASATG 220 (303)
T ss_pred HHHHHHHHHhCCCCcEEEecccc
Confidence 11223344456888999999994
No 199
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=96.65 E-value=0.019 Score=69.65 Aligned_cols=126 Identities=20% Similarity=0.243 Sum_probs=69.0
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEE--ecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSG-IAAEQSIV--CTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~-~~~~~~IL--v~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
.+.++++.||||+||||.+..+..... ...+.+|. -+-|.|..+........+..+ . .+
T Consensus 220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~-v----p~------------- 281 (424)
T PRK05703 220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMG-I----PV------------- 281 (424)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhC-C----ce-------------
Confidence 356888889999999997665544332 12223333 344667665544444444321 1 00
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccc-cchhhHHHHHHHHH-hccCCCcEEeeccCCCHHHHHhh
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERS-LNTDLLLALVKDLL-CRRFDLRLVIMSATADAHQLSKY 329 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~-l~~d~ll~llk~l~-~~~~~lqiIlmSATld~~~l~~~ 329 (1252)
....++.-+...+.. +.++++|+||.+- |. .+......+...+. ...+....+++|||.....+.+.
T Consensus 282 --~~~~~~~~l~~~l~~---~~~~DlVlIDt~G-~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~ 350 (424)
T PRK05703 282 --EVVYDPKELAKALEQ---LRDCDVILIDTAG-RSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDI 350 (424)
T ss_pred --EccCCHHhHHHHHHH---hCCCCEEEEeCCC-CCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHH
Confidence 112344445544432 3468999999997 43 33333333333332 12344557889999876665543
No 200
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=96.59 E-value=0.0057 Score=60.09 Aligned_cols=39 Identities=15% Similarity=0.388 Sum_probs=24.4
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHH
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRK 220 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR 220 (1252)
+..+++.||+|||||+.+...+...... ...++++.+..
T Consensus 2 ~~~~~l~G~~G~GKTtl~~~l~~~~~~~-~~~~~~~~~~~ 40 (148)
T smart00382 2 GEVILIVGPPGSGKTTLARALARELGPP-GGGVIYIDGED 40 (148)
T ss_pred CCEEEEECCCCCcHHHHHHHHHhccCCC-CCCEEEECCEE
Confidence 4577889999999999776655443221 12355544443
No 201
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.48 E-value=0.0056 Score=70.59 Aligned_cols=60 Identities=15% Similarity=0.137 Sum_probs=42.6
Q ss_pred HHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-----cCCeEEecCcHHHHHHHHHHHHHH
Q 000854 173 DILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-----AEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 173 ~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-----~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.+...+..++.+++.||||+|||++++...+..... .+.+++++.+|..+..|....+.+
T Consensus 19 ~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00489 19 ELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred HHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 577778888899999999999998765544321111 123799999998887776555544
No 202
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.48 E-value=0.0056 Score=70.59 Aligned_cols=60 Identities=15% Similarity=0.137 Sum_probs=42.6
Q ss_pred HHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-----cCCeEEecCcHHHHHHHHHHHHHH
Q 000854 173 DILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIA-----AEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 173 ~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~-----~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.+...+..++.+++.||||+|||++++...+..... .+.+++++.+|..+..|....+.+
T Consensus 19 ~v~~~~~~~~~~~~eapTGtGKTl~~L~~al~~~~~~~~~~~~~kvi~~t~T~~~~~q~i~~l~~ 83 (289)
T smart00488 19 ELKRVLDRGKIGILESPTGTGKTLSLLCLTLTWLRSFPERIQKIKLIYLSRTVSEIEKRLEELRK 83 (289)
T ss_pred HHHHHHHcCCcEEEECCCCcchhHHHHHHHHHHHHhCcccccccceeEEeccHHHHHHHHHHHHh
Confidence 577778888899999999999998765544321111 123799999998887776555544
No 203
>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli [].; GO: 0005524 ATP binding; PDB: 3B85_A.
Probab=96.39 E-value=0.0012 Score=71.97 Aligned_cols=57 Identities=16% Similarity=0.190 Sum_probs=35.8
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecCcHHH
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQPRKI 221 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~qPrR~ 221 (1252)
.|....|...++++..++++++.||.|||||+......++... +.-.+++++-|.-.
T Consensus 3 ~p~~~~Q~~~~~al~~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~ 60 (205)
T PF02562_consen 3 KPKNEEQKFALDALLNNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVE 60 (205)
T ss_dssp ---SHHHHHHHHHHHH-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--
T ss_pred cCCCHHHHHHHHHHHhCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 4666778888899999999999999999999865554443321 33458999888754
No 204
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=96.38 E-value=0.11 Score=64.36 Aligned_cols=95 Identities=17% Similarity=0.281 Sum_probs=73.1
Q ss_pred HHHcCCCCCeeEeecCCCCHHhhhhhcccC---CC-ceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccce
Q 000854 397 CEKFDAPSAVALPFHGQLSFDEQFCVFKSY---PG-RRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLR 472 (1252)
Q Consensus 397 a~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f---~G-~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~ 472 (1252)
...|++.|+....+||.....+|..+.+.| .| .+-.|++-.+.+-|+|+-+.+++|-.|+ .+||.-
T Consensus 763 ~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDl----HWNPaL------ 832 (901)
T KOG4439|consen 763 RKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDL----HWNPAL------ 832 (901)
T ss_pred HHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEec----ccCHHH------
Confidence 345566788899999999999999999999 34 6666777788899999999999998877 454421
Q ss_pred ecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 473 VCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 473 ~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
-.++--|+=|.|...+-..|++..+...+
T Consensus 833 -----EqQAcDRIYR~GQkK~V~IhR~~~~gTvE 861 (901)
T KOG4439|consen 833 -----EQQACDRIYRMGQKKDVFIHRLMCKGTVE 861 (901)
T ss_pred -----HHHHHHHHHHhcccCceEEEEEEecCcHH
Confidence 24555677777777777788887776543
No 205
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.36 E-value=0.018 Score=68.17 Aligned_cols=130 Identities=17% Similarity=0.201 Sum_probs=72.2
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeE--EecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSI--VCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~I--Lv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
..+.++++.||||+||||.+........ ..+.+| +-+=|.|..|...-+..++.. +..+
T Consensus 204 ~~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDtyR~gAveQLk~yae~l-----gvpv------------- 264 (407)
T PRK12726 204 SNHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDTFRSGAVEQFQGYADKL-----DVEL------------- 264 (407)
T ss_pred cCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCccCccHHHHHHHHhhcC-----CCCE-------------
Confidence 3567888899999999987554443221 112333 344466665543333333321 0000
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhh
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYF 330 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f 330 (1252)
....+|.-+.+.+..-...+++++|+||=+= |+. +.+.+..+.+......++.-++.+|||.....+.+.+
T Consensus 265 --~~~~dp~dL~~al~~l~~~~~~D~VLIDTAG-r~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~~~d~~~i~ 336 (407)
T PRK12726 265 --IVATSPAELEEAVQYMTYVNCVDHILIDTVG-RNYLAEESVSEISAYTDVVHPDLTCFTFSSGMKSADVMTIL 336 (407)
T ss_pred --EecCCHHHHHHHHHHHHhcCCCCEEEEECCC-CCccCHHHHHHHHHHhhccCCceEEEECCCcccHHHHHHHH
Confidence 1123566665554332234568999999997 543 3344444444333345566677889987766665544
No 206
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=96.35 E-value=0.0055 Score=64.89 Aligned_cols=119 Identities=16% Similarity=0.169 Sum_probs=72.9
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCC----CeeEeecCCCCHHhhhhhcccC-CCceEEEEech--hhhhcCCCCC--e
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPS----AVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATN--VAETSLTIPG--V 448 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~----~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATn--iae~GIDIP~--V 448 (1252)
..+|.+|||+||.+..+.+.+.+.... +.+..- ...++..+++.| .+...||+|+. .+..|||+|+ +
T Consensus 7 ~~~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q----~~~~~~~~l~~~~~~~~~il~~v~~g~~~EGiD~~~~~~ 82 (167)
T PF13307_consen 7 AVPGGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ----GSKSRDELLEEFKRGEGAILLAVAGGSFSEGIDFPGDLL 82 (167)
T ss_dssp CCSSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES----TCCHHHHHHHHHCCSSSEEEEEETTSCCGSSS--ECESE
T ss_pred cCCCCEEEEeCCHHHHHHHHHHHHhhcccccceeeec----CcchHHHHHHHHHhccCeEEEEEecccEEEeecCCCchh
Confidence 456999999999999999999988643 222222 355677788888 77889999998 9999999996 7
Q ss_pred eEEEEcCCCccccccCCCCc--cc----------ceecccCHhhHHHHhcccCCCCCCeEEEec
Q 000854 449 KFVIDSGMVKESYFEPGTGM--NV----------LRVCRVSQSSANQRAGRAGRTEPGRCYRLY 500 (1252)
Q Consensus 449 ~~VId~g~pk~~~ydp~~~~--~~----------L~~~~iSkasy~QR~GRAGR~~~G~c~~Ly 500 (1252)
+.||-.++|-...-||.... .. ....+-......|-+||+=|...-.+..+.
T Consensus 83 r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~l 146 (167)
T PF13307_consen 83 RAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVIIL 146 (167)
T ss_dssp EEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEEE
T ss_pred heeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEEE
Confidence 89999999864333332110 00 001112224567999999998755544443
No 207
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=96.32 E-value=0.16 Score=62.77 Aligned_cols=128 Identities=18% Similarity=0.229 Sum_probs=66.0
Q ss_pred HHhcCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCeEE-e-cCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccc
Q 000854 177 RIYGEQILVLIGETGCGKSTQLVQFLADSGIA-AEQSIV-C-TQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQ 253 (1252)
Q Consensus 177 al~~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~IL-v-~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~ 253 (1252)
.+..+++++++||||+||||.+..+....... .+.+|. + +-+.|..+..........+ +..+.
T Consensus 346 ~l~~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iL-----gv~v~--------- 411 (559)
T PRK12727 346 PLERGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQL-----GIAVH--------- 411 (559)
T ss_pred cccCCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhccc-----CceeE---------
Confidence 34567888889999999998765444322111 122333 3 3345665433222222111 11010
Q ss_pred cCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHh
Q 000854 254 HFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSK 328 (1252)
Q Consensus 254 ~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~ 328 (1252)
...+++.+...+.. +.++++||||.+- ++.....+...+..+........++++++|.....+.+
T Consensus 412 ------~a~d~~~L~~aL~~---l~~~DLVLIDTaG-~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss~~Dl~e 476 (559)
T PRK12727 412 ------EADSAESLLDLLER---LRDYKLVLIDTAG-MGQRDRALAAQLNWLRAARQVTSLLVLPANAHFSDLDE 476 (559)
T ss_pred ------ecCcHHHHHHHHHH---hccCCEEEecCCC-cchhhHHHHHHHHHHHHhhcCCcEEEEECCCChhHHHH
Confidence 11234455554432 4568999999997 44322222222333333334567888999876554443
No 208
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=96.32 E-value=0.018 Score=76.39 Aligned_cols=122 Identities=20% Similarity=0.178 Sum_probs=76.5
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEe
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICY 246 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~ 246 (1252)
...|++++..+..++++++|+|+.|+||||.+-... +.....+.+|+.+.||--+|..+.+ .. +..
T Consensus 383 s~eQ~~Av~~i~~~~r~~~v~G~AGTGKTt~l~~~~-~~~e~~G~~V~g~ApTgkAA~~L~e----~~-Gi~-------- 448 (1102)
T PRK13826 383 SDEQKTAIEHVAGPARIAAVVGRAGAGKTTMMKAAR-EAWEAAGYRVVGGALAGKAAEGLEK----EA-GIQ-------- 448 (1102)
T ss_pred CHHHHHHHHHHhccCCeEEEEeCCCCCHHHHHHHHH-HHHHHcCCeEEEEcCcHHHHHHHHH----hh-CCC--------
Confidence 456666666665678899999999999999754322 2222235689999999887766542 21 110
Q ss_pred cCCCccccCCCeEEEEChHHHH-HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 247 PSFSSAQHFDSKVIYMTDHCLL-QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 247 ~~~~~~~~~~t~Iiv~Tpg~Ll-~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
-.|-..++ +.-.....+..-++|||||+. |+++..+..+++... ..+.++|++-=+
T Consensus 449 --------------a~TIas~ll~~~~~~~~l~~~~vlVIDEAs--Mv~~~~m~~Ll~~~~--~~garvVLVGD~ 505 (1102)
T PRK13826 449 --------------SRTLSSWELRWNQGRDQLDNKTVFVLDEAG--MVASRQMALFVEAVT--RAGAKLVLVGDP 505 (1102)
T ss_pred --------------eeeHHHHHhhhccCccCCCCCcEEEEECcc--cCCHHHHHHHHHHHH--hcCCEEEEECCH
Confidence 01111221 111111246667899999998 888888777776653 245778877544
No 209
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=96.24 E-value=0.064 Score=63.73 Aligned_cols=127 Identities=21% Similarity=0.279 Sum_probs=80.8
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcc-cccCC--eEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSG-IAAEQ--SIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~-~~~~~--~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
+.++.+.||||-||||.+........ ..... .+|-+=..|+-|...-+..++.++ + +
T Consensus 203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~-v-------------------p 262 (407)
T COG1419 203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMG-V-------------------P 262 (407)
T ss_pred CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhC-C-------------------c
Confidence 77888899999999998655444332 12222 344556678887776667777651 1 1
Q ss_pred eEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh-ccCCCcEEeeccCCCHHHHHhhhh
Q 000854 258 KVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC-RRFDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-~~~~lqiIlmSATld~~~l~~~f~ 331 (1252)
-.++-+|.-|...+. .+.++++|.||=+- |+..-.....-++.+.. .++.--.+.+|||...+++.+.+.
T Consensus 263 ~~vv~~~~el~~ai~---~l~~~d~ILVDTaG-rs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K~~dlkei~~ 333 (407)
T COG1419 263 LEVVYSPKELAEAIE---ALRDCDVILVDTAG-RSQYDKEKIEELKELIDVSHSIEVYLVLSATTKYEDLKEIIK 333 (407)
T ss_pred eEEecCHHHHHHHHH---HhhcCCEEEEeCCC-CCccCHHHHHHHHHHHhccccceEEEEEecCcchHHHHHHHH
Confidence 123445555554442 46778999999998 66655444444444444 334445678999988887776654
No 210
>PRK06526 transposase; Provisional
Probab=96.22 E-value=0.016 Score=65.67 Aligned_cols=39 Identities=18% Similarity=0.351 Sum_probs=24.5
Q ss_pred HHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 177 RIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 177 al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
.+..+.++++.||+|+|||..+.....+. ...+.+++++
T Consensus 94 fi~~~~nlll~Gp~GtGKThLa~al~~~a-~~~g~~v~f~ 132 (254)
T PRK06526 94 FVTGKENVVFLGPPGTGKTHLAIGLGIRA-CQAGHRVLFA 132 (254)
T ss_pred hhhcCceEEEEeCCCCchHHHHHHHHHHH-HHCCCchhhh
Confidence 44567788889999999997644333322 1224456553
No 211
>PRK08181 transposase; Validated
Probab=96.12 E-value=0.18 Score=57.76 Aligned_cols=117 Identities=16% Similarity=0.155 Sum_probs=58.6
Q ss_pred HHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 177 RIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 177 al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
.+..++++++.||+|+|||..+..+..+. ...+..++++. ...+..++. .... .
T Consensus 102 ~~~~~~nlll~Gp~GtGKTHLa~Aia~~a-~~~g~~v~f~~-~~~L~~~l~----~a~~-------------------~- 155 (269)
T PRK08181 102 WLAKGANLLLFGPPGGGKSHLAAAIGLAL-IENGWRVLFTR-TTDLVQKLQ----VARR-------------------E- 155 (269)
T ss_pred HHhcCceEEEEecCCCcHHHHHHHHHHHH-HHcCCceeeee-HHHHHHHHH----HHHh-------------------C-
Confidence 34567788889999999996543332221 12244566543 333333332 1100 0
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhh
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~ 331 (1252)
.+...+++. +.++++|||||++....+......+...+.....+ +-+++|.-.+...+...|+
T Consensus 156 -----~~~~~~l~~------l~~~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~-~s~IiTSN~~~~~w~~~~~ 218 (269)
T PRK08181 156 -----LQLESAIAK------LDKFDLLILDDLAYVTKDQAETSVLFELISARYER-RSILITANQPFGEWNRVFP 218 (269)
T ss_pred -----CcHHHHHHH------HhcCCEEEEeccccccCCHHHHHHHHHHHHHHHhC-CCEEEEcCCCHHHHHHhcC
Confidence 012223332 44678999999993323222222233333222223 3355555566666666664
No 212
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=96.11 E-value=0.011 Score=75.20 Aligned_cols=66 Identities=18% Similarity=0.314 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
...|+.++..++...++++|.||+|+|||+.+...+... ...+.+|+++.|+..++.++.+++.+.
T Consensus 159 n~~Q~~Av~~~l~~~~~~lI~GpPGTGKT~t~~~ii~~~-~~~g~~VLv~a~sn~Avd~l~e~l~~~ 224 (637)
T TIGR00376 159 NESQKEAVSFALSSKDLFLIHGPPGTGKTRTLVELIRQL-VKRGLRVLVTAPSNIAVDNLLERLALC 224 (637)
T ss_pred CHHHHHHHHHHhcCCCeEEEEcCCCCCHHHHHHHHHHHH-HHcCCCEEEEcCcHHHHHHHHHHHHhC
Confidence 556888888888777899999999999998766655443 223558999999999999999988764
No 213
>PF05970 PIF1: PIF1-like helicase; InterPro: IPR010285 This entry represents PIF1 helicase and related proteins. The PIF1 helicase inhibits telomerase activity and is cell cycle regulated [, ].
Probab=95.99 E-value=0.028 Score=67.01 Aligned_cols=107 Identities=19% Similarity=0.220 Sum_probs=61.8
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHH--HHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISL--AQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qv--a~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
.....+.|.|+-|+|||+.+-.+.. .....+..+++++||..+|..+ ...+-..++ .. +. .. ..
T Consensus 20 ~~~~~~fv~G~~GtGKs~l~~~i~~-~~~~~~~~~~~~a~tg~AA~~i~~G~T~hs~f~-i~----~~------~~--~~ 85 (364)
T PF05970_consen 20 EEGLNFFVTGPAGTGKSFLIKAIID-YLRSRGKKVLVTAPTGIAAFNIPGGRTIHSFFG-IP----IN------NN--EK 85 (364)
T ss_pred cCCcEEEEEcCCCCChhHHHHHHHH-HhccccceEEEecchHHHHHhccCCcchHHhcC-cc----cc------cc--cc
Confidence 5667888899999999986544332 2223456899999999998776 222222221 00 00 00 00
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC 307 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~ 307 (1252)
...-......+ ...+.+.++|||||+= |+..+.+..+-+.+..
T Consensus 86 ~~~~~~~~~~~------~~~l~~~~~lIiDEis--m~~~~~l~~i~~~lr~ 128 (364)
T PF05970_consen 86 SQCKISKNSRL------RERLRKADVLIIDEIS--MVSADMLDAIDRRLRD 128 (364)
T ss_pred ccccccccchh------hhhhhhheeeeccccc--chhHHHHHHHHHhhhh
Confidence 00000000011 1257788999999997 7777776666555543
No 214
>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=95.93 E-value=0.17 Score=71.87 Aligned_cols=208 Identities=13% Similarity=0.111 Sum_probs=110.5
Q ss_pred hHHHHHHHHHHHhc-CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE
Q 000854 167 IYMYRQDILRRIYG-EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC 245 (1252)
Q Consensus 167 ~~~qq~~I~~al~~-~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~ 245 (1252)
...|++++-.++.+ +++.+|+|+.|+||||.+-..+ +.....+..|+.+.|+.-+|..+.+...... .++.
T Consensus 431 s~~Q~~Av~~il~s~~~v~ii~G~aGTGKTt~l~~l~-~~~~~~G~~V~~lAPTgrAA~~L~e~~g~~A------~Ti~- 502 (1960)
T TIGR02760 431 SPSNKDAVSTLFTSTKRFIIINGFGGTGSTEIAQLLL-HLASEQGYEIQIITAGSLSAQELRQKIPRLA------STFI- 502 (1960)
T ss_pred CHHHHHHHHHHHhCCCCeEEEEECCCCCHHHHHHHHH-HHHHhcCCeEEEEeCCHHHHHHHHHHhcchh------hhHH-
Confidence 35678888777765 5899999999999998643322 2222335689999999988877765432221 0000
Q ss_pred ecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC--C--
Q 000854 246 YPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT--A-- 321 (1252)
Q Consensus 246 ~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT--l-- 321 (1252)
+....... .....|...++ ..+..+..-++||||||- |++...+..+++... ..+.|+|++-=+ +
T Consensus 503 --~~l~~l~~--~~~~~tv~~fl---~~~~~l~~~~vlIVDEAs--Ml~~~~~~~Ll~~a~--~~garvVlvGD~~QL~s 571 (1960)
T TIGR02760 503 --TWVKNLFN--DDQDHTVQGLL---DKSSPFSNKDIFVVDEAN--KLSNNELLKLIDKAE--QHNSKLILLNDSAQRQG 571 (1960)
T ss_pred --HHHHhhcc--cccchhHHHhh---cccCCCCCCCEEEEECCC--CCCHHHHHHHHHHHh--hcCCEEEEEcChhhcCc
Confidence 00000000 00112222232 222345667999999998 788887777776542 356788877655 1
Q ss_pred --CHHHHHhhhh-cCCeEEEecc-cceeEEEEecCCCCCCccccchHHHHHHHHHHhhhcCCCCcEEEEeCCHHHHHHHH
Q 000854 322 --DAHQLSKYFY-DCGISHVVGR-NFPVDVRYVPCATAGTSAVASYVSDVVRMVGEVHTTEKEGTILAFLTSKMEVEWAC 397 (1252)
Q Consensus 322 --d~~~l~~~f~-~~~vi~i~gr-~~pV~i~y~~~~~s~~~~~~~~~~~~~~~l~~i~~~~~~g~iLVFl~s~~eie~la 397 (1252)
....|..... +.+....... .....+...... .......++.....+. .....++|+.++.++...+.
T Consensus 572 V~aG~~f~~L~~~gv~t~~l~~i~rq~~~v~i~~~~------~~~r~~~ia~~y~~L~--~~r~~tliv~~t~~dr~~Ln 643 (1960)
T TIGR02760 572 MSAGSAIDLLKEGGVTTYAWVDTKQQKASVEISEAV------DKLRVDYIASAWLDLT--PDRQNSQVLATTHREQQDLT 643 (1960)
T ss_pred cccchHHHHHHHCCCcEEEeecccccCcceeeeccC------chHHHHHHHHHHHhcc--cccCceEEEcCCcHHHHHHH
Confidence 1233432221 2343333211 001111111110 0111122333332222 24446899999999888877
Q ss_pred HHcC
Q 000854 398 EKFD 401 (1252)
Q Consensus 398 ~~L~ 401 (1252)
..++
T Consensus 644 ~~iR 647 (1960)
T TIGR02760 644 QIIR 647 (1960)
T ss_pred HHHH
Confidence 6553
No 215
>PF05729 NACHT: NACHT domain
Probab=95.93 E-value=0.023 Score=58.62 Aligned_cols=52 Identities=23% Similarity=0.284 Sum_probs=33.7
Q ss_pred EEEEccccccccchh-----hHHHHHHHHHhc--cCCCcEEeeccCCCHHHHHhhhhcC
Q 000854 282 CIIVDEAHERSLNTD-----LLLALVKDLLCR--RFDLRLVIMSATADAHQLSKYFYDC 333 (1252)
Q Consensus 282 ~IVIDEaHER~l~~d-----~ll~llk~l~~~--~~~lqiIlmSATld~~~l~~~f~~~ 333 (1252)
++|||=+||-.-..+ -....+..+... .++.++++.|.+.....+.+.+...
T Consensus 84 llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~ 142 (166)
T PF05729_consen 84 LLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQA 142 (166)
T ss_pred EEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCC
Confidence 489999987443222 244445444443 6789998888887766677776544
No 216
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=95.89 E-value=0.096 Score=65.74 Aligned_cols=152 Identities=19% Similarity=0.125 Sum_probs=88.6
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCC-----C--Cce
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCY-----E--DDS 242 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~-----~--~~~ 242 (1252)
+-+++.+...++-.+ +.+|=|.|||+++...+.......+.+|++++|...-+.++.+++...+.... . +..
T Consensus 177 ~id~~~~~fkq~~tV-~taPRqrGKS~iVgi~l~~La~f~Gi~IlvTAH~~~ts~evF~rv~~~le~lg~~~~fp~~~~i 255 (752)
T PHA03333 177 EIDRIFDEYGKCYTA-ATVPRRCGKTTIMAIILAAMISFLEIDIVVQAQRKTMCLTLYNRVETVVHAYQHKPWFPEEFKI 255 (752)
T ss_pred HHHHHHHHHhhcceE-EEeccCCCcHHHHHHHHHHHHHhcCCeEEEECCChhhHHHHHHHHHHHHHHhccccccCCCceE
Confidence 344455555555444 46999999998865444332221356899999999999999888877664111 0 111
Q ss_pred EEEecCCC-------cccc-CCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcE
Q 000854 243 VICYPSFS-------SAQH-FDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRL 314 (1252)
Q Consensus 243 vg~~~~~~-------~~~~-~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqi 314 (1252)
+......+ .... ..+.|.|++.+ .+...-..++++|+|||+ .+..+.+..++-.+.. .+.++
T Consensus 256 v~vkgg~E~I~f~~p~gak~G~sti~F~Ars------~~s~RG~~~DLLIVDEAA--fI~~~~l~aIlP~l~~--~~~k~ 325 (752)
T PHA03333 256 VTLKGTDENLEYISDPAAKEGKTTAHFLASS------PNAARGQNPDLVIVDEAA--FVNPGALLSVLPLMAV--KGTKQ 325 (752)
T ss_pred EEeeCCeeEEEEecCcccccCcceeEEeccc------CCCcCCCCCCEEEEECcc--cCCHHHHHHHHHHHcc--CCCce
Confidence 11110000 0000 11455554432 111122356899999999 4666666666555433 46789
Q ss_pred EeeccCCCHHHHHhhhhc
Q 000854 315 VIMSATADAHQLSKYFYD 332 (1252)
Q Consensus 315 IlmSATld~~~l~~~f~~ 332 (1252)
+++|.+.+.+.+..++.+
T Consensus 326 IiISS~~~~~s~tS~L~n 343 (752)
T PHA03333 326 IHISSPVDADSWISRVGE 343 (752)
T ss_pred EEEeCCCCcchHHHHhhh
Confidence 999999877776666654
No 217
>PRK14974 cell division protein FtsY; Provisional
Probab=95.86 E-value=0.045 Score=64.39 Aligned_cols=124 Identities=19% Similarity=0.231 Sum_probs=65.2
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec-C-cHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT-Q-PRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~-q-PrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..+++++|++|+||||.+....... ...+.+++++ . +.|..|.......+..++ . .+. ... .+
T Consensus 140 ~~vi~~~G~~GvGKTTtiakLA~~l-~~~g~~V~li~~Dt~R~~a~eqL~~~a~~lg-v----~v~--~~~-----~g-- 204 (336)
T PRK14974 140 PVVIVFVGVNGTGKTTTIAKLAYYL-KKNGFSVVIAAGDTFRAGAIEQLEEHAERLG-V----KVI--KHK-----YG-- 204 (336)
T ss_pred CeEEEEEcCCCCCHHHHHHHHHHHH-HHcCCeEEEecCCcCcHHHHHHHHHHHHHcC-C----cee--ccc-----CC--
Confidence 4688889999999999754433221 1123345433 2 345555433333333321 1 110 000 00
Q ss_pred EEEEChH-HHHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhccCCCcEEeeccCCCHH
Q 000854 259 VIYMTDH-CLLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRRFDLRLVIMSATADAH 324 (1252)
Q Consensus 259 Iiv~Tpg-~Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~~~lqiIlmSATld~~ 324 (1252)
..|. .+.+.+... ...++++|+||.+. |+. +.+++..+-+......|+..++.++||...+
T Consensus 205 ---~dp~~v~~~ai~~~-~~~~~DvVLIDTaG-r~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d 267 (336)
T PRK14974 205 ---ADPAAVAYDAIEHA-KARGIDVVLIDTAG-RMHTDANLMDELKKIVRVTKPDLVIFVGDALAGND 267 (336)
T ss_pred ---CCHHHHHHHHHHHH-HhCCCCEEEEECCC-ccCCcHHHHHHHHHHHHhhCCceEEEeeccccchh
Confidence 0121 122222211 12457899999999 665 4556555555444466888899999996533
No 218
>PF05127 Helicase_RecD: Helicase; InterPro: IPR007807 This domain is about 350 amino acid residues long and appears to have a P-loop motif, suggesting this is an ATPase. This domain is often N-terminal to a GCN5-related N-acetyltransferase domain IPR000182 from INTERPRO and C-terminal to IPR013562 from INTERPRO.; PDB: 2ZPA_B.
Probab=95.82 E-value=0.0052 Score=65.59 Aligned_cols=123 Identities=22% Similarity=0.205 Sum_probs=55.4
Q ss_pred EEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE-ecCCCccccCCCeEEEEC
Q 000854 185 VLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC-YPSFSSAQHFDSKVIYMT 263 (1252)
Q Consensus 185 II~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~-~~~~~~~~~~~t~Iiv~T 263 (1252)
+|+|+-|-|||+++-..+.........+|+|+.|+...+..+.+.+...+........... ..........+..|.|..
T Consensus 1 VltA~RGRGKSa~lGl~~a~l~~~~~~~I~vtAP~~~~~~~lf~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~f~~ 80 (177)
T PF05127_consen 1 VLTADRGRGKSAALGLAAAALIQKGKIRILVTAPSPENVQTLFEFAEKGLKALGYKEEKKKRIGQIIKLRFNKQRIEFVA 80 (177)
T ss_dssp -EEE-TTSSHHHHHHHCCCCSSS-----EEEE-SS--S-HHHHHCC--------------------------CCC--B--
T ss_pred CccCCCCCCHHHHHHHHHHHHHHhcCceEEEecCCHHHHHHHHHHHHhhccccccccccccccccccccccccceEEEEC
Confidence 4689999999998776554433223358999999999988888766554421110000000 000001112356788999
Q ss_pred hHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 264 DHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 264 pg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
|..+... -...+++|||||= ++...++..+ ... ...++||.|..
T Consensus 81 Pd~l~~~------~~~~DlliVDEAA--aIp~p~L~~l----l~~---~~~vv~stTi~ 124 (177)
T PF05127_consen 81 PDELLAE------KPQADLLIVDEAA--AIPLPLLKQL----LRR---FPRVVFSTTIH 124 (177)
T ss_dssp HHHHCCT----------SCEEECTGG--GS-HHHHHHH----HCC---SSEEEEEEEBS
T ss_pred CHHHHhC------cCCCCEEEEechh--cCCHHHHHHH----Hhh---CCEEEEEeecc
Confidence 9877532 1234899999997 4554444433 322 34667788843
No 219
>PRK12724 flagellar biosynthesis regulator FlhF; Provisional
Probab=95.79 E-value=0.074 Score=63.95 Aligned_cols=122 Identities=20% Similarity=0.238 Sum_probs=68.9
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeE--EecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSI--VCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~I--Lv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..+++++||||+||||.+..+........+.+| +-.-+.|..+.....+.++..+ . .+
T Consensus 223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lg-v----p~--------------- 282 (432)
T PRK12724 223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMG-M----PF--------------- 282 (432)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcC-C----Ce---------------
Confidence 457888999999999998777654322223333 3445667777765555554431 1 00
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhc---cCCCcEEeeccCCCHHHHH
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCR---RFDLRLVIMSATADAHQLS 327 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~---~~~lqiIlmSATld~~~l~ 327 (1252)
+....+..+.+.+.. .++++|+||=+- |+. +.+.+..+.+.+... .+.-.++.+|||...+.+.
T Consensus 283 ~~~~~~~~l~~~l~~----~~~D~VLIDTaG-r~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~ 350 (432)
T PRK12724 283 YPVKDIKKFKETLAR----DGSELILIDTAG-YSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTL 350 (432)
T ss_pred eehHHHHHHHHHHHh----CCCCEEEEeCCC-CCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHH
Confidence 001113334444431 467999999876 443 334444444433222 2335678899997665444
No 220
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=95.76 E-value=0.12 Score=63.88 Aligned_cols=156 Identities=15% Similarity=0.164 Sum_probs=101.3
Q ss_pred EEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccc---cCCeeecCceeeee
Q 000854 926 TVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATE---LNGVEYNGSLLKVV 1002 (1252)
Q Consensus 926 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 1002 (1252)
+|.|.+... .+++.+|..++++ -|-|.++. . .+ ++ ..|.|.|.+++.|.+|.+ .||..+.|..|+|-
T Consensus 4 vv~V~nLp~-~~te~~L~~~f~~--fG~V~~v~-i--~~---~k-~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~ 73 (481)
T TIGR01649 4 VVHVRNLPQ-DVVEADLVEALIP--FGPVSYVM-M--LP---GK-RQALVEFEDEESAKACVNFATSVPIYIRGQPAFFN 73 (481)
T ss_pred EEEEcCCCC-CCCHHHHHHHHHh--cCCeeEEE-E--EC---CC-CEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEE
Confidence 455555443 4899999999965 46677773 2 11 12 369999999999999975 69999999999998
Q ss_pred ccccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCccC
Q 000854 1003 PSRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDKEL 1082 (1252)
Q Consensus 1003 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1082 (1252)
.+...- . . |.+. .| . . .......-.|.|.+|+..+
T Consensus 74 ~s~~~~--~----~------------~~~~---------~~-------~---~--------~~~~~~~~~v~v~nl~~~v 108 (481)
T TIGR01649 74 YSTSQE--I----K------------RDGN---------SD-------F---D--------SAGPNKVLRVIVENPMYPI 108 (481)
T ss_pred ecCCcc--c----c------------cCCC---------Cc-------c---c--------CCCCCceEEEEEcCCCCCC
Confidence 664320 0 0 0000 00 0 0 0011123357889999889
Q ss_pred ChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeecc
Q 000854 1083 SEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFDG 1162 (1252)
Q Consensus 1083 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1162 (1252)
+|++|.+.+...- .|+.+.+.|.. . . ..|||.|.-
T Consensus 109 t~~~L~~~F~~~G--~V~~v~i~~~~----------------------------------------~--~-~~afVef~~ 143 (481)
T TIGR01649 109 TLDVLYQIFNPYG--KVLRIVTFTKN----------------------------------------N--V-FQALVEFES 143 (481)
T ss_pred CHHHHHHHHhccC--CEEEEEEEecC----------------------------------------C--c-eEEEEEECC
Confidence 9888887775432 24443333321 1 1 139999986
Q ss_pred cccHHHHHHHhhhcCcccCC-c
Q 000854 1163 RLHLEAAKALEQLEGKVLPG-C 1183 (1252)
Q Consensus 1163 ~~~~~~~~~~~~~~~~~~~~-~ 1183 (1252)
+-.|.+|+++|+|+.+.| |
T Consensus 144 --~~~A~~A~~~Lng~~i~~~~ 163 (481)
T TIGR01649 144 --VNSAQHAKAALNGADIYNGC 163 (481)
T ss_pred --HHHHHHHHHHhcCCcccCCc
Confidence 788999999999999964 5
No 221
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=95.76 E-value=0.035 Score=71.42 Aligned_cols=114 Identities=18% Similarity=0.269 Sum_probs=92.6
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccCC---CceEEEEechhhhhcCCCCCeeEEEEc
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSYP---GRRKVIFATNVAETSLTIPGVKFVIDS 454 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f~---G~~kVLVATniae~GIDIP~V~~VId~ 454 (1252)
..+.++|||..=.+..+-+-..|.-+|+.-+-+.|...-++|...+++|+ .-...|++|--.+.|||+-+.+.||-|
T Consensus 1274 ~eghRvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNaD~RIfcfILSTrSggvGiNLtgADTVvFY 1353 (1958)
T KOG0391|consen 1274 SEGHRVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNADRRIFCFILSTRSGGVGINLTGADTVVFY 1353 (1958)
T ss_pred hcCceEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcCCCceEEEEEeccCCccccccccCceEEEe
Confidence 46789999998888888888888889999999999999999999999993 233778999999999999999999955
Q ss_pred CCCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 455 GMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 455 g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
|- -+||. | -+++.-|+-|.|+++.=+.|+|+++...+
T Consensus 1354 Ds----DwNPt--M---------DaQAQDrChRIGqtRDVHIYRLISe~TIE 1390 (1958)
T KOG0391|consen 1354 DS----DWNPT--M---------DAQAQDRCHRIGQTRDVHIYRLISERTIE 1390 (1958)
T ss_pred cC----CCCch--h---------hhHHHHHHHhhcCccceEEEEeeccchHH
Confidence 42 22221 1 15666778888888899999999987664
No 222
>PLN03120 nucleic acid binding protein; Provisional
Probab=95.75 E-value=0.02 Score=64.10 Aligned_cols=76 Identities=22% Similarity=0.336 Sum_probs=61.5
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccccCCeeecCceeeeecc
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATELNGVEYNGSLLKVVPS 1004 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1004 (1252)
.+|.|-+.+.. .++++|..||+. .|.|.++. . ..+. +...+|.|||-+|+.|.+|+.|||..+.|..|+|.|.
T Consensus 5 rtVfVgNLs~~-tTE~dLrefFS~--~G~I~~V~-I--~~d~-~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a 77 (260)
T PLN03120 5 RTVKVSNVSLK-ATERDIKEFFSF--SGDIEYVE-M--QSEN-ERSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPA 77 (260)
T ss_pred CEEEEeCCCCC-CCHHHHHHHHHh--cCCeEEEE-E--eecC-CCCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEec
Confidence 37788876644 899999999955 58898884 2 2332 2457999999999999999999999999999999986
Q ss_pred ccc
Q 000854 1005 RAT 1007 (1252)
Q Consensus 1005 ~~~ 1007 (1252)
...
T Consensus 78 ~~~ 80 (260)
T PLN03120 78 EDY 80 (260)
T ss_pred cCC
Confidence 654
No 223
>PF00580 UvrD-helicase: UvrD/REP helicase N-terminal domain; InterPro: IPR000212 Members of this family are helicases that catalyse ATP dependent unwinding of double stranded DNA to single stranded DNA. THe family includes both Rep and UvrD helcases. The Rep family helicases are composed of four structural domains []. The Rep proteins function as dimers.; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 1UAA_B 1W36_B 3K70_B 2IS6_B 3LFU_A 2IS2_B 2IS1_B 2IS4_A 1QHG_A 1PJR_A ....
Probab=95.68 E-value=0.021 Score=65.43 Aligned_cols=64 Identities=25% Similarity=0.323 Sum_probs=45.2
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHH---HhcccccCCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFL---ADSGIAAEQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~L---le~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
.|..++.. .+..++|.|..|||||+.+..-+ +........+|+++.+|+.+|..+.+++...+.
T Consensus 4 eQ~~~i~~--~~~~~lV~a~AGSGKT~~l~~ri~~ll~~~~~~~~~Il~lTft~~aa~e~~~ri~~~l~ 70 (315)
T PF00580_consen 4 EQRRIIRS--TEGPLLVNAGAGSGKTTTLLERIAYLLYEGGVPPERILVLTFTNAAAQEMRERIRELLE 70 (315)
T ss_dssp HHHHHHHS---SSEEEEEE-TTSSHHHHHHHHHHHHHHTSSSTGGGEEEEESSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhC--CCCCEEEEeCCCCCchHHHHHHHHHhhccccCChHHheecccCHHHHHHHHHHHHHhcC
Confidence 34445544 45566668999999999865433 333323456899999999999999999998753
No 224
>COG1444 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=95.52 E-value=0.094 Score=66.81 Aligned_cols=147 Identities=20% Similarity=0.103 Sum_probs=89.8
Q ss_pred HHHccCCCChHHHHHHHHHHHhcCC-eEEEEcCCCChhhHHHHHHHHhccccc-CCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 158 CKRLEDGLPIYMYRQDILRRIYGEQ-ILVLIGETGCGKSTQLVQFLADSGIAA-EQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 158 l~~~~~~lP~~~qq~~I~~al~~~~-vvII~apTGSGKTtqipq~Lle~~~~~-~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
+.+.....|...+.+.+...+..+. .++|+|.-|=|||.++-..+....... ..+|+||.|+.+.+.++.+...+-+.
