Query 001834
Match_columns 1008
No_of_seqs 371 out of 2387
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 10:25:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001834.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001834hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1002 Nucleotide excision re 100.0 6E-104 1E-108 852.7 37.3 576 263-1007 174-790 (791)
2 KOG4439 RNA polymerase II tran 100.0 4.6E-89 1E-93 765.6 41.4 544 267-1008 318-901 (901)
3 KOG0385 Chromatin remodeling c 100.0 4.8E-89 1E-93 772.2 40.9 460 266-988 159-623 (971)
4 KOG0387 Transcription-coupled 100.0 3E-86 6.4E-91 754.2 39.0 475 264-1007 196-698 (923)
5 KOG0392 SNF2 family DNA-depend 100.0 3.4E-85 7.3E-90 768.0 38.1 526 250-1008 950-1496(1549)
6 KOG0389 SNF2 family DNA-depend 100.0 1.2E-83 2.6E-88 731.6 34.4 493 272-989 397-913 (941)
7 PLN03142 Probable chromatin-re 100.0 2.4E-82 5.1E-87 780.0 46.1 475 266-1007 162-641 (1033)
8 KOG1001 Helicase-like transcri 100.0 6.3E-83 1.4E-87 757.6 31.7 567 246-987 106-673 (674)
9 KOG0391 SNF2 family DNA-depend 100.0 2.3E-82 5.1E-87 733.6 31.9 579 263-1008 605-1429(1958)
10 KOG0384 Chromodomain-helicase 100.0 1.7E-78 3.8E-83 716.2 35.1 481 266-1006 362-856 (1373)
11 KOG0388 SNF2 family DNA-depend 100.0 2.8E-75 6.1E-80 650.4 32.6 545 269-988 562-1178(1185)
12 KOG0390 DNA repair protein, SN 100.0 5.8E-71 1.2E-75 649.2 39.7 494 268-1007 232-748 (776)
13 KOG0386 Chromatin remodeling c 100.0 5.4E-72 1.2E-76 649.9 21.3 464 264-988 384-862 (1157)
14 KOG1015 Transcription regulato 100.0 1.7E-67 3.7E-72 601.8 31.9 579 271-1007 665-1317(1567)
15 COG0553 HepA Superfamily II DN 100.0 1.4E-62 3E-67 627.6 36.8 498 269-1007 333-864 (866)
16 KOG1000 Chromatin remodeling p 100.0 6.6E-56 1.4E-60 481.5 32.6 424 266-985 191-624 (689)
17 KOG1016 Predicted DNA helicase 100.0 8.2E-57 1.8E-61 505.3 25.3 560 273-1007 253-889 (1387)
18 PRK04914 ATP-dependent helicas 100.0 1.5E-54 3.3E-59 533.0 35.2 422 271-987 149-628 (956)
19 KOG0298 DEAD box-containing he 100.0 7E-50 1.5E-54 475.7 16.1 371 265-680 237-688 (1394)
20 PF00176 SNF2_N: SNF2 family N 100.0 6.7E-44 1.5E-48 398.3 18.3 291 278-683 1-299 (299)
21 KOG0383 Predicted helicase [Ge 100.0 7.9E-40 1.7E-44 383.3 7.8 399 273-918 294-696 (696)
22 TIGR00603 rad25 DNA repair hel 100.0 2.7E-36 5.8E-41 360.1 35.7 353 272-970 253-613 (732)
23 PRK13766 Hef nuclease; Provisi 100.0 5.7E-32 1.2E-36 339.9 37.4 144 805-981 345-496 (773)
24 COG1111 MPH1 ERCC4-like helica 100.0 2.4E-25 5.2E-30 247.2 35.7 462 273-983 14-500 (542)
25 PHA02558 uvsW UvsW helicase; P 99.9 2.3E-25 5.1E-30 265.1 33.8 110 854-965 346-456 (501)
26 COG1061 SSL2 DNA or RNA helica 99.9 7.6E-25 1.6E-29 255.8 32.4 367 271-975 33-405 (442)
27 PTZ00110 helicase; Provisional 99.9 5.4E-21 1.2E-25 229.4 29.7 106 854-964 379-484 (545)
28 KOG1123 RNA polymerase II tran 99.9 1.4E-21 3.1E-26 214.1 21.1 357 260-969 291-658 (776)
29 KOG0354 DEAD-box like helicase 99.9 7.6E-20 1.7E-24 215.0 34.1 147 804-985 392-549 (746)
30 PRK11776 ATP-dependent RNA hel 99.9 8.7E-20 1.9E-24 216.3 28.7 106 854-964 244-349 (460)
31 TIGR00614 recQ_fam ATP-depende 99.9 3.6E-20 7.8E-25 219.5 25.2 102 854-958 228-329 (470)
32 PRK11192 ATP-dependent RNA hel 99.9 1.2E-19 2.5E-24 213.7 27.7 101 854-957 247-347 (434)
33 PRK10590 ATP-dependent RNA hel 99.8 1.2E-19 2.7E-24 214.3 25.6 106 854-964 247-352 (456)
34 PLN00206 DEAD-box ATP-dependen 99.8 2E-19 4.3E-24 215.2 27.6 106 854-964 369-475 (518)
35 PRK04837 ATP-dependent RNA hel 99.8 2.2E-19 4.8E-24 210.5 26.7 105 854-963 257-361 (423)
36 PRK01297 ATP-dependent RNA hel 99.8 3.1E-19 6.7E-24 212.2 27.7 106 854-964 337-442 (475)
37 PRK04537 ATP-dependent RNA hel 99.8 5E-19 1.1E-23 213.2 27.6 105 854-963 259-363 (572)
38 PRK11634 ATP-dependent RNA hel 99.8 5.7E-19 1.2E-23 214.0 27.2 98 854-954 247-344 (629)
39 PRK11057 ATP-dependent DNA hel 99.8 3.8E-19 8.2E-24 216.4 24.9 98 854-954 238-335 (607)
40 TIGR01389 recQ ATP-dependent D 99.8 4.5E-19 9.8E-24 216.2 24.8 100 854-956 226-325 (591)
41 TIGR00643 recG ATP-dependent D 99.8 9.5E-19 2.1E-23 213.8 26.4 79 875-956 481-560 (630)
42 PTZ00424 helicase 45; Provisio 99.8 1.4E-18 3.1E-23 202.6 25.4 107 854-965 269-375 (401)
43 PRK11448 hsdR type I restricti 99.8 2E-18 4.3E-23 218.8 28.0 105 853-961 699-815 (1123)
44 TIGR00580 mfd transcription-re 99.8 5.7E-18 1.2E-22 211.1 24.8 105 854-963 662-769 (926)
45 PRK10917 ATP-dependent DNA hel 99.8 1.7E-17 3.7E-22 204.1 27.5 86 867-955 494-582 (681)
46 KOG0331 ATP-dependent RNA heli 99.8 1.2E-17 2.6E-22 191.3 23.5 118 806-954 323-440 (519)
47 PLN03137 ATP-dependent DNA hel 99.8 1.1E-17 2.3E-22 205.6 21.8 102 854-958 682-783 (1195)
48 PRK10689 transcription-repair 99.8 4.2E-17 9.1E-22 207.6 28.0 100 854-956 811-913 (1147)
49 TIGR03817 DECH_helic helicase/ 99.7 9.8E-16 2.1E-20 189.5 29.0 112 854-970 273-392 (742)
50 PRK02362 ski2-like helicase; P 99.7 7.9E-16 1.7E-20 192.0 25.8 82 878-962 305-395 (737)
51 PRK13767 ATP-dependent helicas 99.7 1.5E-15 3.3E-20 191.5 27.4 102 854-958 286-394 (876)
52 COG0513 SrmB Superfamily II DN 99.7 6.5E-15 1.4E-19 175.5 28.1 105 854-963 275-379 (513)
53 PRK01172 ski2-like helicase; P 99.7 5.3E-15 1.1E-19 183.3 26.8 72 879-954 288-368 (674)
54 TIGR01587 cas3_core CRISPR-ass 99.7 2E-14 4.3E-19 165.1 26.4 105 854-964 224-338 (358)
55 KOG0328 Predicted ATP-dependen 99.7 4.5E-15 9.7E-20 153.4 18.6 109 854-967 268-376 (400)
56 KOG0330 ATP-dependent RNA heli 99.6 8.7E-15 1.9E-19 157.8 19.1 120 854-978 302-423 (476)
57 PRK00254 ski2-like helicase; P 99.6 2.8E-14 6.1E-19 177.7 26.2 85 878-965 297-389 (720)
58 COG1200 RecG RecG-like helicas 99.6 3.9E-14 8.5E-19 165.0 24.9 76 876-954 507-583 (677)
59 TIGR00348 hsdR type I site-spe 99.6 6.4E-14 1.4E-18 171.9 27.0 106 854-962 516-649 (667)
60 TIGR03714 secA2 accessory Sec 99.6 2.4E-14 5.2E-19 172.4 22.5 115 805-954 406-529 (762)
61 TIGR02621 cas3_GSU0051 CRISPR- 99.6 1.6E-13 3.5E-18 167.0 26.6 102 854-960 274-390 (844)
62 cd00079 HELICc Helicase superf 99.6 5.4E-15 1.2E-19 143.6 10.9 120 807-958 12-131 (131)
63 COG4096 HsdR Type I site-speci 99.6 4.1E-14 8.8E-19 166.6 19.1 106 853-961 427-545 (875)
64 KOG0335 ATP-dependent RNA heli 99.6 3.1E-13 6.8E-18 152.7 23.8 104 852-958 337-440 (482)
65 PRK12898 secA preprotein trans 99.6 8.3E-13 1.8E-17 157.6 28.7 116 805-954 455-578 (656)
66 PRK09200 preprotein translocas 99.6 7E-13 1.5E-17 161.4 28.4 116 805-954 410-533 (790)
67 TIGR00963 secA preprotein tran 99.5 1.1E-13 2.3E-18 165.9 19.2 115 806-954 388-509 (745)
68 KOG0350 DEAD-box ATP-dependent 99.5 3.1E-13 6.6E-18 150.0 20.0 105 854-963 431-539 (620)
69 PRK05580 primosome assembly pr 99.5 2.8E-13 6E-18 166.4 21.4 95 865-962 439-549 (679)
70 KOG0333 U5 snRNP-like RNA heli 99.5 5.6E-13 1.2E-17 148.6 21.4 124 805-964 501-624 (673)
71 PRK09401 reverse gyrase; Revie 99.5 1.6E-12 3.4E-17 166.5 24.6 89 854-949 330-431 (1176)
72 PF04851 ResIII: Type III rest 99.5 1E-13 2.3E-18 142.8 11.2 167 273-550 2-183 (184)
73 TIGR03158 cas3_cyano CRISPR-as 99.5 4.5E-12 9.8E-17 144.9 24.6 82 854-947 274-357 (357)
74 PF00271 Helicase_C: Helicase 99.5 5.7E-14 1.2E-18 124.0 5.5 78 870-950 1-78 (78)
75 KOG4284 DEAD box protein [Tran 99.5 7.4E-13 1.6E-17 150.2 15.4 106 854-963 274-379 (980)
76 PHA02653 RNA helicase NPH-II; 99.5 3.8E-11 8.3E-16 145.6 31.2 106 854-967 397-517 (675)
77 COG0514 RecQ Superfamily II DN 99.4 3.9E-12 8.5E-17 149.0 20.6 101 854-957 232-332 (590)
78 KOG0343 RNA Helicase [RNA proc 99.4 4.3E-12 9.4E-17 142.2 19.3 135 806-977 298-434 (758)
79 KOG0348 ATP-dependent RNA heli 99.4 1.5E-11 3.3E-16 137.5 22.9 115 854-974 427-563 (708)
80 PRK09751 putative ATP-dependen 99.4 9.1E-12 2E-16 160.2 24.0 93 854-949 246-371 (1490)
81 smart00487 DEXDc DEAD-like hel 99.4 9.4E-13 2E-17 136.5 12.1 164 273-555 7-176 (201)
82 TIGR00595 priA primosomal prot 99.4 4.5E-11 9.7E-16 142.1 26.3 95 866-963 272-382 (505)
83 KOG0336 ATP-dependent RNA heli 99.4 1.1E-11 2.3E-16 134.3 18.5 108 853-964 466-573 (629)
84 COG1201 Lhr Lhr-like helicases 99.4 7E-11 1.5E-15 143.5 25.8 117 854-977 255-373 (814)
85 TIGR01054 rgy reverse gyrase. 99.4 3.4E-11 7.3E-16 154.7 24.2 74 854-933 328-408 (1171)
86 TIGR01970 DEAH_box_HrpB ATP-de 99.4 7E-11 1.5E-15 146.7 25.5 106 854-965 211-337 (819)
87 cd00046 DEXDc DEAD-like helica 99.4 4.2E-12 9E-17 123.8 11.6 137 298-549 2-144 (144)
88 COG1205 Distinct helicase fami 99.4 5.9E-11 1.3E-15 147.9 24.3 114 854-972 308-430 (851)
89 COG1197 Mfd Transcription-repa 99.3 1.4E-10 3.1E-15 142.7 26.6 117 854-975 805-929 (1139)
90 COG1204 Superfamily II helicas 99.3 3.2E-11 6.9E-16 148.2 20.7 104 274-445 31-135 (766)
91 KOG0342 ATP-dependent RNA heli 99.3 4.1E-11 8.8E-16 133.6 19.0 96 854-952 332-427 (543)
92 smart00490 HELICc helicase sup 99.3 2.5E-12 5.4E-17 113.8 7.3 81 867-950 2-82 (82)
93 KOG0340 ATP-dependent RNA heli 99.3 3.1E-10 6.6E-15 121.8 22.4 98 854-954 256-353 (442)
94 PRK14701 reverse gyrase; Provi 99.3 1.4E-10 3E-15 152.0 24.3 92 854-952 332-446 (1638)
95 PRK11664 ATP-dependent RNA hel 99.3 2.2E-10 4.7E-15 142.7 24.7 107 854-966 214-341 (812)
96 KOG0326 ATP-dependent RNA heli 99.3 2.2E-11 4.7E-16 128.4 12.8 96 854-952 324-419 (459)
97 COG4889 Predicted helicase [Ge 99.3 9.1E-11 2E-15 137.0 18.6 78 876-954 499-577 (1518)
98 KOG0345 ATP-dependent RNA heli 99.3 7.1E-10 1.5E-14 123.0 24.5 118 806-957 240-359 (567)
99 KOG0339 ATP-dependent RNA heli 99.3 5.8E-10 1.3E-14 124.1 23.5 128 805-967 451-578 (731)
100 KOG0338 ATP-dependent RNA heli 99.3 5.6E-11 1.2E-15 132.3 15.4 96 854-952 428-523 (691)
101 PRK12906 secA preprotein trans 99.3 3.8E-10 8.3E-15 136.9 23.7 117 805-955 422-546 (796)
102 COG1202 Superfamily II helicas 99.3 2.2E-10 4.8E-15 129.3 19.9 106 854-963 442-552 (830)
103 PRK13104 secA preprotein trans 99.2 4.9E-10 1.1E-14 136.6 23.4 130 805-973 426-593 (896)
104 KOG0344 ATP-dependent RNA heli 99.2 1.6E-10 3.5E-15 131.8 16.8 119 806-958 372-492 (593)
105 PRK09694 helicase Cas3; Provis 99.2 1.2E-09 2.7E-14 135.7 26.0 96 854-952 562-665 (878)
106 PRK12904 preprotein translocas 99.2 2.9E-09 6.3E-14 129.8 25.3 120 805-958 412-569 (830)
107 PRK13107 preprotein translocas 99.1 1E-08 2.2E-13 124.9 24.2 129 805-972 431-596 (908)
108 KOG0347 RNA helicase [RNA proc 99.1 8E-10 1.7E-14 124.4 13.4 95 854-951 465-559 (731)
109 cd00268 DEADc DEAD-box helicas 99.0 1.6E-09 3.6E-14 113.9 12.4 159 274-550 21-185 (203)
110 PRK12900 secA preprotein trans 99.0 5.5E-08 1.2E-12 119.0 25.7 130 805-973 580-717 (1025)
111 KOG0334 RNA helicase [RNA proc 99.0 8.5E-09 1.8E-13 125.1 17.4 124 805-963 596-719 (997)
112 PRK05298 excinuclease ABC subu 99.0 1.6E-07 3.6E-12 115.3 28.8 122 806-962 429-555 (652)
113 TIGR01967 DEAH_box_HrpA ATP-de 99.0 1.5E-08 3.2E-13 129.3 20.0 106 854-967 281-407 (1283)
114 KOG0952 DNA/RNA helicase MER3/ 99.0 7.4E-08 1.6E-12 116.2 23.5 86 881-969 401-496 (1230)
115 KOG0332 ATP-dependent RNA heli 98.9 6.4E-09 1.4E-13 112.4 12.9 97 854-953 332-434 (477)
116 PRK11131 ATP-dependent RNA hel 98.9 4.9E-08 1.1E-12 124.2 21.3 106 854-967 288-414 (1294)
117 KOG0346 RNA helicase [RNA proc 98.9 1.6E-08 3.5E-13 111.4 14.6 107 854-964 270-410 (569)
118 PF00270 DEAD: DEAD/DEAH box h 98.9 6.1E-09 1.3E-13 105.9 8.5 158 277-556 2-168 (169)
119 PRK12326 preprotein translocas 98.8 5.9E-07 1.3E-11 107.4 25.6 130 805-973 409-553 (764)
120 PF13872 AAA_34: P-loop contai 98.8 2.6E-08 5.6E-13 107.8 12.6 247 274-641 37-302 (303)
121 KOG0341 DEAD-box protein abstr 98.8 1.8E-08 4E-13 108.9 9.2 137 806-979 407-547 (610)
122 COG4098 comFA Superfamily II D 98.8 2.3E-06 5E-11 92.3 24.8 102 854-960 307-414 (441)
123 COG1203 CRISPR-associated heli 98.8 2.7E-07 5.8E-12 115.1 20.8 125 854-982 442-570 (733)
124 KOG0351 ATP-dependent DNA heli 98.7 1.2E-07 2.7E-12 117.9 15.1 103 854-959 487-589 (941)
125 PF11496 HDA2-3: Class II hist 98.7 5.9E-07 1.3E-11 99.2 18.5 227 623-975 4-256 (297)
126 TIGR00631 uvrb excinuclease AB 98.7 1.4E-07 3E-12 115.2 14.1 125 806-965 425-554 (655)
127 KOG1513 Nuclear helicase MOP-3 98.6 1E-06 2.2E-11 102.9 18.7 88 895-985 850-945 (1300)
128 PRK12899 secA preprotein trans 98.6 6.7E-06 1.4E-10 101.0 26.2 130 805-973 550-687 (970)
129 KOG0352 ATP-dependent DNA heli 98.6 7.2E-07 1.6E-11 98.1 14.6 103 854-959 257-359 (641)
130 COG0556 UvrB Helicase subunit 98.6 4.7E-05 1E-09 86.9 29.3 137 806-975 429-570 (663)
131 KOG0337 ATP-dependent RNA heli 98.6 1.2E-06 2.7E-11 96.5 15.3 114 806-952 245-358 (529)
132 PRK13103 secA preprotein trans 98.5 5E-06 1.1E-10 101.9 20.2 120 805-958 431-587 (913)
133 KOG0951 RNA helicase BRR2, DEA 98.5 2.7E-06 5.7E-11 104.4 17.2 73 876-951 607-689 (1674)
134 COG1198 PriA Primosomal protei 98.5 3.8E-06 8.2E-11 102.2 18.6 96 866-964 494-605 (730)
135 KOG0327 Translation initiation 98.4 6.8E-07 1.5E-11 98.0 8.8 106 854-964 265-370 (397)
136 TIGR00596 rad1 DNA repair prot 98.4 1.3E-05 2.8E-10 99.6 20.4 60 925-987 478-538 (814)
137 PRK12903 secA preprotein trans 98.4 3.6E-05 7.8E-10 93.7 23.3 119 805-957 408-534 (925)
138 TIGR01407 dinG_rel DnaQ family 98.4 0.00013 2.8E-09 93.2 29.3 98 854-957 676-809 (850)
139 PF13871 Helicase_C_4: Helicas 98.3 9.7E-07 2.1E-11 95.5 7.2 94 893-989 52-153 (278)
140 KOG0353 ATP-dependent DNA heli 98.3 1.9E-05 4.2E-10 85.5 16.4 104 854-960 319-465 (695)
141 COG1110 Reverse gyrase [DNA re 98.3 6.9E-05 1.5E-09 91.3 21.9 73 854-933 337-416 (1187)
142 KOG0947 Cytoplasmic exosomal R 98.2 0.00012 2.6E-09 88.3 21.6 77 880-960 634-719 (1248)
143 KOG0823 Predicted E3 ubiquitin 97.9 5.7E-06 1.2E-10 85.1 2.7 57 716-772 45-101 (230)
144 KOG0349 Putative DEAD-box RNA 97.8 5.3E-05 1.2E-09 83.7 8.6 94 853-949 506-602 (725)
145 PF07652 Flavi_DEAD: Flaviviru 97.8 9.4E-05 2E-09 71.8 8.2 41 509-550 93-137 (148)
146 CHL00122 secA preprotein trans 97.7 0.0025 5.5E-08 78.5 22.0 83 805-920 406-489 (870)
147 KOG0953 Mitochondrial RNA heli 97.7 0.00013 2.8E-09 83.6 9.9 109 851-963 357-476 (700)
148 COG4581 Superfamily II RNA hel 97.7 0.0045 9.7E-08 77.8 24.2 78 881-961 449-534 (1041)
149 PRK15483 type III restriction- 97.7 0.00045 9.8E-09 86.2 14.4 37 514-551 204-240 (986)
150 PRK12901 secA preprotein trans 97.6 0.005 1.1E-07 76.7 22.4 118 805-956 610-735 (1112)
151 PLN03208 E3 ubiquitin-protein 97.6 3.8E-05 8.2E-10 77.9 3.1 55 717-771 17-84 (193)
152 KOG0949 Predicted helicase, DE 97.5 0.015 3.2E-07 71.2 22.8 70 882-954 968-1038(1330)
153 PF15227 zf-C3HC4_4: zinc fing 97.5 6E-05 1.3E-09 57.7 2.0 34 721-754 1-34 (42)
154 PF13923 zf-C3HC4_2: Zinc fing 97.4 5.5E-05 1.2E-09 57.0 1.4 37 721-758 1-38 (39)
155 KOG0948 Nuclear exosomal RNA h 97.4 0.0028 6.1E-08 75.1 15.9 83 883-969 453-543 (1041)
156 KOG0329 ATP-dependent RNA heli 97.4 0.0018 3.8E-08 67.5 12.0 45 909-953 302-346 (387)
157 KOG0922 DEAH-box RNA helicase 97.4 0.028 6.1E-07 66.7 23.2 111 854-967 260-393 (674)
158 smart00504 Ubox Modified RING 97.4 7.2E-05 1.6E-09 62.9 1.6 48 719-769 2-49 (63)
159 COG0610 Type I site-specific r 97.3 0.00055 1.2E-08 87.6 9.6 71 889-961 578-650 (962)
160 KOG2164 Predicted E3 ubiquitin 97.3 0.0001 2.3E-09 83.9 2.6 52 718-769 186-239 (513)
161 COG1643 HrpA HrpA-like helicas 97.3 0.022 4.9E-07 71.1 22.2 111 854-967 261-390 (845)
162 KOG0317 Predicted E3 ubiquitin 97.2 0.00017 3.7E-09 76.5 2.5 52 717-771 238-289 (293)
163 KOG0320 Predicted E3 ubiquitin 97.2 0.00013 2.8E-09 71.9 1.4 49 717-768 130-180 (187)
164 PF02399 Herpes_ori_bp: Origin 97.2 0.065 1.4E-06 65.8 24.2 91 854-953 284-380 (824)
165 KOG0950 DNA polymerase theta/e 97.2 0.012 2.6E-07 72.2 17.5 106 877-988 523-634 (1008)
166 PRK12902 secA preprotein trans 97.1 0.019 4.2E-07 70.9 18.8 85 805-922 421-506 (939)
167 KOG0978 E3 ubiquitin ligase in 97.0 0.00019 4.2E-09 85.8 0.6 50 718-769 643-692 (698)
168 TIGR00599 rad18 DNA repair pro 96.8 0.00051 1.1E-08 78.1 1.6 49 717-768 25-73 (397)
169 smart00489 DEXDc3 DEAD-like he 96.8 0.0063 1.4E-07 67.7 10.0 43 274-319 8-50 (289)
170 smart00488 DEXDc2 DEAD-like he 96.8 0.0063 1.4E-07 67.7 10.0 43 274-319 8-50 (289)
171 PF00097 zf-C3HC4: Zinc finger 96.8 0.00071 1.5E-08 51.5 1.7 37 721-757 1-39 (41)
172 PF13086 AAA_11: AAA domain; P 96.7 0.026 5.5E-07 60.1 13.6 40 274-320 1-41 (236)
173 PHA02929 N1R/p28-like protein; 96.6 0.0012 2.6E-08 70.1 2.9 47 717-766 173-227 (238)
174 PF13920 zf-C3HC4_3: Zinc fing 96.6 0.0011 2.3E-08 53.0 1.6 46 718-766 2-48 (50)
175 TIGR03117 cas_csf4 CRISPR-asso 96.5 0.017 3.6E-07 70.4 12.2 78 854-937 473-564 (636)
176 TIGR02562 cas3_yersinia CRISPR 96.4 0.69 1.5E-05 58.7 25.4 47 905-954 838-884 (1110)
177 COG5432 RAD18 RING-finger-cont 96.4 0.0014 3E-08 69.0 1.6 41 717-758 24-64 (391)
178 PF13445 zf-RING_UBOX: RING-ty 96.4 0.0011 2.3E-08 51.0 0.4 30 721-751 1-34 (43)
179 KOG0920 ATP-dependent RNA heli 96.2 0.67 1.4E-05 58.4 23.8 107 853-965 414-545 (924)
180 COG0653 SecA Preprotein transl 96.2 0.18 4E-06 62.3 18.5 112 805-950 411-533 (822)
181 PF04564 U-box: U-box domain; 96.2 0.0018 4E-08 56.1 1.1 50 718-769 4-53 (73)
182 smart00184 RING Ring finger. E 96.1 0.0037 8E-08 46.2 2.2 37 721-757 1-37 (39)
183 COG3587 Restriction endonuclea 96.0 0.021 4.6E-07 69.2 8.9 35 514-549 208-242 (985)
184 PHA02926 zinc finger-like prot 95.9 0.0045 9.8E-08 63.6 2.4 48 717-766 169-230 (242)
185 KOG1802 RNA helicase nonsense 95.8 0.03 6.4E-07 66.0 8.9 81 274-425 410-491 (935)
186 PF13639 zf-RING_2: Ring finge 95.8 0.0025 5.5E-08 49.3 0.2 37 720-757 2-41 (44)
187 cd00162 RING RING-finger (Real 95.8 0.0053 1.2E-07 47.0 2.0 42 720-763 1-43 (45)
188 PF11789 zf-Nse: Zinc-finger o 95.7 0.0043 9.3E-08 50.8 1.1 45 717-761 10-56 (57)
189 TIGR00570 cdk7 CDK-activating 95.6 0.008 1.7E-07 65.8 3.2 49 719-769 4-57 (309)
190 PF14634 zf-RING_5: zinc-RING 95.5 0.0089 1.9E-07 46.3 2.3 38 720-758 1-41 (44)
191 KOG0824 Predicted E3 ubiquitin 95.5 0.008 1.7E-07 64.3 2.6 58 717-776 6-63 (324)
192 COG5574 PEX10 RING-finger-cont 95.5 0.006 1.3E-07 64.3 1.6 47 717-765 214-261 (271)
193 PRK07246 bifunctional ATP-depe 95.4 0.071 1.5E-06 67.8 11.0 98 854-957 649-778 (820)
194 KOG1133 Helicase of the DEAD s 95.4 1.4 3.1E-05 52.9 20.6 98 854-952 631-770 (821)
195 PRK10536 hypothetical protein; 95.4 0.055 1.2E-06 58.4 8.3 40 513-554 178-217 (262)
196 PF02562 PhoH: PhoH-like prote 95.3 0.031 6.8E-07 58.5 6.2 40 274-320 4-43 (205)
197 PF13307 Helicase_C_2: Helicas 95.3 0.06 1.3E-06 54.9 8.1 98 853-957 10-145 (167)
198 KOG0287 Postreplication repair 95.3 0.0035 7.6E-08 67.5 -1.0 45 718-765 23-67 (442)
199 PF14835 zf-RING_6: zf-RING of 94.6 0.024 5.3E-07 46.8 2.5 45 718-767 7-52 (65)
200 PRK08074 bifunctional ATP-depe 94.5 0.21 4.6E-06 64.6 11.9 101 854-957 754-888 (928)
201 PRK14873 primosome assembly pr 94.5 0.16 3.4E-06 62.8 10.1 58 385-445 189-253 (665)
202 COG0553 HepA Superfamily II DN 94.0 0.03 6.4E-07 72.3 2.8 80 855-952 445-524 (866)
203 KOG4172 Predicted E3 ubiquitin 94.0 0.017 3.6E-07 45.5 0.2 47 718-766 7-54 (62)
204 KOG1132 Helicase of the DEAD s 93.7 0.41 8.8E-06 58.9 11.2 43 272-317 19-61 (945)
205 PRK08074 bifunctional ATP-depe 93.7 0.42 9E-06 62.0 12.1 42 273-317 256-297 (928)
206 KOG4150 Predicted ATP-dependen 93.5 0.16 3.4E-06 58.9 6.9 116 805-952 507-630 (1034)
207 KOG2879 Predicted E3 ubiquitin 93.4 0.051 1.1E-06 57.6 2.5 48 716-765 237-286 (298)
208 TIGR00376 DNA helicase, putati 92.6 0.71 1.5E-05 57.2 11.4 41 273-319 156-196 (637)
209 smart00492 HELICc3 helicase su 92.1 0.88 1.9E-05 44.9 9.3 68 864-934 3-79 (141)
210 PF07517 SecA_DEAD: SecA DEAD- 91.9 0.33 7.2E-06 53.1 6.5 57 385-445 119-179 (266)
211 KOG0311 Predicted E3 ubiquitin 91.8 0.033 7.1E-07 61.1 -1.3 49 717-767 42-91 (381)
212 KOG1785 Tyrosine kinase negati 91.8 0.13 2.8E-06 56.9 3.1 49 714-762 365-414 (563)
213 smart00491 HELICc2 helicase su 91.8 0.7 1.5E-05 45.7 8.1 69 864-934 3-80 (142)
214 TIGR00604 rad3 DNA repair heli 91.7 0.9 1.9E-05 57.3 11.1 103 854-957 524-669 (705)
215 COG1199 DinG Rad3-related DNA 91.7 1.2 2.5E-05 55.8 12.1 99 854-957 481-612 (654)
216 COG5152 Uncharacterized conser 91.5 0.065 1.4E-06 53.7 0.6 33 716-748 194-226 (259)
217 COG5540 RING-finger-containing 91.5 0.087 1.9E-06 56.4 1.5 47 718-766 323-372 (374)
218 KOG1803 DNA helicase [Replicat 91.5 0.13 2.9E-06 60.6 3.1 44 270-319 181-224 (649)
219 PF09848 DUF2075: Uncharacteri 91.5 0.66 1.4E-05 53.3 8.9 20 301-320 6-25 (352)
220 PF13604 AAA_30: AAA domain; P 91.3 1.3 2.8E-05 46.3 10.1 40 274-318 1-40 (196)
221 PRK11747 dinG ATP-dependent DN 91.3 1.4 3E-05 55.4 12.0 74 854-934 536-616 (697)
222 COG5222 Uncharacterized conser 90.6 0.12 2.6E-06 54.9 1.5 43 718-760 274-317 (427)
223 PHA02533 17 large terminase pr 90.5 2.6 5.6E-05 51.1 12.8 42 271-319 56-97 (534)
224 KOG2177 Predicted E3 ubiquitin 90.2 0.11 2.4E-06 58.0 1.0 43 717-762 12-54 (386)
225 KOG0826 Predicted E3 ubiquitin 90.2 0.13 2.8E-06 55.9 1.3 51 714-765 296-347 (357)
226 PF12678 zf-rbx1: RING-H2 zinc 90.1 0.19 4.2E-06 43.5 2.1 39 718-757 19-70 (73)
227 PRK07246 bifunctional ATP-depe 90.0 2.4 5.1E-05 54.3 12.6 43 272-317 243-285 (820)
228 KOG4159 Predicted E3 ubiquitin 89.8 0.16 3.5E-06 58.2 1.8 48 717-767 83-130 (398)
229 KOG1131 RNA polymerase II tran 89.5 2.9 6.2E-05 48.7 11.3 44 275-322 17-61 (755)
230 TIGR01447 recD exodeoxyribonuc 89.2 1.9 4.2E-05 52.8 10.5 41 511-553 259-299 (586)
231 PRK10875 recD exonuclease V su 89.2 1.9 4.1E-05 53.0 10.4 42 510-553 264-305 (615)
232 KOG0926 DEAH-box RNA helicase 89.0 0.56 1.2E-05 56.9 5.4 22 298-319 273-294 (1172)
233 TIGR01448 recD_rel helicase, p 88.9 2.6 5.6E-05 53.1 11.7 41 511-553 416-456 (720)
234 KOG1813 Predicted E3 ubiquitin 88.5 0.24 5.3E-06 53.2 1.9 49 716-767 239-287 (313)
235 KOG4628 Predicted E3 ubiquitin 87.5 0.3 6.6E-06 54.6 1.9 48 719-768 230-280 (348)
236 PF06862 DUF1253: Protein of u 87.2 8.3 0.00018 45.2 13.5 123 853-977 301-430 (442)
237 COG5220 TFB3 Cdk activating ki 86.1 0.25 5.4E-06 51.2 0.3 51 718-768 10-66 (314)
238 KOG0802 E3 ubiquitin ligase [P 84.9 0.34 7.4E-06 58.9 0.8 46 716-764 289-339 (543)
239 PRK04296 thymidine kinase; Pro 84.2 2.4 5.1E-05 44.1 6.6 20 300-319 6-25 (190)
240 KOG2660 Locus-specific chromos 83.6 0.3 6.6E-06 53.5 -0.4 48 718-768 15-63 (331)
241 PF05876 Terminase_GpA: Phage 82.9 4.7 0.0001 49.2 9.3 56 507-562 130-192 (557)
242 KOG4692 Predicted E3 ubiquitin 82.6 0.64 1.4E-05 50.8 1.5 36 716-751 420-455 (489)
243 PF06733 DEAD_2: DEAD_2; Inte 81.0 0.89 1.9E-05 46.5 1.9 16 430-445 117-132 (174)
244 COG1875 NYN ribonuclease and A 79.8 2.7 5.9E-05 47.3 5.2 41 275-320 229-269 (436)
245 COG5243 HRD1 HRD ubiquitin lig 79.1 1.2 2.7E-05 49.1 2.2 51 712-765 281-344 (491)
246 TIGR02881 spore_V_K stage V sp 78.7 3.4 7.3E-05 45.3 5.7 21 299-319 45-65 (261)
247 PRK07003 DNA polymerase III su 78.7 11 0.00023 47.1 10.2 49 511-561 119-170 (830)
248 PF12340 DUF3638: Protein of u 76.0 6.9 0.00015 41.7 6.7 44 272-319 21-64 (229)
249 KOG0297 TNF receptor-associate 75.6 1.6 3.4E-05 50.8 2.0 41 717-758 20-61 (391)
250 KOG3039 Uncharacterized conser 75.2 1.5 3.3E-05 45.9 1.5 32 718-749 43-74 (303)
251 PF12861 zf-Apc11: Anaphase-pr 74.5 2.8 6.1E-05 37.2 2.8 43 721-765 35-81 (85)
252 TIGR03420 DnaA_homol_Hda DnaA 74.2 28 0.0006 36.8 11.1 23 297-319 39-61 (226)
253 KOG0827 Predicted E3 ubiquitin 74.0 2.1 4.6E-05 47.7 2.4 53 718-772 4-62 (465)
254 KOG1734 Predicted RING-contain 73.4 1.3 2.8E-05 47.1 0.5 54 717-772 223-287 (328)
255 KOG3800 Predicted E3 ubiquitin 72.9 2 4.3E-05 46.4 1.8 47 720-768 2-53 (300)
256 TIGR00631 uvrb excinuclease AB 72.0 13 0.00028 46.4 8.8 69 276-409 11-80 (655)
257 PF13401 AAA_22: AAA domain; P 71.9 3 6.5E-05 39.9 2.7 35 513-549 89-125 (131)
258 PRK05707 DNA polymerase III su 71.7 18 0.0004 41.0 9.3 45 274-321 3-47 (328)
259 TIGR03117 cas_csf4 CRISPR-asso 71.6 23 0.00051 43.7 10.8 39 385-423 47-88 (636)
260 KOG1805 DNA replication helica 71.4 16 0.00036 46.0 9.2 42 274-321 669-710 (1100)
261 PLN03025 replication factor C 71.2 42 0.00091 37.9 12.2 57 511-567 99-156 (319)
262 KOG3039 Uncharacterized conser 70.8 2 4.4E-05 45.0 1.2 50 717-769 220-273 (303)
263 PRK09112 DNA polymerase III su 70.2 28 0.0006 40.0 10.4 43 278-320 27-69 (351)
264 PRK11747 dinG ATP-dependent DN 68.5 3.3 7.1E-05 52.1 2.7 43 273-315 24-68 (697)
265 KOG0923 mRNA splicing factor A 68.1 18 0.00039 43.8 8.2 101 854-962 475-604 (902)
266 KOG1039 Predicted E3 ubiquitin 67.6 2.8 6.1E-05 47.3 1.6 47 716-764 159-219 (344)
267 KOG4265 Predicted E3 ubiquitin 67.4 2.6 5.6E-05 47.0 1.2 50 717-769 289-339 (349)
268 KOG0828 Predicted E3 ubiquitin 66.7 2.4 5.2E-05 48.7 0.9 44 718-761 571-631 (636)
269 KOG1645 RING-finger-containing 66.0 1.5 3.3E-05 49.2 -0.8 57 718-775 4-65 (463)
270 KOG1814 Predicted E3 ubiquitin 66.0 2.9 6.3E-05 47.3 1.3 53 716-768 182-244 (445)
271 TIGR02880 cbbX_cfxQ probable R 65.6 7.7 0.00017 43.1 4.6 22 298-319 60-81 (284)
272 KOG0924 mRNA splicing factor A 65.5 16 0.00035 44.2 7.2 116 853-971 564-704 (1042)
273 CHL00181 cbbX CbbX; Provisiona 65.2 13 0.00029 41.3 6.4 21 299-319 62-82 (287)
274 KOG0327 Translation initiation 65.0 14 0.0003 41.9 6.3 43 507-549 165-210 (397)
275 KOG4739 Uncharacterized protei 64.4 3.4 7.3E-05 43.8 1.4 43 720-767 5-49 (233)
276 TIGR00595 priA primosomal prot 64.0 36 0.00078 41.1 10.2 96 803-931 5-101 (505)
277 PRK14960 DNA polymerase III su 63.6 52 0.0011 40.8 11.3 21 299-319 40-60 (702)
278 TIGR00604 rad3 DNA repair heli 63.1 15 0.00034 46.3 7.2 43 274-319 10-52 (705)
279 PRK12402 replication factor C 63.0 9.7 0.00021 43.1 4.9 22 298-319 38-59 (337)
280 PRK10917 ATP-dependent DNA hel 62.8 37 0.0008 42.7 10.4 73 854-928 312-388 (681)
281 PRK04195 replication factor C 62.7 48 0.001 39.9 11.0 23 297-319 40-62 (482)
282 cd00009 AAA The AAA+ (ATPases 61.3 52 0.0011 31.1 9.2 23 297-319 20-42 (151)
283 PRK14958 DNA polymerase III su 61.1 79 0.0017 38.3 12.4 57 511-569 119-178 (509)
284 PRK05580 primosome assembly pr 60.8 47 0.001 41.7 10.8 95 804-931 171-266 (679)
285 PRK00149 dnaA chromosomal repl 60.7 42 0.00091 39.9 10.0 22 298-319 150-171 (450)
286 PHA02544 44 clamp loader, smal 60.3 64 0.0014 36.2 10.9 20 299-318 45-65 (316)
287 PRK14087 dnaA chromosomal repl 59.6 35 0.00075 40.6 8.9 21 298-318 143-163 (450)
288 KOG0952 DNA/RNA helicase MER3/ 59.3 18 0.00039 46.0 6.4 61 382-444 971-1032(1230)
289 PF13245 AAA_19: Part of AAA d 59.0 19 0.00041 31.4 4.9 22 300-321 14-35 (76)
290 COG0464 SpoVK ATPases of the A 58.4 13 0.00027 44.9 5.1 45 275-319 250-299 (494)
291 PRK08084 DNA replication initi 58.1 69 0.0015 34.4 10.2 21 298-318 47-67 (235)
292 PF14447 Prok-RING_4: Prokaryo 56.3 7.2 0.00016 31.5 1.6 45 719-768 8-52 (55)
293 TIGR00365 monothiol glutaredox 55.0 59 0.0013 29.7 7.7 56 854-910 13-74 (97)
294 PRK08116 hypothetical protein; 55.0 70 0.0015 35.2 9.8 24 296-319 114-137 (268)
295 PHA03368 DNA packaging termina 54.8 48 0.001 40.8 8.8 40 507-548 348-389 (738)
296 PRK14088 dnaA chromosomal repl 54.8 1.2E+02 0.0025 36.1 12.2 21 299-319 133-153 (440)
297 TIGR00643 recG ATP-dependent D 54.7 52 0.0011 41.0 9.7 72 854-927 286-361 (630)
298 TIGR00362 DnaA chromosomal rep 54.6 64 0.0014 37.7 10.0 21 299-319 139-159 (405)
299 COG4626 Phage terminase-like p 54.4 79 0.0017 38.0 10.4 49 272-320 59-110 (546)
300 PF13607 Succ_CoA_lig: Succiny 53.8 51 0.0011 32.4 7.5 86 854-961 3-90 (138)
301 PF04641 Rtf2: Rtf2 RING-finge 53.7 11 0.00023 41.5 3.0 51 717-771 112-166 (260)
302 PRK06526 transposase; Provisio 53.2 41 0.00089 36.7 7.5 23 297-319 99-121 (254)
303 PRK12723 flagellar biosynthesi 53.1 53 0.0012 38.2 8.7 55 512-566 255-314 (388)
304 TIGR02768 TraA_Ti Ti-type conj 52.9 70 0.0015 40.7 10.5 42 272-319 350-391 (744)
305 PF14570 zf-RING_4: RING/Ubox 52.9 11 0.00023 29.8 2.0 42 721-764 1-46 (48)
306 KOG1812 Predicted E3 ubiquitin 52.4 6.1 0.00013 45.8 0.9 53 718-770 146-207 (384)
307 PRK08691 DNA polymerase III su 50.4 1.9E+02 0.0041 36.3 13.1 53 511-565 119-174 (709)
308 KOG0924 mRNA splicing factor A 50.2 57 0.0012 39.8 8.2 28 917-946 932-959 (1042)
309 KOG0923 mRNA splicing factor A 50.1 36 0.00078 41.4 6.6 19 299-317 283-301 (902)
310 PRK12323 DNA polymerase III su 49.6 2.2E+02 0.0047 35.5 13.3 53 511-565 124-179 (700)
311 PRK14952 DNA polymerase III su 49.5 59 0.0013 39.9 8.7 21 300-320 39-59 (584)
312 PRK00440 rfc replication facto 49.2 1.7E+02 0.0038 32.5 12.2 21 299-319 41-61 (319)
313 PRK14949 DNA polymerase III su 48.7 1.3E+02 0.0028 38.8 11.5 20 300-319 42-61 (944)
314 PRK14086 dnaA chromosomal repl 48.6 60 0.0013 39.9 8.5 21 299-319 317-337 (617)
315 KOG1571 Predicted E3 ubiquitin 47.8 8.6 0.00019 43.1 1.1 44 717-766 304-347 (355)
316 KOG2932 E3 ubiquitin ligase in 47.8 8.9 0.00019 41.7 1.2 36 719-757 91-127 (389)
317 KOG0926 DEAH-box RNA helicase 47.7 14 0.0003 45.6 2.8 63 896-961 621-701 (1172)
318 PRK13889 conjugal transfer rel 47.4 73 0.0016 41.6 9.5 49 512-562 434-483 (988)
319 PF13177 DNA_pol3_delta2: DNA 47.0 1.3E+02 0.0028 30.2 9.6 22 300-321 23-44 (162)
320 PF13173 AAA_14: AAA domain 46.9 18 0.00039 34.7 3.1 37 513-550 63-99 (128)
321 PRK10824 glutaredoxin-4; Provi 46.4 77 0.0017 30.1 7.2 62 854-916 16-83 (115)
322 PRK07994 DNA polymerase III su 46.0 1E+02 0.0022 38.4 10.0 21 299-319 41-61 (647)
323 KOG0951 RNA helicase BRR2, DEA 45.8 1.2E+02 0.0025 40.1 10.3 56 384-444 1186-1246(1674)
324 PHA03096 p28-like protein; Pro 45.7 9.4 0.0002 42.2 1.0 34 719-752 179-220 (284)
325 KOG4185 Predicted E3 ubiquitin 45.6 13 0.00027 41.6 2.1 46 718-765 3-54 (296)
326 cd03028 GRX_PICOT_like Glutare 44.9 80 0.0017 28.3 6.9 44 854-897 9-58 (90)
327 PRK07940 DNA polymerase III su 44.6 1.2E+02 0.0027 35.3 10.1 23 298-320 38-60 (394)
328 KOG0991 Replication factor C, 43.9 1.1E+02 0.0023 32.9 8.2 21 299-319 51-71 (333)
329 COG3421 Uncharacterized protei 43.9 20 0.00043 43.0 3.3 19 303-321 4-22 (812)
330 COG4098 comFA Superfamily II D 43.6 43 0.00093 37.7 5.6 61 802-891 123-185 (441)
331 PRK07764 DNA polymerase III su 43.6 1.7E+02 0.0037 37.7 11.7 41 277-320 21-61 (824)
332 PRK08727 hypothetical protein; 43.0 1.2E+02 0.0027 32.4 9.2 21 299-319 44-64 (233)
333 PRK14951 DNA polymerase III su 42.9 87 0.0019 38.8 8.8 21 300-320 42-62 (618)
334 TIGR00580 mfd transcription-re 41.9 1.1E+02 0.0025 39.7 10.0 74 854-929 502-579 (926)
335 KOG1815 Predicted E3 ubiquitin 41.2 20 0.00044 42.5 3.0 55 717-771 69-131 (444)
336 COG1199 DinG Rad3-related DNA 41.1 61 0.0013 40.6 7.4 47 272-321 13-59 (654)
337 KOG0804 Cytoplasmic Zn-finger 40.8 13 0.00027 42.8 1.1 35 717-751 174-212 (493)
338 PRK14959 DNA polymerase III su 40.0 2.2E+02 0.0048 35.3 11.5 22 299-320 41-62 (624)
339 PRK14873 primosome assembly pr 39.9 1.1E+02 0.0025 38.2 9.2 76 805-911 170-247 (665)
340 PRK14974 cell division protein 39.8 1E+02 0.0022 35.2 8.1 43 512-555 223-270 (336)
341 PF03354 Terminase_1: Phage Te 39.6 2.1E+02 0.0045 34.3 11.4 44 277-320 1-46 (477)
342 cd03418 GRX_GRXb_1_3_like Glut 39.0 1.2E+02 0.0025 25.6 6.7 57 854-911 1-58 (75)
343 cd01121 Sms Sms (bacterial rad 38.0 1.5E+02 0.0033 34.3 9.3 20 300-319 86-105 (372)
344 COG1198 PriA Primosomal protei 37.8 81 0.0018 39.7 7.5 83 800-913 222-305 (730)
345 KOG0825 PHD Zn-finger protein 36.6 7.5 0.00016 47.2 -1.5 49 721-772 126-177 (1134)
346 PRK12422 chromosomal replicati 35.7 1.2E+02 0.0026 36.1 8.2 22 298-319 143-164 (445)
347 PHA00673 acetyltransferase dom 35.7 53 0.0012 32.9 4.5 45 511-555 87-134 (154)
348 KOG2979 Protein involved in DN 35.5 89 0.0019 33.7 6.2 47 716-762 174-222 (262)
349 KOG3579 Predicted E3 ubiquitin 34.7 16 0.00034 39.4 0.6 40 719-758 269-316 (352)
350 PRK05703 flhF flagellar biosyn 34.6 1.6E+02 0.0034 34.8 8.9 55 511-566 299-359 (424)
351 KOG1493 Anaphase-promoting com 34.5 19 0.0004 31.1 0.9 45 719-763 32-78 (84)
352 KOG2114 Vacuolar assembly/sort 34.3 30 0.00065 43.0 2.9 49 709-763 826-880 (933)
353 PRK10689 transcription-repair 33.7 1.7E+02 0.0037 39.2 9.9 72 854-927 651-726 (1147)
354 CHL00095 clpC Clp protease ATP 33.1 1E+02 0.0022 39.8 7.7 23 297-319 201-223 (821)
355 COG4646 DNA methylase [Transcr 32.8 23 0.0005 40.9 1.6 31 539-569 473-503 (637)
356 PRK09111 DNA polymerase III su 32.7 2.1E+02 0.0045 35.4 9.9 41 277-320 30-70 (598)
357 PRK11054 helD DNA helicase IV; 32.6 60 0.0013 40.8 5.3 39 273-320 195-233 (684)
358 KOG4367 Predicted Zn-finger pr 32.5 19 0.0004 40.9 0.7 33 718-750 4-36 (699)
359 PRK05563 DNA polymerase III su 32.4 1.6E+02 0.0035 36.1 8.9 21 299-319 41-61 (559)
360 PHA03372 DNA packaging termina 32.2 1.1E+02 0.0025 37.3 7.1 20 507-526 295-314 (668)
361 KOG4275 Predicted E3 ubiquitin 32.0 14 0.00031 39.9 -0.2 42 718-766 300-342 (350)
362 PF00580 UvrD-helicase: UvrD/R 31.4 57 0.0012 36.1 4.5 37 275-320 1-37 (315)
363 PRK07993 DNA polymerase III su 31.3 2.2E+02 0.0048 32.4 9.2 49 274-322 2-50 (334)
364 PRK05642 DNA replication initi 31.3 2.1E+02 0.0045 30.7 8.6 36 513-548 99-138 (234)
365 PRK06893 DNA replication initi 30.9 2.2E+02 0.0048 30.3 8.7 21 299-319 42-62 (229)
366 TIGR03345 VI_ClpV1 type VI sec 30.2 2.2E+02 0.0048 36.9 9.9 40 279-319 192-231 (852)
367 PRK13826 Dtr system oriT relax 28.9 2.6E+02 0.0057 37.1 10.2 50 513-564 470-520 (1102)
368 PRK14965 DNA polymerase III su 28.7 3.6E+02 0.0079 33.2 11.1 21 300-320 42-62 (576)
369 cd03031 GRX_GRX_like Glutaredo 28.5 1.8E+02 0.0039 28.9 6.8 58 854-911 1-68 (147)
370 PF05621 TniB: Bacterial TniB 28.3 36 0.00077 37.9 2.1 43 507-549 141-189 (302)
371 COG5194 APC11 Component of SCF 27.7 44 0.00096 29.2 2.0 26 732-758 50-75 (88)
372 PTZ00062 glutaredoxin; Provisi 27.4 3E+02 0.0065 29.0 8.6 55 854-909 114-174 (204)
373 cd05568 PTS_IIB_bgl_like PTS_I 27.1 95 0.0021 27.0 4.3 52 387-442 3-56 (85)
374 cd05566 PTS_IIB_galactitol PTS 27.0 74 0.0016 28.2 3.6 55 386-442 2-58 (89)
375 PRK13342 recombination factor 26.8 1.7E+02 0.0038 34.3 7.7 20 298-317 38-57 (413)
376 PRK11889 flhF flagellar biosyn 26.0 2.5E+02 0.0054 32.9 8.3 54 511-564 320-377 (436)
377 COG2247 LytB Putative cell wal 25.9 1.6E+02 0.0035 32.9 6.4 59 852-911 76-139 (337)
378 PRK06871 DNA polymerase III su 25.4 4.2E+02 0.0092 30.1 10.0 48 275-322 3-50 (325)
379 COG0626 MetC Cystathionine bet 25.3 2.3E+02 0.0049 33.1 7.9 36 854-889 104-140 (396)
380 PRK13341 recombination factor 24.2 4.8E+02 0.01 33.2 11.1 20 298-317 54-73 (725)
381 PRK14971 DNA polymerase III su 24.1 7.5E+02 0.016 30.8 12.6 21 299-319 42-62 (614)
382 KOG0925 mRNA splicing factor A 23.9 54 0.0012 38.5 2.5 45 511-559 159-211 (699)
383 cd03027 GRX_DEP Glutaredoxin ( 23.7 3.3E+02 0.0071 22.9 6.9 56 854-911 2-58 (73)
384 PF00462 Glutaredoxin: Glutare 23.7 3.9E+02 0.0084 21.4 7.5 45 855-899 1-46 (60)
385 PRK13556 azoreductase; Provisi 23.6 52 0.0011 34.6 2.2 30 921-950 87-119 (208)
386 PF00308 Bac_DnaA: Bacterial d 23.2 3.6E+02 0.0078 28.6 8.6 36 512-547 98-137 (219)
387 cd05563 PTS_IIB_ascorbate PTS_ 23.2 1.7E+02 0.0036 25.8 5.1 52 387-442 2-55 (86)
388 PF10367 Vps39_2: Vacuolar sor 23.2 44 0.00094 30.8 1.4 30 717-746 77-108 (109)
389 cd06533 Glyco_transf_WecG_TagA 22.9 4.6E+02 0.01 26.6 8.9 57 854-912 48-107 (171)
390 COG5175 MOT2 Transcriptional r 22.4 53 0.0011 36.3 1.9 52 715-768 11-66 (480)
391 cd01524 RHOD_Pyr_redox Member 22.4 1.2E+02 0.0026 26.7 4.1 35 853-887 52-86 (90)
392 cd00133 PTS_IIB PTS_IIB: subun 22.3 1.7E+02 0.0038 24.8 5.0 53 387-442 2-56 (84)
393 TIGR00614 recQ_fam ATP-depende 22.2 2.6E+02 0.0056 33.5 8.0 60 854-915 53-112 (470)
394 smart00744 RINGv The RING-vari 21.7 64 0.0014 25.6 1.8 38 720-757 1-46 (49)
395 COG1702 PhoH Phosphate starvat 21.5 49 0.0011 37.3 1.5 40 514-555 246-285 (348)
396 TIGR01547 phage_term_2 phage t 21.2 2.7E+02 0.0059 32.3 7.8 38 512-551 102-142 (396)
397 PF01695 IstB_IS21: IstB-like 21.2 99 0.0022 31.7 3.7 24 296-319 47-70 (178)
398 COG1200 RecG RecG-like helicas 20.7 2.3E+02 0.0049 35.2 6.9 64 864-929 327-390 (677)
399 KOG4445 Uncharacterized conser 20.4 1.4E+02 0.0029 32.9 4.4 33 718-750 118-150 (368)
400 TIGR00696 wecB_tagA_cpsF bacte 20.2 6.5E+02 0.014 25.8 9.3 57 854-912 50-108 (177)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=6.2e-104 Score=852.66 Aligned_cols=576 Identities=41% Similarity=0.679 Sum_probs=481.9
Q ss_pred ccCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccC
Q 001834 263 EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNL 342 (1008)
Q Consensus 263 ~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~ 342 (1008)
.+.+|.+ +-++|+|||+++++|+..+|.+. ..|||||||||+|||||+|||++..
T Consensus 174 ~aeqP~d-lii~LL~fQkE~l~Wl~~QE~Ss--~~GGiLADEMGMGKTIQtIaLllae---------------------- 228 (791)
T KOG1002|consen 174 RAEQPDD-LIIPLLPFQKEGLAWLTSQEESS--VAGGILADEMGMGKTIQTIALLLAE---------------------- 228 (791)
T ss_pred cccCccc-ceecchhhhHHHHHHHHHhhhhh--hccceehhhhccchHHHHHHHHHhc----------------------
Confidence 3456666 47899999999999999999865 4899999999999999999999772
Q ss_pred CCCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 001834 343 DDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS 422 (1008)
Q Consensus 343 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~ 422 (1008)
...++||||||.-.+.||.+||.+|... .+++++|||.+
T Consensus 229 ---------------------------------------~~ra~tLVvaP~VAlmQW~nEI~~~T~g--slkv~~YhG~~ 267 (791)
T KOG1002|consen 229 ---------------------------------------VDRAPTLVVAPTVALMQWKNEIERHTSG--SLKVYIYHGAK 267 (791)
T ss_pred ---------------------------------------cccCCeeEEccHHHHHHHHHHHHHhccC--ceEEEEEeccc
Confidence 1224599999999999999999999884 89999999999
Q ss_pred CCCCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCccc
Q 001834 423 RTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDY 502 (1008)
Q Consensus 423 r~~~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~ 502 (1008)
|.++..++..||||+|||.++.+.+.++ .+| | . +| ...+.
T Consensus 268 R~~nikel~~YDvVLTty~vvEs~yRk~--------------~~G----f------------r--rK--------ngv~k 307 (791)
T KOG1002|consen 268 RDKNIKELMNYDVVLTTYAVVESVYRKQ--------------DYG----F------------R--RK--------NGVDK 307 (791)
T ss_pred ccCCHHHhhcCcEEEEecHHHHHHHHhc--------------ccc----c------------c--cc--------CCccc
Confidence 9999999999999999999999876542 111 0 0 00 12333
Q ss_pred CCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchh----------
Q 001834 503 GCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVY---------- 572 (1008)
Q Consensus 503 ~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~---------- 572 (1008)
..++||.+.|.|||+||||+||++.+.+++|++.|++.+||||||||+||++.|||++++||+.+||..+
T Consensus 308 e~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRFL~i~Pfsyyfc~~cdc~~~ 387 (791)
T KOG1002|consen 308 EKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRFLNINPFSYYFCTKCDCASL 387 (791)
T ss_pred ccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHHHccCcchhhhhhhcccccc
Confidence 4568999999999999999999999999999999999999999999999999999999999999986432
Q ss_pred ---------------------HHHHHHcccCcccCc-----hhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEE
Q 001834 573 ---------------------KSFYSTIKIPISRNS-----LHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISL 626 (1008)
Q Consensus 573 ---------------------~~F~~~~~~pi~~~~-----~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~ 626 (1008)
..|......||.+.. ..++...+.+++.+|+||||-.-.+ -+.|||+.+.+
T Consensus 388 ~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTkl~RAd---DLgLPPRiv~v 464 (791)
T KOG1002|consen 388 DWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTKLERAD---DLGLPPRIVTV 464 (791)
T ss_pred ceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhhccccc---ccCCCccceee
Confidence 134444456665542 3456678899999999999965332 25799999999
Q ss_pred EEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHH
Q 001834 627 TKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDM 706 (1008)
Q Consensus 627 v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~ 706 (1008)
..--|+.+|.++|+.+...++..|+.|...|.+..+|++|+.+++||||+++||.|+..... +.++.+
T Consensus 465 RrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~-----------~n~~~e- 532 (791)
T KOG1002|consen 465 RRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSAN-----------ANLPDE- 532 (791)
T ss_pred ehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhh-----------cCCCcc-
Confidence 99999999999999999999999999999999999999999999999999999999864211 011110
Q ss_pred HHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhhhcC--CCCCCCCcccccccccceeecc---cccccccC
Q 001834 707 LIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG--DDNMCPAPRCKEQLGADVVFSK---TTLKNCVS 781 (1008)
Q Consensus 707 ~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~--~~~~cp~~~c~~~l~~~~~~~~---~~l~~~~~ 781 (1008)
..+..+|.+|.|+.++++++.|.|.||.-|+.+|+.+ +.....||.|...+..+..-.. ..++.+.
T Consensus 533 --------nk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiDlse~alek~~l~~Fk- 603 (791)
T KOG1002|consen 533 --------NKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSIDLSEPALEKTDLKGFK- 603 (791)
T ss_pred --------ccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCccccccccccccchhhhhcchhhhh-
Confidence 1246689999999999999999999999999998753 2233445577766655532111 1111110
Q ss_pred CCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEecc
Q 001834 782 DDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQW 861 (1008)
Q Consensus 782 ~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~ 861 (1008)
...--..+..+.|..|+|+++|++.|.-+.+.+. ..|.||||||
T Consensus 604 ---------~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~---------------------------t~KsIVFSQF 647 (791)
T KOG1002|consen 604 ---------ASSILNRINMDDWQSSTKIEALVEELYFLRERDR---------------------------TAKSIVFSQF 647 (791)
T ss_pred ---------hHHHhhhcchhhhcchhHHHHHHHHHHHHHHccc---------------------------chhhhhHHHH
Confidence 0000012234578899999999999998887654 4599999999
Q ss_pred HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhH
Q 001834 862 TRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQ 941 (1008)
Q Consensus 862 ~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~Q 941 (1008)
|+|||+|...|.+.|+..+.+.|+|+++.|.+.|+.|.++++ ++|||+|++|||+.|||+.|++|++|||||||+++.|
T Consensus 648 TSmLDLi~~rL~kaGfscVkL~GsMs~~ardatik~F~nd~~-c~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Q 726 (791)
T KOG1002|consen 648 TSMLDLIEWRLGKAGFSCVKLVGSMSPAARDATIKYFKNDID-CRVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQ 726 (791)
T ss_pred HHHHHHHHHHhhccCceEEEeccCCChHHHHHHHHHhccCCC-eEEEEEEeccCceEeeechhceeEeecccccHHHHhh
Confidence 999999999999999999999999999999999999999998 9999999999999999999999999999999999999
Q ss_pred HHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhc
Q 001834 942 AVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFM 1007 (1008)
Q Consensus 942 AigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~ 1007 (1008)
|.+|+|||||.+||.|.+|++++|||++|+++|++|..|+++.+|.++. ...+|+.+||++||.
T Consensus 727 a~DRiHRIGQ~rPvkvvrf~iEnsiE~kIieLQeKKa~mihaTi~qde~--Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 727 AQDRIHRIGQYRPVKVVRFCIENSIEEKIIELQEKKANMIHATIGQDEE--AISKLTEEDMQFLFN 790 (791)
T ss_pred hhhhHHhhcCccceeEEEeehhccHHHHHHHHHHHHhhhhhhhcCCcHH--HHHhcCHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999998753 346899999999995
No 2
>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=4.6e-89 Score=765.61 Aligned_cols=544 Identities=38% Similarity=0.633 Sum_probs=435.0
Q ss_pred CCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCC
Q 001834 267 PDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDD 346 (1008)
Q Consensus 267 P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 (1008)
+|..+.+.|.|||+.|+.||+.+|... ..|||||||||||||+++|++|+.++........