T Consensus 207 l~~l~~T~dQ~~~l~~~~~l~~~~~~~~vlTAdRGRGKSA~lGi~~~~~~~~~~~~~iiVTAP~~~nv~~Lf~fa~~~l~ 286 (758)
T COG1444 207 LYELCLTEDQAEALEILERLLDAPKRALVLTADRGRGKSAALGIALAAAARLAGSVRIIVTAPTPANVQTLFEFAGKGLE 286 (758)
T ss_pred HhhhhcChhHHHHHHHHHHHHcCCCceEEEEcCCCCcHhHHHhHHHHHHHHhcCCceEEEeCCCHHHHHHHHHHHHHhHH
Confidence 3444445555556666666666665 889999999999988664443222122 45899999999999998877766543
Q ss_pred CCCCCceEEEecCCC--ccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCc
Q 000854 236 GCYEDDSVICYPSFS--SAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLR 313 (1252)
Q Consensus 236 ~~~~~~~vg~~~~~~--~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lq 313 (1252)
.......+....... ........|-|.+|.... . .-+.+|||||= .+..-++..++.. .+
T Consensus 287 ~lg~~~~v~~d~~g~~~~~~~~~~~i~y~~P~~a~-~--------~~DllvVDEAA--aIplplL~~l~~~-------~~ 348 (758)
T COG1444 287 FLGYKRKVAPDALGEIREVSGDGFRIEYVPPDDAQ-E--------EADLLVVDEAA--AIPLPLLHKLLRR-------FP 348 (758)
T ss_pred HhCCccccccccccceeeecCCceeEEeeCcchhc-c--------cCCEEEEehhh--cCChHHHHHHHhh-------cC
Confidence 222111121111111 111134568888886654 1 14799999997 5555555444432 26
Q ss_pred EEeeccCCC
Q 000854 314 LVIMSATAD 322 (1252)
Q Consensus 314 iIlmSATld 322 (1252)
.++||.|+.
T Consensus 349 rv~~sTTIh 357 (758)
T COG1444 349 RVLFSTTIH 357 (758)
T ss_pred ceEEEeeec
Confidence 789999954
No 225
>PRK08727 hypothetical protein; Validated
Probab=95.50 E-value=0.058 Score=60.30 Aligned_cols=34 Identities=26% Similarity=0.284 Sum_probs=20.3
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+.+++.|++|+|||..+-.+..+ ....+.+++++
T Consensus 42 ~~l~l~G~~G~GKThL~~a~~~~-~~~~~~~~~y~ 75 (233)
T PRK08727 42 DWLYLSGPAGTGKTHLALALCAA-AEQAGRSSAYL 75 (233)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH-HHHcCCcEEEE
Confidence 55788999999999654333222 12223455554
No 226
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=95.48 E-value=0.1 Score=61.97 Aligned_cols=50 Identities=16% Similarity=0.185 Sum_probs=34.2
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+.+.+...+..+...++|||||| .++..-...+++.+..-+++..+|++|
T Consensus 129 l~~~l~~~~~~g~~rVviIDeAd--~l~~~aanaLLk~LEEpp~~~~fiLit 178 (351)
T PRK09112 129 VGHFLSQTSGDGNWRIVIIDPAD--DMNRNAANAILKTLEEPPARALFILIS 178 (351)
T ss_pred HHHHhhhccccCCceEEEEEchh--hcCHHHHHHHHHHHhcCCCCceEEEEE
Confidence 44455545566788999999999 356667777888876644455555554
No 227
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=95.38 E-value=0.091 Score=66.15 Aligned_cols=49 Identities=27% Similarity=0.196 Sum_probs=33.6
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
.+.+...+...+++++|||||| ++..+-...+++.+..-++.+.+|+.+
T Consensus 107 ~~~~~~~P~~~~~KVvIIDEah--~Lt~~A~NALLK~LEEpp~~~~fIL~t 155 (584)
T PRK14952 107 RDRAFYAPAQSRYRIFIVDEAH--MVTTAGFNALLKIVEEPPEHLIFIFAT 155 (584)
T ss_pred HHHHHhhhhcCCceEEEEECCC--cCCHHHHHHHHHHHhcCCCCeEEEEEe
Confidence 3344444567889999999999 456667777777776555555555544
No 228
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=95.38 E-value=0.26 Score=60.39 Aligned_cols=76 Identities=24% Similarity=0.311 Sum_probs=55.7
Q ss_pred eeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeee
Q 000854 924 FLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 924 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1002 (1252)
..+|.|.+.. ..+++.+|..++++. |.|..+.-..... ......+|.|+|.+++.|.+|. .|||.++.|..|+|.
T Consensus 186 ~~~l~v~nl~-~~~te~~l~~~f~~~--G~i~~v~~~~d~~-~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~ 261 (457)
T TIGR01622 186 FLKLYVGNLH-FNITEQELRQIFEPF--GDIEDVQLHRDPE-TGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVG 261 (457)
T ss_pred CCEEEEcCCC-CCCCHHHHHHHHHhc--CCeEEEEEEEcCC-CCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEE
Confidence 5678888765 458899999989654 5566663212111 1122347999999999999996 599999999999998
Q ss_pred c
Q 000854 1003 P 1003 (1252)
Q Consensus 1003 ~ 1003 (1252)
.
T Consensus 262 ~ 262 (457)
T TIGR01622 262 Y 262 (457)
T ss_pred E
Confidence 6
No 229
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=95.31 E-value=0.027 Score=49.48 Aligned_cols=62 Identities=32% Similarity=0.424 Sum_probs=48.9
Q ss_pred CCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccc-cCCeeecCceee
Q 000854 935 NILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATE-LNGVEYNGSLLK 1000 (1252)
Q Consensus 935 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 1000 (1252)
.++++.+|..++++ -|.|+.+ ++... .......||.|+|.+++.|.+|.+ +||..+.|..|+
T Consensus 8 ~~~t~~~l~~~f~~--~g~i~~~-~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 8 PDVTEEELRDFFSQ--FGKIESI-KVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp TTSSHHHHHHHHHT--TSTEEEE-EEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CcCCHHHHHHHHHH--hhhcccc-ccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 46788999999977 5556666 33111 445678899999999999999977 999999999875
No 230
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=95.27 E-value=0.11 Score=57.36 Aligned_cols=22 Identities=32% Similarity=0.610 Sum_probs=16.9
Q ss_pred cCCeEEEEcCCCChhhHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~ 201 (1252)
..+.+++.||+|+|||+.+-.+
T Consensus 41 ~~~~~~l~G~~G~GKT~La~ai 62 (227)
T PRK08903 41 ADRFFYLWGEAGSGRSHLLQAL 62 (227)
T ss_pred CCCeEEEECCCCCCHHHHHHHH
Confidence 4567888999999999765433
No 231
>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=95.25 E-value=0.18 Score=57.65 Aligned_cols=124 Identities=19% Similarity=0.293 Sum_probs=66.9
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeE--EecCcHHHHH-HHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSI--VCTQPRKIAA-ISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~I--Lv~qPrR~LA-~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
..+.+++.|++|+||||.+........ ..+.++ +.+-+.|..+ .|+.... +.. +
T Consensus 74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~-~~~~~v~~i~~D~~ri~~~~ql~~~~-~~~-----~---------------- 130 (270)
T PRK06731 74 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYV-KTI-----G---------------- 130 (270)
T ss_pred CCCEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEEecCCCCHHHHHHHHHHh-hhc-----C----------------
Confidence 447888899999999986543332211 112233 3333455433 3333221 111 0
Q ss_pred CeEEE-EChHHHHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhccCCCcEEeeccCCCHHHHH
Q 000854 257 SKVIY-MTDHCLLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRRFDLRLVIMSATADAHQLS 327 (1252)
Q Consensus 257 t~Iiv-~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~ 327 (1252)
..+.. .++..+.+.+..-....++++||||-+= |+. +.+.+..+.+.+....|+..++.+|||...+...
T Consensus 131 ~~~~~~~~~~~l~~~l~~l~~~~~~D~ViIDt~G-r~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~ 202 (270)
T PRK06731 131 FEVIAVRDEAAMTRALTYFKEEARVDYILIDTAG-KNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMI 202 (270)
T ss_pred ceEEecCCHHHHHHHHHHHHhcCCCCEEEEECCC-CCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHH
Confidence 11111 2455555444322223468999999997 554 4455555555554455666678899997654443
No 232
>PRK08116 hypothetical protein; Validated
Probab=95.23 E-value=0.48 Score=54.20 Aligned_cols=35 Identities=20% Similarity=0.262 Sum_probs=20.6
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+.-+++.|++|+|||..+..+..+. ...+..++++
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~l-~~~~~~v~~~ 148 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANEL-IEKGVPVIFV 148 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHHH-HHcCCeEEEE
Confidence 3457789999999997544333221 1123455554
No 233
>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=95.18 E-value=0.17 Score=55.53 Aligned_cols=24 Identities=42% Similarity=0.581 Sum_probs=18.1
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHH
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~L 202 (1252)
..+..+++.||+|+|||+.+-.+.
T Consensus 36 ~~~~~lll~G~~G~GKT~la~~~~ 59 (226)
T TIGR03420 36 KGDRFLYLWGESGSGKSHLLQAAC 59 (226)
T ss_pred CCCCeEEEECCCCCCHHHHHHHHH
Confidence 345678889999999998665443
No 234
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=95.09 E-value=0.08 Score=69.15 Aligned_cols=44 Identities=25% Similarity=0.237 Sum_probs=31.0
Q ss_pred cCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 273 NDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 273 ~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
..+..++++++||||+| .+..+-...++|.+..-...+.+|+.+
T Consensus 114 ~~p~~~~~KV~IIDEad--~lt~~a~NaLLK~LEEpP~~~~fIl~t 157 (824)
T PRK07764 114 FAPAESRYKIFIIDEAH--MVTPQGFNALLKIVEEPPEHLKFIFAT 157 (824)
T ss_pred hchhcCCceEEEEechh--hcCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence 33456788999999999 455666677777776655566666654
No 235
>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length. There are two conserved sequence motifs: LLE and NMG.
Probab=95.05 E-value=0.13 Score=57.02 Aligned_cols=102 Identities=19% Similarity=0.235 Sum_probs=59.1
Q ss_pred CCChHHHHHHHHHHHhc---CCeEEEEcCCCChhhHHHHHHHHhcccccCC-eEEecCcHHHHHHHHHHHHHHHhcCCCC
Q 000854 164 GLPIYMYRQDILRRIYG---EQILVLIGETGCGKSTQLVQFLADSGIAAEQ-SIVCTQPRKIAAISLAQRVREESRGCYE 239 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~---~~vvII~apTGSGKTtqipq~Lle~~~~~~~-~ILv~qPrR~LA~qva~rv~~~~~~~~~ 239 (1252)
.+-+..-|.++...+.+ +.+.+.+.-.|.|||+.+...+.-. ...+. .+.+++|. .|..|..+.+...+++..
T Consensus 21 ~iliR~~Q~~ia~~mi~~~~~~n~v~QlnMGeGKTsVI~Pmla~~-LAdg~~LvrviVpk-~Ll~q~~~~L~~~lg~l~- 97 (229)
T PF12340_consen 21 NILIRPVQVEIAREMISPPSGKNSVMQLNMGEGKTSVIVPMLALA-LADGSRLVRVIVPK-ALLEQMRQMLRSRLGGLL- 97 (229)
T ss_pred CceeeHHHHHHHHHHhCCCCCCCeEeeecccCCccchHHHHHHHH-HcCCCcEEEEEcCH-HHHHHHHHHHHHHHHHHh-
Confidence 34444445555555543 3577779999999999865444332 23333 44466676 577777777777665432
Q ss_pred CceEEEecCCCcccc-----------------CCCeEEEEChHHHHH
Q 000854 240 DDSVICYPSFSSAQH-----------------FDSKVIYMTDHCLLQ 269 (1252)
Q Consensus 240 ~~~vg~~~~~~~~~~-----------------~~t~Iiv~Tpg~Ll~ 269 (1252)
+..+ +...+..... ....|+++||+.++.
T Consensus 98 ~r~i-~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilS 143 (229)
T PF12340_consen 98 NRRI-YHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILS 143 (229)
T ss_pred CCee-EEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHH
Confidence 2222 3233322211 245699999998754
No 236
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=94.96 E-value=0.11 Score=60.60 Aligned_cols=59 Identities=17% Similarity=0.195 Sum_probs=41.9
Q ss_pred CCCChHHHHHHHHHHHhcC--CeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEecCcHHH
Q 000854 163 DGLPIYMYRQDILRRIYGE--QILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVCTQPRKI 221 (1252)
Q Consensus 163 ~~lP~~~qq~~I~~al~~~--~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv~qPrR~ 221 (1252)
--.|...+|...++++... +.|.+.|+.|||||..++..-++... ....+|+++-|+-.
T Consensus 225 Gi~prn~eQ~~ALdlLld~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vp 287 (436)
T COG1875 225 GIRPRNAEQRVALDLLLDDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVP 287 (436)
T ss_pred ccCcccHHHHHHHHHhcCCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcC
Confidence 3578889999999999887 45777899999999754444443322 22347899888733
No 237
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=94.95 E-value=0.031 Score=68.54 Aligned_cols=65 Identities=14% Similarity=0.311 Sum_probs=50.1
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHh
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~ 234 (1252)
-|...+..+.++.+.+|+||+|+|||.....+++.......+.|+|.+|..+++.|+|+.+.+..
T Consensus 414 SQ~~AV~~VL~rplsLIQGPPGTGKTvtsa~IVyhl~~~~~~~VLvcApSNiAVDqLaeKIh~tg 478 (935)
T KOG1802|consen 414 SQSNAVKHVLQRPLSLIQGPPGTGKTVTSATIVYHLARQHAGPVLVCAPSNIAVDQLAEKIHKTG 478 (935)
T ss_pred HHHHHHHHHHcCCceeeecCCCCCceehhHHHHHHHHHhcCCceEEEcccchhHHHHHHHHHhcC
Confidence 45556667778889999999999999654444443333346789999999999999999988753
No 238
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=94.94 E-value=0.068 Score=68.03 Aligned_cols=48 Identities=19% Similarity=0.272 Sum_probs=30.2
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
++.+...+.-.+++++||||+| ++..+-...++|.+..-.++.++|+.
T Consensus 108 Ie~a~~~P~~gr~KVIIIDEah--~LT~~A~NALLKtLEEPP~~v~FILa 155 (830)
T PRK07003 108 LERAVYAPVDARFKVYMIDEVH--MLTNHAFNAMLKTLEEPPPHVKFILA 155 (830)
T ss_pred HHHHHhccccCCceEEEEeChh--hCCHHHHHHHHHHHHhcCCCeEEEEE
Confidence 3333333445678999999999 45555667777776554444555443
No 239
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.86 E-value=0.059 Score=66.95 Aligned_cols=44 Identities=20% Similarity=0.300 Sum_probs=30.7
Q ss_pred cCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 273 NDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 273 ~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
..+.-.+++++|||||| ++..+....+++.+..-++...+|+.+
T Consensus 113 ~~p~~~~~kV~iIDE~~--~ls~~a~naLLk~LEepp~~~~fIlat 156 (509)
T PRK14958 113 YAPTKGRFKVYLIDEVH--MLSGHSFNALLKTLEEPPSHVKFILAT 156 (509)
T ss_pred hccccCCcEEEEEEChH--hcCHHHHHHHHHHHhccCCCeEEEEEE
Confidence 34455688999999999 456666677788776555566666543
No 240
>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.84 E-value=0.18 Score=64.82 Aligned_cols=123 Identities=18% Similarity=0.175 Sum_probs=71.7
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccC-CeE-EecC-cHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAE-QSI-VCTQ-PRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~-~~I-Lv~q-PrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
+.++.+.||||+||||.+...........+ .+| ++.. +.|+.+...-+.+.+..+ . .
T Consensus 185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~g-v----p--------------- 244 (767)
T PRK14723 185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILG-V----P--------------- 244 (767)
T ss_pred CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCC-C----C---------------
Confidence 568888999999999986554432211222 244 3333 456655444444444331 0 0
Q ss_pred eEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHH-hccCCCcEEeeccCCCHHHHH
Q 000854 258 KVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLL-CRRFDLRLVIMSATADAHQLS 327 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~-~~~~~lqiIlmSATld~~~l~ 327 (1252)
-.++.+|.-+.+.+. .+.++++|+||=+= |+....-+...+..+. ...+.-.++.+|||...+.+.
T Consensus 245 v~~~~~~~~l~~al~---~~~~~D~VLIDTAG-Rs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~ 311 (767)
T PRK14723 245 VHAVKDAADLRFALA---ALGDKHLVLIDTVG-MSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLN 311 (767)
T ss_pred ccccCCHHHHHHHHH---HhcCCCEEEEeCCC-CCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHH
Confidence 011236777666554 34567899999998 6654333444444433 345666788999998766555
No 241
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.83 E-value=0.076 Score=63.31 Aligned_cols=49 Identities=22% Similarity=0.358 Sum_probs=30.3
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
+.+.+...+..++..++||||+| + +..+-...+++.+..-++..++|+.
T Consensus 107 i~~~~~~~p~~~~~kviIIDEa~-~-l~~~a~naLLk~lEe~~~~~~fIl~ 155 (363)
T PRK14961 107 ILDNIYYSPSKSRFKVYLIDEVH-M-LSRHSFNALLKTLEEPPQHIKFILA 155 (363)
T ss_pred HHHHHhcCcccCCceEEEEEChh-h-cCHHHHHHHHHHHhcCCCCeEEEEE
Confidence 34444445566778999999999 3 3444445566666554445555554
No 242
>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=94.82 E-value=0.2 Score=60.66 Aligned_cols=127 Identities=17% Similarity=0.148 Sum_probs=69.3
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcc--cc-cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccC
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSG--IA-AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHF 255 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~--~~-~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~ 255 (1252)
..++++.+.||||+||||.+........ .. ....++..-..|..+.+....+.+.++ .. +
T Consensus 189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilG-vp----~------------ 251 (420)
T PRK14721 189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLG-VS----V------------ 251 (420)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcC-Cc----e------------
Confidence 4567888899999999997654432211 11 122344445556666655555555431 10 1
Q ss_pred CCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc-CCCcEEeeccCCCHHHHHhh
Q 000854 256 DSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR-FDLRLVIMSATADAHQLSKY 329 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~-~~lqiIlmSATld~~~l~~~ 329 (1252)
..+-++.-+...+. .+.+.+.++||.+= |......+..-++.+.... +.-.++.+|||...+.+.+.
T Consensus 252 ---~~v~~~~dl~~al~---~l~~~d~VLIDTaG-rsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~ 319 (420)
T PRK14721 252 ---RSIKDIADLQLMLH---ELRGKHMVLIDTVG-MSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEV 319 (420)
T ss_pred ---ecCCCHHHHHHHHH---HhcCCCEEEecCCC-CCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHH
Confidence 01112222322222 25677899999985 4443333444444443322 34467789999876665543
No 243
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=94.79 E-value=0.26 Score=57.70 Aligned_cols=127 Identities=19% Similarity=0.207 Sum_probs=63.8
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec-C-cHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT-Q-PRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~-q-PrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
...++++.||+|+||||.+........ ..+.+|+++ . +.|..|.+.....+...+ +.+.... .. .
T Consensus 113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~-~~g~~V~Li~~D~~r~~a~eql~~~a~~~~-------i~~~~~~-~~--~-- 179 (318)
T PRK10416 113 KPFVILVVGVNGVGKTTTIGKLAHKYK-AQGKKVLLAAGDTFRAAAIEQLQVWGERVG-------VPVIAQK-EG--A-- 179 (318)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCeEEEEecCccchhhHHHHHHHHHHcC-------ceEEEeC-CC--C--
Confidence 457888899999999987544333221 223455433 3 346655444334444321 1111110 00 0
Q ss_pred eEEEEChH-HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh-------ccCCCcEEeeccCCCHHHH
Q 000854 258 KVIYMTDH-CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC-------RRFDLRLVIMSATADAHQL 326 (1252)
Q Consensus 258 ~Iiv~Tpg-~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~-------~~~~lqiIlmSATld~~~l 326 (1252)
.|. ...+.+... ...++++||||=+- |+...+-+..-++.+.. ..|+-.++.++||...+.+
T Consensus 180 -----dpa~~v~~~l~~~-~~~~~D~ViIDTaG-r~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~ 249 (318)
T PRK10416 180 -----DPASVAFDAIQAA-KARGIDVLIIDTAG-RLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNAL 249 (318)
T ss_pred -----CHHHHHHHHHHHH-HhCCCCEEEEeCCC-CCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHH
Confidence 111 111222111 23578999999998 65544333333333221 2355678899999654433
No 244
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.69 E-value=0.038 Score=67.44 Aligned_cols=47 Identities=28% Similarity=0.303 Sum_probs=30.2
Q ss_pred CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHH
Q 000854 274 DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAH 324 (1252)
Q Consensus 274 ~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~ 324 (1252)
.+.-+++.++|||||| ++..+....+++.+..- ..+++++-||-+..
T Consensus 116 ~p~~g~~KV~IIDEah--~Ls~~A~NALLKtLEEP--p~~viFILaTte~~ 162 (484)
T PRK14956 116 APMGGKYKVYIIDEVH--MLTDQSFNALLKTLEEP--PAHIVFILATTEFH 162 (484)
T ss_pred hhhcCCCEEEEEechh--hcCHHHHHHHHHHhhcC--CCceEEEeecCChh
Confidence 3344578999999999 56677777788777442 23444444554433
No 245
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.67 E-value=0.078 Score=68.69 Aligned_cols=42 Identities=21% Similarity=0.305 Sum_probs=30.4
Q ss_pred CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 274 DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 274 ~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
.+.-++++++|||||| ++..+....++|.+..-+..+++|+.
T Consensus 114 ~P~~gk~KViIIDEAh--~LT~eAqNALLKtLEEPP~~vrFILa 155 (944)
T PRK14949 114 RPSRGRFKVYLIDEVH--MLSRSSFNALLKTLEEPPEHVKFLLA 155 (944)
T ss_pred hhhcCCcEEEEEechH--hcCHHHHHHHHHHHhccCCCeEEEEE
Confidence 3444678999999999 45677778888877665555666664
No 246
>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=94.66 E-value=0.17 Score=57.44 Aligned_cols=17 Identities=29% Similarity=0.526 Sum_probs=14.2
Q ss_pred CeEEEEcCCCChhhHHH
Q 000854 182 QILVLIGETGCGKSTQL 198 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqi 198 (1252)
..+++.||+|+|||+.+
T Consensus 43 ~~vll~GppGtGKTtlA 59 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVA 59 (261)
T ss_pred ceEEEEcCCCCCHHHHH
Confidence 46777999999999864
No 247
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=94.65 E-value=0.1 Score=58.98 Aligned_cols=24 Identities=33% Similarity=0.649 Sum_probs=18.6
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHh
Q 000854 181 EQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle 204 (1252)
...+++.||+|+||||.+-.+..+
T Consensus 43 ~~~~~l~G~~G~GKTtl~~~l~~~ 66 (269)
T TIGR03015 43 EGFILITGEVGAGKTTLIRNLLKR 66 (269)
T ss_pred CCEEEEEcCCCCCHHHHHHHHHHh
Confidence 457888999999999977655433
No 248
>PF13173 AAA_14: AAA domain
Probab=94.62 E-value=0.19 Score=50.60 Aligned_cols=26 Identities=38% Similarity=0.620 Sum_probs=21.2
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhc
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADS 205 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~ 205 (1252)
++++++|.||.|+||||.+-+++.+.
T Consensus 1 n~~~~~l~G~R~vGKTtll~~~~~~~ 26 (128)
T PF13173_consen 1 NRKIIILTGPRGVGKTTLLKQLAKDL 26 (128)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 35788899999999999887776543
No 249
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=94.59 E-value=0.048 Score=69.69 Aligned_cols=65 Identities=18% Similarity=0.261 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
..|++++..++...+..+|.|=+|+||||.+...+.- ....+++|+.+.-|..++..+--.+...
T Consensus 672 ~dQr~A~~k~L~aedy~LI~GMPGTGKTTtI~~LIki-L~~~gkkVLLtsyThsAVDNILiKL~~~ 736 (1100)
T KOG1805|consen 672 NDQRQALLKALAAEDYALILGMPGTGKTTTISLLIKI-LVALGKKVLLTSYTHSAVDNILIKLKGF 736 (1100)
T ss_pred HHHHHHHHHHHhccchheeecCCCCCchhhHHHHHHH-HHHcCCeEEEEehhhHHHHHHHHHHhcc
Confidence 4699999999999999999999999999875543322 2234678999999998887777666654
No 250
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.56 E-value=0.11 Score=65.64 Aligned_cols=44 Identities=25% Similarity=0.335 Sum_probs=29.2
Q ss_pred CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 274 DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 274 ~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+..++++++|||||| ++.......+++.+..-++...+|+ .+|
T Consensus 113 ~P~~gk~KV~IIDEVh--~LS~~A~NALLKtLEEPP~~v~FIL-aTt 156 (702)
T PRK14960 113 APTQGRFKVYLIDEVH--MLSTHSFNALLKTLEEPPEHVKFLF-ATT 156 (702)
T ss_pred hhhcCCcEEEEEechH--hcCHHHHHHHHHHHhcCCCCcEEEE-EEC
Confidence 3345678999999999 4555566677776655444555555 334
No 251
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=94.56 E-value=0.21 Score=58.76 Aligned_cols=117 Identities=23% Similarity=0.323 Sum_probs=86.1
Q ss_pred ecccccCCceeEEEecC-CCchhhhhhccccccceeEEEEecCcccc-----ceEEEeCCCccCChHHHHHHHHhhcccc
Q 000854 1025 YWPRRLSKGFAVVKCDA-TDVEFLVKDFFDLAIGGRYVRCEIGRRSM-----DAVVISGLDKELSEDEILGELRKVTTRR 1098 (1252)
Q Consensus 1025 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1098 (1252)
......|+|||.|.... .|++--+...-...++||-++.+...... ..|.|+|||+.++|.++.+.|+..- .
T Consensus 38 d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G--~ 115 (352)
T TIGR01661 38 DKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDSIKGANLYVSGLPKTMTQHELESIFSPFG--Q 115 (352)
T ss_pred cCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccccccceEEECCccccCCHHHHHHHHhccC--C
Confidence 34456799999999876 67888888888899999998887654332 3699999999999999988887653 4
Q ss_pred eeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeecccccHHHHHHHhhhcCc
Q 000854 1099 IRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFDGRLHLEAAKALEQLEGK 1178 (1252)
Q Consensus 1099 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1178 (1252)
|.+..+++...-+. .+ --|+|+|+- +-+|.+|++.|+|+
T Consensus 116 i~~~~~~~~~~~~~------------------------------------~~---g~~fv~f~~--~~~A~~ai~~l~g~ 154 (352)
T TIGR01661 116 IITSRILSDNVTGL------------------------------------SK---GVGFIRFDK--RDEADRAIKTLNGT 154 (352)
T ss_pred EEEEEEEecCCCCC------------------------------------cC---cEEEEEECC--HHHHHHHHHHhCCC
Confidence 45544443221110 00 127888874 67889999999999
Q ss_pred ccCCcc
Q 000854 1179 VLPGCG 1184 (1252)
Q Consensus 1179 ~~~~~~ 1184 (1252)
.+.||.
T Consensus 155 ~~~g~~ 160 (352)
T TIGR01661 155 TPSGCT 160 (352)
T ss_pred ccCCCc
Confidence 999974
No 252
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=94.55 E-value=0.069 Score=67.72 Aligned_cols=48 Identities=21% Similarity=0.288 Sum_probs=32.0
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
.+.+...+.-++++++|||||| ++..+-...++|.+..-++..++|+.
T Consensus 108 i~~~~~~p~~g~~KV~IIDEah--~Ls~~a~NALLKtLEEPp~~v~FIL~ 155 (647)
T PRK07994 108 LDNVQYAPARGRFKVYLIDEVH--MLSRHSFNALLKTLEEPPEHVKFLLA 155 (647)
T ss_pred HHHHHhhhhcCCCEEEEEechH--hCCHHHHHHHHHHHHcCCCCeEEEEe
Confidence 3444444455788999999999 45666777888877654444555554
No 253
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=94.54 E-value=0.23 Score=58.05 Aligned_cols=33 Identities=18% Similarity=0.335 Sum_probs=22.6
Q ss_pred HHHHHHHHhcCC--eEEEEcCCCChhhHHHHHHHH
Q 000854 171 RQDILRRIYGEQ--ILVLIGETGCGKSTQLVQFLA 203 (1252)
Q Consensus 171 q~~I~~al~~~~--vvII~apTGSGKTtqipq~Ll 203 (1252)
.+.+..++..+. .+++.||+|+|||+.+-.+..
T Consensus 24 ~~~L~~~~~~~~~~~lll~Gp~GtGKT~la~~~~~ 58 (337)
T PRK12402 24 VERLSRAVDSPNLPHLLVQGPPGSGKTAAVRALAR 58 (337)
T ss_pred HHHHHHHHhCCCCceEEEECCCCCCHHHHHHHHHH
Confidence 344444555555 788899999999987654443
No 254
>PRK06835 DNA replication protein DnaC; Validated
Probab=94.53 E-value=0.27 Score=57.89 Aligned_cols=53 Identities=19% Similarity=0.286 Sum_probs=29.4
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhcc-CCCcEEeeccCCCHHHHHhhh
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRR-FDLRLVIMSATADAHQLSKYF 330 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~-~~lqiIlmSATld~~~l~~~f 330 (1252)
+.++++||||+.+ ....+++....+-.+...+ ..-+-+++|...+++.+.+.+
T Consensus 244 l~~~DLLIIDDlG-~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~~~el~~~~ 297 (329)
T PRK06835 244 LINCDLLIIDDLG-TEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTY 297 (329)
T ss_pred hccCCEEEEeccC-CCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHH
Confidence 4567999999998 3444445444443333322 222335566666666655443
No 255
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=94.48 E-value=0.52 Score=58.58 Aligned_cols=77 Identities=14% Similarity=0.150 Sum_probs=54.9
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeeec
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1003 (1252)
.+|.|-+.. ..+++.+|..+|++. |-|.++.=..... .....-+|.|+|.+++.|..|. .|||.+|.|..|+|..
T Consensus 296 ~~l~v~nlp-~~~~~~~l~~~f~~~--G~i~~~~~~~~~~-~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~ 371 (509)
T TIGR01642 296 DRIYIGNLP-LYLGEDQIKELLESF--GDLKAFNLIKDIA-TGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQR 371 (509)
T ss_pred CEEEEeCCC-CCCCHHHHHHHHHhc--CCeeEEEEEecCC-CCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence 467777763 457889998999775 5565552111111 1123358999999999999996 6999999999999985
Q ss_pred cc
Q 000854 1004 SR 1005 (1252)
Q Consensus 1004 ~~ 1005 (1252)
..
T Consensus 372 a~ 373 (509)
T TIGR01642 372 AC 373 (509)
T ss_pred Cc
Confidence 43
No 256
>PRK06893 DNA replication initiation factor; Validated
Probab=94.44 E-value=0.2 Score=55.75 Aligned_cols=51 Identities=22% Similarity=0.227 Sum_probs=28.4
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccC-CCcEEeeccCCCHHHHH
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRF-DLRLVIMSATADAHQLS 327 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~-~lqiIlmSATld~~~l~ 327 (1252)
+.+.++|||||+|....+.+....+...+..... +.+++++|++..+..+.
T Consensus 89 ~~~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~ 140 (229)
T PRK06893 89 LEQQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALS 140 (229)
T ss_pred cccCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHcc
Confidence 3467899999999322233333333333322222 34567888886655443
No 257
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=94.36 E-value=0.21 Score=51.10 Aligned_cols=32 Identities=25% Similarity=0.439 Sum_probs=22.0
Q ss_pred EEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 184 LVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 184 vII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
++|.|++|+|||+.+.+++..... .+..++++
T Consensus 2 ~~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~ 33 (165)
T cd01120 2 ILVFGPTGSGKTTLALQLALNIAT-KGGKVVYV 33 (165)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEE
Confidence 567899999999977666655432 34455554
No 258
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=94.29 E-value=0.28 Score=62.08 Aligned_cols=50 Identities=22% Similarity=0.290 Sum_probs=34.2
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+...+...+...+++++||||+| .+...-...+++.+..-++...+|+.+
T Consensus 120 Iie~~~~~P~~a~~KVvIIDEad--~Ls~~a~naLLKtLEePp~~~~fIl~t 169 (598)
T PRK09111 120 IIESVRYRPVSARYKVYIIDEVH--MLSTAAFNALLKTLEEPPPHVKFIFAT 169 (598)
T ss_pred HHHHHHhchhcCCcEEEEEEChH--hCCHHHHHHHHHHHHhCCCCeEEEEEe
Confidence 44455555677889999999999 345555667777766555566666644
No 259
>PRK14957 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.29 E-value=0.17 Score=63.12 Aligned_cols=50 Identities=20% Similarity=0.282 Sum_probs=32.9
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+++.+...+..++..++|||||| + +..+....+++.+..-++...+|+.+
T Consensus 107 ii~~~~~~p~~g~~kViIIDEa~-~-ls~~a~naLLK~LEepp~~v~fIL~T 156 (546)
T PRK14957 107 ILDNIQYMPSQGRYKVYLIDEVH-M-LSKQSFNALLKTLEEPPEYVKFILAT 156 (546)
T ss_pred HHHHHHhhhhcCCcEEEEEechh-h-ccHHHHHHHHHHHhcCCCCceEEEEE
Confidence 44555555567788999999999 3 45556666777665544455565544
No 260
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=94.13 E-value=0.13 Score=65.28 Aligned_cols=44 Identities=18% Similarity=0.287 Sum_probs=30.3
Q ss_pred cCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 273 NDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 273 ~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
..+.+.+++++||||+| .+..+....+++.+...+....+|+.+
T Consensus 113 ~~P~~gk~KVIIIDEad--~Ls~~A~NALLKtLEEPp~~v~fILaT 156 (709)
T PRK08691 113 YAPTAGKYKVYIIDEVH--MLSKSAFNAMLKTLEEPPEHVKFILAT 156 (709)
T ss_pred hhhhhCCcEEEEEECcc--ccCHHHHHHHHHHHHhCCCCcEEEEEe
Confidence 34466788999999999 355555667777776555566666544
No 261
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=94.09 E-value=0.13 Score=63.47 Aligned_cols=114 Identities=16% Similarity=0.221 Sum_probs=94.3
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC--CCceEEEEechhhhhcCCCCCeeEEEEcC
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY--PGRRKVIFATNVAETSLTIPGVKFVIDSG 455 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f--~G~~kVLVATniae~GIDIP~V~~VId~g 455 (1252)
..+.++|+|..-.+.++-+-++|.-.++.-+-+.|+....+|..+...| +...-.|++|-+.+-||++-..+.||-|+
T Consensus 1042 aegHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~sdiFvFLLSTRAGGLGINLTAADTViFYd 1121 (1185)
T KOG0388|consen 1042 AEGHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQASDIFVFLLSTRAGGLGINLTAADTVIFYD 1121 (1185)
T ss_pred cCCceEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccCCceEEEEEecccCcccccccccceEEEec
Confidence 4577999999988899999999988899999999999999999999999 56668899999999999999999999654
Q ss_pred CCccccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 456 MVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 456 ~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
- -++|... .++.-|+-|-|.++.-.+|+|.+....+
T Consensus 1122 S----DWNPT~D-----------~QAMDRAHRLGQTrdvtvyrl~~rgTvE 1157 (1185)
T KOG0388|consen 1122 S----DWNPTAD-----------QQAMDRAHRLGQTRDVTVYRLITRGTVE 1157 (1185)
T ss_pred C----CCCcchh-----------hHHHHHHHhccCccceeeeeecccccHH
Confidence 3 3333222 4555777777777788999999987765
No 262
>PRK11054 helD DNA helicase IV; Provisional
Probab=94.09 E-value=0.19 Score=64.56 Aligned_cols=103 Identities=24% Similarity=0.331 Sum_probs=64.0
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHH---HHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQ---FLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq---~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
.|...+|...+.. ..+.++|.|..|||||+.+.. +++......+.+|+++..+|.+|..+.+|+.+..+
T Consensus 195 ~~L~~~Q~~av~~--~~~~~lV~agaGSGKT~vl~~r~ayLl~~~~~~~~~IL~ltft~~AA~em~eRL~~~lg------ 266 (684)
T PRK11054 195 SPLNPSQARAVVN--GEDSLLVLAGAGSGKTSVLVARAGWLLARGQAQPEQILLLAFGRQAAEEMDERIRERLG------ 266 (684)
T ss_pred CCCCHHHHHHHhC--CCCCeEEEEeCCCCHHHHHHHHHHHHHHhCCCCHHHeEEEeccHHHHHHHHHHHHHhcC------
Confidence 4554444444332 334456679999999987543 44544444456899999999999999999987641
Q ss_pred eEEEecCCCccccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEcccc
Q 000854 242 SVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAH 289 (1252)
Q Consensus 242 ~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaH 289 (1252)
...|.+.|-..|...+.... ....++.+..|+-.
T Consensus 267 --------------~~~v~v~TFHSlal~Il~~~~~~~p~~s~~~~d~~~ 302 (684)
T PRK11054 267 --------------TEDITARTFHALALHIIQQGSKKVPVISKLENDSKA 302 (684)
T ss_pred --------------CCCcEEEeHHHHHHHHHHHhhhcCCCcCccccchHH
Confidence 03577888877654332221 22234444455543
No 263
>PRK07952 DNA replication protein DnaC; Validated
Probab=94.01 E-value=2.1 Score=48.41 Aligned_cols=114 Identities=14% Similarity=0.253 Sum_probs=60.3
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEEE
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVIY 261 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv 261 (1252)
..+++.|++|+|||..+....... ...+..++++ +... +...+..... . .+
T Consensus 100 ~~~~l~G~~GtGKThLa~aia~~l-~~~g~~v~~i-t~~~----l~~~l~~~~~---------------~---~~----- 150 (244)
T PRK07952 100 ASFIFSGKPGTGKNHLAAAICNEL-LLRGKSVLII-TVAD----IMSAMKDTFS---------------N---SE----- 150 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHH-HhcCCeEEEE-EHHH----HHHHHHHHHh---------------h---cc-----
Confidence 467889999999997544333322 1224456654 2222 2222222210 0 00
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc-CCCcEEeeccCCCHHHHHhhhh
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR-FDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~-~~lqiIlmSATld~~~l~~~f~ 331 (1252)
.+...+++. +.++++|||||++. ...+++...++-.+...| .+.+-+++|.-++.+.+.+.++
T Consensus 151 ~~~~~~l~~------l~~~dlLvIDDig~-~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl~~~~l~~~~g 214 (244)
T PRK07952 151 TSEEQLLND------LSNVDLLVIDEIGV-QTESRYEKVIINQIVDRRSSSKRPTGMLTNSNMEEMTKLLG 214 (244)
T ss_pred ccHHHHHHH------hccCCEEEEeCCCC-CCCCHHHHHHHHHHHHHHHhCCCCEEEeCCCCHHHHHHHhC
Confidence 123344443 45789999999994 335666665555554433 2234445555556666665553
No 264
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=94.01 E-value=0.23 Score=61.33 Aligned_cols=48 Identities=23% Similarity=0.255 Sum_probs=32.4
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
+......|..++++++||||+| ++..+-...+++.+..-++...+|+.
T Consensus 105 ie~~~~~P~~~~~KVvIIDEah--~Ls~~A~NaLLK~LEePp~~v~fIla 152 (491)
T PRK14964 105 LENSCYLPISSKFKVYIIDEVH--MLSNSAFNALLKTLEEPAPHVKFILA 152 (491)
T ss_pred HHHHHhccccCCceEEEEeChH--hCCHHHHHHHHHHHhCCCCCeEEEEE
Confidence 3444445677899999999999 45555566777776655555555554
No 265
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.94 E-value=0.25 Score=62.65 Aligned_cols=52 Identities=25% Similarity=0.318 Sum_probs=32.5
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
++......+...+++++|||||| ++..+-...+++.+..-+....+|+. +|-
T Consensus 112 li~~~~~~p~~g~~KV~IIDEvh--~Ls~~a~NaLLKtLEEPP~~~~fIL~-Ttd 163 (618)
T PRK14951 112 LLEQAVYKPVQGRFKVFMIDEVH--MLTNTAFNAMLKTLEEPPEYLKFVLA-TTD 163 (618)
T ss_pred HHHHHHhCcccCCceEEEEEChh--hCCHHHHHHHHHhcccCCCCeEEEEE-ECC
Confidence 33444445566789999999999 45555666677766554444555543 353
No 266
>PRK05642 DNA replication initiation factor; Validated
Probab=93.93 E-value=0.26 Score=55.11 Aligned_cols=50 Identities=18% Similarity=0.148 Sum_probs=27.7
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHH
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQL 326 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l 326 (1252)
+.+++++|||++|.-....+....+...+...+.+-+.+++++|..+..+
T Consensus 95 ~~~~d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l 144 (234)
T PRK05642 95 LEQYELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPREL 144 (234)
T ss_pred hhhCCEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHc
Confidence 34568999999993222223333344444333333456788888655433
No 267
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=93.91 E-value=0.53 Score=58.47 Aligned_cols=40 Identities=23% Similarity=0.235 Sum_probs=26.8
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
++......+..++..++||||+| ++...-...+++.+..-
T Consensus 116 iie~a~~~P~~~~~KVvIIDEa~--~Ls~~a~naLLk~LEep 155 (507)
T PRK06645 116 IIESAEYKPLQGKHKIFIIDEVH--MLSKGAFNALLKTLEEP 155 (507)
T ss_pred HHHHHHhccccCCcEEEEEEChh--hcCHHHHHHHHHHHhhc
Confidence 34444455677889999999999 34555556666666543
No 268
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=93.91 E-value=0.51 Score=54.88 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=15.2
Q ss_pred CeEEEEcCCCChhhHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~ 201 (1252)
..+++.||+|+|||+.+-.+
T Consensus 44 ~~lll~G~~G~GKT~la~~l 63 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVAKAL 63 (316)
T ss_pred eEEEeeCcCCCCHHHHHHHH
Confidence 35666899999999865444
No 269
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.87 E-value=0.17 Score=63.67 Aligned_cols=47 Identities=17% Similarity=0.279 Sum_probs=31.1
Q ss_pred HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 269 QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 269 ~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
+.+...+...+++++||||+| +++..-...++|.+..-.+++++|+.
T Consensus 114 e~~~~~P~~gr~KViIIDEah--~Ls~~AaNALLKTLEEPP~~v~FILa 160 (700)
T PRK12323 114 DKAVYAPTAGRFKVYMIDEVH--MLTNHAFNAMLKTLEEPPEHVKFILA 160 (700)
T ss_pred HHHHhchhcCCceEEEEEChH--hcCHHHHHHHHHhhccCCCCceEEEE
Confidence 333334456788999999999 45556667788876554455555554
No 270
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=93.87 E-value=0.2 Score=59.77 Aligned_cols=62 Identities=19% Similarity=0.132 Sum_probs=39.8
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
..|.|-.--.+.+.+...+..+...++||||+| .++......++|.+..-+++..+|++|..
T Consensus 119 ~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead--~m~~~aanaLLK~LEepp~~~~~IL~t~~ 180 (365)
T PRK07471 119 TVITVDEVRELISFFGLTAAEGGWRVVIVDTAD--EMNANAANALLKVLEEPPARSLFLLVSHA 180 (365)
T ss_pred ccccHHHHHHHHHHhCcCcccCCCEEEEEechH--hcCHHHHHHHHHHHhcCCCCeEEEEEECC
Confidence 345444333455555555567788999999999 45677777888887654445555554444
No 271
>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB. The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.
Probab=93.82 E-value=0.12 Score=59.98 Aligned_cols=54 Identities=19% Similarity=0.305 Sum_probs=38.8
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecCcHHHH
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQPRKIA 222 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~qPrR~L 222 (1252)
.+.+.+..++..+..++|+|+|||||||.+-..+..-.. ....+++++..+.|+
T Consensus 120 ~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El 174 (299)
T TIGR02782 120 AQRDVLREAVLARKNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTREL 174 (299)
T ss_pred HHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhh
Confidence 456667778888889999999999999976443322111 224688888888776
No 272
>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=93.80 E-value=0.49 Score=58.26 Aligned_cols=125 Identities=17% Similarity=0.188 Sum_probs=66.0
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccC-CeE--EecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAE-QSI--VCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~-~~I--Lv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
.+.++++.||||+||||.+..+........+ .+| +-.-+.|+.|.+....+.+..+ . .+.
T Consensus 255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilG-V----pv~------------ 317 (484)
T PRK06995 255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILG-V----PVH------------ 317 (484)
T ss_pred CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhC-C----Cee------------
Confidence 4578888999999999986555432211111 233 3335557777666666666542 1 010
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc-CCCcEEeeccCCCHHHHHh
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR-FDLRLVIMSATADAHQLSK 328 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~-~~lqiIlmSATld~~~l~~ 328 (1252)
..-++.-+...+ ..+.+.++++||.+= |+.....+...+..+.... +.-.++.++||.....+.+
T Consensus 318 ---~~~~~~Dl~~aL---~~L~d~d~VLIDTaG-r~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~~~l~~ 383 (484)
T PRK06995 318 ---AVKDAADLRLAL---SELRNKHIVLIDTIG-MSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHGDTLNE 383 (484)
T ss_pred ---ccCCchhHHHHH---HhccCCCeEEeCCCC-cChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcHHHHHH
Confidence 000111111122 145667899999986 5443322233333332221 3336788999977665543
No 273
>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=93.72 E-value=0.11 Score=55.81 Aligned_cols=119 Identities=19% Similarity=0.183 Sum_probs=52.2
Q ss_pred HHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccC
Q 000854 176 RRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHF 255 (1252)
Q Consensus 176 ~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~ 255 (1252)
..+..+..+++.|+||+|||..+.....+. ...+..++++ +...|...+ .... . . .
T Consensus 42 ~~~~~~~~l~l~G~~G~GKThLa~ai~~~~-~~~g~~v~f~-~~~~L~~~l----~~~~------------~---~---~ 97 (178)
T PF01695_consen 42 EFIENGENLILYGPPGTGKTHLAVAIANEA-IRKGYSVLFI-TASDLLDEL----KQSR------------S---D---G 97 (178)
T ss_dssp -S-SC--EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEE-EHHHHHHHH----HCCH------------C---C---T
T ss_pred CCcccCeEEEEEhhHhHHHHHHHHHHHHHh-ccCCcceeEe-ecCceeccc----cccc------------c---c---c
Confidence 344567889999999999997644433322 2234456654 333333322 1110 0 0 0
Q ss_pred CCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhhhc
Q 000854 256 DSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYFYD 332 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f~~ 332 (1252)
+.+.+++. +.+++++||||+--..........+...+..+..+..+|+ |.-.+.+.+.+.+++
T Consensus 98 -------~~~~~~~~------l~~~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIi-TSN~~~~~l~~~~~d 160 (178)
T PF01695_consen 98 -------SYEELLKR------LKRVDLLILDDLGYEPLSEWEAELLFEIIDERYERKPTII-TSNLSPSELEEVLGD 160 (178)
T ss_dssp -------THCHHHHH------HHTSSCEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEE-EESS-HHHHHT----
T ss_pred -------chhhhcCc------cccccEecccccceeeecccccccchhhhhHhhcccCeEe-eCCCchhhHhhcccc
Confidence 01123333 3467899999997222222122222222222223334444 444777888887764
No 274
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=93.72 E-value=0.32 Score=58.31 Aligned_cols=22 Identities=23% Similarity=0.472 Sum_probs=17.3
Q ss_pred CeEEEEcCCCChhhHHHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQFLA 203 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Ll 203 (1252)
..++|.||+|+|||+.+-..+.
T Consensus 56 ~~~lI~G~~GtGKT~l~~~v~~ 77 (394)
T PRK00411 56 LNVLIYGPPGTGKTTTVKKVFE 77 (394)
T ss_pred CeEEEECCCCCCHHHHHHHHHH
Confidence 5688899999999987655443
No 275
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=93.72 E-value=0.1 Score=46.35 Aligned_cols=68 Identities=19% Similarity=0.324 Sum_probs=47.7
Q ss_pred EEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccccCC-eeecCceee
Q 000854 928 DVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATELNG-VEYNGSLLK 1000 (1252)
Q Consensus 928 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~ 1000 (1252)
.|.+-.. ++++.+|..+++.. |.|-.+ ++...++ .....-+.|+|.+++.|.+|++.++ ..|+|..|+
T Consensus 2 ~i~nlp~-~~~~~~l~~~f~~~--g~v~~v-~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 2 YISNLPP-STTEEDLRNFFSRF--GPVEKV-RLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEESSTT-T--HHHHHHHCTTS--SBEEEE-EEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred EEeCCCC-CCCHHHHHHHHHhc--CCcceE-EEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 4555444 47888999999776 667666 4522233 2445669999999999999976655 999998875
No 276
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=93.68 E-value=0.17 Score=64.25 Aligned_cols=56 Identities=23% Similarity=0.191 Sum_probs=40.8
Q ss_pred cCCCceEEEEechhhhhcCCCCCeeEEEEcCCCccccccCCCCcccceecccCHhhHHHHhcccCCC---CCCeEEE
Q 000854 425 SYPGRRKVIFATNVAETSLTIPGVKFVIDSGMVKESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRT---EPGRCYR 498 (1252)
Q Consensus 425 ~f~G~~kVLVATniae~GIDIP~V~~VId~g~pk~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~---~~G~c~~ 498 (1252)
.|...++.|++--++-.|-|=|+|=.+.-..- .-|-.+=.|.+||.-|. ..|.-++
T Consensus 479 SFd~plRFIFS~waLrEGWDNPNVFtIckL~~------------------S~SeiSK~QeVGRGLRLaVNe~G~RV~ 537 (985)
T COG3587 479 SFDEPLRFIFSKWALREGWDNPNVFTICKLRS------------------SGSEISKLQEVGRGLRLAVNENGERVT 537 (985)
T ss_pred ccCCcceeeeehhHHhhcCCCCCeeEEEEecC------------------CCcchHHHHHhccceeeeeccccceec
Confidence 34556899999999999999999977763211 11334557999999997 3666555
No 277
>PRK12377 putative replication protein; Provisional
Probab=93.67 E-value=3.9 Score=46.38 Aligned_cols=21 Identities=29% Similarity=0.444 Sum_probs=16.1
Q ss_pred cCCeEEEEcCCCChhhHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq 200 (1252)
+...+++.||+|+|||..+..
T Consensus 100 ~~~~l~l~G~~GtGKThLa~A 120 (248)
T PRK12377 100 GCTNFVFSGKPGTGKNHLAAA 120 (248)
T ss_pred cCCeEEEECCCCCCHHHHHHH
Confidence 346788899999999975433
No 278
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=93.65 E-value=0.4 Score=58.92 Aligned_cols=36 Identities=19% Similarity=0.167 Sum_probs=20.7
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhccc-ccCCeEEecC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGI-AAEQSIVCTQ 217 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~-~~~~~ILv~q 217 (1252)
+.+++.||+|+|||..+-.+..+... ..+.+++++.
T Consensus 149 ~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~ 185 (450)
T PRK00149 149 NPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT 185 (450)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE
Confidence 45777999999999754332222111 1234566653
No 279
>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=93.61 E-value=0.23 Score=52.34 Aligned_cols=53 Identities=19% Similarity=0.255 Sum_probs=35.3
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+...+...+.-+.++++|||||| .+..+...+++|.+..-+.+..+|+.|-.
T Consensus 89 ~i~~~~~~~~~~~~~KviiI~~ad--~l~~~a~NaLLK~LEepp~~~~fiL~t~~ 141 (162)
T PF13177_consen 89 EIIEFLSLSPSEGKYKVIIIDEAD--KLTEEAQNALLKTLEEPPENTYFILITNN 141 (162)
T ss_dssp HHHHHCTSS-TTSSSEEEEEETGG--GS-HHHHHHHHHHHHSTTTTEEEEEEES-
T ss_pred HHHHHHHHHHhcCCceEEEeehHh--hhhHHHHHHHHHHhcCCCCCEEEEEEECC
Confidence 344445455556789999999999 46677778888887665556666665544
No 280
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=93.59 E-value=0.54 Score=60.37 Aligned_cols=49 Identities=24% Similarity=0.279 Sum_probs=31.7
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
.|...+...|..+++.++|||||| ++..+....+++.+..-++...+|+
T Consensus 105 eLie~~~~~P~~g~~KV~IIDEa~--~LT~~A~NALLKtLEEPP~~tifIL 153 (725)
T PRK07133 105 ELIENVKNLPTQSKYKIYIIDEVH--MLSKSAFNALLKTLEEPPKHVIFIL 153 (725)
T ss_pred HHHHHHHhchhcCCCEEEEEEChh--hCCHHHHHHHHHHhhcCCCceEEEE
Confidence 345555556677899999999999 3555566667776654333344444
No 281
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=93.58 E-value=0.077 Score=56.38 Aligned_cols=47 Identities=23% Similarity=0.248 Sum_probs=30.7
Q ss_pred EEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 184 LVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 184 vII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
++|.||+|+|||+...+++.+.. ..+.+++++. +.+.+.++.+++..
T Consensus 2 ~li~G~~G~GKT~l~~~~~~~~~-~~g~~v~~~s-~e~~~~~~~~~~~~ 48 (187)
T cd01124 2 TLLSGGPGTGKTTFALQFLYAGL-ARGEPGLYVT-LEESPEELIENAES 48 (187)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH-HCCCcEEEEE-CCCCHHHHHHHHHH
Confidence 57789999999998888877643 3344565553 33445555555544
No 282
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=93.37 E-value=0.67 Score=53.17 Aligned_cols=127 Identities=18% Similarity=0.242 Sum_probs=64.3
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec--CcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT--QPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~--qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
...+++++|+||+||||.+........ ..+.+|+++ =+.|..+.+....+.+..+ ..+. ..... .
T Consensus 71 ~~~vi~l~G~~G~GKTTt~akLA~~l~-~~g~~V~li~~D~~r~~a~~ql~~~~~~~~-----i~~~-~~~~~------~ 137 (272)
T TIGR00064 71 KPNVILFVGVNGVGKTTTIAKLANKLK-KQGKSVLLAAGDTFRAAAIEQLEEWAKRLG-----VDVI-KQKEG------A 137 (272)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH-hcCCEEEEEeCCCCCHHHHHHHHHHHHhCC-----eEEE-eCCCC------C
Confidence 346788889999999987544433221 223455433 3456665544444444431 1110 01100 0
Q ss_pred eEEEEChHH-HHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhcc------CCCcEEeeccCCCHHHH
Q 000854 258 KVIYMTDHC-LLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRR------FDLRLVIMSATADAHQL 326 (1252)
Q Consensus 258 ~Iiv~Tpg~-Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~------~~lqiIlmSATld~~~l 326 (1252)
-|.. ..+.+.. ....++++||||=+- |.. +...+..+.+...... ++-.++.++||...+.+
T Consensus 138 -----dp~~~~~~~l~~-~~~~~~D~ViIDT~G-~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~ 207 (272)
T TIGR00064 138 -----DPAAVAFDAIQK-AKARNIDVVLIDTAG-RLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNAL 207 (272)
T ss_pred -----CHHHHHHHHHHH-HHHCCCCEEEEeCCC-CCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHH
Confidence 1222 2222211 123568999999998 544 3333333333222222 67788999999655443
No 283
>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=93.35 E-value=0.31 Score=52.33 Aligned_cols=50 Identities=18% Similarity=0.225 Sum_probs=30.8
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+.+...+..+...+|||||+| + +..+....+++.+...+++..+| +.++
T Consensus 85 ~~~~~~~~~~~~~kviiide~~-~-l~~~~~~~Ll~~le~~~~~~~~i-l~~~ 134 (188)
T TIGR00678 85 VEFLSRTPQESGRRVVIIEDAE-R-MNEAAANALLKTLEEPPPNTLFI-LITP 134 (188)
T ss_pred HHHHccCcccCCeEEEEEechh-h-hCHHHHHHHHHHhcCCCCCeEEE-EEEC
Confidence 5555566677889999999999 3 34444555666654433334444 4444
No 284
>COG2804 PulE Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=93.33 E-value=0.27 Score=59.99 Aligned_cols=38 Identities=26% Similarity=0.425 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhc-CCeEEEEcCCCChhhHHHHHHHHhc
Q 000854 168 YMYRQDILRRIYG-EQILVLIGETGCGKSTQLVQFLADS 205 (1252)
Q Consensus 168 ~~qq~~I~~al~~-~~vvII~apTGSGKTtqipq~Lle~ 205 (1252)
+.+.+.+..++.. +..++++|||||||||.+-..+...
T Consensus 244 ~~~~~~~~~~~~~p~GliLvTGPTGSGKTTTLY~~L~~l 282 (500)
T COG2804 244 PFQLARLLRLLNRPQGLILVTGPTGSGKTTTLYAALSEL 282 (500)
T ss_pred HHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHHHh
Confidence 4455566666654 4788999999999999876666543
No 285
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=93.28 E-value=0.45 Score=65.67 Aligned_cols=123 Identities=15% Similarity=0.060 Sum_probs=73.1
Q ss_pred ChHHHHHHHHHHHhc-CCeEEEEcCCCChhhHHHHH---HHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 166 PIYMYRQDILRRIYG-EQILVLIGETGCGKSTQLVQ---FLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 166 P~~~qq~~I~~al~~-~~vvII~apTGSGKTtqipq---~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
-+..|++++..++.+ +++++|+|..|+||||.+-. .+.......+..|+.+.||--+|..+.+ . +.. .
T Consensus 836 Lt~~Qr~Av~~iLts~dr~~~IqG~AGTGKTT~l~~i~~~~~~l~e~~g~~V~glAPTgkAa~~L~e----~--Gi~-A- 907 (1623)
T PRK14712 836 LTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRS----A--GVD-A- 907 (1623)
T ss_pred cCHHHHHHHHHHHhCCCceEEEEeCCCCCHHHHHHHHHHHHHHHhhccCceEEEEechHHHHHHHHH----h--Cch-H-
Confidence 356788888887764 57999999999999997432 2221111234578889999888766642 1 110 0
Q ss_pred eEEEecCCCccccCCCeEEEEChHHHHHH-----HhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 242 SVICYPSFSSAQHFDSKVIYMTDHCLLQH-----FMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 242 ~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~-----L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
.|-..|+.. ...+......++|||||+= |++...+..+++.+. ..+.|+|+
T Consensus 908 --------------------~TIasfL~~~~~~~~~~~~~~~~~~llIVDEAS--MV~~~~m~~ll~~~~--~~garvVL 963 (1623)
T PRK14712 908 --------------------QTLASFLHDTQLQQRSGETPDFSNTLFLLDESS--MVGNTDMARAYALIA--AGGGRAVA 963 (1623)
T ss_pred --------------------hhHHHHhccccchhhcccCCCCCCcEEEEEccc--cccHHHHHHHHHhhh--hCCCEEEE
Confidence 011111110 0011122345899999997 787766666665543 23567887
Q ss_pred eccC
Q 000854 317 MSAT 320 (1252)
Q Consensus 317 mSAT 320 (1252)
+-=+
T Consensus 964 VGD~ 967 (1623)
T PRK14712 964 SGDT 967 (1623)
T ss_pred Ecch
Confidence 7655
No 286
>TIGR00763 lon ATP-dependent protease La. This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.
Probab=93.25 E-value=0.39 Score=63.00 Aligned_cols=20 Identities=35% Similarity=0.537 Sum_probs=15.7
Q ss_pred CCeEEEEcCCCChhhHHHHH
Q 000854 181 EQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq 200 (1252)
+..+++.||+|+|||+.+-.
T Consensus 347 ~~~lll~GppG~GKT~lAk~ 366 (775)
T TIGR00763 347 GPILCLVGPPGVGKTSLGKS 366 (775)
T ss_pred CceEEEECCCCCCHHHHHHH
Confidence 35688899999999976543
No 287
>PRK09183 transposase/IS protein; Provisional
Probab=93.19 E-value=0.61 Score=53.06 Aligned_cols=38 Identities=24% Similarity=0.376 Sum_probs=24.4
Q ss_pred HhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 178 IYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+..+.++++.||+|+|||+.+..+.... ...+..+.++
T Consensus 99 i~~~~~v~l~Gp~GtGKThLa~al~~~a-~~~G~~v~~~ 136 (259)
T PRK09183 99 IERNENIVLLGPSGVGKTHLAIALGYEA-VRAGIKVRFT 136 (259)
T ss_pred hhcCCeEEEEeCCCCCHHHHHHHHHHHH-HHcCCeEEEE
Confidence 4567788889999999998655443222 1234466654
No 288
>PRK08084 DNA replication initiation factor; Provisional
Probab=93.09 E-value=0.56 Score=52.53 Aligned_cols=22 Identities=23% Similarity=0.271 Sum_probs=16.5
Q ss_pred CCeEEEEcCCCChhhHHHHHHH
Q 000854 181 EQILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~L 202 (1252)
...+++.||+|+|||+.+-.+.
T Consensus 45 ~~~l~l~Gp~G~GKThLl~a~~ 66 (235)
T PRK08084 45 SGYIYLWSREGAGRSHLLHAAC 66 (235)
T ss_pred CCeEEEECCCCCCHHHHHHHHH
Confidence 3578889999999997544333
No 289
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=93.08 E-value=0.26 Score=62.30 Aligned_cols=50 Identities=26% Similarity=0.301 Sum_probs=33.0
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+...+...+...+++++||||+| ++..+-...+++.+..-++...+|+.+
T Consensus 107 l~~~~~~~p~~~~~KVvIIdev~--~Lt~~a~naLLk~LEepp~~~~fIl~t 156 (576)
T PRK14965 107 LRENVKYLPSRSRYKIFIIDEVH--MLSTNAFNALLKTLEEPPPHVKFIFAT 156 (576)
T ss_pred HHHHHHhccccCCceEEEEEChh--hCCHHHHHHHHHHHHcCCCCeEEEEEe
Confidence 34444445677889999999999 455556667777766544455555433
No 290
>TIGR01547 phage_term_2 phage terminase, large subunit, PBSX family. This model detects members of a highly divergent family of the large subunit of phage terminase. All members are encoded by phage genomes or within prophage regions of bacterial genomes. This is a distinct family from pfam03354.
Probab=93.06 E-value=0.43 Score=57.45 Aligned_cols=134 Identities=14% Similarity=0.077 Sum_probs=71.9
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccc--cCCeEEecCcHHH-HHHHHHHHHHHHhcCCCCCceEEEecCC-Cccc-cCC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIA--AEQSIVCTQPRKI-AAISLAQRVREESRGCYEDDSVICYPSF-SSAQ-HFD 256 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~--~~~~ILv~qPrR~-LA~qva~rv~~~~~~~~~~~~vg~~~~~-~~~~-~~~ 256 (1252)
+..++.|..|||||..+...++..... .+.+++|+-|+.- +...+...+................... .-.. ..+
T Consensus 2 ~~~i~~GgrgSGKS~~~~~~~~~~~~~~~~~~~~~~~r~~~~sl~~sv~~~l~~~i~~~g~~~~~~~~~~~~~i~~~~~g 81 (396)
T TIGR01547 2 EEIIAKGGRRSGKTFAIALKLVEKLAINKKQQNILAARKVQNSIRDSVFKDIENLLSIEGINYEFKKSKSSMEIKILNTG 81 (396)
T ss_pred ceEEEeCCCCcccHHHHHHHHHHHHHhcCCCcEEEEEehhhhHHHHHHHHHHHHHHHHcCChhheeecCCccEEEecCCC
Confidence 456778999999998755555443333 5678999888877 6666777776654322111111100000 0001 113
Q ss_pred CeEEEECh-HHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 257 SKVIYMTD-HCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 257 t~Iiv~Tp-g~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
..|+|..- +.--+ + .....+..+.+|||.+ +..+....++..+.. ......+++|.|++
T Consensus 82 ~~i~f~g~~d~~~~-i---k~~~~~~~~~idEa~~--~~~~~~~~l~~rlr~-~~~~~~i~~t~NP~ 141 (396)
T TIGR01547 82 KKFIFKGLNDKPNK-L---KSGAGIAIIWFEEASQ--LTFEDIKELIPRLRE-TGGKKFIIFSSNPE 141 (396)
T ss_pred eEEEeecccCChhH-h---hCcceeeeehhhhhhh--cCHHHHHHHHHHhhc-cCCccEEEEEcCcC
Confidence 45555432 11100 1 1334479999999995 344555666555422 12222478888865
No 291
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=93.03 E-value=0.2 Score=58.09 Aligned_cols=50 Identities=24% Similarity=0.299 Sum_probs=32.5
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+.+.....+......+||||||| .+..+-...+++.+.....+.++++.+
T Consensus 97 ~~~~~~~~~~~~~~kviiidead--~mt~~A~nallk~lEep~~~~~~il~~ 146 (325)
T COG0470 97 LAEFLSESPLEGGYKVVIIDEAD--KLTEDAANALLKTLEEPPKNTRFILIT 146 (325)
T ss_pred HHHHhccCCCCCCceEEEeCcHH--HHhHHHHHHHHHHhccCCCCeEEEEEc
Confidence 33333334445789999999999 455566777777666555556655544
No 292
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=93.00 E-value=0.58 Score=53.15 Aligned_cols=53 Identities=19% Similarity=0.223 Sum_probs=33.3
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
..+.+++|.|+||+|||+.+.+++.......+..++++. .-....+++.++..
T Consensus 28 ~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS-~E~~~~~~~~r~~~ 80 (271)
T cd01122 28 RKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS-LEEPVVRTARRLLG 80 (271)
T ss_pred cCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE-cccCHHHHHHHHHH
Confidence 456789999999999999888877664333245666542 22223444455433
No 293
>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis. The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.
Probab=92.97 E-value=0.32 Score=51.74 Aligned_cols=53 Identities=13% Similarity=0.023 Sum_probs=31.5
Q ss_pred ChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 263 TDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 263 Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
+.|...+.......+.+-+++++||.- ..+|......+...+.....+.-+|+
T Consensus 100 S~G~~qrv~laral~~~p~~lllDEP~-~~LD~~~~~~l~~~l~~~~~~~tii~ 152 (178)
T cd03247 100 SGGERQRLALARILLQDAPIVLLDEPT-VGLDPITERQLLSLIFEVLKDKTLIW 152 (178)
T ss_pred CHHHHHHHHHHHHHhcCCCEEEEECCc-ccCCHHHHHHHHHHHHHHcCCCEEEE
Confidence 344433333333345666899999998 78887776666666655433433333
No 294
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=92.97 E-value=0.46 Score=58.19 Aligned_cols=37 Identities=16% Similarity=0.172 Sum_probs=21.2
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecCc
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQP 218 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~qP 218 (1252)
+-+++.||+|+|||..+-.+..+.. ...+.+++++..
T Consensus 131 n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~ 168 (440)
T PRK14088 131 NPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS 168 (440)
T ss_pred CeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH
Confidence 3577799999999975432222111 112346777643
No 295
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=92.90 E-value=1.6 Score=53.27 Aligned_cols=122 Identities=19% Similarity=0.208 Sum_probs=60.1
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEE--ecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIV--CTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~IL--v~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
...+++++|+||+||||.+........ ..+.+++ ..=+.|..|......+++..+ ..+ +.... .
T Consensus 94 ~p~vI~lvG~~GsGKTTtaakLA~~L~-~~g~kV~lV~~D~~R~aa~eQL~~la~~~g-----vp~--~~~~~-----~- 159 (437)
T PRK00771 94 KPQTIMLVGLQGSGKTTTAAKLARYFK-KKGLKVGLVAADTYRPAAYDQLKQLAEKIG-----VPF--YGDPD-----N- 159 (437)
T ss_pred CCeEEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEEecCCCCCHHHHHHHHHHHHHcC-----CcE--EecCC-----c-
Confidence 346788899999999987544432211 1223333 333445555443334433321 001 00000 0
Q ss_pred eEEEEChH-HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 258 KVIYMTDH-CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 258 ~Iiv~Tpg-~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
..|. .+.+.+.. +...++||||.+-....+.+.+..+........++.-++.++||..
T Consensus 160 ----~d~~~i~~~al~~---~~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~g 218 (437)
T PRK00771 160 ----KDAVEIAKEGLEK---FKKADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIG 218 (437)
T ss_pred ----cCHHHHHHHHHHH---hhcCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEecccc
Confidence 0122 22233322 2234899999996223344444444443333456777888888864
No 296
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=92.89 E-value=0.3 Score=56.27 Aligned_cols=86 Identities=21% Similarity=0.298 Sum_probs=47.0
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccc-cCCe--EEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIA-AEQS--IVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFD 256 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~-~~~~--ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~ 256 (1252)
...++++.||||+||||.+..+....... .+.+ ++-+=|.|..+......+.+..+ . .+
T Consensus 193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~-~----p~------------- 254 (282)
T TIGR03499 193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILG-V----PV------------- 254 (282)
T ss_pred CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhC-C----ce-------------
Confidence 45688889999999999765554433221 1123 34445556655444444444321 1 00
Q ss_pred CeEEEEChHHHHHHHhcCCCCCceeEEEEccc
Q 000854 257 SKVIYMTDHCLLQHFMNDRDLSRISCIIVDEA 288 (1252)
Q Consensus 257 t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEa 288 (1252)
....++.-+.+.+. .+.++++|+||.+
T Consensus 255 --~~~~~~~~l~~~l~---~~~~~d~vliDt~ 281 (282)
T TIGR03499 255 --KVARDPKELRKALD---RLRDKDLILIDTA 281 (282)
T ss_pred --eccCCHHHHHHHHH---HccCCCEEEEeCC
Confidence 01124555554443 2356799999975
No 297
>COG2805 PilT Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=92.83 E-value=0.16 Score=57.94 Aligned_cols=36 Identities=25% Similarity=0.402 Sum_probs=24.1
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEe
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVC 215 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv 215 (1252)
.+..++|+|||||||||.+...+-.-.......|+-
T Consensus 124 ~~GLILVTGpTGSGKSTTlAamId~iN~~~~~HIlT 159 (353)
T COG2805 124 PRGLILVTGPTGSGKSTTLAAMIDYINKHKAKHILT 159 (353)
T ss_pred CCceEEEeCCCCCcHHHHHHHHHHHHhccCCcceEE
Confidence 457899999999999998766554332223334443
No 298
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=92.83 E-value=0.35 Score=41.93 Aligned_cols=62 Identities=26% Similarity=0.361 Sum_probs=48.7
Q ss_pred CChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccc-cccCCeeecCceeeee
Q 000854 937 LDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKA-TELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 937 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1002 (1252)
+++.++..+++.. |-|.+++....... .....|.|+|.+++.|..| ..++|..|.|..++|.
T Consensus 11 ~~~~~i~~~~~~~--g~i~~~~~~~~~~~--~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~ 73 (74)
T cd00590 11 VTEEDLRELFSKF--GKVESVRIVRDKDT--KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE 73 (74)
T ss_pred cCHHHHHHHHHhc--CCEEEEEEeeCCCC--CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence 7889999999886 76888754432222 3356899999999999999 6789999999988875
No 299
>PRK13833 conjugal transfer protein TrbB; Provisional
Probab=92.81 E-value=0.17 Score=59.34 Aligned_cols=54 Identities=22% Similarity=0.146 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc--cccCCeEEecCcHHHH
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG--IAAEQSIVCTQPRKIA 222 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~--~~~~~~ILv~qPrR~L 222 (1252)
..|.+.+..++..+.+++|+|+|||||||.+-. |+... .....+++.+..+.|+
T Consensus 131 ~~~~~~L~~~v~~~~nilI~G~tGSGKTTll~a-L~~~i~~~~~~~rivtiEd~~El 186 (323)
T PRK13833 131 EAQASVIRSAIDSRLNIVISGGTGSGKTTLANA-VIAEIVASAPEDRLVILEDTAEI 186 (323)
T ss_pred HHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHH-HHHHHhcCCCCceEEEecCCccc
Confidence 356667788888889999999999999997643 33321 1234578888877775
No 300
>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]
Probab=92.75 E-value=0.33 Score=55.62 Aligned_cols=41 Identities=22% Similarity=0.288 Sum_probs=28.6
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
....+.+||+|||| ++..|-..++.+.+.......+.++..
T Consensus 126 ~~~~fKiiIlDEcd--smtsdaq~aLrr~mE~~s~~trFiLIc 166 (346)
T KOG0989|consen 126 PCPPFKIIILDECD--SMTSDAQAALRRTMEDFSRTTRFILIC 166 (346)
T ss_pred CCCcceEEEEechh--hhhHHHHHHHHHHHhccccceEEEEEc
Confidence 56678999999999 566666666666665544455666543
No 301
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=92.71 E-value=0.29 Score=50.76 Aligned_cols=76 Identities=22% Similarity=0.288 Sum_probs=55.4
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeeec
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1003 (1252)
.+|.|.+.+. .+++.+|..++++. |.|.++. .-.........-.|.|+|.+++.|.+|+ ++||.++.|..|+|..
T Consensus 35 ~~lfVgnL~~-~~te~~L~~~F~~~--G~I~~v~-i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 35 TKLFIGGLSW-GTDDASLRDAFAHF--GDVVDAK-VIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred CEEEEeCCCC-CCCHHHHHHHHhcC--CCeEEEE-EEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 4677777554 46899999999775 6676663 2111111123358999999999999997 5999999999999975
Q ss_pred c
Q 000854 1004 S 1004 (1252)
Q Consensus 1004 ~ 1004 (1252)
.
T Consensus 111 a 111 (144)
T PLN03134 111 A 111 (144)
T ss_pred C
Confidence 4
No 302
>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]. These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....
Probab=92.70 E-value=0.11 Score=58.98 Aligned_cols=48 Identities=23% Similarity=0.324 Sum_probs=32.3
Q ss_pred HHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHH
Q 000854 173 DILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKI 221 (1252)
Q Consensus 173 ~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~ 221 (1252)
.+...++.+.+++|+|+|||||||.+-.++... .....+++++..+.|
T Consensus 119 ~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i-~~~~~~iv~iEd~~E 166 (270)
T PF00437_consen 119 FLRSAVRGRGNILISGPTGSGKTTLLNALLEEI-PPEDERIVTIEDPPE 166 (270)
T ss_dssp HHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHC-HTTTSEEEEEESSS-
T ss_pred HHhhccccceEEEEECCCccccchHHHHHhhhc-cccccceEEeccccc
Confidence 344455678899999999999999875554332 122367887766554
No 303
>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=92.68 E-value=0.44 Score=67.95 Aligned_cols=123 Identities=19% Similarity=0.159 Sum_probs=74.4
Q ss_pred ChHHHHHHHHHHHhc-CCeEEEEcCCCChhhHHHH---HHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 166 PIYMYRQDILRRIYG-EQILVLIGETGCGKSTQLV---QFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 166 P~~~qq~~I~~al~~-~~vvII~apTGSGKTtqip---q~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
-+..|++++-.++.+ +.+++|+|..|+||||.+- ..+.+.....+..|+.+.||-.+|..+.+ . +.. ..
T Consensus 1020 Lt~~Q~~Ai~~il~~~~~~~~i~G~AGtGKTt~l~~~~~~i~~~~~~~g~~v~glApT~~Aa~~L~~----~--g~~-a~ 1092 (1960)
T TIGR02760 1020 LTHGQKQAIHLIISTKDRFVAVQGLAGVGKTTMLESRYKPVLQAFESEQLQVIGLAPTHEAVGELKS----A--GVQ-AQ 1092 (1960)
T ss_pred CCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHhHHHHHHHHHHHHHhcCCeEEEEeChHHHHHHHHh----c--CCc-hH
Confidence 366788888777765 4688889999999999762 23333222235678889999888776642 1 110 00
Q ss_pred eEEEecCCCccccCCCeEEEEChHHHHHH---HhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 242 SVICYPSFSSAQHFDSKVIYMTDHCLLQH---FMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 242 ~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~---L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
|-..++.. ....+.+...+++||||+= |+++..+..+++.+. ..+.|+|++-
T Consensus 1093 ---------------------Ti~s~l~~~~~~~~~~~~~~~~v~ivDEas--Mv~~~~~~~l~~~~~--~~~ak~vlvG 1147 (1960)
T TIGR02760 1093 ---------------------TLDSFLTDISLYRNSGGDFRNTLFILDESS--MVSNFQLTHATELVQ--KSGSRAVSLG 1147 (1960)
T ss_pred ---------------------hHHHHhcCcccccccCCCCcccEEEEEccc--cccHHHHHHHHHhcc--CCCCEEEEeC
Confidence 11111110 0111224456899999997 788777766666543 3446666664
Q ss_pred cC
Q 000854 319 AT 320 (1252)
Q Consensus 319 AT 320 (1252)
=+
T Consensus 1148 D~ 1149 (1960)
T TIGR02760 1148 DI 1149 (1960)
T ss_pred Ch
Confidence 33
No 304
>CHL00181 cbbX CbbX; Provisional
Probab=92.65 E-value=0.55 Score=54.29 Aligned_cols=18 Identities=28% Similarity=0.470 Sum_probs=14.3
Q ss_pred CeEEEEcCCCChhhHHHH
Q 000854 182 QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqip 199 (1252)
..+++.||+|+|||+.+-
T Consensus 60 ~~ill~G~pGtGKT~lAr 77 (287)
T CHL00181 60 LHMSFTGSPGTGKTTVAL 77 (287)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 457778999999998643
No 305
>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=92.64 E-value=0.63 Score=56.30 Aligned_cols=35 Identities=20% Similarity=0.338 Sum_probs=20.9
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEecC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVCTQ 217 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv~q 217 (1252)
+.+++.||+|+|||..+- .+..... ..+..++++.
T Consensus 137 n~l~l~G~~G~GKThL~~-ai~~~l~~~~~~~~v~yi~ 173 (405)
T TIGR00362 137 NPLFIYGGVGLGKTHLLH-AIGNEILENNPNAKVVYVS 173 (405)
T ss_pred CeEEEECCCCCcHHHHHH-HHHHHHHHhCCCCcEEEEE
Confidence 456779999999997543 2322211 1234666654
No 306
>PTZ00293 thymidine kinase; Provisional
Probab=92.63 E-value=0.53 Score=51.81 Aligned_cols=39 Identities=26% Similarity=0.313 Sum_probs=28.8
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
.+...++.||-+||||+.+++.+.... ..+.+++++-|.
T Consensus 3 ~G~i~vi~GpMfSGKTteLLr~i~~y~-~ag~kv~~~kp~ 41 (211)
T PTZ00293 3 RGTISVIIGPMFSGKTTELMRLVKRFT-YSEKKCVVIKYS 41 (211)
T ss_pred ceEEEEEECCCCChHHHHHHHHHHHHH-HcCCceEEEEec
Confidence 345677899999999998888776543 335677777776
No 307
>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.
Probab=92.58 E-value=0.64 Score=47.95 Aligned_cols=93 Identities=18% Similarity=0.194 Sum_probs=52.9
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..++.+.|.|+.||||||.+- .+........+.|.+-- + ..+++...
T Consensus 24 ~~Ge~~~i~G~nGsGKStLl~-~l~G~~~~~~G~i~~~~--~--------------------~~i~~~~~---------- 70 (144)
T cd03221 24 NPGDRIGLVGRNGAGKSTLLK-LIAGELEPDEGIVTWGS--T--------------------VKIGYFEQ---------- 70 (144)
T ss_pred CCCCEEEEECCCCCCHHHHHH-HHcCCCCCCceEEEECC--e--------------------EEEEEEcc----------
Confidence 467788889999999998543 33222112233443311 0 12332211
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
.+.|...+.......+.+-+++++||.- ..+|.+....+...+...
T Consensus 71 ---lS~G~~~rv~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~ 116 (144)
T cd03221 71 ---LSGGEKMRLALAKLLLENPNLLLLDEPT-NHLDLESIEALEEALKEY 116 (144)
T ss_pred ---CCHHHHHHHHHHHHHhcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHc
Confidence 4556544333333345566899999998 788887766666665544
No 308
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=92.52 E-value=0.7 Score=64.60 Aligned_cols=123 Identities=15% Similarity=0.093 Sum_probs=73.9
Q ss_pred ChHHHHHHHHHHHhc-CCeEEEEcCCCChhhHHHHHHH--Hhc-ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCc
Q 000854 166 PIYMYRQDILRRIYG-EQILVLIGETGCGKSTQLVQFL--ADS-GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDD 241 (1252)
Q Consensus 166 P~~~qq~~I~~al~~-~~vvII~apTGSGKTtqipq~L--le~-~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~ 241 (1252)
....|++++-.++.+ +.+++|+|..|+||||.+-..+ ++. ....+..|+.+.||--+|..+.+ . +..