T Consensus 318 ~P~g~~v~LmpHQkaal~Wl~wRE~q~--~~GGILaddmGLGKTlsmislil~qK~~~~~~~~----------------- 378 (901)
T KOG4439|consen 318 TPDGLKVELMPHQKAALRWLLWRESQP--PSGGILADDMGLGKTLSMISLILHQKAARKAREK----------------- 378 (901)
T ss_pred CCCcceeecchhhhhhhhhhcccccCC--CCCcccccccccccchHHHHHHHHHHHHHHhhcc-----------------
Confidence 334458999999999999999999864 5899999999999999999999987654111000
Q ss_pred CCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC-CCC
Q 001834 347 DNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS-RTK 425 (1008)
Q Consensus 347 ~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~-r~~ 425 (1008)
....+.+||||||+||+.||..|+++.+... .++|++|||.+ |..
T Consensus 379 ---------------------------------~~~~a~~TLII~PaSli~qW~~Ev~~rl~~n-~LsV~~~HG~n~r~i 424 (901)
T KOG4439|consen 379 ---------------------------------KGESASKTLIICPASLIHQWEAEVARRLEQN-ALSVYLYHGPNKREI 424 (901)
T ss_pred ---------------------------------cccccCCeEEeCcHHHHHHHHHHHHHHHhhc-ceEEEEecCCccccC
Confidence 0011124999999999999999999998765 89999999999 777
Q ss_pred CccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCC
Q 001834 426 DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCG 505 (1008)
Q Consensus 426 ~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~ 505 (1008)
....+.+||||||||..+.+... ++.. .....+
T Consensus 425 ~~~~L~~YDvViTTY~lva~~~~-------~e~~----------------------------------------~~~~~s 457 (901)
T KOG4439|consen 425 SAKELRKYDVVITTYNLVANKPD-------DELE----------------------------------------EGKNSS 457 (901)
T ss_pred CHHHHhhcceEEEeeeccccCCc-------hhhh----------------------------------------cccCcc
Confidence 88999999999999999886211 0000 011235
Q ss_pred CcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccCccc
Q 001834 506 PLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISR 585 (1008)
Q Consensus 506 ~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~pi~~ 585 (1008)
||..+.|.|||+||||.|||++|+.+.|+|.|++..|||||||||||++.|+|++++||+..||+++..|.+.+..+.
T Consensus 458 pL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr~~pF~D~~~Wke~i~~~s-- 535 (901)
T KOG4439|consen 458 PLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLRCPPFGDLKQWKENIDNMS-- 535 (901)
T ss_pred HHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhcCCCcchHHHHHHhccCcc--
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999986543
Q ss_pred CchhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhh----------
Q 001834 586 NSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFAD---------- 655 (1008)
Q Consensus 586 ~~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~---------- 655 (1008)
..+..++.-+.++.||||||.....+.+++.||.+..+++.++|+..|...|+-+.+.++..+..+..
T Consensus 536 --~~g~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~askk~~kq~L~~~e~~~~~~~ 613 (901)
T KOG4439|consen 536 --KGGANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEASKKLFKQFLLQREDRNNDGG 613 (901)
T ss_pred --ccchhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHHHHHHHHHHHHhhhhhccccC
Confidence 34456777788999999999998888899999999999999999999999999999888888765421
Q ss_pred --------------------------cCCCcchHHHHHHHHHHHHhhcccccccccc-ccccc--ccchHHHhhcCChHH
Q 001834 656 --------------------------AGTVNQNYANILLMLLRLRQACDHPLLVKEY-DFDSV--GKISGEMAKRLPRDM 706 (1008)
Q Consensus 656 --------------------------~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~-~~~~~--~~~~~e~~~~l~~~~ 706 (1008)
.|........||.+|+||||+||||.+.... +.+.. .+...+....+..+.
T Consensus 614 ~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~~~~~~~g~~~sde~~~e~~~ 693 (901)
T KOG4439|consen 614 YQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDPEEFQMNGGDDSDEEQLEEDN 693 (901)
T ss_pred ccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCHHHhhhcCcchhhhhhhhhhH
Confidence 1222334567999999999999999776532 11111 111111111222222
Q ss_pred HHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCC
Q 001834 707 LIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGG 786 (1008)
Q Consensus 707 ~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~ 786 (1008)
+..+ .... .|.|... .|. ...
T Consensus 694 l~el-~k~~-----------------~T~~~~D--------------------~~e-d~p-------------------- 714 (901)
T KOG4439|consen 694 LAEL-EKND-----------------ETDCSDD--------------------NCE-DLP-------------------- 714 (901)
T ss_pred HHhh-hhcc-----------------ccccccc--------------------ccc-ccc--------------------
Confidence 2111 1110 0111100 010 000
Q ss_pred CCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHH
Q 001834 787 SPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLD 866 (1008)
Q Consensus 787 ~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld 866 (1008)
. .-.....+..+.|.|+..+++++..+.... .+|+||.|||+++|.
T Consensus 715 -----~-~~~~q~Fe~~r~S~Ki~~~l~~le~i~~~s----------------------------keK~viVSQwtsvLn 760 (901)
T KOG4439|consen 715 -----T-AFPDQAFEPDRPSCKIAMVLEILETILTSS----------------------------KEKVVIVSQWTSVLN 760 (901)
T ss_pred -----c-cchhhhcccccchhHHHHHHHHHHHHhhcc----------------------------cceeeehhHHHHHHH
Confidence 0 000112445568999999999999883322 349999999999999
Q ss_pred HHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhh
Q 001834 867 LVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRA 946 (1008)
Q Consensus 867 ~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~ 946 (1008)
++...|.+.|+.|..++|....++|+.+|+.||....+.+|||+|+.|||+||||+.|||+|++|+.|||+.|.||.+|+
T Consensus 761 iv~~hi~~~g~~y~si~Gqv~vK~Rq~iv~~FN~~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRI 840 (901)
T KOG4439|consen 761 IVRKHIQKGGHIYTSITGQVLVKDRQEIVDEFNQEKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRI 840 (901)
T ss_pred HHHHHHhhCCeeeeeecCccchhHHHHHHHHHHhccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHH
Confidence 99999999999999999999999999999999988777999999999999999999999999999999999999999999
Q ss_pred hhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhcC
Q 001834 947 HRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV 1008 (1008)
Q Consensus 947 ~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~~ 1008 (1008)
+|+||+|+|+||||+++||||+||..+|+.|.+++..++.+... .....||..||+.||++
T Consensus 841 YR~GQkK~V~IhR~~~~gTvEqrV~~LQdkKldlA~~VL~G~~t-r~~~kLT~adlk~LFgl 901 (901)
T KOG4439|consen 841 YRMGQKKDVFIHRLMCKGTVEQRVKSLQDKKLDLAKGVLTGSAT-RKMNKLTLADLKKLFGL 901 (901)
T ss_pred HHhcccCceEEEEEEecCcHHHHHHHHHHHHHHHHhhhccCccc-cccccccHHHHHHHhCC
Confidence 99999999999999999999999999999999999999975432 34678999999999985
No 3
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=4.8e-89 Score=772.24 Aligned_cols=460 Identities=31% Similarity=0.509 Sum_probs=405.0
Q ss_pred CCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCC
Q 001834 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (1008)
Q Consensus 266 ~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (1008)
.|..+....||+||.+|+.||+++...+ .+||||||||||||+|+||++.+.+..
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~eng---ingILaDEMGLGKTlQtIs~l~yl~~~---------------------- 213 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLYENG---INGILADEMGLGKTLQTISLLGYLKGR---------------------- 213 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHHhcC---cccEeehhcccchHHHHHHHHHHHHHh----------------------
Confidence 5666766899999999999999887644 569999999999999999999987653
Q ss_pred CCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 001834 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (1008)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~ 425 (1008)
....+|.||+||.|++.||.+||.+|+| .+++++|+|.+..+
T Consensus 214 -----------------------------------~~~~GPfLVi~P~StL~NW~~Ef~rf~P---~l~~~~~~Gdk~eR 255 (971)
T KOG0385|consen 214 -----------------------------------KGIPGPFLVIAPKSTLDNWMNEFKRFTP---SLNVVVYHGDKEER 255 (971)
T ss_pred -----------------------------------cCCCCCeEEEeeHhhHHHHHHHHHHhCC---CcceEEEeCCHHHH
Confidence 1334779999999999999999999999 89999999988443
Q ss_pred -----CccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCc
Q 001834 426 -----DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSI 500 (1008)
Q Consensus 426 -----~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~ 500 (1008)
+...-..+||+||||+++.++-
T Consensus 256 ~~~~r~~~~~~~fdV~iTsYEi~i~dk----------------------------------------------------- 282 (971)
T KOG0385|consen 256 AALRRDIMLPGRFDVCITSYEIAIKDK----------------------------------------------------- 282 (971)
T ss_pred HHHHHHhhccCCCceEeehHHHHHhhH-----------------------------------------------------
Confidence 2223358999999999988641
Q ss_pred ccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcc
Q 001834 501 DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIK 580 (1008)
Q Consensus 501 ~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~ 580 (1008)
..|..+.|.++||||||+|||.++..++.++.+.+.+|++|||||+||++.|||++|+||.|+.|.+.+.|..+|.
T Consensus 283 ----~~lk~~~W~ylvIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~ 358 (971)
T KOG0385|consen 283 ----SFLKKFNWRYLVIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFD 358 (971)
T ss_pred ----HHHhcCCceEEEechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHc
Confidence 2378899999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cCcccCchhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 001834 581 IPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVN 660 (1008)
Q Consensus 581 ~pi~~~~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~ 660 (1008)
.....+....+.+|+.+|++|++||.|.+|.. .|||+.+..++|.|+..|++.|..+...-...+. ..+..
T Consensus 359 ~~~~~~~~e~v~~Lh~vL~pFlLRR~K~dVe~-----sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~~~n---~~~~~- 429 (971)
T KOG0385|consen 359 FTNCEGDQELVSRLHKVLRPFLLRRIKSDVEK-----SLPPKKELIIYVGMSSMQKKWYKAILMKDLDALN---GEGKG- 429 (971)
T ss_pred ccccccCHHHHHHHHhhhhHHHHHHHHHhHhh-----cCCCcceeeEeccchHHHHHHHHHHHHhcchhhc---ccccc-
Confidence 87777777789999999999999999999987 7999999999999999999999988764433322 22221
Q ss_pred chHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCccc
Q 001834 661 QNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVF 740 (1008)
Q Consensus 661 ~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~f 740 (1008)
....+++++++||++|+||+|+....... | .+
T Consensus 430 -~k~kL~NI~mQLRKccnHPYLF~g~ePg~----------------------------------------p-yt------ 461 (971)
T KOG0385|consen 430 -EKTKLQNIMMQLRKCCNHPYLFDGAEPGP----------------------------------------P-YT------ 461 (971)
T ss_pred -hhhHHHHHHHHHHHhcCCccccCCCCCCC----------------------------------------C-CC------
Confidence 35678899999999999999986522100 0 00
Q ss_pred chhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhh
Q 001834 741 CYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQC 820 (1008)
Q Consensus 741 c~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~ 820 (1008)
........|+|+..|-.+|..+.
T Consensus 462 ---------------------------------------------------------tdehLv~nSGKm~vLDkLL~~Lk 484 (971)
T KOG0385|consen 462 ---------------------------------------------------------TDEHLVTNSGKMLVLDKLLPKLK 484 (971)
T ss_pred ---------------------------------------------------------cchHHHhcCcceehHHHHHHHHH
Confidence 00111235899999999999999
Q ss_pred hcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhcc
Q 001834 821 ELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (1008)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~ 900 (1008)
+.|+ |||||||++.|||+|+.++.-+++.|+||||+++-++|.+.|+.||.
T Consensus 485 ~~Gh-----------------------------RVLIFSQmt~mLDILeDyc~~R~y~ycRiDGSt~~eeR~~aI~~fn~ 535 (971)
T KOG0385|consen 485 EQGH-----------------------------RVLIFSQMTRMLDILEDYCMLRGYEYCRLDGSTSHEEREDAIEAFNA 535 (971)
T ss_pred hCCC-----------------------------eEEEeHHHHHHHHHHHHHHHhcCceeEeecCCCCcHHHHHHHHhcCC
Confidence 9887 99999999999999999999999999999999999999999999999
Q ss_pred CcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHH
Q 001834 901 DREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKM 980 (1008)
Q Consensus 901 ~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l 980 (1008)
+++..+|||+||+|||.|+||++|++||+||..|||....||.+|||||||+++|.||||++++||||+|+++...|.+|
T Consensus 536 ~~s~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLitentVEe~IveRA~~KL~L 615 (971)
T KOG0385|consen 536 PPSEKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLITENTVEEKIVERAAAKLRL 615 (971)
T ss_pred CCcceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEeccchHHHHHHHHHHHHhch
Confidence 98879999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCC
Q 001834 981 VASAFGED 988 (1008)
Q Consensus 981 ~~~~~g~~ 988 (1008)
-.-+++.+
T Consensus 616 d~~VIq~g 623 (971)
T KOG0385|consen 616 DKLVIQQG 623 (971)
T ss_pred hhhhhccC
Confidence 99999875
No 4
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=3e-86 Score=754.17 Aligned_cols=475 Identities=30% Similarity=0.479 Sum_probs=401.7
Q ss_pred cCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCC
Q 001834 264 ATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLD 343 (1008)
Q Consensus 264 ~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 (1008)
..+|..+ ...|+|||++||.||+.+.. +..|||||||||||||||+|+++..+...
T Consensus 196 ~~vPg~I-~~~Lf~yQreGV~WL~~L~~---q~~GGILgDeMGLGKTIQiisFLaaL~~S-------------------- 251 (923)
T KOG0387|consen 196 FKVPGFI-WSKLFPYQREGVQWLWELYC---QRAGGILGDEMGLGKTIQIISFLAALHHS-------------------- 251 (923)
T ss_pred ccccHHH-HHHhhHHHHHHHHHHHHHHh---ccCCCeecccccCccchhHHHHHHHHhhc--------------------
Confidence 4566554 66799999999999998765 34799999999999999999999875432
Q ss_pred CCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 001834 344 DDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSR 423 (1008)
Q Consensus 344 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r 423 (1008)
..-.+|+|||||++|+.||.+|+.+|+| .++|.+|||...
T Consensus 252 -------------------------------------~k~~~paLIVCP~Tii~qW~~E~~~w~p---~~rv~ilh~t~s 291 (923)
T KOG0387|consen 252 -------------------------------------GKLTKPALIVCPATIIHQWMKEFQTWWP---PFRVFILHGTGS 291 (923)
T ss_pred -------------------------------------ccccCceEEEccHHHHHHHHHHHHHhCc---ceEEEEEecCCc
Confidence 0123679999999999999999999999 799999999876
Q ss_pred CCC---------------ccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccc
Q 001834 424 TKD---------------PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRG 488 (1008)
Q Consensus 424 ~~~---------------~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~ 488 (1008)
... ........|.||||+.++..-
T Consensus 292 ~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~----------------------------------------- 330 (923)
T KOG0387|consen 292 GARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG----------------------------------------- 330 (923)
T ss_pred ccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC-----------------------------------------
Confidence 310 112234568999999987531
Q ss_pred cCCCCCCCCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCC
Q 001834 489 KKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDP 568 (1008)
Q Consensus 489 ~~~~~~~~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~ 568 (1008)
.++..+.|++||+||+|+|||++|+.+.+|+.|+..+|++||||||||++.|||++|.|+.|+.
T Consensus 331 ----------------d~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~ 394 (923)
T KOG0387|consen 331 ----------------DDLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGK 394 (923)
T ss_pred ----------------cccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCc
Confidence 2377899999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhHHHHHHcccCcccCchh------------HHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHH
Q 001834 569 YAVYKSFYSTIKIPISRNSLH------------GYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEW 636 (1008)
Q Consensus 569 ~~~~~~F~~~~~~pi~~~~~~------------~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~ 636 (1008)
+++...|...|..||..+... ....|+.++.|++|||+|.+|.. +.||.|.+.++.|.||+.|+
T Consensus 395 Lgt~~~F~~~f~~pI~~GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~----~~Lp~K~E~VlfC~LT~~QR 470 (923)
T KOG0387|consen 395 LGTLPVFQQNFEHPINRGGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKG----LKLPKKEEIVLFCRLTKLQR 470 (923)
T ss_pred ccchHHHHhhhhhheeccccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhh----ccCCCccceEEEEeccHHHH
Confidence 999999999999999876432 23578999999999999999875 68999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhccc
Q 001834 637 AFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLET 716 (1008)
Q Consensus 637 ~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~ 716 (1008)
.+|+.+.+... +..... | ..++|..+.-||.+||||.|+.........
T Consensus 471 ~~Y~~fl~s~~--v~~i~n-g-----~~~~l~Gi~iLrkICnHPdll~~~~~~~~~------------------------ 518 (923)
T KOG0387|consen 471 RLYQRFLNSSE--VNKILN-G-----KRNCLSGIDILRKICNHPDLLDRRDEDEKQ------------------------ 518 (923)
T ss_pred HHHHHHhhhHH--HHHHHc-C-----CccceechHHHHhhcCCcccccCccccccc------------------------
Confidence 99998876432 122211 1 235677788899999999987542100000
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADK 796 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 796 (1008)
+
T Consensus 519 ----------------------------------~--------------------------------------------- 519 (923)
T KOG0387|consen 519 ----------------------------------G--------------------------------------------- 519 (923)
T ss_pred ----------------------------------C---------------------------------------------
Confidence 0
Q ss_pred cCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHH-hc
Q 001834 797 SGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLN-QH 875 (1008)
Q Consensus 797 ~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~-~~ 875 (1008)
......+..|.|++.+.++|......+. |+|+|||...|||+|+..|. ..
T Consensus 520 ~D~~g~~k~sGKm~vl~~ll~~W~kqg~-----------------------------rvllFsqs~~mLdilE~fL~~~~ 570 (923)
T KOG0387|consen 520 PDYEGDPKRSGKMKVLAKLLKDWKKQGD-----------------------------RVLLFSQSRQMLDILESFLRRAK 570 (923)
T ss_pred CCcCCChhhcchHHHHHHHHHHHhhCCC-----------------------------EEEEehhHHHHHHHHHHHHHhcC
Confidence 0000223468999999999999998877 99999999999999999999 68
Q ss_pred CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccE
Q 001834 876 CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPV 955 (1008)
Q Consensus 876 gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V 955 (1008)
|+.|+++||.++.+.|+.+|++||++.+ ++|||++|++||.|||||.||+||+|||.|||++..||..|+|||||+++|
T Consensus 571 ~ysylRmDGtT~~~~R~~lVd~Fne~~s-~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPStD~QAreRawRiGQkkdV 649 (923)
T KOG0387|consen 571 GYSYLRMDGTTPAALRQKLVDRFNEDES-IFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPSTDNQARERAWRIGQKKDV 649 (923)
T ss_pred CceEEEecCCCccchhhHHHHhhcCCCc-eEEEEEEecccccccccccCceEEEECCCCCCccchHHHHHHHhhcCccce
Confidence 9999999999999999999999999988 999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhc
Q 001834 956 TVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFM 1007 (1008)
Q Consensus 956 ~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~ 1007 (1008)
.||||++.|||||+||.+|--|..|.+.++..... ..-+...||.+||.
T Consensus 650 ~VYRL~t~gTIEEkiY~rQI~Kq~Ltn~il~~p~q---~RfF~~~dl~dLFs 698 (923)
T KOG0387|consen 650 VVYRLMTAGTIEEKIYHRQIFKQFLTNRILKNPEQ---RRFFKGNDLHDLFS 698 (923)
T ss_pred EEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCHHH---hhhcccccHHHHhC
Confidence 99999999999999999999999999999965432 12356667777875
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=3.4e-85 Score=767.98 Aligned_cols=526 Identities=32% Similarity=0.497 Sum_probs=424.4
Q ss_pred HHHHHHhcCCC-Cc-ccCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccc
Q 001834 250 YQAALEDLNQP-KV-EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKS 327 (1008)
Q Consensus 250 ~~~~~~~l~~~-~~-~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~ 327 (1008)
+..+++.+-.+ +. +..+|..+ +..||.||.+||+|+.-..+-++| ||||||||||||+|+|++++...+.. +
T Consensus 950 erkFLeqlldpski~~y~Ip~pI-~a~LRkYQqEGVnWLaFLnky~LH---GILcDDMGLGKTLQticilAsd~y~r-~- 1023 (1549)
T KOG0392|consen 950 ERKFLEQLLDPSKIPEYKIPVPI-SAKLRKYQQEGVNWLAFLNKYKLH---GILCDDMGLGKTLQTICILASDHYKR-R- 1023 (1549)
T ss_pred HHHHHHHhcCcccCCccccccch-hHHHHHHHHhccHHHHHHHHhccc---ceeeccccccHHHHHHHHHHHHHHhh-c-
Confidence 45566655443 32 35666665 678999999999999887766666 99999999999999999998754431 0
Q ss_pred hhhhccccccccccCCCCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHc
Q 001834 328 KTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKV 407 (1008)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~ 407 (1008)
. ....-..-|.|||||.+|..+|+.|+.+++
T Consensus 1024 ---------s----------------------------------------~~~e~~~~PSLIVCPsTLtGHW~~E~~kf~ 1054 (1549)
T KOG0392|consen 1024 ---------S----------------------------------------ESSEFNRLPSLIVCPSTLTGHWKSEVKKFF 1054 (1549)
T ss_pred ---------c----------------------------------------cchhhccCCeEEECCchhhhHHHHHHHHhc
Confidence 0 000112345899999999999999999999
Q ss_pred CCCCCeEEEEEeCCC--CCCCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhccccccc
Q 001834 408 PDKAALSVLIYHGGS--RTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVS 485 (1008)
Q Consensus 408 ~~~~~l~v~v~~g~~--r~~~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~ 485 (1008)
| .++|+.|-|.. |........+++|+||||+++++++..
T Consensus 1055 p---fL~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d~------------------------------------ 1095 (1549)
T KOG0392|consen 1055 P---FLKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVDY------------------------------------ 1095 (1549)
T ss_pred c---hhhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHHH------------------------------------
Confidence 8 69999999876 344456677899999999999987522
Q ss_pred ccccCCCCCCCCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHc
Q 001834 486 KRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (1008)
Q Consensus 486 ~k~~~~~~~~~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~ 565 (1008)
|.++.|.++|+||+|-|||.+++.++++++|++.+|++||||||||++.||||+|+||+
T Consensus 1096 ---------------------l~~~~wNYcVLDEGHVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLM 1154 (1549)
T KOG0392|consen 1096 ---------------------LIKIDWNYCVLDEGHVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLM 1154 (1549)
T ss_pred ---------------------HHhcccceEEecCcceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhc
Confidence 67888999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcchhHHHHHHcccCccc--C----------chhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCH
Q 001834 566 YDPYAVYKSFYSTIKIPISR--N----------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSK 633 (1008)
Q Consensus 566 ~~~~~~~~~F~~~~~~pi~~--~----------~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~ 633 (1008)
|++++.-+.|.++|.+||-. + ..-++..|++.+-|||+||+|++|+. +||||.+..++|+|++
T Consensus 1155 PGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~lAleaLHKqVLPF~LRRlKedVL~-----DLPpKIIQDyyCeLs~ 1229 (1549)
T KOG0392|consen 1155 PGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGVLALEALHKQVLPFLLRRLKEDVLK-----DLPPKIIQDYYCELSP 1229 (1549)
T ss_pred ccccCcHHHHHHHhcchhhhhcCcccchhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh-----hCChhhhhheeeccCH
Confidence 99999999999999999832 1 11346788889999999999999997 8999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCcc--hHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHH
Q 001834 634 EEWAFYKKLESDSLKKFKAFADAGTVNQ--NYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLL 711 (1008)
Q Consensus 634 ~e~~~Y~~l~~~~~~~~~~~~~~g~~~~--~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~ 711 (1008)
.|+++|+.+............+.+.... ...+++..|..||+.|+||.|+....-.. +.
T Consensus 1230 lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLqYlrKLcnHpaLvlt~~hp~----------------la--- 1290 (1549)
T KOG0392|consen 1230 LQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQYLRKLCNHPALVLTPVHPD----------------LA--- 1290 (1549)
T ss_pred HHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHHHHHHhcCCcceeeCCCcch----------------HH---
Confidence 9999999988773333322222222222 26899999999999999999986421000 00
Q ss_pred HhcccccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCC
Q 001834 712 SRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDS 791 (1008)
Q Consensus 712 ~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~ 791 (1008)
.++..|+|.-
T Consensus 1291 -------------------~i~~~l~~~~--------------------------------------------------- 1300 (1549)
T KOG0392|consen 1291 -------------------AIVSHLAHFN--------------------------------------------------- 1300 (1549)
T ss_pred -------------------HHHHHHHHhh---------------------------------------------------
Confidence 0111111110
Q ss_pred ccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHH
Q 001834 792 PFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENS 871 (1008)
Q Consensus 792 ~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~ 871 (1008)
.......+++|+.+|-++|.+.--... .....+..+....+|+||||||.+|+|++++-
T Consensus 1301 ------~~LHdi~hspKl~AL~qLL~eCGig~~---------------~~~~~g~~s~vsqHRiLIFcQlK~mlDlVekD 1359 (1549)
T KOG0392|consen 1301 ------SSLHDIQHSPKLSALKQLLSECGIGNN---------------SDSEVGTPSDVSQHRILIFCQLKSMLDLVEKD 1359 (1549)
T ss_pred ------hhHHHhhhchhHHHHHHHHHHhCCCCC---------------CcccccCcchhccceeEEeeeHHHHHHHHHHH
Confidence 001112369999999999987532211 11111122225667999999999999999999
Q ss_pred HHhc---CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhh
Q 001834 872 LNQH---CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHR 948 (1008)
Q Consensus 872 L~~~---gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~R 948 (1008)
|-+. .+.|.|+||+.++.+|++++++||+||. +.|||++|.+||.|||||.|++|||++-.|||....||+||+||
T Consensus 1360 L~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~Dpt-IDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMrDLQAMDRAHR 1438 (1549)
T KOG0392|consen 1360 LFKKYMPSVTYMRLDGSVPPGDRQKIVERFNEDPT-IDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMRDLQAMDRAHR 1438 (1549)
T ss_pred HhhhhcCceeEEEecCCCCcHHHHHHHHHhcCCCc-eeEEEEeeeccccccccCCCceEEEEecCCCchhhHHHHHHHHh
Confidence 8876 5778999999999999999999999998 99999999999999999999999999999999999999999999
Q ss_pred cCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhcC
Q 001834 949 IGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFMV 1008 (1008)
Q Consensus 949 iGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~~ 1008 (1008)
|||+|.|.|||||++||+||+|..+|.-|-+.++.+++.+. .....+..++|.+||.+
T Consensus 1439 IGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqN--asl~tM~TdqLLdlF~~ 1496 (1549)
T KOG0392|consen 1439 IGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQN--ASLETMDTDQLLDLFTV 1496 (1549)
T ss_pred hcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhccc--ccccccCHHHHHHHhcc
Confidence 99999999999999999999999999999999999998764 34566889999999973
No 6
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=1.2e-83 Score=731.59 Aligned_cols=493 Identities=30% Similarity=0.481 Sum_probs=391.3
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCc
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (1008)
.++|.|||+.||+|+.-..+..+ .||||||||||||+|+||++++++..
T Consensus 397 ~i~LkdYQlvGvNWL~Llyk~~l---~gILADEMGLGKTiQvIaFlayLkq~---------------------------- 445 (941)
T KOG0389|consen 397 GIQLKDYQLVGVNWLLLLYKKKL---NGILADEMGLGKTIQVIAFLAYLKQI---------------------------- 445 (941)
T ss_pred CCcccchhhhhHHHHHHHHHccc---cceehhhccCcchhHHHHHHHHHHHc----------------------------
Confidence 45799999999999987777554 48999999999999999999997754
Q ss_pred ccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-----
Q 001834 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKD----- 426 (1008)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~----- 426 (1008)
...+|.|||||+|.+.||.+||.+||| .++|..|||+...+.
T Consensus 446 ------------------------------g~~gpHLVVvPsSTleNWlrEf~kwCP---sl~Ve~YyGSq~ER~~lR~~ 492 (941)
T KOG0389|consen 446 ------------------------------GNPGPHLVVVPSSTLENWLREFAKWCP---SLKVEPYYGSQDERRELRER 492 (941)
T ss_pred ------------------------------CCCCCcEEEecchhHHHHHHHHHHhCC---ceEEEeccCcHHHHHHHHHH
Confidence 234779999999999999999999999 899999999873321
Q ss_pred -ccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCC
Q 001834 427 -PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCG 505 (1008)
Q Consensus 427 -~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~ 505 (1008)
...-..|||++|||..+.+.- .+..
T Consensus 493 i~~~~~~ydVllTTY~la~~~k------------------------------------------------------dDRs 518 (941)
T KOG0389|consen 493 IKKNKDDYDVLLTTYNLAASSK------------------------------------------------------DDRS 518 (941)
T ss_pred HhccCCCccEEEEEeecccCCh------------------------------------------------------HHHH
Confidence 122248999999999887421 0123
Q ss_pred CcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchh-HHHHHHcccCcc
Q 001834 506 PLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVY-KSFYSTIKIPIS 584 (1008)
Q Consensus 506 ~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~-~~F~~~~~~pi~ 584 (1008)
.|....|++||.||+|++||..|.+++.+..++|.+|++|||||+||++.||++||.|+.|..|... ..+...|+.--.
T Consensus 519 flk~~~~n~viyDEgHmLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~ 598 (941)
T KOG0389|consen 519 FLKNQKFNYVIYDEGHMLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKT 598 (941)
T ss_pred HHHhccccEEEecchhhhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCC
Confidence 4778889999999999999999999999999999999999999999999999999999999998743 344444432111
Q ss_pred -cC-------chhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhc
Q 001834 585 -RN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADA 656 (1008)
Q Consensus 585 -~~-------~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~ 656 (1008)
.+ ..+++.+...+++||+|||.|.+|++ .||||+.++.+|+|++.|+.+|..+.+............
T Consensus 599 ~d~d~e~~~l~qerIsrAK~im~PFILRR~K~qVL~-----~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~~n 673 (941)
T KOG0389|consen 599 SDGDIENALLSQERISRAKTIMKPFILRRLKSQVLK-----QLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVSKN 673 (941)
T ss_pred ccchhhHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-----hcCCccceeEeeecchHHHHHHHHHHHHHhhhccccccc
Confidence 11 12457788899999999999999997 899999999999999999999999877663222111111
Q ss_pred CCCcchHHHHHHHHHHHHhhccccccccccccccc-ccchHHHhh-----cCChHHHHH---HHHhcccccccccccCCC
Q 001834 657 GTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSV-GKISGEMAK-----RLPRDMLID---LLSRLETSSAICCVCSDP 727 (1008)
Q Consensus 657 g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~-~~~~~e~~~-----~l~~~~~~~---l~~~le~~~~~c~ic~d~ 727 (1008)
.... + -..+++||++++||.|+..+..+.. .+.+..+.. .....-+.+ ++..++
T Consensus 674 -s~~~---~-~~vlmqlRK~AnHPLL~R~~Y~de~L~~mak~il~e~ay~~~n~qyIfEDm~~msDfe------------ 736 (941)
T KOG0389|consen 674 -SELK---S-GNVLMQLRKAANHPLLFRSIYTDEKLRKMAKRILNEPAYKKANEQYIFEDMEVMSDFE------------ 736 (941)
T ss_pred -cccc---c-chHHHHHHHHhcChhHHHHhccHHHHHHHHHHHhCchhhhhcCHHHHHHHHHhhhHHH------------
Confidence 1111 1 3478999999999999987665542 221111100 000111111 111111
Q ss_pred CCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccch
Q 001834 728 PEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISS 807 (1008)
Q Consensus 728 ~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ss 807 (1008)
-|..|.+.- | ........+.|-.|+
T Consensus 737 ---------lHqLc~~f~---------------~-------------------------------~~~f~L~d~~~mdSg 761 (941)
T KOG0389|consen 737 ---------LHQLCCQFR---------------H-------------------------------LSKFQLKDDLWMDSG 761 (941)
T ss_pred ---------HHHHHHhcC---------------C-------------------------------CcccccCCchhhhhh
Confidence 123332110 0 000011123455799
Q ss_pred hHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCC
Q 001834 808 KIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMS 887 (1008)
Q Consensus 808 Kl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s 887 (1008)
|++.|-.+|.++...|+ |||||||||.|||+|+..|...++.|+|+||+|.
T Consensus 762 K~r~L~~LLp~~k~~G~-----------------------------RVLiFSQFTqmLDILE~~L~~l~~~ylRLDGsTq 812 (941)
T KOG0389|consen 762 KCRKLKELLPKIKKKGD-----------------------------RVLIFSQFTQMLDILEVVLDTLGYKYLRLDGSTQ 812 (941)
T ss_pred hHhHHHHHHHHHhhcCC-----------------------------EEEEeeHHHHHHHHHHHHHHhcCceEEeecCCcc
Confidence 99999999999998877 9999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 888 LPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 888 ~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
...|+.+|++|+.+.+ ++|||+||+|||.||||++||+||++|..+||....||.+||||+||+|+|+|||||+++|||
T Consensus 813 V~~RQ~lId~Fn~d~d-ifVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpVtV~rLItk~TIE 891 (941)
T KOG0389|consen 813 VNDRQDLIDEFNTDKD-IFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPVTVYRLITKSTIE 891 (941)
T ss_pred chHHHHHHHhhccCCc-eEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCcceeEEEEEEecCcHH
Confidence 9999999999999988 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhhcCCC
Q 001834 968 DRILKLQDDKRKMVASAFGEDQ 989 (1008)
Q Consensus 968 e~I~~lq~~K~~l~~~~~g~~~ 989 (1008)
|.|+++.+.|..|-..+.+.++
T Consensus 892 E~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 892 EGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred HHHHHHHHHhhhhhhhhccCcc
Confidence 9999999999998877776544
No 7
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=2.4e-82 Score=779.98 Aligned_cols=475 Identities=29% Similarity=0.478 Sum_probs=401.9
Q ss_pred CCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCC
Q 001834 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (1008)
Q Consensus 266 ~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (1008)
+|.. +...|||||++||+||+.... ++.|||||||||||||+|+|+++...+..
T Consensus 162 qP~~-i~~~Lr~YQleGlnWLi~l~~---~g~gGILADEMGLGKTlQaIalL~~L~~~---------------------- 215 (1033)
T PLN03142 162 QPSC-IKGKMRDYQLAGLNWLIRLYE---NGINGILADEMGLGKTLQTISLLGYLHEY---------------------- 215 (1033)
T ss_pred CChH-hccchHHHHHHHHHHHHHHHh---cCCCEEEEeCCCccHHHHHHHHHHHHHHh----------------------
Confidence 3444 457899999999999997654 34789999999999999999999775432
Q ss_pred CCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 001834 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (1008)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~ 425 (1008)
....+++|||||++++.||.+||.+|++ .+++++|+|....+
T Consensus 216 -----------------------------------~~~~gp~LIVvP~SlL~nW~~Ei~kw~p---~l~v~~~~G~~~eR 257 (1033)
T PLN03142 216 -----------------------------------RGITGPHMVVAPKSTLGNWMNEIRRFCP---VLRAVKFHGNPEER 257 (1033)
T ss_pred -----------------------------------cCCCCCEEEEeChHHHHHHHHHHHHHCC---CCceEEEeCCHHHH
Confidence 1234679999999999999999999997 79999999986432
Q ss_pred Cc-----cccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCc
Q 001834 426 DP-----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSI 500 (1008)
Q Consensus 426 ~~-----~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~ 500 (1008)
.. .....+|||||||+++.++.
T Consensus 258 ~~~~~~~~~~~~~dVvITSYe~l~~e~----------------------------------------------------- 284 (1033)
T PLN03142 258 AHQREELLVAGKFDVCVTSFEMAIKEK----------------------------------------------------- 284 (1033)
T ss_pred HHHHHHHhcccCCCcceecHHHHHHHH-----------------------------------------------------
Confidence 11 12357999999999987642
Q ss_pred ccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcc
Q 001834 501 DYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIK 580 (1008)
Q Consensus 501 ~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~ 580 (1008)
..|..+.|++|||||||+|||..|+++++++.+++.+||+|||||++|++.|||++|+||.|+.|+....|..+|.
T Consensus 285 ----~~L~k~~W~~VIvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~ 360 (1033)
T PLN03142 285 ----TALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQ 360 (1033)
T ss_pred ----HHhccCCCCEEEEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHc
Confidence 1266788999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cCcccCchhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Q 001834 581 IPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVN 660 (1008)
Q Consensus 581 ~pi~~~~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~ 660 (1008)
.+...........|+.++++|++||+|.+|.. .|||+.+.+++|+|++.|+++|..+.......+. .+
T Consensus 361 ~~~~~~~~e~i~~L~~~L~pf~LRR~KsdV~~-----~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l~----~g--- 428 (1033)
T PLN03142 361 ISGENDQQEVVQQLHKVLRPFLLRRLKSDVEK-----GLPPKKETILKVGMSQMQKQYYKALLQKDLDVVN----AG--- 428 (1033)
T ss_pred cccccchHHHHHHHHHHhhHHHhhhhHHHHhh-----hCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHHh----cc---
Confidence 76655666778899999999999999999875 7999999999999999999999998775444332 12
Q ss_pred chHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCccc
Q 001834 661 QNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVF 740 (1008)
Q Consensus 661 ~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~f 740 (1008)
.....++..+++||++|+||.|+...... .+..+
T Consensus 429 ~~~~~LlnilmqLRk~cnHP~L~~~~ep~----------------------------------------~~~~~------ 462 (1033)
T PLN03142 429 GERKRLLNIAMQLRKCCNHPYLFQGAEPG----------------------------------------PPYTT------ 462 (1033)
T ss_pred ccHHHHHHHHHHHHHHhCCHHhhhccccc----------------------------------------Ccccc------
Confidence 13356788999999999999886431100 00000
Q ss_pred chhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhh
Q 001834 741 CYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQC 820 (1008)
Q Consensus 741 c~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~ 820 (1008)
.......|+|+..|..+|..+.
T Consensus 463 ----------------------------------------------------------~e~lie~SgKl~lLdkLL~~Lk 484 (1033)
T PLN03142 463 ----------------------------------------------------------GEHLVENSGKMVLLDKLLPKLK 484 (1033)
T ss_pred ----------------------------------------------------------hhHHhhhhhHHHHHHHHHHHHH
Confidence 0000125889999999998887
Q ss_pred hcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhcc
Q 001834 821 ELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT 900 (1008)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~ 900 (1008)
..+. ||||||||+.++++|+..|...|+.|++|+|+++..+|+++|++|++
T Consensus 485 ~~g~-----------------------------KVLIFSQft~~LdiLed~L~~~g~~y~rIdGsts~~eRq~~Id~Fn~ 535 (1033)
T PLN03142 485 ERDS-----------------------------RVLIFSQMTRLLDILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNK 535 (1033)
T ss_pred hcCC-----------------------------eEEeehhHHHHHHHHHHHHHHcCCcEEEECCCCCHHHHHHHHHHhcc
Confidence 7665 99999999999999999999999999999999999999999999998
Q ss_pred CcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHH
Q 001834 901 DREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKM 980 (1008)
Q Consensus 901 ~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l 980 (1008)
+++...|||+|++|||+||||+.|++||+||++|||+.+.||+||+|||||+++|+||+|+++|||||+|++++..|..+
T Consensus 536 ~~s~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt~gTIEEkIlera~~Kl~L 615 (1033)
T PLN03142 536 PGSEKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLAL 615 (1033)
T ss_pred ccCCceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEeCCcHHHHHHHHHHHHHHH
Confidence 76547899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCCCCCcccCCCHHHHHhhhc
Q 001834 981 VASAFGEDQGGGTASRLTVEDLRYLFM 1007 (1008)
Q Consensus 981 ~~~~~g~~~~~~~~~~l~~~dl~~Lf~ 1007 (1008)
...+++.+.... ...++.+||..||.
T Consensus 616 d~~Vi~~g~~~~-~~~~~~~eL~~ll~ 641 (1033)
T PLN03142 616 DALVIQQGRLAE-QKTVNKDELLQMVR 641 (1033)
T ss_pred HHHHHhcCcccc-cccCCHHHHHHHHH
Confidence 999997653221 25688899988873
No 8
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=100.00 E-value=6.3e-83 Score=757.56 Aligned_cols=567 Identities=46% Similarity=0.732 Sum_probs=491.0
Q ss_pred cHHHHHHHHHhcCCCCcccCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccc
Q 001834 246 ERLIYQAALEDLNQPKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQS 325 (1008)
Q Consensus 246 ~~~~~~~~~~~l~~~~~~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~ 325 (1008)
.+.+|..+...+.+...+...|.+.++++ |+....||+..+.....++||||||+||+|||+++|++++..+....
T Consensus 106 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~p----~~~~~~~~~~~~~~~~~~~ggIladd~glgkt~~ti~l~l~~~~~~~ 181 (674)
T KOG1001|consen 106 NLPIFKAAKWEIILYKANKISPKNTLRFP----LKQKYRWSLLKSREQQSLRGGILADDMGLGKTVKTIALILKQKLKSK 181 (674)
T ss_pred cchhhhhhhhhhhhhhhhccCCcccccCC----HHHHHHHHhhcccccCccccceEeeccccchHHHHHHHHHhcccCCc
Confidence 45567766666666566666676645554 77777888877777778899999999999999999999988654310
Q ss_pred cchhhhccccccccccCCCCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHH
Q 001834 326 KSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELED 405 (1008)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k 405 (1008)
+ .......+.+|||||.+++.||..|+ .
T Consensus 182 ------------~---------------------------------------~~~~~~~kttLivcp~s~~~qW~~el-e 209 (674)
T KOG1001|consen 182 ------------E---------------------------------------EDRQKEFKTTLIVCPTSLLTQWKTEL-E 209 (674)
T ss_pred ------------c---------------------------------------hhhccccCceeEecchHHHHHHHHHH-h
Confidence 0 00124567899999999999999999 5
Q ss_pred HcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhccccccc
Q 001834 406 KVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVS 485 (1008)
Q Consensus 406 ~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~ 485 (1008)
.......+.+++||| |.++..++..||||||||.++.+
T Consensus 210 k~~~~~~l~v~v~~g--r~kd~~el~~~dVVltTy~il~~---------------------------------------- 247 (674)
T KOG1001|consen 210 KVTEEDKLSIYVYHG--RTKDKSELNSYDVVLTTYDILKN---------------------------------------- 247 (674)
T ss_pred ccCCccceEEEEecc--cccccchhcCCceEEeeHHHhhc----------------------------------------
Confidence 556666999999999 88999999999999999999874
Q ss_pred ccccCCCCCCCCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHc
Q 001834 486 KRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (1008)
Q Consensus 486 ~k~~~~~~~~~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~ 565 (1008)
+++..+.|.|||+||||.|+|++++.+++|+.|.+.+||||||||+||+++|+|++++|+.
T Consensus 248 -------------------~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~ 308 (674)
T KOG1001|consen 248 -------------------SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLE 308 (674)
T ss_pred -------------------ccccceeEEEEEeccccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhh
Confidence 2477899999999999999999999999999999999999999999999999999999999
Q ss_pred cCCcchhHHHHHHcccCcccCc-hhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHH
Q 001834 566 YDPYAVYKSFYSTIKIPISRNS-LHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLES 644 (1008)
Q Consensus 566 ~~~~~~~~~F~~~~~~pi~~~~-~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~ 644 (1008)
.+||..+..|...+..|+.++. ..++..++.+|..+++||+|....+|.|++.|||+.+.+..++++.+++.+|..+..
T Consensus 309 ~~p~~~~~~~~~~i~~p~~~~~~~~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~ 388 (674)
T KOG1001|consen 309 IHPYCDQNYFKLLIQDPDERNKYKEGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKA 388 (674)
T ss_pred cCCchhhHHHHHHhcChhhhhhHHHHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhh
Confidence 9999999999999999999988 789999999999999999999988899999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhccccccccccc
Q 001834 645 DSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVC 724 (1008)
Q Consensus 645 ~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic 724 (1008)
..+.++..+...+.+..+|+.++..+++|||+|+||.++............. ......+..++..+ ..|.+|
T Consensus 389 ~~~~~~~~~~~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~~~~-------~~~~~~~i~~l~~~-~~c~ic 460 (674)
T KOG1001|consen 389 NSRNQFSNYANEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDSGSA-------AALIIRLIVDLSVS-HWCHIC 460 (674)
T ss_pred hhhhHHHHHhhhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhcccccccc-------chHHHHHHHHHhhc-cccccc
Confidence 9999999999999999999999999999999999999987543322211111 01111255556555 899999
Q ss_pred CCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccc
Q 001834 725 SDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEY 804 (1008)
Q Consensus 725 ~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 804 (1008)
.+ ++.++++.|||.||.+|+...+...... |++.|+..+.....++...+..+.... ..
T Consensus 461 ~~-~~~~~it~c~h~~c~~c~~~~i~~~~~~-~~~~cr~~l~~~~l~s~~~~~~~~~~~-------------------~~ 519 (674)
T KOG1001|consen 461 CD-LDSFFITRCGHDFCVECLKKSIQQSENA-PCPLCRNVLKEKKLLSANPLPSIINDL-------------------LP 519 (674)
T ss_pred cc-cccceeecccchHHHHHHHhccccccCC-CCcHHHHHHHHHHHhhcccccchhhhc-------------------cc
Confidence 99 8999999999999999999999887776 788999999888777665544433220 00
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
.|.|+.+++..|..... . .. .|+||||||+.++++++..|...++.+.+++|
T Consensus 520 ~s~ki~~~~~~l~~~~~-s--------------------------~~-~kiiifsq~~~~l~l~~~~l~~~~~~~~~~~g 571 (674)
T KOG1001|consen 520 ESSKIYAFLKILQAKEM-S--------------------------EQ-PKIVIFSQLIWGLALVCLRLFFKGFVFLRYDG 571 (674)
T ss_pred hhhhhHHHHHHHhhccC-C--------------------------CC-CceeeehhHHHHHHHhhhhhhhcccccchhhh
Confidence 69999999999982111 0 11 29999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
.|+...|.+.+..|..++. ++|+++|++|||.||||+.|+|||++||||||+.|+|||+|+||+||+++|.|++|++++
T Consensus 572 ~~~~~~r~~s~~~~~~~~~-~~vll~Slkag~~glnlt~a~~v~~~d~~wnp~~eeQaidR~hrigq~k~v~v~r~~i~d 650 (674)
T KOG1001|consen 572 EMLMKIRTKSFTDFPCDPL-VTALLMSLKAGKVGLNLTAASHVLLMDPWWNPAVEEQAIDRAHRIGQTKPVKVSRFIIKD 650 (674)
T ss_pred hhHHHHHHhhhcccccCcc-HHHHHHHHHHhhhhhchhhhhHHHhhchhcChHHHHHHHHHHHHhcccceeeeeeehhhh
Confidence 9999999999999998887 999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHhhcC
Q 001834 965 TVEDRILKLQDDKRKMVASAFGE 987 (1008)
Q Consensus 965 TiEe~I~~lq~~K~~l~~~~~g~ 987 (1008)
|+||||+++|++|+.++..++|+
T Consensus 651 tveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 651 TVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred ccHHHHHHHHHHHHHHHhhhccC
Confidence 99999999999999999999986
No 9
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=2.3e-82 Score=733.59 Aligned_cols=579 Identities=31% Similarity=0.484 Sum_probs=424.7
Q ss_pred ccCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccC
Q 001834 263 EATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNL 342 (1008)
Q Consensus 263 ~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~ 342 (1008)
..++| .++...||.||+.|+.||.......+ .||||||||||||||+|+|++++.+.
T Consensus 605 ktpvP-sLLrGqLReYQkiGLdWLatLYeknl---NGILADEmGLGKTIQtISllAhLACe------------------- 661 (1958)
T KOG0391|consen 605 KTPVP-SLLRGQLREYQKIGLDWLATLYEKNL---NGILADEMGLGKTIQTISLLAHLACE------------------- 661 (1958)
T ss_pred ccCch-HHHHHHHHHHHHhhHHHHHHHHHhcc---cceehhhhcccchhHHHHHHHHHHhc-------------------
Confidence 33444 45688899999999999999887654 59999999999999999999886432
Q ss_pred CCCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC
Q 001834 343 DDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS 422 (1008)
Q Consensus 343 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~ 422 (1008)
...++|.|||||.+++-||+-||++||+ .++++.|+|+.
T Consensus 662 --------------------------------------egnWGPHLIVVpTsviLnWEMElKRwcP---glKILTYyGs~ 700 (1958)
T KOG0391|consen 662 --------------------------------------EGNWGPHLIVVPTSVILNWEMELKRWCP---GLKILTYYGSH 700 (1958)
T ss_pred --------------------------------------ccCCCCceEEeechhhhhhhHHHhhhCC---cceEeeecCCH
Confidence 2456789999999999999999999999 79999999998
Q ss_pred CCCCc-----cccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCC
Q 001834 423 RTKDP-----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVN 497 (1008)
Q Consensus 423 r~~~~-----~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~ 497 (1008)
+.+.. ..-.-|.|.||||..+..+...
T Consensus 701 kErkeKRqgW~kPnaFHVCItSYklv~qd~~A------------------------------------------------ 732 (1958)
T KOG0391|consen 701 KERKEKRQGWAKPNAFHVCITSYKLVFQDLTA------------------------------------------------ 732 (1958)
T ss_pred HHHHHHhhcccCCCeeEEeehhhHHHHhHHHH------------------------------------------------
Confidence 65432 2335588999999999865322
Q ss_pred CCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHH
Q 001834 498 SSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYS 577 (1008)
Q Consensus 498 ~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~ 577 (1008)
|.+.+|.++||||||+|||..+++++|+..+++.+|++|||||++|++.|||+|++||+|..|.+...|..
T Consensus 733 ---------FkrkrWqyLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~ 803 (1958)
T KOG0391|consen 733 ---------FKRKRWQYLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKP 803 (1958)
T ss_pred ---------HHhhccceeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHH
Confidence 55677999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcccCcccC-------chhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHH
Q 001834 578 TIKIPISRN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKF 650 (1008)
Q Consensus 578 ~~~~pi~~~-------~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~ 650 (1008)
||.+|+..- ...-+.+|+.++++|+|||+|.+|.+ .||.|.+++++|.|+..||.+|+.+..+...
T Consensus 804 wfsnPltgmiEgsqeyn~klV~RLHkVlrPfiLRRlK~dVEK-----QlpkKyEHvv~CrLSkRQR~LYDDfmsq~~T-- 876 (1958)
T KOG0391|consen 804 WFSNPLTGMIEGSQEYNHKLVIRLHKVLRPFILRRLKRDVEK-----QLPKKYEHVVKCRLSKRQRALYDDFMSQPGT-- 876 (1958)
T ss_pred HhcCcchhhcccchhhchHHHHHHHHHhHHHHHHHHHHHHHH-----hcchhhhhheeeehhhhHHHHHHHHhhccch--
Confidence 999997542 23457899999999999999999987 8999999999999999999999988654322
Q ss_pred HHHhhcCCCcchHHHHHHHHHHHHhhccccccccccc-------------ccc-c--------------ccchH------
Q 001834 651 KAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYD-------------FDS-V--------------GKISG------ 696 (1008)
Q Consensus 651 ~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~-------------~~~-~--------------~~~~~------ 696 (1008)
++. ....++.+++++|++||++|+||-|+.... ... . .+.+.
T Consensus 877 Ket----LkSGhfmsVlnilmqLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as~~~r~l~el~~k~p~~~~ls~~p~~~~ 952 (1958)
T KOG0391|consen 877 KET----LKSGHFMSVLNILMQLRKVCNHPNLFEPRPVGSSFVAEPLEYSSASKITRHLAELLSKKPIPRKLSEEPSTSA 952 (1958)
T ss_pred hhH----hhcCchhHHHHHHHHHHHHcCCCCcCCCCCCCcccccCceeccccccchhhhhhhccCCCCchhhhcCCCccc
Confidence 222 234578999999999999999996653210 000 0 00000
Q ss_pred ------------------HH-------------------------hh------------------------cCC-----h
Q 001834 697 ------------------EM-------------------------AK------------------------RLP-----R 704 (1008)
Q Consensus 697 ------------------e~-------------------------~~------------------------~l~-----~ 704 (1008)
++ +. ++. .
T Consensus 953 vp~v~pas~~~sAspl~s~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~ 1032 (1958)
T KOG0391|consen 953 VPAVRPASAKLSASPLASALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQ 1032 (1958)
T ss_pred ccccchhhhhhcccccccccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcH
Confidence 00 00 000 0
Q ss_pred HH------------------------------------------------------------------------------
Q 001834 705 DM------------------------------------------------------------------------------ 706 (1008)
Q Consensus 705 ~~------------------------------------------------------------------------------ 706 (1008)
.+
T Consensus 1033 ~~veq~n~~k~~~htt~~~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gta 1112 (1958)
T KOG0391|consen 1033 SRVEQPNTPKTLQHTTAGQPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTA 1112 (1958)
T ss_pred hHhhcCCCceeeeeecccCccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchh
Confidence 00
Q ss_pred ----------------------HHHHHHhccc-c--------cccccccCC--------CCCCccccccCcccchhhhhh
Q 001834 707 ----------------------LIDLLSRLET-S--------SAICCVCSD--------PPEDSVVTMCGHVFCYQCASE 747 (1008)
Q Consensus 707 ----------------------~~~l~~~le~-~--------~~~c~ic~d--------~~~~~v~t~CgH~fc~~ci~~ 747 (1008)
+...+.++.. . ..+|.+-.. .+...+++.|- |.+.+..
T Consensus 1113 t~~~g~~pr~~~~klee~Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r---~le~l~~ 1189 (1958)
T KOG0391|consen 1113 TLAVGEPPRAIGGKLEEERKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCR---CLESLQD 1189 (1958)
T ss_pred hhccCCCccccccchhhHHHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHH---HHHHHHH
Confidence 0000000000 0 001211111 00111222221 1111112
Q ss_pred hhcCCC----C-CCCCcccccccccceeec-----ccccccccCCCCCC-CCCCCccccccCCcCccccchhHHHHHHHH
Q 001834 748 YITGDD----N-MCPAPRCKEQLGADVVFS-----KTTLKNCVSDDGGG-SPTDSPFADKSGILDNEYISSKIRTVLDIL 816 (1008)
Q Consensus 748 ~~~~~~----~-~cp~~~c~~~l~~~~~~~-----~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL 816 (1008)
++..-. . ..+.+.|+..-....+-. ...+.......... .........-....-..|...|++.|.=+|
T Consensus 1190 iIdrfafv~ppvva~ppslra~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLL 1269 (1958)
T KOG0391|consen 1190 IIDRFAFVIPPVVAAPPSLRAPRPPPLYSHRMRILRQQLRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILL 1269 (1958)
T ss_pred HHHHheeecccccCCChhhcCCCCCcccchHHHHHHHHHHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHH
Confidence 221100 0 001111211111111000 00000000000000 000000111112233567899999999999
Q ss_pred HhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHH
Q 001834 817 HTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVK 896 (1008)
Q Consensus 817 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~ 896 (1008)
+++...|+ ++|||+|.+.|||+|+.+|..+|+.|+||||+++.++|+.+.+
T Consensus 1270 qQLk~egh-----------------------------RvLIfTQMtkmLDVLeqFLnyHgylY~RLDg~t~vEqRQaLme 1320 (1958)
T KOG0391|consen 1270 QQLKSEGH-----------------------------RVLIFTQMTKMLDVLEQFLNYHGYLYVRLDGNTSVEQRQALME 1320 (1958)
T ss_pred HHHHhcCc-----------------------------eEEehhHHHHHHHHHHHHHhhcceEEEEecCCccHHHHHHHHH
Confidence 99999888 9999999999999999999999999999999999999999999
Q ss_pred HhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHH
Q 001834 897 DFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDD 976 (1008)
Q Consensus 897 ~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~ 976 (1008)
+||.|.. +++||+|+++||+|+||+.||+|||||-.|||....||-+|||||||+++|+|||||.+.||||+|++....
T Consensus 1321 rFNaD~R-IfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQDrChRIGqtRDVHIYRLISe~TIEeniLkkanq 1399 (1958)
T KOG0391|consen 1321 RFNADRR-IFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQDRCHRIGQTRDVHIYRLISERTIEENILKKANQ 1399 (1958)
T ss_pred HhcCCCc-eEEEEEeccCCccccccccCceEEEecCCCCchhhhHHHHHHHhhcCccceEEEEeeccchHHHHHHhhhhH
Confidence 9999997 999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCCCcccCCCHHHHHhhhcC
Q 001834 977 KRKMVASAFGEDQGGGTASRLTVEDLRYLFMV 1008 (1008)
Q Consensus 977 K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~~ 1008 (1008)
|+.+-+-++.++. -...-++..++++||++
T Consensus 1400 Kr~L~evaiqggd--fTt~ff~q~ti~dLFd~ 1429 (1958)
T KOG0391|consen 1400 KRMLDEVAIQGGD--FTTAFFKQRTIRDLFDV 1429 (1958)
T ss_pred HHHHHHHhhccCC--ccHHHHhhhhHHHHhcC
Confidence 9988888876542 23345777888899975
No 10
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=1.7e-78 Score=716.16 Aligned_cols=481 Identities=29% Similarity=0.491 Sum_probs=405.0
Q ss_pred CCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCC
Q 001834 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (1008)
Q Consensus 266 ~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (1008)
+|.-.....||.||++|++||+-..-.. ..||||||||||||||+|+++.++...
T Consensus 362 qp~~~~g~~LRdyQLeGlNWl~~~W~~~---~n~ILADEmgLgktvqti~fl~~l~~~---------------------- 416 (1373)
T KOG0384|consen 362 QPEYKGGNELRDYQLEGLNWLLYSWYKR---NNCILADEMGLGKTVQTITFLSYLFHS---------------------- 416 (1373)
T ss_pred CccccccchhhhhhcccchhHHHHHHhc---ccceehhhcCCCcchHHHHHHHHHHHh----------------------
Confidence 3444456789999999999999765433 459999999999999999999875433
Q ss_pred CCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 001834 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (1008)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~ 425 (1008)
....+|.|||||.|.+.+|++||..|. .+++++|+|+...+
T Consensus 417 -----------------------------------~~~~gpflvvvplst~~~W~~ef~~w~----~mn~i~y~g~~~sr 457 (1373)
T KOG0384|consen 417 -----------------------------------LQIHGPFLVVVPLSTITAWEREFETWT----DMNVIVYHGNLESR 457 (1373)
T ss_pred -----------------------------------hhccCCeEEEeehhhhHHHHHHHHHHh----hhceeeeecchhHH
Confidence 134578999999999999999999998 59999999987544
Q ss_pred Cc-----------cccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCC
Q 001834 426 DP-----------VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKG 494 (1008)
Q Consensus 426 ~~-----------~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~ 494 (1008)
.. ...-+++++||||+++.++..
T Consensus 458 ~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk~---------------------------------------------- 491 (1373)
T KOG0384|consen 458 QLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDKA---------------------------------------------- 491 (1373)
T ss_pred HHHHHHHheecCCccccccceeehhhHHHhccHh----------------------------------------------
Confidence 21 122368999999999987532
Q ss_pred CCCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHH
Q 001834 495 NVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKS 574 (1008)
Q Consensus 495 ~~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~ 574 (1008)
.|..++|..++|||||++||..+..+..+..++..+|+++||||+||++.|||+|++||+|+.|..+..
T Consensus 492 -----------~L~~i~w~~~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~ 560 (1373)
T KOG0384|consen 492 -----------ELSKIPWRYLLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDE 560 (1373)
T ss_pred -----------hhccCCcceeeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHH
Confidence 388999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcccCcccCchhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHh
Q 001834 575 FYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFA 654 (1008)
Q Consensus 575 F~~~~~~pi~~~~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~ 654 (1008)
|...+ .......+..|+..|+|+||||.|++|.+ .||++.+.++.|+||..|.++|+.+...--..+
T Consensus 561 f~~~~----~~~~e~~~~~L~~~L~P~~lRr~kkdvek-----slp~k~E~IlrVels~lQk~yYk~ILtkN~~~L---- 627 (1373)
T KOG0384|consen 561 FLEEF----DEETEEQVRKLQQILKPFLLRRLKKDVEK-----SLPPKEETILRVELSDLQKQYYKAILTKNFSAL---- 627 (1373)
T ss_pred HHHhh----cchhHHHHHHHHHHhhHHHHHHHHhhhcc-----CCCCCcceEEEeehhHHHHHHHHHHHHhhHHHH----
Confidence 98887 33456788999999999999999999987 899999999999999999999999987543332
Q ss_pred hcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCcccc
Q 001834 655 DAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVT 734 (1008)
Q Consensus 655 ~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t 734 (1008)
..|..... .++|+.++.||+||+||+|+............. ....+.+.
T Consensus 628 tKG~~g~~-~~lLNimmELkKccNHpyLi~gaee~~~~~~~~----~~~d~~L~-------------------------- 676 (1373)
T KOG0384|consen 628 TKGAKGST-PSLLNIMMELKKCCNHPYLIKGAEEKILGDFRD----KMRDEALQ-------------------------- 676 (1373)
T ss_pred hccCCCCC-chHHHHHHHHHHhcCCccccCcHHHHHHHhhhh----cchHHHHH--------------------------
Confidence 22333333 789999999999999999987633211110000 00000000
Q ss_pred ccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHH
Q 001834 735 MCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLD 814 (1008)
Q Consensus 735 ~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~ 814 (1008)
.....|+|+..|-.
T Consensus 677 ------------------------------------------------------------------~lI~sSGKlVLLDK 690 (1373)
T KOG0384|consen 677 ------------------------------------------------------------------ALIQSSGKLVLLDK 690 (1373)
T ss_pred ------------------------------------------------------------------HHHHhcCcEEeHHH
Confidence 01125889998999
Q ss_pred HHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHH
Q 001834 815 ILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRA 894 (1008)
Q Consensus 815 lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~ 894 (1008)
+|..+.+.|+ |||||||.+.|||+|+++|..++++|-||||+++.+-|+++
T Consensus 691 LL~rLk~~GH-----------------------------rVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~A 741 (1373)
T KOG0384|consen 691 LLPRLKEGGH-----------------------------RVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQA 741 (1373)
T ss_pred HHHHHhcCCc-----------------------------eEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHH
Confidence 9999988877 99999999999999999999999999999999999999999
Q ss_pred HHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHH
Q 001834 895 VKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQ 974 (1008)
Q Consensus 895 i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq 974 (1008)
|+.||.+.++-+|||+||+|||.||||+.|++||+||..|||....||..|||||||++.|.|||||+++||||-|+++.
T Consensus 742 IDhFnap~SddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERA 821 (1373)
T KOG0384|consen 742 IDHFNAPDSDDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERA 821 (1373)
T ss_pred HHhccCCCCCceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHH
Confidence 99999988889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCC---CCcccCCCHHHHHhhh
Q 001834 975 DDKRKMVASAFGEDQG---GGTASRLTVEDLRYLF 1006 (1008)
Q Consensus 975 ~~K~~l~~~~~g~~~~---~~~~~~l~~~dl~~Lf 1006 (1008)
.+|.-|-.+++..... ......++.+||..|+
T Consensus 822 k~KmvLD~aVIQ~m~t~~~~s~~~~f~K~ELsaIL 856 (1373)
T KOG0384|consen 822 KLKMVLDHAVIQRMDTKGKTSKSNPFSKEELSAIL 856 (1373)
T ss_pred HHHhhhHHHHHHhhccccccCCCCCCCHHHHHHHH
Confidence 9998877777654321 1223678899998875
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=2.8e-75 Score=650.37 Aligned_cols=545 Identities=28% Similarity=0.435 Sum_probs=400.7
Q ss_pred CccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCC
Q 001834 269 GLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDN 348 (1008)
Q Consensus 269 ~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (1008)
.++.++|+.||+.|++|+......+. .||||||||||||+|+|++++++...
T Consensus 562 kil~ctLKEYQlkGLnWLvnlYdqGi---NGILADeMGLGKTVQsisvlAhLaE~------------------------- 613 (1185)
T KOG0388|consen 562 KILKCTLKEYQLKGLNWLVNLYDQGI---NGILADEMGLGKTVQSISVLAHLAET------------------------- 613 (1185)
T ss_pred hhhhhhhHHHhhccHHHHHHHHHccc---cceehhhhccchhHHHHHHHHHHHHh-------------------------
Confidence 45688999999999999998887654 59999999999999999999886432
Q ss_pred CCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCc-
Q 001834 349 GNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP- 427 (1008)
Q Consensus 349 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~- 427 (1008)
..-.+|.|||+|+|+|.+|++||.+|+| .++++.|-|+...+..
T Consensus 614 --------------------------------~nIwGPFLVVtpaStL~NWaqEisrFlP---~~k~lpywGs~~eRkiL 658 (1185)
T KOG0388|consen 614 --------------------------------HNIWGPFLVVTPASTLHNWAQEISRFLP---SFKVLPYWGSPSERKIL 658 (1185)
T ss_pred --------------------------------ccCCCceEEeehHHHHhHHHHHHHHhCc---cceeecCcCChhhhHHH
Confidence 1334789999999999999999999999 8999999998754421
Q ss_pred ----------cccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCC
Q 001834 428 ----------VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVN 497 (1008)
Q Consensus 428 ----------~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~ 497 (1008)
...+.++||||||+.+-.+..
T Consensus 659 rKfw~rKnmY~rna~fhVviTSYQlvVtDek------------------------------------------------- 689 (1185)
T KOG0388|consen 659 RKFWNRKNMYRRNAPFHVVITSYQLVVTDEK------------------------------------------------- 689 (1185)
T ss_pred HHhcchhhhhccCCCceEEEEeeeeeechHH-------------------------------------------------
Confidence 234678999999998875421
Q ss_pred CCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHH
Q 001834 498 SSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYS 577 (1008)
Q Consensus 498 ~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~ 577 (1008)
-|.++.|.++|+||||.||...|.+++.+..++++.|++||||||||+..|||.+|+|++|..|.+..+|.+
T Consensus 690 --------y~qkvKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFse 761 (1185)
T KOG0388|consen 690 --------YLQKVKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSE 761 (1185)
T ss_pred --------HHHhhhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHH
Confidence 177889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcccCcccC-------chhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHH
Q 001834 578 TIKIPISRN-------SLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKF 650 (1008)
Q Consensus 578 ~~~~pi~~~-------~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~ 650 (1008)
+|.+.|+.. ..+.+++|+.+|+||||||.|++|.. +|-.+++..++|+|+..|+.+|+.+....-.
T Consensus 762 WFSKdIEshAe~~~tlneqqL~RLH~ILKPFMLRRvKkdV~s-----ELg~Kteidv~CdLs~RQ~~lYq~ik~~iS~-- 834 (1185)
T KOG0388|consen 762 WFSKDIESHAEMNTTLNEQQLQRLHAILKPFMLRRVKKDVIS-----ELGQKTEIDVYCDLSYRQKVLYQEIKRSISS-- 834 (1185)
T ss_pred HHhhhhHhHHHhcCCcCHHHHHHHHHHHhHHHHHHHHHHHHH-----HhccceEEEEEechhHHHHHHHHHHHHHhhH--
Confidence 998887543 35678999999999999999999975 8999999999999999999999987554321
Q ss_pred HHHhhcCCCcchHHHHHHHHHHHHhhccccccccccccccc-----ccchH--------HHhhcCChHHHHHHHHhc---
Q 001834 651 KAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSV-----GKISG--------EMAKRLPRDMLIDLLSRL--- 714 (1008)
Q Consensus 651 ~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~-----~~~~~--------e~~~~l~~~~~~~l~~~l--- 714 (1008)
.....++++||++|+||.|+........ ..... .+.-.++.....++++..
T Consensus 835 -------------~E~~~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fn 901 (1185)
T KOG0388|consen 835 -------------MEMENLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFN 901 (1185)
T ss_pred -------------HHHHHHHHHHHHhcCChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHh
Confidence 1223478999999999999876433221 00000 011111111111111100
Q ss_pred --cccccccccc---C-CCC---CCcc--ccccCcc-cc-----hhhhhh-hhc--------------C------CCCCC
Q 001834 715 --ETSSAICCVC---S-DPP---EDSV--VTMCGHV-FC-----YQCASE-YIT--------------G------DDNMC 756 (1008)
Q Consensus 715 --e~~~~~c~ic---~-d~~---~~~v--~t~CgH~-fc-----~~ci~~-~~~--------------~------~~~~c 756 (1008)
+.....|..- + +.+ ..+. ...-|.. |- ...+.. .+. . .-.+|
T Consensus 902 iye~i~~~~g~~~~v~Geg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~ 981 (1185)
T KOG0388|consen 902 IYEMIERINGLRRIVNGEGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYC 981 (1185)
T ss_pred HHHHHHHHhhhHhhhcCCCcchhcccceeeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheee
Confidence 0000111100 0 000 0000 0000100 00 000000 000 0 00011
Q ss_pred CCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhcccc
Q 001834 757 PAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAG 836 (1008)
Q Consensus 757 p~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~ 836 (1008)
-.|....+-. .+-..+++.++..+.........-+ -.-.......|+|+..|-++|..+...++
T Consensus 982 y~P~v~apPv--LI~~ead~PeId~E~~~~pLn~~i~--~Ppm~~FitdSgKL~~LDeLL~kLkaegH------------ 1045 (1185)
T KOG0388|consen 982 YSPVVAAPPV--LISNEADLPEIDLENRHIPLNTTIY--VPPMNTFITDSGKLVVLDELLPKLKAEGH------------ 1045 (1185)
T ss_pred eccccCCCCe--eeecccCCCCCCccccCccccccee--cCcHHhhhccccceeeHHHHHHHhhcCCc------------
Confidence 1111111000 0111111111111111000000000 00011123479999999999999998887
Q ss_pred CCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCc
Q 001834 837 SNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGN 916 (1008)
Q Consensus 837 ~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg 916 (1008)
++|+|.|.|.|+++|+++|..+|+.|.++||+.+..+|..+|.+|+. ++ ++|||+||+|||
T Consensus 1046 -----------------RvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDGSsk~~dRrd~vrDwQ~-sd-iFvFLLSTRAGG 1106 (1185)
T KOG0388|consen 1046 -----------------RVLMYFQMTKMIDLIEDYLVYRGYTYLRLDGSSKASDRRDVVRDWQA-SD-IFVFLLSTRAGG 1106 (1185)
T ss_pred -----------------eEEehhHHHHHHHHHHHHHHhhccceEEecCcchhhHHHHHHhhccC-Cc-eEEEEEecccCc
Confidence 99999999999999999999999999999999999999999999999 44 999999999999
Q ss_pred cccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCC
Q 001834 917 LGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGED 988 (1008)
Q Consensus 917 ~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~ 988 (1008)
.|+|||+|++|||||..|||....||++|+||+||+++|+||||++++||||+|+.+..+|......++-+.
T Consensus 1107 LGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~rgTvEEk~l~rA~qK~~vQq~Vm~G~ 1178 (1185)
T KOG0388|consen 1107 LGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITRGTVEEKVLERANQKDEVQQMVMHGN 1178 (1185)
T ss_pred ccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeecccccHHHHHHHHhhhHHHHHHHHHcCC
Confidence 999999999999999999999999999999999999999999999999999999999999999888888653
No 12
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=5.8e-71 Score=649.23 Aligned_cols=494 Identities=27% Similarity=0.387 Sum_probs=393.0
Q ss_pred CCccccccchhhHHHHHHHHHhhccCC---CccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCC
Q 001834 268 DGLLSVNLLKHQKIALAWMLQKETRSL---HCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDD 344 (1008)
Q Consensus 268 ~~~~~~~LrpyQ~~~v~wml~~e~~~~---~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (1008)
...+.-.|||||++|+.+|+....... ...|||+||+||+|||+|+|++|...-...
T Consensus 232 dP~l~~~LrPHQ~EG~~FL~knl~g~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLrq~-------------------- 291 (776)
T KOG0390|consen 232 DPLLKKILRPHQREGFEFLYKNLAGLIRPKNSGGCIMADEPGLGKTLQCISFIWTLLRQF-------------------- 291 (776)
T ss_pred cccHhhhcCchHHHHHHHHHhhhhcccccCCCCceEeeCCCCcchHHHHHHHHHHHHHhC--------------------
Confidence 334566799999999999998766541 457899999999999999999998754430
Q ss_pred CCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCC
Q 001834 345 DDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRT 424 (1008)
Q Consensus 345 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~ 424 (1008)
| ...+.....|||||++|+.+|.+||.+|..+ ..+..+.++|....
T Consensus 292 ------------------------P---------~~~~~~~k~lVV~P~sLv~nWkkEF~KWl~~-~~i~~l~~~~~~~~ 337 (776)
T KOG0390|consen 292 ------------------------P---------QAKPLINKPLVVAPSSLVNNWKKEFGKWLGN-HRINPLDFYSTKKS 337 (776)
T ss_pred ------------------------c---------CccccccccEEEccHHHHHHHHHHHHHhccc-cccceeeeecccch
Confidence 0 0112335689999999999999999999875 37888888887764
Q ss_pred C---------CccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCC
Q 001834 425 K---------DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGN 495 (1008)
Q Consensus 425 ~---------~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~ 495 (1008)
. .....-.+-|.|.+|++++..+..
T Consensus 338 ~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~~---------------------------------------------- 371 (776)
T KOG0390|consen 338 SWIKLKSILFLGYKQFTTPVLIISYETASDYCRK---------------------------------------------- 371 (776)
T ss_pred hhhhhHHHHHhhhhheeEEEEeccHHHHHHHHHH----------------------------------------------
Confidence 1 011123456889999998753211
Q ss_pred CCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHH
Q 001834 496 VNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSF 575 (1008)
Q Consensus 496 ~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F 575 (1008)
+....++++|+||+|+.||..+.+++++..|+.++|++|||||+||++.|+|++|+|.+|+.++....|
T Consensus 372 -----------il~~~~glLVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf 440 (776)
T KOG0390|consen 372 -----------ILLIRPGLLVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSF 440 (776)
T ss_pred -----------HhcCCCCeEEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHH
Confidence 556678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcccCcccCch-----------hHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHH
Q 001834 576 YSTIKIPISRNSL-----------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLES 644 (1008)
Q Consensus 576 ~~~~~~pi~~~~~-----------~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~ 644 (1008)
...+..|+.+... ..+++|..+...|++||+-....+ .||++.++++.|.+++.|..+|..+..
T Consensus 441 ~k~~~~~i~~~~~~~~s~e~~~~~~rl~eL~~~t~~fi~rrt~~il~k-----~LP~k~e~vv~~n~t~~Q~~~~~~l~~ 515 (776)
T KOG0390|consen 441 KKKFEIPILRGRDADASEEDREREERLQELRELTNKFILRRTGDILLK-----YLPGKYEYVVFCNPTPIQKELYKKLLD 515 (776)
T ss_pred HHHhhcccccccCCCcchhhhhhHHHHHHHHHHHHhheeecccchhhh-----hCCCceeEEEEeCCcHHHHHHHHHHHH
Confidence 9999999865322 237789999999999999955554 899999999999999999999999877
Q ss_pred HHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhccccccccccc
Q 001834 645 DSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVC 724 (1008)
Q Consensus 645 ~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic 724 (1008)
.. .. ..+. ...|..++.|.++|+||.|+........
T Consensus 516 ~~-~~-~~~~---------~~~l~~~~~L~k~cnhP~L~~~~~~~~~--------------------------------- 551 (776)
T KOG0390|consen 516 SM-KM-RTLK---------GYALELITKLKKLCNHPSLLLLCEKTEK--------------------------------- 551 (776)
T ss_pred HH-Hh-hhhh---------cchhhHHHHHHHHhcCHHhhcccccccc---------------------------------
Confidence 53 11 1110 1157788999999999998741000000
Q ss_pred CCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccc
Q 001834 725 SDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEY 804 (1008)
Q Consensus 725 ~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 804 (1008)
+ +..+....+. .............
T Consensus 552 ------------------------------------e------~~~~~~~~~~--------------~~~~~~~~~~~~~ 575 (776)
T KOG0390|consen 552 ------------------------------------E------KAFKNPALLL--------------DPGKLKLDAGDGS 575 (776)
T ss_pred ------------------------------------c------ccccChHhhh--------------cccccccccccch
Confidence 0 0000000000 0000000111122
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
.|.|+..|+.+|....+.. .+|+++.++++.++++++..++-+|+.++++||
T Consensus 576 ks~kl~~L~~ll~~~~ek~----------------------------~~~~v~Isny~~tldl~e~~~~~~g~~~~rLdG 627 (776)
T KOG0390|consen 576 KSGKLLVLVFLLEVIREKL----------------------------LVKSVLISNYTQTLDLFEQLCRWRGYEVLRLDG 627 (776)
T ss_pred hhhHHHHHHHHHHHHhhhc----------------------------ceEEEEeccHHHHHHHHHHHHhhcCceEEEEcC
Confidence 5889998888886655433 248999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+|+..+|+.+|+.||+.++..+|||+|++|||+||||.+|++||+|||.|||+...||++||||.||+|+|+||||++.|
T Consensus 628 ~~~~~qRq~~vd~FN~p~~~~~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdGQKk~v~iYrLlatG 707 (776)
T KOG0390|consen 628 KTSIKQRQKLVDTFNDPESPSFVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDGQKKPVYIYRLLATG 707 (776)
T ss_pred CCchHHHHHHHHhccCCCCCceEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCCCcceEEEEEeecCC
Confidence 99999999999999999885699999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhc
Q 001834 965 TVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFM 1007 (1008)
Q Consensus 965 TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~ 1007 (1008)
|+||+||++|-.|..+...+|+...... .....++++.||.
T Consensus 708 tiEEk~~qrq~~K~~lS~~v~~~~~~~~--~~~~~~~~~~lf~ 748 (776)
T KOG0390|consen 708 TIEEKIYQRQTHKEGLSSMVFDEEEDVE--KHFFTEDLKTLFD 748 (776)
T ss_pred CchHHHHHHHHHhhhhhheEEecccccc--cccchHHHHHHHh
Confidence 9999999999999999999998875432 3344478888885
No 13
>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=5.4e-72 Score=649.86 Aligned_cols=464 Identities=30% Similarity=0.489 Sum_probs=397.7
Q ss_pred cCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCC
Q 001834 264 ATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLD 343 (1008)
Q Consensus 264 ~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~ 343 (1008)
..+|..+...+|++||+.||.||....+.. ..||||||||||||||+|++|.++...
T Consensus 384 ~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNn---LNGILADEMGLGKTIQtIsLitYLmE~-------------------- 440 (1157)
T KOG0386|consen 384 AKQPSSLQGGELKEYQLHGLQWMVSLYNNN---LNGILADEMGLGKTIQTISLITYLMEH-------------------- 440 (1157)
T ss_pred ccCcchhcCCCCchhhhhhhHHHhhccCCC---cccccchhcccchHHHHHHHHHHHHHH--------------------
Confidence 456777778899999999999999988765 459999999999999999999886543
Q ss_pred CCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCC
Q 001834 344 DDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSR 423 (1008)
Q Consensus 344 ~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r 423 (1008)
+...+|.|||||.++|.+|..||.+|.| .+..++|.|...
T Consensus 441 -------------------------------------K~~~GP~LvivPlstL~NW~~Ef~kWaP---Sv~~i~YkGtp~ 480 (1157)
T KOG0386|consen 441 -------------------------------------KQMQGPFLIIVPLSTLVNWSSEFPKWAP---SVQKIQYKGTPQ 480 (1157)
T ss_pred -------------------------------------cccCCCeEEeccccccCCchhhcccccc---ceeeeeeeCCHH
Confidence 1345779999999999999999999998 899999999875
Q ss_pred CCCc----cccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCC
Q 001834 424 TKDP----VELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSS 499 (1008)
Q Consensus 424 ~~~~----~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~ 499 (1008)
.+.. ...++++|++|||+.+.++-
T Consensus 481 ~R~~l~~qir~gKFnVLlTtyEyiikdk---------------------------------------------------- 508 (1157)
T KOG0386|consen 481 QRSGLTKQQRHGKFNVLLTTYEYIIKDK---------------------------------------------------- 508 (1157)
T ss_pred HHhhHHHHHhcccceeeeeeHHHhcCCH----------------------------------------------------
Confidence 4431 23378999999999887642
Q ss_pred cccCCCCcccceeeEEEEccCcccCCccchHHHHHH-hcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHH
Q 001834 500 IDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACC-SLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYST 578 (1008)
Q Consensus 500 ~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~-~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~ 578 (1008)
..|.++.|.++||||+|++||..++++..+. ...+.+|++|||||+||++.|||++|+||-|..|.+...|..|
T Consensus 509 -----~lLsKI~W~yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqW 583 (1157)
T KOG0386|consen 509 -----ALLSKISWKYMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQW 583 (1157)
T ss_pred -----HHHhccCCcceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHH
Confidence 1388999999999999999999999999887 6689999999999999999999999999999999999999999
Q ss_pred cccCcccCch----------hHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHH
Q 001834 579 IKIPISRNSL----------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLK 648 (1008)
Q Consensus 579 ~~~pi~~~~~----------~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~ 648 (1008)
|..|+..... -.+.+|+.+|+||++||.|++|.. .||++++.++.|+||.-|+.+|..+.+...-
T Consensus 584 FN~PFantGek~eLteEEtlLIIrRLHkVLRPFlLRRlKkeVE~-----~LPdKve~viKC~mSalQq~lY~~m~~~g~l 658 (1157)
T KOG0386|consen 584 FNQPFANTGEKVELTEEETLLIIRRLHKVLRPFLLRRLKKEVEQ-----ELPDKVEDVIKCDMSALQQSLYKQMQNKGQL 658 (1157)
T ss_pred hhhhhhhcCCcccccchHHHHHHHHHHHhhhHHHHHhhhHHHhh-----hCchhhhHhhheehhhhhHhhhHHHHhCCCC
Confidence 9999855431 236799999999999999999986 8999999999999999999999987543211
Q ss_pred HHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCC
Q 001834 649 KFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPP 728 (1008)
Q Consensus 649 ~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~ 728 (1008)
.. ........+..+...++.||++|+||+++.+.... |..|.++
T Consensus 659 ~~----d~~~g~~g~k~L~N~imqLRKiCNHP~lf~~ve~~-------------------------------~~~~~~~- 702 (1157)
T KOG0386|consen 659 LK----DTAKGKKGYKPLFNTIMQLRKLCNHPYLFANVENS-------------------------------YTLHYDI- 702 (1157)
T ss_pred Cc----CchhccccchhhhhHhHHHHHhcCCchhhhhhccc-------------------------------cccccCh-
Confidence 11 11112344567888899999999999987432110 0000000
Q ss_pred CCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchh
Q 001834 729 EDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSK 808 (1008)
Q Consensus 729 ~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsK 808 (1008)
.+.+..++|
T Consensus 703 -----------------------------------------------------------------------~dL~R~sGK 711 (1157)
T KOG0386|consen 703 -----------------------------------------------------------------------KDLVRVSGK 711 (1157)
T ss_pred -----------------------------------------------------------------------hHHHHhccH
Confidence 111235889
Q ss_pred HHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCH
Q 001834 809 IRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSL 888 (1008)
Q Consensus 809 l~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~ 888 (1008)
+..|-.+|-++.+.++ +|++|+|.|+++++++.+|.-.++.|.++||+++.
T Consensus 712 fELLDRiLPKLkatgH-----------------------------RVLlF~qMTrlmdimEdyL~~~~~kYlRLDG~TK~ 762 (1157)
T KOG0386|consen 712 FELLDRILPKLKATGH-----------------------------RVLLFSQMTRLMDILEDYLQIREYKYLRLDGQTKV 762 (1157)
T ss_pred HHHHHhhhHHHHhcCc-----------------------------chhhHHHHHHHHHHHHHHHhhhhhheeeecCCcch
Confidence 9999999999998887 99999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHH
Q 001834 889 PARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVED 968 (1008)
Q Consensus 889 ~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe 968 (1008)
++|..+++.||.+++.+++||+|++|||.|||||.|++||+||..|||....||.+|+|||||+++|.|+|+++.+++||
T Consensus 763 ~eRg~ll~~FN~Pds~yf~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahrigq~~evRv~rl~tv~sveE 842 (1157)
T KOG0386|consen 763 EERGDLLEIFNAPDSPYFIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKKEVRVLRLITVNSVEE 842 (1157)
T ss_pred hhHHHHHHHhcCCCCceeeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHhhchhheeeeeeehhhHHHH
Confidence 99999999999988889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhhcCC
Q 001834 969 RILKLQDDKRKMVASAFGED 988 (1008)
Q Consensus 969 ~I~~lq~~K~~l~~~~~g~~ 988 (1008)
+|++.+..|.++-..++.-+
T Consensus 843 ~il~~a~~Kl~~d~kviqag 862 (1157)
T KOG0386|consen 843 KILAEAFYKLDVDGKVIQAG 862 (1157)
T ss_pred HHHHHHHHhcCchHhhhhcc
Confidence 99999999998888777543
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=1.7e-67 Score=601.78 Aligned_cols=579 Identities=25% Similarity=0.320 Sum_probs=399.5
Q ss_pred cccccchhhHHHHHHHHHhhc------cCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCC
Q 001834 271 LSVNLLKHQKIALAWMLQKET------RSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDD 344 (1008)
Q Consensus 271 ~~~~LrpyQ~~~v~wml~~e~------~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~ 344 (1008)
+...|+|||..||+||+..-- ....+.|||||+-||||||+|+|+|+......
T Consensus 665 lv~kLKpHQv~GvqFMwd~~~eSlkr~~~~~GsGcILAHcMGLGKTlQVvtflhTvL~c--------------------- 723 (1567)
T KOG1015|consen 665 LVIKLKPHQVDGVQFMWDCCCESLKRTKKSPGSGCILAHCMGLGKTLQVVTFLHTVLLC--------------------- 723 (1567)
T ss_pred HHhhcCcccccchhHHHHHHHHHHHhhcCCCCcchHHHHhhcccceehhhHHHHHHHHh---------------------
Confidence 355699999999999976321 23356799999999999999999998663211
Q ss_pred CCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCC---CCeEEEEEeCC
Q 001834 345 DDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDK---AALSVLIYHGG 421 (1008)
Q Consensus 345 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~---~~l~v~v~~g~ 421 (1008)
.+..++++|||||.+++.||.+||++|.+.. ..+.|..+...
T Consensus 724 -----------------------------------~klg~ktaLvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~v 768 (1567)
T KOG1015|consen 724 -----------------------------------DKLGFKTALVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELATV 768 (1567)
T ss_pred -----------------------------------hccCCceEEEEcchHHHHHHHHHHHHhcccccccccceeehhhhc
Confidence 1234567999999999999999999999842 13445444444
Q ss_pred CCCCCc-ccc----CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCC
Q 001834 422 SRTKDP-VEL----AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNV 496 (1008)
Q Consensus 422 ~r~~~~-~~l----~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~ 496 (1008)
++..+. ..| ..-.|.|.-|+.+++-.... ..+.++....
T Consensus 769 kr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr-----------------------~vk~rk~ke~------------- 812 (1567)
T KOG1015|consen 769 KRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGR-----------------------NVKSRKLKEI------------- 812 (1567)
T ss_pred cChHHHHHHHHHHHhcCCEEEEehHHHHHHhccc-----------------------chhhhHHHHH-------------
Confidence 432211 111 34479999999988632110 0001110000
Q ss_pred CCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHH
Q 001834 497 NSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFY 576 (1008)
Q Consensus 497 ~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~ 576 (1008)
...-|..-++++||+||||.|||..+.+++|+..+++++|++|||||+||+|.|+|.|++|++++++++..+|.
T Consensus 813 ------f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~Efr 886 (1567)
T KOG1015|consen 813 ------FNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFR 886 (1567)
T ss_pred ------HHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHH
Confidence 00125667789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcccCcccCch------------hHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHH
Q 001834 577 STIKIPISRNSL------------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLES 644 (1008)
Q Consensus 577 ~~~~~pi~~~~~------------~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~ 644 (1008)
++|.+||.++.. ..-..|..+|+.++-|+....+-. .|||+++.++.|.||+.|..+|+.+..
T Consensus 887 NRFvNpI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk-----~LPPK~eyVi~vrltelQ~~LYq~yL~ 961 (1567)
T KOG1015|consen 887 NRFVNPIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTK-----FLPPKHEYVIAVRLTELQCKLYQYYLD 961 (1567)
T ss_pred HhhcCccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcc-----cCCCceeEEEEEeccHHHHHHHHHHHh
Confidence 999999988753 223457889999999988876655 799999999999999999999998876
Q ss_pred HHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhccccccccccc
Q 001834 645 DSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVC 724 (1008)
Q Consensus 645 ~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic 724 (1008)
.......-.. ......+.+|..+.-|+++..||..+.-......+ .+.+.. .+..-++|
T Consensus 962 -h~~~~G~d~e--g~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~en------kR~~se------------ddm~~fi~ 1020 (1567)
T KOG1015|consen 962 -HLTGVGNDSE--GGRGAGARLFQDFQMLSRIWTHPWCLQLDSISKEN------KRYFSE------------DDMDEFIA 1020 (1567)
T ss_pred -hccccCCccc--cccchhhhHHHHHHHHHHHhcCCCceeechhhhhh------cccccc------------cchhcccc
Confidence 2211111000 11124567899999999999999766432111110 000000 01111222
Q ss_pred CCCCCCccccccCcccchhhhhhhhcC-CCCC-------------CCCcccccccccceee----cccccccccCCCC--
Q 001834 725 SDPPEDSVVTMCGHVFCYQCASEYITG-DDNM-------------CPAPRCKEQLGADVVF----SKTTLKNCVSDDG-- 784 (1008)
Q Consensus 725 ~d~~~~~v~t~CgH~fc~~ci~~~~~~-~~~~-------------cp~~~c~~~l~~~~~~----~~~~l~~~~~~~~-- 784 (1008)
.+..+....... ..+|..--...... +... ......+.-...+..- ....+. +..+..
T Consensus 1021 D~sde~e~s~~s-~d~~~~~ks~~~s~~Desss~~~~~g~~ev~k~k~rk~r~~~~~~~~~~g~~~D~~l~-ll~dlag~ 1098 (1567)
T KOG1015|consen 1021 DDSDETEMSLSS-DDYTKKKKSGKKSKKDESSSGSGSDGDVEVIKVKNRKSRGGGEGNVDETGNNPDVSLK-LLEDLAGS 1098 (1567)
T ss_pred CCCccccccccc-cchhhcccccccccccccccccccCCchhhhhhhhhhccccccCcccccCCCcchHHH-Hhhccccc
Confidence 222111100000 00111000000000 0000 0000000000000000 000000 000000
Q ss_pred ---CCCCCCCcccc--ccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEe
Q 001834 785 ---GGSPTDSPFAD--KSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFS 859 (1008)
Q Consensus 785 ---~~~~~~~~~~~--~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFS 859 (1008)
..++....+.+ ..........|+|+-.|+++|+..-+.|. |+||||
T Consensus 1099 ~s~~~d~ppew~kd~v~e~d~~v~~~SgKmiLLleIL~mceeIGD-----------------------------KlLVFS 1149 (1567)
T KOG1015|consen 1099 SSNPSDPPPEWYKDFVTEADAEVLEHSGKMILLLEILRMCEEIGD-----------------------------KLLVFS 1149 (1567)
T ss_pred ccCCCCCchHhHHhhhhhhhhhhhhcCcceehHHHHHHHHHHhcc-----------------------------eeEEee
Confidence 00000001111 11112334579999999999999888776 999999
Q ss_pred ccHHHHHHHHHHHHhc----------------------CCeEEEecCCCCHHHHHHHHHHhccCcC-ceEEEEEecCCCc
Q 001834 860 QWTRMLDLVENSLNQH----------------------CIQYRRLDGTMSLPARDRAVKDFNTDRE-QITVMLMSLKAGN 916 (1008)
Q Consensus 860 q~~~~ld~L~~~L~~~----------------------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~-~~~VLLiS~kagg 916 (1008)
|....|++|+.+|... |..|.+|||++...+|+++.++||+..+ ..+.|||||+||+
T Consensus 1150 QSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~GkDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LISTRAGs 1229 (1567)
T KOG1015|consen 1150 QSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRGKDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLISTRAGS 1229 (1567)
T ss_pred cccchhHHHHHHHHhhcccCccccccccccccccceecCCceEEecCcccHHHHHHHHHHhcCcccceeEEEEEeeccCc
Confidence 9999999999999742 5689999999999999999999998654 2668999999999
Q ss_pred cccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccC
Q 001834 917 LGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASR 996 (1008)
Q Consensus 917 ~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~ 996 (1008)
.|+||.+||+||+||-.|||....|+|-|+||+||++||+||||++.||+|++||++|..|+.+...++++.+-. .-
T Consensus 1230 LGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPvyiYRfiAqGTmEeKIYkRQVTKqsls~RVVDeqQv~---Rh 1306 (1567)
T KOG1015|consen 1230 LGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPVYIYRFIAQGTMEEKIYKRQVTKQSLSFRVVDEQQVE---RH 1306 (1567)
T ss_pred cccceeecceEEEEecccCCccchHHHHHHHhhcCcCceeehhhhhcccHHHHHHHHHHhHhhhhhhhhhHHHHH---HH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999987643 34
Q ss_pred CCHHHHHhhhc
Q 001834 997 LTVEDLRYLFM 1007 (1008)
Q Consensus 997 l~~~dl~~Lf~ 1007 (1008)
.+.+||..||.
T Consensus 1307 y~~neLteLy~ 1317 (1567)
T KOG1015|consen 1307 YTMNELTELYT 1317 (1567)
T ss_pred hhHhhhHHHhh
Confidence 68899999885
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=1.4e-62 Score=627.55 Aligned_cols=498 Identities=38% Similarity=0.576 Sum_probs=401.3
Q ss_pred CccccccchhhHHHHHHHHH-hhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCC
Q 001834 269 GLLSVNLLKHQKIALAWMLQ-KETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDD 347 (1008)
Q Consensus 269 ~~~~~~LrpyQ~~~v~wml~-~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 347 (1008)
..+...|+|||.+|+.||.. ... ...|||||||||||||+|+|+++......
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~~---~~~~~ilaD~mglGKTiq~i~~l~~~~~~------------------------ 385 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLRS---NLLGGILADDMGLGKTVQTIALLLSLLES------------------------ 385 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHh---ccCCCcccccccchhHHHHHHHHHhhhhc------------------------
Confidence 34456799999999999984 433 24789999999999999999999762221
Q ss_pred CCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeE-EEEEeCCCCC--
Q 001834 348 NGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALS-VLIYHGGSRT-- 424 (1008)
Q Consensus 348 ~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~-v~v~~g~~r~-- 424 (1008)
.....++.|||||.+++.||.+|+.+|.+ .++ +.+++|....
T Consensus 386 --------------------------------~~~~~~~~liv~p~s~~~nw~~e~~k~~~---~~~~~~~~~g~~~~~~ 430 (866)
T COG0553 386 --------------------------------IKVYLGPALIVVPASLLSNWKREFEKFAP---DLRLVLVYHGEKSELD 430 (866)
T ss_pred --------------------------------ccCCCCCeEEEecHHHHHHHHHHHhhhCc---cccceeeeeCCccccc
Confidence 01224679999999999999999999987 577 9999998862
Q ss_pred ---CCccccCC------CcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCC
Q 001834 425 ---KDPVELAK------YDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGN 495 (1008)
Q Consensus 425 ---~~~~~l~~------~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~ 495 (1008)
.....+.. +|+++|||+.+....
T Consensus 431 ~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~------------------------------------------------ 462 (866)
T COG0553 431 KKREALRDLLKLHLVIIFDVVITTYELLRRFL------------------------------------------------ 462 (866)
T ss_pred HHHHHHHHHhhhcccceeeEEechHHHHHHhh------------------------------------------------
Confidence 12222333 899999999998621
Q ss_pred CCCCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHH-HHccCCcc-hhH
Q 001834 496 VNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFR-FLKYDPYA-VYK 573 (1008)
Q Consensus 496 ~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~-fL~~~~~~-~~~ 573 (1008)
.+.+.+..+.|+++|+||||+|||..+..+++++.+++.++|+|||||++|++.|||+++. |+.|+.++ ...
T Consensus 463 ------~~~~~l~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~ 536 (866)
T COG0553 463 ------VDHGGLKKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFA 536 (866)
T ss_pred ------hhHHHHhhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHH
Confidence 0112377889999999999999999999999999999999999999999999999999999 99999999 669
Q ss_pred HHHHHcccCcccCch--------hHHHHHHHHHHHhhhhhcccc--ccCCCccccCCCCeEEEEEecCCHHHHHHHHHHH
Q 001834 574 SFYSTIKIPISRNSL--------HGYKKLQAVLRAIMLRRTKGT--FIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLE 643 (1008)
Q Consensus 574 ~F~~~~~~pi~~~~~--------~~~~~L~~ll~~~~lRRtk~~--v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~ 643 (1008)
.|..+|..|+..... .....|+.++++|++||++.+ ++. .||++.+.++.|+++..|+.+|..+.
T Consensus 537 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~-----~Lp~k~e~~~~~~l~~~q~~~y~~~~ 611 (866)
T COG0553 537 IFTRLFEKPIQAEEDIGPLEARELGIELLRKLLSPFILRRTKEDVEVLK-----ELPPKIEKVLECELSEEQRELYEALL 611 (866)
T ss_pred HHHHHHhhhhhhcccccchhhHHHHHHHHHHHHHHHhhcccccchhHHH-----hCChhhhhhhhhcccHHHHHHHHHHH
Confidence 999999999865543 344558899999999999999 554 89999999999999999999999998
Q ss_pred H---HHHHHHHHHhhcCCC--cc--hHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhccc
Q 001834 644 S---DSLKKFKAFADAGTV--NQ--NYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLET 716 (1008)
Q Consensus 644 ~---~~~~~~~~~~~~g~~--~~--~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~ 716 (1008)
. .....+......... .. ...+++..+++||++|+||.++.......
T Consensus 612 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~-------------------------- 665 (866)
T COG0553 612 EGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQICNHPALVDEGLEAT-------------------------- 665 (866)
T ss_pred HHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHhccCccccccccccc--------------------------
Confidence 8 445554443332211 11 36789999999999999999876421000
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADK 796 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 796 (1008)
.+..+....++.....|.|
T Consensus 666 ---~~~~~~~~~~~~~~~~~~~---------------------------------------------------------- 684 (866)
T COG0553 666 ---FDRIVLLLREDKDFDYLKK---------------------------------------------------------- 684 (866)
T ss_pred ---cchhhhhhhcccccccccc----------------------------------------------------------
Confidence 0000000000000000000
Q ss_pred cCCcCccccc-hhHHHHHHHH-HhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHh
Q 001834 797 SGILDNEYIS-SKIRTVLDIL-HTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQ 874 (1008)
Q Consensus 797 ~~~~~~~~~S-sKl~~l~~lL-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~ 874 (1008)
.....+ .|+..+.++| ......+. ..|+|||+||+.++++|+..|..
T Consensus 685 ----~~~~~s~~k~~~l~~ll~~~~~~~~~---------------------------~~kvlifsq~t~~l~il~~~l~~ 733 (866)
T COG0553 685 ----PLIQLSKGKLQALDELLLDKLLEEGH---------------------------YHKVLIFSQFTPVLDLLEDYLKA 733 (866)
T ss_pred ----hhhhccchHHHHHHHHHHHHHHhhcc---------------------------cccEEEEeCcHHHHHHHHHHHHh
Confidence 111235 7999999999 56665543 03999999999999999999999
Q ss_pred cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 875 HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 875 ~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.++.+++++|+++.+.|+.++++|++++. ..||++|++|||.||||+.|++||+|||||||+.+.||++|+|||||+++
T Consensus 734 ~~~~~~~ldG~~~~~~r~~~i~~f~~~~~-~~v~lls~kagg~glnLt~a~~vi~~d~~wnp~~~~Qa~dRa~RigQ~~~ 812 (866)
T COG0553 734 LGIKYVRLDGSTPAKRRQELIDRFNADEE-EKVFLLSLKAGGLGLNLTGADTVILFDPWWNPAVELQAIDRAHRIGQKRP 812 (866)
T ss_pred cCCcEEEEeCCCChhhHHHHHHHhhcCCC-CceEEEEecccccceeecccceEEEeccccChHHHHHHHHHHHHhcCcce
Confidence 99999999999999999999999999865 89999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCcccCCCHHHHHhhhc
Q 001834 955 VTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTASRLTVEDLRYLFM 1007 (1008)
Q Consensus 955 V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~~l~~~dl~~Lf~ 1007 (1008)
|.||+|+++||+||+|+.+|..|..+...++++ ........++.+++..||.
T Consensus 813 v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~-~~~~~~~~~~~~~~~~l~~ 864 (866)
T COG0553 813 VKVYRLITRGTIEEKILELQEKKQELLDSLIDA-EGEKELSKLSIEDLLDLFS 864 (866)
T ss_pred eEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhh-hcccchhhccHHHHHHHhc
Confidence 999999999999999999999999999999986 1223457899999999986
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=6.6e-56 Score=481.46 Aligned_cols=424 Identities=27% Similarity=0.377 Sum_probs=326.4
Q ss_pred CCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCC
Q 001834 266 LPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDD 345 (1008)
Q Consensus 266 ~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (1008)
+|+.+.. .|+|||++||.+.+.+. .-.|||||||||||+||||++.+.+..
T Consensus 191 ~d~kLvs-~LlPFQreGv~faL~Rg------GR~llADeMGLGKTiQAlaIA~yyraE---------------------- 241 (689)
T KOG1000|consen 191 MDPKLVS-RLLPFQREGVIFALERG------GRILLADEMGLGKTIQALAIARYYRAE---------------------- 241 (689)
T ss_pred cCHHHHH-hhCchhhhhHHHHHhcC------CeEEEecccccchHHHHHHHHHHHhhc----------------------
Confidence 3555544 49999999999999542 125999999999999999999775543
Q ss_pred CCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC-CC
Q 001834 346 DDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS-RT 424 (1008)
Q Consensus 346 ~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~-r~ 424 (1008)
++.|||||++|...|++++.+|+|.- ..+.+..+.. +.
T Consensus 242 ---------------------------------------wplliVcPAsvrftWa~al~r~lps~--~pi~vv~~~~D~~ 280 (689)
T KOG1000|consen 242 ---------------------------------------WPLLIVCPASVRFTWAKALNRFLPSI--HPIFVVDKSSDPL 280 (689)
T ss_pred ---------------------------------------CcEEEEecHHHhHHHHHHHHHhcccc--cceEEEecccCCc
Confidence 55899999999999999999999964 2344443332 22
Q ss_pred CCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCC
Q 001834 425 KDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGC 504 (1008)
Q Consensus 425 ~~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~ 504 (1008)
.+.- ....|+|+||+.+....
T Consensus 281 ~~~~--t~~~v~ivSye~ls~l~--------------------------------------------------------- 301 (689)
T KOG1000|consen 281 PDVC--TSNTVAIVSYEQLSLLH--------------------------------------------------------- 301 (689)
T ss_pred cccc--cCCeEEEEEHHHHHHHH---------------------------------------------------------
Confidence 1111 22458999999987521
Q ss_pred CCcccceeeEEEEccCcccCCccchHHHHHHhc--ccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccC
Q 001834 505 GPLAKVGWFRVVLDEAQTIKNHRTQVARACCSL--RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIP 582 (1008)
Q Consensus 505 ~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L--~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~p 582 (1008)
..|..-.|..||+||+|++|+..+++.+++..+ .+++.++|||||--.++.|||.++..+++..|.++.+|..+|+.-
T Consensus 302 ~~l~~~~~~vvI~DEsH~Lk~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~ 381 (689)
T KOG1000|consen 302 DILKKEKYRVVIFDESHMLKDSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDG 381 (689)
T ss_pred HHHhcccceEEEEechhhhhccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCc
Confidence 014445599999999999999999999999877 689999999999999999999999999999999999999988654
Q ss_pred cc------cCchhHHHHHHHHH-HHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhh
Q 001834 583 IS------RNSLHGYKKLQAVL-RAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFAD 655 (1008)
Q Consensus 583 i~------~~~~~~~~~L~~ll-~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~ 655 (1008)
-. -..-.+..+|..+| +.+|+||+|.+|+. +||||...++.+ ....+.+.-+.+...... +..
T Consensus 382 k~vr~~~Dykg~tnl~EL~~lL~k~lMIRRlK~dvL~-----qLPpKrr~Vv~~-~~gr~da~~~~lv~~a~~----~t~ 451 (689)
T KOG1000|consen 382 KQVRFCFDYKGCTNLEELAALLFKRLMIRRLKADVLK-----QLPPKRREVVYV-SGGRIDARMDDLVKAAAD----YTK 451 (689)
T ss_pred cccceeeecCCCCCHHHHHHHHHHHHHHHHHHHHHHh-----hCCccceEEEEE-cCCccchHHHHHHHHhhh----cch
Confidence 21 11224567788777 56899999999987 899996555544 444333333333222111 000
Q ss_pred cCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccc
Q 001834 656 AGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTM 735 (1008)
Q Consensus 656 ~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~ 735 (1008)
.....+ +-..+++..+
T Consensus 452 ~~~~e~---~~~~l~l~y~------------------------------------------------------------- 467 (689)
T KOG1000|consen 452 VNSMER---KHESLLLFYS------------------------------------------------------------- 467 (689)
T ss_pred hhhhhh---hhHHHHHHHH-------------------------------------------------------------
Confidence 000000 0001111111
Q ss_pred cCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHH
Q 001834 736 CGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDI 815 (1008)
Q Consensus 736 CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~l 815 (1008)
...-.|+.++.+.
T Consensus 468 -------------------------------------------------------------------~tgiaK~~av~ey 480 (689)
T KOG1000|consen 468 -------------------------------------------------------------------LTGIAKAAAVCEY 480 (689)
T ss_pred -------------------------------------------------------------------HhcccccHHHHHH
Confidence 0124577777776
Q ss_pred HHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHH
Q 001834 816 LHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAV 895 (1008)
Q Consensus 816 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i 895 (1008)
|..+.-.. ..++.|+|||+.+..++|-|+..+.++++.++||||+++..+|+.++
T Consensus 481 i~~~~~l~-------------------------d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~IRIDGst~s~~R~ll~ 535 (689)
T KOG1000|consen 481 ILENYFLP-------------------------DAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSIRIDGSTPSHRRTLLC 535 (689)
T ss_pred HHhCcccc-------------------------cCCCceEEEEehhHHHHHHHHHHHHHcCCCeEEecCCCCchhHHHHH
Confidence 66532111 13456999999999999999999999999999999999999999999
Q ss_pred HHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHH
Q 001834 896 KDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQD 975 (1008)
Q Consensus 896 ~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~ 975 (1008)
+.|+.+.+ ++|-|+|..|+|+||+|++|+.|+|.+++|||....||.||+||+||+..|.||+|+++||+||.++...+
T Consensus 536 qsFQ~see-v~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~ylvAKgT~Ddy~Wp~l~ 614 (689)
T KOG1000|consen 536 QSFQTSEE-VRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQYLVAKGTADDYMWPMLQ 614 (689)
T ss_pred HHhccccc-eEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEEEEecCchHHHHHHHHH
Confidence 99999987 99999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhh
Q 001834 976 DKRKMVASAF 985 (1008)
Q Consensus 976 ~K~~l~~~~~ 985 (1008)
+|.+.+.++-
T Consensus 615 ~KL~vl~s~g 624 (689)
T KOG1000|consen 615 QKLDVLGSVG 624 (689)
T ss_pred HHHHHHhhcc
Confidence 9998877763
No 17
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=8.2e-57 Score=505.27 Aligned_cols=560 Identities=24% Similarity=0.340 Sum_probs=379.0
Q ss_pred cccchhhHHHHHHHHHhhccC------CCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCC
Q 001834 273 VNLLKHQKIALAWMLQKETRS------LHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDD 346 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~------~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 (1008)
--|+|||.-|+.||+.....+ ..++|||||+.||||||+|+|+++......
T Consensus 253 ~v~kPHQiGGiRFlYDN~iESl~rykkSsGFGCILAHSMGLGKTlQVisF~diflRh----------------------- 309 (1387)
T KOG1016|consen 253 HVLKPHQIGGIRFLYDNTIESLGRYKKSSGFGCILAHSMGLGKTLQVISFSDIFLRH----------------------- 309 (1387)
T ss_pred hhcCccccCcEEEehhhHHHHHhhccccCCcceeeeeccccCceeEEeehhHHHhhc-----------------------
Confidence 349999999999997643221 246899999999999999999998664332
Q ss_pred CCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCC--------CCeEEEEE
Q 001834 347 DNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDK--------AALSVLIY 418 (1008)
Q Consensus 347 ~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~--------~~l~v~v~ 418 (1008)
.+++++|+|||-..|.||..|+..|+|.- ..+.|.++
T Consensus 310 -----------------------------------T~AKtVL~ivPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~L 354 (1387)
T KOG1016|consen 310 -----------------------------------TKAKTVLVIVPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLL 354 (1387)
T ss_pred -----------------------------------CccceEEEEEehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEe
Confidence 56788999999999999999999999851 13445554
Q ss_pred eCCCCCCCc-----c-ccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhccc-ccccccccCC
Q 001834 419 HGGSRTKDP-----V-ELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKI-SNVSKRGKKG 491 (1008)
Q Consensus 419 ~g~~r~~~~-----~-~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~-~~~~~k~~~~ 491 (1008)
....++-+. . -...-.|.++-|++++--..+ +-+ ....++.+++
T Consensus 355 nD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRLL~lk-----------------------------~~~~~grpkkt~kr 405 (1387)
T KOG1016|consen 355 NDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRLLILK-----------------------------TLPKKGRPKKTLKR 405 (1387)
T ss_pred cCchhhHHHHHHHHHHHhccCCEEEehHHHHHHHHHh-----------------------------cccccCCccccccc
Confidence 433322111 0 113456889999887642111 000 0001111111
Q ss_pred CCCCC--CCC-------cccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHH
Q 001834 492 KKGNV--NSS-------IDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFR 562 (1008)
Q Consensus 492 ~~~~~--~~~-------~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~ 562 (1008)
.+... .+. ......-|..-+.++||+||+|+|||..+.++.|++.|+.++|+.|||-|+||++-|+|.|++
T Consensus 406 ~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLlEYwCMVD 485 (1387)
T KOG1016|consen 406 ISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLLEYWCMVD 485 (1387)
T ss_pred cCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchHHHhhhhe
Confidence 11110 000 111123366678999999999999999999999999999999999999999999999999999
Q ss_pred HHccCCcchhHHHHHHcccCcccCch------------hHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEec
Q 001834 563 FLKYDPYAVYKSFYSTIKIPISRNSL------------HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVD 630 (1008)
Q Consensus 563 fL~~~~~~~~~~F~~~~~~pi~~~~~------------~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ 630 (1008)
|++|+.+++.++|...|.+||..+.- -....|+.+|..|+-||+...+. +.||.+.+.++.|.
T Consensus 486 FVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk-----~~LP~k~EyViLvr 560 (1387)
T KOG1016|consen 486 FVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLK-----KILPEKKEYVILVR 560 (1387)
T ss_pred eccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHh-----hhcccccceEEEEe
Confidence 99999999999999999999977641 12346788999999999987554 48999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHH
Q 001834 631 FSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDL 710 (1008)
Q Consensus 631 ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l 710 (1008)
++..||++|..+.....+... ...-...+-|.++.---++.+||..+.+...... ...|.. + .+.++
T Consensus 561 ~s~iQR~LY~~Fm~d~~r~~~------~~~~~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~--~a~e~d--l---~vee~ 627 (1387)
T KOG1016|consen 561 KSQIQRQLYRNFMLDAKREIA------ANNDAVFNPLKAFSVCCKIWNHPDVLYRLLEKKK--RAEEDD--L---RVEEM 627 (1387)
T ss_pred HHHHHHHHHHHHHHHHHHhhc------cccccccChHHHHHHHHHhcCChHHHHHHHHHhh--hhhhhh--h---hHHHH
Confidence 999999999988754433221 1111112445555555666789987653211000 000000 0 00000
Q ss_pred HHhcccccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCC
Q 001834 711 LSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTD 790 (1008)
Q Consensus 711 ~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~ 790 (1008)
. .......|+--..++.++-.+..... .+...+ . .+.-.....
T Consensus 628 ~--~ag~~~~~~P~~~~~~~~s~~laSs~------~k~~n~----------------t-------------~kp~~s~~~ 670 (1387)
T KOG1016|consen 628 K--FAGLQQQQSPFNSIPSNPSTPLASST------SKSANK----------------T-------------KKPRGSKKA 670 (1387)
T ss_pred h--hhcccccCCCCCCCCCCCCCcccchh------hhhhcc----------------c-------------CCcccCcCC
Confidence 0 00112233322222221111100000 000000 0 000000000
Q ss_pred Ccccc--ccCCcC--------------ccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCce
Q 001834 791 SPFAD--KSGILD--------------NEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIK 854 (1008)
Q Consensus 791 ~~~~~--~~~~~~--------------~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~K 854 (1008)
..+.+ ...... ....++|+..+++++.+.... ++|
T Consensus 671 p~f~ee~~e~~~y~~w~~el~~nYq~gvLen~pk~V~~~~~~des~~~-----------------------------g~k 721 (1387)
T KOG1016|consen 671 PKFDEEDEEVEKYSDWTFELFENYQEGVLENGPKIVISLEILDESTQI-----------------------------GEK 721 (1387)
T ss_pred CCcccccccccchhhHHHHHHhhhhcccccCCCceEEEEeeecccccc-----------------------------Cce
Confidence 00000 000000 000123333333333333222 449
Q ss_pred EEEEeccHHHHHHHHHHHHhcC------------------CeEEEecCCCCHHHHHHHHHHhccCcCceE-EEEEecCCC
Q 001834 855 SIVFSQWTRMLDLVENSLNQHC------------------IQYRRLDGTMSLPARDRAVKDFNTDREQIT-VMLMSLKAG 915 (1008)
Q Consensus 855 vIIFSq~~~~ld~L~~~L~~~g------------------i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~-VLLiS~kag 915 (1008)
+|||||....|++|+..|.++. +.|++++|.++..+|+++|++||..+. +. .||+|+++|
T Consensus 722 il~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t~a~~rekLinqfN~e~~-lsWlfllstrag 800 (1387)
T KOG1016|consen 722 ILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTTSAADREKLINQFNSEPG-LSWLFLLSTRAG 800 (1387)
T ss_pred EEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCcccchHHHHHHhccCCCC-ceeeeeehhccc
Confidence 9999999999999999998762 468999999999999999999999887 66 899999999
Q ss_pred ccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCCCCCCccc
Q 001834 916 NLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGEDQGGGTAS 995 (1008)
Q Consensus 916 g~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~~~~~~~~ 995 (1008)
..|+||..|++||++|..|||....||++|++|+||+|+++|||||+..++|.+||.+|-.|..|.+.++++-.. ..
T Consensus 801 ~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~lEkkIydRQIsKqGmsdRvVDd~np---~a 877 (1387)
T KOG1016|consen 801 SLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNSLEKKIYDRQISKQGMSDRVVDDANP---DA 877 (1387)
T ss_pred cccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhhhHHHHHHHHHhhccchhhhhcccCc---cc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999986432 35
Q ss_pred CCCHHHHHhhhc
Q 001834 996 RLTVEDLRYLFM 1007 (1008)
Q Consensus 996 ~l~~~dl~~Lf~ 1007 (1008)
.++..||..|++
T Consensus 878 n~s~Ke~enLl~ 889 (1387)
T KOG1016|consen 878 NISQKELENLLM 889 (1387)
T ss_pred cccHHHHHHHhh
Confidence 678888888764
No 18
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=1.5e-54 Score=532.98 Aligned_cols=422 Identities=20% Similarity=0.283 Sum_probs=315.3
Q ss_pred cccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCC
Q 001834 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (1008)
Q Consensus 271 ~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (1008)
..+.|+|||+..+.+++.+.. ...||||||||||||+|++++..+...
T Consensus 149 ~~~~l~pHQl~~~~~vl~~~~-----~R~LLADEvGLGKTIeAglil~~l~~~--------------------------- 196 (956)
T PRK04914 149 ARASLIPHQLYIAHEVGRRHA-----PRVLLADEVGLGKTIEAGMIIHQQLLT--------------------------- 196 (956)
T ss_pred CCCCCCHHHHHHHHHHhhccC-----CCEEEEeCCcCcHHHHHHHHHHHHHHc---------------------------
Confidence 356799999999988876532 347999999999999998887653321
Q ss_pred cccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCC----CC
Q 001834 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRT----KD 426 (1008)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~----~~ 426 (1008)
...+++|||||++|+.||..|+.+++. +.+.++.+..-. ..
T Consensus 197 -------------------------------g~~~rvLIVvP~sL~~QW~~El~~kF~----l~~~i~~~~~~~~~~~~~ 241 (956)
T PRK04914 197 -------------------------------GRAERVLILVPETLQHQWLVEMLRRFN----LRFSLFDEERYAEAQHDA 241 (956)
T ss_pred -------------------------------CCCCcEEEEcCHHHHHHHHHHHHHHhC----CCeEEEcCcchhhhcccc
Confidence 345679999999999999999988874 555666554311 11
Q ss_pred ccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCC
Q 001834 427 PVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGP 506 (1008)
Q Consensus 427 ~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~ 506 (1008)
...+..++++|+||+.+.++... ...
T Consensus 242 ~~pf~~~~~vI~S~~~l~~~~~~------------------------------------------------------~~~ 267 (956)
T PRK04914 242 DNPFETEQLVICSLDFLRRNKQR------------------------------------------------------LEQ 267 (956)
T ss_pred cCccccCcEEEEEHHHhhhCHHH------------------------------------------------------HHH
Confidence 13345689999999998753100 001
Q ss_pred cccceeeEEEEccCcccCCc---cchHHHHHHhc--ccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHccc
Q 001834 507 LAKVGWFRVVLDEAQTIKNH---RTQVARACCSL--RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKI 581 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~iKN~---~s~~~kal~~L--~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~ 581 (1008)
+....|++|||||||+++|. .|+.++++..| +++++++|||||++|++.|+|++++||+|+.|.++..|....+.
T Consensus 268 l~~~~wdlvIvDEAH~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~ 347 (956)
T PRK04914 268 ALAAEWDLLVVDEAHHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQ 347 (956)
T ss_pred HhhcCCCEEEEechhhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHh
Confidence 44567999999999999963 56678888888 57899999999999999999999999999999999999764321
Q ss_pred --Cc--------ccC--chhHHHHH---------------------------HHHHH---------HhhhhhccccccCC
Q 001834 582 --PI--------SRN--SLHGYKKL---------------------------QAVLR---------AIMLRRTKGTFIDG 613 (1008)
Q Consensus 582 --pi--------~~~--~~~~~~~L---------------------------~~ll~---------~~~lRRtk~~v~~g 613 (1008)
|+ ... .......| +++++ .+|+|+++..+.
T Consensus 348 ~~~~a~~v~~l~~~~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~v~-- 425 (956)
T PRK04914 348 YRPVADAVQALLAGEKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAAVK-- 425 (956)
T ss_pred hHHHHHHHHHHhcCCcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHhhc--
Confidence 11 000 00111111 11222 577888888765
Q ss_pred CccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHHHHHHHhhccccccccccccccccc
Q 001834 614 QPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGK 693 (1008)
Q Consensus 614 ~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~ 693 (1008)
.+|++..+.+.+++.++.+..+... .. ..+++ +.+|..+.
T Consensus 426 ----~fp~R~~~~~~l~~~~~y~~~~~~~---~~-----------------------~~~~~-~l~pe~~~--------- 465 (956)
T PRK04914 426 ----GFPKRELHPIPLPLPEQYQTAIKVS---LE-----------------------ARARD-MLYPEQIY--------- 465 (956)
T ss_pred ----CCCcCceeEeecCCCHHHHHHHHHh---HH-----------------------HHHHh-hcCHHHHH---------
Confidence 5899999999999977654443210 00 01111 11221000
Q ss_pred chHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecc
Q 001834 694 ISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSK 773 (1008)
Q Consensus 694 ~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~ 773 (1008)
..++.
T Consensus 466 ------------------~~~~~--------------------------------------------------------- 470 (956)
T PRK04914 466 ------------------QEFED--------------------------------------------------------- 470 (956)
T ss_pred ------------------HHHhh---------------------------------------------------------
Confidence 00000
Q ss_pred cccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCc
Q 001834 774 TTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPI 853 (1008)
Q Consensus 774 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 853 (1008)
....+..++|++.|+++|+... + .
T Consensus 471 -------------------------~~~~~~~d~Ki~~L~~~L~~~~--~-----------------------------~ 494 (956)
T PRK04914 471 -------------------------NATWWNFDPRVEWLIDFLKSHR--S-----------------------------E 494 (956)
T ss_pred -------------------------hhhccccCHHHHHHHHHHHhcC--C-----------------------------C
Confidence 0000124689999999997653 2 2
Q ss_pred eEEEEeccHHHHHHHHHHH-HhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC
Q 001834 854 KSIVFSQWTRMLDLVENSL-NQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL 932 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L-~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp 932 (1008)
|+||||++..+++.|...| ...|+.++.++|+|+..+|+++++.|++++.+++|||+ +.+||+|+||+.|++||+||+
T Consensus 495 KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~~~~~VLIs-TdvgseGlNlq~a~~VInfDl 573 (956)
T PRK04914 495 KVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEEDGAQVLLC-SEIGSEGRNFQFASHLVLFDL 573 (956)
T ss_pred eEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCCCCccEEEe-chhhccCCCcccccEEEEecC
Confidence 9999999999999999999 56799999999999999999999999986533788875 599999999999999999999
Q ss_pred CCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcC
Q 001834 933 WWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGE 987 (1008)
Q Consensus 933 ~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~ 987 (1008)
||||..++|||||+||+||+++|.||+++.++|+|++|+.+...|.++++..++.
T Consensus 574 P~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~ 628 (956)
T PRK04914 574 PFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPT 628 (956)
T ss_pred CCCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCC
Confidence 9999999999999999999999999999999999999999999998777666544
No 19
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=7e-50 Score=475.75 Aligned_cols=371 Identities=32% Similarity=0.507 Sum_probs=250.6
Q ss_pred CCCCCccccccchhhHHHHHHHHHhhccC--------------------------------------CCccCceeecCCC
Q 001834 265 TLPDGLLSVNLLKHQKIALAWMLQKETRS--------------------------------------LHCLGGILADDQG 306 (1008)
Q Consensus 265 ~~P~~~~~~~LrpyQ~~~v~wml~~e~~~--------------------------------------~~~~GGILADemG 306 (1008)
+.+..+ .-.||+||...+.||.+++... ....||.+||+||
T Consensus 237 D~~~~~-~~~~r~~~~r~~~~~~~~~~e~~~~s~~~It~~~~~di~~~~~~~l~~~~~~~~~~l~~e~l~~~~t~~de~g 315 (1394)
T KOG0298|consen 237 DLIKRF-QSQLRKYQQRTVSWMPSREQEYTQVSANFITLHLIDDITRVFKLKLCFQFYSFEEELPKESLSPGGTLADEMG 315 (1394)
T ss_pred hHHHHh-hhhccHHHHHHHHhccccchhhhhccccccccccccchHHHhhhccceecccccccchhccCCCcchHHHHhh
Confidence 334443 4469999999999999887731 1246899999999
Q ss_pred CchHHHHHHHHHhhccccccchhhhcc-----------------ccccccccCCCCCCCCCccc--ccc------cc-cC
Q 001834 307 LGKTISIIALIQMQRSLQSKSKTEVLG-----------------NQKTEALNLDDDDDNGNAGL--DKV------KE-TG 360 (1008)
Q Consensus 307 LGKTiqaIali~~~~~~~~~~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~--~~~------k~-~~ 360 (1008)
||||+.-+|++..++....-....... +.+...+. ..+--.+...+ +.. +. ..
T Consensus 316 l~k~~E~~a~~~~n~~p~~~~~~s~~~~~~~~~~~~~e~~~~r~nq~~~~~~-~~~~~~g~~~~~ade~~~qk~~~~l~~ 394 (1394)
T KOG0298|consen 316 LGKTVEFLAMLTSNRRPPDSYRNSYLHQRLEEYSDEVELKRSRINQKDEVLC-SGDKKHGKRVQCADEMGWQKTSEKLIL 394 (1394)
T ss_pred hHHHHHHHHHHhccCCCcccccchHHHHHHHHHhhhhHhHHhHhhhhhHHhh-cCCccCCcceeehhhhhccchHHHHHH
Confidence 999999999998877664211110000 00011110 00111110000 000 00 00
Q ss_pred C-CCCCC-CCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC--CccccCCCcEE
Q 001834 361 E-SDDIK-PVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTK--DPVELAKYDVV 436 (1008)
Q Consensus 361 ~-~~~~~-~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~--~~~~l~~~dVV 436 (1008)
. ..-.+ ...+++.-........-.++||||||.+++.||..||.+|++. .++|+.|.|-...- .+.++.+||||
T Consensus 395 ~l~~~~k~~~~~cS~~~~e~~n~~~tgaTLII~P~aIl~QW~~EI~kH~~~--~lKv~~Y~Girk~~~~~~~el~~yDIV 472 (1394)
T KOG0298|consen 395 ELSDLPKLCPSCCSELVKEGENLVETGATLIICPNAILMQWFEEIHKHISS--LLKVLLYFGIRKTFWLSPFELLQYDIV 472 (1394)
T ss_pred HHhcccccchhhhhHHHhcccceeecCceEEECcHHHHHHHHHHHHHhccc--cceEEEEechhhhcccCchhhhccCEE
Confidence 0 00111 1111222223333345678999999999999999999999986 47999999976543 45788999999
Q ss_pred EechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccceeeEEE
Q 001834 437 LTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVV 516 (1008)
Q Consensus 437 ItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~~w~rVI 516 (1008)
+|||+++++++.... ..+.. ...|.+ + ..-...+||..+.|+||+
T Consensus 473 lTtYdiLr~El~hte---------~~~~~---------R~lR~q-----------s------r~~~~~SPL~~v~wWRIc 517 (1394)
T KOG0298|consen 473 LTTYDILRNELYHTE---------DFGSD---------RQLRHQ-----------S------RYMRPNSPLLMVNWWRIC 517 (1394)
T ss_pred EeehHHHHhHhhccc---------ccCCh---------hhhhcc-----------c------CCCCCCCchHHHHHHHHh
Confidence 999999999865420 00000 000000 0 111134689999999999
Q ss_pred EccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccCcccCchhHHHHHHH
Q 001834 517 LDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLHGYKKLQA 596 (1008)
Q Consensus 517 iDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~pi~~~~~~~~~~L~~ 596 (1008)
|||||.+....|+.++++..|.+.++||.||||+++ ++||+.+|.||+..||+...+|...+..++.+. .....+..