T Consensus 968 Lt~~Q~~Av~~il~s~dr~~~I~G~AGTGKTT~l~~v~~~~~~l~~~~~~~V~glAPTgrAAk~L~e----~--Gi~--- 1038 (1747)
T PRK13709 968 LTSGQRAATRMILESTDRFTVVQGYAGVGKTTQFRAVMSAVNTLPESERPRVVGLGPTHRAVGEMRS----A--GVD--- 1038 (1747)
T ss_pred CCHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhhcccCceEEEECCcHHHHHHHHh----c--Ccc---
Confidence 356788888888876 4799999999999999743322 221 11224578889999887765532 1 110
Q ss_pred eEEEecCCCccccCCCeEEEEChHHHHHHH----hc-CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 242 SVICYPSFSSAQHFDSKVIYMTDHCLLQHF----MN-DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 242 ~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L----~~-~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
-.|-..++... .+ ......-++|||||+= |++...+..+++.+. ..+.|+|+
T Consensus 1039 -------------------A~TI~s~L~~~~~~~~~~~~~~~~~~llIVDEaS--Mv~~~~m~~Ll~~~~--~~garvVL 1095 (1747)
T PRK13709 1039 -------------------AQTLASFLHDTQLQQRSGETPDFSNTLFLLDESS--MVGNTDMARAYALIA--AGGGRAVS 1095 (1747)
T ss_pred -------------------hhhHHHHhcccccccccccCCCCCCcEEEEEccc--cccHHHHHHHHHhhh--cCCCEEEE
Confidence 01222222110 00 1112234899999997 788777777776653 23567777
Q ss_pred eccC
Q 000854 317 MSAT 320 (1252)
Q Consensus 317 mSAT 320 (1252)
+-=+
T Consensus 1096 VGD~ 1099 (1747)
T PRK13709 1096 SGDT 1099 (1747)
T ss_pred ecch
Confidence 7655
No 309
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.47 E-value=0.35 Score=61.07 Aligned_cols=51 Identities=25% Similarity=0.266 Sum_probs=29.1
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
|...+...+...+..+|||||+| .+..+....+++.+..-.+.. ++++.+|
T Consensus 107 L~~~~~~~p~~g~~kVIIIDEad--~Lt~~a~naLLk~LEEP~~~~-ifILaTt 157 (624)
T PRK14959 107 LKEAIGYAPMEGRYKVFIIDEAH--MLTREAFNALLKTLEEPPARV-TFVLATT 157 (624)
T ss_pred HHHHHHhhhhcCCceEEEEEChH--hCCHHHHHHHHHHhhccCCCE-EEEEecC
Confidence 33334334456778999999999 344555566666654432333 3334444
No 310
>smart00361 RRM_1 RNA recognition motif.
Probab=92.41 E-value=0.23 Score=44.76 Aligned_cols=63 Identities=22% Similarity=0.342 Sum_probs=44.3
Q ss_pred hHHHHHHHhh--ccCcceeeeeecccCCCC--ccccceEEEEecCchhhccc-cccCCeeecCceeee
Q 000854 939 DKELLMFLEK--NASGSICSIHKFAVGQDS--DEKDKWGRVTFLTPDTAGKA-TELNGVEYNGSLLKV 1001 (1252)
Q Consensus 939 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1001 (1252)
+.+|..++++ ..-|.|-+++|.-..++. ....-+|.|+|-+++.|.+| -.|||..|.|..|++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 4556666651 133778888755333322 23345799999999999999 459999999998875
No 311
>PLN03121 nucleic acid binding protein; Provisional
Probab=92.41 E-value=0.32 Score=54.04 Aligned_cols=75 Identities=17% Similarity=0.111 Sum_probs=58.8
Q ss_pred eeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccccccCCeeecCceeeeec
Q 000854 924 FLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKATELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 924 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1003 (1252)
-.||.|.+.. ...++++|-.|++ -.|-|-+++- ..| .+..+.|.|||-+|+.|.+|..|||.++.|..+.|.|
T Consensus 5 g~TV~V~NLS-~~tTE~dLrefFS--~~G~I~~V~I---~~D-~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~ 77 (243)
T PLN03121 5 GYTAEVTNLS-PKATEKDVYDFFS--HCGAIEHVEI---IRS-GEYACTAYVTFKDAYALETAVLLSGATIVDQRVCITR 77 (243)
T ss_pred ceEEEEecCC-CCCCHHHHHHHHH--hcCCeEEEEE---ecC-CCcceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEe
Confidence 3567776643 4578899999994 4899999962 222 2334689999999999999999999999999999886
Q ss_pred cc
Q 000854 1004 SR 1005 (1252)
Q Consensus 1004 ~~ 1005 (1252)
..
T Consensus 78 ~~ 79 (243)
T PLN03121 78 WG 79 (243)
T ss_pred Cc
Confidence 43
No 312
>PRK08451 DNA polymerase III subunits gamma and tau; Validated
Probab=92.36 E-value=0.38 Score=59.92 Aligned_cols=43 Identities=23% Similarity=0.391 Sum_probs=31.1
Q ss_pred CCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 274 DRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 274 ~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
.+..+++.++|||||| .+..+....+++.+..-++...+|+.+
T Consensus 112 ~P~~~~~KVvIIDEad--~Lt~~A~NALLK~LEEpp~~t~FIL~t 154 (535)
T PRK08451 112 KPSMARFKIFIIDEVH--MLTKEAFNALLKTLEEPPSYVKFILAT 154 (535)
T ss_pred CcccCCeEEEEEECcc--cCCHHHHHHHHHHHhhcCCceEEEEEE
Confidence 4567889999999999 455666777777776655556666544
No 313
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.35 E-value=0.33 Score=60.74 Aligned_cols=50 Identities=22% Similarity=0.316 Sum_probs=32.8
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
++..+...+..++++++||||+| .+..+-...+++.+..-++...+|+.|
T Consensus 107 l~~~~~~~p~~~~~kVvIIDEad--~ls~~a~naLLK~LEepp~~~~fIL~t 156 (527)
T PRK14969 107 LLDNAQYAPTRGRFKVYIIDEVH--MLSKSAFNAMLKTLEEPPEHVKFILAT 156 (527)
T ss_pred HHHHHhhCcccCCceEEEEcCcc--cCCHHHHHHHHHHHhCCCCCEEEEEEe
Confidence 33444445567789999999999 344455566777776655556666644
No 314
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=92.33 E-value=0.35 Score=60.93 Aligned_cols=39 Identities=26% Similarity=0.287 Sum_probs=26.8
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC 307 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~ 307 (1252)
+...+...+...++.++||||+| ++..+-...+++.+..
T Consensus 107 i~~~v~~~p~~~~~kViIIDE~~--~Lt~~a~naLLKtLEe 145 (559)
T PRK05563 107 IRDKVKYAPSEAKYKVYIIDEVH--MLSTGAFNALLKTLEE 145 (559)
T ss_pred HHHHHhhCcccCCeEEEEEECcc--cCCHHHHHHHHHHhcC
Confidence 34444445677889999999999 4455566677776544
No 315
>PRK13894 conjugal transfer ATPase TrbB; Provisional
Probab=92.32 E-value=0.21 Score=58.55 Aligned_cols=66 Identities=14% Similarity=0.180 Sum_probs=42.7
Q ss_pred HHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecCcHHHH
Q 000854 155 VRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQPRKIA 222 (1252)
Q Consensus 155 l~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~qPrR~L 222 (1252)
++.+.+.|. ....+.+.+..++..+.+++|+|+|||||||.+-..+.... .....+++++..+.++
T Consensus 124 l~~l~~~g~--~~~~~~~~L~~~v~~~~~ilI~G~tGSGKTTll~aL~~~~~~~~~~~rivtIEd~~El 190 (319)
T PRK13894 124 LDQYVERGI--MTAAQREAIIAAVRAHRNILVIGGTGSGKTTLVNAIINEMVIQDPTERVFIIEDTGEI 190 (319)
T ss_pred HHHHHhcCC--CCHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHhhhhcCCCceEEEEcCCCcc
Confidence 344444343 23456677777888999999999999999986543332211 2334578887777665
No 316
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=92.28 E-value=1.3 Score=55.96 Aligned_cols=149 Identities=15% Similarity=0.182 Sum_probs=89.4
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHh-cccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecC
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLAD-SGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPS 248 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle-~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~ 248 (1252)
.-+++++..+++-.++ ..|==.|||+.+...+.- ...-.+.+|++++|.+-.+..+.+++.........+..+... .
T Consensus 244 ~s~~~~~~fkqk~tVf-lVPRR~GKTwivv~iI~~ll~s~~Gi~IgytAH~~~ts~~vF~eI~~~le~~f~~~~v~~v-k 321 (738)
T PHA03368 244 FSDAAVRHFRQRATVF-LVPRRHGKTWFLVPLIALALATFRGIKIGYTAHIRKATEPVFEEIGARLRQWFGASRVDHV-K 321 (738)
T ss_pred ccHHHHHHhhccceEE-EecccCCchhhHHHHHHHHHHhCCCCEEEEEcCcHHHHHHHHHHHHHHHhhhcchhheeee-c
Confidence 4556666666665555 579999999865422221 111246789999999999999999998865322111111110 0
Q ss_pred CCcc-----ccCCCeEEEEChHHHHHHHhcCC--CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 249 FSSA-----QHFDSKVIYMTDHCLLQHFMNDR--DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 249 ~~~~-----~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
.+.. ...+..|.|.+. .++. .=..++++|||||+. +..+.+..++-.+... +.++|.+|.|-
T Consensus 322 Ge~I~i~f~nG~kstI~FaSa-------rntNsiRGqtfDLLIVDEAqF--Ik~~al~~ilp~l~~~--n~k~I~ISS~N 390 (738)
T PHA03368 322 GETISFSFPDGSRSTIVFASS-------HNTNGIRGQDFNLLFVDEANF--IRPDAVQTIMGFLNQT--NCKIIFVSSTN 390 (738)
T ss_pred CcEEEEEecCCCccEEEEEec-------cCCCCccCCcccEEEEechhh--CCHHHHHHHHHHHhcc--CccEEEEecCC
Confidence 1100 011135666532 1111 233789999999994 6667777777444333 88999999996
Q ss_pred CHHHHHhhhh
Q 000854 322 DAHQLSKYFY 331 (1252)
Q Consensus 322 d~~~l~~~f~ 331 (1252)
+.+.-..|+.
T Consensus 391 s~~~sTSFL~ 400 (738)
T PHA03368 391 TGKASTSFLY 400 (738)
T ss_pred CCccchHHHH
Confidence 6555444543
No 317
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=92.26 E-value=0.57 Score=57.80 Aligned_cols=34 Identities=24% Similarity=0.181 Sum_probs=21.4
Q ss_pred hcCCCCCceeEEEEccccccccchhhHHHHHHHHHh
Q 000854 272 MNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC 307 (1252)
Q Consensus 272 ~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~ 307 (1252)
...+..++..+|||||+| ++ ..+....+++.+..
T Consensus 110 ~~~p~~~~~kVvIIDE~h-~L-t~~a~~~LLk~LE~ 143 (472)
T PRK14962 110 GYRPMEGKYKVYIIDEVH-ML-TKEAFNALLKTLEE 143 (472)
T ss_pred hhChhcCCeEEEEEEChH-Hh-HHHHHHHHHHHHHh
Confidence 334466788999999999 33 33444455555443
No 318
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=92.16 E-value=0.29 Score=64.52 Aligned_cols=110 Identities=17% Similarity=0.295 Sum_probs=88.3
Q ss_pred cEEEEeCCHHHHHHHHHHcCCCCCeeEeecCCCCHHhhhhhcccC-C--CceEEEEechhhhhcCCCCCeeEEEEcCCCc
Q 000854 382 TILAFLTSKMEVEWACEKFDAPSAVALPFHGQLSFDEQFCVFKSY-P--GRRKVIFATNVAETSLTIPGVKFVIDSGMVK 458 (1252)
Q Consensus 382 ~iLVFl~s~~eie~la~~L~~~~~~v~~LHg~Ls~~eR~~v~~~f-~--G~~kVLVATniae~GIDIP~V~~VId~g~pk 458 (1252)
++|||.+-.....-+...+...++....++|+++.++|...++.| . +..-.+++|-+++.|+|.-..+.||.++.
T Consensus 713 kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~~~~~v~lls~kagg~glnLt~a~~vi~~d~-- 790 (866)
T COG0553 713 KVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNADEEEKVFLLSLKAGGLGLNLTGADTVILFDP-- 790 (866)
T ss_pred cEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcCCCCceEEEEecccccceeecccceEEEecc--
Confidence 799999999999989888888888899999999999999999999 4 35677888889999999999999998865
Q ss_pred cccccCCCCcccceecccCHhhHHHHhcccCCCCCCeEEEecChhhhc
Q 000854 459 ESYFEPGTGMNVLRVCRVSQSSANQRAGRAGRTEPGRCYRLYSKSDFE 506 (1252)
Q Consensus 459 ~~~ydp~~~~~~L~~~~iSkasy~QR~GRAGR~~~G~c~~Lyt~~d~~ 506 (1252)
.+||. -..++..|+-|.|+.++=..|++.++...+
T Consensus 791 --~wnp~-----------~~~Qa~dRa~RigQ~~~v~v~r~i~~~tiE 825 (866)
T COG0553 791 --WWNPA-----------VELQAIDRAHRIGQKRPVKVYRLITRGTIE 825 (866)
T ss_pred --ccChH-----------HHHHHHHHHHHhcCcceeEEEEeecCCcHH
Confidence 23221 124455556666666678889998887643
No 319
>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]
Probab=92.15 E-value=1.2 Score=50.57 Aligned_cols=54 Identities=19% Similarity=0.165 Sum_probs=31.8
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHH
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLA 227 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva 227 (1252)
..+...+.++..+++.|++|+|||..+..+..+.. ..+..|++ .++.++..++.
T Consensus 96 ~~~~~~~~~~~nl~l~G~~G~GKThLa~Ai~~~l~-~~g~sv~f-~~~~el~~~Lk 149 (254)
T COG1484 96 ASLVEFFERGENLVLLGPPGVGKTHLAIAIGNELL-KAGISVLF-ITAPDLLSKLK 149 (254)
T ss_pred HHHHHHhccCCcEEEECCCCCcHHHHHHHHHHHHH-HcCCeEEE-EEHHHHHHHHH
Confidence 34444455777888899999999975544443332 22344544 35555554444
No 320
>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]
Probab=92.13 E-value=2.7 Score=53.09 Aligned_cols=127 Identities=20% Similarity=0.193 Sum_probs=69.4
Q ss_pred CChHHHHHHHHHHHh--------cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 165 LPIYMYRQDILRRIY--------GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 165 lP~~~qq~~I~~al~--------~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
.-...-++.|++.+. ++.++.++||+|-|||... .++|+.+.+++-
T Consensus 414 Ygm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~-------------------------kSIA~ALnRkFf- 467 (906)
T KOG2004|consen 414 YGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIA-------------------------KSIARALNRKFF- 467 (906)
T ss_pred cchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHH-------------------------HHHHHHhCCceE-
Confidence 344556777777664 4578888999999999532 223333332221
Q ss_pred CCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccc--cccchhhHHHHHHHHHh-------
Q 000854 237 CYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHE--RSLNTDLLLALVKDLLC------- 307 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHE--R~l~~d~ll~llk~l~~------- 307 (1252)
-.++|+...........---+=+-||++.+.|.+-..-+ -++.|||+|. ++...|-.-+++..+-.
T Consensus 468 ---RfSvGG~tDvAeIkGHRRTYVGAMPGkiIq~LK~v~t~N--PliLiDEvDKlG~g~qGDPasALLElLDPEQNanFl 542 (906)
T KOG2004|consen 468 ---RFSVGGMTDVAEIKGHRRTYVGAMPGKIIQCLKKVKTEN--PLILIDEVDKLGSGHQGDPASALLELLDPEQNANFL 542 (906)
T ss_pred ---EEeccccccHHhhcccceeeeccCChHHHHHHHhhCCCC--ceEEeehhhhhCCCCCCChHHHHHHhcChhhccchh
Confidence 112332111111111111234467999999997654221 4799999995 44455555555544321
Q ss_pred -----ccCCCcEEeeccCCC
Q 000854 308 -----RRFDLRLVIMSATAD 322 (1252)
Q Consensus 308 -----~~~~lqiIlmSATld 322 (1252)
.+-|+--|+|=||.|
T Consensus 543 DHYLdVp~DLSkVLFicTAN 562 (906)
T KOG2004|consen 543 DHYLDVPVDLSKVLFICTAN 562 (906)
T ss_pred hhccccccchhheEEEEecc
Confidence 123455667777754
No 321
>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=92.12 E-value=0.43 Score=51.97 Aligned_cols=32 Identities=25% Similarity=0.506 Sum_probs=22.2
Q ss_pred HHHHHHhc--CCeEEEEcCCCChhhHHHHHHHHh
Q 000854 173 DILRRIYG--EQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 173 ~I~~al~~--~~vvII~apTGSGKTtqipq~Lle 204 (1252)
.+...+.+ .+.++|.||.|+|||+.+-.++..
T Consensus 10 ~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~~~ 43 (234)
T PF01637_consen 10 KLKELLESGPSQHILLYGPRGSGKTSLLKEFINE 43 (234)
T ss_dssp HHHHCHHH--SSEEEEEESTTSSHHHHHHHHHHH
T ss_pred HHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHHHH
Confidence 34444444 478888999999999866555443
No 322
>PHA02533 17 large terminase protein; Provisional
Probab=92.09 E-value=1.7 Score=54.58 Aligned_cols=149 Identities=15% Similarity=0.090 Sum_probs=78.7
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHH-hcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLA-DSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSV 243 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Ll-e~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~v 243 (1252)
++....|..++..+..++..++..+=..|||+.+..+++ ......+..++++.|++.-|..+.++++............
T Consensus 58 f~L~p~Q~~i~~~~~~~R~~ii~~aRq~GKStl~a~~al~~a~~~~~~~v~i~A~~~~QA~~vF~~ik~~ie~~P~l~~~ 137 (534)
T PHA02533 58 VQMRDYQKDMLKIMHKNRFNACNLSRQLGKTTVVAIFLLHYVCFNKDKNVGILAHKASMAAEVLDRTKQAIELLPDFLQP 137 (534)
T ss_pred cCCcHHHHHHHHHHhcCeEEEEEEcCcCChHHHHHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHHHHhCHHHhhc
Confidence 334445666666665555666678999999987654333 2223445689999999999999888887644221110001
Q ss_pred EE--ecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-hhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 244 IC--YPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-TDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 244 g~--~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+. .....-....+..|.+.|.+- +.. .=.+.+++|+||+|. ..+ .++...+.-.+ ......++++.|..
T Consensus 138 ~i~~~~~~~I~l~NGS~I~~lss~~--~t~----rG~~~~~liiDE~a~-~~~~~e~~~ai~p~l-asg~~~r~iiiSTp 209 (534)
T PHA02533 138 GIVEWNKGSIELENGSKIGAYASSP--DAV----RGNSFAMIYIDECAF-IPNFIDFWLAIQPVI-SSGRSSKIIITSTP 209 (534)
T ss_pred ceeecCccEEEeCCCCEEEEEeCCC--Ccc----CCCCCceEEEecccc-CCCHHHHHHHHHHHH-HcCCCceEEEEECC
Confidence 10 000000012345565554321 001 122457899999994 222 13333332222 22233456666665
Q ss_pred C
Q 000854 321 A 321 (1252)
Q Consensus 321 l 321 (1252)
.
T Consensus 210 ~ 210 (534)
T PHA02533 210 N 210 (534)
T ss_pred C
Confidence 3
No 323
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=92.08 E-value=0.12 Score=57.14 Aligned_cols=21 Identities=43% Similarity=0.684 Sum_probs=16.7
Q ss_pred EEEEcCCCChhhHHHHHHHHh
Q 000854 184 LVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 184 vII~apTGSGKTtqipq~Lle 204 (1252)
++|.|+.|||||+.+...+.+
T Consensus 1 ~vv~G~pGsGKSt~i~~~~~~ 21 (234)
T PF01443_consen 1 IVVHGVPGSGKSTLIKKLLKD 21 (234)
T ss_pred CEEEcCCCCCHHHHHHHHHHh
Confidence 356899999999987766654
No 324
>COG4962 CpaF Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]
Probab=91.95 E-value=0.27 Score=57.37 Aligned_cols=57 Identities=16% Similarity=0.121 Sum_probs=42.2
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHH
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAA 223 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA 223 (1252)
.-...+...+..++....+++|+|.|||||||.+-.++..- ....+|+++.-|.||-
T Consensus 157 t~~~~~a~~L~~av~~r~NILisGGTGSGKTTlLNal~~~i--~~~eRvItiEDtaELq 213 (355)
T COG4962 157 TMIRRAAKFLRRAVGIRCNILISGGTGSGKTTLLNALSGFI--DSDERVITIEDTAELQ 213 (355)
T ss_pred CcCHHHHHHHHHHHhhceeEEEeCCCCCCHHHHHHHHHhcC--CCcccEEEEeehhhhc
Confidence 34455777778888888899999999999999765444332 3344999999987763
No 325
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=91.93 E-value=1 Score=54.38 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=32.9
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
+.+.+...+..++.+++||||+| ++ +......+++.+. .+++-.+++++||-
T Consensus 105 l~~~~~~~p~~~~~kViiIDead-~m-~~~aanaLLk~LE-ep~~~~~fIL~a~~ 156 (394)
T PRK07940 105 LVTIAARRPSTGRWRIVVIEDAD-RL-TERAANALLKAVE-EPPPRTVWLLCAPS 156 (394)
T ss_pred HHHHHHhCcccCCcEEEEEechh-hc-CHHHHHHHHHHhh-cCCCCCeEEEEECC
Confidence 34444445566788999999999 44 4444566666654 34445556666664
No 326
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=91.87 E-value=0.47 Score=59.77 Aligned_cols=50 Identities=22% Similarity=0.230 Sum_probs=29.6
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+.+.+...+...+.+++|||||| + +..+-...+++.+..-++...+|+++
T Consensus 107 Ii~~~~~~P~~~~~KVIIIDEad-~-Lt~~A~NaLLKtLEEPp~~tvfIL~T 156 (605)
T PRK05896 107 IIDNINYLPTTFKYKVYIIDEAH-M-LSTSAWNALLKTLEEPPKHVVFIFAT 156 (605)
T ss_pred HHHHHHhchhhCCcEEEEEechH-h-CCHHHHHHHHHHHHhCCCcEEEEEEC
Confidence 34444455566778999999999 3 44444555666554433344444433
No 327
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.86 E-value=0.48 Score=57.25 Aligned_cols=37 Identities=22% Similarity=0.230 Sum_probs=23.9
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHH
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLL 306 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~ 306 (1252)
...+...+...+..++||||+| ++ ...-...+++.+.
T Consensus 116 ~~~~~~~p~~~~~kvvIIdea~-~l-~~~~~~~LLk~LE 152 (397)
T PRK14955 116 RENVRYGPQKGRYRVYIIDEVH-ML-SIAAFNAFLKTLE 152 (397)
T ss_pred HHHHhhchhcCCeEEEEEeChh-hC-CHHHHHHHHHHHh
Confidence 4445555778899999999999 33 3333444555544
No 328
>PLN03025 replication factor C subunit; Provisional
Probab=91.78 E-value=1.2 Score=52.30 Aligned_cols=21 Identities=33% Similarity=0.600 Sum_probs=16.4
Q ss_pred CeEEEEcCCCChhhHHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~L 202 (1252)
..+++.||+|+|||+.+-.+.
T Consensus 35 ~~lll~Gp~G~GKTtla~~la 55 (319)
T PLN03025 35 PNLILSGPPGTGKTTSILALA 55 (319)
T ss_pred ceEEEECCCCCCHHHHHHHHH
Confidence 457889999999998765443
No 329
>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=91.77 E-value=0.39 Score=53.20 Aligned_cols=35 Identities=26% Similarity=0.391 Sum_probs=20.2
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcc--cccCCeEEecC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSG--IAAEQSIVCTQ 217 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~--~~~~~~ILv~q 217 (1252)
+-+.|.||+|+|||.. ++.+.... ..++.+|+++.
T Consensus 35 ~~l~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~ 71 (219)
T PF00308_consen 35 NPLFLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLS 71 (219)
T ss_dssp SEEEEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEE
T ss_pred CceEEECCCCCCHHHH-HHHHHHHHHhccccccceeec
Confidence 3577899999999973 33333221 12345666654
No 330
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=91.75 E-value=0.31 Score=61.11 Aligned_cols=71 Identities=23% Similarity=0.259 Sum_probs=59.4
Q ss_pred eeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeee
Q 000854 924 FLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 924 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 1002 (1252)
..+|.|.+.. +.+++.+|..+|++...|.|..+-+. + .+|.|+|.+++.|.+|. ++||.+|.|..|+|.
T Consensus 233 ~k~LfVgNL~-~~~tee~L~~~F~~f~~G~I~rV~~~---r------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~ 302 (578)
T TIGR01648 233 VKILYVRNLM-TTTTEEIIEKSFSEFKPGKVERVKKI---R------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVT 302 (578)
T ss_pred ccEEEEeCCC-CCCCHHHHHHHHHhcCCCceEEEEee---c------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEE
Confidence 3578888865 46899999999999888999988433 1 27999999999999996 599999999999998
Q ss_pred cc
Q 000854 1003 PS 1004 (1252)
Q Consensus 1003 ~~ 1004 (1252)
.+
T Consensus 303 ~A 304 (578)
T TIGR01648 303 LA 304 (578)
T ss_pred Ec
Confidence 43
No 331
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=91.75 E-value=0.36 Score=42.27 Aligned_cols=67 Identities=24% Similarity=0.380 Sum_probs=48.9
Q ss_pred EEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcch
Q 000854 1073 VVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDA 1152 (1252)
Q Consensus 1073 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1152 (1252)
|+|+|||..++|.||.+.+...-.- +.+++.+...+..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i------------------------------------------~~~~~~~~~~~~~ 38 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKI------------------------------------------ESIKVMRNSSGKS 38 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTE------------------------------------------EEEEEEEETTSSE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhc------------------------------------------ccccccccccccc
Confidence 6899999999999999888764221 2233333333334
Q ss_pred hhhheeeecccccHHHHHHHhhhcCcccCCc
Q 000854 1153 FMKAFITFDGRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
---|+|+|+- +-+|.+|++.++|+.+.|+
T Consensus 39 ~~~a~V~F~~--~~~a~~a~~~l~g~~~~~~ 67 (70)
T PF00076_consen 39 KGYAFVEFES--EEDAEKALEELNGKKINGR 67 (70)
T ss_dssp EEEEEEEESS--HHHHHHHHHHHTTEEETTE
T ss_pred cceEEEEEcC--HHHHHHHHHHcCCCEECcc
Confidence 4468999986 7889999999999998875
No 332
>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.75 E-value=0.37 Score=50.98 Aligned_cols=61 Identities=15% Similarity=0.123 Sum_probs=35.9
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHH
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQ 325 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~ 325 (1252)
.+.|.-.+.........+-+++++||-= ..+|......+.+.+.....+ +.++++ |-+.+.
T Consensus 97 LS~G~~~rl~la~al~~~p~llllDEP~-~gLD~~~~~~l~~~l~~~~~~-~tii~~-sh~~~~ 157 (171)
T cd03228 97 LSGGQRQRIAIARALLRDPPILILDEAT-SALDPETEALILEALRALAKG-KTVIVI-AHRLST 157 (171)
T ss_pred hCHHHHHHHHHHHHHhcCCCEEEEECCC-cCCCHHHHHHHHHHHHHhcCC-CEEEEE-ecCHHH
Confidence 4445433322222244566899999998 788887777776666655444 455554 434333
No 333
>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=91.70 E-value=0.47 Score=49.33 Aligned_cols=66 Identities=17% Similarity=0.060 Sum_probs=35.7
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhh
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKY 329 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~ 329 (1252)
.+.|...+.........+-+++++||.- ..+|......+.+.+.....+-+.+++ .|-+.+.+..+
T Consensus 81 lS~G~~~r~~l~~~l~~~~~i~ilDEp~-~~lD~~~~~~l~~~l~~~~~~~~tii~-~sh~~~~~~~~ 146 (157)
T cd00267 81 LSGGQRQRVALARALLLNPDLLLLDEPT-SGLDPASRERLLELLRELAEEGRTVII-VTHDPELAELA 146 (157)
T ss_pred CCHHHHHHHHHHHHHhcCCCEEEEeCCC-cCCCHHHHHHHHHHHHHHHHCCCEEEE-EeCCHHHHHHh
Confidence 4455433332222234456899999999 788877766666666543332233333 33344444333
No 334
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=91.69 E-value=1.3 Score=46.71 Aligned_cols=45 Identities=22% Similarity=0.327 Sum_probs=26.0
Q ss_pred CceeEEEEccccccccchhhHHHHHHHHHh-ccCCCcEEeeccCCCH
Q 000854 278 SRISCIIVDEAHERSLNTDLLLALVKDLLC-RRFDLRLVIMSATADA 323 (1252)
Q Consensus 278 ~~ls~IVIDEaHER~l~~d~ll~llk~l~~-~~~~lqiIlmSATld~ 323 (1252)
.+++++|+|...-...+.+.+..+ ..+.. ..++--++.++|+...
T Consensus 81 ~~~d~viiDt~g~~~~~~~~l~~l-~~l~~~~~~~~~~lVv~~~~~~ 126 (173)
T cd03115 81 ENFDVVIVDTAGRLQIDENLMEEL-KKIKRVVKPDEVLLVVDAMTGQ 126 (173)
T ss_pred CCCCEEEEECcccchhhHHHHHHH-HHHHhhcCCCeEEEEEECCCCh
Confidence 467899999998323333444333 32322 3456667777776443
No 335
>PRK06921 hypothetical protein; Provisional
Probab=91.67 E-value=1.9 Score=49.33 Aligned_cols=37 Identities=16% Similarity=0.321 Sum_probs=22.9
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhccccc-CCeEEecC
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAA-EQSIVCTQ 217 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~-~~~ILv~q 217 (1252)
.+..+++.|+||+|||..+..+..+. ... +..++++.
T Consensus 116 ~~~~l~l~G~~G~GKThLa~aia~~l-~~~~g~~v~y~~ 153 (266)
T PRK06921 116 RKNSIALLGQPGSGKTHLLTAAANEL-MRKKGVPVLYFP 153 (266)
T ss_pred CCCeEEEECCCCCcHHHHHHHHHHHH-hhhcCceEEEEE
Confidence 35678889999999997554333322 222 44566654
No 336
>smart00362 RRM_2 RNA recognition motif.
Probab=91.54 E-value=0.5 Score=40.64 Aligned_cols=69 Identities=25% Similarity=0.280 Sum_probs=48.2
Q ss_pred EEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeee
Q 000854 927 VDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKV 1001 (1252)
Q Consensus 927 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 1001 (1252)
|.|.+- ...+++.++..+|++ -|-+..+.-.-.. +....+|.|+|.+++.|.+|. .+||..|.|..++|
T Consensus 2 v~i~~l-~~~~~~~~l~~~~~~--~g~v~~~~~~~~~---~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v 71 (72)
T smart00362 2 LFVGNL-PPDVTEEDLKELFSK--FGPIESVKIPKDT---GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV 71 (72)
T ss_pred EEEcCC-CCcCCHHHHHHHHHh--cCCEEEEEEecCC---CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence 344443 335788999999965 4445555322211 234568999999999999995 58999999988876
No 337
>PRK13851 type IV secretion system protein VirB11; Provisional
Probab=91.53 E-value=0.26 Score=58.28 Aligned_cols=50 Identities=18% Similarity=0.286 Sum_probs=35.7
Q ss_pred HHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHH
Q 000854 171 RQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIA 222 (1252)
Q Consensus 171 q~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~L 222 (1252)
..-+..++..+.+++|+|+|||||||.+-.+ +.. .....+++.+..+.|+
T Consensus 152 ~~~l~~~v~~~~nilI~G~tGSGKTTll~aL-l~~-i~~~~rivtiEd~~El 201 (344)
T PRK13851 152 EAFLHACVVGRLTMLLCGPTGSGKTTMSKTL-ISA-IPPQERLITIEDTLEL 201 (344)
T ss_pred HHHHHHHHHcCCeEEEECCCCccHHHHHHHH-Hcc-cCCCCCEEEECCCccc
Confidence 3445566778899999999999999976443 332 3345578888888765
No 338
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=91.47 E-value=0.72 Score=56.58 Aligned_cols=36 Identities=17% Similarity=0.268 Sum_probs=21.4
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCc
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQP 218 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qP 218 (1252)
+-+++.||+|+|||..+-.+. ......+.+++++..
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~-~~l~~~~~~v~yi~~ 177 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAV-HALRESGGKILYVRS 177 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHH-HHHHHcCCCEEEeeH
Confidence 456778999999997533222 221122456777653
No 339
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=91.47 E-value=0.76 Score=56.46 Aligned_cols=36 Identities=19% Similarity=0.236 Sum_probs=21.4
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcc--cccCCeEEecCc
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSG--IAAEQSIVCTQP 218 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~--~~~~~~ILv~qP 218 (1252)
+-+++.|++|+|||..+ +.+.... ...+.+++++.+
T Consensus 142 npl~i~G~~G~GKTHLl-~Ai~~~l~~~~~~~~v~yv~~ 179 (450)
T PRK14087 142 NPLFIYGESGMGKTHLL-KAAKNYIESNFSDLKVSYMSG 179 (450)
T ss_pred CceEEECCCCCcHHHHH-HHHHHHHHHhCCCCeEEEEEH
Confidence 34677899999999754 3333211 123456776544
No 340
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=91.45 E-value=1.4 Score=51.90 Aligned_cols=49 Identities=20% Similarity=0.253 Sum_probs=29.6
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
.+.+.+...+...+.++|||||+|. +..+....+++.+...+++..+|+
T Consensus 104 ~l~~~~~~~p~~~~~~vviidea~~--l~~~~~~~Ll~~le~~~~~~~lIl 152 (355)
T TIGR02397 104 EILDNVKYAPSSGKYKVYIIDEVHM--LSKSAFNALLKTLEEPPEHVVFIL 152 (355)
T ss_pred HHHHHHhcCcccCCceEEEEeChhh--cCHHHHHHHHHHHhCCccceeEEE
Confidence 3555555566778889999999993 334445556666533333333333
No 341
>PRK10867 signal recognition particle protein; Provisional
Probab=91.43 E-value=1.3 Score=54.00 Aligned_cols=123 Identities=19% Similarity=0.202 Sum_probs=62.1
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCC--eEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQ--SIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~--~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..+++++|++|+||||.+..+........+. .++-.=+.|..|....+.+++.. + +.++....
T Consensus 100 p~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~-----g--v~v~~~~~-------- 164 (433)
T PRK10867 100 PTVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQI-----G--VPVFPSGD-------- 164 (433)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhc-----C--CeEEecCC--------
Confidence 3578889999999999755444322111123 34445667776654333344332 1 11111000
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhccCCCcEEeeccCC
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRRFDLRLVIMSATA 321 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~~~lqiIlmSATl 321 (1252)
-..|.-+...........++++||||=+= |.. +......+........|+--++.++||.
T Consensus 165 --~~dp~~i~~~a~~~a~~~~~DvVIIDTaG-rl~~d~~lm~eL~~i~~~v~p~evllVlda~~ 225 (433)
T PRK10867 165 --GQDPVDIAKAALEEAKENGYDVVIVDTAG-RLHIDEELMDELKAIKAAVNPDEILLVVDAMT 225 (433)
T ss_pred --CCCHHHHHHHHHHHHHhcCCCEEEEeCCC-CcccCHHHHHHHHHHHHhhCCCeEEEEEeccc
Confidence 01343343322211123468999999997 443 3333333333332234554577788875
No 342
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=91.37 E-value=1.4 Score=53.48 Aligned_cols=122 Identities=14% Similarity=0.201 Sum_probs=62.0
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEE--ecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIV--CTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~IL--v~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..+++++|++|+||||.+........ ..+.+|+ .+=|.|..|....+..++.. + +.++.....
T Consensus 100 ~~vi~lvG~~GvGKTTtaaKLA~~l~-~~G~kV~lV~~D~~R~aA~eQLk~~a~~~-~------vp~~~~~~~------- 164 (429)
T TIGR01425 100 QNVIMFVGLQGSGKTTTCTKLAYYYQ-RKGFKPCLVCADTFRAGAFDQLKQNATKA-R------IPFYGSYTE------- 164 (429)
T ss_pred CeEEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEcCcccchhHHHHHHHHhhcc-C------CeEEeecCC-------
Confidence 35788899999999987544332211 1133433 34456766654444444332 1 111000000
Q ss_pred EEEEChHHHH-HHHhcCCCCCceeEEEEcccccccc-chhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 259 VIYMTDHCLL-QHFMNDRDLSRISCIIVDEAHERSL-NTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 259 Iiv~Tpg~Ll-~~L~~~~~L~~ls~IVIDEaHER~l-~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
..|-.+. +.+... .-.++++||||=+- |.- +...+..+.+......|+-.++.++||..
T Consensus 165 ---~dp~~i~~~~l~~~-~~~~~DvViIDTaG-r~~~d~~lm~El~~i~~~~~p~e~lLVlda~~G 225 (429)
T TIGR01425 165 ---SDPVKIASEGVEKF-KKENFDIIIVDTSG-RHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIG 225 (429)
T ss_pred ---CCHHHHHHHHHHHH-HhCCCCEEEEECCC-CCcchHHHHHHHHHHhhhcCCcEEEEEeccccC
Confidence 0121111 111111 11467999999997 443 34444444444444556777888999854
No 343
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=91.36 E-value=1.4 Score=52.42 Aligned_cols=74 Identities=23% Similarity=0.429 Sum_probs=61.2
Q ss_pred cCCceeEEE-ecCCCchhhhhhcccccc-ceeEEEEecCccccceEEEeCCCccCChHHHHHHHHhhcccceeeeEEe
Q 000854 1030 LSKGFAVVK-CDATDVEFLVKDFFDLAI-GGRYVRCEIGRRSMDAVVISGLDKELSEDEILGELRKVTTRRIRDLFLV 1105 (1252)
Q Consensus 1030 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1105 (1252)
.+||||.|+ |-+.++.--++-+-|-+| -|+.+.|-+|. ...-.+|-++||.-++.|||+++.+.|. -.+|+.+.
T Consensus 123 ~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv-an~RLFiG~IPK~k~keeIlee~~kVte-GVvdVivy 198 (506)
T KOG0117|consen 123 DNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV-ANCRLFIGNIPKTKKKEEILEEMKKVTE-GVVDVIVY 198 (506)
T ss_pred CCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee-ecceeEeccCCccccHHHHHHHHHhhCC-CeeEEEEe
Confidence 478999886 888899999999999888 57999998775 3466899999999999999999998875 35565554
No 344
>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=91.33 E-value=5.1 Score=49.14 Aligned_cols=147 Identities=21% Similarity=0.273 Sum_probs=79.9
Q ss_pred ccccccccCCCchhhhcHHHHHHHHHccCCCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEE
Q 000854 135 DVFRFEDCQRFDWSRIQAFIVRECKRLEDGLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIV 214 (1252)
Q Consensus 135 ~~~~f~~lg~~~~~rl~~~ll~~l~~~~~~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~IL 214 (1252)
+..+|-..|.+.|..-...+++.=.. ..||-.-.+. ..--.+++.||.|||||+.+.+......+ +-|=
T Consensus 500 ~l~~~~~~Gmi~~g~~v~~il~~G~l-------lv~qvk~s~~-s~lvSvLl~Gp~~sGKTaLAA~iA~~S~F---PFvK 568 (744)
T KOG0741|consen 500 DLERFVMNGMINWGPPVTRILDDGKL-------LVQQVKNSER-SPLVSVLLEGPPGSGKTALAAKIALSSDF---PFVK 568 (744)
T ss_pred HHHHHHhCCceeecccHHHHHhhHHH-------HHHHhhcccc-CcceEEEEecCCCCChHHHHHHHHhhcCC---CeEE
Confidence 44556555788887666666554321 1111110000 01135778999999999877776666543 3455
Q ss_pred ecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccc
Q 000854 215 CTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN 294 (1252)
Q Consensus 215 v~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~ 294 (1252)
++.|......+=...++.. +....|..-+.+++||+|++. |.+|
T Consensus 569 iiSpe~miG~sEsaKc~~i-----------------------------------~k~F~DAYkS~lsiivvDdiE-rLiD 612 (744)
T KOG0741|consen 569 IISPEDMIGLSESAKCAHI-----------------------------------KKIFEDAYKSPLSIIVVDDIE-RLLD 612 (744)
T ss_pred EeChHHccCccHHHHHHHH-----------------------------------HHHHHHhhcCcceEEEEcchh-hhhc
Confidence 5556543322211111111 111122344567899999997 7776
Q ss_pred h--------hhHHHHHHHHHhc-cC-CCcEEeeccCCCHHHHHh
Q 000854 295 T--------DLLLALVKDLLCR-RF-DLRLVIMSATADAHQLSK 328 (1252)
Q Consensus 295 ~--------d~ll~llk~l~~~-~~-~lqiIlmSATld~~~l~~ 328 (1252)
. ...++.+..+++. +| +.|++++.-|...+.+.+
T Consensus 613 ~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~ 656 (744)
T KOG0741|consen 613 YVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQE 656 (744)
T ss_pred ccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHH
Confidence 3 3455555555553 33 457777877766665553
No 345
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=91.28 E-value=1.5 Score=56.94 Aligned_cols=20 Identities=35% Similarity=0.572 Sum_probs=15.0
Q ss_pred CeEEEEcCCCChhhHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~ 201 (1252)
.++.|.|+||+|||+.+-..
T Consensus 782 nvLYIyG~PGTGKTATVK~V 801 (1164)
T PTZ00112 782 QILYISGMPGTGKTATVYSV 801 (1164)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 34568999999999875433
No 346
>PRK08533 flagellar accessory protein FlaH; Reviewed
Probab=91.28 E-value=0.78 Score=51.27 Aligned_cols=37 Identities=14% Similarity=0.123 Sum_probs=26.1
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
..+..+++.|++|+|||+...+++.... ..+.+++++
T Consensus 22 ~~g~~~~i~G~~G~GKTtl~~~~~~~~~-~~g~~~~yi 58 (230)
T PRK08533 22 PAGSLILIEGDESTGKSILSQRLAYGFL-QNGYSVSYV 58 (230)
T ss_pred CCCcEEEEECCCCCCHHHHHHHHHHHHH-hCCCcEEEE
Confidence 3567888899999999998778776532 223455544
No 347
>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX. Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.
Probab=91.26 E-value=0.93 Score=52.30 Aligned_cols=16 Identities=31% Similarity=0.538 Sum_probs=13.4
Q ss_pred eEEEEcCCCChhhHHH
Q 000854 183 ILVLIGETGCGKSTQL 198 (1252)
Q Consensus 183 vvII~apTGSGKTtqi 198 (1252)
.+++.||+|+|||+.+
T Consensus 60 ~vll~G~pGTGKT~lA 75 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVA 75 (284)
T ss_pred eEEEEcCCCCCHHHHH
Confidence 5677899999999864
No 348
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=91.17 E-value=1.8 Score=50.14 Aligned_cols=19 Identities=32% Similarity=0.581 Sum_probs=15.4
Q ss_pred eEEEEcCCCChhhHHHHHH
Q 000854 183 ILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~ 201 (1252)
.+++.||+|+|||+.+-.+
T Consensus 40 ~~ll~G~~G~GKt~~~~~l 58 (319)
T PRK00440 40 HLLFAGPPGTGKTTAALAL 58 (319)
T ss_pred eEEEECCCCCCHHHHHHHH
Confidence 5788999999999865443
No 349
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=91.05 E-value=0.64 Score=57.88 Aligned_cols=46 Identities=20% Similarity=0.188 Sum_probs=28.2
Q ss_pred HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 269 QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 269 ~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
..+...+...+..+|||||+| + +..+....+++.+....+...+|+
T Consensus 106 ~~~~~~p~~~~~kVVIIDEad-~-ls~~a~naLLk~LEep~~~t~~Il 151 (504)
T PRK14963 106 EKVLLAPLRGGRKVYILDEAH-M-MSKSAFNALLKTLEEPPEHVIFIL 151 (504)
T ss_pred HHHhhccccCCCeEEEEECcc-c-cCHHHHHHHHHHHHhCCCCEEEEE
Confidence 333444567788999999999 3 344556666666654433344443
No 350
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=91.03 E-value=1.4 Score=52.79 Aligned_cols=17 Identities=29% Similarity=0.663 Sum_probs=13.7
Q ss_pred CeEEEEcCCCChhhHHH
Q 000854 182 QILVLIGETGCGKSTQL 198 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqi 198 (1252)
.+++|.|+||+|||+.+
T Consensus 43 ~n~~iyG~~GTGKT~~~ 59 (366)
T COG1474 43 SNIIIYGPTGTGKTATV 59 (366)
T ss_pred ccEEEECCCCCCHhHHH
Confidence 45777899999999754
No 351
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.98 E-value=0.5 Score=60.01 Aligned_cols=45 Identities=27% Similarity=0.270 Sum_probs=27.9
Q ss_pred HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEE
Q 000854 269 QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLV 315 (1252)
Q Consensus 269 ~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiI 315 (1252)
..+...+.+.+.++|||||+| .+..+-...+++.+..-.+...+|
T Consensus 110 ~~~~~~p~~~~~kVvIIDEa~--~L~~~a~naLLk~LEepp~~tv~I 154 (585)
T PRK14950 110 ERVQFRPALARYKVYIIDEVH--MLSTAAFNALLKTLEEPPPHAIFI 154 (585)
T ss_pred HHHhhCcccCCeEEEEEeChH--hCCHHHHHHHHHHHhcCCCCeEEE
Confidence 344445567889999999999 344555556666654433333333
No 352
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=90.95 E-value=0.39 Score=40.97 Aligned_cols=52 Identities=33% Similarity=0.444 Sum_probs=37.9
Q ss_pred HHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeeec
Q 000854 944 MFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 944 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1003 (1252)
..+++. |-|-++.-+... ...+.|+|.+++.|.+|. .|||..|.|..|+|..
T Consensus 3 ~~f~~f--G~V~~i~~~~~~------~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~ 55 (56)
T PF13893_consen 3 KLFSKF--GEVKKIKIFKKK------RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY 55 (56)
T ss_dssp HHHTTT--S-EEEEEEETTS------TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred HHhCCc--ccEEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence 345444 666666432211 355999999999999995 5999999999999864
No 353
>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra
Probab=90.93 E-value=0.38 Score=50.97 Aligned_cols=46 Identities=11% Similarity=0.057 Sum_probs=29.7
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
.+.|...+.......+.+-+++++||.= ..+|......+...+...
T Consensus 97 LS~G~~qrv~la~al~~~p~~lllDEPt-~~LD~~~~~~l~~~l~~~ 142 (173)
T cd03246 97 LSGGQRQRLGLARALYGNPRILVLDEPN-SHLDVEGERALNQAIAAL 142 (173)
T ss_pred cCHHHHHHHHHHHHHhcCCCEEEEECCc-cccCHHHHHHHHHHHHHH
Confidence 4555543333333356677899999998 788877766666665543
No 354
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=90.83 E-value=0.82 Score=54.18 Aligned_cols=21 Identities=24% Similarity=0.420 Sum_probs=16.4
Q ss_pred CeEEEEcCCCChhhHHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~L 202 (1252)
..++|.||+|+|||+.+-.++
T Consensus 41 ~~i~I~G~~GtGKT~l~~~~~ 61 (365)
T TIGR02928 41 SNVFIYGKTGTGKTAVTKYVM 61 (365)
T ss_pred CcEEEECCCCCCHHHHHHHHH
Confidence 567889999999998754443
No 355
>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.
Probab=90.81 E-value=1.2 Score=47.80 Aligned_cols=115 Identities=15% Similarity=0.162 Sum_probs=59.5
Q ss_pred HhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCC
Q 000854 178 IYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDS 257 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t 257 (1252)
+..+..+.|.||.||||||.+- .+........+.|.+-- ..+++... ..
T Consensus 22 i~~Ge~~~l~G~nGsGKSTLl~-~l~Gl~~p~~G~i~~~g-----------------------~~i~~~~q-~~------ 70 (177)
T cd03222 22 VKEGEVIGIVGPNGTGKTTAVK-ILAGQLIPNGDNDEWDG-----------------------ITPVYKPQ-YI------ 70 (177)
T ss_pred ECCCCEEEEECCCCChHHHHHH-HHHcCCCCCCcEEEECC-----------------------EEEEEEcc-cC------
Confidence 3567888889999999998543 33322222234444311 01222111 00
Q ss_pred eEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCC-cEEeeccCCCHHHHHh
Q 000854 258 KVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDL-RLVIMSATADAHQLSK 328 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~l-qiIlmSATld~~~l~~ 328 (1252)
. .+-|.-.+.......+.+-+++++||-- ..+|......+...+.....+- ..+++ +|-+.+.+.+
T Consensus 71 ~---LSgGq~qrv~laral~~~p~lllLDEPt-s~LD~~~~~~l~~~l~~~~~~~~~tiii-vsH~~~~~~~ 137 (177)
T cd03222 71 D---LSGGELQRVAIAAALLRNATFYLFDEPS-AYLDIEQRLNAARAIRRLSEEGKKTALV-VEHDLAVLDY 137 (177)
T ss_pred C---CCHHHHHHHHHHHHHhcCCCEEEEECCc-ccCCHHHHHHHHHHHHHHHHcCCCEEEE-EECCHHHHHH
Confidence 0 3444432222222234456899999998 7888777666666555433222 34444 3334444433
No 356
>PRK13900 type IV secretion system ATPase VirB11; Provisional
Probab=90.68 E-value=0.32 Score=57.32 Aligned_cols=50 Identities=14% Similarity=0.206 Sum_probs=34.6
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHH
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAA 223 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA 223 (1252)
+-+..++..+.+++|+|+|||||||.+-. ++.. .....+|+.+.-+.|+.
T Consensus 151 ~~L~~~v~~~~nili~G~tgSGKTTll~a-L~~~-ip~~~ri~tiEd~~El~ 200 (332)
T PRK13900 151 EFLEHAVISKKNIIISGGTSTGKTTFTNA-ALRE-IPAIERLITVEDAREIV 200 (332)
T ss_pred HHHHHHHHcCCcEEEECCCCCCHHHHHHH-HHhh-CCCCCeEEEecCCCccc
Confidence 44555677888999999999999997644 3332 23456788776666643
No 357
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=90.35 E-value=1 Score=53.48 Aligned_cols=24 Identities=29% Similarity=0.459 Sum_probs=17.6
Q ss_pred HHHhcC--CeEEEEcCCCChhhHHHH
Q 000854 176 RRIYGE--QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 176 ~al~~~--~vvII~apTGSGKTtqip 199 (1252)
.+++++ ..+|+.||+|+||||..-
T Consensus 41 r~v~~~~l~SmIl~GPPG~GKTTlA~ 66 (436)
T COG2256 41 RAVEAGHLHSMILWGPPGTGKTTLAR 66 (436)
T ss_pred HHHhcCCCceeEEECCCCCCHHHHHH
Confidence 444544 467889999999998643
No 358
>PRK06067 flagellar accessory protein FlaH; Validated
Probab=90.35 E-value=0.61 Score=51.92 Aligned_cols=51 Identities=16% Similarity=0.225 Sum_probs=32.3
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.+..++|.|++|+|||+...+++.+... .+.+++++.- .+...++.+++..
T Consensus 24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~-~g~~~~y~~~-e~~~~~~~~~~~~ 74 (234)
T PRK06067 24 FPSLILIEGDHGTGKSVLSQQFVYGALK-QGKKVYVITT-ENTSKSYLKQMES 74 (234)
T ss_pred CCcEEEEECCCCCChHHHHHHHHHHHHh-CCCEEEEEEc-CCCHHHHHHHHHH
Confidence 4678888999999999988888776432 3455555422 2223444444444
No 359
>PRK14953 DNA polymerase III subunits gamma and tau; Provisional
Probab=90.34 E-value=0.6 Score=57.85 Aligned_cols=48 Identities=23% Similarity=0.191 Sum_probs=30.1
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEE
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLV 315 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiI 315 (1252)
.+.+.+...|..++..++|||||| ++..+....+++.+..-++...+|
T Consensus 106 ~I~~~~~~~P~~~~~KVvIIDEad--~Lt~~a~naLLk~LEepp~~~v~I 153 (486)
T PRK14953 106 ALRDAVSYTPIKGKYKVYIIDEAH--MLTKEAFNALLKTLEEPPPRTIFI 153 (486)
T ss_pred HHHHHHHhCcccCCeeEEEEEChh--hcCHHHHHHHHHHHhcCCCCeEEE
Confidence 344555556677889999999999 344555556666654433333333
No 360
>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.
Probab=90.31 E-value=0.52 Score=50.67 Aligned_cols=48 Identities=19% Similarity=0.246 Sum_probs=31.2
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
+.+-+...+..+.+++|+|||||||||.+-. +.... ....+++.+.-.
T Consensus 14 ~~~~l~~~v~~g~~i~I~G~tGSGKTTll~a-L~~~i-~~~~~~i~ied~ 61 (186)
T cd01130 14 QAAYLWLAVEARKNILISGGTGSGKTTLLNA-LLAFI-PPDERIITIEDT 61 (186)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHHHHHHH-HHhhc-CCCCCEEEECCc
Confidence 5555666777889999999999999997543 33322 233455554443
No 361
>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=90.26 E-value=0.73 Score=49.09 Aligned_cols=58 Identities=9% Similarity=-0.018 Sum_probs=35.7
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCC-CcEEeeccC
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFD-LRLVIMSAT 320 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~-lqiIlmSAT 320 (1252)
.+.|...+.......+.+-.++++||-- ..+|.+....+...+.....+ -+.++++..
T Consensus 101 lS~G~~qr~~la~al~~~p~llilDEP~-~~LD~~~~~~l~~~l~~~~~~~~~tiii~sH 159 (178)
T cd03229 101 LSGGQQQRVALARALAMDPDVLLLDEPT-SALDPITRREVRALLKSLQAQLGITVVLVTH 159 (178)
T ss_pred CCHHHHHHHHHHHHHHCCCCEEEEeCCc-ccCCHHHHHHHHHHHHHHHHhcCCEEEEEeC
Confidence 5666544433333345566899999999 788887776666666554333 244444443
No 362
>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=90.23 E-value=0.37 Score=47.72 Aligned_cols=19 Identities=32% Similarity=0.497 Sum_probs=14.4
Q ss_pred EEEEcCCCChhhHHHHHHH
Q 000854 184 LVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 184 vII~apTGSGKTtqipq~L 202 (1252)
+++.||+|+|||+.+-...
T Consensus 1 ill~G~~G~GKT~l~~~la 19 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALA 19 (132)
T ss_dssp EEEESSTTSSHHHHHHHHH
T ss_pred CEEECcCCCCeeHHHHHHH
Confidence 4678999999998654433
No 363
>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=90.14 E-value=1.1 Score=51.89 Aligned_cols=53 Identities=15% Similarity=0.219 Sum_probs=32.5
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhccccc-----CCeEE-ecCcHHHHHHHHHHHHHHHh
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAA-----EQSIV-CTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~-----~~~IL-v~qPrR~LA~qva~rv~~~~ 234 (1252)
..++|+|+||-|||+.+-.|.-.+.... ...|+ +-.|...-...++..+-..+
T Consensus 62 p~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~l 120 (302)
T PF05621_consen 62 PNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEAL 120 (302)
T ss_pred CceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHh
Confidence 4677789999999998877775542211 11344 44555554555555555554
No 364
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=90.07 E-value=1.9 Score=52.55 Aligned_cols=124 Identities=16% Similarity=0.138 Sum_probs=59.8
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcc--cccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSG--IAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~--~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..+++++|++|+||||.+..+..... .+....++-.=++|..|....++..+..+ ..+ +.....
T Consensus 99 p~vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~g-----vp~--~~~~~~------- 164 (428)
T TIGR00959 99 PTVILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVG-----VPV--FALGKG------- 164 (428)
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcC-----Cce--EecCCC-------
Confidence 35788899999999998655544321 11222334445566665544444443321 111 010000
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccc-hhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLN-TDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~-~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
..|.-+...........++++||||=+- |... ......+.+......|+--++.++||..
T Consensus 165 ---~~P~~i~~~al~~~~~~~~DvVIIDTaG-r~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg 225 (428)
T TIGR00959 165 ---QSPVEIARRALEYAKENGFDVVIVDTAG-RLQIDEELMEELAAIKEILNPDEILLVVDAMTG 225 (428)
T ss_pred ---CCHHHHHHHHHHHHHhcCCCEEEEeCCC-ccccCHHHHHHHHHHHHhhCCceEEEEEeccch
Confidence 1222222111111123467899999998 5443 3333333222222345555677777743
No 365
>PRK11773 uvrD DNA-dependent helicase II; Provisional
Probab=89.93 E-value=0.77 Score=59.84 Aligned_cols=100 Identities=19% Similarity=0.196 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHH---HHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQF---LADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~---Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
..|++++ .. ....++|.|..|||||+.+..- |++..-....+|+++.-|+-+|..+.+|+.+..+..
T Consensus 12 ~~Q~~av-~~--~~g~~lV~AgaGSGKT~vl~~Ria~Li~~~~v~p~~IL~lTFT~kAA~Em~~Rl~~~~~~~------- 81 (721)
T PRK11773 12 DKQREAV-AA--PLGNMLVLAGAGSGKTRVLVHRIAWLMQVENASPYSIMAVTFTNKAAAEMRHRIEQLLGTS------- 81 (721)
T ss_pred HHHHHHH-hC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCChhHeEeeeccHHHHHHHHHHHHHHhccC-------
Confidence 3454444 32 2334556799999999875443 333222235689999999999999999998875210
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhcC-C---CCCceeEEEEcccc
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMND-R---DLSRISCIIVDEAH 289 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~-~---~L~~ls~IVIDEaH 289 (1252)
...+.++|-..+...+... . .+. -.+-|+|+.+
T Consensus 82 -----------~~~~~i~TfHs~~~~iLr~~~~~~g~~-~~f~i~d~~d 118 (721)
T PRK11773 82 -----------QGGMWVGTFHGLAHRLLRAHWQDANLP-QDFQILDSDD 118 (721)
T ss_pred -----------CCCCEEEcHHHHHHHHHHHHHHHhCCC-CCCeecCHHH
Confidence 1246788987664433222 1 111 1345778776
No 366
>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]
Probab=89.92 E-value=2.5 Score=53.57 Aligned_cols=126 Identities=21% Similarity=0.187 Sum_probs=67.3
Q ss_pred CChHHHHHHHHHHHh--------cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcC
Q 000854 165 LPIYMYRQDILRRIY--------GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRG 236 (1252)
Q Consensus 165 lP~~~qq~~I~~al~--------~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~ 236 (1252)
.-...-++.|++-+. .+.+++++||+|.|||.. +.++|+.+.+.+
T Consensus 326 YGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSL-------------------------gkSIA~al~Rkf-- 378 (782)
T COG0466 326 YGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSL-------------------------GKSIAKALGRKF-- 378 (782)
T ss_pred cCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhH-------------------------HHHHHHHhCCCE--
Confidence 334455666666553 346888899999999942 223333332222
Q ss_pred CCCCceEEEecCCCccccC-CCeEEEEChHHHHHHHhcCCCCCceeEEEEccccc--cccchhhHHHHHHHHHh------
Q 000854 237 CYEDDSVICYPSFSSAQHF-DSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHE--RSLNTDLLLALVKDLLC------ 307 (1252)
Q Consensus 237 ~~~~~~vg~~~~~~~~~~~-~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHE--R~l~~d~ll~llk~l~~------ 307 (1252)
...++|+ .+.+...+. .---+=+-||++++-|......+ -++++||+|. .+...|-.-+++..+-.
T Consensus 379 --vR~sLGG-vrDEAEIRGHRRTYIGamPGrIiQ~mkka~~~N--Pv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F 453 (782)
T COG0466 379 --VRISLGG-VRDEAEIRGHRRTYIGAMPGKIIQGMKKAGVKN--PVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTF 453 (782)
T ss_pred --EEEecCc-cccHHHhccccccccccCChHHHHHHHHhCCcC--CeEEeechhhccCCCCCChHHHHHhhcCHhhcCch
Confidence 1112222 111211111 11123356999999887654332 4899999995 33444555555554422
Q ss_pred ------ccCCCcEEeeccCCC
Q 000854 308 ------RRFDLRLVIMSATAD 322 (1252)
Q Consensus 308 ------~~~~lqiIlmSATld 322 (1252)
.+-|+--|+|=||.|
T Consensus 454 ~DhYLev~yDLS~VmFiaTAN 474 (782)
T COG0466 454 SDHYLEVPYDLSKVMFIATAN 474 (782)
T ss_pred hhccccCccchhheEEEeecC
Confidence 112455667777755
No 367
>PRK10787 DNA-binding ATP-dependent protease La; Provisional
Probab=89.92 E-value=2.5 Score=55.45 Aligned_cols=26 Identities=15% Similarity=0.155 Sum_probs=18.4
Q ss_pred ChHHHHHHHhcCCCCCceeEEEEccccc
Q 000854 263 TDHCLLQHFMNDRDLSRISCIIVDEAHE 290 (1252)
Q Consensus 263 Tpg~Ll~~L~~~~~L~~ls~IVIDEaHE 290 (1252)
.||.+.+.+......+ .++++||+|.
T Consensus 402 ~~G~~~~~l~~~~~~~--~villDEidk 427 (784)
T PRK10787 402 MPGKLIQKMAKVGVKN--PLFLLDEIDK 427 (784)
T ss_pred CCcHHHHHHHhcCCCC--CEEEEEChhh
Confidence 5888887776543222 4799999994
No 368
>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.
Probab=89.87 E-value=1.3 Score=47.23 Aligned_cols=32 Identities=16% Similarity=0.131 Sum_probs=23.1
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
.+.+-+++++||.= ..+|.+....+.+.+...
T Consensus 112 l~~~p~llllDEP~-~~LD~~~~~~~~~~l~~~ 143 (180)
T cd03214 112 LAQEPPILLLDEPT-SHLDIAHQIELLELLRRL 143 (180)
T ss_pred HhcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHH
Confidence 34556899999998 788877766666655544
No 369
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.83 E-value=1.4 Score=56.30 Aligned_cols=47 Identities=23% Similarity=0.233 Sum_probs=28.7
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
...+...+...+.+++|||||| .+..+-...+++.+..-+....+|+
T Consensus 110 i~~a~~~p~~~~~KViIIDEad--~Lt~~a~naLLK~LEePp~~tvfIL 156 (620)
T PRK14948 110 IERAQFAPVQARWKVYVIDECH--MLSTAAFNALLKTLEEPPPRVVFVL 156 (620)
T ss_pred HHHHhhChhcCCceEEEEECcc--ccCHHHHHHHHHHHhcCCcCeEEEE
Confidence 3444444566788999999999 3445555666776654333333333
No 370
>PRK10919 ATP-dependent DNA helicase Rep; Provisional
Probab=89.81 E-value=0.56 Score=60.50 Aligned_cols=101 Identities=14% Similarity=0.135 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHH---HhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEE
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFL---ADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVIC 245 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~L---le~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~ 245 (1252)
.|++++ ... ...++|.|..|||||+.+..-+ ++..-....+|+++..|+-+|..+.+|+.+..+..
T Consensus 6 ~Q~~av-~~~--~g~~lV~AgpGSGKT~vL~~Ria~Li~~~~v~p~~IL~lTFT~kAA~em~~Rl~~~l~~~-------- 74 (672)
T PRK10919 6 GQQQAV-EFV--TGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVAQTLGRK-------- 74 (672)
T ss_pred HHHHHH-hCC--CCCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeeeEechHHHHHHHHHHHHHHhCcc--------
Confidence 444444 332 3344556999999998754433 33211234589999999999999999998875210
Q ss_pred ecCCCccccCCCeEEEEChHHHHHHHhcCC--CCC-ceeEEEEcccc
Q 000854 246 YPSFSSAQHFDSKVIYMTDHCLLQHFMNDR--DLS-RISCIIVDEAH 289 (1252)
Q Consensus 246 ~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~--~L~-~ls~IVIDEaH 289 (1252)
....+.++|-..+...+.... .+. .-.+-|+|+.+
T Consensus 75 ---------~~~~v~i~TfHS~~~~iLr~~~~~~g~~~~~~i~d~~~ 112 (672)
T PRK10919 75 ---------EARGLMISTFHTLGLDIIKREYAALGMKSNFSLFDDTD 112 (672)
T ss_pred ---------cccCcEEEcHHHHHHHHHHHHHHHhCCCCCCeeCCHHH
Confidence 112467899876653332221 111 11355778776
No 371
>cd01131 PilT Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.
Probab=89.80 E-value=0.39 Score=52.32 Aligned_cols=37 Identities=24% Similarity=0.398 Sum_probs=22.6
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCc
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQP 218 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qP 218 (1252)
..++|+|||||||||.+-..+.......+.+|+.+.-
T Consensus 2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~ 38 (198)
T cd01131 2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIED 38 (198)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcC
Confidence 3678899999999997654333322122345555443
No 372
>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=89.79 E-value=0.88 Score=56.38 Aligned_cols=134 Identities=16% Similarity=0.112 Sum_probs=71.6
Q ss_pred eEEEEcCCCChhhHHHHHHHH-hc--ccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeE
Q 000854 183 ILVLIGETGCGKSTQLVQFLA-DS--GIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKV 259 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Ll-e~--~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~I 259 (1252)
-+++.-|=|.|||+.+....+ .. .-..+..|+++++++.-|..+.+.+............. ...+. .......|
T Consensus 24 ~~~l~v~RkNGKS~l~a~i~ly~l~~~g~~~~~i~~~A~~~~QA~~~f~~~~~~i~~~~~l~~~-~~~~~--~~~~~~~i 100 (477)
T PF03354_consen 24 EVYLEVPRKNGKSTLAAAIALYMLFLDGEPGAEIYCAANTRDQAKIVFDEAKKMIEASPELRKR-KKPKI--IKSNKKEI 100 (477)
T ss_pred EEEEEEcCccCccHHHHHHHHHHHhcCCccCceEEEEeCCHHHHHHHHHHHHHHHHhChhhccc-hhhhh--hhhhceEE
Confidence 345567999999976333222 11 11235689999999999999998888766432111100 00000 01112334
Q ss_pred EEEChHHHHHHHhcCC---CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee-ccCC
Q 000854 260 IYMTDHCLLQHFMNDR---DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM-SATA 321 (1252)
Q Consensus 260 iv~Tpg~Ll~~L~~~~---~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm-SATl 321 (1252)
.+-..+..++.+.+++ .=.+.+++|+||+|+ ...+-+...++.-...+++.+++.. ||..
T Consensus 101 ~~~~~~s~~~~~s~~~~~~dG~~~~~~i~DE~h~--~~~~~~~~~l~~g~~~r~~pl~~~ISTag~ 164 (477)
T PF03354_consen 101 EFPKTGSFFKALSSDADSLDGLNPSLAIFDELHA--HKDDELYDALESGMGARPNPLIIIISTAGD 164 (477)
T ss_pred EEcCCCcEEEEEecCCCCccCCCCceEEEeCCCC--CCCHHHHHHHHhhhccCCCceEEEEeCCCC
Confidence 4433343333333333 223568999999994 2333244445544555666666554 4543
No 373
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=89.78 E-value=3 Score=49.00 Aligned_cols=52 Identities=25% Similarity=0.180 Sum_probs=36.3
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
.+.+.+...+..+..+++|||+|| .++..-...++|.+..-+++..+|+.|.
T Consensus 100 ~l~~~~~~~p~~g~~kV~iI~~ae--~m~~~AaNaLLKtLEEPp~~~~fiL~~~ 151 (319)
T PRK08769 100 EISQKLALTPQYGIAQVVIVDPAD--AINRAACNALLKTLEEPSPGRYLWLISA 151 (319)
T ss_pred HHHHHHhhCcccCCcEEEEeccHh--hhCHHHHHHHHHHhhCCCCCCeEEEEEC
Confidence 345555556677789999999999 3566677888887765445555666554
No 374
>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=89.78 E-value=0.65 Score=48.86 Aligned_cols=66 Identities=14% Similarity=0.011 Sum_probs=37.7
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhh
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKY 329 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~ 329 (1252)
.+.|...+.......+.+-+++++||-- ..+|......+...+......-..++++ |-+.+.+.++
T Consensus 83 LS~G~~qrl~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~~~~~~tiii~-sh~~~~~~~~ 148 (163)
T cd03216 83 LSVGERQMVEIARALARNARLLILDEPT-AALTPAEVERLFKVIRRLRAQGVAVIFI-SHRLDEVFEI 148 (163)
T ss_pred cCHHHHHHHHHHHHHhcCCCEEEEECCC-cCCCHHHHHHHHHHHHHHHHCCCEEEEE-eCCHHHHHHh
Confidence 5556544333333345566899999998 7888877766666665443222344443 4444444443
No 375
>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit. The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.
Probab=89.73 E-value=0.74 Score=57.60 Aligned_cols=21 Identities=33% Similarity=0.542 Sum_probs=17.1
Q ss_pred hcCCeEEEEcCCCChhhHHHH
Q 000854 179 YGEQILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqip 199 (1252)
..++.+.|+||+||||||.+-
T Consensus 359 ~~G~~vaIvG~SGsGKSTLl~ 379 (529)
T TIGR02868 359 PPGERVAILGPSGSGKSTLLM 379 (529)
T ss_pred cCCCEEEEECCCCCCHHHHHH
Confidence 467778888999999999653
No 376
>PRK04195 replication factor C large subunit; Provisional
Probab=89.70 E-value=2.2 Score=53.02 Aligned_cols=24 Identities=29% Similarity=0.512 Sum_probs=18.6
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHh
Q 000854 181 EQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle 204 (1252)
...+++.||+|+|||+.+-.+..+
T Consensus 39 ~~~lLL~GppG~GKTtla~ala~e 62 (482)
T PRK04195 39 KKALLLYGPPGVGKTSLAHALAND 62 (482)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHH
Confidence 467888999999999876555443
No 377
>smart00360 RRM RNA recognition motif.
Probab=89.59 E-value=0.73 Score=39.39 Aligned_cols=64 Identities=31% Similarity=0.431 Sum_probs=45.5
Q ss_pred CCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeee
Q 000854 935 NILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKV 1001 (1252)
Q Consensus 935 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 1001 (1252)
..+++.++..++++ -|.|..++ +-..+....-..+|.|+|.+++.|..|. .++|..|.|..++|
T Consensus 6 ~~~~~~~l~~~f~~--~g~v~~~~-i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v 70 (71)
T smart00360 6 PDVTEEELRELFSK--FGKIESVR-LVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKV 70 (71)
T ss_pred cccCHHHHHHHHHh--hCCEeEEE-EEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence 45788999999965 45555552 2111112222348999999999999994 68899999998876
No 378
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=89.55 E-value=1.2 Score=56.20 Aligned_cols=47 Identities=28% Similarity=0.282 Sum_probs=28.9
Q ss_pred HhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 271 FMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 271 L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+...+...+++++||||+| .+.......+++.+.. +|..-++++.+|
T Consensus 111 ~~~~p~~~~~KVvIIDEa~--~Ls~~a~naLLK~LEe-pp~~~vfI~~tt 157 (563)
T PRK06647 111 IMFPPASSRYRVYIIDEVH--MLSNSAFNALLKTIEE-PPPYIVFIFATT 157 (563)
T ss_pred HHhchhcCCCEEEEEEChh--hcCHHHHHHHHHhhcc-CCCCEEEEEecC
Confidence 3445667899999999999 3444555666666543 333333334334
No 379
>PRK13342 recombination factor protein RarA; Reviewed
Probab=89.54 E-value=1.5 Score=53.25 Aligned_cols=19 Identities=32% Similarity=0.469 Sum_probs=15.3
Q ss_pred eEEEEcCCCChhhHHHHHH
Q 000854 183 ILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~ 201 (1252)
.+++.||+|+|||+.+-.+
T Consensus 38 ~ilL~GppGtGKTtLA~~i 56 (413)
T PRK13342 38 SMILWGPPGTGKTTLARII 56 (413)
T ss_pred eEEEECCCCCCHHHHHHHH
Confidence 6777999999999866443
No 380
>PRK08939 primosomal protein DnaI; Reviewed
Probab=89.51 E-value=2.8 Score=48.93 Aligned_cols=53 Identities=9% Similarity=0.195 Sum_probs=31.0
Q ss_pred CCceeEEEEccccccccchhhHH-HHHHHHHhcc-CCCcEEeeccCCCHHHHHhhh
Q 000854 277 LSRISCIIVDEAHERSLNTDLLL-ALVKDLLCRR-FDLRLVIMSATADAHQLSKYF 330 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll-~llk~l~~~~-~~lqiIlmSATld~~~l~~~f 330 (1252)
+.++++|||||+.--.. +++.. .++..+...| .+.+-.++|.-.+.+.+.+.|
T Consensus 215 l~~~dlLiIDDiG~e~~-s~~~~~~ll~~Il~~R~~~~~~ti~TSNl~~~el~~~~ 269 (306)
T PRK08939 215 VKEAPVLMLDDIGAEQM-SSWVRDEVLGVILQYRMQEELPTFFTSNFDFDELEHHL 269 (306)
T ss_pred hcCCCEEEEecCCCccc-cHHHHHHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHH
Confidence 45789999999983222 33333 4555443322 233445556666777777766
No 381
>PRK07399 DNA polymerase III subunit delta'; Validated
Probab=89.45 E-value=2.2 Score=49.99 Aligned_cols=58 Identities=12% Similarity=0.115 Sum_probs=38.3
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
|.+-....+.+.+...+..+.++++|||+|| .++..-...++|.+.. +|+..+|+.|.
T Consensus 104 I~id~ir~i~~~l~~~p~~~~~kVvII~~ae--~m~~~aaNaLLK~LEE-Pp~~~fILi~~ 161 (314)
T PRK07399 104 IRLEQIREIKRFLSRPPLEAPRKVVVIEDAE--TMNEAAANALLKTLEE-PGNGTLILIAP 161 (314)
T ss_pred CcHHHHHHHHHHHccCcccCCceEEEEEchh--hcCHHHHHHHHHHHhC-CCCCeEEEEEC
Confidence 3333334566677777778899999999999 3455666677777654 44665554443
No 382
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=89.37 E-value=1.7 Score=55.96 Aligned_cols=33 Identities=33% Similarity=0.559 Sum_probs=25.7
Q ss_pred CCeEEEEChHHHHHHHhcCC---CCCceeEEEEcccc
Q 000854 256 DSKVIYMTDHCLLQHFMNDR---DLSRISCIIVDEAH 289 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~---~L~~ls~IVIDEaH 289 (1252)
.++|+||-...|++-..+.. .|++ ++||+||||
T Consensus 222 dAdIIF~PYnYLiDp~iR~~~~v~Lkn-sIVIfDEAH 257 (945)
T KOG1132|consen 222 DADIIFCPYNYLIDPKIRRSHKVDLKN-SIVIFDEAH 257 (945)
T ss_pred cCcEEEechhhhcCHhhhccccccccc-cEEEEeccc
Confidence 56899999888887654443 5655 899999999
No 383
>PRK06964 DNA polymerase III subunit delta'; Validated
Probab=89.27 E-value=1.2 Score=52.78 Aligned_cols=58 Identities=17% Similarity=0.101 Sum_probs=37.0
Q ss_pred EEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 259 VIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
|.|-.--.|.+.+...+..+.++++|||+|| .++..-...++|.+..=+++..+|+.|
T Consensus 112 I~idqiR~l~~~~~~~~~~~~~kV~iI~~ae--~m~~~AaNaLLKtLEEPp~~t~fiL~t 169 (342)
T PRK06964 112 IKIEQVRALLDFCGVGTHRGGARVVVLYPAE--ALNVAAANALLKTLEEPPPGTVFLLVS 169 (342)
T ss_pred cCHHHHHHHHHHhccCCccCCceEEEEechh--hcCHHHHHHHHHHhcCCCcCcEEEEEE
Confidence 3333333455666666677889999999999 346666777888776533444444443
No 384
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=89.27 E-value=1.8 Score=52.98 Aligned_cols=58 Identities=14% Similarity=0.260 Sum_probs=36.1
Q ss_pred HHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 174 ILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 174 I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
+..-+..++.++|.|+||+|||+.+.+++.......+..+++. ....-..++..|+..
T Consensus 188 ~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~-SlEm~~~~i~~R~~~ 245 (434)
T TIGR00665 188 LTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFF-SLEMSAEQLAMRMLS 245 (434)
T ss_pred hcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEE-eCcCCHHHHHHHHHH
Confidence 3334566789999999999999988877765433334455544 222334455555544
No 385
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=89.24 E-value=0.78 Score=54.04 Aligned_cols=51 Identities=20% Similarity=0.268 Sum_probs=33.8
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+.+.+...+..+..+++|||||| .++.+-...++|.+..-+++..+| +.++
T Consensus 94 l~~~~~~~~~~~~~kv~iI~~a~--~m~~~aaNaLLK~LEEPp~~~~fi-L~t~ 144 (328)
T PRK05707 94 LVSFVVQTAQLGGRKVVLIEPAE--AMNRNAANALLKSLEEPSGDTVLL-LISH 144 (328)
T ss_pred HHHHHhhccccCCCeEEEECChh--hCCHHHHHHHHHHHhCCCCCeEEE-EEEC
Confidence 44555556677789999999999 456677778888765533334444 4444
No 386
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=89.23 E-value=0.85 Score=59.36 Aligned_cols=101 Identities=18% Similarity=0.192 Sum_probs=61.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHH---HhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFL---ADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~L---le~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
..|++++ .. ....++|.|..|||||+.+..-+ ++..-....+|+++..|+-+|..+.+|+.+..+.