T Consensus 518 lDEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~iq~v~~~~~~r--a~~~~~~d 594 (1394)
T KOG0298|consen 518 LDEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFIQTVDKAYQLR--AKCEPLLD 594 (1394)
T ss_pred hhHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHHHHHHHHHHHH--hhhhhHHH
Confidence 999999999999999999999999999999999999 999999999999999999999999887666544 33446778
Q ss_pred HHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHH----HHHHHHHHHHHh-------h--cCCCcchH
Q 001834 597 VLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKL----ESDSLKKFKAFA-------D--AGTVNQNY 663 (1008)
Q Consensus 597 ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l----~~~~~~~~~~~~-------~--~g~~~~~~ 663 (1008)
+++..+-|+.+..|... +.+||..+.+....+++.+-.+|... ..+.+..+.... . .+......
T Consensus 595 l~~q~l~R~~k~~v~~e---l~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~~~l~~~sd~~~l~~~~~ 671 (1394)
T KOG0298|consen 595 LFKQLLWRTFKSKVEHE---LGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKRHNLDNSSDLASLSPQLL 671 (1394)
T ss_pred HHHhhhhhhhhHHHHHH---hCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHHhccccccccccCChhhH
Confidence 89999999999877542 57999988888888887777766543 333333332222 1 11112345
Q ss_pred HHHHHHHHHHHhhcccc
Q 001834 664 ANILLMLLRLRQACDHP 680 (1008)
Q Consensus 664 ~~il~~l~rLRq~c~hP 680 (1008)
+.++..+++|||+||||
T Consensus 672 a~i~~~l~rLRq~Cchp 688 (1394)
T KOG0298|consen 672 AIILKWLLRLRQACCHP 688 (1394)
T ss_pred HHHHHHHHHHHHhhccc
Confidence 67899999999999999
No 20
>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e.g., SNF2, STH1, brahma, MOT1), DNA repair (e.g., ERCC6, RAD16, RAD5), DNA recombination (e.g., RAD54), and chromatin unwinding (e.g., ISWI) as well as a variety of other proteins with little functional information (e.g., lodestar, ETL1) [, ]. SNF2 functions as the ATPase component of the SNF2/SWI multisubunit complex, which utilises energy derived from ATP hydrolysis to disrupt histone-DNA interactions, resulting in the increased accessibility of DNA to transcription factors. Proteins that contain this domain appear to be distantly related to the DEAX box helicases IPR001410 from INTERPRO, however no helicase activity has ever been demonstrated for these proteins. ; GO: 0003677 DNA binding, 0005524 ATP binding; PDB: 1Z63_B 1Z3I_X 3DMQ_A 3MWY_W.
Probab=100.00 E-value=6.7e-44 Score=398.27 Aligned_cols=291 Identities=40% Similarity=0.643 Sum_probs=226.0
Q ss_pred hhHHHHHHHHHhh------ccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCc
Q 001834 278 HQKIALAWMLQKE------TRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (1008)
Q Consensus 278 yQ~~~v~wml~~e------~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (1008)
||++||.||++++ ......+|||||||||+|||+++|+++.......
T Consensus 1 ~Q~~~v~~m~~~~~~~~~~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~--------------------------- 53 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEEYPNSESPPRGGLLADEMGLGKTITAIALISYLKNEF--------------------------- 53 (299)
T ss_dssp HHHHHHHHHHHHH----TTSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCC---------------------------
T ss_pred CHHHHHHHHHHHhhhhcccccccCCCCEEEEECCCCCchhhhhhhhhhhhhcc---------------------------
Confidence 8999999999998 2222458999999999999999999997543320
Q ss_pred ccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCC--CCCCccc
Q 001834 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGS--RTKDPVE 429 (1008)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~--r~~~~~~ 429 (1008)
.....+++|||||.+++.||..||.+|+++. .+++++|+|.. +......
T Consensus 54 ----------------------------~~~~~~~~LIv~P~~l~~~W~~E~~~~~~~~-~~~v~~~~~~~~~~~~~~~~ 104 (299)
T PF00176_consen 54 ----------------------------PQRGEKKTLIVVPSSLLSQWKEEIEKWFDPD-SLRVIIYDGDSERRRLSKNQ 104 (299)
T ss_dssp ----------------------------TTSS-S-EEEEE-TTTHHHHHHHHHHHSGT--TS-EEEESSSCHHHHTTSSS
T ss_pred ----------------------------ccccccceeEeeccchhhhhhhhhccccccc-cccccccccccccccccccc
Confidence 0012235999999999999999999999643 67999999987 3334455
Q ss_pred cCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCccc
Q 001834 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (1008)
Q Consensus 430 l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~ 509 (1008)
...++++|+||+.+...... .....+..
T Consensus 105 ~~~~~vvi~ty~~~~~~~~~----------------------------------------------------~~~~~l~~ 132 (299)
T PF00176_consen 105 LPKYDVVITTYETLRKARKK----------------------------------------------------KDKEDLKQ 132 (299)
T ss_dssp CCCSSEEEEEHHHHH--TST----------------------------------------------------HTTHHHHT
T ss_pred cccceeeecccccccccccc----------------------------------------------------cccccccc
Confidence 67899999999999821000 00112666
Q ss_pred ceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccCcccCchh
Q 001834 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSLH 589 (1008)
Q Consensus 510 ~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~pi~~~~~~ 589 (1008)
++|++|||||+|.+||..+..++++..|++.++|+|||||++|++.|+|++++||.++.+.+...|.+.+..+.......
T Consensus 133 ~~~~~vIvDEaH~~k~~~s~~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~~~~ 212 (299)
T PF00176_consen 133 IKWDRVIVDEAHRLKNKDSKRYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKENSYE 212 (299)
T ss_dssp SEEEEEEETTGGGGTTTTSHHHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTHHHH
T ss_pred ccceeEEEecccccccccccccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhccccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999886664444556
Q ss_pred HHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHH
Q 001834 590 GYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLM 669 (1008)
Q Consensus 590 ~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~ 669 (1008)
...+|+.+++.+++||++.++.. .+|+..+.++.++|+++|+++|+.+.......+.... .........++..
T Consensus 213 ~~~~L~~~l~~~~~r~~~~d~~~-----~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 285 (299)
T PF00176_consen 213 NIERLRELLSEFMIRRTKKDVEK-----ELPPKIEHVINVELSPEQRELYNELLKEARENLKQSS--RKKSKKLSSLLQI 285 (299)
T ss_dssp HHHHHHHHHCCCEECHCGGGGCT-----TSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T----TCHHHHHHHHH
T ss_pred cccccccccchhhhhhhcccccc-----cCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhc--ccchhhHHHHHHH
Confidence 78899999999999999998843 7999999999999999999999988776555433222 2355678899999
Q ss_pred HHHHHhhccccccc
Q 001834 670 LLRLRQACDHPLLV 683 (1008)
Q Consensus 670 l~rLRq~c~hP~l~ 683 (1008)
+.+|||+|+||.|+
T Consensus 286 ~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 286 LKRLRQVCNHPYLV 299 (299)
T ss_dssp HHHHHHHHH-THHC
T ss_pred HHHHHHHhCCcccC
Confidence 99999999999874
No 21
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=7.9e-40 Score=383.26 Aligned_cols=399 Identities=27% Similarity=0.387 Sum_probs=304.1
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcc
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (1008)
..|.|||.+|++|+......+. -+|||||||||||+++|.++......
T Consensus 294 g~L~~~qleGln~L~~~ws~~~---~~ilADEmgLgktVqsi~fl~sl~~~----------------------------- 341 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISWSPGV---DAILADEMGLGKTVQSIVFLYSLPKE----------------------------- 341 (696)
T ss_pred ccccccchhhhhhhhcccccCC---CcccchhhcCCceeeEEEEEeecccc-----------------------------
Confidence 5799999999999997776554 38999999999999999887553221
Q ss_pred cccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCC
Q 001834 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAK 432 (1008)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~ 432 (1008)
....++.||++|.+.+-+|.+|+..|.+ .+.+..|+|....+.......
T Consensus 342 ----------------------------~~~~~P~Lv~ap~sT~~nwe~e~~~wap---~~~vv~~~G~~k~r~iirepe 390 (696)
T KOG0383|consen 342 ----------------------------IHSPGPPLVVAPLSTIVNWEREFELWAP---SFYVVPYPGTAKSRAIIREPE 390 (696)
T ss_pred ----------------------------cCCCCCceeeccCccccCCCCchhccCC---CcccccCCCCccchhhhhccc
Confidence 1222568999999999999999999988 688888999876442211100
Q ss_pred C---c-EEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcc
Q 001834 433 Y---D-VVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLA 508 (1008)
Q Consensus 433 ~---d-VVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~ 508 (1008)
+ | -+-++-.+... ++ ....+........+..+.+...+.
T Consensus 391 ~s~ed~~~~~~~~i~~~---------------------------------~~----~s~~k~~vl~~s~~~~~~~~~il~ 433 (696)
T KOG0383|consen 391 FSFEDSSIKSSPKISEM---------------------------------KT----ESSAKFHVLLPSYETIEIDQSILF 433 (696)
T ss_pred ccccccccccCCccccc---------------------------------cc----hhhcccccCCCchhhcccCHHHHh
Confidence 0 0 00000000000 00 000011111111222333445688
Q ss_pred cceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccCcccCch
Q 001834 509 KVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNSL 588 (1008)
Q Consensus 509 ~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~pi~~~~~ 588 (1008)
.+.|..+|+||+|+++|..+...+.+......++++|||||.+|++.+|+++|+||.++.|.+..+|.+.|..- ...
T Consensus 434 ~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d~---~~~ 510 (696)
T KOG0383|consen 434 SVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHDI---SCE 510 (696)
T ss_pred hhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcchh---hHH
Confidence 99999999999999999999999998888999999999999999999999999999999999999998887532 234
Q ss_pred hHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHH
Q 001834 589 HGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILL 668 (1008)
Q Consensus 589 ~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~ 668 (1008)
...+.++.++.+.|+||.|.++++ +.|.|++-++.+.|++.|++.|+.++..--..+.. ..+....+.
T Consensus 511 ~~~~~l~~l~~p~~lrr~k~d~l~-----~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~~-------~~~~~s~~n 578 (696)
T KOG0383|consen 511 EQIKKLHLLLCPHMLRRLKLDVLK-----PMPLKTELIGRVELSPCQKKYYKKILTRNWQGLLA-------GVHQYSLLN 578 (696)
T ss_pred HHHHhhccccCchhhhhhhhhhcc-----CCCccceeEEEEecCHHHHHHHHHHHcCChHHHhh-------cchhHHHHH
Confidence 667889999999999999999997 79999999999999999999999987654333222 234456788
Q ss_pred HHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhh
Q 001834 669 MLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEY 748 (1008)
Q Consensus 669 ~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~ 748 (1008)
.++.||+.|+||.++........ ....+...
T Consensus 579 ~~mel~K~~~hpy~~~~~e~~~~--------------~~~~~~~~----------------------------------- 609 (696)
T KOG0383|consen 579 IVMELRKQCNHPYLSPLEEPLEE--------------NGEYLGSA----------------------------------- 609 (696)
T ss_pred HHHHHHHhhcCcccCcccccccc--------------chHHHHHH-----------------------------------
Confidence 99999999999998754111000 00000000
Q ss_pred hcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccch
Q 001834 749 ITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSI 828 (1008)
Q Consensus 749 ~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~ 828 (1008)
....+.|+..|...+.++...++
T Consensus 610 -----------------------------------------------------l~k~~~k~~~l~~~~~~l~~~gh---- 632 (696)
T KOG0383|consen 610 -----------------------------------------------------LIKASGKLTLLLKMLKKLKSSGH---- 632 (696)
T ss_pred -----------------------------------------------------HHHHHHHHHHHHHHHHHHHhcch----
Confidence 01147899999999999988877
Q ss_pred hhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEE
Q 001834 829 VEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVM 908 (1008)
Q Consensus 829 ~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VL 908 (1008)
||+||+|++.++|+|+.++...+ .|.++||..+..+|+.+|.+||..++.-.+|
T Consensus 633 -------------------------rvl~~~q~~~~ldlled~~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~~cf 686 (696)
T KOG0383|consen 633 -------------------------RVLIFSQMIHMLDLLEDYLTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQFCF 686 (696)
T ss_pred -------------------------hhHHHHHHHHHHHHhHHHHhccC-cceeccCCccchhhhhhccccCCCCccceEE
Confidence 99999999999999999999999 9999999999999999999999777668999
Q ss_pred EEecCCCccc
Q 001834 909 LMSLKAGNLG 918 (1008)
Q Consensus 909 LiS~kagg~G 918 (1008)
|+|++|||.|
T Consensus 687 llstra~g~g 696 (696)
T KOG0383|consen 687 LLSTRAGGLG 696 (696)
T ss_pred EeecccccCC
Confidence 9999999988
No 22
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.7e-36 Score=360.12 Aligned_cols=353 Identities=18% Similarity=0.244 Sum_probs=252.9
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCc
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNA 351 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (1008)
.+.|||||.+|+.||+... ..++|||...||+|||+++|+++...
T Consensus 253 ~~~LRpYQ~eAl~~~~~~g----r~r~GIIvLPtGaGKTlvai~aa~~l------------------------------- 297 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGNG----RARSGIIVLPCGAGKSLVGVTAACTV------------------------------- 297 (732)
T ss_pred CCCcCHHHHHHHHHHHhcC----CCCCcEEEeCCCCChHHHHHHHHHHh-------------------------------
Confidence 4579999999999997431 23579999999999999999888542
Q ss_pred ccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChh-hHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCcccc
Q 001834 352 GLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL 430 (1008)
Q Consensus 352 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-Ll~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l 430 (1008)
.+++|||||.+ ++.||.+||.+|+... ...+..|.|..+... .
T Consensus 298 --------------------------------~k~tLILvps~~Lv~QW~~ef~~~~~l~-~~~I~~~tg~~k~~~---~ 341 (732)
T TIGR00603 298 --------------------------------KKSCLVLCTSAVSVEQWKQQFKMWSTID-DSQICRFTSDAKERF---H 341 (732)
T ss_pred --------------------------------CCCEEEEeCcHHHHHHHHHHHHHhcCCC-CceEEEEecCccccc---c
Confidence 13499999977 5899999999997432 456777887654331 2
Q ss_pred CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccc
Q 001834 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (1008)
Q Consensus 431 ~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~ 510 (1008)
...+|+|+||+++.+...+.... ......|...
T Consensus 342 ~~~~VvVtTYq~l~~~~~r~~~~-----------------------------------------------~~~l~~l~~~ 374 (732)
T TIGR00603 342 GEAGVVVSTYSMVAHTGKRSYES-----------------------------------------------EKVMEWLTNR 374 (732)
T ss_pred cCCcEEEEEHHHhhcccccchhh-----------------------------------------------hHHHHHhccc
Confidence 35789999999987542210000 0000114456
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHH-ccCCcchhHHHHHHcccCcccCchh
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFL-KYDPYAVYKSFYSTIKIPISRNSLH 589 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL-~~~~~~~~~~F~~~~~~pi~~~~~~ 589 (1008)
.|++||+||||++.+ ....+.+..+++++||+|||||+.+. +.+..+.+| +|..|.. .|.+
T Consensus 375 ~~gLII~DEvH~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye~--~~~e------------ 436 (732)
T TIGR00603 375 EWGLILLDEVHVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYEA--NWME------------ 436 (732)
T ss_pred cCCEEEEEccccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeeec--CHHH------------
Confidence 799999999999964 34445667789999999999999875 333334443 4432211 0100
Q ss_pred HHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHHHH
Q 001834 590 GYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANILLM 669 (1008)
Q Consensus 590 ~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il~~ 669 (1008)
+++ .| -|.+.....++|+|++++...|...... . ..+
T Consensus 437 -------Li~------------~G----~LA~~~~~ev~v~~t~~~~~~yl~~~~~---------------~---k~~-- 473 (732)
T TIGR00603 437 -------LQK------------KG----FIANVQCAEVWCPMTPEFYREYLRENSR---------------K---RML-- 473 (732)
T ss_pred -------HHh------------CC----ccccceEEEEEecCCHHHHHHHHHhcch---------------h---hhH--
Confidence 000 11 4666667789999998765555321000 0 000
Q ss_pred HHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhhh
Q 001834 670 LLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYI 749 (1008)
Q Consensus 670 l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~ 749 (1008)
| .+
T Consensus 474 ---l--~~------------------------------------------------------------------------ 476 (732)
T TIGR00603 474 ---L--YV------------------------------------------------------------------------ 476 (732)
T ss_pred ---H--hh------------------------------------------------------------------------
Confidence 0 00
Q ss_pred cCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchh
Q 001834 750 TGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIV 829 (1008)
Q Consensus 750 ~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~ 829 (1008)
....|+.++..++..+...+.
T Consensus 477 ------------------------------------------------------~np~K~~~~~~Li~~he~~g~----- 497 (732)
T TIGR00603 477 ------------------------------------------------------MNPNKFRACQFLIRFHEQRGD----- 497 (732)
T ss_pred ------------------------------------------------------hChHHHHHHHHHHHHHhhcCC-----
Confidence 013588888887776543433
Q ss_pred hhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEE
Q 001834 830 EIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVML 909 (1008)
Q Consensus 830 ~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLL 909 (1008)
|+||||++...++.+...| +. ..|+|.|+..+|.+++++|+.++. +++|+
T Consensus 498 ------------------------kiLVF~~~~~~l~~~a~~L---~~--~~I~G~ts~~ER~~il~~Fr~~~~-i~vLv 547 (732)
T TIGR00603 498 ------------------------KIIVFSDNVFALKEYAIKL---GK--PFIYGPTSQQERMQILQNFQHNPK-VNTIF 547 (732)
T ss_pred ------------------------eEEEEeCCHHHHHHHHHHc---CC--ceEECCCCHHHHHHHHHHHHhCCC-ccEEE
Confidence 9999999999988888877 33 458999999999999999987654 78888
Q ss_pred EecCCCccccccccCCEEEEecCCC-CCChhhHHHHhhhhcCCcc-----cEEEEEEEeCCCHHHHH
Q 001834 910 MSLKAGNLGLNMVAASHVILLDLWW-NPTTEDQAVDRAHRIGQTR-----PVTVTRLTIRDTVEDRI 970 (1008)
Q Consensus 910 iS~kagg~GLNL~~A~~VI~~Dp~W-Np~~e~QAigR~~RiGQ~k-----~V~V~rlv~~~TiEe~I 970 (1008)
+| ++|++|+||+.|++||++++++ ++..+.||+||+.|.+..+ +.++|.|++++|.|+..
T Consensus 548 ~S-kVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~lVs~dT~E~~~ 613 (732)
T TIGR00603 548 LS-KVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSLVSKDTQEMYY 613 (732)
T ss_pred Ee-cccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEEecCCchHHHH
Confidence 76 9999999999999999999986 9999999999999999764 38999999999999987
No 23
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=5.7e-32 Score=339.86 Aligned_cols=144 Identities=20% Similarity=0.235 Sum_probs=125.4
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
..+|++.|.++|.+..... ++.|+||||++..+++.|...|...|+.+..++|
T Consensus 345 ~~pK~~~L~~il~~~~~~~---------------------------~~~kvlIF~~~~~t~~~L~~~L~~~~~~~~~~~g 397 (773)
T PRK13766 345 EHPKLEKLREIVKEQLGKN---------------------------PDSRIIVFTQYRDTAEKIVDLLEKEGIKAVRFVG 397 (773)
T ss_pred CChHHHHHHHHHHHHHhcC---------------------------CCCeEEEEeCcHHHHHHHHHHHHhCCCceEEEEc
Confidence 4689999999998876422 2349999999999999999999999999999998
Q ss_pred C--------CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEE
Q 001834 885 T--------MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 885 s--------~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
. ++..+|.+++++|+++. ..||+ +|.++++|+|++.+++||+|||+||+..+.|++||++|.|+ +.
T Consensus 398 ~~~~~~~~~~~~~~r~~~~~~F~~g~--~~vLv-aT~~~~eGldi~~~~~VI~yd~~~s~~r~iQR~GR~gR~~~---~~ 471 (773)
T PRK13766 398 QASKDGDKGMSQKEQIEILDKFRAGE--FNVLV-STSVAEEGLDIPSVDLVIFYEPVPSEIRSIQRKGRTGRQEE---GR 471 (773)
T ss_pred cccccccCCCCHHHHHHHHHHHHcCC--CCEEE-ECChhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccCcCCC---CE
Confidence 7 88899999999999875 67776 66899999999999999999999999999998888888765 67
Q ss_pred EEEEEeCCCHHHHHHHHHHHHHHHH
Q 001834 957 VTRLTIRDTVEDRILKLQDDKRKMV 981 (1008)
Q Consensus 957 V~rlv~~~TiEe~I~~lq~~K~~l~ 981 (1008)
||.|+.++|+||.++....+|.+.+
T Consensus 472 v~~l~~~~t~ee~~y~~~~~ke~~~ 496 (773)
T PRK13766 472 VVVLIAKGTRDEAYYWSSRRKEKKM 496 (773)
T ss_pred EEEEEeCCChHHHHHHHhhHHHHHH
Confidence 8999999999999887766655544
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.95 E-value=2.4e-25 Score=247.20 Aligned_cols=462 Identities=19% Similarity=0.183 Sum_probs=287.0
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcc
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (1008)
+.-|.||..-++-.+.+ ..+++-.+|||||+.|+.+|+.....
T Consensus 14 ie~R~YQ~~i~a~al~~--------NtLvvlPTGLGKT~IA~~V~~~~l~~----------------------------- 56 (542)
T COG1111 14 IEPRLYQLNIAAKALFK--------NTLVVLPTGLGKTFIAAMVIANRLRW----------------------------- 56 (542)
T ss_pred ccHHHHHHHHHHHHhhc--------CeEEEecCCccHHHHHHHHHHHHHHh-----------------------------
Confidence 46789999988877754 26999999999999997777642211
Q ss_pred cccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcCh-hhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC-Ccccc
Q 001834 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTK-DPVEL 430 (1008)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~-~~~~l 430 (1008)
.+ +.+|+++|+ .|+.|-.+-+.+.+.-. ...+..+.|.-+.. ....+
T Consensus 57 -----------------------------~~-~kvlfLAPTKPLV~Qh~~~~~~v~~ip-~~~i~~ltGev~p~~R~~~w 105 (542)
T COG1111 57 -----------------------------FG-GKVLFLAPTKPLVLQHAEFCRKVTGIP-EDEIAALTGEVRPEEREELW 105 (542)
T ss_pred -----------------------------cC-CeEEEecCCchHHHHHHHHHHHHhCCC-hhheeeecCCCChHHHHHHH
Confidence 11 258999995 59999999999887643 56788888877654 33456
Q ss_pred CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccc
Q 001834 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (1008)
Q Consensus 431 ~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~ 510 (1008)
.+..|++.|.+++.+++.. +.+..-
T Consensus 106 ~~~kVfvaTPQvveNDl~~-------------------------------------------------------Grid~~ 130 (542)
T COG1111 106 AKKKVFVATPQVVENDLKA-------------------------------------------------------GRIDLD 130 (542)
T ss_pred hhCCEEEeccHHHHhHHhc-------------------------------------------------------CccChH
Confidence 7889999999999987532 224455
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---ccCcEEEEeccCCCCChhHHHHHHHHHccCCcchhHHHHHHcccCcccCc
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPYAVYKSFYSTIKIPISRNS 587 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~~~~~~F~~~~~~pi~~~~ 587 (1008)
.+.+||+||||+.-+..+-+.-+=..+ +..+.++||||| -++.+.+-..+.=|+.+-.
T Consensus 131 dv~~lifDEAHRAvGnyAYv~Va~~y~~~~k~~~ilgLTASP-Gs~~ekI~eV~~nLgIe~v------------------ 191 (542)
T COG1111 131 DVSLLIFDEAHRAVGNYAYVFVAKEYLRSAKNPLILGLTASP-GSDLEKIQEVVENLGIEKV------------------ 191 (542)
T ss_pred HceEEEechhhhccCcchHHHHHHHHHHhccCceEEEEecCC-CCCHHHHHHHHHhCCcceE------------------
Confidence 678999999999876655544333333 233589999999 3344444444444433211
Q ss_pred hhHHHHHHHHHHHhhhhhcccc--ccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcch---
Q 001834 588 LHGYKKLQAVLRAIMLRRTKGT--FIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQN--- 662 (1008)
Q Consensus 588 ~~~~~~L~~ll~~~~lRRtk~~--v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~--- 662 (1008)
. -||-++ |.. .+-++.++.+.|+++++-.++-+.+..-....++.+...|-....
T Consensus 192 --------------e-vrTE~d~DV~~-----Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~ 251 (542)
T COG1111 192 --------------E-VRTEEDPDVRP-----YVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPV 251 (542)
T ss_pred --------------E-EecCCCccHHH-----hhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccCcc
Confidence 1 111111 111 345566777777877776666665555555555554444432211
Q ss_pred -HHHHHHHH-HHHHhhcccc-ccccccc--cccc-ccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCcccccc
Q 001834 663 -YANILLML-LRLRQACDHP-LLVKEYD--FDSV-GKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMC 736 (1008)
Q Consensus 663 -~~~il~~l-~rLRq~c~hP-~l~~~~~--~~~~-~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~C 736 (1008)
...++.+. .++..+.... .+..... .... -.-..|+.....-+.+..++.+++.....-..
T Consensus 252 ~~kdl~~~~~~~~~~a~~~~~~~~~~l~~~a~~~kl~~a~elletqGi~~~~~Yl~~l~e~~~~~~s------------- 318 (542)
T COG1111 252 SKKDLLELRQIRLIMAKNEDSDKFRLLSVLAEAIKLAHALELLETQGIRPFYQYLEKLEEEATKGGS------------- 318 (542)
T ss_pred cHhHHHHHHHHHHHhccCccHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHhcccch-------------
Confidence 11222222 1111111100 0000000 0000 00001112222223344445544321100000
Q ss_pred CcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHH
Q 001834 737 GHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDIL 816 (1008)
Q Consensus 737 gH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL 816 (1008)
.....+-.+..+... +..+. .........+|++.+.++|
T Consensus 319 -----------------------k~a~~l~~d~~~~~a-l~~~~-----------------~~~~~~v~HPKl~~l~eil 357 (542)
T COG1111 319 -----------------------KAAKSLLADPYFKRA-LRLLI-----------------RADESGVEHPKLEKLREIL 357 (542)
T ss_pred -----------------------HHHHHHhcChhhHHH-HHHHH-----------------HhccccCCCccHHHHHHHH
Confidence 000000000000000 00000 0012234679999999999
Q ss_pred HhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEE-EecC--------CCC
Q 001834 817 HTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYR-RLDG--------TMS 887 (1008)
Q Consensus 817 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~-~l~G--------s~s 887 (1008)
.+..+... +.++|||++|+++++.|...|.+.|+... ++-| +|+
T Consensus 358 ke~~~k~~---------------------------~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rFiGQa~r~~~~GMs 410 (542)
T COG1111 358 KEQLEKNG---------------------------DSRVIVFTEYRDTAEEIVNFLKKIGIKARVRFIGQASREGDKGMS 410 (542)
T ss_pred HHHHhcCC---------------------------CceEEEEehhHhHHHHHHHHHHhcCCcceeEEeeccccccccccC
Confidence 99886543 35999999999999999999999988775 5554 599
Q ss_pred HHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 888 LPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 888 ~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
+++..++|++|+++. +.||+ +|..|.+||++...|.||||||.=+|-+..||.||.+|- +.=.||-|+++||-|
T Consensus 411 QkeQ~eiI~~Fr~Ge--~nVLV-aTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR~---r~Grv~vLvt~gtrd 484 (542)
T COG1111 411 QKEQKEIIDQFRKGE--YNVLV-ATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK---RKGRVVVLVTEGTRD 484 (542)
T ss_pred HHHHHHHHHHHhcCC--ceEEE-EcccccccCCCCcccEEEEecCCcHHHHHHHhhCccccC---CCCeEEEEEecCchH
Confidence 999999999999986 78888 679999999999999999999999999999999987664 777888899999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 001834 968 DRILKLQDDKRKMVAS 983 (1008)
Q Consensus 968 e~I~~lq~~K~~l~~~ 983 (1008)
+.-+....+|.+.+..
T Consensus 485 eayy~~s~rke~~m~e 500 (542)
T COG1111 485 EAYYYSSRRKEQKMIE 500 (542)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 9888777766554433
No 25
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.95 E-value=2.3e-25 Score=265.08 Aligned_cols=110 Identities=14% Similarity=0.095 Sum_probs=101.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+..+..++.|.+.|...|+.+..++|+++.++|.++++.|+++. ..|||+|.+..++|+|++..++||+++|.
T Consensus 346 ~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~~--~~vLvaT~~~l~eG~Dip~ld~vIl~~p~ 423 (501)
T PHA02558 346 NTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGGK--GIIIVASYGVFSTGISIKNLHHVIFAHPS 423 (501)
T ss_pred CEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCCC--CeEEEEEcceeccccccccccEEEEecCC
Confidence 8899999999999999999999999999999999999999999998764 67888888999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCccc-EEEEEEEeCCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRP-VTVTRLTIRDT 965 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~-V~V~rlv~~~T 965 (1008)
-+...+.|++||++|.|..|+ +.||.|+-.-.
T Consensus 424 ~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~ 456 (501)
T PHA02558 424 KSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLS 456 (501)
T ss_pred cchhhhhhhhhccccCCCCCceEEEEEeecccc
Confidence 999999999999999998765 89999986443
No 26
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.94 E-value=7.6e-25 Score=255.79 Aligned_cols=367 Identities=21% Similarity=0.226 Sum_probs=259.0
Q ss_pred cccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCC
Q 001834 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (1008)
Q Consensus 271 ~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (1008)
....|||||.+++.-+...... .+.|++.-.+|.|||+.++.+|....
T Consensus 33 ~~~~lr~yQ~~al~a~~~~~~~---~~~gvivlpTGaGKT~va~~~~~~~~----------------------------- 80 (442)
T COG1061 33 FEFELRPYQEEALDALVKNRRT---ERRGVIVLPTGAGKTVVAAEAIAELK----------------------------- 80 (442)
T ss_pred cCCCCcHHHHHHHHHHHhhccc---CCceEEEeCCCCCHHHHHHHHHHHhc-----------------------------
Confidence 3557999999999988864322 24589999999999999998886632
Q ss_pred cccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChh-hHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccc
Q 001834 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVE 429 (1008)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-Ll~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~ 429 (1008)
..+|||||.. |+.||.+.+.+++.. .-.+-.+.|.......
T Consensus 81 ----------------------------------~~~Lvlv~~~~L~~Qw~~~~~~~~~~--~~~~g~~~~~~~~~~~-- 122 (442)
T COG1061 81 ----------------------------------RSTLVLVPTKELLDQWAEALKKFLLL--NDEIGIYGGGEKELEP-- 122 (442)
T ss_pred ----------------------------------CCEEEEECcHHHHHHHHHHHHHhcCC--ccccceecCceeccCC--
Confidence 1199999966 889999888888753 1245556655443222
Q ss_pred cCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCccc
Q 001834 430 LAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (1008)
Q Consensus 430 l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~ 509 (1008)
.+|+|.||+++.+.... ..+..
T Consensus 123 ---~~i~vat~qtl~~~~~l-------------------------------------------------------~~~~~ 144 (442)
T COG1061 123 ---AKVTVATVQTLARRQLL-------------------------------------------------------DEFLG 144 (442)
T ss_pred ---CcEEEEEhHHHhhhhhh-------------------------------------------------------hhhcc
Confidence 57999999999864100 01233
Q ss_pred ceeeEEEEccCcccCCccchHHHHHHhcccCc-EEEEeccCCCCChhHHHHHHHHHccCCcch-hHHHHHHcccCcccCc
Q 001834 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKR-RWCLSGTPIQNSIDDLYSYFRFLKYDPYAV-YKSFYSTIKIPISRNS 587 (1008)
Q Consensus 510 ~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~-r~lLTGTPi~N~l~DL~sll~fL~~~~~~~-~~~F~~~~~~pi~~~~ 587 (1008)
-.|++||+||+|++-..... +.+..+.+.+ ++.|||||....-..+.-++.++++-.|.. +.+
T Consensus 145 ~~~~liI~DE~Hh~~a~~~~--~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~~~~~------------- 209 (442)
T COG1061 145 NEFGLIIFDEVHHLPAPSYR--RILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPIVYEVSLKE------------- 209 (442)
T ss_pred cccCEEEEEccccCCcHHHH--HHHHhhhcccceeeeccCceeecCCchhHHHHhcCCeEeecCHHH-------------
Confidence 36999999999998754433 2334456666 999999998555445555555554322211 111
Q ss_pred hhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcchHHHHH
Q 001834 588 LHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQNYANIL 667 (1008)
Q Consensus 588 ~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~~~~il 667 (1008)
.+.+| .|.|.....+.+.++..+...|................
T Consensus 210 ---------------------li~~g----~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~------------ 252 (442)
T COG1061 210 ---------------------LIDEG----YLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT------------ 252 (442)
T ss_pred ---------------------HHhCC----CccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhh------------
Confidence 01112 57888889999999999999887665433222111000
Q ss_pred HHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCcccchhhhhh
Q 001834 668 LMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASE 747 (1008)
Q Consensus 668 ~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~ 747 (1008)
++. ......
T Consensus 253 -----~~~--------------------------------~~~~~~---------------------------------- 261 (442)
T COG1061 253 -----LRA--------------------------------ENEARR---------------------------------- 261 (442)
T ss_pred -----hhH--------------------------------HHHHHH----------------------------------
Confidence 000 000000
Q ss_pred hhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccc
Q 001834 748 YITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCS 827 (1008)
Q Consensus 748 ~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~ 827 (1008)
.......|+..+..++..+. .+.
T Consensus 262 -----------------------------------------------------~~~~~~~~~~~~~~~~~~~~-~~~--- 284 (442)
T COG1061 262 -----------------------------------------------------IAIASERKIAAVRGLLLKHA-RGD--- 284 (442)
T ss_pred -----------------------------------------------------HhhccHHHHHHHHHHHHHhc-CCC---
Confidence 00012457777777776654 333
Q ss_pred hhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEE
Q 001834 828 IVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITV 907 (1008)
Q Consensus 828 ~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~V 907 (1008)
+++||+........+...|...|+ +..++|.++..+|.++++.|+.+. +.+
T Consensus 285 --------------------------~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR~~il~~fr~g~--~~~ 335 (442)
T COG1061 285 --------------------------KTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEEREAILERFRTGG--IKV 335 (442)
T ss_pred --------------------------cEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHHHHHHHHHHcCC--CCE
Confidence 999999999999999999999988 889999999999999999999876 566
Q ss_pred EEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhc-CCccc--EEEEEEEeCCCHHHHHHHHHH
Q 001834 908 MLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRI-GQTRP--VTVTRLTIRDTVEDRILKLQD 975 (1008)
Q Consensus 908 LLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~Ri-GQ~k~--V~V~rlv~~~TiEe~I~~lq~ 975 (1008)
|+ +.+++.+|++++.|+.+|++.|.=++..+.|++||+.|. ..+.. +..|-++..++.+..+.....
T Consensus 336 lv-~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (442)
T COG1061 336 LV-TVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGEEDIARRRR 405 (442)
T ss_pred EE-EeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccccchhhhhh
Confidence 66 669999999999999999999999999999999999994 44444 778888888888887765554
No 27
>PTZ00110 helicase; Provisional
Probab=99.88 E-value=5.4e-21 Score=229.41 Aligned_cols=106 Identities=17% Similarity=0.232 Sum_probs=96.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
|+|||++....++.|...|...|+....++|+++.++|.++++.|+++. ++||| +|.++++|||+..+++||+||++
T Consensus 379 k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G~--~~ILV-aTdv~~rGIDi~~v~~VI~~d~P 455 (545)
T PTZ00110 379 KILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTGK--SPIMI-ATDVASRGLDVKDVKYVINFDFP 455 (545)
T ss_pred eEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcCC--CcEEE-EcchhhcCCCcccCCEEEEeCCC
Confidence 9999999999999999999999999999999999999999999999876 66665 77999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+++..+.|++||+.|.|.+-. ++.|+..+
T Consensus 456 ~s~~~yvqRiGRtGR~G~~G~--ai~~~~~~ 484 (545)
T PTZ00110 456 NQIEDYVHRIGRTGRAGAKGA--SYTFLTPD 484 (545)
T ss_pred CCHHHHHHHhcccccCCCCce--EEEEECcc
Confidence 999999999999999998644 34556555
No 28
>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]
Probab=99.88 E-value=1.4e-21 Score=214.12 Aligned_cols=357 Identities=22% Similarity=0.283 Sum_probs=242.0
Q ss_pred CCcccCCCCCccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhcccccccc
Q 001834 260 PKVEATLPDGLLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEA 339 (1008)
Q Consensus 260 ~~~~~~~P~~~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~ 339 (1008)
|+...++.|. ..|||||-..+..|.-..+ .|.||+.-.+|.|||+..+..+...+
T Consensus 291 pdl~idLKPs---t~iRpYQEksL~KMFGNgR----ARSGiIVLPCGAGKtLVGvTAa~tik------------------ 345 (776)
T KOG1123|consen 291 PDLDIDLKPS---TQIRPYQEKSLSKMFGNGR----ARSGIIVLPCGAGKTLVGVTAACTIK------------------ 345 (776)
T ss_pred CCCCcCcCcc---cccCchHHHHHHHHhCCCc----ccCceEEEecCCCCceeeeeeeeeec------------------
Confidence 4455555554 3699999999999985433 46799999999999998776554321
Q ss_pred ccCCCCCCCCCcccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhh-HHHHHHHHHHHcCCCCCeEEEEE
Q 001834 340 LNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIY 418 (1008)
Q Consensus 340 ~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sL-l~qW~~Ei~k~~~~~~~l~v~v~ 418 (1008)
+..||+|-.++ +.||..++..|..-. .-.+..+
T Consensus 346 ---------------------------------------------K~clvLcts~VSVeQWkqQfk~wsti~-d~~i~rF 379 (776)
T KOG1123|consen 346 ---------------------------------------------KSCLVLCTSAVSVEQWKQQFKQWSTIQ-DDQICRF 379 (776)
T ss_pred ---------------------------------------------ccEEEEecCccCHHHHHHHHHhhcccC-ccceEEe
Confidence 33799999886 899999999997643 4456666
Q ss_pred eCCCCCCCccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCC
Q 001834 419 HGGSRTKDPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNS 498 (1008)
Q Consensus 419 ~g~~r~~~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~ 498 (1008)
....+...+ ..+.||||||+++..--.+ ..++ ++
T Consensus 380 Tsd~Ke~~~---~~~gvvvsTYsMva~t~kR-----S~ea-ek------------------------------------- 413 (776)
T KOG1123|consen 380 TSDAKERFP---SGAGVVVTTYSMVAYTGKR-----SHEA-EK------------------------------------- 413 (776)
T ss_pred eccccccCC---CCCcEEEEeeehhhhcccc-----cHHH-HH-------------------------------------
Confidence 655544322 4578999999998753111 0000 00
Q ss_pred CcccCCCCcccceeeEEEEccCcccCCccchHHHHHH-hcccCcEEEEeccCCCC--ChhHHHHHHHHH-ccCCcc-hhH
Q 001834 499 SIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACC-SLRAKRRWCLSGTPIQN--SIDDLYSYFRFL-KYDPYA-VYK 573 (1008)
Q Consensus 499 ~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~-~L~a~~r~lLTGTPi~N--~l~DL~sll~fL-~~~~~~-~~~ 573 (1008)
....|....|+++|+||.|.+- .++.+.+. -+++..++.||||-+.. .+.|| +|| +|..|. +|.
T Consensus 414 ----~m~~l~~~EWGllllDEVHvvP---A~MFRRVlsiv~aHcKLGLTATLvREDdKI~DL----NFLIGPKlYEAnWm 482 (776)
T KOG1123|consen 414 ----IMDFLRGREWGLLLLDEVHVVP---AKMFRRVLSIVQAHCKLGLTATLVREDDKITDL----NFLIGPKLYEANWM 482 (776)
T ss_pred ----HHHHHhcCeeeeEEeehhccch---HHHHHHHHHHHHHHhhccceeEEeecccccccc----ceeecchhhhccHH
Confidence 1122667789999999999983 34444444 44788899999998864 45553 444 444332 232
Q ss_pred HHHHHcccCcccCchhHHHHHHHHHHHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHHHHHHHHHHHHHH
Q 001834 574 SFYSTIKIPISRNSLHGYKKLQAVLRAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKKLESDSLKKFKAF 653 (1008)
Q Consensus 574 ~F~~~~~~pi~~~~~~~~~~L~~ll~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~ 653 (1008)
+... +. .+....-.-++|+|+++-...|-.... +.
T Consensus 483 dL~~-----------------------------kG---------hIA~VqCaEVWCpMt~eFy~eYL~~~t--~k----- 517 (776)
T KOG1123|consen 483 DLQK-----------------------------KG---------HIAKVQCAEVWCPMTPEFYREYLRENT--RK----- 517 (776)
T ss_pred HHHh-----------------------------CC---------ceeEEeeeeeecCCCHHHHHHHHhhhh--hh-----
Confidence 2211 11 122333446899999864444422100 00
Q ss_pred hhcCCCcchHHHHHHHHHHHHhhcccccccccccccccccchHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccc
Q 001834 654 ADAGTVNQNYANILLMLLRLRQACDHPLLVKEYDFDSVGKISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVV 733 (1008)
Q Consensus 654 ~~~g~~~~~~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~ 733 (1008)
|++ |.
T Consensus 518 --------------------r~l-----Ly-------------------------------------------------- 522 (776)
T KOG1123|consen 518 --------------------RML-----LY-------------------------------------------------- 522 (776)
T ss_pred --------------------hhe-----ee--------------------------------------------------
Confidence 000 00
Q ss_pred cccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccccccccCCCCCCCCCCCccccccCCcCccccchhHHHHH
Q 001834 734 TMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVL 813 (1008)
Q Consensus 734 t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~ 813 (1008)
.-...|++++.
T Consensus 523 ---------------------------------------------------------------------vMNP~KFraCq 533 (776)
T KOG1123|consen 523 ---------------------------------------------------------------------VMNPNKFRACQ 533 (776)
T ss_pred ---------------------------------------------------------------------ecCcchhHHHH
Confidence 00245777777
Q ss_pred HHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHH
Q 001834 814 DILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDR 893 (1008)
Q Consensus 814 ~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~ 893 (1008)
=+|+-+-..+. |+||||...-.|....-.| |-+ .|.|.+++.+|.+
T Consensus 534 fLI~~HE~RgD-----------------------------KiIVFsDnvfALk~YAikl---~Kp--fIYG~Tsq~ERm~ 579 (776)
T KOG1123|consen 534 FLIKFHERRGD-----------------------------KIIVFSDNVFALKEYAIKL---GKP--FIYGPTSQNERMK 579 (776)
T ss_pred HHHHHHHhcCC-----------------------------eEEEEeccHHHHHHHHHHc---CCc--eEECCCchhHHHH
Confidence 77777766555 9999998765554444333 333 4789999999999
Q ss_pred HHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCC-ChhhHHHHhhhhcCCc----ccEEEEEEEeCCCHHH
Q 001834 894 AVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNP-TTEDQAVDRAHRIGQT----RPVTVTRLTIRDTVED 968 (1008)
Q Consensus 894 ~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp-~~e~QAigR~~RiGQ~----k~V~V~rlv~~~TiEe 968 (1008)
++++|+.++. +.-+++| ++|.+.++|+.|+.+|-+....-. ..+.||.||+-|--.. -+++.|-|+.+||.|-
T Consensus 580 ILqnFq~n~~-vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSLVS~DTqEM 657 (776)
T KOG1123|consen 580 ILQNFQTNPK-VNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSLVSKDTQEM 657 (776)
T ss_pred HHHhcccCCc-cceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeeeeecchHHH
Confidence 9999999987 7766767 999999999999999999887654 4778999999997633 2489999999999885
Q ss_pred H
Q 001834 969 R 969 (1008)
Q Consensus 969 ~ 969 (1008)
.
T Consensus 658 ~ 658 (776)
T KOG1123|consen 658 Y 658 (776)
T ss_pred H
Confidence 4
No 29
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.87 E-value=7.6e-20 Score=215.02 Aligned_cols=147 Identities=22% Similarity=0.245 Sum_probs=112.4
Q ss_pred ccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHh-c--CCeEE
Q 001834 804 YISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQ-H--CIQYR 880 (1008)
Q Consensus 804 ~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~-~--gi~~~ 880 (1008)
...+|+..+.++|.+...... ..++|||+.++..++.|..+|.. + |++..
T Consensus 392 ~~npkle~l~~~l~e~f~~~~---------------------------dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~ 444 (746)
T KOG0354|consen 392 KENPKLEKLVEILVEQFEQNP---------------------------DSRTIIFVETRESALALKKWLLQLHELGIKAE 444 (746)
T ss_pred ccChhHHHHHHHHHHHhhcCC---------------------------CccEEEEEehHHHHHHHHHHHHhhhhcccccc
Confidence 468999999999999887443 44999999999999999999883 2 45544
Q ss_pred EecC--------CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCc
Q 001834 881 RLDG--------TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 881 ~l~G--------s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~ 952 (1008)
.+.| +|++.+..++++.|++|. +.||+ +|.+|.|||+...||-||.||..-||..+.||.|| +| +
T Consensus 445 ~fiGq~~s~~~~gmtqk~Q~evl~~Fr~G~--~NvLV-ATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR-gR---a 517 (746)
T KOG0354|consen 445 IFIGQGKSTQSTGMTQKEQKEVLDKFRDGE--INVLV-ATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GR---A 517 (746)
T ss_pred eeeeccccccccccCHHHHHHHHHHHhCCC--ccEEE-EecchhccCCcccccEEEEecCCccHHHHHHHhcc-cc---c
Confidence 4444 688899999999999986 78877 56899999999999999999999999999999999 55 4
Q ss_pred ccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhh
Q 001834 953 RPVTVTRLTIRDTVEDRILKLQDDKRKMVASAF 985 (1008)
Q Consensus 953 k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~ 985 (1008)
+.=+++-+.. +.-+-.....+..|+.+....+
T Consensus 518 ~ns~~vll~t-~~~~~~~E~~~~~~e~lm~~~i 549 (746)
T KOG0354|consen 518 RNSKCVLLTT-GSEVIEFERNNLAKEKLMNQTI 549 (746)
T ss_pred cCCeEEEEEc-chhHHHHHHHHHhHHHHHHHHH
Confidence 4444444444 4333333334555555555544
No 30
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.86 E-value=8.7e-20 Score=216.26 Aligned_cols=106 Identities=21% Similarity=0.315 Sum_probs=96.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++||||+....++.+...|.+.|+.+..++|++++.+|+++++.|.++. ++||| +|++++.|||+..+++||+||++
T Consensus 244 ~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g~--~~vLV-aTdv~~rGiDi~~v~~VI~~d~p 320 (460)
T PRK11776 244 SCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANRS--CSVLV-ATDVAARGLDIKALEAVINYELA 320 (460)
T ss_pred ceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcCC--CcEEE-EecccccccchhcCCeEEEecCC
Confidence 8999999999999999999999999999999999999999999999876 67777 56999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
.++..+.|++||+.|.|+.-. .+.|+..+
T Consensus 321 ~~~~~yiqR~GRtGR~g~~G~--ai~l~~~~ 349 (460)
T PRK11776 321 RDPEVHVHRIGRTGRAGSKGL--ALSLVAPE 349 (460)
T ss_pred CCHhHhhhhcccccCCCCcce--EEEEEchh
Confidence 999999999999999997643 44455554
No 31
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.86 E-value=3.6e-20 Score=219.52 Aligned_cols=102 Identities=23% Similarity=0.238 Sum_probs=94.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+......+.+...|...|+.+..++|+++.++|.++++.|..+. ++||+ +|.+.|.|+|+...++||++++|
T Consensus 228 ~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g~--~~vLV-aT~~~~~GID~p~V~~VI~~~~P 304 (470)
T TIGR00614 228 SGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRDE--IQVVV-ATVAFGMGINKPDVRFVIHYSLP 304 (470)
T ss_pred ceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcCC--CcEEE-EechhhccCCcccceEEEEeCCC
Confidence 6799999999999999999999999999999999999999999999775 78887 55899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
.++..+.|++||++|.|+.....++
T Consensus 305 ~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 305 KSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred CCHHHHHhhhcCcCCCCCCceEEEE
Confidence 9999999999999999998765543
No 32
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.85 E-value=1.2e-19 Score=213.71 Aligned_cols=101 Identities=24% Similarity=0.348 Sum_probs=93.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+.....++.|...|...|+....++|.++..+|..+++.|+++. ++||+ +|.+++.|+|+..+++||+||++
T Consensus 247 ~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G~--~~vLV-aTd~~~~GiDip~v~~VI~~d~p 323 (434)
T PRK11192 247 RSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDGR--VNVLV-ATDVAARGIDIDDVSHVINFDMP 323 (434)
T ss_pred eEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCCC--CcEEE-EccccccCccCCCCCEEEEECCC
Confidence 8999999999999999999999999999999999999999999999875 77777 55999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V 957 (1008)
+++..+.|++||+.|.|..-.+.+
T Consensus 324 ~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 324 RSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred CCHHHHhhcccccccCCCCceEEE
Confidence 999999999999999998755433
No 33
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.84 E-value=1.2e-19 Score=214.25 Aligned_cols=106 Identities=25% Similarity=0.333 Sum_probs=95.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+......+.|...|...|+....++|.++.++|.++++.|+++. ++||| +|++++.|||+...++||+||++
T Consensus 247 ~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g~--~~iLV-aTdv~~rGiDip~v~~VI~~~~P 323 (456)
T PRK10590 247 QVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSGD--IRVLV-ATDIAARGLDIEELPHVVNYELP 323 (456)
T ss_pred cEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcCC--CcEEE-EccHHhcCCCcccCCEEEEeCCC
Confidence 8999999999999999999999999999999999999999999999875 78877 66899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
.++..+.|++||+.|.|++-.+.+ |+..+
T Consensus 324 ~~~~~yvqR~GRaGR~g~~G~ai~--l~~~~ 352 (456)
T PRK10590 324 NVPEDYVHRIGRTGRAAATGEALS--LVCVD 352 (456)
T ss_pred CCHHHhhhhccccccCCCCeeEEE--EecHH
Confidence 999999999999999998754333 44443
No 34
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.84 E-value=2e-19 Score=215.23 Aligned_cols=106 Identities=19% Similarity=0.299 Sum_probs=94.8
Q ss_pred eEEEEeccHHHHHHHHHHHHh-cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ-HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL 932 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~-~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp 932 (1008)
++|||+.....++.|...|.. .|+.+..++|+++.++|..+++.|.++. ++||+ +|.+++.|||+..+++||+||+
T Consensus 369 ~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G~--~~ILV-aTdvl~rGiDip~v~~VI~~d~ 445 (518)
T PLN00206 369 PAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVGE--VPVIV-ATGVLGRGVDLLRVRQVIIFDM 445 (518)
T ss_pred CEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCCC--CCEEE-EecHhhccCCcccCCEEEEeCC
Confidence 899999999999999999975 5999999999999999999999999886 67776 6699999999999999999999
Q ss_pred CCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 933 WWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 933 ~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
|.++..+.|++||++|.|..- .++.|+..+
T Consensus 446 P~s~~~yihRiGRaGR~g~~G--~ai~f~~~~ 475 (518)
T PLN00206 446 PNTIKEYIHQIGRASRMGEKG--TAIVFVNEE 475 (518)
T ss_pred CCCHHHHHHhccccccCCCCe--EEEEEEchh
Confidence 999999999999999999753 344456544
No 35
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=2.2e-19 Score=210.55 Aligned_cols=105 Identities=18% Similarity=0.261 Sum_probs=96.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+.....++.|...|...|+.+..++|.++.++|.++++.|+++. ++||+ +|.+++.|||+..+++||+||+|
T Consensus 257 ~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g~--~~vLV-aTdv~~rGiDip~v~~VI~~d~P 333 (423)
T PRK04837 257 RAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRGD--LDILV-ATDVAARGLHIPAVTHVFNYDLP 333 (423)
T ss_pred eEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcCC--CcEEE-EechhhcCCCccccCEEEEeCCC
Confidence 9999999999999999999999999999999999999999999999886 77777 55999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
+++..+.|++||+.|.|+.-. ++.|+.+
T Consensus 334 ~s~~~yiqR~GR~gR~G~~G~--ai~~~~~ 361 (423)
T PRK04837 334 DDCEDYVHRIGRTGRAGASGH--SISLACE 361 (423)
T ss_pred CchhheEeccccccCCCCCee--EEEEeCH
Confidence 999999999999999997643 3445554
No 36
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.84 E-value=3.1e-19 Score=212.23 Aligned_cols=106 Identities=21% Similarity=0.329 Sum_probs=96.1
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
|+|||++....++.|...|...|+.+..++|.++.++|.++++.|+++. ++||+ +|.+++.|||+..+++||+||++
T Consensus 337 ~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G~--~~vLv-aT~~l~~GIDi~~v~~VI~~~~P 413 (475)
T PRK01297 337 RVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREGK--IRVLV-ATDVAGRGIHIDGISHVINFTLP 413 (475)
T ss_pred eEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCCC--CcEEE-EccccccCCcccCCCEEEEeCCC
Confidence 9999999999999999999999999999999999999999999999886 77777 66999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+++..+.|++||++|.|+.-. ++.|+..+
T Consensus 414 ~s~~~y~Qr~GRaGR~g~~g~--~i~~~~~~ 442 (475)
T PRK01297 414 EDPDDYVHRIGRTGRAGASGV--SISFAGED 442 (475)
T ss_pred CCHHHHHHhhCccCCCCCCce--EEEEecHH
Confidence 999999999999999998643 33344443
No 37
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.83 E-value=5e-19 Score=213.20 Aligned_cols=105 Identities=16% Similarity=0.329 Sum_probs=95.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+.....++.|...|...++.+..++|.++..+|.++++.|+++. ++||| +|++++.|||+...++||+||++
T Consensus 259 k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G~--~~VLV-aTdv~arGIDip~V~~VInyd~P 335 (572)
T PRK04537 259 RTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKGQ--LEILV-ATDVAARGLHIDGVKYVYNYDLP 335 (572)
T ss_pred cEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcCC--CeEEE-EehhhhcCCCccCCCEEEEcCCC
Confidence 8999999999999999999999999999999999999999999999875 77877 55999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
|++..+.|++||+.|.|..-.+ +.|+..
T Consensus 336 ~s~~~yvqRiGRaGR~G~~G~a--i~~~~~ 363 (572)
T PRK04537 336 FDAEDYVHRIGRTARLGEEGDA--ISFACE 363 (572)
T ss_pred CCHHHHhhhhcccccCCCCceE--EEEecH
Confidence 9999999999999999987543 334543
No 38
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.83 E-value=5.7e-19 Score=213.96 Aligned_cols=98 Identities=17% Similarity=0.307 Sum_probs=92.1
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++||||......+.|...|...|+....++|.+++.+|.++++.|..+. ++||| +|++++.|||+...++||+||++
T Consensus 247 ~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G~--~~ILV-ATdv~arGIDip~V~~VI~~d~P 323 (629)
T PRK11634 247 AAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDGR--LDILI-ATDVAARGLDVERISLVVNYDIP 323 (629)
T ss_pred CEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCCC--CCEEE-EcchHhcCCCcccCCEEEEeCCC
Confidence 8999999999999999999999999999999999999999999999875 67666 77999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCccc
Q 001834 934 WNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.++..+.|++||+.|.|..-.
T Consensus 324 ~~~e~yvqRiGRtGRaGr~G~ 344 (629)
T PRK11634 324 MDSESYVHRIGRTGRAGRAGR 344 (629)
T ss_pred CCHHHHHHHhccccCCCCcce
Confidence 999999999999999997654
No 39
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.83 E-value=3.8e-19 Score=216.42 Aligned_cols=98 Identities=17% Similarity=0.215 Sum_probs=92.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++||||......+.+...|...|+.+..++|+++.++|.++++.|..+. ++||+ +|.+.|.|+|+...++||+||+|
T Consensus 238 ~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g~--~~VLV-aT~a~~~GIDip~V~~VI~~d~P 314 (607)
T PRK11057 238 SGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRDD--LQIVV-ATVAFGMGINKPNVRFVVHFDIP 314 (607)
T ss_pred CEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCCC--CCEEE-EechhhccCCCCCcCEEEEeCCC
Confidence 8899999999999999999999999999999999999999999999875 67777 56899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCccc
Q 001834 934 WNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.+...+.|++||++|.|....
T Consensus 315 ~s~~~y~Qr~GRaGR~G~~~~ 335 (607)
T PRK11057 315 RNIESYYQETGRAGRDGLPAE 335 (607)
T ss_pred CCHHHHHHHhhhccCCCCCce
Confidence 999999999999999997655
No 40
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=99.83 E-value=4.5e-19 Score=216.17 Aligned_cols=100 Identities=21% Similarity=0.242 Sum_probs=93.1
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++||||......+.+...|...|+.+..++|+++.++|..+++.|..+. ++||+ +|.+.|.|+|+..+++||+|+++
T Consensus 226 ~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g~--~~vlV-aT~a~~~GID~p~v~~VI~~~~p 302 (591)
T TIGR01389 226 SGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYDD--VKVMV-ATNAFGMGIDKPNVRFVIHYDMP 302 (591)
T ss_pred CEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcCC--CcEEE-EechhhccCcCCCCCEEEEcCCC
Confidence 8899999999999999999999999999999999999999999999875 67777 66899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
++...+.|++||++|.|+...+.
T Consensus 303 ~s~~~y~Q~~GRaGR~G~~~~~i 325 (591)
T TIGR01389 303 GNLESYYQEAGRAGRDGLPAEAI 325 (591)
T ss_pred CCHHHHhhhhccccCCCCCceEE
Confidence 99999999999999999776543
No 41
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.82 E-value=9.5e-19 Score=213.82 Aligned_cols=79 Identities=13% Similarity=0.182 Sum_probs=69.0
Q ss_pred cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCC-CCChhhHHHHhhhhcCCcc
Q 001834 875 HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWW-NPTTEDQAVDRAHRIGQTR 953 (1008)
Q Consensus 875 ~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~W-Np~~e~QAigR~~RiGQ~k 953 (1008)
.++.+..++|.|+.++|.+++++|.++. .+||+ +|.+.++|+|+..++.||+++++. +.+.+.|++||++|-|..-
T Consensus 481 ~~~~v~~lHG~m~~~eR~~i~~~F~~g~--~~ILV-aT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~~GRvGR~g~~g 557 (630)
T TIGR00643 481 PKYNVGLLHGRMKSDEKEAVMEEFREGE--VDILV-ATTVIEVGVDVPNATVMVIEDAERFGLSQLHQLRGRVGRGDHQS 557 (630)
T ss_pred CCCcEEEEeCCCCHHHHHHHHHHHHcCC--CCEEE-ECceeecCcccCCCcEEEEeCCCcCCHHHHHHHhhhcccCCCCc
Confidence 3678899999999999999999999875 67777 668999999999999999999874 6788999999999998765
Q ss_pred cEE
Q 001834 954 PVT 956 (1008)
Q Consensus 954 ~V~ 956 (1008)
.+.
T Consensus 558 ~~i 560 (630)
T TIGR00643 558 YCL 560 (630)
T ss_pred EEE
Confidence 443
No 42
>PTZ00424 helicase 45; Provisional
Probab=99.82 E-value=1.4e-18 Score=202.63 Aligned_cols=107 Identities=19% Similarity=0.321 Sum_probs=96.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+.....++.+...|...++.+..++|+++.++|..+++.|+++. ++||+ +|.+.++|+|+..+++||+||++
T Consensus 269 ~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g~--~~vLv-aT~~l~~GiDip~v~~VI~~~~p 345 (401)
T PTZ00424 269 QAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSGS--TRVLI-TTDLLARGIDVQQVSLVINYDLP 345 (401)
T ss_pred eEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcCC--CCEEE-EcccccCCcCcccCCEEEEECCC
Confidence 8999999999999999999999999999999999999999999999876 67776 66899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDT 965 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~T 965 (1008)
.++..+.|++||++|.|.. -.++.|+..+.
T Consensus 346 ~s~~~y~qr~GRagR~g~~--G~~i~l~~~~~ 375 (401)
T PTZ00424 346 ASPENYIHRIGRSGRFGRK--GVAINFVTPDD 375 (401)
T ss_pred CCHHHEeecccccccCCCC--ceEEEEEcHHH
Confidence 9999999999999999865 34455665543
No 43
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.81 E-value=2e-18 Score=218.82 Aligned_cols=105 Identities=14% Similarity=0.294 Sum_probs=85.6
Q ss_pred ceEEEEeccHHHHHHHHHHHHhc------CC---eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQH------CI---QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA 923 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~------gi---~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~ 923 (1008)
.|+||||.....++.+...|.+. ++ .+..++|+++ ++.+++++|.++. ...++++.+..++|++...