T Consensus 7 ~~Q~~av-~~--~~g~~lV~AgaGSGKT~~L~~Ria~Li~~~~v~p~~IL~lTFTnkAA~em~~Rl~~~~~~-------- 75 (715)
T TIGR01075 7 DKQREAV-AA--PPGNLLVLAGAGSGKTRVLTHRIAWLLSVENASPHSIMAVTFTNKAAAEMRHRIGALLGT-------- 75 (715)
T ss_pred HHHHHHH-cC--CCCCEEEEecCCCCHHHHHHHHHHHHHHcCCCCHHHeEeeeccHHHHHHHHHHHHHHhcc--------
Confidence 3455544 32 23345567999999998755443 3332223558999999999999999999887521
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhc-CC---CCCceeEEEEccccc
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMN-DR---DLSRISCIIVDEAHE 290 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~-~~---~L~~ls~IVIDEaHE 290 (1252)
....+.++|-..+...+.+ .. .+.. .+-|+|+.++
T Consensus 76 ----------~~~~~~i~TfHs~~~~iLr~~~~~~g~~~-~f~i~d~~d~ 114 (715)
T TIGR01075 76 ----------SARGMWIGTFHGLAHRLLRAHHLDAGLPQ-DFQILDSDDQ 114 (715)
T ss_pred ----------cccCcEEEcHHHHHHHHHHHHHHHhCCCC-CCeecCHHHH
Confidence 0124678998765433322 11 1111 3457787763
No 387
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=89.21 E-value=2.5 Score=55.69 Aligned_cols=120 Identities=14% Similarity=0.017 Sum_probs=64.9
Q ss_pred CChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 165 LPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 165 lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
.|...|--.-+... .+ -|..+.||=|||+.+..+++-.++...+--+||+.- -||.-=++.+..... ..|.+||
T Consensus 138 ~~ydVQLiGgivLh-~G--~IAEM~TGEGKTLvatlp~yLnAL~G~gVHvVTvND-YLA~RDaewm~p~y~--flGLtVg 211 (1025)
T PRK12900 138 VPYDVQLIGGIVLH-SG--KISEMATGEGKTLVSTLPTFLNALTGRGVHVVTVND-YLAQRDKEWMNPVFE--FHGLSVG 211 (1025)
T ss_pred cccchHHhhhHHhh-cC--CccccCCCCCcchHhHHHHHHHHHcCCCcEEEeech-HhhhhhHHHHHHHHH--HhCCeee
Confidence 45555544433332 22 244799999999875444433334433434444433 344433444443331 2245666
Q ss_pred EecCCCc----cccCCCeEEEEChHH-----HHHHHhcCC---CCCceeEEEEccccc
Q 000854 245 CYPSFSS----AQHFDSKVIYMTDHC-----LLQHFMNDR---DLSRISCIIVDEAHE 290 (1252)
Q Consensus 245 ~~~~~~~----~~~~~t~Iiv~Tpg~-----Ll~~L~~~~---~L~~ls~IVIDEaHE 290 (1252)
+...... ...-.++|+|+|..- |.+.+...+ ....+.+.||||||-
T Consensus 212 ~i~~~~~~~~Rr~aY~~DItYgTn~EfGFDYLRDnma~~~~~~vqR~~~faIVDEvDS 269 (1025)
T PRK12900 212 VILNTMRPEERREQYLCDITYGTNNEFGFDYLRDNMAGTPEEMVQRDFYFAIVDEVDS 269 (1025)
T ss_pred eeCCCCCHHHHHHhCCCcceecCCCccccccchhccccchhhhhccCCceEEEechhh
Confidence 6432211 122468999999853 444443333 457789999999993
No 388
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.20 E-value=1.5 Score=55.79 Aligned_cols=48 Identities=21% Similarity=0.221 Sum_probs=28.7
Q ss_pred HHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 269 QHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 269 ~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+.+...+..++.+++||||+|. +...-...+++.+..-++...+|+.+
T Consensus 117 e~~~~~P~~~~~KVvIIdEad~--Lt~~a~naLLK~LEePp~~tv~IL~t 164 (620)
T PRK14954 117 ENVRYGPQKGRYRVYIIDEVHM--LSTAAFNAFLKTLEEPPPHAIFIFAT 164 (620)
T ss_pred HHHHhhhhcCCCEEEEEeChhh--cCHHHHHHHHHHHhCCCCCeEEEEEe
Confidence 3344456788899999999993 33344455566554433344444443
No 389
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=89.19 E-value=0.7 Score=54.32 Aligned_cols=50 Identities=14% Similarity=0.133 Sum_probs=34.1
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+.+.+...+..+..+++|||+|| .+......+++|.+..=+++..+|+.|
T Consensus 95 l~~~~~~~~~~g~~KV~iI~~a~--~m~~~AaNaLLKtLEEPp~~~~fiL~t 144 (325)
T PRK06871 95 INEKVSQHAQQGGNKVVYIQGAE--RLTEAAANALLKTLEEPRPNTYFLLQA 144 (325)
T ss_pred HHHHHhhccccCCceEEEEechh--hhCHHHHHHHHHHhcCCCCCeEEEEEE
Confidence 44555556677889999999999 355667778888776644445444433
No 390
>PRK14970 DNA polymerase III subunits gamma and tau; Provisional
Probab=89.15 E-value=1.5 Score=52.24 Aligned_cols=37 Identities=22% Similarity=0.310 Sum_probs=22.5
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHH
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDL 305 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l 305 (1252)
+.+.+...+.+.+..+|||||+| .+ .......+++.+
T Consensus 96 l~~~~~~~p~~~~~kiviIDE~~-~l-~~~~~~~ll~~l 132 (367)
T PRK14970 96 LIDQVRIPPQTGKYKIYIIDEVH-ML-SSAAFNAFLKTL 132 (367)
T ss_pred HHHHHhhccccCCcEEEEEeChh-hc-CHHHHHHHHHHH
Confidence 34444445677788999999999 33 333344444444
No 391
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=89.14 E-value=1 Score=55.44 Aligned_cols=74 Identities=31% Similarity=0.332 Sum_probs=45.3
Q ss_pred cCCCeEEEEChHHHHHHHhcCC-------CCCceeEE-EEccccccccch-------h------hHHHHHHHHHhccCCC
Q 000854 254 HFDSKVIYMTDHCLLQHFMNDR-------DLSRISCI-IVDEAHERSLNT-------D------LLLALVKDLLCRRFDL 312 (1252)
Q Consensus 254 ~~~t~Iiv~Tpg~Ll~~L~~~~-------~L~~ls~I-VIDEaHER~l~~-------d------~ll~llk~l~~~~~~l 312 (1252)
.....|.++|.+.|...+.+.. .+.+..+| +-||||+ +++ | -+...++......++-
T Consensus 79 nd~iei~fttiq~l~~d~~~~ken~itledl~~~klvfl~deahh--ln~~tkkk~~de~~~~~~we~~v~la~~~nkd~ 156 (812)
T COG3421 79 NDAIEIYFTTIQGLFSDFTRAKENAITLEDLKDQKLVFLADEAHH--LNTETKKKLNDEASEKRNWESVVKLALEQNKDN 156 (812)
T ss_pred CCceEEEEeehHHHHHHHHhhccccccHhhHhhCceEEEechhhh--hhhhhhhhcccHHHHHhhHHHHHHHHHhcCCCc
Confidence 3457899999998876664432 45555554 5699994 211 1 1223334444566777
Q ss_pred cEEeeccCCC--HHHHHhh
Q 000854 313 RLVIMSATAD--AHQLSKY 329 (1252)
Q Consensus 313 qiIlmSATld--~~~l~~~ 329 (1252)
-++.+|||.+ ..+.++|
T Consensus 157 ~~lef~at~~k~k~v~~ky 175 (812)
T COG3421 157 LLLEFSATIPKEKSVEDKY 175 (812)
T ss_pred eeehhhhcCCccccHHHHh
Confidence 8888999976 2334455
No 392
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=89.07 E-value=0.79 Score=54.16 Aligned_cols=52 Identities=13% Similarity=0.112 Sum_probs=34.8
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+.+.+...+..+.++++|||+|| .++..-...++|.+.. +|.--++++.++
T Consensus 95 ~l~~~~~~~~~~g~~kV~iI~~ae--~m~~~AaNaLLKtLEE-Pp~~t~fiL~t~ 146 (334)
T PRK07993 95 EVTEKLYEHARLGGAKVVWLPDAA--LLTDAAANALLKTLEE-PPENTWFFLACR 146 (334)
T ss_pred HHHHHHhhccccCCceEEEEcchH--hhCHHHHHHHHHHhcC-CCCCeEEEEEEC
Confidence 355566666778899999999999 3555667777877755 444334444444
No 393
>PRK06620 hypothetical protein; Validated
Probab=88.73 E-value=2.1 Score=47.32 Aligned_cols=18 Identities=22% Similarity=0.302 Sum_probs=14.5
Q ss_pred CeEEEEcCCCChhhHHHH
Q 000854 182 QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqip 199 (1252)
+.+++.||+|||||+.+-
T Consensus 45 ~~l~l~Gp~G~GKThLl~ 62 (214)
T PRK06620 45 FTLLIKGPSSSGKTYLTK 62 (214)
T ss_pred ceEEEECCCCCCHHHHHH
Confidence 457889999999997543
No 394
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=88.67 E-value=0.84 Score=52.12 Aligned_cols=49 Identities=22% Similarity=0.326 Sum_probs=30.3
Q ss_pred HHHHHHHHHh-cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 170 YRQDILRRIY-GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 170 qq~~I~~al~-~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
+.+.+..++. .+..++|+|+|||||||.+-.++... .....+++.+.-.
T Consensus 68 ~~~~l~~~~~~~~GlilisG~tGSGKTT~l~all~~i-~~~~~~iitiEdp 117 (264)
T cd01129 68 NLEIFRKLLEKPHGIILVTGPTGSGKTTTLYSALSEL-NTPEKNIITVEDP 117 (264)
T ss_pred HHHHHHHHHhcCCCEEEEECCCCCcHHHHHHHHHhhh-CCCCCeEEEECCC
Confidence 4555555555 45688899999999999765444332 2223456655433
No 395
>PRK11823 DNA repair protein RadA; Provisional
Probab=88.64 E-value=0.54 Score=57.67 Aligned_cols=51 Identities=25% Similarity=0.341 Sum_probs=35.4
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.+.+++|.|++|+|||+.+.|++.... ..+.+++++. ..+...|+..+...
T Consensus 79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a-~~g~~vlYvs-~Ees~~qi~~ra~r 129 (446)
T PRK11823 79 PGSVVLIGGDPGIGKSTLLLQVAARLA-AAGGKVLYVS-GEESASQIKLRAER 129 (446)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHHH-hcCCeEEEEE-ccccHHHHHHHHHH
Confidence 357889999999999999888876543 2345677654 34455666666544
No 396
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=88.49 E-value=1.7 Score=57.08 Aligned_cols=133 Identities=18% Similarity=0.154 Sum_probs=71.4
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcccc--cCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCC-------
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSGIA--AEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSF------- 249 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~~~--~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~------- 249 (1252)
++|-+-|+.-+-|-|||.|...++....-. .=+-=||++||-.+- ...-.+++. |.+-....|++..
T Consensus 632 eknlNGILADEmGLGKTIQtISllAhLACeegnWGPHLIVVpTsviL-nWEMElKRw---cPglKILTYyGs~kErkeKR 707 (1958)
T KOG0391|consen 632 EKNLNGILADEMGLGKTIQTISLLAHLACEEGNWGPHLIVVPTSVIL-NWEMELKRW---CPGLKILTYYGSHKERKEKR 707 (1958)
T ss_pred HhcccceehhhhcccchhHHHHHHHHHHhcccCCCCceEEeechhhh-hhhHHHhhh---CCcceEeeecCCHHHHHHHh
Confidence 456677778899999998866555432111 112234555885542 122333333 3333344454422
Q ss_pred -CccccCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 250 -SSAQHFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 250 -~~~~~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+..-...++-|++...+++-+..- .-.++.++|+|||| +.-+ |-..-...++.. ..-|.++++.|
T Consensus 708 qgW~kPnaFHVCItSYklv~qd~~AF-krkrWqyLvLDEaq-nIKn--fksqrWQAllnf-nsqrRLLLtgT 774 (1958)
T KOG0391|consen 708 QGWAKPNAFHVCITSYKLVFQDLTAF-KRKRWQYLVLDEAQ-NIKN--FKSQRWQALLNF-NSQRRLLLTGT 774 (1958)
T ss_pred hcccCCCeeEEeehhhHHHHhHHHHH-Hhhccceeehhhhh-hhcc--hhHHHHHHHhcc-chhheeeecCC
Confidence 2222234578888877776654322 34578999999999 3332 222222222222 23456777888
No 397
>PF13555 AAA_29: P-loop containing region of AAA domain
Probab=88.47 E-value=0.46 Score=42.13 Aligned_cols=17 Identities=41% Similarity=0.724 Sum_probs=14.8
Q ss_pred CeEEEEcCCCChhhHHH
Q 000854 182 QILVLIGETGCGKSTQL 198 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqi 198 (1252)
++++|+|++||||||.+
T Consensus 24 ~~tli~G~nGsGKSTll 40 (62)
T PF13555_consen 24 DVTLITGPNGSGKSTLL 40 (62)
T ss_pred cEEEEECCCCCCHHHHH
Confidence 47888999999999974
No 398
>TIGR02785 addA_Gpos recombination helicase AddA, Firmicutes type. AddAB, also called RexAB, substitutes for RecBCD in several bacterial lineages. These DNA recombination proteins act before synapse and are particularly important for DNA repair of double-stranded breaks by homologous recombination. The term AddAB is used broadly, with AddA homologous between the Firmicutes (as modeled here) and the alphaproteobacteria, while the partner AddB proteins show no strong homology across the two groups of species.
Probab=88.38 E-value=0.67 Score=63.80 Aligned_cols=131 Identities=14% Similarity=0.133 Sum_probs=73.8
Q ss_pred hHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhccc--ccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 167 IYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGI--AAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 167 ~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~--~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
+..|+++|. ..+.+++|.|..|||||+.+...+..... ....+++++.=|+.+|..+.+|+.+.+........ .
T Consensus 3 t~~Q~~ai~---~~~~~~lv~A~AGsGKT~~lv~r~~~~~~~~~~~~~il~~tFt~~aa~e~~~ri~~~l~~~~~~~p-~ 78 (1232)
T TIGR02785 3 TDEQWQAIY---TRGQNILVSASAGSGKTAVLVERIIKKILRGVDIDRLLVVTFTNAAAREMKERIEEALQKALQQEP-N 78 (1232)
T ss_pred CHHHHHHHh---CCCCCEEEEecCCCcHHHHHHHHHHHHHhcCCCHhhEEEEeccHHHHHHHHHHHHHHHHHHHhcCc-h
Confidence 455777765 35667778999999999987665543221 12246999999999999999999886532111100 0
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHh-cCCCCCce--eEEEEccccccccchhhHHHHH
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFM-NDRDLSRI--SCIIVDEAHERSLNTDLLLALV 302 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~-~~~~L~~l--s~IVIDEaHER~l~~d~ll~ll 302 (1252)
..........-...-|+|-..+...+. .....-++ ++=|.||.....+..+.+..++
T Consensus 79 -~~~L~~q~~~~~~~~i~Tihsf~~~~~~~~~~~l~ldP~F~i~de~e~~ll~~e~~~~~~ 138 (1232)
T TIGR02785 79 -SKHLRRQLALLNTANISTLHSFCLKVIRKHYYLLDLDPSFRILTDTEQLLLIKEVVDDVF 138 (1232)
T ss_pred -hHHHHHHHhhccCCeEeeHHHHHHHHHHHhhhhcCCCCCceeCCHHHHHHHHHHHHHHHH
Confidence 000111111223456888776654443 33222122 4556888874334333333333
No 399
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=88.33 E-value=2 Score=54.79 Aligned_cols=50 Identities=20% Similarity=0.288 Sum_probs=31.2
Q ss_pred HHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 268 LQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 268 l~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+..+...+..++++++||||+| + +..+-...+++.+.. +++--++++.+|
T Consensus 110 i~~~~~~P~~~~~KVvIIdea~-~-Ls~~a~naLLK~LEe-pp~~tifIL~tt 159 (614)
T PRK14971 110 IEQVRIPPQIGKYKIYIIDEVH-M-LSQAAFNAFLKTLEE-PPSYAIFILATT 159 (614)
T ss_pred HHHHhhCcccCCcEEEEEECcc-c-CCHHHHHHHHHHHhC-CCCCeEEEEEeC
Confidence 3444556688899999999999 3 344455566665544 344344445555
No 400
>PRK08058 DNA polymerase III subunit delta'; Validated
Probab=88.32 E-value=0.71 Score=54.37 Aligned_cols=48 Identities=17% Similarity=0.127 Sum_probs=31.1
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
+.+.+...+..++.+++||||+|. ++......++|.+..-+++..+|+
T Consensus 98 l~~~~~~~~~~~~~kvviI~~a~~--~~~~a~NaLLK~LEEPp~~~~~Il 145 (329)
T PRK08058 98 LKEEFSKSGVESNKKVYIIEHADK--MTASAANSLLKFLEEPSGGTTAIL 145 (329)
T ss_pred HHHHHhhCCcccCceEEEeehHhh--hCHHHHHHHHHHhcCCCCCceEEE
Confidence 344444555677889999999993 445556677777655444455554
No 401
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=88.17 E-value=2 Score=56.90 Aligned_cols=61 Identities=13% Similarity=0.213 Sum_probs=35.5
Q ss_pred hHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc----------CCCcEEeeccCCCHHHHHhhh
Q 000854 264 DHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR----------FDLRLVIMSATADAHQLSKYF 330 (1252)
Q Consensus 264 pg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~----------~~lqiIlmSATld~~~l~~~f 330 (1252)
.|.|...+... .+++|++||++. .+.+....++..+...+ -.-.+++||.....+.+.+.+
T Consensus 657 ~g~L~~~v~~~----p~svvllDEiek--a~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~TSNlg~~~~~~~~ 727 (852)
T TIGR03345 657 GGVLTEAVRRK----PYSVVLLDEVEK--AHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLTSNAGSDLIMALC 727 (852)
T ss_pred cchHHHHHHhC----CCcEEEEechhh--cCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEeCCCchHHHHHhc
Confidence 35666666553 468999999983 45555444444432211 023577777777666555543
No 402
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=88.02 E-value=2.3 Score=46.22 Aligned_cols=101 Identities=16% Similarity=0.258 Sum_probs=58.2
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEE
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVI 260 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Ii 260 (1252)
....+++||-.||||+-+++.+..... .+.++++..|. +-.|. +...+....+. ...-++
T Consensus 4 g~l~~i~gpM~SGKT~eLl~r~~~~~~-~g~~v~vfkp~------iD~R~--------~~~~V~Sr~G~-----~~~A~~ 63 (201)
T COG1435 4 GWLEFIYGPMFSGKTEELLRRARRYKE-AGMKVLVFKPA------IDTRY--------GVGKVSSRIGL-----SSEAVV 63 (201)
T ss_pred EEEEEEEccCcCcchHHHHHHHHHHHH-cCCeEEEEecc------ccccc--------ccceeeeccCC-----ccccee
Confidence 356678999999999988887765433 34567776554 11111 11112211111 112355
Q ss_pred EEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHH
Q 000854 261 YMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVK 303 (1252)
Q Consensus 261 v~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk 303 (1252)
|-.+.-+...+........+++|.||||+ -++.+....+.+
T Consensus 64 i~~~~~i~~~i~~~~~~~~~~~v~IDEaQ--F~~~~~v~~l~~ 104 (201)
T COG1435 64 IPSDTDIFDEIAALHEKPPVDCVLIDEAQ--FFDEELVYVLNE 104 (201)
T ss_pred cCChHHHHHHHHhcccCCCcCEEEEehhH--hCCHHHHHHHHH
Confidence 55666777777655433348999999999 455544444333
No 403
>smart00362 RRM_2 RNA recognition motif.
Probab=87.93 E-value=1.7 Score=37.31 Aligned_cols=67 Identities=22% Similarity=0.377 Sum_probs=45.8
Q ss_pred eEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcc
Q 000854 1072 AVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKD 1151 (1252)
Q Consensus 1072 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1151 (1252)
+|+|+|+|..++++||.+.|+..- .+.++.+.+. + +.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g--~v~~~~~~~~----------------------------------------~-~~ 37 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFG--PIESVKIPKD----------------------------------------T-GK 37 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcC--CEEEEEEecC----------------------------------------C-CC
Confidence 478999999999999998886432 1222222222 1 22
Q ss_pred hhhhheeeecccccHHHHHHHhhhcCcccCCc
Q 000854 1152 AFMKAFITFDGRLHLEAAKALEQLEGKVLPGC 1183 (1252)
Q Consensus 1152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1183 (1252)
+.--|+|+|+- +.+|.+|++.++|..+.|.
T Consensus 38 ~~~~~~v~f~~--~~~a~~a~~~~~~~~~~~~ 67 (72)
T smart00362 38 SKGFAFVEFES--EEDAEKAIEALNGTKLGGR 67 (72)
T ss_pred CCceEEEEeCC--HHHHHHHHHHhCCcEECCE
Confidence 33457899986 4688889999999877663
No 404
>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several phage terminase large subunit proteins as well as related sequences from several bacterial species. The DNA packaging enzyme of bacteriophage lambda, terminase, is a heteromultimer composed of a small subunit, gpNu1, and a large subunit, gpA, products of the Nu1 and A genes, respectively. Terminase is involved in the site-specific binding and cutting of the DNA in the initial stages of packaging. It is now known that gpA is actively involved in late stages of packaging, including DNA translocation, and that this enzyme contains separate functional domains for its early and late packaging activities [].
Probab=87.91 E-value=0.68 Score=58.40 Aligned_cols=66 Identities=18% Similarity=0.273 Sum_probs=48.3
Q ss_pred HHHHHHHHHHhcC--CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHH-HHHHHHh
Q 000854 169 MYRQDILRRIYGE--QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLA-QRVREES 234 (1252)
Q Consensus 169 ~qq~~I~~al~~~--~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva-~rv~~~~ 234 (1252)
.++.+|++++... +.|++.+++-+|||..+..++.-........+++++||..+|.... .++.-..
T Consensus 19 Py~~eimd~~~~~~v~~Vv~~k~aQ~GkT~~~~n~~g~~i~~~P~~~l~v~Pt~~~a~~~~~~rl~Pmi 87 (557)
T PF05876_consen 19 PYLREIMDALSDPSVREVVVMKSAQVGKTELLLNWIGYSIDQDPGPMLYVQPTDDAAKDFSKERLDPMI 87 (557)
T ss_pred hhHHHHHHhcCCcCccEEEEEEcchhhHhHHHHhhceEEEEeCCCCEEEEEEcHHHHHHHHHHHHHHHH
Confidence 3577888888776 4567789999999996655554333344578999999999998766 5665544
No 405
>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []. This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.
Probab=87.90 E-value=0.96 Score=51.48 Aligned_cols=33 Identities=21% Similarity=0.386 Sum_probs=24.6
Q ss_pred HHHHHHHhc----CCeEEEEcCCCChhhHHHHHHHHh
Q 000854 172 QDILRRIYG----EQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 172 ~~I~~al~~----~~vvII~apTGSGKTtqipq~Lle 204 (1252)
++|...+.. ..++.|.|+.|+|||+.+.++..+
T Consensus 6 ~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~ 42 (287)
T PF00931_consen 6 EKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARD 42 (287)
T ss_dssp HHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCH
T ss_pred HHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccc
Confidence 444455544 578899999999999988776644
No 406
>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=87.81 E-value=0.62 Score=49.41 Aligned_cols=47 Identities=13% Similarity=0.070 Sum_probs=30.1
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR 309 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~ 309 (1252)
.+.|...+.........+-+++++||-- ..+|......+...+....
T Consensus 96 LS~G~~qrv~laral~~~p~illlDEPt-~~LD~~~~~~l~~~l~~~~ 142 (173)
T cd03230 96 LSGGMKQRLALAQALLHDPELLILDEPT-SGLDPESRREFWELLRELK 142 (173)
T ss_pred cCHHHHHHHHHHHHHHcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHHH
Confidence 4555543332222244566899999999 7888877776666665543
No 407
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=87.79 E-value=2.6 Score=50.82 Aligned_cols=42 Identities=2% Similarity=0.064 Sum_probs=23.8
Q ss_pred ceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 279 RISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 279 ~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
++++++||.++...........+...+-..+.+-+.|++|+.
T Consensus 175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsd 216 (408)
T COG0593 175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSD 216 (408)
T ss_pred ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcC
Confidence 789999999994333333344444444444444434445543
No 408
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=87.65 E-value=1.1 Score=56.55 Aligned_cols=77 Identities=17% Similarity=0.269 Sum_probs=56.3
Q ss_pred eeEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccc-cccCCeeecCceeeee
Q 000854 924 FLTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKA-TELNGVEYNGSLLKVV 1002 (1252)
Q Consensus 924 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1002 (1252)
+.+|.|.+.. ..+++.+|..+++++ |-|.++ ++..........-.|.|.|.+++.|.+| ..+||+++.|..|+|.
T Consensus 204 ~~rLfVgnLp-~~vteedLk~lFs~F--G~I~sv-rl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~ 279 (612)
T TIGR01645 204 FNRIYVASVH-PDLSETDIKSVFEAF--GEIVKC-QLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG 279 (612)
T ss_pred cceEEeecCC-CCCCHHHHHHHHhhc--CCeeEE-EEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence 4577777754 457889999999775 667666 3311111112234799999999999999 6899999999999996
Q ss_pred cc
Q 000854 1003 PS 1004 (1252)
Q Consensus 1003 ~~ 1004 (1252)
..
T Consensus 280 kA 281 (612)
T TIGR01645 280 KC 281 (612)
T ss_pred ec
Confidence 43
No 409
>KOG2036 consensus Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]
Probab=87.63 E-value=15 Score=46.41 Aligned_cols=139 Identities=22% Similarity=0.194 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHh------cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 167 IYMYRQDILRRIY------GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 167 ~~~qq~~I~~al~------~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
+..|..++...+. -+..+-++|.-|-|||.++-..+.......-..|.|+.|.-+-...+.+.+-+-+....-.
T Consensus 255 T~dQakav~~f~dai~eK~lr~~vsLtA~RGRGKSAALGlsiA~AVa~GysnIyvtSPspeNlkTlFeFv~kGfDaL~Yq 334 (1011)
T KOG2036|consen 255 TLDQAKAVLTFFDAIVEKTLRSTVSLTASRGRGKSAALGLSIAGAVAFGYSNIYVTSPSPENLKTLFEFVFKGFDALEYQ 334 (1011)
T ss_pred hHHHHHHHHHHHHHHHHhhhcceEEEEecCCCCchhhhhHHHHHHHhcCcceEEEcCCChHHHHHHHHHHHcchhhhcch
Confidence 3456665554442 2456777899999999887666655433334589999999887777776665533221111
Q ss_pred ceEEEecCCCccc-------------cCCCeEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHh
Q 000854 241 DSVICYPSFSSAQ-------------HFDSKVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLC 307 (1252)
Q Consensus 241 ~~vg~~~~~~~~~-------------~~~t~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~ 307 (1252)
..+.|........ ...--|-|..|.-- ..++...++|||||-. .-+.+++.+.
T Consensus 335 eh~Dy~iI~s~np~fkkaivRInifr~hrQtIQYi~P~D~-------~kl~q~eLlVIDEAAA------IPLplvk~Li- 400 (1011)
T KOG2036|consen 335 EHVDYDIIQSTNPDFKKAIVRINIFREHRQTIQYISPHDH-------QKLGQAELLVIDEAAA------IPLPLVKKLI- 400 (1011)
T ss_pred hhcchhhhhhcChhhhhhEEEEEEeccccceeEeeccchh-------hhccCCcEEEechhhc------CCHHHHHHhh-
Confidence 1122211110000 01112333333111 1577889999999982 2244455543
Q ss_pred ccCCCcEEeeccCCC
Q 000854 308 RRFDLRLVIMSATAD 322 (1252)
Q Consensus 308 ~~~~lqiIlmSATld 322 (1252)
..-+++|+.|++
T Consensus 401 ---gPylVfmaSTin 412 (1011)
T KOG2036|consen 401 ---GPYLVFMASTIN 412 (1011)
T ss_pred ---cceeEEEeeccc
Confidence 456889999954
No 410
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=87.54 E-value=2 Score=50.63 Aligned_cols=49 Identities=14% Similarity=0.145 Sum_probs=34.5
Q ss_pred HHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 266 CLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 266 ~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
-+.+.+...+..+..+++|+|++| .++......+++.+..-.++..+|+
T Consensus 100 ~l~~~~~~~p~~~~~kV~iiEp~~--~Ld~~a~naLLk~LEep~~~~~~Il 148 (325)
T PRK08699 100 EIIDNVYLTSVRGGLRVILIHPAE--SMNLQAANSLLKVLEEPPPQVVFLL 148 (325)
T ss_pred HHHHHHhhCcccCCceEEEEechh--hCCHHHHHHHHHHHHhCcCCCEEEE
Confidence 455666666677889999999999 5777777888887755443433444
No 411
>TIGR01420 pilT_fam pilus retraction protein PilT. This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.
Probab=87.54 E-value=0.72 Score=54.66 Aligned_cols=42 Identities=24% Similarity=0.323 Sum_probs=26.1
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKI 221 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~ 221 (1252)
.+..++|+|||||||||.+-..+.......+.+|+.+.-..+
T Consensus 121 ~~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E 162 (343)
T TIGR01420 121 PRGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIE 162 (343)
T ss_pred cCcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChh
Confidence 457889999999999997654333222122356666544333
No 412
>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.
Probab=87.45 E-value=0.88 Score=50.55 Aligned_cols=18 Identities=28% Similarity=0.462 Sum_probs=14.4
Q ss_pred CeEEEEcCCCChhhHHHH
Q 000854 182 QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqip 199 (1252)
+.+++.||+|+||||.+-
T Consensus 51 ~h~lf~GPPG~GKTTLA~ 68 (233)
T PF05496_consen 51 DHMLFYGPPGLGKTTLAR 68 (233)
T ss_dssp -EEEEESSTTSSHHHHHH
T ss_pred ceEEEECCCccchhHHHH
Confidence 578889999999998543
No 413
>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11. The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.
Probab=87.44 E-value=0.83 Score=53.33 Aligned_cols=46 Identities=26% Similarity=0.426 Sum_probs=30.4
Q ss_pred HHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHH
Q 000854 174 ILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKI 221 (1252)
Q Consensus 174 I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~ 221 (1252)
+-.++..+..++|+|+|||||||.+-. ++.. .....+++++..+++
T Consensus 137 l~~~v~~~~~ili~G~tGsGKTTll~a-l~~~-~~~~~~iv~ied~~E 182 (308)
T TIGR02788 137 LRLAIASRKNIIISGGTGSGKTTFLKS-LVDE-IPKDERIITIEDTRE 182 (308)
T ss_pred HHHHhhCCCEEEEECCCCCCHHHHHHH-HHcc-CCccccEEEEcCccc
Confidence 445567788999999999999997643 3332 233446666655444
No 414
>PRK10436 hypothetical protein; Provisional
Probab=87.43 E-value=1 Score=55.49 Aligned_cols=46 Identities=20% Similarity=0.287 Sum_probs=28.3
Q ss_pred HHHHHHHHHh-cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 170 YRQDILRRIY-GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 170 qq~~I~~al~-~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+.+.+..++. .+..++|+|||||||||.+-..+... .....+|+-+
T Consensus 206 ~~~~l~~~~~~~~GliLvtGpTGSGKTTtL~a~l~~~-~~~~~~i~Ti 252 (462)
T PRK10436 206 QLAQFRQALQQPQGLILVTGPTGSGKTVTLYSALQTL-NTAQINICSV 252 (462)
T ss_pred HHHHHHHHHHhcCCeEEEECCCCCChHHHHHHHHHhh-CCCCCEEEEe
Confidence 3444555554 55788999999999999765444332 2223455443
No 415
>PRK09087 hypothetical protein; Validated
Probab=87.36 E-value=2.2 Score=47.60 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=15.1
Q ss_pred CCeEEEEcCCCChhhHHHH
Q 000854 181 EQILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqip 199 (1252)
++.++|.||+|||||+.+-
T Consensus 44 ~~~l~l~G~~GsGKThLl~ 62 (226)
T PRK09087 44 SPVVVLAGPVGSGKTHLAS 62 (226)
T ss_pred CCeEEEECCCCCCHHHHHH
Confidence 4557779999999997544
No 416
>PRK04841 transcriptional regulator MalT; Provisional
Probab=87.35 E-value=2.7 Score=55.93 Aligned_cols=25 Identities=24% Similarity=0.468 Sum_probs=21.8
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHh
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle 204 (1252)
..++++|+||.|.||||.+.+|+..
T Consensus 31 ~~~~~~v~apaG~GKTtl~~~~~~~ 55 (903)
T PRK04841 31 NYRLVLVTSPAGYGKTTLISQWAAG 55 (903)
T ss_pred CCCeEEEECCCCCCHHHHHHHHHHh
Confidence 4578999999999999999998853
No 417
>PF00265 TK: Thymidine kinase; InterPro: IPR001267 Thymidine kinase (TK) (2.7.1.21 from EC) is an ubiquitous enzyme that catalyzes the ATP-dependent phosphorylation of thymidine. Two different families of Thymidine kinase have been identified [, ] and are represented in this entry; one groups together Thymidine kinase from herpesviruses, as well as cytosolic thymidylate kinases and the second family groups Thymidine kinase from various sources that include, vertebrates, bacteria, the Bacteriophage T4, poxviruses, African swine fever virus (ASFV) and Fish lymphocystis disease virus (FLDV). The major capsid protein of insect iridescent viruses also belongs to this family.; GO: 0004797 thymidine kinase activity, 0005524 ATP binding; PDB: 1XX6_B 2J9R_A 2J87_B 3E2I_A 2JA1_A 2UZ3_B 2B8T_B 2WVJ_A 1W4R_F 1XBT_F ....
Probab=87.15 E-value=0.98 Score=48.46 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=26.9
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
+..++.||-+||||+.+.+.+.... ..+.+++++.|.
T Consensus 2 ~l~~i~GpM~sGKS~eLi~~~~~~~-~~~~~v~~~kp~ 38 (176)
T PF00265_consen 2 KLEFITGPMFSGKSTELIRRIHRYE-IAGKKVLVFKPA 38 (176)
T ss_dssp EEEEEEESTTSSHHHHHHHHHHHHH-HTT-EEEEEEES
T ss_pred EEEEEECCcCChhHHHHHHHHHHHH-hCCCeEEEEEec
Confidence 3567789999999999887775432 235678887776
No 418
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=87.15 E-value=1.4 Score=42.88 Aligned_cols=75 Identities=21% Similarity=0.306 Sum_probs=48.8
Q ss_pred EEEecCCCCCCChHHHHHHHhhccCcceeeeeec-cc-----CCCCccccceEEEEecCchhhccccccCCeeecCceee
Q 000854 927 VDVYHSNANILDDKELLMFLEKNASGSICSIHKF-AV-----GQDSDEKDKWGRVTFLTPDTAGKATELNGVEYNGSLLK 1000 (1252)
Q Consensus 927 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1000 (1252)
|-||..... +-..+|..+++ -|.|...+.. +. .........|=+|+|.+|..|.+|+.-||.-|.|+.+=
T Consensus 9 VtVFGfp~~--~~~~Vl~~F~~--~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~mv 84 (100)
T PF05172_consen 9 VTVFGFPPS--ASNQVLRHFSS--FGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLMV 84 (100)
T ss_dssp EEEE---GG--GHHHHHHHHHC--CS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEEE
T ss_pred EEEEccCHH--HHHHHHHHHHh--cceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEEE
Confidence 455553333 33456677744 4678777522 11 11234578899999999999999999999999999887
Q ss_pred eeccc
Q 000854 1001 VVPSR 1005 (1252)
Q Consensus 1001 ~~~~~ 1005 (1252)
.||.+
T Consensus 85 GV~~~ 89 (100)
T PF05172_consen 85 GVKPC 89 (100)
T ss_dssp EEEE-
T ss_pred EEEEc
Confidence 77655
No 419
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=87.07 E-value=0.83 Score=56.57 Aligned_cols=52 Identities=23% Similarity=0.351 Sum_probs=38.4
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
|.+...-.|.-.++++.|||||| |+.+....+++|.+..=++.+..|+ ||-+
T Consensus 107 i~e~v~y~P~~~ryKVyiIDEvH--MLS~~afNALLKTLEEPP~hV~FIl--ATTe 158 (515)
T COG2812 107 IIEKVNYAPSEGRYKVYIIDEVH--MLSKQAFNALLKTLEEPPSHVKFIL--ATTE 158 (515)
T ss_pred HHHHhccCCccccceEEEEecHH--hhhHHHHHHHhcccccCccCeEEEE--ecCC
Confidence 45555556688899999999999 7888888999998865554444444 5644
No 420
>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt
Probab=86.96 E-value=2.4 Score=44.66 Aligned_cols=32 Identities=22% Similarity=0.135 Sum_probs=23.0
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhc
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCR 308 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~ 308 (1252)
.+.+-+++++||-- ..+|.+....+...+...
T Consensus 106 l~~~p~~lllDEPt-~~LD~~~~~~l~~~l~~~ 137 (166)
T cd03223 106 LLHKPKFVFLDEAT-SALDEESEDRLYQLLKEL 137 (166)
T ss_pred HHcCCCEEEEECCc-cccCHHHHHHHHHHHHHh
Confidence 34566899999998 778877766666655543
No 421
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=86.91 E-value=2 Score=43.85 Aligned_cols=38 Identities=18% Similarity=0.261 Sum_probs=25.7
Q ss_pred eEEEEccccccccchhhHHHHHHHHHhc-cCCCcEEeeccC
Q 000854 281 SCIIVDEAHERSLNTDLLLALVKDLLCR-RFDLRLVIMSAT 320 (1252)
Q Consensus 281 s~IVIDEaHER~l~~d~ll~llk~l~~~-~~~lqiIlmSAT 320 (1252)
..++|+|+|+ ++.+....+...+... ..+.|+|..|.+
T Consensus 71 gtL~l~~i~~--L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~ 109 (138)
T PF14532_consen 71 GTLYLKNIDR--LSPEAQRRLLDLLKRQERSNVRLIASSSQ 109 (138)
T ss_dssp SEEEEECGCC--S-HHHHHHHHHHHHHCTTTTSEEEEEECC
T ss_pred CEEEECChHH--CCHHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence 6799999994 6666666666666543 566788777666
No 422
>TIGR01074 rep ATP-dependent DNA helicase Rep. Designed to identify rep members of the uvrD/rep subfamily.
Probab=86.76 E-value=0.96 Score=58.34 Aligned_cols=92 Identities=16% Similarity=0.148 Sum_probs=58.1
Q ss_pred CeEEEEcCCCChhhHHHHHHHHh---cccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCe
Q 000854 182 QILVLIGETGCGKSTQLVQFLAD---SGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSK 258 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle---~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~ 258 (1252)
..++|.|..|||||+.+..-+.. ..-....+|+++..|+-+|.++-+++.+.++.. ...+
T Consensus 15 ~~~~V~Ag~GSGKT~~L~~ri~~ll~~~~~~p~~IL~vTFt~~Aa~em~~Rl~~~l~~~-----------------~~~~ 77 (664)
T TIGR01074 15 GPCLVLAGAGSGKTRVITNKIAYLIQNCGYKARNIAAVTFTNKAAREMKERVAKTLGKG-----------------EARG 77 (664)
T ss_pred CCEEEEecCCCCHHHHHHHHHHHHHHhcCCCHHHeEEEeccHHHHHHHHHHHHHHhCcc-----------------ccCC
Confidence 34555799999999886554433 211234589999999999999999998875210 1245
Q ss_pred EEEEChHHHHHHHhcCC--CCC-ceeEEEEccccc
Q 000854 259 VIYMTDHCLLQHFMNDR--DLS-RISCIIVDEAHE 290 (1252)
Q Consensus 259 Iiv~Tpg~Ll~~L~~~~--~L~-~ls~IVIDEaHE 290 (1252)
+.|.|-..|...+.... .+. .-.+-|+|+.+.
T Consensus 78 v~v~TfHs~a~~il~~~~~~~g~~~~~~il~~~~~ 112 (664)
T TIGR01074 78 LTISTFHTLGLDIIKREYNALGYKSNFSLFDETDQ 112 (664)
T ss_pred eEEEeHHHHHHHHHHHHHHHhCCCCCCEEeCHHHH
Confidence 78889887754443221 000 112457788763
No 423
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=86.58 E-value=3.1 Score=52.68 Aligned_cols=36 Identities=19% Similarity=0.243 Sum_probs=20.7
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQ 217 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~q 217 (1252)
+.++|.|++|+|||..+-.+..+.. ...+.+++++.
T Consensus 315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit 351 (617)
T PRK14086 315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351 (617)
T ss_pred CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee
Confidence 4477789999999964333222211 11244666653
No 424
>cd03239 ABC_SMC_head The structural maintenance of chromosomes (SMC) proteins are essential for successful chromosome transmission during replication and segregation of the genome in all organisms. SMCs are generally present as single proteins in bacteria, and as at least six distinct proteins in eukaryotes. The proteins range in size from approximately 110 to 170 kDa, and each has five distinct domains: amino- and carboxy-terminal globular domains, which contain sequences characteristic of ATPases, two coiled-coil regions separating the terminal domains , and a central flexible hinge. SMC proteins 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.
Probab=86.33 E-value=3.1 Score=44.60 Aligned_cols=41 Identities=7% Similarity=0.073 Sum_probs=27.5
Q ss_pred CceeEEEEccccccccchhhHHHHHHHHHhccC-CCcEEeecc
Q 000854 278 SRISCIIVDEAHERSLNTDLLLALVKDLLCRRF-DLRLVIMSA 319 (1252)
Q Consensus 278 ~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~-~lqiIlmSA 319 (1252)
.+-+++++||.. ..+|......+.+.+..... +..+|+.|-
T Consensus 115 ~~p~llilDEp~-~~LD~~~~~~i~~~L~~~~~~g~tiIiiSH 156 (178)
T cd03239 115 KPSPFYVLDEID-AALDPTNRRRVSDMIKEMAKHTSQFIVITL 156 (178)
T ss_pred CCCCEEEEECCC-CCCCHHHHHHHHHHHHHHHhCCCEEEEEEC
Confidence 566899999999 78887776666665554332 355555543
No 425
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=86.32 E-value=3.6 Score=53.48 Aligned_cols=19 Identities=37% Similarity=0.483 Sum_probs=15.3
Q ss_pred CeEEEEcCCCChhhHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq 200 (1252)
..+++.||+|+|||+.+-.
T Consensus 53 ~slLL~GPpGtGKTTLA~a 71 (725)
T PRK13341 53 GSLILYGPPGVGKTTLARI 71 (725)
T ss_pred ceEEEECCCCCCHHHHHHH
Confidence 4678899999999986543
No 426
>TIGR02538 type_IV_pilB type IV-A pilus assembly ATPase PilB. This model describes a protein of type IV pilus biogenesis designated PilB in Pseudomonas aeruginosa but PilF in Neisseria gonorrhoeae; the more common usage, reflected here, is PilB. This protein is an ATPase involved in protein export for pilin assembly and is closely related to GspE (TIGR02533) of type II secretion, also called the main terminal branch of the general secretion pathway. Note that type IV pilus systems are often divided into type IV-A and IV-B, with the latter group including bundle-forming pilus, mannose-sensitive hemagglutinin, etc. Members of this family are found in type IV-A systems.
Probab=86.18 E-value=1.2 Score=56.31 Aligned_cols=34 Identities=26% Similarity=0.376 Sum_probs=24.3
Q ss_pred HHHHHHHHHHh-cCCeEEEEcCCCChhhHHHHHHH
Q 000854 169 MYRQDILRRIY-GEQILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 169 ~qq~~I~~al~-~~~vvII~apTGSGKTtqipq~L 202 (1252)
.+.+.+..++. .+..++|+|||||||||.+-..+
T Consensus 303 ~~~~~l~~~~~~~~Glilv~G~tGSGKTTtl~a~l 337 (564)
T TIGR02538 303 DQKALFLEAIHKPQGMVLVTGPTGSGKTVSLYTAL 337 (564)
T ss_pred HHHHHHHHHHHhcCCeEEEECCCCCCHHHHHHHHH
Confidence 44555666555 45788899999999999764444
No 427
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=86.08 E-value=2.3 Score=45.63 Aligned_cols=46 Identities=13% Similarity=0.148 Sum_probs=28.3
Q ss_pred CCc--eeEEEEccccccccchhhHHHHHHHHHhcc-CCCcEEeeccCCCHHH
Q 000854 277 LSR--ISCIIVDEAHERSLNTDLLLALVKDLLCRR-FDLRLVIMSATADAHQ 325 (1252)
Q Consensus 277 L~~--ls~IVIDEaHER~l~~d~ll~llk~l~~~~-~~lqiIlmSATld~~~ 325 (1252)
+.+ -+++++||.- ..+|......+...+.... .+.-+|+ +|-+.+.
T Consensus 103 ~~~~~p~llLlDEPt-~~LD~~~~~~l~~~l~~~~~~g~tvIi--vSH~~~~ 151 (176)
T cd03238 103 FSEPPGTLFILDEPS-TGLHQQDINQLLEVIKGLIDLGNTVIL--IEHNLDV 151 (176)
T ss_pred hhCCCCCEEEEeCCc-ccCCHHHHHHHHHHHHHHHhCCCEEEE--EeCCHHH
Confidence 445 6899999998 7888776666666555433 2344444 4444443
No 428
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=86.04 E-value=1.7 Score=55.90 Aligned_cols=68 Identities=21% Similarity=0.221 Sum_probs=49.0
Q ss_pred CCChHHHHHHHHHHHhc---C-CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhc
Q 000854 164 GLPIYMYRQDILRRIYG---E-QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESR 235 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~---~-~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~ 235 (1252)
..|.-.|..+|-..+.+ + ...++.|-||||||..+...+... +..+||+.|...+|.|++..++..+.
T Consensus 8 ~~~~~~Q~~ai~~l~~~~~~~~~~~~l~Gvtgs~kt~~~a~~~~~~----~~p~Lvi~~n~~~A~ql~~el~~f~p 79 (655)
T TIGR00631 8 FQPAGDQPKAIAKLVEGLTDGEKHQTLLGVTGSGKTFTMANVIAQV----NRPTLVIAHNKTLAAQLYNEFKEFFP 79 (655)
T ss_pred CCCChHHHHHHHHHHHhhhcCCCcEEEECCCCcHHHHHHHHHHHHh----CCCEEEEECCHHHHHHHHHHHHHhCC
Confidence 35666777666555432 2 233467999999998776655432 34689999999999999999988864
No 429
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=86.03 E-value=3.9 Score=53.51 Aligned_cols=38 Identities=24% Similarity=0.297 Sum_probs=24.5
Q ss_pred ccCCCChHHHHHHHHHHHh-----cCCeEEEEcCCCChhhHHH
Q 000854 161 LEDGLPIYMYRQDILRRIY-----GEQILVLIGETGCGKSTQL 198 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~-----~~~vvII~apTGSGKTtqi 198 (1252)
-+..-|+.-+..+|-..+. ...++++.||+|+|||+.+
T Consensus 178 ~~~l~~~igr~~ei~~~~~~L~~~~~~n~lL~G~pG~GKT~l~ 220 (731)
T TIGR02639 178 NGKIDPLIGREDELERTIQVLCRRKKNNPLLVGEPGVGKTAIA 220 (731)
T ss_pred cCCCCcccCcHHHHHHHHHHHhcCCCCceEEECCCCCCHHHHH
Confidence 3444466656555544443 2456777899999999764
No 430
>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]
Probab=86.02 E-value=3.1 Score=53.64 Aligned_cols=137 Identities=20% Similarity=0.246 Sum_probs=72.2
Q ss_pred HHHHHHHHh---cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec-------CcHHHHHHHHHHHHHHHhcCCCCC
Q 000854 171 RQDILRRIY---GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT-------QPRKIAAISLAQRVREESRGCYED 240 (1252)
Q Consensus 171 q~~I~~al~---~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~-------qPrR~LA~qva~rv~~~~~~~~~~ 240 (1252)
+..+.+.+. +.+.++|++|.|+||||.+.++... ...+..|..+ .|-|-+ ..+..-+.+..... ++
T Consensus 24 R~rL~~~L~~~~~~RL~li~APAGfGKttl~aq~~~~--~~~~~~v~Wlslde~dndp~rF~-~yLi~al~~~~p~~-~~ 99 (894)
T COG2909 24 RPRLLDRLRRANDYRLILISAPAGFGKTTLLAQWREL--AADGAAVAWLSLDESDNDPARFL-SYLIAALQQATPTL-GD 99 (894)
T ss_pred cHHHHHHHhcCCCceEEEEeCCCCCcHHHHHHHHHHh--cCcccceeEeecCCccCCHHHHH-HHHHHHHHHhCccc-cH
Confidence 344444444 3478999999999999999999741 1223344443 344332 22222222221110 00
Q ss_pred ceEEEecCCCccccCCCeEEEEChHHHHHHHhcCC-CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 241 DSVICYPSFSSAQHFDSKVIYMTDHCLLQHFMNDR-DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 241 ~~vg~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~~-~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
... .... .+. +..-..+++.+..+- ...+-=++|+|..| +.-+...-.++-..+...++++.+|+.|=
T Consensus 100 ~a~--~l~q-------~~~-~~~l~~l~~~L~~Ela~~~~pl~LVlDDyH-li~~~~l~~~l~fLl~~~P~~l~lvv~SR 168 (894)
T COG2909 100 EAQ--TLLQ-------KHQ-YVSLESLLSSLLNELASYEGPLYLVLDDYH-LISDPALHEALRFLLKHAPENLTLVVTSR 168 (894)
T ss_pred HHH--HHHH-------hcc-cccHHHHHHHHHHHHHhhcCceEEEecccc-ccCcccHHHHHHHHHHhCCCCeEEEEEec
Confidence 000 0000 000 111122333332211 22233589999999 77777666666666667888999999887
Q ss_pred CCC
Q 000854 320 TAD 322 (1252)
Q Consensus 320 Tld 322 (1252)
+-+
T Consensus 169 ~rP 171 (894)
T COG2909 169 SRP 171 (894)
T ss_pred cCC
Confidence 733
No 431
>PRK05564 DNA polymerase III subunit delta'; Validated
Probab=85.86 E-value=4.8 Score=46.99 Aligned_cols=47 Identities=9% Similarity=0.059 Sum_probs=30.5
Q ss_pred HhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 271 FMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 271 L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
+...+..++.+++||||+|. ++..-...+++.+..-+++..+| +.++
T Consensus 85 ~~~~p~~~~~kv~iI~~ad~--m~~~a~naLLK~LEepp~~t~~i-l~~~ 131 (313)
T PRK05564 85 VNKKPYEGDKKVIIIYNSEK--MTEQAQNAFLKTIEEPPKGVFII-LLCE 131 (313)
T ss_pred HhcCcccCCceEEEEechhh--cCHHHHHHHHHHhcCCCCCeEEE-EEeC
Confidence 33566778899999999993 34555667777766433344444 4444
No 432
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=85.86 E-value=2.1 Score=47.42 Aligned_cols=18 Identities=33% Similarity=0.667 Sum_probs=15.7
Q ss_pred CeEEEEcCCCChhhHHHH
Q 000854 182 QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqip 199 (1252)
.+++++||+|+||||.+.
T Consensus 49 P~liisGpPG~GKTTsi~ 66 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSIL 66 (333)
T ss_pred CceEeeCCCCCchhhHHH
Confidence 578889999999999764
No 433
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=85.74 E-value=0.83 Score=51.13 Aligned_cols=52 Identities=17% Similarity=0.219 Sum_probs=35.9
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
.+..++|.|++|||||+...+++.+.. ..+.+++++. +.+...++.++++..
T Consensus 20 ~gs~~lI~G~pGsGKT~la~~~l~~~~-~~ge~~lyvs-~ee~~~~i~~~~~~~ 71 (237)
T TIGR03877 20 ERNVVLLSGGPGTGKSIFSQQFLWNGL-QMGEPGIYVA-LEEHPVQVRRNMAQF 71 (237)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCCcEEEEE-eeCCHHHHHHHHHHh
Confidence 467888999999999999999888754 3344555543 334555666665543
No 434
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=85.73 E-value=1.6 Score=55.29 Aligned_cols=39 Identities=23% Similarity=0.235 Sum_probs=24.3
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
+++-.++|+|||. -.+|..--..+.+.+....++ |++++
T Consensus 481 l~~~~ILILDEaT-SalD~~tE~~I~~~l~~l~~~-rT~ii 519 (567)
T COG1132 481 LRNPPILILDEAT-SALDTETEALIQDALKKLLKG-RTTLI 519 (567)
T ss_pred hcCCCEEEEeccc-cccCHHhHHHHHHHHHHHhcC-CEEEE
Confidence 4445789999998 677776666666665544444 34443
No 435
>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB. Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.
Probab=85.61 E-value=0.87 Score=54.28 Aligned_cols=21 Identities=48% Similarity=0.672 Sum_probs=17.7
Q ss_pred cCCeEEEEcCCCChhhHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq 200 (1252)
.+..++|+|||||||||.+-.
T Consensus 133 ~~glilI~GpTGSGKTTtL~a 153 (358)
T TIGR02524 133 QEGIVFITGATGSGKSTLLAA 153 (358)
T ss_pred cCCEEEEECCCCCCHHHHHHH
Confidence 568899999999999997543
No 436
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=85.57 E-value=4 Score=49.30 Aligned_cols=20 Identities=25% Similarity=0.361 Sum_probs=15.4
Q ss_pred CeEEEEcCCCChhhHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~ 201 (1252)
..+++.||+|+|||+.+-..
T Consensus 166 ~gvLL~GppGtGKT~lAkai 185 (389)
T PRK03992 166 KGVLLYGPPGTGKTLLAKAV 185 (389)
T ss_pred CceEEECCCCCChHHHHHHH
Confidence 45777999999999865433
No 437
>COG3973 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=85.53 E-value=1.4 Score=54.47 Aligned_cols=54 Identities=20% Similarity=0.329 Sum_probs=37.2
Q ss_pred cCCeEEEEcCCCChhhHHHHHHH---Hhc--ccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFL---ADS--GIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~L---le~--~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
.+.+++|+|..||||||++++-+ +-. +.-..+.|+++.|.|....-++..+-++
T Consensus 225 k~~ilVVQGaAGSGKTtiALHRvAyLlY~~R~~l~~k~vlvl~PN~vFleYis~VLPeL 283 (747)
T COG3973 225 KNKILVVQGAAGSGKTTIALHRVAYLLYGYRGPLQAKPVLVLGPNRVFLEYISRVLPEL 283 (747)
T ss_pred CCCeEEEecCCCCCchhHHHHHHHHHHhccccccccCceEEEcCcHHHHHHHHHhchhh
Confidence 45688999999999999865543 322 1122345999999999876666554443
No 438
>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.
Probab=85.26 E-value=1.4 Score=48.61 Aligned_cols=26 Identities=27% Similarity=0.466 Sum_probs=21.5
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhc
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADS 205 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~ 205 (1252)
.++++.|.|++|+|||+.+.+++...
T Consensus 18 ~g~v~~I~G~~GsGKT~l~~~ia~~~ 43 (226)
T cd01393 18 TGRITEIFGEFGSGKTQLCLQLAVEA 43 (226)
T ss_pred CCcEEEEeCCCCCChhHHHHHHHHHh
Confidence 46899999999999999877776553
No 439
>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.
Probab=85.17 E-value=2.3 Score=45.29 Aligned_cols=45 Identities=16% Similarity=0.234 Sum_probs=31.6
Q ss_pred EEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 184 LVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 184 vII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
++|.|++|||||+...+++... +.+++++...+..-..+.+++..
T Consensus 2 ~li~G~~~sGKS~~a~~~~~~~----~~~~~y~at~~~~d~em~~rI~~ 46 (169)
T cd00544 2 ILVTGGARSGKSRFAERLAAEL----GGPVTYIATAEAFDDEMAERIAR 46 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHhc----CCCeEEEEccCcCCHHHHHHHHH
Confidence 5678999999999888887652 34677665555555556666655
No 440
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=85.13 E-value=3.4 Score=50.85 Aligned_cols=40 Identities=25% Similarity=0.340 Sum_probs=24.3
Q ss_pred CCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEe
Q 000854 275 RDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVI 316 (1252)
Q Consensus 275 ~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIl 316 (1252)
+...+.++|||||+| + +..+....+++.+..-++...+|+
T Consensus 117 ~~~~~~kvvIIdead-~-lt~~~~n~LLk~lEep~~~~~~Il 156 (451)
T PRK06305 117 PSKSRYKIYIIDEVH-M-LTKEAFNSLLKTLEEPPQHVKFFL 156 (451)
T ss_pred hhcCCCEEEEEecHH-h-hCHHHHHHHHHHhhcCCCCceEEE
Confidence 345678999999999 3 333444555555554444444444
No 441
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=85.13 E-value=2.1 Score=55.93 Aligned_cols=101 Identities=17% Similarity=0.197 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHH---HhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEE
Q 000854 168 YMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFL---ADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVI 244 (1252)
Q Consensus 168 ~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~L---le~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg 244 (1252)
..|++++ ... . ..++|.|..|||||+.+..-+ ++..-....+|+++.-|+-+|..+.+|+.+..+.
T Consensus 7 ~~Q~~av-~~~-~-g~~lV~AgaGSGKT~~l~~ria~Li~~~~i~P~~IL~lTFT~kAA~em~~Rl~~~~~~-------- 75 (726)
T TIGR01073 7 PEQREAV-KTT-E-GPLLIMAGAGSGKTRVLTHRIAHLIAEKNVAPWNILAITFTNKAAREMKERVEKLLGP-------- 75 (726)
T ss_pred HHHHHHH-hCC-C-CCEEEEeCCCCCHHHHHHHHHHHHHHcCCCCHHHeeeeeccHHHHHHHHHHHHHHhcc--------
Confidence 3444444 332 3 345556999999998755443 3322123458999999999999999999886421
Q ss_pred EecCCCccccCCCeEEEEChHHHHHHHhcC-CC-CC-ceeEEEEcccc
Q 000854 245 CYPSFSSAQHFDSKVIYMTDHCLLQHFMND-RD-LS-RISCIIVDEAH 289 (1252)
Q Consensus 245 ~~~~~~~~~~~~t~Iiv~Tpg~Ll~~L~~~-~~-L~-~ls~IVIDEaH 289 (1252)
...++.++|-..+...+... .. +. .-.+-|+|+.+
T Consensus 76 ----------~~~~~~i~TFHs~~~~iLr~~~~~~g~~~~f~i~d~~~ 113 (726)
T TIGR01073 76 ----------VAEDIWISTFHSMCVRILRRDIDRIGINRNFSIIDPTD 113 (726)
T ss_pred ----------ccCCcEEEcHHHHHHHHHHHHHHHhCCCCCCCcCCHHH
Confidence 01357789987664433222 11 10 12345778776
No 442
>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]
Probab=85.05 E-value=3.5 Score=48.37 Aligned_cols=27 Identities=26% Similarity=0.283 Sum_probs=19.6
Q ss_pred HHHHHHhcC--CeEEEEcCCCChhhHHHH
Q 000854 173 DILRRIYGE--QILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 173 ~I~~al~~~--~vvII~apTGSGKTtqip 199 (1252)
-+-..++.+ ..+|+.||.|+|||+.+-
T Consensus 152 llrs~ieq~~ipSmIlWGppG~GKTtlAr 180 (554)
T KOG2028|consen 152 LLRSLIEQNRIPSMILWGPPGTGKTTLAR 180 (554)
T ss_pred HHHHHHHcCCCCceEEecCCCCchHHHHH
Confidence 344555665 457889999999998654
No 443
>PRK06090 DNA polymerase III subunit delta'; Validated
Probab=84.78 E-value=2.6 Score=49.46 Aligned_cols=51 Identities=14% Similarity=0.140 Sum_probs=33.8
Q ss_pred HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 267 LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 267 Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
+.+.+...+..+.++++|||+|| .++.....+++|.+..=+++.-+|+.|.
T Consensus 96 l~~~~~~~~~~~~~kV~iI~~ae--~m~~~AaNaLLKtLEEPp~~t~fiL~t~ 146 (319)
T PRK06090 96 CNRLAQESSQLNGYRLFVIEPAD--AMNESASNALLKTLEEPAPNCLFLLVTH 146 (319)
T ss_pred HHHHHhhCcccCCceEEEecchh--hhCHHHHHHHHHHhcCCCCCeEEEEEEC
Confidence 44455555677889999999999 3456667778887765444444444433
No 444
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=84.72 E-value=8 Score=45.07 Aligned_cols=126 Identities=13% Similarity=0.118 Sum_probs=53.1
Q ss_pred EEcCCCChhhHHHHHHHHhcccccC--CeEEecCcHHHHHHHHHHH---HHHHhcCCCCCceEEEecCCCcc--ccCCCe
Q 000854 186 LIGETGCGKSTQLVQFLADSGIAAE--QSIVCTQPRKIAAISLAQR---VREESRGCYEDDSVICYPSFSSA--QHFDSK 258 (1252)
Q Consensus 186 I~apTGSGKTtqipq~Lle~~~~~~--~~ILv~qPrR~LA~qva~r---v~~~~~~~~~~~~vg~~~~~~~~--~~~~t~ 258 (1252)
+.++.|+|||+.+...++....... ..+++....+.+...+... +...... .. ........+.. ...+..
T Consensus 2 i~~~r~~GKT~~~~~~~~~~~~~~~~~~~vi~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~~nG~~ 78 (384)
T PF03237_consen 2 INGGRGSGKTTLIAIWFLWWALTRPPGRRVIIASTYRQARDIFGRFWKGIIELLPS-WF--EIKFNEWNDRKIILPNGSR 78 (384)
T ss_dssp EEE-SSS-HHHHHHHHHHHHHHSSSS--EEEEEESSHHHHHHHHHHHHHHHHTS-T-TT--S--EEEE-SSEEEETTS-E
T ss_pred CcCCccccHHHHHHHHHHHHHhhCCCCcEEEEecCHHHHHHHHHHhHHHHHHHHHH-hc--CcccccCCCCcEEecCceE
Confidence 4689999999986665554433333 4666664455555543332 2222212 11 11111111111 124455
Q ss_pred EEEEChHH--HHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 259 VIYMTDHC--LLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 259 Iiv~Tpg~--Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
|.+.+.+. -...+.. ..++.+++||+-. ...+.....+............+..|-|
T Consensus 79 i~~~~~~~~~~~~~~~G----~~~~~i~iDE~~~--~~~~~~~~~~~~~~~~~~~~~~~~~s~p 136 (384)
T PF03237_consen 79 IQFRGADSPDSGDNIRG----FEYDLIIIDEAAK--VPDDAFSELIRRLRATWGGSIRMYISTP 136 (384)
T ss_dssp EEEES-----SHHHHHT----S--SEEEEESGGG--STTHHHHHHHHHHHHCSTT--EEEEEE-
T ss_pred EEEeccccccccccccc----cccceeeeeeccc--CchHHHHHHHHhhhhcccCcceEEeecC
Confidence 76666332 1122222 4678999999872 3233344444444444433333344544
No 445
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=84.66 E-value=1.2 Score=53.48 Aligned_cols=51 Identities=20% Similarity=0.271 Sum_probs=33.7
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVRE 232 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~ 232 (1252)
.+.+++|.|++|+|||+.+.+++..... .+.+++++.- .+...|+..+...
T Consensus 81 ~GslvLI~G~pG~GKStLllq~a~~~a~-~g~~VlYvs~-EEs~~qi~~Ra~r 131 (372)
T cd01121 81 PGSVILIGGDPGIGKSTLLLQVAARLAK-RGGKVLYVSG-EESPEQIKLRADR 131 (372)
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEEC-CcCHHHHHHHHHH
Confidence 3678999999999999988887765432 2356776533 2334555555443
No 446
>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=84.47 E-value=9.3 Score=43.01 Aligned_cols=51 Identities=18% Similarity=0.120 Sum_probs=37.0
Q ss_pred ceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHhhh
Q 000854 279 RISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSKYF 330 (1252)
Q Consensus 279 ~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~~f 330 (1252)
+-.++|+||.= -++|..-...+++.+.....+...-++.+|-+.+.+..|-
T Consensus 156 ~P~iliLDEPt-a~LD~~~~~~l~~~l~~L~~~~~~tii~~tHd~~~~~~~a 206 (235)
T COG1122 156 GPEILLLDEPT-AGLDPKGRRELLELLKKLKEEGGKTIIIVTHDLELVLEYA 206 (235)
T ss_pred CCCEEEEcCCC-CCCCHHHHHHHHHHHHHHHhcCCCeEEEEeCcHHHHHhhC
Confidence 45799999998 6888877777777777666554444556777777766654
No 447
>TIGR02655 circ_KaiC circadian clock protein KaiC. Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.
Probab=84.39 E-value=1.4 Score=54.70 Aligned_cols=52 Identities=17% Similarity=0.272 Sum_probs=37.1
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
.+.+++|.||+|+|||+...|++.+... .+.+++++. .-+...|+..+....
T Consensus 262 ~gs~~li~G~~G~GKt~l~~~f~~~~~~-~ge~~~y~s-~eEs~~~i~~~~~~l 313 (484)
T TIGR02655 262 KDSIILATGATGTGKTLLVSKFLENACA-NKERAILFA-YEESRAQLLRNAYSW 313 (484)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHHHH-CCCeEEEEE-eeCCHHHHHHHHHHc
Confidence 3578899999999999999999876532 344566543 455666777776554
No 448
>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF. Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH
Probab=84.22 E-value=4.4 Score=47.87 Aligned_cols=33 Identities=24% Similarity=0.268 Sum_probs=22.0
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhc
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFLADS 205 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~ 205 (1252)
+.+..+...+..|+|.|+||+||++.+ ..+...
T Consensus 13 ~~~~~~a~~~~pVLI~GE~GtGK~~lA-r~iH~~ 45 (329)
T TIGR02974 13 EQVSRLAPLDRPVLIIGERGTGKELIA-ARLHYL 45 (329)
T ss_pred HHHHHHhCCCCCEEEECCCCChHHHHH-HHHHHh
Confidence 344445556667788999999999754 344443
No 449
>COG5008 PilU Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.98 E-value=1 Score=50.67 Aligned_cols=39 Identities=21% Similarity=0.439 Sum_probs=26.0
Q ss_pred HhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 178 IYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+..+..++++|+|||||||.....+-.......+.|+-+
T Consensus 124 ~~kRGLviiVGaTGSGKSTtmAaMi~yRN~~s~gHIiTI 162 (375)
T COG5008 124 LAKRGLVIIVGATGSGKSTTMAAMIGYRNKNSTGHIITI 162 (375)
T ss_pred cccCceEEEECCCCCCchhhHHHHhcccccCCCCceEEe
Confidence 456788888999999999987666543332233345443
No 450
>PF12846 AAA_10: AAA-like domain
Probab=83.90 E-value=0.96 Score=51.43 Aligned_cols=43 Identities=26% Similarity=0.379 Sum_probs=29.2
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHH
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAI 224 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~ 224 (1252)
|.+++|.|+||||||+.+-.++ ......+..++++=|..+...
T Consensus 1 n~h~~i~G~tGsGKT~~~~~l~-~~~~~~g~~~~i~D~~g~~~~ 43 (304)
T PF12846_consen 1 NPHTLILGKTGSGKTTLLKNLL-EQLIRRGPRVVIFDPKGDYSP 43 (304)
T ss_pred CCeEEEECCCCCcHHHHHHHHH-HHHHHcCCCEEEEcCCchHHH
Confidence 3466778999999998766444 333444567888777755443
No 451
>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated
Probab=83.87 E-value=3.4 Score=44.96 Aligned_cols=39 Identities=18% Similarity=0.202 Sum_probs=26.9
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcH
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPR 219 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPr 219 (1252)
....+.|.+++|-|||+++.-..+.. .+.+.+|+++|=.
T Consensus 21 ~~g~v~v~~g~GkGKtt~a~g~a~ra-~g~G~~V~ivQFl 59 (191)
T PRK05986 21 EKGLLIVHTGNGKGKSTAAFGMALRA-VGHGKKVGVVQFI 59 (191)
T ss_pred cCCeEEEECCCCCChHHHHHHHHHHH-HHCCCeEEEEEEe
Confidence 44566667999999999866555543 3446678877643
No 452
>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR). DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.
Probab=83.85 E-value=2.6 Score=45.62 Aligned_cols=44 Identities=23% Similarity=0.148 Sum_probs=29.4
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
.+.+-+++++||.- ..+|.+....+.+.+......-+.++++..
T Consensus 126 l~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~~~~~~tiii~sh 169 (194)
T cd03213 126 LVSNPSLLFLDEPT-SGLDSSSALQVMSLLRRLADTGRTIICSIH 169 (194)
T ss_pred HHcCCCEEEEeCCC-cCCCHHHHHHHHHHHHHHHhCCCEEEEEec
Confidence 45566899999999 788887777766666554332345555444
No 453
>PRK05580 primosome assembly protein PriA; Validated
Probab=83.74 E-value=2 Score=55.54 Aligned_cols=73 Identities=19% Similarity=0.213 Sum_probs=60.1
Q ss_pred CCCcEEEEeCCHHHHHHHHHHcCC-CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEE
Q 000854 379 KEGTILAFLTSKMEVEWACEKFDA-PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVI 452 (1252)
Q Consensus 379 ~~g~iLVFl~s~~eie~la~~L~~-~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VI 452 (1252)
.++++||.+|++.-+.++.+.|++ .+..+..+||+++..+|.+.+... .|..+|+|+|.-+-. +.+.++.+||
T Consensus 189 ~g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g~~~IVVgTrsal~-~p~~~l~liV 263 (679)
T PRK05580 189 QGKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRGEAKVVIGARSALF-LPFKNLGLII 263 (679)
T ss_pred cCCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEeccHHhc-ccccCCCEEE
Confidence 367899999999999998888865 467899999999999999888877 788999999974432 5567777776
No 454
>TIGR02533 type_II_gspE general secretory pathway protein E. This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.
Probab=83.49 E-value=2 Score=53.36 Aligned_cols=46 Identities=28% Similarity=0.366 Sum_probs=27.8
Q ss_pred HHHHHHHHHhc-CCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 170 YRQDILRRIYG-EQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 170 qq~~I~~al~~-~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+.+.+..++.. +..++|+|||||||||.+-..+... ......|+.+
T Consensus 230 ~~~~l~~~~~~~~GlilitGptGSGKTTtL~a~L~~l-~~~~~~iiTi 276 (486)
T TIGR02533 230 LLSRFERLIRRPHGIILVTGPTGSGKTTTLYAALSRL-NTPERNILTV 276 (486)
T ss_pred HHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHhcc-CCCCCcEEEE
Confidence 44455555554 4578899999999999765444322 2223345543
No 455
>COG0630 VirB11 Type IV secretory pathway, VirB11 components, and related ATPases involved in archaeal flagella biosynthesis [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=83.41 E-value=1.9 Score=50.58 Aligned_cols=56 Identities=23% Similarity=0.220 Sum_probs=39.7
Q ss_pred CCChHHHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHH
Q 000854 164 GLPIYMYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKI 221 (1252)
Q Consensus 164 ~lP~~~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~ 221 (1252)
..+...+..-+..+++.+..++++|+|||||||.+-..+.. .....+++.+--+.+
T Consensus 126 gt~~~~~~ayL~~~ie~~~siii~G~t~sGKTt~lnall~~--Ip~~~rivtIEdt~E 181 (312)
T COG0630 126 GTISPEQAAYLWLAIEARKSIIICGGTASGKTTLLNALLDF--IPPEERIVTIEDTPE 181 (312)
T ss_pred CCCCHHHHHHHHHHHHcCCcEEEECCCCCCHHHHHHHHHHh--CCchhcEEEEecccc
Confidence 34445566668889999999999999999999976554432 233456777665544
No 456
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=83.29 E-value=2.3 Score=49.17 Aligned_cols=31 Identities=23% Similarity=0.086 Sum_probs=21.4
Q ss_pred HHHHHHHH-HHHHcCcccccCCcccccHhHHh
Q 000854 548 KAIEMAIR-NLVQLGAIKLNNGVFELTEEGKF 578 (1252)
Q Consensus 548 ~~l~~Al~-~L~~lgal~~~~~~~~lT~lGr~ 578 (1252)
..+...++ .|.+.|+|...+.+...|+.|..
T Consensus 270 ~~~~~~~e~~Li~~~li~~~~~g~~~~~~~~~ 301 (305)
T TIGR00635 270 DTIEDVYEPYLLQIGFLQRTPRGRIATELAYE 301 (305)
T ss_pred chHHHhhhHHHHHcCCcccCCchhhhhHHHHH
Confidence 35666677 68888888655555567777764
No 457
>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]
Probab=83.16 E-value=11 Score=44.19 Aligned_cols=127 Identities=20% Similarity=0.191 Sum_probs=64.5
Q ss_pred CCeEEEEcCCCChhhHHHHHHHHhc-ccccCCeEEe----cCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccC
Q 000854 181 EQILVLIGETGCGKSTQLVQFLADS-GIAAEQSIVC----TQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHF 255 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqipq~Lle~-~~~~~~~ILv----~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~ 255 (1252)
.+.+++.||-|||||+-+--.+.+. ..+.+..++= ++--+.+...++.+++.++... ....| .+..
T Consensus 49 snsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~--~k~~g---sfte---- 119 (408)
T KOG2228|consen 49 SNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLALELNRI--VKSFG---SFTE---- 119 (408)
T ss_pred CCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhh--heeec---ccch----
Confidence 3455557999999997655545441 1111111111 1224555566666666665211 01111 0000
Q ss_pred CCeEEEEChHHHHHHHhcCCCCCce-eEEEEcccccc--ccchhhHHHHHHHHHhccCCCcEEeeccCCCH
Q 000854 256 DSKVIYMTDHCLLQHFMNDRDLSRI-SCIIVDEAHER--SLNTDLLLALVKDLLCRRFDLRLVIMSATADA 323 (1252)
Q Consensus 256 ~t~Iiv~Tpg~Ll~~L~~~~~L~~l-s~IVIDEaHER--~l~~d~ll~llk~l~~~~~~lqiIlmSATld~ 323 (1252)
+-..|+..|..+..-... =++|+||+|-- ..+.-.+-.+.......+..+-++++|--.|.
T Consensus 120 -------~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~ 183 (408)
T KOG2228|consen 120 -------NLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDI 183 (408)
T ss_pred -------hHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccH
Confidence 113566666665544444 45688899821 11222344444555445556777888777774
No 458
>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=83.13 E-value=0.84 Score=51.02 Aligned_cols=71 Identities=8% Similarity=0.016 Sum_probs=47.0
Q ss_pred eEEEEChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhc-cCCCcEEeeccCCCHHHHHhhhh
Q 000854 258 KVIYMTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCR-RFDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 258 ~Iiv~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~-~~~lqiIlmSATld~~~l~~~f~ 331 (1252)
.+.--+.||..|+...-..--+.+++++||+= --.|..|..--..++... ..+.-+ +.+|-+...+.+|-.
T Consensus 144 PvktYSSGM~aRLaFsia~~~~pdILllDEvl-avGD~~F~~K~~~rl~e~~~~~~ti--v~VSHd~~~I~~~Cd 215 (249)
T COG1134 144 PVKTYSSGMYARLAFSVATHVEPDILLLDEVL-AVGDAAFQEKCLERLNELVEKNKTI--VLVSHDLGAIKQYCD 215 (249)
T ss_pred chhhccHHHHHHHHHhhhhhcCCCEEEEehhh-hcCCHHHHHHHHHHHHHHHHcCCEE--EEEECCHHHHHHhcC
Confidence 34444568888877655555577999999998 456777877777777665 344333 345666667777653
No 459
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=83.07 E-value=4.2 Score=34.98 Aligned_cols=66 Identities=24% Similarity=0.420 Sum_probs=45.8
Q ss_pred eEEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcc
Q 000854 1072 AVVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKD 1151 (1252)
Q Consensus 1072 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1151 (1252)
.|+|+|||...++++|.+.|+.. =.|. ++++.+.....
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~--g~i~----------------------------------------~~~~~~~~~~~ 38 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKF--GKVE----------------------------------------SVRIVRDKDTK 38 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhc--CCEE----------------------------------------EEEEeeCCCCC
Confidence 47899999999999999888764 1222 23333322224
Q ss_pred hhhhheeeecccccHHHHHHHhhhcCcccC
Q 000854 1152 AFMKAFITFDGRLHLEAAKALEQLEGKVLP 1181 (1252)
Q Consensus 1152 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1181 (1252)
...-|+|+|.-. -+|..|+++++|..+-
T Consensus 39 ~~~~~~v~f~s~--~~a~~a~~~~~~~~~~ 66 (74)
T cd00590 39 SKGFAFVEFEDE--EDAEKALEALNGKELG 66 (74)
T ss_pred cceEEEEEECCH--HHHHHHHHHhCCCeEC
Confidence 455688999854 6888999999998743
No 460
>CHL00176 ftsH cell division protein; Validated
Probab=83.02 E-value=5.7 Score=51.02 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=15.3
Q ss_pred CeEEEEcCCCChhhHHHHHH
Q 000854 182 QILVLIGETGCGKSTQLVQF 201 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~ 201 (1252)
..+++.||+|+|||+.+-..
T Consensus 217 ~gVLL~GPpGTGKT~LAral 236 (638)
T CHL00176 217 KGVLLVGPPGTGKTLLAKAI 236 (638)
T ss_pred ceEEEECCCCCCHHHHHHHH
Confidence 45777899999999865433
No 461
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=82.99 E-value=1.9 Score=45.83 Aligned_cols=184 Identities=22% Similarity=0.248 Sum_probs=106.5
Q ss_pred eEEEEecCCCCCCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhcccc-ccCCeeecCceeeeec
Q 000854 925 LTVDVYHSNANILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKAT-ELNGVEYNGSLLKVVP 1003 (1252)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 1003 (1252)
++|+|-+.- ..|-++|+-..+.|+ |-|..+ -+.+.. ----+.++.|-+|-.|.+|. --||-+|.|+-|.|--
T Consensus 7 ~~iyvGNLP-~diRekeieDlFyKy--g~i~~i-eLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEf 79 (241)
T KOG0105|consen 7 RRIYVGNLP-GDIREKEIEDLFYKY--GRIREI-ELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEF 79 (241)
T ss_pred ceEEecCCC-cchhhccHHHHHhhh--cceEEE-EeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEe
Confidence 566665522 346677776656333 334444 222221 23456799999999999994 4799999999999985
Q ss_pred cccccCCCCccccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCccCC
Q 000854 1004 SRATLGGDNKMYTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDKELS 1083 (1252)
Q Consensus 1004 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1083 (1252)
.+.--++....=++. ..|.+ + -|+.=-|--.+.++..-|+|||||..-|
T Consensus 80 prggr~s~~~~G~y~------------gggrg------G-------------gg~gg~rgppsrrSe~RVvVsGLp~SgS 128 (241)
T KOG0105|consen 80 PRGGRSSSDRRGSYS------------GGGRG------G-------------GGGGGRRGPPSRRSEYRVVVSGLPPSGS 128 (241)
T ss_pred ccCCCcccccccccC------------CCCCC------C-------------CCCCcccCCcccccceeEEEecCCCCCc
Confidence 554321110111110 11111 0 0222235577899999999999999999
Q ss_pred hHHHHHHHHhhcccceeeeEEeecCc---CCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcch
Q 000854 1084 EDEILGELRKVTTRRIRDLFLVRGDA---VECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDA 1152 (1252)
Q Consensus 1084 ~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1152 (1252)
-+++-|-.|.+-.--.-|++ .|. |+.-.-...+-|+ |.+-.-|+.. ++-..-+.|++-++.|.
T Consensus 129 WQDLKDHmReaGdvCfadv~---rDg~GvV~~~r~eDMkYAv-r~ld~~~~~s--eGe~~yirv~~~~~~~~ 194 (241)
T KOG0105|consen 129 WQDLKDHMREAGDVCFADVQ---RDGVGVVEYLRKEDMKYAV-RKLDDQKFRS--EGETAYIRVRGDENRDQ 194 (241)
T ss_pred hHHHHHHHHhhCCeeeeeee---cccceeeeeeehhhHHHHH-HhhccccccC--cCcEeeEEecccCCCcc
Confidence 99999999998765444443 222 2222222233333 3333333333 45556666676665554
No 462
>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ. Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).
Probab=82.78 E-value=1.9 Score=51.63 Aligned_cols=41 Identities=27% Similarity=0.363 Sum_probs=24.3
Q ss_pred hcCCeEEEEcCCCChhhHHHHHHHHhcc-cccCCeEEecCcH
Q 000854 179 YGEQILVLIGETGCGKSTQLVQFLADSG-IAAEQSIVCTQPR 219 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq~Lle~~-~~~~~~ILv~qPr 219 (1252)
..+..++|+|||||||||.+-..+-... .....+|+.+...
T Consensus 147 ~~~GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp 188 (372)
T TIGR02525 147 PAAGLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDP 188 (372)
T ss_pred hcCCEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecC
Confidence 3566788899999999997543322211 1123456655433
No 463
>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.
Probab=82.55 E-value=4 Score=43.62 Aligned_cols=65 Identities=9% Similarity=0.069 Sum_probs=36.4
Q ss_pred EChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCCHHHHHh
Q 000854 262 MTDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATADAHQLSK 328 (1252)
Q Consensus 262 ~Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld~~~l~~ 328 (1252)
.+.|.-.+.......+.+-+++++||-- ..+|......+.+.+......-+.++++ |-+.+.+.+
T Consensus 105 LS~G~~qrl~la~al~~~p~llllDEP~-~~LD~~~~~~l~~~l~~~~~~~~tiii~-sh~~~~~~~ 169 (182)
T cd03215 105 LSGGNQQKVVLARWLARDPRVLILDEPT-RGVDVGAKAEIYRLIRELADAGKAVLLI-SSELDELLG 169 (182)
T ss_pred cCHHHHHHHHHHHHHccCCCEEEECCCC-cCCCHHHHHHHHHHHHHHHHCCCEEEEE-eCCHHHHHH
Confidence 4455443333333345677899999998 7888877666666655433222344443 333344433
No 464
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=82.14 E-value=1.1 Score=49.82 Aligned_cols=39 Identities=5% Similarity=0.193 Sum_probs=28.9
Q ss_pred HhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 178 IYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
+..+++++|.|+||+|||+...+++.......+..++++
T Consensus 10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~ 48 (242)
T cd00984 10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFF 48 (242)
T ss_pred CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEE
Confidence 446789999999999999988887776544324566655
No 465
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=82.00 E-value=10 Score=47.62 Aligned_cols=148 Identities=14% Similarity=0.141 Sum_probs=87.3
Q ss_pred HHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHh-cccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecC
Q 000854 170 YRQDILRRIYGEQILVLIGETGCGKSTQLVQFLAD-SGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPS 248 (1252)
Q Consensus 170 qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle-~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~ 248 (1252)
.-++.++..+++-.+.+ -|--.|||..+...|.- ...-.+-+|.+++..|-.+.-+.+++...+....+...+..