T Consensus 699 ~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~~--~p~IlVsvdmL~TG~DvP~ 774 (1123)
T PRK11448 699 GKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNER--LPNIVVTVDLLTTGIDVPS 774 (1123)
T ss_pred CcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCCC--CCeEEEEecccccCCCccc
Confidence 49999999999998888877653 22 3456899885 6788999998765 3355668899999999999
Q ss_pred CCEEEEecCCCCCChhhHHHHhhhhcCC---cccEEEEEEE
Q 001834 924 ASHVILLDLWWNPTTEDQAVDRAHRIGQ---TRPVTVTRLT 961 (1008)
Q Consensus 924 A~~VI~~Dp~WNp~~e~QAigR~~RiGQ---~k~V~V~rlv 961 (1008)
.+.||++.|.-++..+.|++||+-|..- +....|+-++
T Consensus 775 v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 775 ICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred ccEEEEecCCCCHHHHHHHHhhhccCCccCCCceEEEEehH
Confidence 9999999999999999999999999854 4446666554
No 44
>TIGR00580 mfd transcription-repair coupling factor (mfd). All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transacribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families.
Probab=99.79 E-value=5.7e-18 Score=211.08 Aligned_cols=105 Identities=11% Similarity=0.108 Sum_probs=90.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
+++||++....++.+...|.+. ++++..++|.|+.++|.+++++|.++. ++||| +|.+.+.|+|+..+++||+++
T Consensus 662 qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~Gk--~~ILV-aT~iie~GIDIp~v~~VIi~~ 738 (926)
T TIGR00580 662 QVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKGE--FQVLV-CTTIIETGIDIPNANTIIIER 738 (926)
T ss_pred eEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcCC--CCEEE-ECChhhcccccccCCEEEEec
Confidence 8999999999999999999985 789999999999999999999999886 67777 668999999999999999999
Q ss_pred CC-CCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 932 LW-WNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 932 p~-WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
++ +..+.+.|++||++|-|+.- ++|-|+..
T Consensus 739 a~~~gls~l~Qr~GRvGR~g~~g--~aill~~~ 769 (926)
T TIGR00580 739 ADKFGLAQLYQLRGRVGRSKKKA--YAYLLYPH 769 (926)
T ss_pred CCCCCHHHHHHHhcCCCCCCCCe--EEEEEECC
Confidence 85 45678899999999998754 34445533
No 45
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.79 E-value=1.7e-17 Score=204.12 Aligned_cols=86 Identities=14% Similarity=0.181 Sum_probs=71.8
Q ss_pred HHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCC-CCChhhHHH
Q 001834 867 LVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWW-NPTTEDQAV 943 (1008)
Q Consensus 867 ~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~W-Np~~e~QAi 943 (1008)
.+.+.|.+. ++++..++|.|+.++|++++++|.++. ++||+ +|.+.++|+|+..++.||+++++. ..+.+.|++
T Consensus 494 ~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g~--~~ILV-aT~vie~GiDip~v~~VIi~~~~r~gls~lhQ~~ 570 (681)
T PRK10917 494 ETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAGE--IDILV-ATTVIEVGVDVPNATVMVIENAERFGLAQLHQLR 570 (681)
T ss_pred HHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcCC--CCEEE-ECcceeeCcccCCCcEEEEeCCCCCCHHHHHHHh
Confidence 344445444 478999999999999999999999875 67776 668999999999999999999974 568899999
Q ss_pred HhhhhcCCcccE
Q 001834 944 DRAHRIGQTRPV 955 (1008)
Q Consensus 944 gR~~RiGQ~k~V 955 (1008)
||++|-|..-.+
T Consensus 571 GRvGR~g~~g~~ 582 (681)
T PRK10917 571 GRVGRGAAQSYC 582 (681)
T ss_pred hcccCCCCceEE
Confidence 999999876443
No 46
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.78 E-value=1.2e-17 Score=191.30 Aligned_cols=118 Identities=21% Similarity=0.267 Sum_probs=105.1
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..|...|.++|...... ...|+||||+...+.+.|...|...+++...|||.
T Consensus 323 ~~K~~~l~~lL~~~~~~----------------------------~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd 374 (519)
T KOG0331|consen 323 TAKLRKLGKLLEDISSD----------------------------SEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGD 374 (519)
T ss_pred HHHHHHHHHHHHHHhcc----------------------------CCCcEEEEecchhhHHHHHHHHHhcCcceeeeccc
Confidence 56777888888777621 12399999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.++.+|+.+++.|.++. ..||+ .|++++.||++...++||+||+|-|...+.+|+||..|-|++=.
T Consensus 375 ~sQ~eR~~~L~~FreG~--~~vLV-ATdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 375 KSQSERDWVLKGFREGK--SPVLV-ATDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred ccHHHHHHHHHhcccCC--cceEE-EcccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCce
Confidence 99999999999999987 56766 66999999999999999999999999999999999999887743
No 47
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.77 E-value=1.1e-17 Score=205.55 Aligned_cols=102 Identities=21% Similarity=0.182 Sum_probs=94.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..||||......+.|...|...|+.+..++|+|+.++|..+++.|..+. ++||+ +|.+.|.|||+...++||+||+|
T Consensus 682 sgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~Ge--i~VLV-ATdAFGMGIDkPDVR~VIHydlP 758 (1195)
T PLN03137 682 CGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKDE--INIIC-ATVAFGMGINKPDVRFVIHHSLP 758 (1195)
T ss_pred CceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcCC--CcEEE-EechhhcCCCccCCcEEEEcCCC
Confidence 6799999999999999999999999999999999999999999999886 78877 56999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
-+...+.|++||++|.|+.-.+..+
T Consensus 759 kSiEsYyQriGRAGRDG~~g~cILl 783 (1195)
T PLN03137 759 KSIEGYHQECGRAGRDGQRSSCVLY 783 (1195)
T ss_pred CCHHHHHhhhcccCCCCCCceEEEE
Confidence 9999999999999999998665444
No 48
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.77 E-value=4.2e-17 Score=207.60 Aligned_cols=100 Identities=14% Similarity=0.131 Sum_probs=88.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
+++||++....++.+...|.+. ++++..++|.|+.++|++++.+|.++. ++||| +|.+.+.|+|+..+++||+.+
T Consensus 811 qv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~Gk--~~VLV-aTdIierGIDIP~v~~VIi~~ 887 (1147)
T PRK10689 811 QVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQR--FNVLV-CTTIIETGIDIPTANTIIIER 887 (1147)
T ss_pred eEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhcC--CCEEE-ECchhhcccccccCCEEEEec
Confidence 8999999999999999999887 788999999999999999999999886 78877 568999999999999999887
Q ss_pred CC-CCCChhhHHHHhhhhcCCcccEE
Q 001834 932 LW-WNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 932 p~-WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
+. |..+.+.|++||++|.|++--++
T Consensus 888 ad~fglaq~~Qr~GRvGR~g~~g~a~ 913 (1147)
T PRK10689 888 ADHFGLAQLHQLRGRVGRSHHQAYAW 913 (1147)
T ss_pred CCCCCHHHHHHHhhccCCCCCceEEE
Confidence 64 67788999999999998875433
No 49
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.72 E-value=9.8e-16 Score=189.45 Aligned_cols=112 Identities=15% Similarity=0.154 Sum_probs=95.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--------CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--------CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS 925 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~ 925 (1008)
++|||++.....+.|...|... +..+..++|++++++|.++.++|.++. ++||+ +|++.+.|||+...+
T Consensus 273 ~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G~--i~vLV-aTd~lerGIDI~~vd 349 (742)
T TIGR03817 273 RTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDGE--LLGVA-TTNALELGVDISGLD 349 (742)
T ss_pred CEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcCC--ceEEE-ECchHhccCCccccc
Confidence 9999999999999999887764 567778999999999999999999886 67766 779999999999999
Q ss_pred EEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHH
Q 001834 926 HVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRI 970 (1008)
Q Consensus 926 ~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I 970 (1008)
+||+||.|-+...+.|++||++|.|+.-- ++.++..+..|..+
T Consensus 350 ~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~ 392 (742)
T TIGR03817 350 AVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYL 392 (742)
T ss_pred EEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHH
Confidence 99999999999999999999999997643 33344445556553
No 50
>PRK02362 ski2-like helicase; Provisional
Probab=99.71 E-value=7.9e-16 Score=192.04 Aligned_cols=82 Identities=22% Similarity=0.090 Sum_probs=67.7
Q ss_pred eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE----ec-----CCCCCChhhHHHHhhhh
Q 001834 878 QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL----LD-----LWWNPTTEDQAVDRAHR 948 (1008)
Q Consensus 878 ~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~----~D-----p~WNp~~e~QAigR~~R 948 (1008)
.+..++|+++..+|..+.+.|+++. ++||+ +|.+.+.|+|+.+...||. || .+.++..+.|++||++|
T Consensus 305 gva~hHagl~~~eR~~ve~~Fr~G~--i~VLv-aT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAGR 381 (737)
T PRK02362 305 GAAFHHAGLSREHRELVEDAFRDRL--IKVIS-STPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAGR 381 (737)
T ss_pred CEEeecCCCCHHHHHHHHHHHHcCC--CeEEE-echhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHhhcCCC
Confidence 5677899999999999999999886 78887 5689999999998877776 77 46677899999999999
Q ss_pred cCCcccEEEEEEEe
Q 001834 949 IGQTRPVTVTRLTI 962 (1008)
Q Consensus 949 iGQ~k~V~V~rlv~ 962 (1008)
.|....=.++-++.
T Consensus 382 ~g~d~~G~~ii~~~ 395 (737)
T PRK02362 382 PGLDPYGEAVLLAK 395 (737)
T ss_pred CCCCCCceEEEEec
Confidence 99876544444443
No 51
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.70 E-value=1.5e-15 Score=191.46 Aligned_cols=102 Identities=16% Similarity=0.148 Sum_probs=89.2
Q ss_pred eEEEEeccHHHHHHHHHHHHhc------CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH------CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHV 927 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V 927 (1008)
++|||++....++.+...|.+. +..+..++|+++.++|..+.+.|+++. ++|++ +|.+.+.|+|+...++|
T Consensus 286 ~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G~--i~vLV-aTs~Le~GIDip~Vd~V 362 (876)
T PRK13767 286 TTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRGE--LKVVV-SSTSLELGIDIGYIDLV 362 (876)
T ss_pred CEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcCC--CeEEE-ECChHHhcCCCCCCcEE
Confidence 8999999999999999988873 467888999999999999999999886 67777 56899999999999999
Q ss_pred EEecCCCCCChhhHHHHhhhhc-CCcccEEEE
Q 001834 928 ILLDLWWNPTTEDQAVDRAHRI-GQTRPVTVT 958 (1008)
Q Consensus 928 I~~Dp~WNp~~e~QAigR~~Ri-GQ~k~V~V~ 958 (1008)
|++++|.+...+.|++||++|- |+...-.|+
T Consensus 363 I~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii 394 (876)
T PRK13767 363 VLLGSPKSVSRLLQRIGRAGHRLGEVSKGRII 394 (876)
T ss_pred EEeCCCCCHHHHHHhcccCCCCCCCCCcEEEE
Confidence 9999999999999999999986 444444444
No 52
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=6.5e-15 Score=175.46 Aligned_cols=105 Identities=25% Similarity=0.430 Sum_probs=95.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||+.-...++.|...|...|+.+..|+|++++.+|.++++.|+++. .+|||++ ++++.||++...++||+||++
T Consensus 275 ~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g~--~~vLVaT-DvaaRGiDi~~v~~VinyD~p 351 (513)
T COG0513 275 RVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDGE--LRVLVAT-DVAARGLDIPDVSHVINYDLP 351 (513)
T ss_pred eEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcCC--CCEEEEe-chhhccCCccccceeEEccCC
Confidence 7999999999999999999999999999999999999999999999776 7888855 999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
.++..+.+|+||..|.|.+= ..+.|+..
T Consensus 352 ~~~e~yvHRiGRTgRaG~~G--~ai~fv~~ 379 (513)
T COG0513 352 LDPEDYVHRIGRTGRAGRKG--VAISFVTE 379 (513)
T ss_pred CCHHHheeccCccccCCCCC--eEEEEeCc
Confidence 99999999999999999442 44445554
No 53
>PRK01172 ski2-like helicase; Provisional
Probab=99.68 E-value=5.3e-15 Score=183.32 Aligned_cols=72 Identities=22% Similarity=0.185 Sum_probs=60.2
Q ss_pred EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC---------CCCChhhHHHHhhhhc
Q 001834 879 YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW---------WNPTTEDQAVDRAHRI 949 (1008)
Q Consensus 879 ~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~---------WNp~~e~QAigR~~Ri 949 (1008)
+..++|+++.++|..+.+.|+++. ++||+ +|.+.+.|+|+++ .+||++|.. +++..+.|++||++|.
T Consensus 288 v~~~hagl~~~eR~~ve~~f~~g~--i~VLv-aT~~la~Gvnipa-~~VII~~~~~~~~~~~~~~s~~~~~Qm~GRAGR~ 363 (674)
T PRK01172 288 VAFHHAGLSNEQRRFIEEMFRNRY--IKVIV-ATPTLAAGVNLPA-RLVIVRDITRYGNGGIRYLSNMEIKQMIGRAGRP 363 (674)
T ss_pred EEEecCCCCHHHHHHHHHHHHcCC--CeEEE-ecchhhccCCCcc-eEEEEcCceEeCCCCceeCCHHHHHHHhhcCCCC
Confidence 456899999999999999999875 78877 5699999999985 688887753 4566778999999999
Q ss_pred CCccc
Q 001834 950 GQTRP 954 (1008)
Q Consensus 950 GQ~k~ 954 (1008)
|....
T Consensus 364 g~d~~ 368 (674)
T PRK01172 364 GYDQY 368 (674)
T ss_pred CCCCc
Confidence 97655
No 54
>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=99.65 E-value=2e-14 Score=165.13 Aligned_cols=105 Identities=13% Similarity=0.138 Sum_probs=87.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCC--eEEEecCCCCHHHHHH----HHHHhccCcCceEEEEEecCCCccccccccCCEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCI--QYRRLDGTMSLPARDR----AVKDFNTDREQITVMLMSLKAGNLGLNMVAASHV 927 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi--~~~~l~Gs~s~~~R~~----~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V 927 (1008)
++|||++....++.+...|.+.+. .+..++|.++..+|.+ +++.|.++. .+||+ +|.+.+.|+|+ .++.|
T Consensus 224 ~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~~--~~ilv-aT~~~~~GiDi-~~~~v 299 (358)
T TIGR01587 224 KIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKNE--KFVIV-ATQVIEASLDI-SADVM 299 (358)
T ss_pred eEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCCC--CeEEE-ECcchhceecc-CCCEE
Confidence 999999999999999999998876 4889999999999976 488998865 56655 77999999999 58899
Q ss_pred EEecCCCCCChhhHHHHhhhhcCCcc----cEEEEEEEeCC
Q 001834 928 ILLDLWWNPTTEDQAVDRAHRIGQTR----PVTVTRLTIRD 964 (1008)
Q Consensus 928 I~~Dp~WNp~~e~QAigR~~RiGQ~k----~V~V~rlv~~~ 964 (1008)
|.++.+ +..+.|++||++|.|... .|+|+.....+
T Consensus 300 i~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~ 338 (358)
T TIGR01587 300 ITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEG 338 (358)
T ss_pred EEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCC
Confidence 988765 788999999999999864 35555544433
No 55
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=4.5e-15 Score=153.44 Aligned_cols=109 Identities=19% Similarity=0.341 Sum_probs=99.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
+.||||+-....++|.+.++...+.+..++|.|++++|++++++|+.+.+ +||| ++++-+.|++.+..+.||+||+|
T Consensus 268 QavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~S--rvLi-tTDVwaRGiDv~qVslviNYDLP 344 (400)
T KOG0328|consen 268 QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKS--RVLI-TTDVWARGIDVQQVSLVINYDLP 344 (400)
T ss_pred eEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCc--eEEE-EechhhccCCcceeEEEEecCCC
Confidence 78999999999999999999999999999999999999999999999974 7777 77999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
-|+..+..||||.+|+|.+- .+.+|+..+.++
T Consensus 345 ~nre~YIHRIGRSGRFGRkG--vainFVk~~d~~ 376 (400)
T KOG0328|consen 345 NNRELYIHRIGRSGRFGRKG--VAINFVKSDDLR 376 (400)
T ss_pred ccHHHHhhhhccccccCCcc--eEEEEecHHHHH
Confidence 99999999999999999874 455677766443
No 56
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.64 E-value=8.7e-15 Score=157.82 Aligned_cols=120 Identities=23% Similarity=0.225 Sum_probs=105.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
-+||||.-..+.+.+.-.|...|+....++|.|++..|..+++.|+++. ..||+ +|++++.||+.+.+++||+||.|
T Consensus 302 s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~~--r~iLv-~TDVaSRGLDip~Vd~VVNyDiP 378 (476)
T KOG0330|consen 302 SVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAGA--RSILV-CTDVASRGLDIPHVDVVVNYDIP 378 (476)
T ss_pred cEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhccC--CcEEE-ecchhcccCCCCCceEEEecCCC
Confidence 7899999999999999999999999999999999999999999999986 56666 66999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHH--HHHHHHHHHH
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVED--RILKLQDDKR 978 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe--~I~~lq~~K~ 978 (1008)
-+-..|+.|.||..|.| +.-.+..||+.-.||- ||.....+|.
T Consensus 379 ~~skDYIHRvGRtaRaG--rsG~~ItlVtqyDve~~qrIE~~~gkkl 423 (476)
T KOG0330|consen 379 THSKDYIHRVGRTARAG--RSGKAITLVTQYDVELVQRIEHALGKKL 423 (476)
T ss_pred CcHHHHHHHcccccccC--CCcceEEEEehhhhHHHHHHHHHHhcCC
Confidence 99999999999999999 6667778888866663 4444444443
No 57
>PRK00254 ski2-like helicase; Provisional
Probab=99.63 E-value=2.8e-14 Score=177.72 Aligned_cols=85 Identities=14% Similarity=0.024 Sum_probs=65.1
Q ss_pred eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE-------ecCCCC-CChhhHHHHhhhhc
Q 001834 878 QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL-------LDLWWN-PTTEDQAVDRAHRI 949 (1008)
Q Consensus 878 ~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~-------~Dp~WN-p~~e~QAigR~~Ri 949 (1008)
.+..++|+++.++|..+.+.|+++. ++||+ +|.+.+.|+|+.+.+.||. ++.+.- ...+.|++||++|.
T Consensus 297 gv~~hHagl~~~eR~~ve~~F~~G~--i~VLv-aT~tLa~Gvnipa~~vVI~~~~~~~~~~~~~~~~~~~~Qm~GRAGR~ 373 (720)
T PRK00254 297 GVAFHHAGLGRTERVLIEDAFREGL--IKVIT-ATPTLSAGINLPAFRVIIRDTKRYSNFGWEDIPVLEIQQMMGRAGRP 373 (720)
T ss_pred CEEEeCCCCCHHHHHHHHHHHHCCC--CeEEE-eCcHHhhhcCCCceEEEECCceEcCCCCceeCCHHHHHHhhhccCCC
Confidence 5678999999999999999999885 78877 6699999999988777763 222222 23679999999999
Q ss_pred CCcccEEEEEEEeCCC
Q 001834 950 GQTRPVTVTRLTIRDT 965 (1008)
Q Consensus 950 GQ~k~V~V~rlv~~~T 965 (1008)
|....-.++-++..+.
T Consensus 374 ~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 374 KYDEVGEAIIVATTEE 389 (720)
T ss_pred CcCCCceEEEEecCcc
Confidence 8776555555555443
No 58
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.63 E-value=3.9e-14 Score=164.97 Aligned_cols=76 Identities=13% Similarity=0.209 Sum_probs=66.9
Q ss_pred CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC-CCCChhhHHHHhhhhcCCccc
Q 001834 876 CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW-WNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 876 gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~-WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
++.+..++|.|+.+++++++++|+++. +.||+ ||.+..+|+|+++|+.+|++++. +--+...|--||++|=+...-
T Consensus 507 ~~~vgL~HGrm~~~eKd~vM~~Fk~~e--~~ILV-aTTVIEVGVdVPnATvMVIe~AERFGLaQLHQLRGRVGRG~~qSy 583 (677)
T COG1200 507 ELKVGLVHGRMKPAEKDAVMEAFKEGE--IDILV-ATTVIEVGVDVPNATVMVIENAERFGLAQLHQLRGRVGRGDLQSY 583 (677)
T ss_pred cceeEEEecCCChHHHHHHHHHHHcCC--CcEEE-EeeEEEecccCCCCeEEEEechhhhhHHHHHHhccccCCCCcceE
Confidence 456788999999999999999999886 67777 66899999999999999999987 778899999999999765543
No 59
>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=99.62 E-value=6.4e-14 Score=171.92 Aligned_cols=106 Identities=14% Similarity=0.087 Sum_probs=78.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhc-----CCeEEEecCCCCHH---------------------HHHHHHHHhccCcCceEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH-----CIQYRRLDGTMSLP---------------------ARDRAVKDFNTDREQITV 907 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~-----gi~~~~l~Gs~s~~---------------------~R~~~i~~F~~~~~~~~V 907 (1008)
|.+|||.....+..+...|.+. +...+.++|+...+ ....++++|.++.. +++
T Consensus 516 kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~~~-~~i 594 (667)
T TIGR00348 516 KAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKEEN-PKL 594 (667)
T ss_pred ceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCCCC-ceE
Confidence 8899999888888777777554 34456667665433 23478999987543 777
Q ss_pred EEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhc-CCcc-cEEEEEEEe
Q 001834 908 MLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRI-GQTR-PVTVTRLTI 962 (1008)
Q Consensus 908 LLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~Ri-GQ~k-~V~V~rlv~ 962 (1008)
+|+. +...+|.+.+.++++++.-|.-... ..|++||+.|+ +-.| ...|+.|+-
T Consensus 595 lIVv-dmllTGFDaP~l~tLyldKplk~h~-LlQai~R~nR~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 595 LIVV-DMLLTGFDAPILNTLYLDKPLKYHG-LLQAIARTNRIDGKDKTFGLIVDYRG 649 (667)
T ss_pred EEEE-cccccccCCCccceEEEeccccccH-HHHHHHHhccccCCCCCCEEEEECcC
Confidence 7644 8999999999999999999887654 67999999995 4334 466766654
No 60
>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=99.62 E-value=2.4e-14 Score=172.43 Aligned_cols=115 Identities=11% Similarity=0.089 Sum_probs=97.4
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+....+. .+||||......+.|...|.+.|+++..++|
T Consensus 406 ~~~K~~ai~~~i~~~~~~~~-----------------------------pvLIft~s~~~se~ls~~L~~~gi~~~~L~a 456 (762)
T TIGR03714 406 LPEKLMATLEDVKEYHETGQ-----------------------------PVLLITGSVEMSEIYSELLLREGIPHNLLNA 456 (762)
T ss_pred HHHHHHHHHHHHHHHhhCCC-----------------------------CEEEEECcHHHHHHHHHHHHHCCCCEEEecC
Confidence 45799999999988766655 8999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc---------cCCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV---------AASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~---------~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.+...+|..+...|+.+ .|+ ++|..+|.|+++. ..++|+.++++-+. .+.|++||+.|.|..-.
T Consensus 457 ~~~~~E~~ii~~ag~~g----~Vl-IATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r-id~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 457 QNAAKEAQIIAEAGQKG----AVT-VATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSR-VDLQLRGRSGRQGDPGS 529 (762)
T ss_pred CChHHHHHHHHHcCCCC----eEE-EEccccccccCCCCCccccccCCeEEEEecCCCCcH-HHHHhhhcccCCCCcee
Confidence 99887776666655443 455 5889999999999 78999999999665 45999999999998755
No 61
>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=99.59 E-value=1.6e-13 Score=167.01 Aligned_cols=102 Identities=25% Similarity=0.354 Sum_probs=84.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHH-----HHHHHhcc----Cc----CceEEEEEecCCCccccc
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARD-----RAVKDFNT----DR----EQITVMLMSLKAGNLGLN 920 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~-----~~i~~F~~----~~----~~~~VLLiS~kagg~GLN 920 (1008)
++|||++....++.|...|.+.++ ..++|.|++.+|. +++++|.. +. .....+|++|++.+.|||
T Consensus 274 ~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g~~ILVATdVaerGLD 351 (844)
T TIGR02621 274 AILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQGTVYLVCTSAGEVGVN 351 (844)
T ss_pred cEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhccccccccccccccceEEeccchhhhccc
Confidence 899999999999999999999887 8899999999999 78999976 22 001345678899999999
Q ss_pred cccCCEEEEecCCCCCChhhHHHHhhhhcCCccc--EEEEEE
Q 001834 921 MVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRP--VTVTRL 960 (1008)
Q Consensus 921 L~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~--V~V~rl 960 (1008)
+.. ++||+++.++ ..+.||+||++|.|.... ++|+.+
T Consensus 352 Id~-d~VI~d~aP~--esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 352 ISA-DHLVCDLAPF--ESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred CCc-ceEEECCCCH--HHHHHHhcccCCCCCCCCceEEEEee
Confidence 975 9999977664 789999999999999644 455433
No 62
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=99.59 E-value=5.4e-15 Score=143.60 Aligned_cols=120 Identities=28% Similarity=0.428 Sum_probs=107.6
Q ss_pred hhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCC
Q 001834 807 SKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTM 886 (1008)
Q Consensus 807 sKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~ 886 (1008)
.|+..+.+.+......+. ++|||+.....++.+...|.+.++.+..++|++
T Consensus 12 ~k~~~i~~~i~~~~~~~~-----------------------------~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 62 (131)
T cd00079 12 EKLEALLELLKEHLKKGG-----------------------------KVLIFCPSKKMLDELAELLRKPGIKVAALHGDG 62 (131)
T ss_pred HHHHHHHHHHHhcccCCC-----------------------------cEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 699999988887654333 999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEE
Q 001834 887 SLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 887 s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
+..+|..+++.|+++. ..+++ ++.++++|+|++.+++||+++++|++..+.|++||++|.||+..|+++
T Consensus 63 ~~~~~~~~~~~f~~~~--~~ili-~t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 63 SQEEREEVLKDFREGE--IVVLV-ATDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred CHHHHHHHHHHHHcCC--CcEEE-EcChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 9999999999999875 44544 779999999999999999999999999999999999999998877764
No 63
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.58 E-value=4.1e-14 Score=166.58 Aligned_cols=106 Identities=14% Similarity=0.204 Sum_probs=85.1
Q ss_pred ceEEEEeccHHHHHHHHHHHHhc----CCe-EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEE
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQH----CIQ-YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHV 927 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~----gi~-~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V 927 (1008)
.|.||||.....++.+...|.+. +-. +..|+|.. ++=++.|+.|-.... ...+.+|.+.+.+|++...+..+
T Consensus 427 ~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~--~~~q~~Id~f~~ke~-~P~IaitvdlL~TGiDvpev~nl 503 (875)
T COG4096 427 GKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDA--EQAQALIDNFIDKEK-YPRIAITVDLLTTGVDVPEVVNL 503 (875)
T ss_pred CceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccc--hhhHHHHHHHHhcCC-CCceEEehhhhhcCCCchheeee
Confidence 49999999999999999999876 223 45678876 445578899976433 44555588999999999999999
Q ss_pred EEecCCCCCChhhHHHHhhhhc-------CCccc-EEEEEEE
Q 001834 928 ILLDLWWNPTTEDQAVDRAHRI-------GQTRP-VTVTRLT 961 (1008)
Q Consensus 928 I~~Dp~WNp~~e~QAigR~~Ri-------GQ~k~-V~V~rlv 961 (1008)
+|+-+--+-..+.|.+||.-|+ ||.|. .+|+.|+
T Consensus 504 VF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 504 VFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred eehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEhh
Confidence 9999999999999999999996 45554 6666654
No 64
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.57 E-value=3.1e-13 Score=152.74 Aligned_cols=104 Identities=21% Similarity=0.285 Sum_probs=96.3
Q ss_pred CceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 852 PIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 852 ~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
.++++||++-.+.++.|+..|...++++..|+|.-++.+|.+.++.|..+. +.||+ .|.+++.|||.....|||+||
T Consensus 337 ~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g~--~pvlV-aT~VaaRGlDi~~V~hVInyD 413 (482)
T KOG0335|consen 337 WEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNGK--APVLV-ATNVAARGLDIPNVKHVINYD 413 (482)
T ss_pred cceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcCC--cceEE-EehhhhcCCCCCCCceeEEee
Confidence 359999999999999999999999999999999999999999999999987 67877 458999999999999999999
Q ss_pred CCCCCChhhHHHHhhhhcCCcccEEEE
Q 001834 932 LWWNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 932 p~WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
.|-+-..+..||||..|-|+.--.+.+
T Consensus 414 mP~d~d~YvHRIGRTGR~Gn~G~atsf 440 (482)
T KOG0335|consen 414 MPADIDDYVHRIGRTGRVGNGGRATSF 440 (482)
T ss_pred cCcchhhHHHhccccccCCCCceeEEE
Confidence 999999999999999999998665543
No 65
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.57 E-value=8.3e-13 Score=157.56 Aligned_cols=116 Identities=15% Similarity=0.147 Sum_probs=97.0
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.+|++.+......+. .+|||+......+.|...|.+.|+++..|+|
T Consensus 455 ~~~K~~aL~~~i~~~~~~~~-----------------------------pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg 505 (656)
T PRK12898 455 AAAKWAAVAARVRELHAQGR-----------------------------PVLVGTRSVAASERLSALLREAGLPHQVLNA 505 (656)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCEEEeeC
Confidence 35699999999887654444 7999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc---cCC-----EEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV---AAS-----HVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~---~A~-----~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.+ .+|++.+..|...+ ..|+ ++|..+|.|+++. ... |||++|.|-|...+.|++||+.|.|..=.
T Consensus 506 ~~--~~rE~~ii~~ag~~--g~Vl-VATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~G~ 578 (656)
T PRK12898 506 KQ--DAEEAAIVARAGQR--GRIT-VATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDPGS 578 (656)
T ss_pred Cc--HHHHHHHHHHcCCC--CcEE-EEccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCCeE
Confidence 86 46667777776554 3555 5779999999988 343 99999999999999999999999997633
No 66
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.56 E-value=7e-13 Score=161.41 Aligned_cols=116 Identities=12% Similarity=0.109 Sum_probs=99.3
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+......+. ++||||......+.|...|.+.|+++..++|
T Consensus 410 ~~~K~~al~~~i~~~~~~~~-----------------------------pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~ 460 (790)
T PRK09200 410 LDEKYKAVIEEVKERHETGR-----------------------------PVLIGTGSIEQSETFSKLLDEAGIPHNLLNA 460 (790)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCEEEecC
Confidence 35799999999877654444 8999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccc---ccCC-----EEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNM---VAAS-----HVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL---~~A~-----~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.+...++..+...|+.+ .|+| +|..+|.|+++ .... |||++|+|-|+..+.|++||+.|.|..-.
T Consensus 461 ~~~~~e~~~i~~ag~~g----~VlI-ATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~ 533 (790)
T PRK09200 461 KNAAKEAQIIAEAGQKG----AVTV-ATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGS 533 (790)
T ss_pred CccHHHHHHHHHcCCCC----eEEE-EccchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCee
Confidence 99877777666666533 5555 77999999999 4676 99999999999999999999999998844
No 67
>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=99.55 E-value=1.1e-13 Score=165.92 Aligned_cols=115 Identities=16% Similarity=0.151 Sum_probs=103.5
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..|+.++++.+.+....++ .+||||......+.|...|.+.|+++..++|.
T Consensus 388 ~~k~~ai~~~i~~~~~~gr-----------------------------pvLV~t~si~~se~ls~~L~~~gi~~~~Lna~ 438 (745)
T TIGR00963 388 EEKWKAVVDEIKERHAKGQ-----------------------------PVLVGTTSVEKSELLSNLLKERGIPHNVLNAK 438 (745)
T ss_pred HHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC
Confidence 4689999998887777666 89999999999999999999999999999998
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc-------CCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA-------ASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~-------A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
..+|++.+..|...+ ..|+| +|..+|.|+++.. .-|||.++++-|...+.|++||+.|.|..=.
T Consensus 439 --q~~rEa~ii~~ag~~--g~VtI-ATnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~ 509 (745)
T TIGR00963 439 --NHEREAEIIAQAGRK--GAVTI-ATNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGS 509 (745)
T ss_pred --hHHHHHHHHHhcCCC--ceEEE-EeccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcc
Confidence 789999999998776 56776 6699999999887 6799999999999999999999999999854
No 68
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=3.1e-13 Score=149.98 Aligned_cols=105 Identities=18% Similarity=0.226 Sum_probs=91.3
Q ss_pred eEEEEeccHHHHHHHHHHHH----hcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE
Q 001834 854 KSIVFSQWTRMLDLVENSLN----QHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL 929 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~----~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~ 929 (1008)
++|+|+...+....|...|+ ...+.+-.++|..+.+.|.+.+++|+.++ ++|||+| ++++.|+++-..+.||+
T Consensus 431 r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g~--i~vLIcS-D~laRGiDv~~v~~VIN 507 (620)
T KOG0350|consen 431 RTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKGD--INVLICS-DALARGIDVNDVDNVIN 507 (620)
T ss_pred eEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcCC--ceEEEeh-hhhhcCCcccccceEee
Confidence 99999999988877777776 33566777999999999999999999987 8999987 99999999999999999
Q ss_pred ecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 930 LDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 930 ~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
||||-.-..+..|+||..|-||.- ++|.++..
T Consensus 508 Yd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~ 539 (620)
T KOG0350|consen 508 YDPPASDKTYVHRAGRTARAGQDG--YAITLLDK 539 (620)
T ss_pred cCCCchhhHHHHhhcccccccCCc--eEEEeecc
Confidence 999999999999999999999974 33444443
No 69
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.53 E-value=2.8e-13 Score=166.44 Aligned_cols=95 Identities=17% Similarity=0.202 Sum_probs=73.6
Q ss_pred HHHHHHHHHhc--CCeEEEecCCCC--HHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC---CCC-
Q 001834 865 LDLVENSLNQH--CIQYRRLDGTMS--LPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW---WNP- 936 (1008)
Q Consensus 865 ld~L~~~L~~~--gi~~~~l~Gs~s--~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~---WNp- 936 (1008)
.+.+++.|.+. +.++.++|++++ .+++++++++|.++. +.||| .|+..+.|+|+...+.|+++|.+ ..|
T Consensus 439 ~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g~--~~ILV-gT~~iakG~d~p~v~lV~il~aD~~l~~pd 515 (679)
T PRK05580 439 TERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARGE--ADILI-GTQMLAKGHDFPNVTLVGVLDADLGLFSPD 515 (679)
T ss_pred HHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcCC--CCEEE-EChhhccCCCCCCcCEEEEEcCchhccCCc
Confidence 45556666665 778899999986 467999999999875 67777 56889999999999999888765 233
Q ss_pred --------ChhhHHHHhhhhcCCcccEEEEEEEe
Q 001834 937 --------TTEDQAVDRAHRIGQTRPVTVTRLTI 962 (1008)
Q Consensus 937 --------~~e~QAigR~~RiGQ~k~V~V~rlv~ 962 (1008)
..+.|+.||+.|.|..-.|.+..+-.
T Consensus 516 fra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p 549 (679)
T PRK05580 516 FRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHP 549 (679)
T ss_pred cchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCC
Confidence 46899999999988777766655433
No 70
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.53 E-value=5.6e-13 Score=148.56 Aligned_cols=124 Identities=18% Similarity=0.263 Sum_probs=109.5
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
.+.|...|+++|.+... ..+|||.+....+|.|.+.|.+.|+.+++|+|
T Consensus 501 ed~k~kkL~eil~~~~~-------------------------------ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg 549 (673)
T KOG0333|consen 501 EDEKRKKLIEILESNFD-------------------------------PPIIIFVNTKKGADALAKILEKAGYKVTTLHG 549 (673)
T ss_pred chHHHHHHHHHHHhCCC-------------------------------CCEEEEEechhhHHHHHHHHhhccceEEEeeC
Confidence 57899999999987632 28999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+.++++|+.++..|+++. ..||+ .|+++|.||+.+..++||+||..-+-..+..||||.+|-|+.-.+ .-|+++.
T Consensus 550 ~k~qeQRe~aL~~fr~~t--~dIlV-aTDvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gta--iSflt~~ 624 (673)
T KOG0333|consen 550 GKSQEQRENALADFREGT--GDILV-ATDVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGTA--ISFLTPA 624 (673)
T ss_pred CccHHHHHHHHHHHHhcC--CCEEE-EecccccCCCCCccceeeecchhhhHHHHHHHhccccccccCcee--EEEeccc
Confidence 999999999999999876 56777 559999999999999999999999999999999999999987543 3345444
No 71
>PRK09401 reverse gyrase; Reviewed
Probab=99.49 E-value=1.6e-12 Score=166.54 Aligned_cols=89 Identities=10% Similarity=0.094 Sum_probs=76.7
Q ss_pred eEEEEeccHHH---HHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEe---cCCCcccccccc-CCE
Q 001834 854 KSIVFSQWTRM---LDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMS---LKAGNLGLNMVA-ASH 926 (1008)
Q Consensus 854 KvIIFSq~~~~---ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS---~kagg~GLNL~~-A~~ 926 (1008)
.+|||++.... ++.|...|...|+++..++|++ .+.+++|.++. ++|||.+ +++++.||+++. ..+
T Consensus 330 ~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G~--~~VLVatas~tdv~aRGIDiP~~Iry 402 (1176)
T PRK09401 330 GGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEEGE--VDVLVGVASYYGVLVRGIDLPERIRY 402 (1176)
T ss_pred CEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCCC--CCEEEEecCCCCceeecCCCCcceeE
Confidence 78999998766 9999999999999999999999 23469999987 8999986 789999999998 899
Q ss_pred EEEecCCC------CCChhhHHHHhhhhc
Q 001834 927 VILLDLWW------NPTTEDQAVDRAHRI 949 (1008)
Q Consensus 927 VI~~Dp~W------Np~~e~QAigR~~Ri 949 (1008)
|||||.|- .......+++|.-.+
T Consensus 403 VI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 403 AIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred EEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 99999996 555667788887644
No 72
>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=99.49 E-value=1e-13 Score=142.80 Aligned_cols=167 Identities=24% Similarity=0.293 Sum_probs=104.5
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcc
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (1008)
++|||||.+++.-++.........+.++|...+|.|||+++++++.....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~~~~~~~ll~~~tGsGKT~~~~~~~~~l~~------------------------------ 51 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENKKEERRVLLNAPTGSGKTIIALALILELAR------------------------------ 51 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTTSGCSEEEEEESTTSSHHHHHHHHHHHHHC------------------------------
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCCCEEEEECCCCCcChhhhhhhhcccc------------------------------
Confidence 57999999999999875443211355899999999999999988865321
Q ss_pred cccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcCh-hhHHHHHHHHHHHcCCCCCeEEEEEeC--CCC------
Q 001834 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHG--GSR------ 423 (1008)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sLl~qW~~Ei~k~~~~~~~l~v~v~~g--~~r------ 423 (1008)
++|||||. +|+.||.++|..+... ...+..... ...
T Consensus 52 ---------------------------------~~l~~~p~~~l~~Q~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 96 (184)
T PF04851_consen 52 ---------------------------------KVLIVAPNISLLEQWYDEFDDFGSE--KYNFFEKSIKPAYDSKEFIS 96 (184)
T ss_dssp ---------------------------------EEEEEESSHHHHHHHHHHHHHHSTT--SEEEEE--GGGCCE-SEEET
T ss_pred ---------------------------------ceeEecCHHHHHHHHHHHHHHhhhh--hhhhcccccccccccccccc
Confidence 48999996 6899999999877653 222211110 000
Q ss_pred -CC-----CccccCCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCC
Q 001834 424 -TK-----DPVELAKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVN 497 (1008)
Q Consensus 424 -~~-----~~~~l~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~ 497 (1008)
.. ........++++++|+.+........... +...
T Consensus 97 ~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~---------~~~~------------------------------ 137 (184)
T PF04851_consen 97 IQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKID---------ESAR------------------------------ 137 (184)
T ss_dssp TTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH------------------------------------------------
T ss_pred cccccccccccccccccchhhHHHHHHhhcccccccc---------cchh------------------------------
Confidence 00 01223577899999999876421100000 0000
Q ss_pred CCcccCCCCcccceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCC
Q 001834 498 SSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPI 550 (1008)
Q Consensus 498 ~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi 550 (1008)
....+....+++||+||||++.+... ++.+....+.+++.|||||.
T Consensus 138 -----~~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 138 -----RSYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp -----GCHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred -----hhhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 00013345678999999999865432 56666678889999999995
No 73
>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type. subtype of CRISPR/Cas locus, found in several species of Cyanobacteria and several archaeal species. It contains helicase motifs and appears to represent the Cas3 protein of the Cyano subtype of CRISPR/Cas system.
Probab=99.48 E-value=4.5e-12 Score=144.94 Aligned_cols=82 Identities=13% Similarity=0.222 Sum_probs=67.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcC--CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHC--IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~g--i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
|+|||++....++.+...|++.+ +.+..++|.++..+|.+.. . ..|| ++|++.+.|||+.. ++|| ++
T Consensus 274 k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~-------~-~~iL-VaTdv~~rGiDi~~-~~vi-~~ 342 (357)
T TIGR03158 274 RGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM-------Q-FDIL-LGTSTVDVGVDFKR-DWLI-FS 342 (357)
T ss_pred eEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc-------c-CCEE-EEecHHhcccCCCC-ceEE-EC
Confidence 99999999999999999999875 5788899999999987653 1 4555 57799999999976 4666 56
Q ss_pred CCCCCChhhHHHHhhh
Q 001834 932 LWWNPTTEDQAVDRAH 947 (1008)
Q Consensus 932 p~WNp~~e~QAigR~~ 947 (1008)
+-++..+.||+||++
T Consensus 343 -p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 343 -ARDAAAFWQRLGRLG 357 (357)
T ss_pred -CCCHHHHhhhcccCC
Confidence 457889999999863
No 74
>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=99.46 E-value=5.7e-14 Score=123.96 Aligned_cols=78 Identities=33% Similarity=0.512 Sum_probs=72.5
Q ss_pred HHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhc
Q 001834 870 NSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRI 949 (1008)
Q Consensus 870 ~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~Ri 949 (1008)
+.|+..|+.+..++|+++.++|+.+++.|+.+. ..||+ ++.++++|+|++.+++||+++++||+..+.|++||++|.
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~--~~vli-~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~ 77 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGE--IRVLI-ATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGRI 77 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTS--SSEEE-ESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSSTT
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccC--ceEEE-eeccccccccccccccccccccCCCHHHHHHHhhcCCCC
Confidence 368889999999999999999999999999987 45666 569999999999999999999999999999999999999
Q ss_pred C
Q 001834 950 G 950 (1008)
Q Consensus 950 G 950 (1008)
|
T Consensus 78 g 78 (78)
T PF00271_consen 78 G 78 (78)
T ss_dssp T
T ss_pred C
Confidence 8
No 75
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.46 E-value=7.4e-13 Score=150.21 Aligned_cols=106 Identities=21% Similarity=0.241 Sum_probs=95.3
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..||||....-++-+...|...|+.+-.|.|.|++++|..+++.++.-. ++||+ |++..+.|++-..+|-||++|++
T Consensus 274 QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~f~--~rILV-sTDLtaRGIDa~~vNLVVNiD~p 350 (980)
T KOG4284|consen 274 QALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRAFR--VRILV-STDLTARGIDADNVNLVVNIDAP 350 (980)
T ss_pred HHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhhce--EEEEE-ecchhhccCCccccceEEecCCC
Confidence 7799999999999999999999999999999999999999999998765 77777 88999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
-+..++..||||++|+|.. ...|..+..+
T Consensus 351 ~d~eTY~HRIGRAgRFG~~-G~aVT~~~~~ 379 (980)
T KOG4284|consen 351 ADEETYFHRIGRAGRFGAH-GAAVTLLEDE 379 (980)
T ss_pred cchHHHHHHhhhccccccc-ceeEEEeccc
Confidence 9999999999999999975 4445444443
No 76
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.45 E-value=3.8e-11 Score=145.60 Aligned_cols=106 Identities=15% Similarity=0.158 Sum_probs=86.3
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhc-cCcCceEEEEEecCCCccccccccCCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFN-TDREQITVMLMSLKAGNLGLNMVAASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~-~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~ 930 (1008)
++|||+.-...++.+...|.+. ++.+..++|++++. ++.+++|. ++. .+|+| +|..++.||++...++||.+
T Consensus 397 ~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq~--eq~l~~ff~~gk--~kILV-ATdIAERGIDIp~V~~VID~ 471 (675)
T PHA02653 397 SGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPNI--DEILEKVYSSKN--PSIII-STPYLESSVTIRNATHVYDT 471 (675)
T ss_pred cEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCHH--HHHHHHHhccCc--eeEEe-ccChhhccccccCeeEEEEC
Confidence 8999999999999999999987 79999999999864 57778874 443 56655 88999999999999999999
Q ss_pred cCC------------CCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 931 DLW------------WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 931 Dp~------------WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
+.. .+.+...||.||++|. ++=.+|+|+.++...
T Consensus 472 G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~~ 517 (675)
T PHA02653 472 GRVYVPEPFGGKEMFISKSMRTQRKGRVGRV---SPGTYVYFYDLDLLK 517 (675)
T ss_pred CCccCCCcccCcccccCHHHHHHhccCcCCC---CCCeEEEEECHHHhH
Confidence 722 2555677888888877 467888899887654
No 77
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.44 E-value=3.9e-12 Score=149.01 Aligned_cols=101 Identities=22% Similarity=0.248 Sum_probs=94.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
-.||||..+...+.+.++|...|+....++|+|+.++|+.+.+.|.+++ +.|++ .|.|.|-|+|=.+...|||||+|
T Consensus 232 ~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~~--~~iiV-AT~AFGMGIdKpdVRfViH~~lP 308 (590)
T COG0514 232 SGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLNDE--IKVMV-ATNAFGMGIDKPDVRFVIHYDLP 308 (590)
T ss_pred CeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcCC--CcEEE-EeccccCccCCCCceEEEEecCC
Confidence 4699999999999999999999999999999999999999999999886 67777 55999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V 957 (1008)
=+...+-|=+||++|-|.......
T Consensus 309 ~s~EsYyQE~GRAGRDG~~a~ail 332 (590)
T COG0514 309 GSIESYYQETGRAGRDGLPAEAIL 332 (590)
T ss_pred CCHHHHHHHHhhccCCCCcceEEE
Confidence 999999999999999999877555
No 78
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.43 E-value=4.3e-12 Score=142.16 Aligned_cols=135 Identities=24% Similarity=0.280 Sum_probs=113.6
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc--CCeEEEec
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQYRRLD 883 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~ 883 (1008)
..|+..|-..|..+.+. |+|||-....-+.++...+.+. |++...++
T Consensus 298 ~~Ki~~L~sFI~shlk~-------------------------------K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~ 346 (758)
T KOG0343|consen 298 EDKIDMLWSFIKSHLKK-------------------------------KSIVFLSSCKQVKFLYEAFCRLRPGIPLLALH 346 (758)
T ss_pred hhHHHHHHHHHHhcccc-------------------------------ceEEEEehhhHHHHHHHHHHhcCCCCceeeec
Confidence 45888888888877654 8999999999999999998876 99999999
Q ss_pred CCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 884 GTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 884 Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
|.|++..|.++.++|.... .++|++|++++.||++...+.||-+|.|-+..+++.|.||.-|.+-.-+..+ +++.
T Consensus 347 G~~~Q~~R~ev~~~F~~~~---~~vLF~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll--~L~p 421 (758)
T KOG0343|consen 347 GTMSQKKRIEVYKKFVRKR---AVVLFCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLL--MLTP 421 (758)
T ss_pred cchhHHHHHHHHHHHHHhc---ceEEEeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEE--EEcc
Confidence 9999999999999998764 5667788999999999999999999999999999999999999987766544 3333
Q ss_pred CCHHHHHHHHHHHH
Q 001834 964 DTVEDRILKLQDDK 977 (1008)
Q Consensus 964 ~TiEe~I~~lq~~K 977 (1008)
+-||.++...++|
T Consensus 422 -sEeE~~l~~Lq~k 434 (758)
T KOG0343|consen 422 -SEEEAMLKKLQKK 434 (758)
T ss_pred -hhHHHHHHHHHHc
Confidence 3456666655555
No 79
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=1.5e-11 Score=137.49 Aligned_cols=115 Identities=20% Similarity=0.326 Sum_probs=92.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhc----------------------CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH----------------------CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMS 911 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~----------------------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS 911 (1008)
|+|||-.-.++.++=+..|... +.++.+++|+|++++|..++..|..... -||| +
T Consensus 427 k~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeRts~f~~Fs~~~~--~VLL-c 503 (708)
T KOG0348|consen 427 KMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEERTSVFQEFSHSRR--AVLL-C 503 (708)
T ss_pred eeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHHHHHHHhhccccc--eEEE-e
Confidence 8899988888877665555432 3569999999999999999999998864 3555 6
Q ss_pred cCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHH
Q 001834 912 LKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQ 974 (1008)
Q Consensus 912 ~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq 974 (1008)
|++++.||+|....-||-||||..++.+..|+||.-|+|-+-.-.. |......| ++-.++
T Consensus 504 TDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~alL--fL~P~Eae-y~~~l~ 563 (708)
T KOG0348|consen 504 TDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEALL--FLLPSEAE-YVNYLK 563 (708)
T ss_pred hhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCceEE--EecccHHH-HHHHHH
Confidence 7999999999999999999999999999999999999999866433 44454444 443333
No 80
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.42 E-value=9.1e-12 Score=160.15 Aligned_cols=93 Identities=19% Similarity=0.244 Sum_probs=82.2
Q ss_pred eEEEEeccHHHHHHHHHHHHhcC---------------------------------CeEEEecCCCCHHHHHHHHHHhcc
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHC---------------------------------IQYRRLDGTMSLPARDRAVKDFNT 900 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~g---------------------------------i~~~~l~Gs~s~~~R~~~i~~F~~ 900 (1008)
++|||++.....+.+...|.+.. +.+..++|+++.++|..+.+.|++
T Consensus 246 stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~fK~ 325 (1490)
T PRK09751 246 STIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQALKS 325 (1490)
T ss_pred CEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHHHh
Confidence 88999999999999988887531 114567899999999999999999
Q ss_pred CcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhc
Q 001834 901 DREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRI 949 (1008)
Q Consensus 901 ~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~Ri 949 (1008)
+. ++|++ +|.+...|||+...++||+|+.|.+.+.+.|++||++|.
T Consensus 326 G~--LrvLV-ATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 326 GE--LRCVV-ATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred CC--ceEEE-eCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 86 77776 669999999999999999999999999999999999986
No 81
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.42 E-value=9.4e-13 Score=136.54 Aligned_cols=164 Identities=25% Similarity=0.238 Sum_probs=110.1
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcc
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAG 352 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (1008)
.+++|||.+++..++... ...++...+|.|||..++.++......
T Consensus 7 ~~~~~~Q~~~~~~~~~~~------~~~~i~~~~GsGKT~~~~~~~~~~~~~----------------------------- 51 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL------RDVILAAPTGSGKTLAALLPALEALKR----------------------------- 51 (201)
T ss_pred CCCCHHHHHHHHHHHcCC------CcEEEECCCCCchhHHHHHHHHHHhcc-----------------------------
Confidence 469999999999998431 458999999999999887777553221
Q ss_pred cccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcC-hhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCcccc-
Q 001834 353 LDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL- 430 (1008)
Q Consensus 353 ~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l- 430 (1008)
.+.+.+||++| ..+..||..++.+.+..........+++.........+
T Consensus 52 -----------------------------~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (201)
T smart00487 52 -----------------------------GKGKRVLVLVPTRELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLE 102 (201)
T ss_pred -----------------------------cCCCcEEEEeCCHHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHHh
Confidence 11345999999 66889999999988764322455555554432222212
Q ss_pred -CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCccc
Q 001834 431 -AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAK 509 (1008)
Q Consensus 431 -~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~ 509 (1008)
..++++++||+.+....... .+..
T Consensus 103 ~~~~~v~~~t~~~l~~~~~~~-------------------------------------------------------~~~~ 127 (201)
T smart00487 103 SGKTDILVTTPGRLLDLLEND-------------------------------------------------------LLEL 127 (201)
T ss_pred cCCCCEEEeChHHHHHHHHcC-------------------------------------------------------CcCH
Confidence 22399999999887643210 0223
Q ss_pred ceeeEEEEccCcccCC-ccchHH-HHHHhc-ccCcEEEEeccCCCCChh
Q 001834 510 VGWFRVVLDEAQTIKN-HRTQVA-RACCSL-RAKRRWCLSGTPIQNSID 555 (1008)
Q Consensus 510 ~~w~rVIiDEAH~iKN-~~s~~~-kal~~L-~a~~r~lLTGTPi~N~l~ 555 (1008)
..|.++||||+|.+.+ ...... ..+..+ ...+++++||||..+...
T Consensus 128 ~~~~~iIiDE~h~~~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~~~~ 176 (201)
T smart00487 128 SNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIEN 176 (201)
T ss_pred hHCCEEEEECHHHHhcCCcHHHHHHHHHhCCccceEEEEecCCchhHHH
Confidence 4577899999999986 333333 333334 478899999999744333
No 82
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.40 E-value=4.5e-11 Score=142.06 Aligned_cols=95 Identities=17% Similarity=0.219 Sum_probs=71.2
Q ss_pred HHHHHHHHhc--CCeEEEecCCCCHHHH--HHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC--CC-C--
Q 001834 866 DLVENSLNQH--CIQYRRLDGTMSLPAR--DRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW--WN-P-- 936 (1008)
Q Consensus 866 d~L~~~L~~~--gi~~~~l~Gs~s~~~R--~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~--WN-p-- 936 (1008)
+.+++.|.+. +.++.++|++++..++ +++++.|.++. +.||| .|+..+.|+++...+.|+++|.+ .+ |
T Consensus 272 e~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g~--~~ILV-gT~~i~kG~d~~~v~lV~vl~aD~~l~~pd~ 348 (505)
T TIGR00595 272 EQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANGK--ADILI-GTQMIAKGHHFPNVTLVGVLDADSGLHSPDF 348 (505)
T ss_pred HHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcCC--CCEEE-eCcccccCCCCCcccEEEEEcCcccccCccc
Confidence 3444555544 6788999999876665 89999999875 67776 66889999999999999766554 33 3
Q ss_pred -------ChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 937 -------TTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 937 -------~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
..+.|+.||+.|-+..-.|.|..+-..
T Consensus 349 ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 349 RAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred chHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 357899999999887766665544433
No 83
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.39 E-value=1.1e-11 Score=134.27 Aligned_cols=108 Identities=24% Similarity=0.338 Sum_probs=96.7
Q ss_pred ceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL 932 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp 932 (1008)
+|+|||+...-++|-|..-|.-.||..-.++|.-.+.+|+.+++.|+.+. ++||+ .|+.++.||++....||++||.
T Consensus 466 dKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ksG~--vrILv-aTDlaSRGlDv~DiTHV~NyDF 542 (629)
T KOG0336|consen 466 DKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKSGE--VRILV-ATDLASRGLDVPDITHVYNYDF 542 (629)
T ss_pred ceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhcCc--eEEEE-EechhhcCCCchhcceeeccCC
Confidence 49999999999999999999999999999999999999999999999986 88887 5699999999999999999999
Q ss_pred CCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 933 WWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 933 ~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
|-|-..+..|+||.+|-|.+-. -|..|.-.|
T Consensus 543 P~nIeeYVHRvGrtGRaGr~G~-sis~lt~~D 573 (629)
T KOG0336|consen 543 PRNIEEYVHRVGRTGRAGRTGT-SISFLTRND 573 (629)
T ss_pred CccHHHHHHHhcccccCCCCcc-eEEEEehhh
Confidence 9999999999999999998743 333344443
No 84
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.37 E-value=7e-11 Score=143.46 Aligned_cols=117 Identities=15% Similarity=0.143 Sum_probs=97.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhcC-CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHC-IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL 932 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~g-i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp 932 (1008)
.+|||++..++.+.+...|.+.+ ..+..-|||.+.++|..+-++|.++. .+++++| .+...|++.-..+.||+|..
T Consensus 255 ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G~--lravV~T-SSLELGIDiG~vdlVIq~~S 331 (814)
T COG1201 255 TTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEGE--LKAVVAT-SSLELGIDIGDIDLVIQLGS 331 (814)
T ss_pred cEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcCC--ceEEEEc-cchhhccccCCceEEEEeCC
Confidence 78999999999999999999987 88999999999999999999999987 8888855 79999999999999999999
Q ss_pred CCCCChhhHHHHhhh-hcCCcccEEEEEEEeCCCHHHHHHHHHHHH
Q 001834 933 WWNPTTEDQAVDRAH-RIGQTRPVTVTRLTIRDTVEDRILKLQDDK 977 (1008)
Q Consensus 933 ~WNp~~e~QAigR~~-RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K 977 (1008)
|-.-+...||+||++ |+|.. --..+++.+ .++.+.-+.-.+
T Consensus 332 P~sV~r~lQRiGRsgHr~~~~---Skg~ii~~~-r~dllE~~vi~~ 373 (814)
T COG1201 332 PKSVNRFLQRIGRAGHRLGEV---SKGIIIAED-RDDLLECLVLAD 373 (814)
T ss_pred cHHHHHHhHhccccccccCCc---ccEEEEecC-HHHHHHHHHHHH
Confidence 999999999999984 45543 333445555 565554444333
No 85
>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=99.37 E-value=3.4e-11 Score=154.71 Aligned_cols=74 Identities=15% Similarity=0.205 Sum_probs=68.3
Q ss_pred eEEEEeccH---HHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEe---cCCCcccccccc-CCE
Q 001834 854 KSIVFSQWT---RMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMS---LKAGNLGLNMVA-ASH 926 (1008)
Q Consensus 854 KvIIFSq~~---~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS---~kagg~GLNL~~-A~~ 926 (1008)
++|||++.. ..++.|...|.+.|+++..++|.++ ++.+++|.++. ++||+.+ +..++.||+++. .++
T Consensus 328 ~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~G~--~~vLVata~~tdv~aRGIDip~~V~~ 401 (1171)
T TIGR01054 328 GGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAEGE--IDVLIGVASYYGTLVRGLDLPERVRY 401 (1171)
T ss_pred CEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHcCC--CCEEEEeccccCcccccCCCCccccE
Confidence 789999988 9999999999999999999999986 37899999987 8999987 689999999999 799
Q ss_pred EEEecCC
Q 001834 927 VILLDLW 933 (1008)
Q Consensus 927 VI~~Dp~ 933 (1008)
|||||+|
T Consensus 402 vI~~~~P 408 (1171)
T TIGR01054 402 AVFLGVP 408 (1171)
T ss_pred EEEECCC
Confidence 9999998
No 86
>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB. This model represents HrpB, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria, but also in a few species of other lineages. The member from Rhizobium meliloti has been designated HelO. HrpB is typically about 800 residues in length, while its paralog HrpA (TIGR01967), also uncharacterized, is about 1300 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.36 E-value=7e-11 Score=146.67 Aligned_cols=106 Identities=27% Similarity=0.312 Sum_probs=90.2
Q ss_pred eEEEEeccHHHHHHHHHHHHh---cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ---HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~---~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~ 930 (1008)
++|||..-...++.+...|.+ .++.++.++|+++.++|.++++.|.++. .+|+| +|..+..||++...++||.+
T Consensus 211 ~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G~--rkVlV-ATnIAErgItIp~V~~VID~ 287 (819)
T TIGR01970 211 SILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQGR--RKVVL-ATNIAETSLTIEGIRVVIDS 287 (819)
T ss_pred cEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccCC--eEEEE-ecchHhhcccccCceEEEEc
Confidence 899999999999999999987 4789999999999999999999998775 56665 78999999999999999999
Q ss_pred cCC----CCCCh--------------hhHHHHhhhhcCCcccEEEEEEEeCCC
Q 001834 931 DLW----WNPTT--------------EDQAVDRAHRIGQTRPVTVTRLTIRDT 965 (1008)
Q Consensus 931 Dp~----WNp~~--------------e~QAigR~~RiGQ~k~V~V~rlv~~~T 965 (1008)
+.+ +||.. ..||.||++|. ++=..|+|+.+..
T Consensus 288 Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 288 GLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred CcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 875 56654 67888888887 5667788887653
No 87
>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=99.36 E-value=4.2e-12 Score=123.81 Aligned_cols=137 Identities=23% Similarity=0.239 Sum_probs=95.7
Q ss_pred CceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcccccccccCCCCCCCCCCcccccccc
Q 001834 298 GGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKVKETGESDDIKPVPEVSTSTRS 377 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 377 (1008)
+.++...+|.|||.++++++......
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~------------------------------------------------------ 27 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDS------------------------------------------------------ 27 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhc------------------------------------------------------
Confidence 57999999999999999998764321
Q ss_pred cCCCCCCCceEEEcChhh-HHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCc--cccCCCcEEEechhhhhccCCCCCCCc
Q 001834 378 FSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIYHGGSRTKDP--VELAKYDVVLTTYSIVTNEVPKQPSVD 454 (1008)
Q Consensus 378 ~~~~~~~~~tLIV~P~sL-l~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~--~~l~~~dVVItTy~~l~~~~~~~~~~~ 454 (1008)
...+++||+||... ..||..++.++... ...+.++++....... ......+++++||+.+.......
T Consensus 28 ----~~~~~~lv~~p~~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~~~~~~~~~---- 97 (144)
T cd00046 28 ----LKGGQVLVLAPTRELANQVAERLKELFGE--GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGRLLDELERL---- 97 (144)
T ss_pred ----ccCCCEEEEcCcHHHHHHHHHHHHHHhhC--CcEEEEEecCcchhHHHHHhcCCCCEEEECcHHHHHHHHcC----
Confidence 12356999999875 56667777776643 4666677765543321 23467899999999887542110
Q ss_pred hhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccceeeEEEEccCcccCCccchHH---
Q 001834 455 EEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGWFRVVLDEAQTIKNHRTQVA--- 531 (1008)
Q Consensus 455 ~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~~w~rVIiDEAH~iKN~~s~~~--- 531 (1008)
.+....|++|||||+|.+.+......
T Consensus 98 ---------------------------------------------------~~~~~~~~~iiiDE~h~~~~~~~~~~~~~ 126 (144)
T cd00046 98 ---------------------------------------------------KLSLKKLDLLILDEAHRLLNQGFGLLGLK 126 (144)
T ss_pred ---------------------------------------------------CcchhcCCEEEEeCHHHHhhcchHHHHHH
Confidence 02234588999999999998765543
Q ss_pred HHHHhcccCcEEEEeccC
Q 001834 532 RACCSLRAKRRWCLSGTP 549 (1008)
Q Consensus 532 kal~~L~a~~r~lLTGTP 549 (1008)
.........+++++||||
T Consensus 127 ~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 127 ILLKLPKDRQVLLLSATP 144 (144)
T ss_pred HHhhCCccceEEEEeccC
Confidence 233345678899999998
No 88
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.35 E-value=5.9e-11 Score=147.86 Aligned_cols=114 Identities=19% Similarity=0.225 Sum_probs=92.3
Q ss_pred eEEEEeccHHHHHHHH----HHHHhcC----CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC
Q 001834 854 KSIVFSQWTRMLDLVE----NSLNQHC----IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS 925 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~----~~L~~~g----i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~ 925 (1008)
|.|+|+.+...++.+. ..+...+ ..+..+.|++...+|.++...|+.+. ..+++ ++.+.-.|+++...+
T Consensus 308 ~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~--~~~~~-st~AlelgidiG~ld 384 (851)
T COG1205 308 QTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGE--LLGVI-ATNALELGIDIGSLD 384 (851)
T ss_pred eEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCC--ccEEe-cchhhhhceeehhhh
Confidence 9999999999999987 4444445 56778899999999999999999986 56666 889999999999999
Q ss_pred EEEEecCCC-CCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHH
Q 001834 926 HVILLDLWW-NPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILK 972 (1008)
Q Consensus 926 ~VI~~Dp~W-Np~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~ 972 (1008)
.||..-.|- .-....|+.||++|-||.-.+.+ ..-.+-++..+..