T Consensus 192 ~s~~~l~~FKQkaTVFL-VPRRHGKTWf~VpiIsllL~s~~gI~IGYvAHqKhvs~~Vf~EI~~~lrrwF~~~~vi~--- 267 (668)
T PHA03372 192 LSESSLNIFKQKATVFL-VPRRHGKTWFIIPIISFLLKNIIGISIGYVAHQKHVSQFVLKEVEFRCRRMFPRKHTIE--- 267 (668)
T ss_pred cCHHHHHHhhccceEEE-ecccCCceehHHHHHHHHHHhhcCceEEEEeeHHHHHHHHHHHHHHHHhhhcCccceee---
Confidence 44566666777755554 59999999763332221 11123568999999999998888877655433322221110
Q ss_pred CCccccCCCeEEEEChHH-----HHHHHhcC-CCCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeeccCCC
Q 000854 249 FSSAQHFDSKVIYMTDHC-----LLQHFMND-RDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSATAD 322 (1252)
Q Consensus 249 ~~~~~~~~t~Iiv~Tpg~-----Ll~~L~~~-~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSATld 322 (1252)
.++..|.|.-||. +......+ -.-.++.+++||||| -+..+.+..++--+. -.+.|+|..|.|-.
T Consensus 268 -----~k~~tI~~s~pg~Kst~~fasc~n~NsiRGQ~fnll~VDEA~--FI~~~a~~tilgfm~--q~~~KiIfISS~Ns 338 (668)
T PHA03372 268 -----NKDNVISIDHRGAKSTALFASCYNTNSIRGQNFHLLLVDEAH--FIKKDAFNTILGFLA--QNTTKIIFISSTNT 338 (668)
T ss_pred -----ecCcEEEEecCCCcceeeehhhccCccccCCCCCEEEEehhh--ccCHHHHHHhhhhhc--ccCceEEEEeCCCC
Confidence 0122333333332 11111111 144578999999999 677888777776653 35789999999854
Q ss_pred HHHHHhhh
Q 000854 323 AHQLSKYF 330 (1252)
Q Consensus 323 ~~~l~~~f 330 (1252)
.+.-..|+
T Consensus 339 g~~sTSfL 346 (668)
T PHA03372 339 TNDATCFL 346 (668)
T ss_pred CCccchHH
Confidence 44333444
No 466
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=81.98 E-value=2.3 Score=43.06 Aligned_cols=32 Identities=19% Similarity=0.388 Sum_probs=24.4
Q ss_pred HHHHHHHHhcCCeEEEEcCCCChhhHHHHHHH
Q 000854 171 RQDILRRIYGEQILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 171 q~~I~~al~~~~vvII~apTGSGKTtqipq~L 202 (1252)
.+.+-..+..++++++.|+-|+||||-+-.++
T Consensus 5 a~~l~~~l~~g~vi~L~GdLGaGKTtf~r~l~ 36 (123)
T PF02367_consen 5 AKKLAQILKPGDVILLSGDLGAGKTTFVRGLA 36 (123)
T ss_dssp HHHHHHHHSS-EEEEEEESTTSSHHHHHHHHH
T ss_pred HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHH
Confidence 45667778899999999999999998544333
No 467
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=81.96 E-value=1.2 Score=58.47 Aligned_cols=103 Identities=17% Similarity=0.143 Sum_probs=57.1
Q ss_pred EEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecC-C-C---ccccCCCeE
Q 000854 185 VLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPS-F-S---SAQHFDSKV 259 (1252)
Q Consensus 185 II~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~-~-~---~~~~~~t~I 259 (1252)
|..+.||=|||+.+..+++-.++...+--+||+.- -||.-=++.+..... ..|.+||+... . . ....-.++|
T Consensus 186 IAEM~TGEGKTLvAtlp~yLnAL~GkgVHvVTVND-YLA~RDaewmgply~--fLGLsvg~i~~~~~~~~~rr~aY~~DI 262 (1112)
T PRK12901 186 IAEMATGEGKTLVATLPVYLNALTGNGVHVVTVND-YLAKRDSEWMGPLYE--FHGLSVDCIDKHQPNSEARRKAYNADI 262 (1112)
T ss_pred eeeecCCCCchhHHHHHHHHHHHcCCCcEEEEech-hhhhccHHHHHHHHH--HhCCceeecCCCCCCHHHHHHhCCCcc
Confidence 44799999999875444443334433333444433 344433444443331 22456665332 1 1 112246899
Q ss_pred EEEChHH-----HHHHHhcCC---CCCceeEEEEccccc
Q 000854 260 IYMTDHC-----LLQHFMNDR---DLSRISCIIVDEAHE 290 (1252)
Q Consensus 260 iv~Tpg~-----Ll~~L~~~~---~L~~ls~IVIDEaHE 290 (1252)
+|+|..- |.+.+..++ ....+.+.||||||-
T Consensus 263 tYgTn~EfGFDYLRDnm~~~~~~~vqR~~~fAIVDEvDS 301 (1112)
T PRK12901 263 TYGTNNEFGFDYLRDNMAHSPEDLVQRKHNYAIVDEVDS 301 (1112)
T ss_pred eecCCCccccccchhccccchHhhhCcCCceeEeechhh
Confidence 9999853 334333322 456789999999993
No 468
>PLN03232 ABC transporter C family member; Provisional
Probab=81.93 E-value=2.5 Score=59.53 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=17.4
Q ss_pred HhcCCeEEEEcCCCChhhHHHH
Q 000854 178 IYGEQILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqip 199 (1252)
+..++.+.|+|+|||||||.+-
T Consensus 1259 I~~GekvaIVG~SGSGKSTL~~ 1280 (1495)
T PLN03232 1259 VSPSEKVGVVGRTGAGKSSMLN 1280 (1495)
T ss_pred EcCCCEEEEECCCCCCHHHHHH
Confidence 3467777888999999998643
No 469
>TIGR00602 rad24 checkpoint protein rad24. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=81.93 E-value=5.9 Score=50.68 Aligned_cols=21 Identities=43% Similarity=0.833 Sum_probs=16.6
Q ss_pred cCCeEEEEcCCCChhhHHHHH
Q 000854 180 GEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq 200 (1252)
.++++++.||+|+||||.+-.
T Consensus 109 ~~~illL~GP~GsGKTTl~~~ 129 (637)
T TIGR00602 109 PKRILLITGPSGCGKSTTIKI 129 (637)
T ss_pred CCcEEEEECCCCCCHHHHHHH
Confidence 346688899999999986543
No 470
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=81.90 E-value=1.2 Score=43.83 Aligned_cols=17 Identities=35% Similarity=0.645 Sum_probs=14.1
Q ss_pred eEEEEcCCCChhhHHHH
Q 000854 183 ILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 183 vvII~apTGSGKTtqip 199 (1252)
+++|.|++||||||..-
T Consensus 1 vI~I~G~~gsGKST~a~ 17 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAK 17 (121)
T ss_dssp EEEEEESTTSSHHHHHH
T ss_pred CEEEECCCCCCHHHHHH
Confidence 46789999999999654
No 471
>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=81.80 E-value=3.7 Score=43.42 Aligned_cols=34 Identities=15% Similarity=0.232 Sum_probs=22.5
Q ss_pred eEEEEcCCCChhhHHHHHHHHhcccccCCeEEecC
Q 000854 183 ILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQ 217 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~q 217 (1252)
.+.|-.++|.|||+++....+.. .+.+.+|+++|
T Consensus 4 ~i~vy~g~G~Gkt~~a~g~~~ra-~~~g~~v~~vQ 37 (159)
T cd00561 4 LIQVYTGNGKGKTTAALGLALRA-LGHGYRVGVVQ 37 (159)
T ss_pred EEEEECCCCCCHHHHHHHHHHHH-HHCCCeEEEEE
Confidence 45556788999999866555543 23456777754
No 472
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=81.70 E-value=2.5 Score=43.64 Aligned_cols=82 Identities=18% Similarity=0.150 Sum_probs=50.9
Q ss_pred CCHHhhhhhcccC-C-CceEEEEechhhhhcCCCCC--eeEEEEcCCCccccccCCCC--cccc---------e--eccc
Q 000854 414 LSFDEQFCVFKSY-P-GRRKVIFATNVAETSLTIPG--VKFVIDSGMVKESYFEPGTG--MNVL---------R--VCRV 476 (1252)
Q Consensus 414 Ls~~eR~~v~~~f-~-G~~kVLVATniae~GIDIP~--V~~VId~g~pk~~~ydp~~~--~~~L---------~--~~~i 476 (1252)
....+...+++.| . +...||++|.-+..|||+|+ ++.||-.++|-.+..||... +..+ . ..+.
T Consensus 31 ~~~~~~~~~l~~f~~~~~~~iL~~~~~~~EGiD~~g~~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 110 (141)
T smart00492 31 EDGKETGKLLEKYVEACENAILLATARFSEGVDFPGDYLRAVIIDGLPFPYPDSPILKARLELLRDKGQIRPFDFVSLPD 110 (141)
T ss_pred CChhHHHHHHHHHHHcCCCEEEEEccceecceecCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhCCCCchhHHHHHH
Confidence 4444556677777 3 33479999988999999997 47888888875433333111 0100 0 1122
Q ss_pred CHhhHHHHhcccCCCCCCe
Q 000854 477 SQSSANQRAGRAGRTEPGR 495 (1252)
Q Consensus 477 Skasy~QR~GRAGR~~~G~ 495 (1252)
......|-+||+=|...-.
T Consensus 111 a~~~l~Qa~GR~iR~~~D~ 129 (141)
T smart00492 111 AMRTLAQCVGRLIRGANDY 129 (141)
T ss_pred HHHHHHHHhCccccCcCce
Confidence 2356789999999986333
No 473
>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=81.60 E-value=2.7 Score=52.49 Aligned_cols=74 Identities=16% Similarity=0.202 Sum_probs=59.7
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcCC-CCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechhhhhcCCCCCeeEEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFDA-PSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNVAETSLTIPGVKFVI 452 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~~-~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATniae~GIDIP~V~~VI 452 (1252)
..++++||.+|++.-+.++++.|++ .+..+..+||+++..+|.++.... .|..+|||+|..+-. ..++++..||
T Consensus 23 ~~g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~~~IVVGTrsalf-~p~~~l~lII 98 (505)
T TIGR00595 23 ALGKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGEILVVIGTRSALF-LPFKNLGLII 98 (505)
T ss_pred HcCCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCCCCEEECChHHHc-CcccCCCEEE
Confidence 3467899999999999988888864 356788999999999998888776 788999999975432 4566777776
No 474
>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]
Probab=81.59 E-value=1.6 Score=48.54 Aligned_cols=21 Identities=38% Similarity=0.678 Sum_probs=17.7
Q ss_pred HhcCCeEEEEcCCCChhhHHH
Q 000854 178 IYGEQILVLIGETGCGKSTQL 198 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqi 198 (1252)
+..++.+.|.||+||||||.+
T Consensus 28 i~~Ge~vaI~GpSGSGKSTLL 48 (226)
T COG1136 28 IEAGEFVAIVGPSGSGKSTLL 48 (226)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 357788999999999999854
No 475
>TIGR03819 heli_sec_ATPase helicase/secretion neighborhood ATPase. Members of this protein family comprise a distinct clade of putative ATPase associated with an integral membrane complex likely to act in pilus formation, secretion, or conjugal transfer. The association of most members with a nearby gene for a DEAH-box helicase suggests a role in conjugal transfer.
Probab=81.39 E-value=2.2 Score=50.55 Aligned_cols=52 Identities=21% Similarity=0.256 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHH
Q 000854 169 MYRQDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIA 222 (1252)
Q Consensus 169 ~qq~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~L 222 (1252)
.+.+-+..++..+.+++|+|+|||||||.+-..+ .. .....+++++.-+.|+
T Consensus 166 ~~~~~L~~~v~~~~~ili~G~tGsGKTTll~al~-~~-i~~~~riv~iEd~~El 217 (340)
T TIGR03819 166 GVARLLRAIVAARLAFLISGGTGSGKTTLLSALL-AL-VAPDERIVLVEDAAEL 217 (340)
T ss_pred HHHHHHHHHHhCCCeEEEECCCCCCHHHHHHHHH-cc-CCCCCcEEEECCccee
Confidence 3444455567778899999999999998664333 22 2334577777777665
No 476
>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family. Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.
Probab=81.38 E-value=7 Score=50.79 Aligned_cols=41 Identities=15% Similarity=0.111 Sum_probs=28.0
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEee
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIM 317 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlm 317 (1252)
.+++-+++|+||+= -.+|......+.+.+....++..+|+.
T Consensus 616 ll~~p~iliLDE~T-s~LD~~te~~i~~~l~~~~~~~T~iiI 656 (694)
T TIGR03375 616 LLRDPPILLLDEPT-SAMDNRSEERFKDRLKRWLAGKTLVLV 656 (694)
T ss_pred HhcCCCEEEEeCCC-CCCCHHHHHHHHHHHHHHhCCCEEEEE
Confidence 45666899999998 678877777777766665555444443
No 477
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=81.38 E-value=1.7 Score=47.84 Aligned_cols=21 Identities=43% Similarity=0.738 Sum_probs=17.9
Q ss_pred HhcCCeEEEEcCCCChhhHHH
Q 000854 178 IYGEQILVLIGETGCGKSTQL 198 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqi 198 (1252)
+..+++++|+||.||||||.+
T Consensus 25 v~~Gevv~iiGpSGSGKSTlL 45 (240)
T COG1126 25 VEKGEVVVIIGPSGSGKSTLL 45 (240)
T ss_pred EcCCCEEEEECCCCCCHHHHH
Confidence 457889999999999999854
No 478
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=81.37 E-value=5.9 Score=52.75 Aligned_cols=40 Identities=30% Similarity=0.325 Sum_probs=26.3
Q ss_pred ccCCCChHHHHHHHHHHHh-----cCCeEEEEcCCCChhhHHHHH
Q 000854 161 LEDGLPIYMYRQDILRRIY-----GEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 161 ~~~~lP~~~qq~~I~~al~-----~~~vvII~apTGSGKTtqipq 200 (1252)
-+..-|+--+..+|-..+. ...+.++.||+|+|||+.+-.
T Consensus 169 ~~~~~~~igr~~ei~~~~~~l~r~~~~n~lL~G~pGvGKT~l~~~ 213 (852)
T TIGR03346 169 EGKLDPVIGRDEEIRRTIQVLSRRTKNNPVLIGEPGVGKTAIVEG 213 (852)
T ss_pred CCCCCcCCCcHHHHHHHHHHHhcCCCCceEEEcCCCCCHHHHHHH
Confidence 4444566555555555553 346777789999999986543
No 479
>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]
Probab=81.00 E-value=2.7 Score=48.70 Aligned_cols=44 Identities=16% Similarity=0.089 Sum_probs=32.4
Q ss_pred CCCceeEEEEccccccccchhhHHHHHHHHHhccCCC-cEEeeccC
Q 000854 276 DLSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDL-RLVIMSAT 320 (1252)
Q Consensus 276 ~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~l-qiIlmSAT 320 (1252)
.+.+-+++|+||-= ..+|......+...+......- .+|++|--
T Consensus 151 L~~~P~lliLDEPt-~GLDp~~~~~~~~~l~~l~~~g~~tvlissH 195 (293)
T COG1131 151 LLHDPELLILDEPT-SGLDPESRREIWELLRELAKEGGVTILLSTH 195 (293)
T ss_pred HhcCCCEEEECCCC-cCCCHHHHHHHHHHHHHHHhCCCcEEEEeCC
Confidence 45666899999998 7899888777777777665544 46666543
No 480
>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein. This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.
Probab=80.99 E-value=2.7 Score=53.21 Aligned_cols=42 Identities=17% Similarity=0.183 Sum_probs=27.2
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeecc
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMSA 319 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmSA 319 (1252)
+++-+++|+||+= -.+|.+....+.+.+....++.-+|+.|-
T Consensus 492 ~~~~~ililDEpt-s~lD~~~~~~i~~~l~~~~~~~t~IiitH 533 (576)
T TIGR02204 492 LKDAPILLLDEAT-SALDAESEQLVQQALETLMKGRTTLIIAH 533 (576)
T ss_pred HhCCCeEEEeCcc-cccCHHHHHHHHHHHHHHhCCCEEEEEec
Confidence 4455789999998 67777766666666665545544444443
No 481
>CHL00095 clpC Clp protease ATP binding subunit
Probab=80.84 E-value=6.1 Score=52.40 Aligned_cols=56 Identities=20% Similarity=0.284 Sum_probs=32.4
Q ss_pred HHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc----------CCCcEEeeccCCCHHHH
Q 000854 265 HCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR----------FDLRLVIMSATADAHQL 326 (1252)
Q Consensus 265 g~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~----------~~lqiIlmSATld~~~l 326 (1252)
|.|...+...| +++|++||+| -.+.+....+++.+..-+ -.--+++||.....+.+
T Consensus 601 ~~l~~~~~~~p----~~VvllDeie--ka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~Tsn~g~~~i 666 (821)
T CHL00095 601 GQLTEAVRKKP----YTVVLFDEIE--KAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMTSNLGSKVI 666 (821)
T ss_pred chHHHHHHhCC----CeEEEECChh--hCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEeCCcchHHH
Confidence 34555554443 5899999999 356666666666554311 11245566666555443
No 482
>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit. Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD
Probab=80.72 E-value=2.9 Score=52.43 Aligned_cols=22 Identities=36% Similarity=0.536 Sum_probs=17.5
Q ss_pred HhcCCeEEEEcCCCChhhHHHH
Q 000854 178 IYGEQILVLIGETGCGKSTQLV 199 (1252)
Q Consensus 178 l~~~~vvII~apTGSGKTtqip 199 (1252)
+..++.+.|+||+||||||.+-
T Consensus 345 i~~G~~~~ivG~sGsGKSTL~~ 366 (529)
T TIGR02857 345 VPPGERVALVGPSGAGKSTLLN 366 (529)
T ss_pred ECCCCEEEEECCCCCCHHHHHH
Confidence 3467788889999999999543
No 483
>PRK10865 protein disaggregation chaperone; Provisional
Probab=80.62 E-value=10 Score=50.52 Aligned_cols=121 Identities=20% Similarity=0.216 Sum_probs=0.0
Q ss_pred eEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCCCceEEEecCCCccccCCCeEEEE
Q 000854 183 ILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYEDDSVICYPSFSSAQHFDSKVIYM 262 (1252)
Q Consensus 183 vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~~~~vg~~~~~~~~~~~~t~Iiv~ 262 (1252)
.+++.||||+|||+.+ ..+.+.....+...+.+--....- ...+..+.+...+ .+|+...
T Consensus 600 ~~Lf~Gp~G~GKT~lA-~aLa~~l~~~~~~~i~id~se~~~---~~~~~~LiG~~pg--y~g~~~~-------------- 659 (857)
T PRK10865 600 SFLFLGPTGVGKTELC-KALANFMFDSDDAMVRIDMSEFME---KHSVSRLVGAPPG--YVGYEEG-------------- 659 (857)
T ss_pred eEEEECCCCCCHHHHH-HHHHHHhhcCCCcEEEEEhHHhhh---hhhHHHHhCCCCc--ccccchh--------------
Q ss_pred ChHHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc----------CCCcEEeeccCCCHHHHHhhhh
Q 000854 263 TDHCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR----------FDLRLVIMSATADAHQLSKYFY 331 (1252)
Q Consensus 263 Tpg~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~----------~~lqiIlmSATld~~~l~~~f~ 331 (1252)
|.|...+...+. ++|++||++ ..+.+....++..+...+ -.--+++||.....+.+.+.|+
T Consensus 660 --g~l~~~v~~~p~----~vLllDEie--ka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~TSN~g~~~~~~~~~ 730 (857)
T PRK10865 660 --GYLTEAVRRRPY----SVILLDEVE--KAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMTSNLGSDLIQERFG 730 (857)
T ss_pred --HHHHHHHHhCCC----CeEEEeehh--hCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEeCCcchHHHHHhcc
No 484
>TIGR03689 pup_AAA proteasome ATPase. In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.
Probab=80.62 E-value=8.6 Score=48.02 Aligned_cols=18 Identities=33% Similarity=0.641 Sum_probs=14.2
Q ss_pred CCeEEEEcCCCChhhHHH
Q 000854 181 EQILVLIGETGCGKSTQL 198 (1252)
Q Consensus 181 ~~vvII~apTGSGKTtqi 198 (1252)
..-+++.||+|+|||+.+
T Consensus 216 p~GILLyGPPGTGKT~LA 233 (512)
T TIGR03689 216 PKGVLLYGPPGCGKTLIA 233 (512)
T ss_pred CcceEEECCCCCcHHHHH
Confidence 345777899999999854
No 485
>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical. More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....
Probab=80.54 E-value=1.2 Score=49.24 Aligned_cols=37 Identities=22% Similarity=0.381 Sum_probs=26.4
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEec
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCT 216 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~ 216 (1252)
.+.+++|.|++|+|||+...|++.+.....+.+++++
T Consensus 18 ~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyv 54 (226)
T PF06745_consen 18 KGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYV 54 (226)
T ss_dssp TTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEE
T ss_pred CCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEE
Confidence 4678899999999999999998877543313445543
No 486
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=80.28 E-value=3.6 Score=53.36 Aligned_cols=75 Identities=13% Similarity=0.192 Sum_probs=62.5
Q ss_pred CCCCcEEEEeCCHHHHHHHHHHcC----CCCCeeEeecCCCCHHhhhhhcccC-CCceEEEEechh-hhhcCCCCCeeEE
Q 000854 378 EKEGTILAFLTSKMEVEWACEKFD----APSAVALPFHGQLSFDEQFCVFKSY-PGRRKVIFATNV-AETSLTIPGVKFV 451 (1252)
Q Consensus 378 ~~~g~iLVFl~s~~eie~la~~L~----~~~~~v~~LHg~Ls~~eR~~v~~~f-~G~~kVLVATni-ae~GIDIP~V~~V 451 (1252)
..+.+++|.+||+.-+.+.++.++ ..++.+..+||+++..+|..+++.. +|...|+|+|.. +...+.++++.+|
T Consensus 308 ~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~~~IvVgT~~ll~~~v~~~~l~lv 387 (681)
T PRK10917 308 EAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGEADIVIGTHALIQDDVEFHNLGLV 387 (681)
T ss_pred HcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCCCCEEEchHHHhcccchhcccceE
Confidence 346789999999998888776654 4578999999999999999999888 889999999974 4456778888888
Q ss_pred E
Q 000854 452 I 452 (1252)
Q Consensus 452 I 452 (1252)
|
T Consensus 388 V 388 (681)
T PRK10917 388 I 388 (681)
T ss_pred E
Confidence 7
No 487
>PRK13764 ATPase; Provisional
Probab=80.25 E-value=2 Score=54.47 Aligned_cols=22 Identities=27% Similarity=0.348 Sum_probs=17.6
Q ss_pred hcCCeEEEEcCCCChhhHHHHH
Q 000854 179 YGEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq 200 (1252)
..+..++|+|||||||||.+-.
T Consensus 255 ~~~~~ILIsG~TGSGKTTll~A 276 (602)
T PRK13764 255 ERAEGILIAGAPGAGKSTFAQA 276 (602)
T ss_pred hcCCEEEEECCCCCCHHHHHHH
Confidence 4467788999999999996533
No 488
>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed
Probab=80.23 E-value=2.2 Score=54.10 Aligned_cols=41 Identities=15% Similarity=0.195 Sum_probs=25.5
Q ss_pred CCceeEEEEccccccccchhhHHHHHHHHHhccCCCcEEeec
Q 000854 277 LSRISCIIVDEAHERSLNTDLLLALVKDLLCRRFDLRLVIMS 318 (1252)
Q Consensus 277 L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~~~lqiIlmS 318 (1252)
+++-+++|+||+= -.+|.+-...+.+.+....++.-+|+.|
T Consensus 501 l~~~~IliLDE~T-SaLD~~te~~i~~~l~~~~~~~TvIiIt 541 (588)
T PRK11174 501 LQPCQLLLLDEPT-ASLDAHSEQLVMQALNAASRRQTTLMVT 541 (588)
T ss_pred hcCCCEEEEeCCc-cCCCHHHHHHHHHHHHHHhCCCEEEEEe
Confidence 4455788888887 5677766666666655554444444443
No 489
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=80.14 E-value=3.2 Score=42.55 Aligned_cols=31 Identities=23% Similarity=0.410 Sum_probs=23.7
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHH
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFL 202 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~L 202 (1252)
+.+-..+..++++++.|+.|+||||.+-.++
T Consensus 13 ~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~ 43 (133)
T TIGR00150 13 KAFAKPLDFGTVVLLKGDLGAGKTTLVQGLL 43 (133)
T ss_pred HHHHHhCCCCCEEEEEcCCCCCHHHHHHHHH
Confidence 4455666788999999999999998654333
No 490
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=80.14 E-value=2.2 Score=45.65 Aligned_cols=54 Identities=19% Similarity=0.278 Sum_probs=32.8
Q ss_pred cCCeEEEEcCCCChhhHHHHHHHHhcccc---------cCCeEEecCcHHHHHHHHHHHHHHHh
Q 000854 180 GEQILVLIGETGCGKSTQLVQFLADSGIA---------AEQSIVCTQPRKIAAISLAQRVREES 234 (1252)
Q Consensus 180 ~~~vvII~apTGSGKTtqipq~Lle~~~~---------~~~~ILv~qPrR~LA~qva~rv~~~~ 234 (1252)
.++.+++.|++|+|||+.+.+++.....+ .+.+|+++..-.. ..++.+++....
T Consensus 31 ~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~-~~~~~~rl~~~~ 93 (193)
T PF13481_consen 31 RGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS-ESQIARRLRALL 93 (193)
T ss_dssp TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS--HHHHHHHHHHHH
T ss_pred CCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC-HHHHHHHHHHHh
Confidence 57788899999999999877766654321 3456777633222 445666666554
No 491
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=79.95 E-value=9.7 Score=42.57 Aligned_cols=23 Identities=26% Similarity=0.393 Sum_probs=18.9
Q ss_pred CeEEEEcCCCChhhHHHHHHHHh
Q 000854 182 QILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle 204 (1252)
.+.++.||.|+|||+...++.+.
T Consensus 2 ~~~ll~g~~G~GKS~lal~la~~ 24 (239)
T cd01125 2 YVSALVAPGGTGKSSLLLVLALA 24 (239)
T ss_pred ceeEEEcCCCCCHHHHHHHHHHH
Confidence 46778899999999987777664
No 492
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=79.91 E-value=6.1 Score=52.62 Aligned_cols=58 Identities=19% Similarity=0.300 Sum_probs=32.8
Q ss_pred HHHHHHHhcCCCCCceeEEEEccccccccchhhHHHHHHHHHhcc--------CCC--cEEeeccCCCHHHHHh
Q 000854 265 HCLLQHFMNDRDLSRISCIIVDEAHERSLNTDLLLALVKDLLCRR--------FDL--RLVIMSATADAHQLSK 328 (1252)
Q Consensus 265 g~Ll~~L~~~~~L~~ls~IVIDEaHER~l~~d~ll~llk~l~~~~--------~~l--qiIlmSATld~~~l~~ 328 (1252)
|.|...+...+ +++|++||++. .+.+....++..+...+ -+. -+|+||.....+.+.+
T Consensus 657 g~l~~~v~~~p----~~vlllDeiek--a~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TSn~g~~~~~~ 724 (852)
T TIGR03346 657 GQLTEAVRRKP----YSVVLFDEVEK--AHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTSNLGSQFIQE 724 (852)
T ss_pred cHHHHHHHcCC----CcEEEEecccc--CCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeCCcchHhHhh
Confidence 44555554433 47999999993 56666666665553211 112 3556666665554444
No 493
>TIGR00708 cobA cob(I)alamin adenosyltransferase. Alternate name: corrinoid adenosyltransferase.
Probab=79.86 E-value=4.5 Score=43.38 Aligned_cols=35 Identities=17% Similarity=0.265 Sum_probs=24.2
Q ss_pred CeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecC
Q 000854 182 QILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQ 217 (1252)
Q Consensus 182 ~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~q 217 (1252)
..+.|..++|-|||+++.-..+.. .+.+.+|+++|
T Consensus 6 Gli~v~~g~GkGKtt~a~g~a~ra-~~~g~~v~ivQ 40 (173)
T TIGR00708 6 GIIIVHTGNGKGKTTAAFGMALRA-LGHGKKVGVIQ 40 (173)
T ss_pred cEEEEECCCCCChHHHHHHHHHHH-HHCCCeEEEEE
Confidence 355566889999999876665553 34466777764
No 494
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=79.86 E-value=9.6 Score=42.54 Aligned_cols=142 Identities=30% Similarity=0.462 Sum_probs=94.4
Q ss_pred CCChHHHHHHHhhccCcceeeeeecccCCCCccccceEEEEecCchhhccc-cccCCeeecCceeeeeccccccCCCCcc
Q 000854 936 ILDDKELLMFLEKNASGSICSIHKFAVGQDSDEKDKWGRVTFLTPDTAGKA-TELNGVEYNGSLLKVVPSRATLGGDNKM 1014 (1252)
Q Consensus 936 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1014 (1252)
+...+|+...+ ..-|-|-+. |+---|...+.--+|++.+.+|..|.+| --|||..+.--.+||.
T Consensus 52 ~MTqdE~rSLF--~SiGeiESc-KLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS------------ 116 (360)
T KOG0145|consen 52 NMTQDELRSLF--GSIGEIESC-KLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS------------ 116 (360)
T ss_pred ccCHHHHHHHh--hcccceeee-eeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEE------------
Confidence 45677886655 333546666 6643455556677999999999999999 6799988877766665
Q ss_pred ccccceeeeeecccccCCceeEEEecCCCchhhhhhccccccceeEEEEecCccccceEEEeCCCccCChHHHHHHHHh-
Q 000854 1015 YTFPAVKAKVYWPRRLSKGFAVVKCDATDVEFLVKDFFDLAIGGRYVRCEIGRRSMDAVVISGLDKELSEDEILGELRK- 1093 (1252)
Q Consensus 1015 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 1093 (1252)
+-|.-|.. ++| . ...||||||..+..|+-+.++-
T Consensus 117 -----------yARPSs~~--------------Ik~-------a-------------NLYvSGlPktMtqkelE~iFs~f 151 (360)
T KOG0145|consen 117 -----------YARPSSDS--------------IKD-------A-------------NLYVSGLPKTMTQKELEQIFSPF 151 (360)
T ss_pred -----------eccCChhh--------------hcc-------c-------------ceEEecCCccchHHHHHHHHHHh
Confidence 22221110 011 0 1348999999999998887754
Q ss_pred ---hcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcchhhhheeeecccccHHHHH
Q 000854 1094 ---VTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDAFMKAFITFDGRLHLEAAK 1170 (1252)
Q Consensus 1094 ---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1170 (1252)
.|+|-..|- |.-- +==-+||.||-|. ||-.
T Consensus 152 GrIItSRiL~dq-------vtg~--------------------------------------srGVgFiRFDKr~--EAe~ 184 (360)
T KOG0145|consen 152 GRIITSRILVDQ-------VTGL--------------------------------------SRGVGFIRFDKRI--EAEE 184 (360)
T ss_pred hhhhhhhhhhhc-------ccce--------------------------------------ecceeEEEecchh--HHHH
Confidence 344433321 1110 0012689999985 8889
Q ss_pred HHhhhcCcccCCcc
Q 000854 1171 ALEQLEGKVLPGCG 1184 (1252)
Q Consensus 1171 ~~~~~~~~~~~~~~ 1184 (1252)
|+.-++|..-|||-
T Consensus 185 AIk~lNG~~P~g~t 198 (360)
T KOG0145|consen 185 AIKGLNGQKPSGCT 198 (360)
T ss_pred HHHhccCCCCCCCC
Confidence 99999999999995
No 495
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=79.85 E-value=4.6 Score=35.62 Aligned_cols=66 Identities=26% Similarity=0.406 Sum_probs=47.4
Q ss_pred EEEeCCCccCChHHHHHHHHhhcccceeeeEEeecCcCCCCChhHHHHHHHHHhhccCCCCCCCCCceEEEEcCCCCcch
Q 000854 1073 VVISGLDKELSEDEILGELRKVTTRRIRDLFLVRGDAVECPQFDAFEEALLREISRFMPKRNSHANCCRVQVFPPEPKDA 1152 (1252)
Q Consensus 1073 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1152 (1252)
|+|+|||..+++++|.+.|.... .+.++.+.+.+. . -+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g--~v~~v~~~~~~~-~---------------------------------------~~ 38 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFG--PVEKVRLIKNKD-G---------------------------------------QS 38 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSS--BEEEEEEEESTT-S---------------------------------------SE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcC--CcceEEEEeeec-c---------------------------------------cc
Confidence 68999999999999999998873 478888774432 1 22
Q ss_pred hhhheeeecccccHHHHHHHhhhcCcccCC
Q 000854 1153 FMKAFITFDGRLHLEAAKALEQLEGKVLPG 1182 (1252)
Q Consensus 1153 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1182 (1252)
--.|+|+|.- +-+|.+|++..+|..+-|
T Consensus 39 ~~~a~v~f~~--~~~a~~al~~~~~~~~~g 66 (70)
T PF14259_consen 39 RGFAFVEFSS--EEDAKRALELLNGKEIDG 66 (70)
T ss_dssp EEEEEEEESS--HHHHHHHHHHHTTEEETT
T ss_pred CCEEEEEeCC--HHHHHHHHHHCCCcEECC
Confidence 3458999963 457778888888777655
No 496
>PRK05973 replicative DNA helicase; Provisional
Probab=79.79 E-value=1.8 Score=48.71 Aligned_cols=60 Identities=12% Similarity=0.200 Sum_probs=39.8
Q ss_pred HHHHHHHhcCCeEEEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHH
Q 000854 172 QDILRRIYGEQILVLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREE 233 (1252)
Q Consensus 172 ~~I~~al~~~~vvII~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~ 233 (1252)
+.+.--+..++.++|.|++|+|||+...+++.+... .+.+++++. .-+-..++.+++...
T Consensus 55 ~~l~GGl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~-~Ge~vlyfS-lEes~~~i~~R~~s~ 114 (237)
T PRK05973 55 EELFSQLKPGDLVLLGARPGHGKTLLGLELAVEAMK-SGRTGVFFT-LEYTEQDVRDRLRAL 114 (237)
T ss_pred HHhcCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHHh-cCCeEEEEE-EeCCHHHHHHHHHHc
Confidence 345556667889999999999999998888876543 244555542 222345566666544
No 497
>TIGR00767 rho transcription termination factor Rho. Members of this family differ in the specificity of RNA binding.
Probab=79.78 E-value=1.3 Score=53.12 Aligned_cols=22 Identities=18% Similarity=0.167 Sum_probs=17.5
Q ss_pred hcCCeEEEEcCCCChhhHHHHH
Q 000854 179 YGEQILVLIGETGCGKSTQLVQ 200 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqipq 200 (1252)
..++.++|.||+|+|||+.+-.
T Consensus 166 g~Gq~~~IvG~~g~GKTtL~~~ 187 (415)
T TIGR00767 166 GKGQRGLIVAPPKAGKTVLLQK 187 (415)
T ss_pred CCCCEEEEECCCCCChhHHHHH
Confidence 4677788889999999986443
No 498
>PHA00149 DNA encapsidation protein
Probab=79.76 E-value=12 Score=42.96 Aligned_cols=130 Identities=18% Similarity=0.195 Sum_probs=78.5
Q ss_pred EEEcCCCChhhHHHHHHHHhcccccCCeEEecCcHHHHHHHHHHHHHHHhcCCCC-CceEEEecCCCccccCCCeEEEEC
Q 000854 185 VLIGETGCGKSTQLVQFLADSGIAAEQSIVCTQPRKIAAISLAQRVREESRGCYE-DDSVICYPSFSSAQHFDSKVIYMT 263 (1252)
Q Consensus 185 II~apTGSGKTtqipq~Lle~~~~~~~~ILv~qPrR~LA~qva~rv~~~~~~~~~-~~~vg~~~~~~~~~~~~t~Iiv~T 263 (1252)
.|.|.-|-|||.++-..+.......+.+.+++--...-.....+-++.+...... .-.|.. ...--.+-.|-+.-
T Consensus 21 fviG~RgiGKTya~k~~~~k~~i~kgeqfiYLRr~k~El~~k~~Ff~d~~~~~~~~~F~Vkg----~ki~~~~k~igy~i 96 (331)
T PHA00149 21 FVIGARGIGKTYALKKYLIKRFIKKGEQFIYLRRYKSELKKKSKFFADIAQEFPNTEFEVKG----RKIYIKGKLIGYAI 96 (331)
T ss_pred EEEeccccchhhHHHHHHHHHHHhcCcEEEEEEecchhhhhhhhhhHHHHHhCCCCceEEEc----cEEEEcCeEEEEEE
Confidence 3459999999999888877776666777777643333222244445554422211 111111 11111233455555
Q ss_pred hHHHHHHHhcCCCCCceeEEEEcccccccc--------chhhHHHHHHHHHhccCCCcEEeeccC
Q 000854 264 DHCLLQHFMNDRDLSRISCIIVDEAHERSL--------NTDLLLALVKDLLCRRFDLRLVIMSAT 320 (1252)
Q Consensus 264 pg~Ll~~L~~~~~L~~ls~IVIDEaHER~l--------~~d~ll~llk~l~~~~~~lqiIlmSAT 320 (1252)
|=.-++.+.+ ....++.+|++||+- +.- +.+.++.++..+.+.+.+.+++++|--
T Consensus 97 ~LS~~q~~Ks-~~Yp~V~~I~fDEfi-~dk~n~~YlpNE~~allnli~tV~R~Re~vr~~~lsNa 159 (331)
T PHA00149 97 PLSTWQALKS-SAYPNVSTIFFDEFI-REKDNKRYLPNEVDALLNLIDTVFRARERVRCICLSNA 159 (331)
T ss_pred ehhhHHhhcc-cCCCceEEEEeeeee-ecCcccccCCchHHHHHHHHHHHHHhhcCeEEEEEcCc
Confidence 5444444433 367899999999998 311 234577777777788889999999855
No 499
>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]
Probab=79.59 E-value=2 Score=48.80 Aligned_cols=20 Identities=40% Similarity=0.532 Sum_probs=16.9
Q ss_pred hcCCeEEEEcCCCChhhHHH
Q 000854 179 YGEQILVLIGETGCGKSTQL 198 (1252)
Q Consensus 179 ~~~~vvII~apTGSGKTtqi 198 (1252)
..+.++.|.||.||||||.+
T Consensus 26 ~~G~i~~iiGpNG~GKSTLL 45 (258)
T COG1120 26 PKGEITGILGPNGSGKSTLL 45 (258)
T ss_pred cCCcEEEEECCCCCCHHHHH
Confidence 46788888999999999854
No 500
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=79.57 E-value=4.9 Score=52.19 Aligned_cols=31 Identities=19% Similarity=0.374 Sum_probs=20.6
Q ss_pred HHHHHHhcCCeEEEEcCCCChhhHHHHHHHHh
Q 000854 173 DILRRIYGEQILVLIGETGCGKSTQLVQFLAD 204 (1252)
Q Consensus 173 ~I~~al~~~~vvII~apTGSGKTtqipq~Lle 204 (1252)
.+-.+...+..++|.||||+|||+.+ ..+..
T Consensus 391 ~~~~~a~~~~pVLI~GE~GTGK~~lA-~~ih~ 421 (686)
T PRK15429 391 QVEMVAQSDSTVLILGETGTGKELIA-RAIHN 421 (686)
T ss_pred HHHHHhCCCCCEEEECCCCcCHHHHH-HHHHH
Confidence 33444455667888999999999754 33443
Done!