T Consensus 385 avi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~--v~~~~~~d~yy~~ 430 (851)
T COG1205 385 AVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLV--VLRSDPLDSYYLR 430 (851)
T ss_pred hHhhcCCCCchHHHHHHhhhhccCCCCCceEEE--EeCCCccchhhhh
Confidence 999999887 66889999999999995543222 2226667766543
No 89
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.35 E-value=1.4e-10 Score=142.73 Aligned_cols=117 Identities=13% Similarity=0.127 Sum_probs=86.2
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
+|-...+....+..+...|++. ..++...||.|+..+-++++..|.++. ..|||++ .....||+.+.||++|+-+
T Consensus 805 QvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g~--~dVLv~T-TIIEtGIDIPnANTiIIe~ 881 (1139)
T COG1197 805 QVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNGE--YDVLVCT-TIIETGIDIPNANTIIIER 881 (1139)
T ss_pred EEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcCC--CCEEEEe-eeeecCcCCCCCceEEEec
Confidence 4444445555566666666655 456778899999999999999999886 7888855 6888999999999999887
Q ss_pred CC-CCCChhhHHHHhhhhcCCcccEEEEEEEeCC-----CHHHHHHHHHH
Q 001834 932 LW-WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD-----TVEDRILKLQD 975 (1008)
Q Consensus 932 p~-WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~-----TiEe~I~~lq~ 975 (1008)
.. +--+...|--||++|-.+. -+-|-++..+ .-+.|+..++.
T Consensus 882 AD~fGLsQLyQLRGRVGRS~~~--AYAYfl~p~~k~lT~~A~kRL~aI~~ 929 (1139)
T COG1197 882 ADKFGLAQLYQLRGRVGRSNKQ--AYAYFLYPPQKALTEDAEKRLEAIAS 929 (1139)
T ss_pred cccccHHHHHHhccccCCccce--EEEEEeecCccccCHHHHHHHHHHHh
Confidence 65 6778899999999887654 4555555532 34555555444
No 90
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.34 E-value=3.2e-11 Score=148.24 Aligned_cols=104 Identities=21% Similarity=0.207 Sum_probs=79.1
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCccc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (1008)
.|+|.|..+|.-.+.. ....|+|-.+|.|||+.|+..|+..-..
T Consensus 31 el~~~qq~av~~~~~~------~~N~li~aPTgsGKTlIA~lai~~~l~~------------------------------ 74 (766)
T COG1204 31 ELFNPQQEAVEKGLLS------DENVLISAPTGSGKTLIALLAILSTLLE------------------------------ 74 (766)
T ss_pred HhhHHHHHHhhccccC------CCcEEEEcCCCCchHHHHHHHHHHHHHh------------------------------
Confidence 7999999998776633 1237999999999999887777552211
Q ss_pred ccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcC-hhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCC
Q 001834 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCP-ASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAK 432 (1008)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P-~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~ 432 (1008)
..++.+-||| .+|..+=.+|+.+|-.- .++|.++.|...... ..+.+
T Consensus 75 -----------------------------~~~k~vYivPlkALa~Ek~~~~~~~~~~--GirV~~~TgD~~~~~-~~l~~ 122 (766)
T COG1204 75 -----------------------------GGGKVVYIVPLKALAEEKYEEFSRLEEL--GIRVGISTGDYDLDD-ERLAR 122 (766)
T ss_pred -----------------------------cCCcEEEEeChHHHHHHHHHHhhhHHhc--CCEEEEecCCcccch-hhhcc
Confidence 1245899999 56888888888844322 799999999886554 67899
Q ss_pred CcEEEechhhhhc
Q 001834 433 YDVVLTTYSIVTN 445 (1008)
Q Consensus 433 ~dVVItTy~~l~~ 445 (1008)
+||+||||+.+-+
T Consensus 123 ~~ViVtT~EK~Ds 135 (766)
T COG1204 123 YDVIVTTPEKLDS 135 (766)
T ss_pred CCEEEEchHHhhH
Confidence 9999999988754
No 91
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.34 E-value=4.1e-11 Score=133.61 Aligned_cols=96 Identities=20% Similarity=0.210 Sum_probs=89.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
|+|||+....+.+++...|....+++..|+|..++..|..+..+|.+... .+|+.+++++.|+|.+..+.||-||||
T Consensus 332 KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~kaes---gIL~cTDVaARGlD~P~V~~VvQ~~~P 408 (543)
T KOG0342|consen 332 KIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKAES---GILVCTDVAARGLDIPDVDWVVQYDPP 408 (543)
T ss_pred eEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhccc---ceEEecchhhccCCCCCceEEEEeCCC
Confidence 99999999999999999999999999999999999999999999988763 345566999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCc
Q 001834 934 WNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~ 952 (1008)
-+|..|+.|+||..|-|-+
T Consensus 409 ~d~~~YIHRvGRTaR~gk~ 427 (543)
T KOG0342|consen 409 SDPEQYIHRVGRTAREGKE 427 (543)
T ss_pred CCHHHHHHHhccccccCCC
Confidence 9999999999999997765
No 92
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.33 E-value=2.5e-12 Score=113.84 Aligned_cols=81 Identities=30% Similarity=0.503 Sum_probs=74.5
Q ss_pred HHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhh
Q 001834 867 LVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRA 946 (1008)
Q Consensus 867 ~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~ 946 (1008)
.|...|...++.+..++|.++.++|..+++.|+.+. . .+|+++.++++|+|++.+++||+++++||+..+.|++||+
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~--~-~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR~ 78 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGK--I-KVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRA 78 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCC--C-eEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhccc
Confidence 467788888999999999999999999999999875 4 5556889999999999999999999999999999999999
Q ss_pred hhcC
Q 001834 947 HRIG 950 (1008)
Q Consensus 947 ~RiG 950 (1008)
+|.|
T Consensus 79 ~R~g 82 (82)
T smart00490 79 GRAG 82 (82)
T ss_pred ccCC
Confidence 9987
No 93
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.30 E-value=3.1e-10 Score=121.81 Aligned_cols=98 Identities=19% Similarity=0.280 Sum_probs=92.3
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
-++||.|-+.+..+|...|+..++..+.+++-|++++|..++.+|+.+. ++|||+ |++++.||+.+..+-||++|.|
T Consensus 256 simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs~~--~~ilia-TDVAsRGLDIP~V~LVvN~diP 332 (442)
T KOG0340|consen 256 SIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRSNA--ARILIA-TDVASRGLDIPTVELVVNHDIP 332 (442)
T ss_pred eEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhhcC--ccEEEE-echhhcCCCCCceeEEEecCCC
Confidence 7899999999999999999999999999999999999999999999886 788884 5999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCccc
Q 001834 934 WNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
-.|..+..|.||.-|-|..-.
T Consensus 333 r~P~~yiHRvGRtARAGR~G~ 353 (442)
T KOG0340|consen 333 RDPKDYIHRVGRTARAGRKGM 353 (442)
T ss_pred CCHHHHHHhhcchhcccCCcc
Confidence 999999999999999887643
No 94
>PRK14701 reverse gyrase; Provisional
Probab=99.30 E-value=1.4e-10 Score=152.05 Aligned_cols=92 Identities=11% Similarity=0.158 Sum_probs=78.2
Q ss_pred eEEEEeccHHH---HHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEec---CCCcccccccc-CCE
Q 001834 854 KSIVFSQWTRM---LDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSL---KAGNLGLNMVA-ASH 926 (1008)
Q Consensus 854 KvIIFSq~~~~---ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~---kagg~GLNL~~-A~~ 926 (1008)
.+|||++.... ++.|...|...|+++..++|. |.+.+++|.++. ++||+.+. ..++.||+++. ..+
T Consensus 332 ~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G~--~~VLVaT~s~~gvaaRGIDiP~~Vry 404 (1638)
T PRK14701 332 GGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEGE--IDYLIGVATYYGTLVRGLDLPERIRF 404 (1638)
T ss_pred CeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcCC--CCEEEEecCCCCeeEecCccCCccCE
Confidence 78999987654 589999999999999999994 899999999987 78999774 57889999998 999
Q ss_pred EEEecCCC---CCChhhHHH-------------HhhhhcCCc
Q 001834 927 VILLDLWW---NPTTEDQAV-------------DRAHRIGQT 952 (1008)
Q Consensus 927 VI~~Dp~W---Np~~e~QAi-------------gR~~RiGQ~ 952 (1008)
|||||.|- +...+.|.. +|+.|-|..
T Consensus 405 vi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 405 AVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred EEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 99999997 655555554 999998865
No 95
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.30 E-value=2.2e-10 Score=142.66 Aligned_cols=107 Identities=20% Similarity=0.258 Sum_probs=89.1
Q ss_pred eEEEEeccHHHHHHHHHHHHh---cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ---HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~---~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~ 930 (1008)
.+|||..-...++.+...|.. .++.+..++|+++.++|.++++.|.++. .+|+| +|..+..||++...++||.+
T Consensus 214 ~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G~--rkVlv-ATnIAErsLtIp~V~~VID~ 290 (812)
T PRK11664 214 SLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAGR--RKVVL-ATNIAETSLTIEGIRLVVDS 290 (812)
T ss_pred CEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCCC--eEEEE-ecchHHhcccccCceEEEEC
Confidence 899999999999999999987 5788999999999999999999998764 55555 77999999999999999997
Q ss_pred cCC----CCCC--------------hhhHHHHhhhhcCCcccEEEEEEEeCCCH
Q 001834 931 DLW----WNPT--------------TEDQAVDRAHRIGQTRPVTVTRLTIRDTV 966 (1008)
Q Consensus 931 Dp~----WNp~--------------~e~QAigR~~RiGQ~k~V~V~rlv~~~Ti 966 (1008)
+.. |+|. ...||.||++|. .+=+.|+|+.+...
T Consensus 291 Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 291 GLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred CCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 654 3333 467888887776 47788999876543
No 96
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.29 E-value=2.2e-11 Score=128.43 Aligned_cols=96 Identities=21% Similarity=0.317 Sum_probs=92.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..||||+.+...++|++.+.+.|+....++..|.++.|.++..+|.++. ++.|++| +..-.|++.|+.|.||+||.+
T Consensus 324 QsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G~--crnLVct-DL~TRGIDiqavNvVINFDfp 400 (459)
T KOG0326|consen 324 QSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNGK--CRNLVCT-DLFTRGIDIQAVNVVINFDFP 400 (459)
T ss_pred ceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhccc--cceeeeh-hhhhcccccceeeEEEecCCC
Confidence 7899999999999999999999999999999999999999999999997 8999977 899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCc
Q 001834 934 WNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~ 952 (1008)
-|+.++..||||.+|.|-.
T Consensus 401 k~aEtYLHRIGRsGRFGhl 419 (459)
T KOG0326|consen 401 KNAETYLHRIGRSGRFGHL 419 (459)
T ss_pred CCHHHHHHHccCCccCCCc
Confidence 9999999999999999975
No 97
>COG4889 Predicted helicase [General function prediction only]
Probab=99.28 E-value=9.1e-11 Score=136.99 Aligned_cols=78 Identities=23% Similarity=0.235 Sum_probs=61.6
Q ss_pred CCeEEEecCCCCHHHHHHHHHHhcc-CcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 876 CIQYRRLDGTMSLPARDRAVKDFNT-DREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 876 gi~~~~l~Gs~s~~~R~~~i~~F~~-~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
.+...-+||.|...+|......=+. .+..++||- ..++.++|++.++-+.|||+||--.-....||+||+-|----|.
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neckIlS-NaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECKILS-NARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchheeec-cchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCc
Confidence 4556678999999999666554433 233255554 77999999999999999999999888899999999999765554
No 98
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.28 E-value=7.1e-10 Score=122.99 Aligned_cols=118 Identities=19% Similarity=0.271 Sum_probs=101.6
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc--CCeEEEec
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQYRRLD 883 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~ 883 (1008)
.-|+..|+++|.+... .|+|||-......++....|... .+.++.++
T Consensus 240 ~eK~~~lv~~L~~~~~-------------------------------kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iH 288 (567)
T KOG0345|consen 240 DEKLSQLVHLLNNNKD-------------------------------KKCIVFFPTCASVEYFGKLFSRLLKKREIFSIH 288 (567)
T ss_pred HHHHHHHHHHHhcccc-------------------------------ccEEEEecCcchHHHHHHHHHHHhCCCcEEEec
Confidence 5688889998877432 29999988888888888888765 67899999
Q ss_pred CCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEE
Q 001834 884 GTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 884 Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V 957 (1008)
|.|+..+|.++++.|.+..+ .||+ +|++++.||+....+.||.||||-+|.....|.||..|.|..-.-.|
T Consensus 289 GK~~q~~R~k~~~~F~~~~~--~vl~-~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Aiv 359 (567)
T KOG0345|consen 289 GKMSQKARAKVLEAFRKLSN--GVLF-CTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAIV 359 (567)
T ss_pred chhcchhHHHHHHHHHhccC--ceEE-eehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceEE
Confidence 99999999999999998543 4555 67999999999999999999999999999999999999998866444
No 99
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.28 E-value=5.8e-10 Score=124.14 Aligned_cols=128 Identities=17% Similarity=0.237 Sum_probs=113.2
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.+|+..|.+....| |+|||.--....+-|...|+..|+.+..++|
T Consensus 451 ~~~Kl~wl~~~L~~f~S~g------------------------------kvlifVTKk~~~e~i~a~Lklk~~~v~llhg 500 (731)
T KOG0339|consen 451 EEKKLNWLLRHLVEFSSEG------------------------------KVLIFVTKKADAEEIAANLKLKGFNVSLLHG 500 (731)
T ss_pred cHHHHHHHHHHhhhhccCC------------------------------cEEEEEeccCCHHHHHHHhccccceeeeecC
Confidence 3579999998888776554 9999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+|.+.+|.+.+.+|+... ..||+ .+++...||+.....+||+||..-.-....|+|||..|-|-+ =..|.|+++.
T Consensus 501 dkdqa~rn~~ls~fKkk~--~~Vlv-atDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeK 575 (731)
T KOG0339|consen 501 DKDQAERNEVLSKFKKKR--KPVLV-ATDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEK 575 (731)
T ss_pred chhhHHHHHHHHHHhhcC--CceEE-EeeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechh
Confidence 999999999999999876 56777 459999999999999999999999999999999999999988 4567788776
Q ss_pred CHH
Q 001834 965 TVE 967 (1008)
Q Consensus 965 TiE 967 (1008)
..+
T Consensus 576 Da~ 578 (731)
T KOG0339|consen 576 DAE 578 (731)
T ss_pred hHH
Confidence 554
No 100
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.27 E-value=5.6e-11 Score=132.32 Aligned_cols=96 Identities=19% Similarity=0.280 Sum_probs=90.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
++|||.+....+..+.-.|--.|+.+.-++|+.++.+|-+.++.|.+.. +.||| +|++++.||+....-.||+|+.|
T Consensus 428 ~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~e--idvLi-aTDvAsRGLDI~gV~tVINy~mP 504 (691)
T KOG0338|consen 428 RTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKEE--IDVLI-ATDVASRGLDIEGVQTVINYAMP 504 (691)
T ss_pred ceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhcc--CCEEE-EechhhccCCccceeEEEeccCc
Confidence 8999999999999999999999999999999999999999999999876 78887 66999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCc
Q 001834 934 WNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~ 952 (1008)
-.-..|..|+||.-|-|..
T Consensus 505 ~t~e~Y~HRVGRTARAGRa 523 (691)
T KOG0338|consen 505 KTIEHYLHRVGRTARAGRA 523 (691)
T ss_pred hhHHHHHHHhhhhhhcccC
Confidence 9999999999999999865
No 101
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.27 E-value=3.8e-10 Score=136.86 Aligned_cols=117 Identities=13% Similarity=0.114 Sum_probs=98.3
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+......+. .+||||......+.|...|.+.|+++..++|
T Consensus 422 ~~~K~~al~~~i~~~~~~g~-----------------------------pvLI~t~si~~se~ls~~L~~~gi~~~~Lna 472 (796)
T PRK12906 422 LDSKFNAVVKEIKERHAKGQ-----------------------------PVLVGTVAIESSERLSHLLDEAGIPHAVLNA 472 (796)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCeeEecC
Confidence 35699999999987766655 9999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc---cCC-----EEEEecCCCCCChhhHHHHhhhhcCCcccE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV---AAS-----HVILLDLWWNPTTEDQAVDRAHRIGQTRPV 955 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~---~A~-----~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V 955 (1008)
.+...+++.+...|+.+ .|+| +|..+|.|++.. ... |||.++.+-|...+.|++||+.|.|..=..
T Consensus 473 ~~~~~Ea~ii~~ag~~g----~VtI-ATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s 546 (796)
T PRK12906 473 KNHAKEAEIIMNAGQRG----AVTI-ATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSS 546 (796)
T ss_pred CcHHHHHHHHHhcCCCc----eEEE-EeccccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcce
Confidence 98755555555555443 4555 779999999985 566 999999999999999999999999998654
No 102
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.27 E-value=2.2e-10 Score=129.28 Aligned_cols=106 Identities=19% Similarity=0.220 Sum_probs=92.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE----
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL---- 929 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~---- 929 (1008)
+.|||+..+.-...|...|...|++..-++++++..+|..+-..|.+.. +.+++ +|.|.|.|+++++ +.|||
T Consensus 442 QtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~--l~~VV-TTAAL~AGVDFPA-SQVIFEsLa 517 (830)
T COG1202 442 QTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQE--LAAVV-TTAALAAGVDFPA-SQVIFESLA 517 (830)
T ss_pred ceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCC--cceEe-ehhhhhcCCCCch-HHHHHHHHH
Confidence 7899999999999999999999999999999999999999999999875 66666 7799999999985 44443
Q ss_pred -ecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 930 -LDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 930 -~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
=--|.+|....|..||++|.|-...=.||-++-.
T Consensus 518 MG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllvep 552 (830)
T COG1202 518 MGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVEP 552 (830)
T ss_pred cccccCCHHHHHHHhcccCCCCcccCceEEEEecC
Confidence 3457799999999999999998877777777743
No 103
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.25 E-value=4.9e-10 Score=136.58 Aligned_cols=130 Identities=12% Similarity=0.147 Sum_probs=109.9
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+....++ -|||||......+.|...|.+.||++..++|
T Consensus 426 ~~~k~~av~~~i~~~~~~g~-----------------------------PVLVgt~Sie~sE~ls~~L~~~gi~h~vLna 476 (896)
T PRK13104 426 QADKFQAIIEDVRECGVRKQ-----------------------------PVLVGTVSIEASEFLSQLLKKENIKHQVLNA 476 (896)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCeEeecC
Confidence 45799999999988887776 8999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--------------------------------------CCE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--------------------------------------ASH 926 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--------------------------------------A~~ 926 (1008)
.+...+|+.+.+.|+.+. | +++|..+|.|+++.= .=|
T Consensus 477 k~~q~Ea~iia~Ag~~G~----V-tIATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~ 551 (896)
T PRK13104 477 KFHEKEAQIIAEAGRPGA----V-TIATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLR 551 (896)
T ss_pred CCChHHHHHHHhCCCCCc----E-EEeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCE
Confidence 999999999999999873 4 457799999998652 347
Q ss_pred EEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHH
Q 001834 927 VILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKL 973 (1008)
Q Consensus 927 VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~l 973 (1008)
||--+.+-|-....|..||++|.|..-....|- |+|+.++.+
T Consensus 552 VIgTerhesrRID~QLrGRaGRQGDPGss~f~l-----SleD~l~~~ 593 (896)
T PRK13104 552 IIGSERHESRRIDNQLRGRAGRQGDPGSSRFYL-----SLEDNLMRI 593 (896)
T ss_pred EEeeccCchHHHHHHhccccccCCCCCceEEEE-----EcCcHHHHH
Confidence 899999999999999999999999986544432 455555543
No 104
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.23 E-value=1.6e-10 Score=131.80 Aligned_cols=119 Identities=17% Similarity=0.219 Sum_probs=104.4
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHH-HhcCCeEEEecC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSL-NQHCIQYRRLDG 884 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L-~~~gi~~~~l~G 884 (1008)
..|+-++.+++..-.. .-+|||.|...-...|...| .-.+|.+.+++|
T Consensus 372 ~~K~lA~rq~v~~g~~-------------------------------PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~ 420 (593)
T KOG0344|consen 372 KGKLLALRQLVASGFK-------------------------------PPVLIFVQSKERAKQLFEELEIYDNINVDVIHG 420 (593)
T ss_pred hhHHHHHHHHHhccCC-------------------------------CCeEEEEecHHHHHHHHHHhhhccCcceeeEec
Confidence 5688888888876532 17899999999999999999 666999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcc-cEEEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTR-PVTVT 958 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k-~V~V~ 958 (1008)
..++.+|.+.+++|+.+. +.||+++ ...+.|+++..++.||+||.+=.-..+..+|||.+|-|+.- .++.|
T Consensus 421 e~~~~qrde~~~~FR~g~--IwvLicT-dll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~Aitfy 492 (593)
T KOG0344|consen 421 ERSQKQRDETMERFRIGK--IWVLICT-DLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGKAITFY 492 (593)
T ss_pred ccchhHHHHHHHHHhccC--eeEEEeh-hhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcceEEEe
Confidence 999999999999999986 8888855 99999999999999999999999999999999999999874 35544
No 105
>PRK09694 helicase Cas3; Provisional
Probab=99.23 E-value=1.2e-09 Score=135.75 Aligned_cols=96 Identities=13% Similarity=0.149 Sum_probs=78.2
Q ss_pred eEEEEeccHHHHHHHHHHHHhcC---CeEEEecCCCCHHHH----HHHHHHhc-cCcCceEEEEEecCCCccccccccCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPAR----DRAVKDFN-TDREQITVMLMSLKAGNLGLNMVAAS 925 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~g---i~~~~l~Gs~s~~~R----~~~i~~F~-~~~~~~~VLLiS~kagg~GLNL~~A~ 925 (1008)
++|||++....+..+...|++.+ +.+..++|.++..+| .++++.|. ++......+|++|++...||++ .++
T Consensus 562 ~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~~~ILVaTQViE~GLDI-d~D 640 (878)
T PRK09694 562 QVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQGRILVATQVVEQSLDL-DFD 640 (878)
T ss_pred EEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCCCeEEEECcchhheeec-CCC
Confidence 89999999999999999999775 678999999999999 46788994 3321112456688999999999 578
Q ss_pred EEEEecCCCCCChhhHHHHhhhhcCCc
Q 001834 926 HVILLDLWWNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 926 ~VI~~Dp~WNp~~e~QAigR~~RiGQ~ 952 (1008)
.||....| ...+.||+||++|.|.+
T Consensus 641 vlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 641 WLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred eEEECCCC--HHHHHHHHhccCCCCCC
Confidence 88876554 56899999999999875
No 106
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.18 E-value=2.9e-09 Score=129.82 Aligned_cols=120 Identities=14% Similarity=0.117 Sum_probs=103.4
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++.+.+.+....+. .+||||......+.|...|.+.|+++..++|
T Consensus 412 ~~~K~~aI~~~I~~~~~~gr-----------------------------pVLIft~Si~~se~Ls~~L~~~gi~~~vLna 462 (830)
T PRK12904 412 EKEKFDAVVEDIKERHKKGQ-----------------------------PVLVGTVSIEKSELLSKLLKKAGIPHNVLNA 462 (830)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCceEeccC
Confidence 35799999999988766665 8999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--------------------------------------CCE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--------------------------------------ASH 926 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--------------------------------------A~~ 926 (1008)
. ..+|++.+..|...+ ..|+| +|..+|.|+++.- .=|
T Consensus 463 k--q~eREa~Iia~Ag~~--g~VtI-ATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLh 537 (830)
T PRK12904 463 K--NHEREAEIIAQAGRP--GAVTI-ATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLH 537 (830)
T ss_pred c--hHHHHHHHHHhcCCC--ceEEE-ecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCE
Confidence 6 689999999999876 57777 6699999988543 447
Q ss_pred EEEecCCCCCChhhHHHHhhhhcCCcccEEEE
Q 001834 927 VILLDLWWNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 927 VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
||.-+.+=|-..+.|..||++|.|..-....|
T Consensus 538 VigTerhesrRid~QlrGRagRQGdpGss~f~ 569 (830)
T PRK12904 538 VIGTERHESRRIDNQLRGRSGRQGDPGSSRFY 569 (830)
T ss_pred EEecccCchHHHHHHhhcccccCCCCCceeEE
Confidence 99999999999999999999999998664443
No 107
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.09 E-value=1e-08 Score=124.92 Aligned_cols=129 Identities=14% Similarity=0.155 Sum_probs=109.5
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.++.+.|+ .|||||......+.|...|...|+++..+++
T Consensus 431 ~~~K~~Aii~ei~~~~~~Gr-----------------------------pVLV~t~sv~~se~ls~~L~~~gi~~~vLna 481 (908)
T PRK13107 431 ADEKYQAIIKDIKDCRERGQ-----------------------------PVLVGTVSIEQSELLARLMVKEKIPHEVLNA 481 (908)
T ss_pred HHHHHHHHHHHHHHHHHcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCeEeccC
Confidence 46899999999999888877 9999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc-------------------------------------CCEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA-------------------------------------ASHV 927 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~-------------------------------------A~~V 927 (1008)
.....+|+.+.+.|+.+. | +++|..+|.|+++.= .=||
T Consensus 482 k~~~~Ea~ii~~Ag~~G~----V-tIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~V 556 (908)
T PRK13107 482 KFHEREAEIVAQAGRTGA----V-TIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHI 556 (908)
T ss_pred cccHHHHHHHHhCCCCCc----E-EEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEE
Confidence 999999999999999763 4 457799999998652 3479
Q ss_pred EEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHH
Q 001834 928 ILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILK 972 (1008)
Q Consensus 928 I~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~ 972 (1008)
|.-+.+-|-..+.|..||++|.|..=.-..|- |+|+.++.
T Consensus 557 IgTerheSrRID~QLrGRaGRQGDPGss~f~l-----SlED~L~r 596 (908)
T PRK13107 557 LGTERHESRRIDNQLRGRAGRQGDAGSSRFYL-----SMEDSLMR 596 (908)
T ss_pred EecccCchHHHHhhhhcccccCCCCCceeEEE-----EeCcHHHH
Confidence 99999999999999999999999885533322 45555554
No 108
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.09 E-value=8e-10 Score=124.37 Aligned_cols=95 Identities=18% Similarity=0.226 Sum_probs=88.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
+.||||+..+.+..|.-.|...+|.-..++..|.+++|-+-+++|.+.++ .||| .|++++.||+.+...|||+|..|
T Consensus 465 rTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~~~~--~VLi-aTDVAARGLDIp~V~HVIHYqVP 541 (731)
T KOG0347|consen 465 RTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQSPS--GVLI-ATDVAARGLDIPGVQHVIHYQVP 541 (731)
T ss_pred ceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhcCCC--eEEE-eehhhhccCCCCCcceEEEeecC
Confidence 89999999999999999999999999999999999999999999998763 4555 56999999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCC
Q 001834 934 WNPTTEDQAVDRAHRIGQ 951 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ 951 (1008)
-.-..|..|-||.-|-+.
T Consensus 542 rtseiYVHRSGRTARA~~ 559 (731)
T KOG0347|consen 542 RTSEIYVHRSGRTARANS 559 (731)
T ss_pred CccceeEecccccccccC
Confidence 999999999999999764
No 109
>cd00268 DEADc DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.
Probab=99.03 E-value=1.6e-09 Score=113.92 Aligned_cols=159 Identities=18% Similarity=0.142 Sum_probs=103.3
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCccc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (1008)
.+++||.+++.-+.+ ++..+++-.+|.|||+.++..+.......
T Consensus 21 ~~~~~Q~~~~~~~~~-------~~~~li~~~TG~GKT~~~~~~~l~~~~~~----------------------------- 64 (203)
T cd00268 21 KPTPIQARAIPPLLS-------GRDVIGQAQTGSGKTAAFLIPILEKLDPS----------------------------- 64 (203)
T ss_pred CCCHHHHHHHHHHhc-------CCcEEEECCCCCcHHHHHHHHHHHHHHhh-----------------------------
Confidence 489999999998885 24589999999999998544443311110
Q ss_pred ccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChh-hHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCC-cccc-
Q 001834 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPDKAALSVLIYHGGSRTKD-PVEL- 430 (1008)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-Ll~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~-~~~l- 430 (1008)
.......+|||||.. |+.||...+.++... ...++..++|...... ...+
T Consensus 65 --------------------------~~~~~~~viii~p~~~L~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 117 (203)
T cd00268 65 --------------------------PKKDGPQALILAPTRELALQIAEVARKLGKH-TNLKVVVIYGGTSIDKQIRKLK 117 (203)
T ss_pred --------------------------cccCCceEEEEcCCHHHHHHHHHHHHHHhcc-CCceEEEEECCCCHHHHHHHhc
Confidence 001124589999955 889999999887654 3678888888664321 1222
Q ss_pred CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccc
Q 001834 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (1008)
Q Consensus 431 ~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~ 510 (1008)
...+|+|+|.+.+...+... .+..-
T Consensus 118 ~~~~iiv~T~~~l~~~l~~~-------------------------------------------------------~~~~~ 142 (203)
T cd00268 118 RGPHIVVATPGRLLDLLERG-------------------------------------------------------KLDLS 142 (203)
T ss_pred CCCCEEEEChHHHHHHHHcC-------------------------------------------------------CCChh
Confidence 37899999988775432110 01112
Q ss_pred eeeEEEEccCcccCCcc-chHH-HHHHhcc-cCcEEEEeccCC
Q 001834 511 GWFRVVLDEAQTIKNHR-TQVA-RACCSLR-AKRRWCLSGTPI 550 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~-s~~~-kal~~L~-a~~r~lLTGTPi 550 (1008)
.+.++|+||+|.+.+.. .... ..+..+. ....+++||||-
T Consensus 143 ~l~~lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 143 KVKYLVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred hCCEEEEeChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 35689999999986543 1222 2233343 466899999997
No 110
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.01 E-value=5.5e-08 Score=119.04 Aligned_cols=130 Identities=12% Similarity=0.134 Sum_probs=106.9
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.|......+. .+||||.+....+.|...|...||++..|++
T Consensus 580 ~~eK~~Ali~~I~~~~~~gr-----------------------------pVLIft~Sve~sE~Ls~~L~~~gI~h~vLna 630 (1025)
T PRK12900 580 RREKYNAIVLKVEELQKKGQ-----------------------------PVLVGTASVEVSETLSRMLRAKRIAHNVLNA 630 (1025)
T ss_pred HHHHHHHHHHHHHHHhhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCCceeecC
Confidence 34699999999988776665 9999999999999999999999999999997
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC--------EEEEecCCCCCChhhHHHHhhhhcCCcccEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS--------HVILLDLWWNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~--------~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
...+|++.|..|...+ ..|+| +|..+|.|+++.-.. +||.++.+-+...+.|++||++|.|..=...
T Consensus 631 --kq~~REa~Iia~AG~~--g~VtI-ATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGsS~ 705 (1025)
T PRK12900 631 --KQHDREAEIVAEAGQK--GAVTI-ATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGESV 705 (1025)
T ss_pred --CHHHhHHHHHHhcCCC--CeEEE-eccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcceE
Confidence 5789999999999876 46666 679999999988433 4588899999999999999999999885532
Q ss_pred EEEEEeCCCHHHHHHHH
Q 001834 957 VTRLTIRDTVEDRILKL 973 (1008)
Q Consensus 957 V~rlv~~~TiEe~I~~l 973 (1008)
. |+ |.|+.++.+
T Consensus 706 f--fv---SleD~Lmr~ 717 (1025)
T PRK12900 706 F--YV---SLEDELMRL 717 (1025)
T ss_pred E--Ee---chhHHHHHh
Confidence 2 11 455555543
No 111
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=98.98 E-value=8.5e-09 Score=125.08 Aligned_cols=124 Identities=19% Similarity=0.245 Sum_probs=106.8
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+..|+++|.+..+.+ ++|||++--.-++.|.+.|.+.|+....++|
T Consensus 596 e~eKf~kL~eLl~e~~e~~------------------------------~tiiFv~~qe~~d~l~~~L~~ag~~~~slHG 645 (997)
T KOG0334|consen 596 ENEKFLKLLELLGERYEDG------------------------------KTIIFVDKQEKADALLRDLQKAGYNCDSLHG 645 (997)
T ss_pred chHHHHHHHHHHHHHhhcC------------------------------CEEEEEcCchHHHHHHHHHHhcCcchhhhcC
Confidence 4679999999998877643 9999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIR 963 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~ 963 (1008)
..++.+|...++.|+++. +.+ |+.|+..+.||+...-..||+||.+-....+..|.||..|-|.+- .-|.|+..
T Consensus 646 gv~q~dR~sti~dfK~~~--~~L-LvaTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 646 GVDQHDRSSTIEDFKNGV--VNL-LVATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred CCchHHHHhHHHHHhccC--ceE-EEehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 999999999999999986 444 446689999999999999999999977778888888888888776 34445544
No 112
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=98.98 E-value=1.6e-07 Score=115.35 Aligned_cols=122 Identities=18% Similarity=0.223 Sum_probs=103.6
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..++..+++.|......+. ++|||+.....++.|...|...|+++..++|.
T Consensus 429 ~~q~~~L~~~L~~~~~~g~-----------------------------~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~ 479 (652)
T PRK05298 429 KGQVDDLLSEIRKRVAKGE-----------------------------RVLVTTLTKRMAEDLTDYLKELGIKVRYLHSD 479 (652)
T ss_pred cccHHHHHHHHHHHHhCCC-----------------------------EEEEEeCCHHHHHHHHHHHhhcceeEEEEECC
Confidence 3567888888888776655 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC-----CCCCChhhHHHHhhhhcCCcccEEEEEE
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL-----WWNPTTEDQAVDRAHRIGQTRPVTVTRL 960 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp-----~WNp~~e~QAigR~~RiGQ~k~V~V~rl 960 (1008)
++..+|..+++.|..+. +.|++ ++...+.|+++..++.||++|. +-++..+.|++||+.|- . .=.++.|
T Consensus 480 ~~~~~R~~~l~~f~~g~--i~vlV-~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~ 553 (652)
T PRK05298 480 IDTLERVEIIRDLRLGE--FDVLV-GINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-V--NGKVILY 553 (652)
T ss_pred CCHHHHHHHHHHHHcCC--ceEEE-EeCHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-C--CCEEEEE
Confidence 99999999999998775 66665 6689999999999999999996 45788999999999994 2 2234445
Q ss_pred Ee
Q 001834 961 TI 962 (1008)
Q Consensus 961 v~ 962 (1008)
+.
T Consensus 554 ~~ 555 (652)
T PRK05298 554 AD 555 (652)
T ss_pred ec
Confidence 54
No 113
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=98.97 E-value=1.5e-08 Score=129.32 Aligned_cols=106 Identities=14% Similarity=0.180 Sum_probs=85.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhcC---CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~g---i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~ 930 (1008)
++|||..-...++.+...|.+.+ +.+..++|+++.++|+++++.+ .. .+| |++|..+.+||++....+||.+
T Consensus 281 dILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~---~~-rkI-VLATNIAEtSLTIpgV~yVIDs 355 (1283)
T TIGR01967 281 DILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPH---SG-RRI-VLATNVAETSLTVPGIHYVIDT 355 (1283)
T ss_pred CEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCC---CC-ceE-EEeccHHHhccccCCeeEEEeC
Confidence 89999999999999999999874 4578899999999999985543 22 455 5588999999999999999998
Q ss_pred cCC----C--------------CCChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 931 DLW----W--------------NPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 931 Dp~----W--------------Np~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
+.. + +.+...||.||++|.| +=..|+|+++...+
T Consensus 356 Gl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~ 407 (1283)
T TIGR01967 356 GTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFN 407 (1283)
T ss_pred CCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHH
Confidence 732 2 3347789999999997 66788999876443
No 114
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=98.95 E-value=7.4e-08 Score=116.16 Aligned_cols=86 Identities=20% Similarity=0.154 Sum_probs=65.9
Q ss_pred EecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCCh----------hhHHHHhhhhcC
Q 001834 881 RLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTT----------EDQAVDRAHRIG 950 (1008)
Q Consensus 881 ~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~----------e~QAigR~~RiG 950 (1008)
.-+.+|...+|+-+-+.|..+. ++||. +|...+-|+||++-..+|-=-+.|++.. ..|-+||++|..
T Consensus 401 iHhAGm~r~DR~l~E~~F~~G~--i~vL~-cTaTLAwGVNLPA~aViIKGT~~ydsskg~f~dlgilDVlQifGRAGRPq 477 (1230)
T KOG0952|consen 401 IHHAGMLRSDRQLVEKEFKEGH--IKVLC-CTATLAWGVNLPAYAVIIKGTQVYDSSKGSFVDLGILDVLQIFGRAGRPQ 477 (1230)
T ss_pred hcccccchhhHHHHHHHHhcCC--ceEEE-ecceeeeccCCcceEEEecCCcccccccCceeeehHHHHHHHHhccCCCC
Confidence 3567889999999999999997 78877 5689999999998777775566676663 679999999987
Q ss_pred CcccEEEEEEEeCCCHHHH
Q 001834 951 QTRPVTVTRLTIRDTVEDR 969 (1008)
Q Consensus 951 Q~k~V~V~rlv~~~TiEe~ 969 (1008)
=...=..+.+...+.++-+
T Consensus 478 Fd~~G~giIiTt~dkl~~Y 496 (1230)
T KOG0952|consen 478 FDSSGEGIIITTRDKLDHY 496 (1230)
T ss_pred CCCCceEEEEecccHHHHH
Confidence 6655555556666654443
No 115
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.95 E-value=6.4e-09 Score=112.43 Aligned_cols=97 Identities=19% Similarity=0.267 Sum_probs=89.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..||||+-..++..|...|.+.|..+..++|.+...+|.+++++|+.+. .+||| +|.+.+.|++.+..+.||+||+|
T Consensus 332 qsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~--~kVLi-tTnV~ARGiDv~qVs~VvNydlP 408 (477)
T KOG0332|consen 332 QSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGK--EKVLI-TTNVCARGIDVAQVSVVVNYDLP 408 (477)
T ss_pred heEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCc--ceEEE-EechhhcccccceEEEEEecCCc
Confidence 7799999999999999999999999999999999999999999999997 47776 77999999999999999999998
Q ss_pred C------CCChhhHHHHhhhhcCCcc
Q 001834 934 W------NPTTEDQAVDRAHRIGQTR 953 (1008)
Q Consensus 934 W------Np~~e~QAigR~~RiGQ~k 953 (1008)
- .+.++..||||.+|+|.+-
T Consensus 409 ~~~~~~pD~etYlHRiGRtGRFGkkG 434 (477)
T KOG0332|consen 409 VKYTGEPDYETYLHRIGRTGRFGKKG 434 (477)
T ss_pred cccCCCCCHHHHHHHhcccccccccc
Confidence 4 3568999999999999764
No 116
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=98.91 E-value=4.9e-08 Score=124.24 Aligned_cols=106 Identities=17% Similarity=0.202 Sum_probs=84.2
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCe---EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQ---YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~---~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~ 930 (1008)
++|||......++.+...|...+++ +..++|+++.++|.++++.+ .. .+|+ ++|..+..||++...++||.+
T Consensus 288 dILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~---g~-rkII-VATNIAEtSITIpgI~yVID~ 362 (1294)
T PRK11131 288 DILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH---SG-RRIV-LATNVAETSLTVPGIKYVIDP 362 (1294)
T ss_pred CEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc---CC-eeEE-EeccHHhhccccCcceEEEEC
Confidence 8999999999999999999988765 56789999999999987753 22 4555 588999999999999999997
Q ss_pred c---------------CCCCC---ChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 931 D---------------LWWNP---TTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 931 D---------------p~WNp---~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
+ ++-.| +...||.||++|. .+=..|+|+++...+
T Consensus 363 Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 363 GTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred CCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 5 33333 5677888888887 356677888765443
No 117
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=98.91 E-value=1.6e-08 Score=111.45 Aligned_cols=107 Identities=18% Similarity=0.172 Sum_probs=92.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEec---------------------
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSL--------------------- 912 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~--------------------- 912 (1008)
|+|||.+..+..-.|.-.|++-||+.+.++|.++...|.-+|++||.+- +.++|.|-
T Consensus 270 KsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNkG~--YdivIAtD~s~~~~~~eee~kgk~~e~~~ 347 (569)
T KOG0346|consen 270 KSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNKGL--YDIVIATDDSADGDKLEEEVKGKSDEKNP 347 (569)
T ss_pred ceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhCcc--eeEEEEccCccchhhhhccccccccccCC
Confidence 9999999999999999999999999999999999999999999999986 77777664
Q ss_pred ---C-C---------CccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 913 ---K-A---------GNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 913 ---k-a---------gg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
+ + .+.|++++..+.||+||.|-++..++.|+||..|-|.+-.+ .-|+...
T Consensus 348 kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~Gta--lSfv~P~ 410 (569)
T KOG0346|consen 348 KNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKGTA--LSFVSPK 410 (569)
T ss_pred CCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCCce--EEEecch
Confidence 0 1 24699999999999999999999999999999998876543 3355443
No 118
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=98.85 E-value=6.1e-09 Score=105.90 Aligned_cols=158 Identities=19% Similarity=0.253 Sum_probs=104.2
Q ss_pred hhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCcccccc
Q 001834 277 KHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDKV 356 (1008)
Q Consensus 277 pyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (1008)
|+|.+++.-+.+. .-.++...+|.|||..++..+......
T Consensus 2 ~~Q~~~~~~i~~~-------~~~li~aptGsGKT~~~~~~~l~~~~~--------------------------------- 41 (169)
T PF00270_consen 2 PLQQEAIEAIISG-------KNVLISAPTGSGKTLAYILPALNRLQE--------------------------------- 41 (169)
T ss_dssp HHHHHHHHHHHTT-------SEEEEECSTTSSHHHHHHHHHHHHHHT---------------------------------
T ss_pred HHHHHHHHHHHcC-------CCEEEECCCCCccHHHHHHHHHhhhcc---------------------------------
Confidence 8999999988832 126999999999999887555432111
Q ss_pred cccCCCCCCCCCCcccccccccCCCCCCCceEEEcCh-hhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCC-C-cccc-CC
Q 001834 357 KETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTK-D-PVEL-AK 432 (1008)
Q Consensus 357 k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~-sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~-~-~~~l-~~ 432 (1008)
.....+||+||. .++.|-.+++.+++.. ..+++..++|..... . ...+ ..
T Consensus 42 -------------------------~~~~~~lii~P~~~l~~q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (169)
T PF00270_consen 42 -------------------------GKDARVLIIVPTRALAEQQFERLRKFFSN-TNVRVVLLHGGQSISEDQREVLSNQ 95 (169)
T ss_dssp -------------------------TSSSEEEEEESSHHHHHHHHHHHHHHTTT-TTSSEEEESTTSCHHHHHHHHHHTT
T ss_pred -------------------------CCCceEEEEeecccccccccccccccccc-ccccccccccccccccccccccccc
Confidence 111258999995 5889999999998775 357778877765422 1 1122 46
Q ss_pred CcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCccccee
Q 001834 433 YDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKVGW 512 (1008)
Q Consensus 433 ~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~~w 512 (1008)
.+|+|+|++.+...+... .+.....
T Consensus 96 ~~ilv~T~~~l~~~~~~~-------------------------------------------------------~~~~~~~ 120 (169)
T PF00270_consen 96 ADILVTTPEQLLDLISNG-------------------------------------------------------KINISRL 120 (169)
T ss_dssp SSEEEEEHHHHHHHHHTT-------------------------------------------------------SSTGTTE
T ss_pred ccccccCcchhhcccccc-------------------------------------------------------ccccccc
Confidence 999999999987532110 0011226
Q ss_pred eEEEEccCcccCCc--cchHHHHHHhc---ccCcEEEEeccCCCCChhH
Q 001834 513 FRVVLDEAQTIKNH--RTQVARACCSL---RAKRRWCLSGTPIQNSIDD 556 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~--~s~~~kal~~L---~a~~r~lLTGTPi~N~l~D 556 (1008)
.+||+||+|.+... .......+..+ +..+.+++||||- ..+.+
T Consensus 121 ~~iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 121 SLIVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp SEEEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred eeeccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 78999999998663 22223333333 2356899999997 55544
No 119
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.84 E-value=5.9e-07 Score=107.39 Aligned_cols=130 Identities=15% Similarity=0.128 Sum_probs=100.1
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.|+ -|||.+......+.|...|.+.||++.+++.
T Consensus 409 ~~~k~~Aii~ei~~~~~~Gr-----------------------------PVLVgt~sI~~SE~ls~~L~~~gI~h~vLNA 459 (764)
T PRK12326 409 AAEKNDAIVEHIAEVHETGQ-----------------------------PVLVGTHDVAESEELAERLRAAGVPAVVLNA 459 (764)
T ss_pred HHHHHHHHHHHHHHHHHcCC-----------------------------CEEEEeCCHHHHHHHHHHHHhCCCcceeecc
Confidence 45799999999998888776 8999999999999999999999999999998
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc---------------CCEEEEecCCCCCChhhHHHHhhhhc
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA---------------ASHVILLDLWWNPTTEDQAVDRAHRI 949 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~---------------A~~VI~~Dp~WNp~~e~QAigR~~Ri 949 (1008)
... ++-.++|.+=-.. -.|.| +|.-+|.|-++.- .=|||.-+.+-|-..+.|..||+.|.
T Consensus 460 k~~-~~EA~IIa~AG~~---gaVTI-ATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQ 534 (764)
T PRK12326 460 KND-AEEARIIAEAGKY---GAVTV-STQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQ 534 (764)
T ss_pred Cch-HhHHHHHHhcCCC---CcEEE-EecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccC
Confidence 743 3334555543222 24444 7789999977653 44899999999999999999999999
Q ss_pred CCcccEEEEEEEeCCCHHHHHHHH
Q 001834 950 GQTRPVTVTRLTIRDTVEDRILKL 973 (1008)
Q Consensus 950 GQ~k~V~V~rlv~~~TiEe~I~~l 973 (1008)
|..=....|- |+|+.++.+
T Consensus 535 GDpGss~f~l-----SleDdl~~~ 553 (764)
T PRK12326 535 GDPGSSVFFV-----SLEDDVVAA 553 (764)
T ss_pred CCCCceeEEE-----EcchhHHHh
Confidence 9986544432 455555543
No 120
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.83 E-value=2.6e-08 Score=107.81 Aligned_cols=247 Identities=19% Similarity=0.199 Sum_probs=146.4
Q ss_pred ccchhhHHHHHHHHHhhccCC---CccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCC
Q 001834 274 NLLKHQKIALAWMLQKETRSL---HCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGN 350 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~---~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 350 (1008)
.|=.-|+++|.+..++....+ ...|-+|+|.+|.||-.|+-++|..+...
T Consensus 37 ~LS~~QLEaV~yA~q~h~~~Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~--------------------------- 89 (303)
T PF13872_consen 37 LLSALQLEAVIYACQRHEQILPGGSRAGFFLGDGTGVGKGRQIAGIILENWLR--------------------------- 89 (303)
T ss_pred cccHHHHHHHHHHHHHHHhhcccccCcEEEeccCCCcCccchhHHHHHHHHHc---------------------------
Confidence 477899999999987655322 23688999999999999998888764332
Q ss_pred cccccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCcccc
Q 001834 351 AGLDKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVEL 430 (1008)
Q Consensus 351 ~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l 430 (1008)
.+.+++-|-+...|..-=.+.+...-.. .+.+.....-++.. .. -
T Consensus 90 -------------------------------Gr~r~vwvS~s~dL~~Da~RDl~DIG~~--~i~v~~l~~~~~~~-~~-~ 134 (303)
T PF13872_consen 90 -------------------------------GRKRAVWVSVSNDLKYDAERDLRDIGAD--NIPVHPLNKFKYGD-II-R 134 (303)
T ss_pred -------------------------------CCCceEEEECChhhhhHHHHHHHHhCCC--cccceechhhccCc-CC-C
Confidence 2223455555566776666677654322 33343333322221 11 1
Q ss_pred CCCcEEEechhhhhccCCCCCCCchhhhhhhcCcccCccchhhhhhhhcccccccccccCCCCCCCCCCcccCCCCcccc
Q 001834 431 AKYDVVLTTYSIVTNEVPKQPSVDEEEADEKNGETYGLSSEFSVNKKRKKISNVSKRGKKGKKGNVNSSIDYGCGPLAKV 510 (1008)
Q Consensus 431 ~~~dVVItTy~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~k~~~~~~~~~~~~~~~~~~~L~~~ 510 (1008)
-+..|+.+||++|..+.... .++..+ ++....-+ .-
T Consensus 135 ~~~GvlF~TYs~L~~~~~~~---------------------------~~~~sR----------------l~ql~~W~-g~ 170 (303)
T PF13872_consen 135 LKEGVLFSTYSTLISESQSG---------------------------GKYRSR----------------LDQLVDWC-GE 170 (303)
T ss_pred CCCCccchhHHHHHhHHhcc---------------------------CCccch----------------HHHHHHHH-hc
Confidence 25579999999998652110 000000 00000000 01
Q ss_pred ee-eEEEEccCcccCCccc------hHHHHHHhcc----cCcEEEEeccCCCCChhHHHHHHHH--Hc-cCCcchhHHHH
Q 001834 511 GW-FRVVLDEAQTIKNHRT------QVARACCSLR----AKRRWCLSGTPIQNSIDDLYSYFRF--LK-YDPYAVYKSFY 576 (1008)
Q Consensus 511 ~w-~rVIiDEAH~iKN~~s------~~~kal~~L~----a~~r~lLTGTPi~N~l~DL~sll~f--L~-~~~~~~~~~F~ 576 (1008)
.| .+||+||||..||..+ ++..++..|+ .-+.+-.|||.... +..|--+-++ -. ..+|.++.+|.
T Consensus 171 dfdgvivfDEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~NmaYm~RLGLWG~gtpf~~~~~f~ 249 (303)
T PF13872_consen 171 DFDGVIVFDECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNMAYMSRLGLWGPGTPFPDFDDFL 249 (303)
T ss_pred CCCceEEeccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-CceeeeeeeccccCCCCCCCCHHHHH
Confidence 12 2799999999999654 6777777663 33678899998733 3333222221 11 13466777777
Q ss_pred HHcccCcccCchhHHHHHHHHH--HHhhhhhccccccCCCccccCCCCeEEEEEecCCHHHHHHHHH
Q 001834 577 STIKIPISRNSLHGYKKLQAVL--RAIMLRRTKGTFIDGQPIINLPPKTISLTKVDFSKEEWAFYKK 641 (1008)
Q Consensus 577 ~~~~~pi~~~~~~~~~~L~~ll--~~~~lRRtk~~v~~g~~~i~LP~k~~~~v~v~ls~~e~~~Y~~ 641 (1008)
..++ ++....++.+..-| ...+++|.. .+-.....++.+++++++.++|+.
T Consensus 250 ~a~~----~gGv~amE~vA~dlKa~G~yiaR~L----------Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 250 EAME----KGGVGAMEMVAMDLKARGMYIARQL----------SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred HHHH----hcCchHHHHHHHHHHhcchheeeec----------ccCCceEEEEEecCCHHHHHHhcC
Confidence 6654 33334444443333 235666654 345567789999999999999974
No 121
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=98.78 E-value=1.8e-08 Score=108.93 Aligned_cols=137 Identities=20% Similarity=0.283 Sum_probs=115.2
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..|+..|++.|++.. .+||||+.-..-.|-|.++|--.|+..+.|+|+
T Consensus 407 EaKiVylLeCLQKT~--------------------------------PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGG 454 (610)
T KOG0341|consen 407 EAKIVYLLECLQKTS--------------------------------PPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGG 454 (610)
T ss_pred hhhhhhHHHHhccCC--------------------------------CceEEEeccccChHHHHHHHHHccceeEEeecC
Confidence 579999999887642 289999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCC
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDT 965 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~T 965 (1008)
..+++|...|+.|+.+. ..||+ .|++++-||+++...|||+||.|-.-..+..||||.+|-|.+-- -..|+-+++
T Consensus 455 KDQedR~~ai~afr~gk--KDVLV-ATDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~Gi--ATTfINK~~ 529 (610)
T KOG0341|consen 455 KDQEDRHYAIEAFRAGK--KDVLV-ATDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTGI--ATTFINKNQ 529 (610)
T ss_pred cchhHHHHHHHHHhcCC--CceEE-EecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcce--eeeeecccc
Confidence 99999999999999987 46666 66999999999999999999999888888899999999887743 334666776
Q ss_pred HHHHHHH----HHHHHHH
Q 001834 966 VEDRILK----LQDDKRK 979 (1008)
Q Consensus 966 iEe~I~~----lq~~K~~ 979 (1008)
-|.-++. +++.|++
T Consensus 530 ~esvLlDLK~LL~EakQ~ 547 (610)
T KOG0341|consen 530 EESVLLDLKHLLQEAKQE 547 (610)
T ss_pred hHHHHHHHHHHHHHhhcc
Confidence 6655554 4556654
No 122
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.77 E-value=2.3e-06 Score=92.26 Aligned_cols=102 Identities=14% Similarity=0.159 Sum_probs=77.9
Q ss_pred eEEEEeccHHHHHHHHHHHHhc-C-CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH-C-IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~-g-i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
-++||.....+++-+.+.|++. + ...+.++... ..|.+.++.|+++. .++|| +|.....|+.+...+..++=.
T Consensus 307 P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~d--~~R~EkV~~fR~G~--~~lLi-TTTILERGVTfp~vdV~Vlga 381 (441)
T COG4098 307 PVLIFFPEIETMEQVAAALKKKLPKETIASVHSED--QHRKEKVEAFRDGK--ITLLI-TTTILERGVTFPNVDVFVLGA 381 (441)
T ss_pred cEEEEecchHHHHHHHHHHHhhCCccceeeeeccC--ccHHHHHHHHHcCc--eEEEE-EeehhhcccccccceEEEecC
Confidence 7999999999999999999544 3 2334454443 68999999999985 55555 778999999999999877754
Q ss_pred CC--CCCChhhHHHHhhhhcCCccc--EEEEEE
Q 001834 932 LW--WNPTTEDQAVDRAHRIGQTRP--VTVTRL 960 (1008)
Q Consensus 932 p~--WNp~~e~QAigR~~RiGQ~k~--V~V~rl 960 (1008)
-. ++.+...|--||++|--..-. |..+++
T Consensus 382 eh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~ 414 (441)
T COG4098 382 EHRVFTESALVQIAGRVGRSLERPTGDVLFFHY 414 (441)
T ss_pred CcccccHHHHHHHhhhccCCCcCCCCcEEEEec
Confidence 44 889999999999999755433 444444
No 123
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.77 E-value=2.7e-07 Score=115.10 Aligned_cols=125 Identities=13% Similarity=0.118 Sum_probs=95.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhcc--CcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT--DREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~--~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
|++|-++-...+..++..|+..+..++.+|+.++..+|.+.++...+ ..+ -..++++|++.-+|+|+. .+. ++-|
T Consensus 442 kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~-~~~IvVaTQVIEagvDid-fd~-mITe 518 (733)
T COG1203 442 KVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQN-EGFIVVATQVIEAGVDID-FDV-LITE 518 (733)
T ss_pred cEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhcc-CCeEEEEeeEEEEEeccc-cCe-eeec
Confidence 99999999999999999999998889999999999999998886553 111 234455889999999998 343 3444
Q ss_pred CCCCCChhhHHHHhhhhcC--CcccEEEEEEEeCCCHHHHHHHHHHHHHHHHH
Q 001834 932 LWWNPTTEDQAVDRAHRIG--QTRPVTVTRLTIRDTVEDRILKLQDDKRKMVA 982 (1008)
Q Consensus 932 p~WNp~~e~QAigR~~RiG--Q~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~ 982 (1008)
+. -.....||.||++|-| ....++|+...-......+.++....+.....
T Consensus 519 ~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~ 570 (733)
T COG1203 519 LA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKLKSLE 570 (733)
T ss_pred CC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhhcccc
Confidence 42 3457889999999999 45568888887777777776666655554433
No 124
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.71 E-value=1.2e-07 Score=117.92 Aligned_cols=103 Identities=17% Similarity=0.152 Sum_probs=96.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
-.||||....+.+.+...|...|+....|+++|+.++|+.+.+.|..+. ++|++++ =|.|-|+|-....-||+|..|
T Consensus 487 s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~~--~~VivAT-VAFGMGIdK~DVR~ViH~~lP 563 (941)
T KOG0351|consen 487 SGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSDK--IRVIVAT-VAFGMGIDKPDVRFVIHYSLP 563 (941)
T ss_pred CeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcCC--CeEEEEE-eeccCCCCCCceeEEEECCCc
Confidence 6799999999999999999999999999999999999999999999987 7777755 799999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTR 959 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~r 959 (1008)
-+...+-|-+||++|-|+...++.|+
T Consensus 564 ks~E~YYQE~GRAGRDG~~s~C~l~y 589 (941)
T KOG0351|consen 564 KSFEGYYQEAGRAGRDGLPSSCVLLY 589 (941)
T ss_pred hhHHHHHHhccccCcCCCcceeEEec
Confidence 99999999999999999998866654
No 125
>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi. The member from Schizosaccharomyces pombe (Fission yeast) is referred to as Ccq1 in Q10432 from SWISSPROT. These proteins associate with HDA1 to generate the activity of the HDA1 histone deacetylase complex. HDA1 interacts with itself and with the HDA2-HDA3 subcomplex to form a probable tetramer and these interactions are necessary for catalytic activity. The HDA1 histone deacetylase complex is responsible for the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4). Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. HDA2 and HDA3 have a conserved coiled-coil domain towards their C terminus []. ; PDB: 3HGQ_C 3HGT_B.
Probab=98.70 E-value=5.9e-07 Score=99.20 Aligned_cols=227 Identities=15% Similarity=0.176 Sum_probs=129.7
Q ss_pred eEEEEEecCCHHHHHHHHHHHHHHHHHHHHHhhcCCCcch---------HHHHHHHHHHHHhhccccccccccccccccc
Q 001834 623 TISLTKVDFSKEEWAFYKKLESDSLKKFKAFADAGTVNQN---------YANILLMLLRLRQACDHPLLVKEYDFDSVGK 693 (1008)
Q Consensus 623 ~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~g~~~~~---------~~~il~~l~rLRq~c~hP~l~~~~~~~~~~~ 693 (1008)
.+..+.++|+..|+++|+.+.......+..+......... ...+-.++.+|+.+|+||.|+.+......
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~-- 81 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQ-- 81 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S---
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCccc--
Confidence 3577899999999999999999888888777654433332 24567788999999999998754322100
Q ss_pred chHHHhhcCChHHHHHHHHhcccccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecc
Q 001834 694 ISGEMAKRLPRDMLIDLLSRLETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSK 773 (1008)
Q Consensus 694 ~~~e~~~~l~~~~~~~l~~~le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~ 773 (1008)
+.
T Consensus 82 --------ll---------------------------------------------------------------------- 83 (297)
T PF11496_consen 82 --------LL---------------------------------------------------------------------- 83 (297)
T ss_dssp --------S-----------------------------------------------------------------------
T ss_pred --------cc----------------------------------------------------------------------
Confidence 00
Q ss_pred cccccccCCCCCCCCCCCccccccCCcCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCc
Q 001834 774 TTLKNCVSDDGGGSPTDSPFADKSGILDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPI 853 (1008)
Q Consensus 774 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 853 (1008)
.........+.|+|+..|-++|..+..... ...+.
T Consensus 84 ---------------------~~e~~~~~~~tS~KF~~L~~Li~~li~~~~------------------------~~~~~ 118 (297)
T PF11496_consen 84 ---------------------LSEPAEWLAYTSGKFQFLNDLIDSLIDRDR------------------------REYPL 118 (297)
T ss_dssp ---------------------STTHHHHHHHT-HHHHHHHHHHHHH-----------------------------TTSSE
T ss_pred ---------------------cchHHHHHHHcCchHHHHHHHHHHHHhhhc------------------------ccCCc
Confidence 000001112469999999999988854221 11234
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHH------------HHhc-cCcCceEEEEEecCCCcc---
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAV------------KDFN-TDREQITVMLMSLKAGNL--- 917 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i------------~~F~-~~~~~~~VLLiS~kagg~--- 917 (1008)
++||.++...++|+||..|.-.++.|-+++|..-..+....- .... .+.....|.|+++.-...
T Consensus 119 ~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~ 198 (297)
T PF11496_consen 119 HILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEKHKVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKP 198 (297)
T ss_dssp EEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S---S----------------------SEEEEEEESS---TTTS
T ss_pred eEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCccccCCcccccccccccccccccccccceEEEEecCccccccCC
Confidence 999999999999999999999999999999986554443332 0111 111237788877654433
Q ss_pred -ccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHH
Q 001834 918 -GLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQD 975 (1008)
Q Consensus 918 -GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~ 975 (1008)
.++-...+.||-+|+.+++....-..-|...-.+ +.+-|++|++.+|+|--++....
T Consensus 199 ~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~~PiirLv~~nSiEHi~L~~~~ 256 (297)
T PF11496_consen 199 PLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RLCPIIRLVPSNSIEHIELCFPK 256 (297)
T ss_dssp --TT-S-EEEEEE-SST--TTSHHHHHHH--------S--EEEEEETTSHHHHHHHHTT
T ss_pred CccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CCCcEEEEeeCCCHHHHHHHccC
Confidence 2334457889999999999875543333332222 78999999999999988766554
No 126
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=98.68 E-value=1.4e-07 Score=115.20 Aligned_cols=125 Identities=18% Similarity=0.235 Sum_probs=105.7
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..++..+++.|......+. ++|||+.....++.|...|...|+++..++|.
T Consensus 425 ~~qi~~Ll~eI~~~~~~g~-----------------------------~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~ 475 (655)
T TIGR00631 425 DGQVDDLLSEIRQRVARNE-----------------------------RVLVTTLTKKMAEDLTDYLKELGIKVRYLHSE 475 (655)
T ss_pred cchHHHHHHHHHHHHcCCC-----------------------------EEEEEECCHHHHHHHHHHHhhhccceeeeeCC
Confidence 4578888888888776655 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec-----CCCCCChhhHHHHhhhhcCCcccEEEEEE
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD-----LWWNPTTEDQAVDRAHRIGQTRPVTVTRL 960 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D-----p~WNp~~e~QAigR~~RiGQ~k~V~V~rl 960 (1008)
++..+|.++++.|..+. +.|++ ++...++|+++..++.||++| .+-+...+.|++||+.|.. . -.|+.|
T Consensus 476 ~~~~eR~~~l~~fr~G~--i~VLV-~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~-~--G~vi~~ 549 (655)
T TIGR00631 476 IDTLERVEIIRDLRLGE--FDVLV-GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV-N--GKVIMY 549 (655)
T ss_pred CCHHHHHHHHHHHhcCC--ceEEE-EcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC-C--CEEEEE
Confidence 99999999999998875 67766 668999999999999999999 4557789999999999973 2 234445
Q ss_pred EeCCC
Q 001834 961 TIRDT 965 (1008)
Q Consensus 961 v~~~T 965 (1008)
+...|
T Consensus 550 ~~~~~ 554 (655)
T TIGR00631 550 ADKIT 554 (655)
T ss_pred EcCCC
Confidence 54443
No 127
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.64 E-value=1e-06 Score=102.95 Aligned_cols=88 Identities=20% Similarity=0.265 Sum_probs=66.5
Q ss_pred HHHhccCcCceEEEEEecCCCccccccccCCEE--------EEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCH
Q 001834 895 VKDFNTDREQITVMLMSLKAGNLGLNMVAASHV--------ILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTV 966 (1008)
Q Consensus 895 i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V--------I~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~Ti 966 (1008)
-++|-++. ..|-|+| .|.+.|+.||.-.+| |-+++||+...-+|-+||.||-.|-..-....||.+=-=
T Consensus 850 KqrFM~Ge--K~vAIIS-EAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlIseLAG 926 (1300)
T KOG1513|consen 850 KQRFMDGE--KLVAIIS-EAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLISELAG 926 (1300)
T ss_pred Hhhhcccc--ceeeeee-hhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEehhhcc
Confidence 46787776 5788888 899999999985544 668999999999999999999999987666566665555
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 001834 967 EDRILKLQDDKRKMVASAF 985 (1008)
Q Consensus 967 Ee~I~~lq~~K~~l~~~~~ 985 (1008)
|.|...+..++.+-..++-
T Consensus 927 ErRFAS~VAKRLESLGALT 945 (1300)
T KOG1513|consen 927 ERRFASIVAKRLESLGALT 945 (1300)
T ss_pred chHHHHHHHHHHHhhcccc
Confidence 6666666666655554443
No 128
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.63 E-value=6.7e-06 Score=101.01 Aligned_cols=130 Identities=13% Similarity=0.144 Sum_probs=98.9
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.++ -|||-+.+...-+.|...|.+.||++.+++.
T Consensus 550 ~~~k~~ai~~ei~~~~~~gr-----------------------------PvLigt~si~~se~ls~~L~~~gi~h~vLNa 600 (970)
T PRK12899 550 EREKYHAIVAEIASIHRKGN-----------------------------PILIGTESVEVSEKLSRILRQNRIEHTVLNA 600 (970)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCcceeccc
Confidence 35899999999988887776 8999999999999999999999999999988
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--------CCEEEEecCCCCCChhhHHHHhhhhcCCcccEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--------ASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--------A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
... +.-.++|.+= +.. -.|.| +|..+|.|.+..- .=|||.-..+-|...+.|..||+.|.|..-...
T Consensus 601 k~~-~~Ea~iia~A--G~~-g~VTI-ATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGss~ 675 (970)
T PRK12899 601 KNH-AQEAEIIAGA--GKL-GAVTV-ATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGAAK 675 (970)
T ss_pred chh-hhHHHHHHhc--CCC-CcEEE-eeccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCcee
Confidence 743 2233455433 221 24444 6788999977543 447999999999999999999999999986533
Q ss_pred EEEEEeCCCHHHHHHHH
Q 001834 957 VTRLTIRDTVEDRILKL 973 (1008)
Q Consensus 957 V~rlv~~~TiEe~I~~l 973 (1008)
.|- |+|+.++.+
T Consensus 676 f~l-----SlEDdL~~~ 687 (970)
T PRK12899 676 FFL-----SFEDRLMRL 687 (970)
T ss_pred EEE-----EcchHHHHH
Confidence 322 456665543
No 129
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.59 E-value=7.2e-07 Score=98.09 Aligned_cols=103 Identities=17% Similarity=0.102 Sum_probs=93.3
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
-.||||.-+...+.+.-.|..+||+...++.+....+|.++.+.|-++. +.|+. .|-+.|.|++=.....||+.+++
T Consensus 257 CGIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~~--~PvI~-AT~SFGMGVDKp~VRFViHW~~~ 333 (641)
T KOG0352|consen 257 CGIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNNE--IPVIA-ATVSFGMGVDKPDVRFVIHWSPS 333 (641)
T ss_pred ceEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcCC--CCEEE-EEeccccccCCcceeEEEecCch
Confidence 4699999999999999999999999999999999999999999998876 56666 55789999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEE
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTR 959 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~r 959 (1008)
-|.+.+-|--||++|-|-..-+..|+
T Consensus 334 qn~AgYYQESGRAGRDGk~SyCRLYY 359 (641)
T KOG0352|consen 334 QNLAGYYQESGRAGRDGKRSYCRLYY 359 (641)
T ss_pred hhhHHHHHhccccccCCCccceeeee
Confidence 99999999999999999876666654
No 130
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.59 E-value=4.7e-05 Score=86.87 Aligned_cols=137 Identities=18% Similarity=0.237 Sum_probs=110.5
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..-++-|+..++...+.+. ++||-+--..|++-|..+|.+.||++..++..
T Consensus 429 ~~QvdDL~~EI~~r~~~~e-----------------------------RvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSd 479 (663)
T COG0556 429 KGQVDDLLSEIRKRVAKNE-----------------------------RVLVTTLTKKMAEDLTEYLKELGIKVRYLHSD 479 (663)
T ss_pred CCcHHHHHHHHHHHHhcCC-----------------------------eEEEEeehHHHHHHHHHHHHhcCceEEeeecc
Confidence 3456677777777666554 99999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC-----CCCChhhHHHHhhhhcCCcccEEEEEE
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW-----WNPTTEDQAVDRAHRIGQTRPVTVTRL 960 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~-----WNp~~e~QAigR~~RiGQ~k~V~V~rl 960 (1008)
...-+|.++|.+.+.+. ..||+ .....-+||+|+.++-|.++|.. -+.....|-|||+-|--.-+ |..|-=
T Consensus 480 idTlER~eIirdLR~G~--~DvLV-GINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~Gk-vIlYAD 555 (663)
T COG0556 480 IDTLERVEIIRDLRLGE--FDVLV-GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNGK-VILYAD 555 (663)
T ss_pred chHHHHHHHHHHHhcCC--ccEEE-eehhhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCCe-EEEEch
Confidence 99999999999999986 67776 56889999999999999999976 56778999999999954433 444433
Q ss_pred EeCCCHHHHHHHHHH
Q 001834 961 TIRDTVEDRILKLQD 975 (1008)
Q Consensus 961 v~~~TiEe~I~~lq~ 975 (1008)
.+.++++..|-+-.+
T Consensus 556 ~iT~sM~~Ai~ET~R 570 (663)
T COG0556 556 KITDSMQKAIDETER 570 (663)
T ss_pred hhhHHHHHHHHHHHH
Confidence 344566666655443
No 131
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.55 E-value=1.2e-06 Score=96.50 Aligned_cols=114 Identities=21% Similarity=0.236 Sum_probs=101.0
Q ss_pred chhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecCC
Q 001834 806 SSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGT 885 (1008)
Q Consensus 806 SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs 885 (1008)
..|..+|+.++.+...+ ++.|||+.-...++++...|...|+....+.|+
T Consensus 245 a~K~aaLl~il~~~~~~------------------------------~~t~vf~~tk~hve~~~~ll~~~g~~~s~iyss 294 (529)
T KOG0337|consen 245 AEKEAALLSILGGRIKD------------------------------KQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSS 294 (529)
T ss_pred HHHHHHHHHHHhccccc------------------------------cceeEEecccchHHHHHHHHHhcCCCccccccc
Confidence 56778888888776542 278999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCc
Q 001834 886 MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 886 ~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~ 952 (1008)
+.+..|..-+.+|+... ..+ |+.++.++.|++..--+.||+||.+=.+.....|.||+.|-|.+
T Consensus 295 lD~~aRk~~~~~F~~~k--~~~-lvvTdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt 358 (529)
T KOG0337|consen 295 LDQEARKINGRDFRGRK--TSI-LVVTDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT 358 (529)
T ss_pred cChHhhhhccccccCCc--cce-EEEehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc
Confidence 99999999999999875 344 55679999999999999999999999999999999999999976
No 132
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.50 E-value=5e-06 Score=101.94 Aligned_cols=120 Identities=14% Similarity=0.170 Sum_probs=94.9
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.|+ -|||-+.+...-+.|...|.+.||++-+++.
T Consensus 431 ~~eK~~Ai~~ei~~~~~~Gr-----------------------------PVLVGT~SVe~SE~ls~~L~~~gi~h~VLNA 481 (913)
T PRK13103 431 AEEKYAAIITDIKECMALGR-----------------------------PVLVGTATIETSEHMSNLLKKEGIEHKVLNA 481 (913)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEEeCCHHHHHHHHHHHHHcCCcHHHhcc
Confidence 46799999999999888877 8999999999999999999999999988887
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc-------------------------------------cCCEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV-------------------------------------AASHV 927 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~-------------------------------------~A~~V 927 (1008)
... ++-.++|. +.+.. -.|.| +|..+|.|-+.. ..=||
T Consensus 482 k~~-~~EA~IIa--~AG~~-GaVTI-ATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhV 556 (913)
T PRK13103 482 KYH-EKEAEIIA--QAGRP-GALTI-ATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHV 556 (913)
T ss_pred ccc-hhHHHHHH--cCCCC-CcEEE-eccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEE
Confidence 643 33334555 33332 34555 678999997764 24479
Q ss_pred EEecCCCCCChhhHHHHhhhhcCCcccEEEE
Q 001834 928 ILLDLWWNPTTEDQAVDRAHRIGQTRPVTVT 958 (1008)
Q Consensus 928 I~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~ 958 (1008)
|.-+.+=|-..+.|..||+.|.|..-....|
T Consensus 557 IgTerheSrRID~QLrGRaGRQGDPGsS~f~ 587 (913)
T PRK13103 557 IASERHESRRIDNQLRGRAGRQGDPGSSRFY 587 (913)
T ss_pred EeeccCchHHHHHHhccccccCCCCCceEEE
Confidence 9999999999999999999999998654443
No 133
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.49 E-value=2.7e-06 Score=104.38 Aligned_cols=73 Identities=22% Similarity=0.263 Sum_probs=58.9
Q ss_pred CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEE----EecCC---CC---CChhhHHHHh
Q 001834 876 CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVI----LLDLW---WN---PTTEDQAVDR 945 (1008)
Q Consensus 876 gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI----~~Dp~---WN---p~~e~QAigR 945 (1008)
.+.|+.-+.+|+..+|+..-+-|.++. ++||+ ||...+-|+||.+-..+| .|||. |. |....|..||
T Consensus 607 pygfaIHhAGl~R~dR~~~EdLf~~g~--iqvlv-statlawgvnlpahtViikgtqvy~pekg~w~elsp~dv~qmlgr 683 (1674)
T KOG0951|consen 607 PYGFAIHHAGLNRKDRELVEDLFADGH--IQVLV-STATLAWGVNLPAHTVIIKGTQVYDPEKGRWTELSPLDVMQMLGR 683 (1674)
T ss_pred hccceeeccCCCcchHHHHHHHHhcCc--eeEEE-eehhhhhhcCCCcceEEecCccccCcccCccccCCHHHHHHHHhh
Confidence 356777899999999999999999886 78888 889999999998654444 46665 43 5578899999
Q ss_pred hhhcCC
Q 001834 946 AHRIGQ 951 (1008)
Q Consensus 946 ~~RiGQ 951 (1008)
++|.+-
T Consensus 684 agrp~~ 689 (1674)
T KOG0951|consen 684 AGRPQY 689 (1674)
T ss_pred cCCCcc
Confidence 999863
No 134
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.48 E-value=3.8e-06 Score=102.18 Aligned_cols=96 Identities=17% Similarity=0.219 Sum_probs=69.7
Q ss_pred HHHHHHHHhc--CCeEEEecCCCCHHH--HHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC--C-CCC-
Q 001834 866 DLVENSLNQH--CIQYRRLDGTMSLPA--RDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW--W-NPT- 937 (1008)
Q Consensus 866 d~L~~~L~~~--gi~~~~l~Gs~s~~~--R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~--W-Np~- 937 (1008)
+.+++.|... +.+++++|++++..+ -+.+++.|.++. +.||| -|+...-|+|+....-|.++|.+ - +|.
T Consensus 494 erieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge--~dILi-GTQmiaKG~~fp~vtLVgvl~aD~~L~~~Df 570 (730)
T COG1198 494 ERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGE--ADILI-GTQMIAKGHDFPNVTLVGVLDADTGLGSPDF 570 (730)
T ss_pred HHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCC--CCeee-cchhhhcCCCcccceEEEEEechhhhcCCCc
Confidence 3444455544 678899999886544 467899999987 57777 55899999999999888777665 2 222
Q ss_pred --------hhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 938 --------TEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 938 --------~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
.+.|..||++|-+-.-.|.|-.+....
T Consensus 571 RA~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~h 605 (730)
T COG1198 571 RASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDH 605 (730)
T ss_pred chHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCc
Confidence 566999999998776666666655543
No 135
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.41 E-value=6.8e-07 Score=97.98 Aligned_cols=106 Identities=19% Similarity=0.314 Sum_probs=96.3
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..+||++..+-++.|...|..+++....++|.|.+.+|..+.+.|+.+. .+||| ++...+.|++++..+-||+||+|
T Consensus 265 q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~gs--srvlI-ttdl~argidv~~~slvinydlP 341 (397)
T KOG0327|consen 265 QAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSGS--SRVLI-TTDLLARGIDVQQVSLVVNYDLP 341 (397)
T ss_pred cceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcCC--ceEEe-eccccccccchhhcceeeeeccc
Confidence 7799999999999999999999999999999999999999999999987 57877 66899999999999999999999
Q ss_pred CCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 934 WNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 934 WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
=|...+..++||..|.|.+ -.+..++++.
T Consensus 342 ~~~~~yihR~gr~gr~grk--g~~in~v~~~ 370 (397)
T KOG0327|consen 342 ARKENYIHRIGRAGRFGRK--GVAINFVTEE 370 (397)
T ss_pred cchhhhhhhcccccccCCC--ceeeeeehHh
Confidence 9999999999999999976 3344566554
No 136
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.39 E-value=1.3e-05 Score=99.55 Aligned_cols=60 Identities=17% Similarity=0.103 Sum_probs=39.4
Q ss_pred CEEEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHH-HHHHHhhcC
Q 001834 925 SHVILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRILKLQDDKR-KMVASAFGE 987 (1008)
Q Consensus 925 ~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~~lq~~K~-~l~~~~~g~ 987 (1008)
++||+|||.-...+..| +-|+.|.|. ++.||.|+..+|+||.-|....+|. +++..++.+
T Consensus 478 ~~VImYEP~~sfIR~IE-vyra~r~~r--~~rVyfL~y~~S~EEq~yl~sirrEK~AFe~LIre 538 (814)
T TIGR00596 478 RYVIMYEPDISFIRQLE-VYKASRPLR--PLRVYFLYYGGSIEEQRYLTSLRREKDAFTKLIRE 538 (814)
T ss_pred CEEEEECCChHHHHHHH-HHHccCCCC--CcEEEEEEECCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999655545545 124445444 3899999999999998665544443 344444443
No 137
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.38 E-value=3.6e-05 Score=93.72 Aligned_cols=119 Identities=12% Similarity=0.102 Sum_probs=95.4
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.++ -|||.|......+.|...|.+.||++.+++.
T Consensus 408 ~~~K~~Aii~ei~~~~~~gq-----------------------------PVLVgT~SIe~SE~ls~~L~~~gi~h~vLNA 458 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHKKGQ-----------------------------PILIGTAQVEDSETLHELLLEANIPHTVLNA 458 (925)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEEeCcHHHHHHHHHHHHHCCCCceeecc
Confidence 46899999999988877776 8999999999999999999999999999998
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC--------EEEEecCCCCCChhhHHHHhhhhcCCcccEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS--------HVILLDLWWNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~--------~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
.. .++++.|=. +.+.. -.|.| +|..+|.|-+..-.. |||..+.+-|-..+.|..||++|.|..-...
T Consensus 459 k~--~e~EA~IIa-~AG~~-GaVTI-ATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss~ 533 (925)
T PRK12903 459 KQ--NAREAEIIA-KAGQK-GAITI-ATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGESR 533 (925)
T ss_pred cc--hhhHHHHHH-hCCCC-CeEEE-ecccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcce
Confidence 64 344443332 44432 34555 679999998876543 8999999999999999999999999886544
Q ss_pred E
Q 001834 957 V 957 (1008)
Q Consensus 957 V 957 (1008)
.
T Consensus 534 f 534 (925)
T PRK12903 534 F 534 (925)
T ss_pred E
Confidence 4
No 138
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=98.37 E-value=0.00013 Score=93.20 Aligned_cols=98 Identities=22% Similarity=0.276 Sum_probs=72.2
Q ss_pred eEEEEeccHHHHHHHHHHHHh----cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC--EE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ----HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS--HV 927 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~----~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~--~V 927 (1008)
++|||.....+++.+...|.. .++.. +..... ..|.+++++|+.+. ..||| .+....+|+++..-. .|
T Consensus 676 ~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~--~~iLl-gt~sf~EGVD~~g~~l~~v 749 (850)
T TIGR01407 676 KILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGE--KAILL-GTSSFWEGVDFPGNGLVCL 749 (850)
T ss_pred CEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCC--CeEEE-EcceeecccccCCCceEEE
Confidence 899999999999999999875 24443 333332 57999999999865 45666 559999999999844 56
Q ss_pred EEecCCCC-CC-----------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 928 ILLDLWWN-PT-----------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 928 I~~Dp~WN-p~-----------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
|+.-+|+- |. ...|++||+.|-.+.+.|.+
T Consensus 750 iI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v~ 809 (850)
T TIGR01407 750 VIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSIV 809 (850)
T ss_pred EEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEEE
Confidence 77765642 21 34599999999988887533
No 139
>PF13871 Helicase_C_4: Helicase_C-like
Probab=98.31 E-value=9.7e-07 Score=95.49 Aligned_cols=94 Identities=21% Similarity=0.261 Sum_probs=80.2
Q ss_pred HHHHHhccCcCceEEEEEecCCCccccccccC----C---E-EEEecCCCCCChhhHHHHhhhhcCCcccEEEEEEEeCC
Q 001834 893 RAVKDFNTDREQITVMLMSLKAGNLGLNMVAA----S---H-VILLDLWWNPTTEDQAVDRAHRIGQTRPVTVTRLTIRD 964 (1008)
Q Consensus 893 ~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A----~---~-VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~V~rlv~~~ 964 (1008)
...+.|+++. ..|+|+| .||++|+.||+- | + .|.++++|+.....|-+||+||-||..+..+..+++.-
T Consensus 52 ~e~~~F~~g~--k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~~ 128 (278)
T PF13871_consen 52 AEKQAFMDGE--KDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTDL 128 (278)
T ss_pred HHHHHHhCCC--ceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecCC
Confidence 5678999996 6899998 999999999962 2 2 47899999999999999999999999886666677777
Q ss_pred CHHHHHHHHHHHHHHHHHHhhcCCC
Q 001834 965 TVEDRILKLQDDKRKMVASAFGEDQ 989 (1008)
Q Consensus 965 TiEe~I~~lq~~K~~l~~~~~g~~~ 989 (1008)
..|.|......+|.+-..+...++.
T Consensus 129 ~gE~Rfas~va~rL~sLgAlt~gdr 153 (278)
T PF13871_consen 129 PGERRFASTVARRLESLGALTRGDR 153 (278)
T ss_pred HHHHHHHHHHHHHHhhccccccCcc
Confidence 8899999999999998888776653
No 140
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.30 E-value=1.9e-05 Score=85.54 Aligned_cols=104 Identities=16% Similarity=0.132 Sum_probs=91.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLW 933 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~ 933 (1008)
..||||-...-.+.+...|+.+||....++..+.+.+|.-+-..|-.+. ++|++.+ -+.|.|++-+....||+-..+
T Consensus 319 sgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a~e--iqvivat-vafgmgidkpdvrfvihhsl~ 395 (695)
T KOG0353|consen 319 SGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIAGE--IQVIVAT-VAFGMGIDKPDVRFVIHHSLP 395 (695)
T ss_pred cceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccccc--eEEEEEE-eeecccCCCCCeeEEEecccc
Confidence 5689998888899999999999999999999999999999988888776 8898855 789999999999999999999
Q ss_pred CCCChhhH-------------------------------------------HHHhhhhcCCcccEEEEEE
Q 001834 934 WNPTTEDQ-------------------------------------------AVDRAHRIGQTRPVTVTRL 960 (1008)
Q Consensus 934 WNp~~e~Q-------------------------------------------AigR~~RiGQ~k~V~V~rl 960 (1008)
-+-..+-| --||++|-|++-++..|+=
T Consensus 396 ksienyyqasarillrmtkqknksdtggstqinilevctnfkiffavfsekesgragrd~~~a~cilyy~ 465 (695)
T KOG0353|consen 396 KSIENYYQASARILLRMTKQKNKSDTGGSTQINILEVCTNFKIFFAVFSEKESGRAGRDDMKADCILYYG 465 (695)
T ss_pred hhHHHHHHHHHHHHHHHhhhcccccCCCcceeehhhhhccceeeeeeecchhccccccCCCcccEEEEec
Confidence 88888888 4588899999988766653
No 141
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.27 E-value=6.9e-05 Score=91.34 Aligned_cols=73 Identities=14% Similarity=0.234 Sum_probs=60.7
Q ss_pred eEEEEecc---HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCC---Ccccccccc-CCE
Q 001834 854 KSIVFSQW---TRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKA---GNLGLNMVA-ASH 926 (1008)
Q Consensus 854 KvIIFSq~---~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~ka---gg~GLNL~~-A~~ 926 (1008)
-.|||.+- .+.++.|...|+.+|+.+..++.. +.+.++.|..+. +.||+....- .-.||+|+. ..+
T Consensus 337 GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~-----~~~~le~F~~Ge--idvLVGvAsyYG~lVRGlDLP~rirY 409 (1187)
T COG1110 337 GGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-----KEEALEDFEEGE--VDVLVGVASYYGVLVRGLDLPHRIRY 409 (1187)
T ss_pred CeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----chhhhhhhccCc--eeEEEEecccccceeecCCchhheeE
Confidence 45999998 899999999999999998877663 368999999987 8888866444 335999997 788
Q ss_pred EEEecCC
Q 001834 927 VILLDLW 933 (1008)
Q Consensus 927 VI~~Dp~ 933 (1008)
+||+..|
T Consensus 410 aIF~GvP 416 (1187)
T COG1110 410 AVFYGVP 416 (1187)
T ss_pred EEEecCC
Confidence 9999998
No 142
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.20 E-value=0.00012 Score=88.29 Aligned_cols=77 Identities=22% Similarity=0.197 Sum_probs=53.8
Q ss_pred EEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC---------CCCCChhhHHHHhhhhcC
Q 001834 880 RRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL---------WWNPTTEDQAVDRAHRIG 950 (1008)
Q Consensus 880 ~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp---------~WNp~~e~QAigR~~RiG 950 (1008)
++-+|+.=+--++-+-.-|+.+= ++||+ +|...+.|+|+++=+.|| -.. .-+|.-+.|..||++|-|
T Consensus 634 aVHH~GlLPivKE~VE~LFqrGl--VKVLF-ATETFAMGVNMPARtvVF-~Sl~KhDG~efR~L~PGEytQMAGRAGRRG 709 (1248)
T KOG0947|consen 634 AVHHGGLLPIVKEVVELLFQRGL--VKVLF-ATETFAMGVNMPARTVVF-SSLRKHDGNEFRELLPGEYTQMAGRAGRRG 709 (1248)
T ss_pred hhhcccchHHHHHHHHHHHhcCc--eEEEe-ehhhhhhhcCCCceeEEe-eehhhccCcceeecCChhHHhhhccccccc
Confidence 34455554444555555677775 77777 669999999999766555 221 257999999999999999
Q ss_pred CcccEEEEEE
Q 001834 951 QTRPVTVTRL 960 (1008)
Q Consensus 951 Q~k~V~V~rl 960 (1008)
=...=+|..+
T Consensus 710 lD~tGTVii~ 719 (1248)
T KOG0947|consen 710 LDETGTVIIM 719 (1248)
T ss_pred cCcCceEEEE
Confidence 8766444433
No 143
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=5.7e-06 Score=85.05 Aligned_cols=57 Identities=33% Similarity=0.751 Sum_probs=46.9
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeec
Q 001834 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFS 772 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~ 772 (1008)
.+...|.||+|..++||+|.|||+||-.|+.+|+....+.--+|.|+..+..+.++.
T Consensus 45 ~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvP 101 (230)
T KOG0823|consen 45 GGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVP 101 (230)
T ss_pred CCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEe
Confidence 456789999999999999999999999999999875554333357888888877654
No 144
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=97.82 E-value=5.3e-05 Score=83.68 Aligned_cols=94 Identities=19% Similarity=0.233 Sum_probs=84.3
Q ss_pred ceEEEEeccHHHHHHHHHHHHhcC---CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQHC---IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL 929 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~g---i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~ 929 (1008)
+|.||||.-..-.|-|++.+.+.| +..+.++|+..+.+|.+-++.|...+ ++.|| .+++++.||+++....||+
T Consensus 506 dkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~d--vkfli-ctdvaargldi~g~p~~in 582 (725)
T KOG0349|consen 506 DKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFD--VKFLI-CTDVAARGLDITGLPFMIN 582 (725)
T ss_pred CceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcC--eEEEE-EehhhhccccccCCceEEE
Confidence 499999999999999999999885 56788999999999999999999876 66666 5599999999999999999
Q ss_pred ecCCCCCChhhHHHHhhhhc
Q 001834 930 LDLWWNPTTEDQAVDRAHRI 949 (1008)
Q Consensus 930 ~Dp~WNp~~e~QAigR~~Ri 949 (1008)
+.+|-....+..||||+.|.
T Consensus 583 vtlpd~k~nyvhrigrvgra 602 (725)
T KOG0349|consen 583 VTLPDDKTNYVHRIGRVGRA 602 (725)
T ss_pred EecCcccchhhhhhhccchh
Confidence 99999999999999888774
No 145
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=97.75 E-value=9.4e-05 Score=71.84 Aligned_cols=41 Identities=17% Similarity=0.259 Sum_probs=22.6
Q ss_pred cceeeEEEEccCcccCCccchHHHHH-Hhc-cc--CcEEEEeccCC
Q 001834 509 KVGWFRVVLDEAQTIKNHRTQVARAC-CSL-RA--KRRWCLSGTPI 550 (1008)
Q Consensus 509 ~~~w~rVIiDEAH~iKN~~s~~~kal-~~L-~a--~~r~lLTGTPi 550 (1008)
..+|++||+||||.. ++.|-..+-. ..+ .. ...+++||||.
T Consensus 93 ~~~yd~II~DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTATPP 137 (148)
T PF07652_consen 93 LKNYDVIIMDECHFT-DPTSIAARGYLRELAESGEAKVIFMTATPP 137 (148)
T ss_dssp TTS-SEEEECTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS-T
T ss_pred ccCccEEEEeccccC-CHHHHhhheeHHHhhhccCeeEEEEeCCCC
Confidence 456999999999974 3333322221 122 12 35899999995
No 146
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.73 E-value=0.0025 Score=78.50 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=63.1
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+....++ -|||-+.....-+.|...|.+.||++.+++.
T Consensus 406 ~~~K~~AI~~ei~~~~~~gr-----------------------------PVLIgT~SIe~SE~ls~~L~~~gi~h~vLNA 456 (870)
T CHL00122 406 ELSKWRAIADECLQMHQTGR-----------------------------PILIGTTTIEKSELLSQLLKEYRLPHQLLNA 456 (870)
T ss_pred HHHHHHHHHHHHHHHHhcCC-----------------------------CEEEeeCCHHHHHHHHHHHHHcCCccceeeC
Confidence 35699999999888877776 8999999999999999999999999999998
Q ss_pred CC-CHHHHHHHHHHhccCcCceEEEEEecCCCccccc
Q 001834 885 TM-SLPARDRAVKDFNTDREQITVMLMSLKAGNLGLN 920 (1008)
Q Consensus 885 s~-s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLN 920 (1008)
.. ..++-.++|.+= +.. -.|-| +|..+|.|.+
T Consensus 457 k~~~~~~EA~IIA~A--G~~-G~VTI-ATNMAGRGTD 489 (870)
T CHL00122 457 KPENVRRESEIVAQA--GRK-GSITI-ATNMAGRGTD 489 (870)
T ss_pred CCccchhHHHHHHhc--CCC-CcEEE-eccccCCCcC
Confidence 74 234444566652 321 24444 6678888744
No 147
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.72 E-value=0.00013 Score=83.60 Aligned_cols=109 Identities=22% Similarity=0.258 Sum_probs=85.6
Q ss_pred CCceEEEEeccHHHHHHHHHHHHhcCCe-EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE
Q 001834 851 GPIKSIVFSQWTRMLDLVENSLNQHCIQ-YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL 929 (1008)
Q Consensus 851 ~~~KvIIFSq~~~~ld~L~~~L~~~gi~-~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~ 929 (1008)
+++-|+-||.- -+-.+...++++|.. .++|.|+.+++.|.+--..||+..+.+.||+.| +|.|-||||- ..+|||
T Consensus 357 ~GDCvV~FSkk--~I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~e~dvlVAs-DAIGMGLNL~-IrRiiF 432 (700)
T KOG0953|consen 357 PGDCVVAFSKK--DIFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSNECDVLVAS-DAIGMGLNLN-IRRIIF 432 (700)
T ss_pred CCCeEEEeehh--hHHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCCccceEEee-cccccccccc-eeEEEE
Confidence 35578888753 455567778888776 999999999999999999999977669999977 9999999995 688999
Q ss_pred ecCC-CC--------CChhhHHHHhhhhcCCccc-EEEEEEEeC
Q 001834 930 LDLW-WN--------PTTEDQAVDRAHRIGQTRP-VTVTRLTIR 963 (1008)
Q Consensus 930 ~Dp~-WN--------p~~e~QAigR~~RiGQ~k~-V~V~rlv~~ 963 (1008)
+++- +| -....|--||++|.|.+-+ =.|..|-.+
T Consensus 433 ~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl~~e 476 (700)
T KOG0953|consen 433 YSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTLHSE 476 (700)
T ss_pred eecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEeeHh
Confidence 9876 22 2355699999999998755 455555444
No 148
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=97.72 E-value=0.0045 Score=77.83 Aligned_cols=78 Identities=22% Similarity=0.264 Sum_probs=60.1
Q ss_pred EecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEE----Eec----CCCCCChhhHHHHhhhhcCCc
Q 001834 881 RLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVI----LLD----LWWNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 881 ~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI----~~D----p~WNp~~e~QAigR~~RiGQ~ 952 (1008)
.-++++=+.-|..+-.-|+.+= ++|++ .|.+.+.|+|+.+=+.|+ -+| -|-+|..+.|--||++|-|+.
T Consensus 449 vHH~GlLP~~K~~vE~Lfq~GL--vkvvF-aTeT~s~GiNmPartvv~~~l~K~dG~~~r~L~~gEy~QmsGRAGRRGlD 525 (1041)
T COG4581 449 VHHAGLLPAIKELVEELFQEGL--VKVVF-ATETFAIGINMPARTVVFTSLSKFDGNGHRWLSPGEYTQMSGRAGRRGLD 525 (1041)
T ss_pred hhccccchHHHHHHHHHHhccc--eeEEe-ehhhhhhhcCCcccceeeeeeEEecCCceeecChhHHHHhhhhhcccccc
Confidence 4578888899999999999986 67777 568999999998644443 222 345788999999999999999
Q ss_pred ccEEEEEEE
Q 001834 953 RPVTVTRLT 961 (1008)
Q Consensus 953 k~V~V~rlv 961 (1008)
..-+|....
T Consensus 526 ~~G~vI~~~ 534 (1041)
T COG4581 526 VLGTVIVIE 534 (1041)
T ss_pred ccceEEEec
Confidence 875554443
No 149
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=97.67 E-value=0.00045 Score=86.21 Aligned_cols=37 Identities=16% Similarity=0.174 Sum_probs=30.5
Q ss_pred EEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCC
Q 001834 514 RVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQ 551 (1008)
Q Consensus 514 rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~ 551 (1008)
.||+||+|++... .+.++++..|+....+.-|||--.
T Consensus 204 ivIiDEPh~~~~~-~k~~~~i~~lnpl~~lrysAT~~~ 240 (986)
T PRK15483 204 VVIIDEPHRFPRD-NKFYQAIEALKPQMIIRFGATFPD 240 (986)
T ss_pred EEEEECCCCCCcc-hHHHHHHHhcCcccEEEEeeecCC
Confidence 5999999999652 346788899999999999999754
No 150
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.63 E-value=0.005 Score=76.74 Aligned_cols=118 Identities=15% Similarity=0.152 Sum_probs=93.9
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.|+ -|||-+.+...-+.|...|...||++-+|+.
T Consensus 610 ~~eK~~Aii~ei~~~~~~Gr-----------------------------PVLVGT~SVe~SE~lS~~L~~~gI~H~VLNA 660 (1112)
T PRK12901 610 KREKYNAVIEEITELSEAGR-----------------------------PVLVGTTSVEISELLSRMLKMRKIPHNVLNA 660 (1112)
T ss_pred HHHHHHHHHHHHHHHHHCCC-----------------------------CEEEEeCcHHHHHHHHHHHHHcCCcHHHhhc
Confidence 46899999999999988877 8999999999999999999999999988887
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc--------cCCEEEEecCCCCCChhhHHHHhhhhcCCcccEE
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV--------AASHVILLDLWWNPTTEDQAVDRAHRIGQTRPVT 956 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~--------~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~V~ 956 (1008)
..- ++-.++|.+= +.. -.|-| +|.-+|.|-+.. ..=|||.-+.+-+...+.|..||++|.|..-...
T Consensus 661 K~h-~~EAeIVA~A--G~~-GaVTI-ATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGsS~ 735 (1112)
T PRK12901 661 KLH-QKEAEIVAEA--GQP-GTVTI-ATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGSSQ 735 (1112)
T ss_pred cch-hhHHHHHHhc--CCC-CcEEE-eccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCcce
Confidence 643 2223444433 221 24545 668889997765 4568999999999999999999999999885533
No 151
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=97.60 E-value=3.8e-05 Score=77.87 Aligned_cols=55 Identities=29% Similarity=0.728 Sum_probs=43.1
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcC-------------CCCCCCCcccccccccceee
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG-------------DDNMCPAPRCKEQLGADVVF 771 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~-------------~~~~cp~~~c~~~l~~~~~~ 771 (1008)
+...|+||.+...+|+++.|||+||..|+.+|+.. ......+|.|+..+....++
T Consensus 17 ~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 17 GDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 45689999999999999999999999999998642 11233455899988766544
No 152
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.47 E-value=0.015 Score=71.18 Aligned_cols=70 Identities=21% Similarity=0.215 Sum_probs=59.5
Q ss_pred ecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecC-CCCCChhhHHHHhhhhcCCccc
Q 001834 882 LDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDL-WWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 882 l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp-~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
-+.++....|..+---|+.+. ..|++ +|...+.|+|+++-..|+.-|. --||-.+.|+.||++|-|=..-
T Consensus 968 HHaglNr~yR~~VEvLFR~g~--L~Vlf-aT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~l 1038 (1330)
T KOG0949|consen 968 HHAGLNRKYRSLVEVLFRQGH--LQVLF-ATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDTL 1038 (1330)
T ss_pred cccccchHHHHHHHHHhhcCc--eEEEE-EeeehhcccCCCceeEEEeccccccCchhHHhhhccccccccccc
Confidence 567888899999988999886 78877 6799999999998877777764 4899999999999999985543
No 153
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.47 E-value=6e-05 Score=57.67 Aligned_cols=34 Identities=32% Similarity=0.717 Sum_probs=28.8
Q ss_pred ccccCCCCCCccccccCcccchhhhhhhhcCCCC
Q 001834 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDN 754 (1008)
Q Consensus 721 c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~ 754 (1008)
|++|.+...+|+...|||.||..|+..++.....
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~ 34 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSG 34 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCC
Confidence 8999999999999999999999999999875443
No 154
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=97.44 E-value=5.5e-05 Score=57.02 Aligned_cols=37 Identities=43% Similarity=1.053 Sum_probs=31.3
Q ss_pred ccccCCCCCCc-cccccCcccchhhhhhhhcCCCCCCCC
Q 001834 721 CCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPA 758 (1008)
Q Consensus 721 c~ic~d~~~~~-v~t~CgH~fc~~ci~~~~~~~~~~cp~ 758 (1008)
|++|.+.+.+| +++.|||+||.+|+.+++.. ...||.
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~ 38 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPV 38 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcC
Confidence 78999999999 79999999999999999987 677773
No 155
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.44 E-value=0.0028 Score=75.10 Aligned_cols=83 Identities=22% Similarity=0.221 Sum_probs=51.4
Q ss_pred cCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec--------CCCCCChhhHHHHhhhhcCCccc
Q 001834 883 DGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD--------LWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 883 ~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D--------p~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
+++.=+--++-+---|+.+= ++||+ .|...+-|||+++-..|+--- -|-+-.-+.|.-||++|-|-...
T Consensus 453 HsGLLPIlKE~IEILFqEGL--vKvLF-ATETFsiGLNMPAkTVvFT~~rKfDG~~fRwissGEYIQMSGRAGRRG~Ddr 529 (1041)
T KOG0948|consen 453 HSGLLPILKEVIEILFQEGL--VKVLF-ATETFSIGLNMPAKTVVFTAVRKFDGKKFRWISSGEYIQMSGRAGRRGIDDR 529 (1041)
T ss_pred cccchHHHHHHHHHHHhccH--HHHHH-hhhhhhhccCCcceeEEEeeccccCCcceeeecccceEEecccccccCCCCC
Confidence 34443333444444566654 66666 569999999999766655432 24456688999999999997654
Q ss_pred EEEEEEEeCCCHHHH
Q 001834 955 VTVTRLTIRDTVEDR 969 (1008)
Q Consensus 955 V~V~rlv~~~TiEe~ 969 (1008)
=.|. +++...+|..
T Consensus 530 GivI-lmiDekm~~~ 543 (1041)
T KOG0948|consen 530 GIVI-LMIDEKMEPQ 543 (1041)
T ss_pred ceEE-EEecCcCCHH
Confidence 3332 3444444443
No 156
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.38 E-value=0.0018 Score=67.54 Aligned_cols=45 Identities=22% Similarity=0.201 Sum_probs=42.1
Q ss_pred EEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCcc
Q 001834 909 LMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTR 953 (1008)
Q Consensus 909 LiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k 953 (1008)
++++...|.|++....|.||+||.+-.+.++..+.+|+.|.|-+-
T Consensus 302 ~vat~lfgrgmdiervNi~~NYdmp~~~DtYlHrv~rAgrfGtkg 346 (387)
T KOG0329|consen 302 LVATDLFGRGMDIERVNIVFNYDMPEDSDTYLHRVARAGRFGTKG 346 (387)
T ss_pred hHHhhhhccccCcccceeeeccCCCCCchHHHHHhhhhhcccccc
Confidence 557899999999999999999999999999999999999999764
No 157
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=97.38 E-value=0.028 Score=66.71 Aligned_cols=111 Identities=19% Similarity=0.245 Sum_probs=76.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhc----C--C--eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH----C--I--QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS 925 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~----g--i--~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~ 925 (1008)
-+|||=.-..-++.+.+.|.+. + . -+.-++|+++.++..++ |...+.+.+-+++||..+.+.|......
T Consensus 260 DILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~rv---F~p~p~g~RKvIlsTNIAETSlTI~GI~ 336 (674)
T KOG0922|consen 260 DILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSRV---FDPAPPGKRKVILSTNIAETSLTIDGIR 336 (674)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhcc---ccCCCCCcceEEEEcceeeeeEEecceE
Confidence 5566665555555555444433 1 1 24568999998775544 6655544777777999999999988887
Q ss_pred EEE----EecCCCCC-----------ChhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 926 HVI----LLDLWWNP-----------TTEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 926 ~VI----~~Dp~WNp-----------~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
+|| .---.||| ....||.-|++|-|.+.+...|||+++.-.+
T Consensus 337 YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~~ 393 (674)
T KOG0922|consen 337 YVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAYD 393 (674)
T ss_pred EEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHHh
Confidence 775 11122444 3567889999999999999999999988764
No 158
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=97.38 E-value=7.2e-05 Score=62.86 Aligned_cols=48 Identities=13% Similarity=0.271 Sum_probs=39.5
Q ss_pred ccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 719 AICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 719 ~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
..|++|.+.+.+|+++.|||+||..|+.+++.. ...|| .|+..+..+.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP--~~~~~~~~~~ 49 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDP--VTGQPLTHED 49 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCC--CCcCCCChhh
Confidence 369999999999999999999999999999976 55676 4666654443
No 159
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=97.34 E-value=0.00055 Score=87.64 Aligned_cols=71 Identities=11% Similarity=0.171 Sum_probs=47.8
Q ss_pred HHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCc-cc-EEEEEEE
Q 001834 889 PARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQT-RP-VTVTRLT 961 (1008)
Q Consensus 889 ~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~-k~-V~V~rlv 961 (1008)
..+.....+|..+.+.+++||+. .-.=+|-+-+..+++++ |-+--.....||+.|+.|+=-. |+ -.|..|+
T Consensus 578 ~~~~~~~~r~~~~~d~~kilIV~-dmlLTGFDaP~L~TmYv-DK~Lk~H~L~QAisRtNR~~~~~K~~G~IVDf~ 650 (962)
T COG0610 578 DEKKDLIKRFKLKDDPLDLLIVV-DMLLTGFDAPCLNTLYV-DKPLKYHNLIQAISRTNRVFPGKKKFGLIVDFR 650 (962)
T ss_pred HHHhhhhhhhcCcCCCCCEEEEE-ccccccCCccccceEEe-ccccccchHHHHHHHhccCCCCCCCCcEEEECc
Confidence 34455666664333448888877 66667888888777655 5556777888999999998544 33 4444444
No 160
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.33 E-value=0.0001 Score=83.88 Aligned_cols=52 Identities=31% Similarity=0.766 Sum_probs=44.9
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhcCC--CCCCCCcccccccccce
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~--~~~cp~~~c~~~l~~~~ 769 (1008)
...||||+.++..|+.|.|||+||..|+-.|+... ...|-||.|+..+....
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kd 239 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKD 239 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccc
Confidence 67899999999999999999999999999998643 56777889998887643
No 161
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.28 E-value=0.022 Score=71.09 Aligned_cols=111 Identities=21% Similarity=0.205 Sum_probs=75.3
Q ss_pred eEEEEeccHHHHHHHHHHHHh----cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEE-
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ----HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVI- 928 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~----~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI- 928 (1008)
-+|||=.-...++.+.+.|.+ ..+.++-++|.++.++..+ -|+..+.+.+-+++||..+.++|......+||
T Consensus 261 dILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~r---vF~p~~~~~RKVVlATNIAETSLTI~gIr~VID 337 (845)
T COG1643 261 SILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVR---VFEPAPGGKRKVVLATNIAETSLTIPGIRYVID 337 (845)
T ss_pred CEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHh---hcCCCCCCcceEEEEccccccceeeCCeEEEec
Confidence 678887777777777777776 3577888999999888777 46655554453566889999999999988887
Q ss_pred -------EecCCCCCC-------hhhHHHHhhhhcCCcccEEEEEEEeCCCHH
Q 001834 929 -------LLDLWWNPT-------TEDQAVDRAHRIGQTRPVTVTRLTIRDTVE 967 (1008)
Q Consensus 929 -------~~Dp~WNp~-------~e~QAigR~~RiGQ~k~V~V~rlv~~~TiE 967 (1008)
.||+--.-. .-..|.-|++|-|.+.+=..|||+.++..+
T Consensus 338 sG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR~~pGicyRLyse~~~~ 390 (845)
T COG1643 338 SGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGRTGPGICYRLYSEEDFL 390 (845)
T ss_pred CCcccccccccccCceeeeEEEechhhhhhhccccccCCCceEEEecCHHHHH
Confidence 333321111 222334444455556677889999886555
No 162
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.21 E-value=0.00017 Score=76.49 Aligned_cols=52 Identities=29% Similarity=0.854 Sum_probs=43.2
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceee
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVF 771 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~ 771 (1008)
....|.+|++...+|-.|+|||+||-.||.+|...... || .||.......++
T Consensus 238 a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~e-CP--lCR~~~~pskvi 289 (293)
T KOG0317|consen 238 ATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKAE-CP--LCREKFQPSKVI 289 (293)
T ss_pred CCCceEEEecCCCCCCcCcCcchHHHHHHHHHHccccC-CC--cccccCCCccee
Confidence 45689999999999999999999999999999865444 65 899877766543
No 163
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.20 E-value=0.00013 Score=71.93 Aligned_cols=49 Identities=35% Similarity=0.843 Sum_probs=36.4
Q ss_pred ccccccccCCCCC--CccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 717 SSAICCVCSDPPE--DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 717 ~~~~c~ic~d~~~--~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
+...|++|++... .++.|.|||+||.+|+.+.+.. ...|| .|+..|...
T Consensus 130 ~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~-~~~CP--~C~kkIt~k 180 (187)
T KOG0320|consen 130 GTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKN-TNKCP--TCRKKITHK 180 (187)
T ss_pred cccCCCceecchhhccccccccchhHHHHHHHHHHHh-CCCCC--Ccccccchh
Confidence 4467999998765 4678999999999999998753 34666 555555443
No 164
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=97.19 E-value=0.065 Score=65.80 Aligned_cols=91 Identities=15% Similarity=0.222 Sum_probs=68.1
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--CCEEEEe-
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--ASHVILL- 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--A~~VI~~- 930 (1008)
+|-|||....+.++++..+...+..+..+++..+..+ ++.+ .+ ++|++-+ .+..+|+++-. -+.|+.|
T Consensus 284 nIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d----v~~W---~~-~~VviYT-~~itvG~Sf~~~HF~~~f~yv 354 (824)
T PF02399_consen 284 NICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED----VESW---KK-YDVVIYT-PVITVGLSFEEKHFDSMFAYV 354 (824)
T ss_pred cEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc----cccc---cc-eeEEEEe-ceEEEEeccchhhceEEEEEe
Confidence 9999999999999999999999999999988776552 2333 22 7888866 68889999875 3446555
Q ss_pred -cCCCCCCh--hhHHHHhhhhcCCcc
Q 001834 931 -DLWWNPTT--EDQAVDRAHRIGQTR 953 (1008)
Q Consensus 931 -Dp~WNp~~--e~QAigR~~RiGQ~k 953 (1008)
.-..-|.. ..|.+||+..+...+
T Consensus 355 k~~~~gpd~~s~~Q~lgRvR~l~~~e 380 (824)
T PF02399_consen 355 KPMSYGPDMVSVYQMLGRVRSLLDNE 380 (824)
T ss_pred cCCCCCCcHHHHHHHHHHHHhhccCe
Confidence 22234553 589999999887654
No 165
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.16 E-value=0.012 Score=72.16 Aligned_cols=106 Identities=21% Similarity=0.255 Sum_probs=66.0
Q ss_pred CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCC-----CCChhhHHHHhhhhcCC
Q 001834 877 IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWW-----NPTTEDQAVDRAHRIGQ 951 (1008)
Q Consensus 877 i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~W-----Np~~e~QAigR~~RiGQ 951 (1008)
+.++..+.+.+.++|.-+=..|+.+. ++|+..+ ...+.|+||.+ .+||+=-|.. .-..+.|.+||++|.|=
T Consensus 523 ~GvAyHhaGLT~eER~~iE~afr~g~--i~vl~aT-STlaaGVNLPA-rRVIiraP~~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 523 YGVAYHHAGLTSEEREIIEAAFREGN--IFVLVAT-STLAAGVNLPA-RRVIIRAPYVGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred ccceecccccccchHHHHHHHHHhcC--eEEEEec-chhhccCcCCc-ceeEEeCCccccchhhhhhHHhhhhhhhhccc
Confidence 34556777888899988888999886 6777755 56889999985 5555544443 34478899999999984
Q ss_pred -cccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHhhcCC
Q 001834 952 -TRPVTVTRLTIRDTVEDRILKLQDDKRKMVASAFGED 988 (1008)
Q Consensus 952 -~k~V~V~rlv~~~TiEe~I~~lq~~K~~l~~~~~g~~ 988 (1008)
+..=-| |+++..=..++.++...=.....+.++++
T Consensus 599 dT~Gdsi--LI~k~~e~~~~~~lv~~~~~~~~S~l~~e 634 (1008)
T KOG0950|consen 599 DTLGDSI--LIIKSSEKKRVRELVNSPLKPLNSCLSNE 634 (1008)
T ss_pred ccCcceE--EEeeccchhHHHHHHhccccccccccccc
Confidence 333222 33443333344344443333344444444
No 166
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.11 E-value=0.019 Score=70.93 Aligned_cols=85 Identities=14% Similarity=0.133 Sum_probs=65.5
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+.+..+.|+ -|||-+.....-+.|...|.+.||++.+++.
T Consensus 421 ~~~K~~Ai~~ei~~~~~~Gr-----------------------------PVLIgT~SVe~SE~ls~~L~~~gi~h~vLNA 471 (939)
T PRK12902 421 EIAKWRAVANETAEMHKQGR-----------------------------PVLVGTTSVEKSELLSALLQEQGIPHNLLNA 471 (939)
T ss_pred HHHHHHHHHHHHHHHHhCCC-----------------------------CEEEeeCCHHHHHHHHHHHHHcCCchheeeC
Confidence 36899999999988887776 8999999999999999999999999999998
Q ss_pred C-CCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc
Q 001834 885 T-MSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV 922 (1008)
Q Consensus 885 s-~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~ 922 (1008)
. ...++-.++|.+= +.. -.|-| +|..+|.|-+..
T Consensus 472 k~~~~~~EA~IIa~A--G~~-GaVTI-ATNMAGRGTDIk 506 (939)
T PRK12902 472 KPENVEREAEIVAQA--GRK-GAVTI-ATNMAGRGTDII 506 (939)
T ss_pred CCcchHhHHHHHHhc--CCC-CcEEE-eccCCCCCcCEe
Confidence 7 3334445566653 322 34444 668888886633
No 167
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.01 E-value=0.00019 Score=85.78 Aligned_cols=50 Identities=36% Similarity=0.849 Sum_probs=42.7
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
...|+.|.+.+-+.+++.|||+||.+|+..........|| .|...++.+.
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP--~Cn~aFganD 692 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCP--KCNAAFGAND 692 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCC--CCCCCCCccc
Confidence 3469999999999999999999999999999988889999 5666555543
No 168
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.79 E-value=0.00051 Score=78.14 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=40.5
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
....|++|.+....|+++.|||.||..|+..++... ..|| .|+..+...
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~-~~CP--~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ-PKCP--LCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC-CCCC--CCCCccccc
Confidence 456899999999999999999999999999998753 3566 687766543
No 169
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=96.76 E-value=0.0063 Score=67.71 Aligned_cols=43 Identities=26% Similarity=0.237 Sum_probs=31.3
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
+.||.|++-..-+......+ .-+|+--.+|.|||+..|..++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al~ 50 (289)
T smart00489 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTLT 50 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHHH
Confidence 45999999766666554432 23688889999999988876643
No 170
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=96.76 E-value=0.0063 Score=67.71 Aligned_cols=43 Identities=26% Similarity=0.237 Sum_probs=31.3
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
+.||.|++-..-+......+ .-+|+--.+|.|||+..|..++.
T Consensus 8 ~~r~~Q~~~m~~v~~~~~~~---~~~~~eapTGtGKTl~~L~~al~ 50 (289)
T smart00488 8 EPYPIQYEFMEELKRVLDRG---KIGILESPTGTGKTLSLLCLTLT 50 (289)
T ss_pred CCCHHHHHHHHHHHHHHHcC---CcEEEECCCCcchhHHHHHHHHH
Confidence 45999999766666554432 23688889999999988876643
No 171
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=96.75 E-value=0.00071 Score=51.49 Aligned_cols=37 Identities=38% Similarity=1.016 Sum_probs=32.2
Q ss_pred ccccCCCCCCcc-ccccCcccchhhhhhhhc-CCCCCCC
Q 001834 721 CCVCSDPPEDSV-VTMCGHVFCYQCASEYIT-GDDNMCP 757 (1008)
Q Consensus 721 c~ic~d~~~~~v-~t~CgH~fc~~ci~~~~~-~~~~~cp 757 (1008)
|++|.+....++ ++.|||.||..|+.+++. .....||
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP 39 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCP 39 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCC
Confidence 789999999988 999999999999999987 4455566
No 172
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.66 E-value=0.026 Score=60.14 Aligned_cols=40 Identities=25% Similarity=0.396 Sum_probs=27.5
Q ss_pred ccchhhHHHHHHHHHhhccCCCccC-ceeecCCCCchHHHHHHHHHhh
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLG-GILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~G-GILADemGLGKTiqaIali~~~ 320 (1008)
+|-+.|+.|+.-++... + .++.-..|.|||-+..+++...
T Consensus 1 ~ln~~Q~~Ai~~~~~~~-------~~~~i~GpPGTGKT~~l~~~i~~~ 41 (236)
T PF13086_consen 1 KLNESQREAIQSALSSN-------GITLIQGPPGTGKTTTLASIIAQL 41 (236)
T ss_dssp ---HHHHHHHHHHCTSS-------E-EEEE-STTSSHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHcCC-------CCEEEECCCCCChHHHHHHHHHHh
Confidence 37789999998877432 3 5778888999997777766553
No 173
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.62 E-value=0.0012 Score=70.10 Aligned_cols=47 Identities=28% Similarity=0.797 Sum_probs=36.4
Q ss_pred ccccccccCCCCCC--------ccccccCcccchhhhhhhhcCCCCCCCCcccccccc
Q 001834 717 SSAICCVCSDPPED--------SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~--------~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
...+|++|.+.... ++++.|+|.||..|+.+|+.. ...|| .||..+.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCP--lCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCP--VCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCC--CCCCEee
Confidence 45789999987543 367899999999999999864 45777 6876554
No 174
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=96.57 E-value=0.0011 Score=52.97 Aligned_cols=46 Identities=33% Similarity=0.925 Sum_probs=37.2
Q ss_pred cccccccCCCCCCccccccCcc-cchhhhhhhhcCCCCCCCCcccccccc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~-fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
+..|.+|.+.+.+.++.+|||. ||..|..+++. ....|| .|+..+.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP--~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCP--ICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBT--TTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCC--cCChhhc
Confidence 3579999999999999999999 99999999987 556676 5776653
No 175
>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4. Members of this family show up near CRISPR repeats in Acidithiobacillus ferrooxidans ATCC 23270, Azoarcus sp. EbN1, and Rhodoferax ferrireducens DSM 15236. In the latter two species, the CRISPR/cas locus is found on a plasmid. This family is one of several characteristic of a type of CRISPR-associated (cas) gene cluster we designate Aferr after A. ferrooxidans, where it is both chromosomal and the only type of cas gene cluster found. The gene is designated csf4 (CRISPR/cas Subtype as in A. ferrooxidans protein 1), as it lies farthest (fourth closest) from the repeats in the A. ferrooxidans genome.
Probab=96.53 E-value=0.017 Score=70.43 Aligned_cols=78 Identities=6% Similarity=0.069 Sum_probs=50.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhc-CCeEEEecCCCCHHHHHHHHHHhccC---cCceEEEEEecCCCcccccc--------
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH-CIQYRRLDGTMSLPARDRAVKDFNTD---REQITVMLMSLKAGNLGLNM-------- 921 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~-gi~~~~l~Gs~s~~~R~~~i~~F~~~---~~~~~VLLiS~kagg~GLNL-------- 921 (1008)
-.++|+.+..+ ..+...|... .++ +.+.|.. ..|..++++|... .. -.||+ .+.+..+|+++
T Consensus 473 ~lvLfTS~~~~-~~~~~~l~~~l~~~-~l~qg~~--~~~~~l~~~f~~~~~~~~-~~vL~-gt~sfweGvDv~~~~~~p~ 546 (636)
T TIGR03117 473 TLVLTTAFSHI-SAIGQLVELGIPAE-IVIQSEK--NRLASAEQQFLALYANGI-QPVLI-AAGGAWTGIDLTHKPVSPD 546 (636)
T ss_pred EEEEechHHHH-HHHHHHHHhhcCCC-EEEeCCC--ccHHHHHHHHHHhhcCCC-CcEEE-eCCccccccccCCccCCCC
Confidence 55667766554 4455555443 233 3445543 2567899999874 11 24555 66899999999
Q ss_pred --ccCCEEEEecCCCCCC
Q 001834 922 --VAASHVILLDLWWNPT 937 (1008)
Q Consensus 922 --~~A~~VI~~Dp~WNp~ 937 (1008)
-..+.||+.-+|+-|.
T Consensus 547 ~G~~Ls~ViI~kLPF~~~ 564 (636)
T TIGR03117 547 KDNLLTDLIITCAPFGLN 564 (636)
T ss_pred CCCcccEEEEEeCCCCcC
Confidence 2388899999998774
No 176
>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3. The helicase in many CRISPR-associated (cas) gene clusters is designated Cas3, and most Cas3 proteins are described by model TIGR01587. Members of this family are considerably larger, show a number of motifs in common with TIGR01587 sequences, and replace Cas3 in some CRISPR/cas loci in a number of Proteobacteria, including Yersinia pestis, Chromobacterium violaceum, Erwinia carotovora subsp. atroseptica SCRI1043, Photorhabdus luminescens subsp. laumondii TTO1, Legionella pneumophila, etc.
Probab=96.44 E-value=0.69 Score=58.75 Aligned_cols=47 Identities=13% Similarity=0.063 Sum_probs=33.9
Q ss_pred eEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCccc
Q 001834 905 ITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQTRP 954 (1008)
Q Consensus 905 ~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~k~ 954 (1008)
..+++++|.+..+|+++-. +.+| -||. .-....|+.||++|-|+...
T Consensus 838 ~~~i~v~Tqv~E~g~D~df-d~~~-~~~~-~~~sliQ~aGR~~R~~~~~~ 884 (1110)
T TIGR02562 838 HLFIVLATPVEEVGRDHDY-DWAI-ADPS-SMRSIIQLAGRVNRHRLEKV 884 (1110)
T ss_pred CCeEEEEeeeEEEEecccC-Ceee-eccC-cHHHHHHHhhcccccccCCC
Confidence 4567779999999999753 3333 3332 34578899999999998753
No 177
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=96.41 E-value=0.0014 Score=68.98 Aligned_cols=41 Identities=29% Similarity=0.658 Sum_probs=35.2
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCC
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~ 758 (1008)
+...|.||.+-...|++|+|||.||.-||..++.. .+.||+
T Consensus 24 s~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~-qp~CP~ 64 (391)
T COG5432 24 SMLRCRICDCRISIPCETTCGHTFCSLCIRRHLGT-QPFCPV 64 (391)
T ss_pred hHHHhhhhhheeecceecccccchhHHHHHHHhcC-CCCCcc
Confidence 34579999999999999999999999999999854 466764
No 178
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.37 E-value=0.0011 Score=50.96 Aligned_cols=30 Identities=33% Similarity=0.862 Sum_probs=20.1
Q ss_pred ccccCCCCCC----ccccccCcccchhhhhhhhcC
Q 001834 721 CCVCSDPPED----SVVTMCGHVFCYQCASEYITG 751 (1008)
Q Consensus 721 c~ic~d~~~~----~v~t~CgH~fc~~ci~~~~~~ 751 (1008)
|+||.+ ... |++..|||+||.+|+..+...
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~ 34 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKK 34 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhc
Confidence 788887 555 888899999999999998763
No 179
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=96.25 E-value=0.67 Score=58.36 Aligned_cols=107 Identities=15% Similarity=0.129 Sum_probs=77.4
Q ss_pred ceEEEEeccHHHHHHHHHHHHhc-------CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQH-------CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS 925 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~-------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~ 925 (1008)
.-||||-.-..-+..+...|..+ .+-+..++++++..+.+.+ |+..+.+.+=+|++|..+.+.|.....-
T Consensus 414 GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~g~RKIIlaTNIAETSITIdDVv 490 (924)
T KOG0920|consen 414 GAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPKGTRKIILATNIAETSITIDDVV 490 (924)
T ss_pred ceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCCCcchhhhhhhhHhhcccccCeE
Confidence 48999999888888888888643 2556778999987666555 6666666677777999999999999888
Q ss_pred EEE--------EecCCCC----------CChhhHHHHhhhhcCCcccEEEEEEEeCCC
Q 001834 926 HVI--------LLDLWWN----------PTTEDQAVDRAHRIGQTRPVTVTRLTIRDT 965 (1008)
Q Consensus 926 ~VI--------~~Dp~WN----------p~~e~QAigR~~RiGQ~k~V~V~rlv~~~T 965 (1008)
+|| .|||.-| -+.-.||.||++| .++=..|+|+++.-
T Consensus 491 yVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~ 545 (924)
T KOG0920|consen 491 YVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSR 545 (924)
T ss_pred EEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhh
Confidence 776 5555433 3455577776655 55667788876553
No 180
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=96.21 E-value=0.18 Score=62.31 Aligned_cols=112 Identities=17% Similarity=0.173 Sum_probs=85.0
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhcCCeEEEecC
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDG 884 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~G 884 (1008)
...|+.++++.+......+. .|||-+-....-+.+...|.+.||+..+++.
T Consensus 411 ~~~K~~Aiv~~I~~~~~~gq-----------------------------PvLvgT~sie~SE~ls~~L~~~~i~h~VLNA 461 (822)
T COG0653 411 EEEKFKAIVEDIKERHEKGQ-----------------------------PVLVGTVSIEKSELLSKLLRKAGIPHNVLNA 461 (822)
T ss_pred hHHHHHHHHHHHHHHHhcCC-----------------------------CEEEcCcceecchhHHHHHHhcCCCceeecc
Confidence 46799999999999888877 9999999999999999999999999988888
Q ss_pred CCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCC-----------EEEEecCCCCCChhhHHHHhhhhcC
Q 001834 885 TMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAAS-----------HVILLDLWWNPTTEDQAVDRAHRIG 950 (1008)
Q Consensus 885 s~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~-----------~VI~~Dp~WNp~~e~QAigR~~RiG 950 (1008)
.-. .|+.-|-.+.-.+ .-|-| +|.-+|.|-++.-.- +||=-+..=+-....|--||++|.|
T Consensus 462 k~h--~~EA~Iia~AG~~--gaVTi-ATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQG 533 (822)
T COG0653 462 KNH--AREAEIIAQAGQP--GAVTI-ATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQG 533 (822)
T ss_pred ccH--HHHHHHHhhcCCC--Ccccc-ccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCC
Confidence 764 5555555544222 24444 668888888876533 3555555544555669999999999
No 181
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=96.21 E-value=0.0018 Score=56.13 Aligned_cols=50 Identities=14% Similarity=0.319 Sum_probs=37.9
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
...|++|.+.+.+||++.|||+|+..|+..|+......||. |+..+..+.
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~--t~~~l~~~~ 53 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPF--TRQPLSESD 53 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TT--T-SB-SGGG
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCC--CCCcCCccc
Confidence 34799999999999999999999999999999987788884 455555543
No 182
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=96.10 E-value=0.0037 Score=46.16 Aligned_cols=37 Identities=38% Similarity=1.034 Sum_probs=31.5
Q ss_pred ccccCCCCCCccccccCcccchhhhhhhhcCCCCCCC
Q 001834 721 CCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCP 757 (1008)
Q Consensus 721 c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp 757 (1008)
|++|.+....+++..|||.||..|+..++......||
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP 37 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCP 37 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCC
Confidence 6789888888999999999999999999874455566
No 183
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=96.01 E-value=0.021 Score=69.23 Aligned_cols=35 Identities=17% Similarity=0.086 Sum_probs=29.8
Q ss_pred EEEEccCcccCCccchHHHHHHhcccCcEEEEeccC
Q 001834 514 RVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTP 549 (1008)
Q Consensus 514 rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTP 549 (1008)
.|||||-|++... .+.+.++..+++...+=.+||-
T Consensus 208 IvIvDEPh~f~~~-~k~~~~i~~l~pl~ilRfgATf 242 (985)
T COG3587 208 IVIVDEPHRFLGD-DKTYGAIKQLNPLLILRFGATF 242 (985)
T ss_pred EEEecChhhcccc-hHHHHHHHhhCceEEEEecccc
Confidence 4999999999876 7888999999888877778874
No 184
>PHA02926 zinc finger-like protein; Provisional
Probab=95.90 E-value=0.0045 Score=63.57 Aligned_cols=48 Identities=21% Similarity=0.665 Sum_probs=35.9
Q ss_pred ccccccccCCCCC---------CccccccCcccchhhhhhhhcCC-----CCCCCCcccccccc
Q 001834 717 SSAICCVCSDPPE---------DSVVTMCGHVFCYQCASEYITGD-----DNMCPAPRCKEQLG 766 (1008)
Q Consensus 717 ~~~~c~ic~d~~~---------~~v~t~CgH~fc~~ci~~~~~~~-----~~~cp~~~c~~~l~ 766 (1008)
...+|++|.+..- ..++..|+|.||..|+..|.... ...|| .||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCP--iCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCP--ICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCC--CCcceee
Confidence 4678999997631 26899999999999999998642 23466 6776543
No 185
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.84 E-value=0.03 Score=66.02 Aligned_cols=81 Identities=23% Similarity=0.345 Sum_probs=61.9
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCccc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGL 353 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 353 (1008)
+|-.-|..||...+++.. .||--..|.|||++.-+++..+. .
T Consensus 410 kLN~SQ~~AV~~VL~rpl-------sLIQGPPGTGKTvtsa~IVyhl~-~------------------------------ 451 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQRPL-------SLIQGPPGTGKTVTSATIVYHLA-R------------------------------ 451 (935)
T ss_pred hhchHHHHHHHHHHcCCc-------eeeecCCCCCceehhHHHHHHHH-H------------------------------
Confidence 477799999999997654 48888999999998866554322 1
Q ss_pred ccccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChhh-HHHHHHHHHHHcCCCCCeEEEEEeCCCCCC
Q 001834 354 DKVKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPASV-LRQWARELEDKVPDKAALSVLIYHGGSRTK 425 (1008)
Q Consensus 354 ~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sL-l~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~ 425 (1008)
...+++||++|..+ ++|-...|.+- .++|+-....+|..
T Consensus 452 ----------------------------~~~~~VLvcApSNiAVDqLaeKIh~t-----gLKVvRl~aksRE~ 491 (935)
T KOG1802|consen 452 ----------------------------QHAGPVLVCAPSNIAVDQLAEKIHKT-----GLKVVRLCAKSRED 491 (935)
T ss_pred ----------------------------hcCCceEEEcccchhHHHHHHHHHhc-----CceEeeeehhhhhh
Confidence 23466999999875 79999999874 58888887766543
No 186
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=95.82 E-value=0.0025 Score=49.32 Aligned_cols=37 Identities=38% Similarity=0.841 Sum_probs=29.7
Q ss_pred cccccCCCC---CCccccccCcccchhhhhhhhcCCCCCCC
Q 001834 720 ICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDDNMCP 757 (1008)
Q Consensus 720 ~c~ic~d~~---~~~v~t~CgH~fc~~ci~~~~~~~~~~cp 757 (1008)
.|+||.+.. +..+...|||+||..|+.+|+... ..||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP 41 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCP 41 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-T
T ss_pred CCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCC
Confidence 689998865 356788899999999999999764 4666
No 187
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=95.82 E-value=0.0053 Score=47.03 Aligned_cols=42 Identities=36% Similarity=0.969 Sum_probs=31.9
Q ss_pred cccccCCCCCCcccc-ccCcccchhhhhhhhcCCCCCCCCccccc
Q 001834 720 ICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (1008)
Q Consensus 720 ~c~ic~d~~~~~v~t-~CgH~fc~~ci~~~~~~~~~~cp~~~c~~ 763 (1008)
.|++|.+....++.. .|||.||..|+..++......|| .|+.
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp--~C~~ 43 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCP--LCRT 43 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCC--CCCC
Confidence 488999887555544 49999999999999877556676 4543
No 188
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=95.69 E-value=0.0043 Score=50.83 Aligned_cols=45 Identities=33% Similarity=0.666 Sum_probs=31.9
Q ss_pred ccccccccCCCCCCcccc-ccCcccchhhhhhhh-cCCCCCCCCccc
Q 001834 717 SSAICCVCSDPPEDSVVT-MCGHVFCYQCASEYI-TGDDNMCPAPRC 761 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t-~CgH~fc~~ci~~~~-~~~~~~cp~~~c 761 (1008)
....|++...++.+||.+ .|||+|..+.|.+++ +.....||+..|
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv~GC 56 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPVAGC 56 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SCCC-
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCCCCC
Confidence 456899999999999986 999999999999999 344568998887
No 189
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.65 E-value=0.008 Score=65.80 Aligned_cols=49 Identities=24% Similarity=0.668 Sum_probs=36.8
Q ss_pred ccccccCCC-CCCc----cccccCcccchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 719 AICCVCSDP-PEDS----VVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 719 ~~c~ic~d~-~~~~----v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
..||+|... ...| .+..|||.||..|+..++......|| .|+..+....
T Consensus 4 ~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP--~C~~~lrk~~ 57 (309)
T TIGR00570 4 QGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCP--ECDTPLRKNN 57 (309)
T ss_pred CCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCC--CCCCccchhh
Confidence 579999863 2222 44589999999999999877666676 8888877654
No 190
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=95.54 E-value=0.0089 Score=46.29 Aligned_cols=38 Identities=32% Similarity=0.842 Sum_probs=29.8
Q ss_pred cccccCCCC---CCccccccCcccchhhhhhhhcCCCCCCCC
Q 001834 720 ICCVCSDPP---EDSVVTMCGHVFCYQCASEYITGDDNMCPA 758 (1008)
Q Consensus 720 ~c~ic~d~~---~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~ 758 (1008)
.|++|.... ..++++.|||+||..|+.... .....||.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~ 41 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPI 41 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcC
Confidence 377887665 358999999999999999877 55556763
No 191
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.53 E-value=0.008 Score=64.30 Aligned_cols=58 Identities=22% Similarity=0.549 Sum_probs=51.0
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccceeeccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTTL 776 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~l 776 (1008)
...+|.||...+..|+...|+|.||+-||......+...|+ .|+..+..++.+....+
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~Ca--vCR~pids~i~~~psl~ 63 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCA--VCRFPIDSTIDFEPSLK 63 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCc--eecCCCCcchhcchhhh
Confidence 35689999999999999999999999999998888877787 79999999988776654
No 192
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.50 E-value=0.006 Score=64.26 Aligned_cols=47 Identities=32% Similarity=0.815 Sum_probs=37.5
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCC-CCCCCccccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDD-NMCPAPRCKEQL 765 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~-~~cp~~~c~~~l 765 (1008)
.+-.|.+|.+.++.|.-+.|||+||..|+...++... ..|| .||...
T Consensus 214 ~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~Cp--lCRak~ 261 (271)
T COG5574 214 ADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCP--LCRAKV 261 (271)
T ss_pred cccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCc--hhhhhc
Confidence 3567999999999999999999999999988555444 3487 566543
No 193
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.42 E-value=0.071 Score=67.77 Aligned_cols=98 Identities=18% Similarity=0.160 Sum_probs=68.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--CCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--ASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--A~~VI~~D 931 (1008)
+++|+-...+++..+...|....+.. ...|... .|.+++++|+.++ ..||+. +....+|+++.. +..||+.-
T Consensus 649 ~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~--~~vLlG-~~sFwEGVD~p~~~~~~viI~k 722 (820)
T PRK07246 649 PILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGE--QQILLG-LGSFWEGVDFVQADRMIEVITR 722 (820)
T ss_pred CEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCC--CeEEEe-cchhhCCCCCCCCCeEEEEEec
Confidence 77887777888888888887665544 4445332 3667999998764 356664 488999999963 55567776
Q ss_pred CC-CCCC-----------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 932 LW-WNPT-----------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 932 p~-WNp~-----------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
+| .+|. ...|++||+.|--..+.|.|
T Consensus 723 LPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gvv~ 778 (820)
T PRK07246 723 LPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSAVL 778 (820)
T ss_pred CCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEEEE
Confidence 55 3342 23499999999777776533
No 194
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=95.41 E-value=1.4 Score=52.91 Aligned_cols=98 Identities=18% Similarity=0.270 Sum_probs=62.6
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCC-----HHHHHHHHHHhccCcCc-eEEEEEec--CCCcccccccc--
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMS-----LPARDRAVKDFNTDREQ-ITVMLMSL--KAGNLGLNMVA-- 923 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s-----~~~R~~~i~~F~~~~~~-~~VLLiS~--kagg~GLNL~~-- 923 (1008)
-||+|-..-..+..+.+..++.|+- .+|.|..+ ...-+.+++.|...-+. .-.||++. .-.++|||+.+
T Consensus 631 GvV~FfPSy~yL~~v~k~w~~~gil-~ri~~kK~vF~E~k~~~~dvl~~Ya~a~~~g~GaiLlaVVGGKlSEGINF~D~L 709 (821)
T KOG1133|consen 631 GVVCFFPSYAYLGQVRKRWEQNGIL-ARIVGKKKVFYEPKDTVEDVLEGYAEAAERGRGAILLAVVGGKLSEGINFSDDL 709 (821)
T ss_pred cEEEEeccHHHHHHHHHHHHhcchH-HHhhccchhhccCcccHHHHHHHHHHHhhcCCCeEEEEEecccccccccccccc
Confidence 6889988889999999999988762 22222210 01134567777532211 11344442 33458999998
Q ss_pred CCEEEEecCCCC--------------------CC------------hhhHHHHhhhhcCCc
Q 001834 924 ASHVILLDLWWN--------------------PT------------TEDQAVDRAHRIGQT 952 (1008)
Q Consensus 924 A~~VI~~Dp~WN--------------------p~------------~e~QAigR~~RiGQ~ 952 (1008)
+..|+++..|+- |. ...|+||||.|--..
T Consensus 710 gRaVvvVGlPyPN~~s~EL~er~k~l~~k~~~~gagke~yEnlCMkAVNQsIGRAIRH~~D 770 (821)
T KOG1133|consen 710 GRAVVVVGLPYPNIQSVELQERMKHLDGKLPTPGAGKELYENLCMKAVNQSIGRAIRHRKD 770 (821)
T ss_pred ccEEEEeecCCCCCCCHHHHHHHHHhhhccCCCCchHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 778888888875 22 345999999996433
No 195
>PRK10536 hypothetical protein; Provisional
Probab=95.37 E-value=0.055 Score=58.42 Aligned_cols=40 Identities=25% Similarity=0.248 Sum_probs=31.3
Q ss_pred eEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCCh
Q 001834 513 FRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSI 554 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l 554 (1008)
..|||||||++.- .+....+.++....+++++|-|-|..+
T Consensus 178 ~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 178 AVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred CEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 5799999999864 444455667788899999999977654
No 196
>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=95.33 E-value=0.031 Score=58.50 Aligned_cols=40 Identities=28% Similarity=0.250 Sum_probs=27.8
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
++-++|+.++.-|+.... .++--..|.|||+.|++..+..
T Consensus 4 p~~~~Q~~~~~al~~~~~-------v~~~G~AGTGKT~LA~a~Al~~ 43 (205)
T PF02562_consen 4 PKNEEQKFALDALLNNDL-------VIVNGPAGTGKTFLALAAALEL 43 (205)
T ss_dssp --SHHHHHHHHHHHH-SE-------EEEE--TTSSTTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhCCe-------EEEECCCCCcHHHHHHHHHHHH
Confidence 355799999999983322 4667778999999999887653
No 197
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.30 E-value=0.06 Score=54.85 Aligned_cols=98 Identities=21% Similarity=0.280 Sum_probs=64.1
Q ss_pred ceEEEEeccHHHHHHHHHHHHhcC----CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecC--CCcccccccc--C
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQHC----IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLK--AGNLGLNMVA--A 924 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~g----i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~k--agg~GLNL~~--A 924 (1008)
.++|||...-..++.+...+...+ +.+..- ...++.+++++|..+.. .||+ ++. ...+|+|+.. +
T Consensus 10 g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~~q----~~~~~~~~l~~~~~~~~--~il~-~v~~g~~~EGiD~~~~~~ 82 (167)
T PF13307_consen 10 GGVLVFFPSYRRLEKVYERLKERLEEKGIPVFVQ----GSKSRDELLEEFKRGEG--AILL-AVAGGSFSEGIDFPGDLL 82 (167)
T ss_dssp SEEEEEESSHHHHHHHHTT-TSS-E-ETSCEEES----TCCHHHHHHHHHCCSSS--EEEE-EETTSCCGSSS--ECESE
T ss_pred CCEEEEeCCHHHHHHHHHHHHhhcccccceeeec----CcchHHHHHHHHHhccC--eEEE-EEecccEEEeecCCCchh
Confidence 389999999999999999988763 433322 24688899999998753 4444 545 7899999996 7
Q ss_pred CEEEEecCCCC-CC-----------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 925 SHVILLDLWWN-PT-----------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 925 ~~VI~~Dp~WN-p~-----------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
..||+.-+|+- |. ...||+||+.|-.+.+-+.|
T Consensus 83 r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i~ 145 (167)
T PF13307_consen 83 RAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVII 145 (167)
T ss_dssp EEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEEE
T ss_pred heeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEEE
Confidence 78899888863 32 22388999999887665544
No 198
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=95.29 E-value=0.0035 Score=67.47 Aligned_cols=45 Identities=24% Similarity=0.665 Sum_probs=37.3
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCccccccc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l 765 (1008)
...|.||.+-+..|++++|+|.||.-||..++.. .+.|| .|....
T Consensus 23 lLRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~-~p~CP--~C~~~~ 67 (442)
T KOG0287|consen 23 LLRCGICFEYFNIPMITPCSHTFCSLCIRKFLSY-KPQCP--TCCVTV 67 (442)
T ss_pred HHHHhHHHHHhcCceeccccchHHHHHHHHHhcc-CCCCC--ceeccc
Confidence 4469999999999999999999999999999864 46777 455443
No 199
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=94.65 E-value=0.024 Score=46.80 Aligned_cols=45 Identities=29% Similarity=0.710 Sum_probs=23.4
Q ss_pred cccccccCCCCCCcc-ccccCcccchhhhhhhhcCCCCCCCCccccccccc
Q 001834 718 SAICCVCSDPPEDSV-VTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v-~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~ 767 (1008)
...|++|.+.+..|| ++.|.|+||..|+.+.+.. .|| .|..+.+.
T Consensus 7 lLrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CP--vC~~Paw~ 52 (65)
T PF14835_consen 7 LLRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECP--VCHTPAWI 52 (65)
T ss_dssp TTS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-S--SS--B-S-
T ss_pred hcCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCC--CcCChHHH
Confidence 457999999999997 7999999999999987654 366 56655543
No 200
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=94.51 E-value=0.21 Score=64.62 Aligned_cols=101 Identities=20% Similarity=0.216 Sum_probs=70.9
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCC--eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--CCEEEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCI--QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--ASHVIL 929 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi--~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--A~~VI~ 929 (1008)
++|||.....++..+...|..... .+..+.-+++...|.+++++|+..+. .||+ .+.+..+|+++.. ...||+
T Consensus 754 ~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~--~iLl-G~~sFwEGVD~pg~~l~~viI 830 (928)
T PRK08074 754 RMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDK--AILL-GTSSFWEGIDIPGDELSCLVI 830 (928)
T ss_pred CEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCC--eEEE-ecCcccCccccCCCceEEEEE
Confidence 677777777888888888875422 12233323333568899999987653 5666 4588999999997 477888
Q ss_pred ecCCC-CCC-----------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 930 LDLWW-NPT-----------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 930 ~Dp~W-Np~-----------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
.-+|+ +|. ...|++||+.|-.+.+.|.|
T Consensus 831 ~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~v~ 888 (928)
T PRK08074 831 VRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGTVF 888 (928)
T ss_pred ecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEEEE
Confidence 88777 454 12489999999988876533
No 201
>PRK14873 primosome assembly protein PriA; Provisional
Probab=94.48 E-value=0.16 Score=62.80 Aligned_cols=58 Identities=28% Similarity=0.260 Sum_probs=42.2
Q ss_pred CceEEEcCh-hhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCc------cccCCCcEEEechhhhhc
Q 001834 385 AGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDP------VELAKYDVVLTTYSIVTN 445 (1008)
Q Consensus 385 ~~tLIV~P~-sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~------~~l~~~dVVItTy~~l~~ 445 (1008)
+.+||++|. ++..|+.+-|.+.++ ...|.+||........ ...++..|||=|.+.+..
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f~---~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvFa 253 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALLG---AGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVFA 253 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHcC---CCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEEe
Confidence 448999995 588999999999886 3468888886543311 123567899999887654
No 202
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=94.04 E-value=0.03 Score=72.31 Aligned_cols=80 Identities=19% Similarity=0.154 Sum_probs=54.1
Q ss_pred EEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCC
Q 001834 855 SIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWW 934 (1008)
Q Consensus 855 vIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~W 934 (1008)
+++|+-...+...|...+. ..+.+...+...++.+|... +......+|.+|..+...+.++++|
T Consensus 445 ~~~~~v~itty~~l~~~~~--------~~~~l~~~~~~~~v~DEa~~--------ikn~~s~~~~~l~~~~~~~~~~Ltg 508 (866)
T COG0553 445 VIIFDVVITTYELLRRFLV--------DHGGLKKIEWDRVVLDEAHR--------IKNDQSSEGKALQFLKALNRLDLTG 508 (866)
T ss_pred cceeeEEechHHHHHHhhh--------hHHHHhhceeeeeehhhHHH--------HhhhhhHHHHHHHHHhhcceeeCCC
Confidence 4788888888888887541 11111112222222222111 2346677899999999999999999
Q ss_pred CCChhhHHHHhhhhcCCc
Q 001834 935 NPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 935 Np~~e~QAigR~~RiGQ~ 952 (1008)
+| .+|++++.++++|.
T Consensus 509 TP--len~l~eL~sl~~~ 524 (866)
T COG0553 509 TP--LENRLGELWSLLQE 524 (866)
T ss_pred Ch--HhhhHHHHHHHHHH
Confidence 99 79999999999996
No 203
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.01 E-value=0.017 Score=45.52 Aligned_cols=47 Identities=34% Similarity=0.874 Sum_probs=40.9
Q ss_pred cccccccCCCCCCccccccCcc-cchhhhhhhhcCCCCCCCCcccccccc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~-fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
+.+|.||.+.+-+.|+-.|||. .|+.|-.+.+++....|| .||..+.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CP--iCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCP--ICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCc--chhhHHH
Confidence 4789999999999999999998 899999999888778888 6776553
No 204
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.74 E-value=0.41 Score=58.89 Aligned_cols=43 Identities=21% Similarity=0.312 Sum_probs=31.9
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHH
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali 317 (1008)
....+|-|+.-...++......++ |+|-+.+|.|||+.-|+-.
T Consensus 19 P~qpY~~Q~a~M~rvl~~L~~~q~---~llESPTGTGKSLsLLCS~ 61 (945)
T KOG1132|consen 19 PFQPYPTQLAFMTRVLSCLDRKQN---GLLESPTGTGKSLSLLCST 61 (945)
T ss_pred cCCcchHHHHHHHHHHHHHHHhhh---hhccCCCCCCccHHHHHHH
Confidence 345678888777777766665544 9999999999999766443
No 205
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=93.67 E-value=0.42 Score=61.96 Aligned_cols=42 Identities=14% Similarity=0.174 Sum_probs=27.8
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHH
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali 317 (1008)
+..||-|.+-...+.+......+ .++=-.+|+|||+-.+.-+
T Consensus 256 ~e~R~~Q~~m~~~v~~~l~~~~~---~~iEA~TGtGKTlaYLlpa 297 (928)
T PRK08074 256 YEKREGQQEMMKEVYTALRDSEH---ALIEAGTGTGKSLAYLLPA 297 (928)
T ss_pred CcCCHHHHHHHHHHHHHHhcCCC---EEEECCCCCchhHHHHHHH
Confidence 47899999966666654443211 3445589999999776433
No 206
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=93.54 E-value=0.16 Score=58.92 Aligned_cols=116 Identities=17% Similarity=0.161 Sum_probs=90.6
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc----CC---
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH----CI--- 877 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~----gi--- 877 (1008)
.++|+.....++.++...+- +.|-||..+...+++-...++. +-
T Consensus 507 ~~~~i~E~s~~~~~~i~~~~-----------------------------R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV 557 (1034)
T KOG4150|consen 507 KSSKVVEVSHLFAEMVQHGL-----------------------------RCIAFCPSRKLCELVLCLTREILAETAPHLV 557 (1034)
T ss_pred hhhHHHHHHHHHHHHHHcCC-----------------------------cEEEeccHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 57788888888888776655 9999999999887765544332 21
Q ss_pred -eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEecCCCCCChhhHHHHhhhhcCCc
Q 001834 878 -QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLDLWWNPTTEDQAVDRAHRIGQT 952 (1008)
Q Consensus 878 -~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~~RiGQ~ 952 (1008)
.+..+.|+-..++|.++-.+.=.+. .. -+++|.|...|++.-.-+.|+++..|.+-+...|-.||++|-...
T Consensus 558 ~~i~SYRGGY~A~DRRKIE~~~F~G~--L~-giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~ 630 (1034)
T KOG4150|consen 558 EAITSYRGGYIAEDRRKIESDLFGGK--LC-GIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKP 630 (1034)
T ss_pred HHHHhhcCccchhhHHHHHHHhhCCe--ee-EEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCC
Confidence 1345678888899988876655443 33 355889999999999999999999999999999999999997644
No 207
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.37 E-value=0.051 Score=57.61 Aligned_cols=48 Identities=38% Similarity=0.879 Sum_probs=36.1
Q ss_pred cccccccccCCCCCCcccc-ccCcccchhhhhhhhc-CCCCCCCCccccccc
Q 001834 716 TSSAICCVCSDPPEDSVVT-MCGHVFCYQCASEYIT-GDDNMCPAPRCKEQL 765 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v~t-~CgH~fc~~ci~~~~~-~~~~~cp~~~c~~~l 765 (1008)
++.-+|++|...|..|.+. .|||++|+-|+..-.. ..--.|| .|.+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp--~Cg~~~ 286 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCP--LCGENV 286 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccC--ccCCCC
Confidence 4677999999999988555 5999999999987654 3345676 565544
No 208
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=92.59 E-value=0.71 Score=57.19 Aligned_cols=41 Identities=29% Similarity=0.378 Sum_probs=31.5
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
..|-+.|+.||...+.... -.++--..|.|||.++++++..
T Consensus 156 ~~ln~~Q~~Av~~~l~~~~------~~lI~GpPGTGKT~t~~~ii~~ 196 (637)
T TIGR00376 156 PNLNESQKEAVSFALSSKD------LFLIHGPPGTGKTRTLVELIRQ 196 (637)
T ss_pred CCCCHHHHHHHHHHhcCCC------eEEEEcCCCCCHHHHHHHHHHH
Confidence 4688999999999874311 1467778999999988888755
No 209
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=92.11 E-value=0.88 Score=44.92 Aligned_cols=68 Identities=10% Similarity=0.132 Sum_probs=43.1
Q ss_pred HHHHHHHHHHhcCC-------eEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--CCEEEEecCCC
Q 001834 864 MLDLVENSLNQHCI-------QYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--ASHVILLDLWW 934 (1008)
Q Consensus 864 ~ld~L~~~L~~~gi-------~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--A~~VI~~Dp~W 934 (1008)
.++.+...+...+. ..+.+-| ....+..+++++|..... ..|| +++....+|+|+.. +..||+.-.|+
T Consensus 3 ~m~~v~~~~~~~~~~~~l~~~~~i~~e~-~~~~~~~~~l~~f~~~~~-~~iL-~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 3 YMESFVQYWKENGILENINKNLLLLVQG-EDGKETGKLLEKYVEACE-NAIL-LATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred HHHHHHHHHHHcCchhhHhcCCeEEEeC-CChhHHHHHHHHHHHcCC-CEEE-EEccceecceecCCCCeeEEEEEecCC
Confidence 34445555555543 2333334 334467899999987542 2455 45566999999997 56788887664
No 210
>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=91.90 E-value=0.33 Score=53.06 Aligned_cols=57 Identities=25% Similarity=0.173 Sum_probs=35.6
Q ss_pred CceEEEcChhhH----HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhhhhc
Q 001834 385 AGTLVVCPASVL----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVTN 445 (1008)
Q Consensus 385 ~~tLIV~P~sLl----~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~l~~ 445 (1008)
+++=||+....| .+|...+-+++ .++|-+..+..........-..||+-+|-..+.-
T Consensus 119 ~~V~vvT~NdyLA~RD~~~~~~~y~~L----Glsv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~f 179 (266)
T PF07517_consen 119 KGVHVVTSNDYLAKRDAEEMRPFYEFL----GLSVGIITSDMSSEERREAYAADIVYGTNSEFGF 179 (266)
T ss_dssp S-EEEEESSHHHHHHHHHHHHHHHHHT----T--EEEEETTTEHHHHHHHHHSSEEEEEHHHHHH
T ss_pred CCcEEEeccHHHhhccHHHHHHHHHHh----hhccccCccccCHHHHHHHHhCcccccccchhhH
Confidence 347788887655 46999998887 4788777775543222233456888777666654
No 211
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.78 E-value=0.033 Score=61.05 Aligned_cols=49 Identities=27% Similarity=0.730 Sum_probs=39.7
Q ss_pred ccccccccCCCCCCc-cccccCcccchhhhhhhhcCCCCCCCCccccccccc
Q 001834 717 SSAICCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~-v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~ 767 (1008)
....|++|++..... ....|+|-||.+||..-+....+.|| .||..+..
T Consensus 42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecp--tcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECP--TCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCc--hHHhhccc
Confidence 456899999876554 45589999999999999999999999 68776544
No 212
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=91.77 E-value=0.13 Score=56.89 Aligned_cols=49 Identities=27% Similarity=0.830 Sum_probs=40.3
Q ss_pred cccccccccccCCCCCCccccccCcccchhhhhhhhcCC-CCCCCCcccc
Q 001834 714 LETSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGD-DNMCPAPRCK 762 (1008)
Q Consensus 714 le~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~-~~~cp~~~c~ 762 (1008)
+.+..+.|.||.+...+--+.+|||..|..|+..|-..+ +..||.+.|.
T Consensus 365 MgsTFeLCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcE 414 (563)
T KOG1785|consen 365 MGSTFELCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCE 414 (563)
T ss_pred ccchHHHHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeE
Confidence 334567899999998888999999999999999998665 6789865554
No 213
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=91.76 E-value=0.7 Score=45.70 Aligned_cols=69 Identities=13% Similarity=0.238 Sum_probs=42.1
Q ss_pred HHHHHHHHHHhcCC----eEEEecCCCCHHHHHHHHHHhccCcC-ceEEEEEecCC--Ccccccccc--CCEEEEecCCC
Q 001834 864 MLDLVENSLNQHCI----QYRRLDGTMSLPARDRAVKDFNTDRE-QITVMLMSLKA--GNLGLNMVA--ASHVILLDLWW 934 (1008)
Q Consensus 864 ~ld~L~~~L~~~gi----~~~~l~Gs~s~~~R~~~i~~F~~~~~-~~~VLLiS~ka--gg~GLNL~~--A~~VI~~Dp~W 934 (1008)
.++.+...+...++ .-+.+.+.. ..+..+++++|+...+ +-.||+ ++.. .+||+||.. +..||+.-.|+
T Consensus 3 ~m~~v~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~l~~f~~~~~~~g~iL~-~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 3 YLEQVVEYWKENGILEINKPVFIEGKD-SGETEELLEKYSAACEARGALLL-AVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred HHHHHHHHHHhcCccccCceEEEECCC-CchHHHHHHHHHHhcCCCCEEEE-EEeCCeeecceecCCCccEEEEEEecCC
Confidence 45555566665543 223344433 3455789999986432 113444 4344 789999997 67788888775
No 214
>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=91.75 E-value=0.9 Score=57.26 Aligned_cols=103 Identities=15% Similarity=0.171 Sum_probs=69.8
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCC-------eEEEecCCCCHHHHHHHHHHhccC--cCceEEEEEec-CCCcccccccc
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCI-------QYRRLDGTMSLPARDRAVKDFNTD--REQITVMLMSL-KAGNLGLNMVA 923 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi-------~~~~l~Gs~s~~~R~~~i~~F~~~--~~~~~VLLiS~-kagg~GLNL~~ 923 (1008)
.+|||-..-..++.+...+...|+ ..+.+-+.. ..++++++++|... ....-||+... ...+||+|+..
T Consensus 524 g~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~-~~~~~~~l~~f~~~~~~~~gavL~av~gGk~sEGIDf~~ 602 (705)
T TIGR00604 524 GIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD-AQETSDALERYKQAVSEGRGAVLLSVAGGKVSEGIDFCD 602 (705)
T ss_pred cEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC-cchHHHHHHHHHHHHhcCCceEEEEecCCcccCccccCC
Confidence 788888888888877777765432 223333332 26789999999653 11124555332 56789999998
Q ss_pred --CCEEEEecCCC-CCC------------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 924 --ASHVILLDLWW-NPT------------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 924 --A~~VI~~Dp~W-Np~------------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
+..||++-+|+ ||. ...||+||+.|--+.+.+.|
T Consensus 603 ~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D~G~ii 669 (705)
T TIGR00604 603 DLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDDYGSIV 669 (705)
T ss_pred CCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccCcCceEEEE
Confidence 78899998887 542 23499999999887776544
No 215
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=91.69 E-value=1.2 Score=55.80 Aligned_cols=99 Identities=21% Similarity=0.208 Sum_probs=74.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCe-EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCcccccccc--CCEEEEe
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQ-YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVA--ASHVILL 930 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~-~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~--A~~VI~~ 930 (1008)
++|||...-.++..+...|...... .+...|.. .+.++++.|....+ . .+++.+....+|+|+.. +..||+.
T Consensus 481 ~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~~---~~~~~l~~f~~~~~-~-~~lv~~gsf~EGVD~~g~~l~~vvI~ 555 (654)
T COG1199 481 GVLVLFPSYEYLKRVAERLKDERSTLPVLTQGED---EREELLEKFKASGE-G-LILVGGGSFWEGVDFPGDALRLVVIV 555 (654)
T ss_pred CEEEEeccHHHHHHHHHHHhhcCccceeeecCCC---cHHHHHHHHHHhcC-C-eEEEeeccccCcccCCCCCeeEEEEE
Confidence 7899988889999999999877653 33344443 45589999988765 2 55667789999999998 5778888
Q ss_pred cCCCC-CC-----------------------------hhhHHHHhhhhcCCcccEEE
Q 001834 931 DLWWN-PT-----------------------------TEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 931 Dp~WN-p~-----------------------------~e~QAigR~~RiGQ~k~V~V 957 (1008)
-.||= |. ...|++||+.|--+.+.|.|
T Consensus 556 ~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv 612 (654)
T COG1199 556 GLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV 612 (654)
T ss_pred ecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE
Confidence 87775 22 34599999999666666555
No 216
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=91.54 E-value=0.065 Score=53.70 Aligned_cols=33 Identities=39% Similarity=0.812 Sum_probs=28.7
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhh
Q 001834 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEY 748 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~ 748 (1008)
.....|.||-...+.||++.|||.||..|...-
T Consensus 194 ~IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~ 226 (259)
T COG5152 194 KIPFLCGICKKDYESPVVTECGHSFCSLCAIRK 226 (259)
T ss_pred CCceeehhchhhccchhhhhcchhHHHHHHHHH
Confidence 345589999999999999999999999997553
No 217
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.51 E-value=0.087 Score=56.40 Aligned_cols=47 Identities=26% Similarity=0.627 Sum_probs=38.8
Q ss_pred cccccccCCCCC---CccccccCcccchhhhhhhhcCCCCCCCCcccccccc
Q 001834 718 SAICCVCSDPPE---DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 718 ~~~c~ic~d~~~---~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
..+|.||....- .-++++|.|.|-..|+.+|+.+-...|| .|+..+.
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CP--vCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCP--VCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCC--ccCCCCC
Confidence 468999986542 3578999999999999999999999999 5776653
No 218
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=91.51 E-value=0.13 Score=60.60 Aligned_cols=44 Identities=27% Similarity=0.456 Sum_probs=33.0
Q ss_pred ccccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 270 LLSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 270 ~~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
.+...|-+-|+.|+.+....-. + -++=-..|.|||.+..-+|..
T Consensus 181 ~~~~~ln~SQk~Av~~~~~~k~--l----~~I~GPPGTGKT~TlvEiI~q 224 (649)
T KOG1803|consen 181 FFNKNLNSSQKAAVSFAINNKD--L----LIIHGPPGTGKTRTLVEIISQ 224 (649)
T ss_pred cCCccccHHHHHHHHHHhccCC--c----eEeeCCCCCCceeeHHHHHHH
Confidence 3455688999999999885531 2 356668899999988777755
No 219
>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=91.51 E-value=0.66 Score=53.26 Aligned_cols=20 Identities=25% Similarity=0.415 Sum_probs=15.6
Q ss_pred eecCCCCchHHHHHHHHHhh
Q 001834 301 LADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 301 LADemGLGKTiqaIali~~~ 320 (1008)
+--..|.|||+.++.++...
T Consensus 6 I~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 6 ITGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred EEecCCcCHHHHHHHHHHHh
Confidence 33457999999999988664
No 220
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=91.32 E-value=1.3 Score=46.33 Aligned_cols=40 Identities=28% Similarity=0.297 Sum_probs=27.7
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHH
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQ 318 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~ 318 (1008)
+|-+.|++++..++.... +-.+|.-..|.|||...-.++.
T Consensus 1 ~L~~~Q~~a~~~~l~~~~-----~~~~l~G~aGtGKT~~l~~~~~ 40 (196)
T PF13604_consen 1 TLNEEQREAVRAILTSGD-----RVSVLQGPAGTGKTTLLKALAE 40 (196)
T ss_dssp -S-HHHHHHHHHHHHCTC-----SEEEEEESTTSTHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhcCC-----eEEEEEECCCCCHHHHHHHHHH
Confidence 377899999999985432 1246767789999987655443
No 221
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=91.31 E-value=1.4 Score=55.42 Aligned_cols=74 Identities=19% Similarity=0.279 Sum_probs=51.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhc-CCeEEEecCCCCHHHHHHHHHHhcc----CcCceEEEEEecCCCcccccccc--CCE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH-CIQYRRLDGTMSLPARDRAVKDFNT----DREQITVMLMSLKAGNLGLNMVA--ASH 926 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~-gi~~~~l~Gs~s~~~R~~~i~~F~~----~~~~~~VLLiS~kagg~GLNL~~--A~~ 926 (1008)
.+|||.....+++.+...|... ++. +...|. ..|.++++.|.+ +. ..||+. +....+|+++.. +..
T Consensus 536 g~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~--~~VL~g-~~sf~EGVD~pGd~l~~ 608 (697)
T PRK11747 536 GSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGE--GSVLFG-LQSFAEGLDLPGDYLTQ 608 (697)
T ss_pred CEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCC--CeEEEE-eccccccccCCCCceEE
Confidence 5677776777777888877643 333 334554 357888977764 33 356664 488899999986 788
Q ss_pred EEEecCCC
Q 001834 927 VILLDLWW 934 (1008)
Q Consensus 927 VI~~Dp~W 934 (1008)
||+.-+|+
T Consensus 609 vII~kLPF 616 (697)
T PRK11747 609 VIITKIPF 616 (697)
T ss_pred EEEEcCCC
Confidence 99888776
No 222
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.60 E-value=0.12 Score=54.90 Aligned_cols=43 Identities=30% Similarity=0.661 Sum_probs=37.0
Q ss_pred cccccccCCCCCCcccc-ccCcccchhhhhhhhcCCCCCCCCcc
Q 001834 718 SAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPAPR 760 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t-~CgH~fc~~ci~~~~~~~~~~cp~~~ 760 (1008)
+..|+.|......|+-| +|+|.||.+||...+-..+..||.+.
T Consensus 274 ~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~ 317 (427)
T COG5222 274 SLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCS 317 (427)
T ss_pred cccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCcc
Confidence 35799999988899888 89999999999998888888998433
No 223
>PHA02533 17 large terminase protein; Provisional
Probab=90.46 E-value=2.6 Score=51.06 Aligned_cols=42 Identities=21% Similarity=0.233 Sum_probs=29.0
Q ss_pred cccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 271 LSVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 271 ~~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
..+.|.|+|+.-+.+|.... . .++.=.=..|||..+.++++.
T Consensus 56 ~Pf~L~p~Q~~i~~~~~~~R---~----~ii~~aRq~GKStl~a~~al~ 97 (534)
T PHA02533 56 IKVQMRDYQKDMLKIMHKNR---F----NACNLSRQLGKTTVVAIFLLH 97 (534)
T ss_pred eecCCcHHHHHHHHHHhcCe---E----EEEEEcCcCChHHHHHHHHHH
Confidence 34679999999988874211 1 255555689999988766654
No 224
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=90.24 E-value=0.11 Score=58.00 Aligned_cols=43 Identities=28% Similarity=0.724 Sum_probs=36.1
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCK 762 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~ 762 (1008)
....|+||.+....|.+..|||.||..|+...+. ....|| .|+
T Consensus 12 ~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp--~cr 54 (386)
T KOG2177|consen 12 EELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCP--VCR 54 (386)
T ss_pred ccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCc--ccC
Confidence 4568999999999999999999999999999888 444555 666
No 225
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=90.18 E-value=0.13 Score=55.94 Aligned_cols=51 Identities=27% Similarity=0.719 Sum_probs=40.7
Q ss_pred cccccccccccCCCCCC-ccccccCcccchhhhhhhhcCCCCCCCCccccccc
Q 001834 714 LETSSAICCVCSDPPED-SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (1008)
Q Consensus 714 le~~~~~c~ic~d~~~~-~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l 765 (1008)
++.....|++|...-.+ -+++.-|-+||+.|+-.|+. ....||+.+|...+
T Consensus 296 l~~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~v 347 (357)
T KOG0826|consen 296 LPPDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPASV 347 (357)
T ss_pred CCCccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcchH
Confidence 44567799999876555 47777799999999999998 67899998886543
No 226
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=90.08 E-value=0.19 Score=43.51 Aligned_cols=39 Identities=36% Similarity=1.029 Sum_probs=29.2
Q ss_pred cccccccCCCCCCc-------------cccccCcccchhhhhhhhcCCCCCCC
Q 001834 718 SAICCVCSDPPEDS-------------VVTMCGHVFCYQCASEYITGDDNMCP 757 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~-------------v~t~CgH~fc~~ci~~~~~~~~~~cp 757 (1008)
...|.||.++..++ +...|||.|...|+.+|+.... .||
T Consensus 19 ~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP 70 (73)
T PF12678_consen 19 DDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCP 70 (73)
T ss_dssp CSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-T
T ss_pred CCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCC
Confidence 45699998877321 4558999999999999996554 676
No 227
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=90.03 E-value=2.4 Score=54.26 Aligned_cols=43 Identities=12% Similarity=0.122 Sum_probs=28.3
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHH
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALI 317 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali 317 (1008)
.+..||-|.+-...+.+......+ .++--.+|.|||+..+.-+
T Consensus 243 ~~e~R~~Q~~ma~~V~~~l~~~~~---~~~eA~tGtGKT~ayllp~ 285 (820)
T PRK07246 243 GLEERPKQESFAKLVGEDFHDGPA---SFIEAQTGIGKTYGYLLPL 285 (820)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCc---EEEECCCCCcHHHHHHHHH
Confidence 357899999966666554433222 3556689999998765443
No 228
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=89.81 E-value=0.16 Score=58.19 Aligned_cols=48 Identities=40% Similarity=0.922 Sum_probs=39.3
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCccccccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~ 767 (1008)
+...|.+|......|+.++|||.||..|+...+. ....|| .|+..+..
T Consensus 83 sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp--~Cr~~l~e 130 (398)
T KOG4159|consen 83 SEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECP--LCRDELVE 130 (398)
T ss_pred chhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCc--cccccccc
Confidence 4568999999999999999999999999888554 455666 58776654
No 229
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=89.54 E-value=2.9 Score=48.73 Aligned_cols=44 Identities=27% Similarity=0.404 Sum_probs=31.1
Q ss_pred cchhhHHHHHHHHHhhccCCCccC-ceeecCCCCchHHHHHHHHHhhcc
Q 001834 275 LLKHQKIALAWMLQKETRSLHCLG-GILADDQGLGKTISIIALIQMQRS 322 (1008)
Q Consensus 275 LrpyQ~~~v~wml~~e~~~~~~~G-GILADemGLGKTiqaIali~~~~~ 322 (1008)
.+|.|. .+|...-+. +..+| |+|-..-|.|||+.-++||...+.
T Consensus 17 iYPEQ~---~YM~elKrs-LDakGh~llEMPSGTGKTvsLLSli~aYq~ 61 (755)
T KOG1131|consen 17 IYPEQY---EYMRELKRS-LDAKGHCLLEMPSGTGKTVSLLSLIIAYQL 61 (755)
T ss_pred cCHHHH---HHHHHHHHh-hccCCcEEEECCCCCCcchHHHHHHHHHHH
Confidence 567774 467654332 23333 899999999999999999977543
No 230
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=89.23 E-value=1.9 Score=52.75 Aligned_cols=41 Identities=22% Similarity=0.165 Sum_probs=32.4
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCC
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~ 553 (1008)
.+++||||||-.+-. ....+.+..++...|++|.|=|-|=.
T Consensus 259 ~~dvlIiDEaSMvd~--~l~~~ll~al~~~~rlIlvGD~~QLp 299 (586)
T TIGR01447 259 PLDVLVVDEASMVDL--PLMAKLLKALPPNTKLILLGDKNQLP 299 (586)
T ss_pred cccEEEEcccccCCH--HHHHHHHHhcCCCCEEEEECChhhCC
Confidence 578999999999864 35566677788888999999876543
No 231
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.23 E-value=1.9 Score=53.03 Aligned_cols=42 Identities=24% Similarity=0.179 Sum_probs=33.6
Q ss_pred ceeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCC
Q 001834 510 VGWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (1008)
Q Consensus 510 ~~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~ 553 (1008)
..+++||||||-.+- ....++.+..+....|++|-|=|-|-.
T Consensus 264 l~~dvlIvDEaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL~ 305 (615)
T PRK10875 264 LHLDVLVVDEASMVD--LPMMARLIDALPPHARVIFLGDRDQLA 305 (615)
T ss_pred CCCCeEEEChHhccc--HHHHHHHHHhcccCCEEEEecchhhcC
Confidence 346899999999995 355667778888889999999887654
No 232
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=88.98 E-value=0.56 Score=56.92 Aligned_cols=22 Identities=23% Similarity=0.324 Sum_probs=18.1
Q ss_pred CceeecCCCCchHHHHHHHHHh
Q 001834 298 GGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~ 319 (1008)
-.|+|-++|.|||-|.=-++..
T Consensus 273 vvIIcGeTGsGKTTQvPQFLYE 294 (1172)
T KOG0926|consen 273 VVIICGETGSGKTTQVPQFLYE 294 (1172)
T ss_pred eEEEecCCCCCccccchHHHHH
Confidence 3799999999999998666633
No 233
>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=88.95 E-value=2.6 Score=53.13 Aligned_cols=41 Identities=17% Similarity=0.127 Sum_probs=30.7
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCC
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNS 553 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~ 553 (1008)
..++||||||+.+-. ....+.+..+....+++|-|=|-|-.
T Consensus 416 ~~~llIvDEaSMvd~--~~~~~Ll~~~~~~~rlilvGD~~QLp 456 (720)
T TIGR01448 416 DCDLLIVDESSMMDT--WLALSLLAALPDHARLLLVGDTDQLP 456 (720)
T ss_pred cCCEEEEeccccCCH--HHHHHHHHhCCCCCEEEEECcccccc
Confidence 357899999999954 34455666677788999999876643
No 234
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=88.52 E-value=0.24 Score=53.24 Aligned_cols=49 Identities=29% Similarity=0.488 Sum_probs=36.1
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCccccccccc
Q 001834 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~ 767 (1008)
.....|.||-.....||++.|+|.||..|....++.. . +|..|..++..
T Consensus 239 ~~Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~-~--~c~vC~~~t~g 287 (313)
T KOG1813|consen 239 LLPFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKG-E--KCYVCSQQTHG 287 (313)
T ss_pred cCCccccccccccccchhhcCCceeehhhhccccccC-C--cceeccccccc
Confidence 3445699999999999999999999999987655422 2 34466655543
No 235
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.49 E-value=0.3 Score=54.62 Aligned_cols=48 Identities=27% Similarity=0.740 Sum_probs=38.9
Q ss_pred ccccccCCCCCC---ccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 719 AICCVCSDPPED---SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 719 ~~c~ic~d~~~~---~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
..|.||+|..+. -.+.+|.|.|-..||..|++..+..||. |+..+...
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPv--CK~di~~~ 280 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPV--CKRDIRTD 280 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCC--CCCcCCCC
Confidence 489999987653 4678999999999999999998888995 55555443
No 236
>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=87.23 E-value=8.3 Score=45.22 Aligned_cols=123 Identities=17% Similarity=0.143 Sum_probs=90.4
Q ss_pred ceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCc-cccccccCCEEEEec
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGN-LGLNMVAASHVILLD 931 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg-~GLNL~~A~~VI~~D 931 (1008)
.++|||...---.-.|...|++.++.|+.++--++..+-.++-..|..+. ..+||.|-++-= .=..+..+.+||||.
T Consensus 301 ~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G~--~~iLL~TER~HFfrRy~irGi~~viFY~ 378 (442)
T PF06862_consen 301 SGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHGR--KPILLYTERFHFFRRYRIRGIRHVIFYG 378 (442)
T ss_pred CcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcCC--ceEEEEEhHHhhhhhceecCCcEEEEEC
Confidence 38999987655555678889999999999999999999999999999987 799999854421 133566799999999
Q ss_pred CCCCCChhhHHHHhhhhcCC----cccEEEEEEEeCCC-H-HHHHHHHHHHH
Q 001834 932 LWWNPTTEDQAVDRAHRIGQ----TRPVTVTRLTIRDT-V-EDRILKLQDDK 977 (1008)
Q Consensus 932 p~WNp~~e~QAigR~~RiGQ----~k~V~V~rlv~~~T-i-Ee~I~~lq~~K 977 (1008)
||-+|.-+...+.-+..-.+ ..+..|.-|+++=. + =|+|...+..+
T Consensus 379 ~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~LErIVGt~ra~ 430 (442)
T PF06862_consen 379 PPENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALRLERIVGTERAS 430 (442)
T ss_pred CCCChhHHHHHHhhhcccccccccccCceEEEEecHhHHHHHHHHhCHHHHH
Confidence 99999988888765554443 23456666666531 1 14554444433
No 237
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=86.11 E-value=0.25 Score=51.18 Aligned_cols=51 Identities=24% Similarity=0.535 Sum_probs=41.2
Q ss_pred cccccccC-CCCCCc----cccc-cCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 718 SAICCVCS-DPPEDS----VVTM-CGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 718 ~~~c~ic~-d~~~~~----v~t~-CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
+..||+|. |.-.+| .+.+ |-|-.|..|+..+++..-..||.+.|...+.+.
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~ 66 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKI 66 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHh
Confidence 45799996 443333 3444 999999999999999999999999999887754
No 238
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.94 E-value=0.34 Score=58.92 Aligned_cols=46 Identities=24% Similarity=0.716 Sum_probs=38.7
Q ss_pred cccccccccCCCCCC-----ccccccCcccchhhhhhhhcCCCCCCCCcccccc
Q 001834 716 TSSAICCVCSDPPED-----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQ 764 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~-----~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~ 764 (1008)
.....|.||.+.+.. +-..+|+|+||..|+..|+.. ...||. ||..
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~--CR~~ 339 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPT--CRTV 339 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCc--chhh
Confidence 357899999999887 789999999999999999976 678884 5543
No 239
>PRK04296 thymidine kinase; Provisional
Probab=84.17 E-value=2.4 Score=44.12 Aligned_cols=20 Identities=10% Similarity=0.137 Sum_probs=16.6
Q ss_pred eeecCCCCchHHHHHHHHHh
Q 001834 300 ILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~ 319 (1008)
++.-+||.|||..++.++..
T Consensus 6 litG~~GsGKTT~~l~~~~~ 25 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYN 25 (190)
T ss_pred EEECCCCCHHHHHHHHHHHH
Confidence 56778999999988888754
No 240
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=83.64 E-value=0.3 Score=53.46 Aligned_cols=48 Identities=27% Similarity=0.708 Sum_probs=37.1
Q ss_pred cccccccCCCCCCc-cccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 718 SAICCVCSDPPEDS-VVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~-v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
...|.+|.--+-++ .++.|-|.||..||-+++.. ...|| .|...+...
T Consensus 15 ~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP--~C~i~ih~t 63 (331)
T KOG2660|consen 15 HITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCP--TCDIVIHKT 63 (331)
T ss_pred ceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCC--ccceeccCc
Confidence 34788998766554 79999999999999999987 77888 455555443
No 241
>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=82.93 E-value=4.7 Score=49.24 Aligned_cols=56 Identities=16% Similarity=0.106 Sum_probs=39.4
Q ss_pred cccceeeEEEEccCccc----CCccchHHHHHHhc---ccCcEEEEeccCCCCChhHHHHHHH
Q 001834 507 LAKVGWFRVVLDEAQTI----KNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFR 562 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~i----KN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~DL~sll~ 562 (1008)
|......+|++||...+ ++.......+.... ....++++..||.......++.++.
T Consensus 130 l~s~~~r~~~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~~~ 192 (557)
T PF05876_consen 130 LRSRPARYLLLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERLYE 192 (557)
T ss_pred cccCCcCEEEEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHHHH
Confidence 66777889999999987 34445555554443 4668999999999886555555443
No 242
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.60 E-value=0.64 Score=50.85 Aligned_cols=36 Identities=25% Similarity=0.736 Sum_probs=32.3
Q ss_pred cccccccccCCCCCCccccccCcccchhhhhhhhcC
Q 001834 716 TSSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITG 751 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~ 751 (1008)
.++..|+||-..+-.++.++|+|--|+.||.+++-.
T Consensus 420 sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN 455 (489)
T KOG4692|consen 420 SEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMN 455 (489)
T ss_pred cccccCcceecccchhhccCCCCchHHHHHHHHHhc
Confidence 456789999999999999999999999999998753
No 243
>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin. RAD3 is involved in nucleotide excision repair, and forms part of the transcription factor TFIIH in yeast [].; GO: 0003677 DNA binding, 0004003 ATP-dependent DNA helicase activity, 0005524 ATP binding; PDB: 3CRV_A 3CRW_1 2VL7_A 4A15_A 2VSF_A.
Probab=81.05 E-value=0.89 Score=46.50 Aligned_cols=16 Identities=19% Similarity=0.434 Sum_probs=12.6
Q ss_pred cCCCcEEEechhhhhc
Q 001834 430 LAKYDVVLTTYSIVTN 445 (1008)
Q Consensus 430 l~~~dVVItTy~~l~~ 445 (1008)
...+||||++|..+..
T Consensus 117 ~~~adivi~~y~yl~~ 132 (174)
T PF06733_consen 117 AKNADIVICNYNYLFD 132 (174)
T ss_dssp GGG-SEEEEETHHHHS
T ss_pred cccCCEEEeCHHHHhh
Confidence 4568999999998875
No 244
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=79.82 E-value=2.7 Score=47.27 Aligned_cols=41 Identities=29% Similarity=0.315 Sum_probs=29.4
Q ss_pred cchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 275 LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
.--+|+.|+.-++.-... + ..|.-.-|.|||+-|+|..+.+
T Consensus 229 rn~eQ~~ALdlLld~dI~-l----V~L~G~AGtGKTlLALaAgleq 269 (436)
T COG1875 229 RNAEQRVALDLLLDDDID-L----VSLGGKAGTGKTLLALAAGLEQ 269 (436)
T ss_pred ccHHHHHHHHHhcCCCCC-e----EEeeccCCccHhHHHHHHHHHH
Confidence 334999999888744332 1 4566778999999998877664
No 245
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=79.06 E-value=1.2 Score=49.14 Aligned_cols=51 Identities=24% Similarity=0.696 Sum_probs=38.1
Q ss_pred HhcccccccccccCCCC-CC------------ccccccCcccchhhhhhhhcCCCCCCCCccccccc
Q 001834 712 SRLETSSAICCVCSDPP-ED------------SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (1008)
Q Consensus 712 ~~le~~~~~c~ic~d~~-~~------------~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l 765 (1008)
+.|..++..|.||.|.+ .. |-..+|||++-..|+.+|+.. ...|| -||.++
T Consensus 281 eql~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER-qQTCP--ICr~p~ 344 (491)
T COG5243 281 EQLTNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER-QQTCP--ICRRPV 344 (491)
T ss_pred hhhcCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh-ccCCC--cccCcc
Confidence 34456889999999873 22 367799999999999999854 34566 677664
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=78.70 E-value=3.4 Score=45.28 Aligned_cols=21 Identities=29% Similarity=0.319 Sum_probs=17.1
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|.-..|.|||..|-++...
T Consensus 45 vll~GppGtGKTtlA~~ia~~ 65 (261)
T TIGR02881 45 MIFKGNPGTGKTTVARILGKL 65 (261)
T ss_pred EEEEcCCCCCHHHHHHHHHHH
Confidence 478999999999988766643
No 247
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=78.70 E-value=11 Score=47.14 Aligned_cols=49 Identities=18% Similarity=0.175 Sum_probs=30.1
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---ccCcEEEEeccCCCCChhHHHHHH
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYF 561 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~DL~sll 561 (1008)
+|.++||||+|.+.+.. ....++.| ....+++|+.|=.+.=+.-|.|-+
T Consensus 119 r~KVIIIDEah~LT~~A--~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRC 170 (830)
T PRK07003 119 RFKVYMIDEVHMLTNHA--FNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRC 170 (830)
T ss_pred CceEEEEeChhhCCHHH--HHHHHHHHHhcCCCeEEEEEECChhhccchhhhhe
Confidence 46789999999996432 23334444 345688888876544444444433
No 248
>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=76.03 E-value=6.9 Score=41.72 Aligned_cols=44 Identities=16% Similarity=0.191 Sum_probs=33.5
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
.+-|||-|.+-+..|.+-. ...+.++=--||-|||-..+=+++.
T Consensus 21 ~iliR~~Q~~ia~~mi~~~----~~~n~v~QlnMGeGKTsVI~Pmla~ 64 (229)
T PF12340_consen 21 NILIRPVQVEIAREMISPP----SGKNSVMQLNMGEGKTSVIVPMLAL 64 (229)
T ss_pred CceeeHHHHHHHHHHhCCC----CCCCeEeeecccCCccchHHHHHHH
Confidence 4469999999999998532 2245799999999999877655544
No 249
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=75.61 E-value=1.6 Score=50.80 Aligned_cols=41 Identities=34% Similarity=0.820 Sum_probs=35.1
Q ss_pred ccccccccCCCCCCcccc-ccCcccchhhhhhhhcCCCCCCCC
Q 001834 717 SSAICCVCSDPPEDSVVT-MCGHVFCYQCASEYITGDDNMCPA 758 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t-~CgH~fc~~ci~~~~~~~~~~cp~ 758 (1008)
..-.|++|..+..+|+.+ .|||.||..|+..++.. ...||+
T Consensus 20 ~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~ 61 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPV 61 (391)
T ss_pred ccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcc
Confidence 345799999999999995 99999999999999877 566763
No 250
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.25 E-value=1.5 Score=45.92 Aligned_cols=32 Identities=31% Similarity=0.457 Sum_probs=29.0
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhh
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYI 749 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~ 749 (1008)
..-|+.|+.+..+||+++-||+||.+||-+++
T Consensus 43 FdcCsLtLqPc~dPvit~~GylfdrEaILe~i 74 (303)
T KOG3039|consen 43 FDCCSLTLQPCRDPVITPDGYLFDREAILEYI 74 (303)
T ss_pred cceeeeecccccCCccCCCCeeeeHHHHHHHH
Confidence 44688999999999999999999999998876
No 251
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=74.53 E-value=2.8 Score=37.18 Aligned_cols=43 Identities=28% Similarity=0.736 Sum_probs=29.7
Q ss_pred ccccCCCCCC--ccccccCcccchhhhhhhhcCC--CCCCCCccccccc
Q 001834 721 CCVCSDPPED--SVVTMCGHVFCYQCASEYITGD--DNMCPAPRCKEQL 765 (1008)
Q Consensus 721 c~ic~d~~~~--~v~t~CgH~fc~~ci~~~~~~~--~~~cp~~~c~~~l 765 (1008)
|+.|.-+-++ .+...|+|.|-..||.+++... ...|| .||...
T Consensus 35 Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~~~~~~~~CP--mCR~~w 81 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVWGKCSHNFHMHCILKWLSTQSSKGQCP--MCRQPW 81 (85)
T ss_pred CCCccCCCCCCceeeccCccHHHHHHHHHHHccccCCCCCC--CcCCee
Confidence 4444443333 3677999999999999999865 45666 677543
No 252
>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=74.25 E-value=28 Score=36.83 Aligned_cols=23 Identities=22% Similarity=0.039 Sum_probs=17.9
Q ss_pred cCceeecCCCCchHHHHHHHHHh
Q 001834 297 LGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 297 ~GGILADemGLGKTiqaIali~~ 319 (1008)
..-+|--+.|.|||..+.++...
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~ 61 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAA 61 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 34678889999999988776643
No 253
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.03 E-value=2.1 Score=47.75 Aligned_cols=53 Identities=30% Similarity=0.678 Sum_probs=37.6
Q ss_pred cccccccCCCCC----CccccccCcccchhhhhhhhcCCCC--CCCCcccccccccceeec
Q 001834 718 SAICCVCSDPPE----DSVVTMCGHVFCYQCASEYITGDDN--MCPAPRCKEQLGADVVFS 772 (1008)
Q Consensus 718 ~~~c~ic~d~~~----~~v~t~CgH~fc~~ci~~~~~~~~~--~cp~~~c~~~l~~~~~~~ 772 (1008)
..+|.||.|-.. ..-+..|||+|-..|+..|+.++-. .|| .|+-.+....++.
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cp--ic~ik~~~r~~~N 62 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCP--ICQIKLQERHVAN 62 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCC--ceeecccceeeec
Confidence 357999976432 2456679999999999999987654 565 5665555555553
No 254
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.41 E-value=1.3 Score=47.07 Aligned_cols=54 Identities=33% Similarity=0.756 Sum_probs=40.4
Q ss_pred ccccccccCCCCCC----------ccccccCcccchhhhhhh-hcCCCCCCCCcccccccccceeec
Q 001834 717 SSAICCVCSDPPED----------SVVTMCGHVFCYQCASEY-ITGDDNMCPAPRCKEQLGADVVFS 772 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~----------~v~t~CgH~fc~~ci~~~-~~~~~~~cp~~~c~~~l~~~~~~~ 772 (1008)
++..|.+|...... -.-.+|+|+|-..||..| +-|....|| -|++.++....++
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCP--YCKekVdl~rmfs 287 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCP--YCKEKVDLKRMFS 287 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCc--hHHHHhhHhhhcc
Confidence 46689999755432 234599999999999998 678888898 7888776655443
No 255
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=72.86 E-value=2 Score=46.43 Aligned_cols=47 Identities=23% Similarity=0.596 Sum_probs=36.3
Q ss_pred cccccCC-CCC----CccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 720 ICCVCSD-PPE----DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 720 ~c~ic~d-~~~----~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
.|+.|-. .-. ...+..|+|..|..|+..++......|| .|...+..+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~Cp--eC~~iLRk~ 53 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCP--ECMVILRKN 53 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCC--cccchhhhc
Confidence 4777743 222 2356699999999999999999889999 888777654
No 256
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=72.02 E-value=13 Score=46.37 Aligned_cols=69 Identities=23% Similarity=0.241 Sum_probs=49.5
Q ss_pred chhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhccccccchhhhccccccccccCCCCCCCCCccccc
Q 001834 276 LKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRSLQSKSKTEVLGNQKTEALNLDDDDDNGNAGLDK 355 (1008)
Q Consensus 276 rpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (1008)
.-.|-.++.-+.+.-..+. +.-+|---.|.|||+++..++...
T Consensus 11 ~~~Q~~ai~~l~~~~~~~~--~~~~l~Gvtgs~kt~~~a~~~~~~----------------------------------- 53 (655)
T TIGR00631 11 AGDQPKAIAKLVEGLTDGE--KHQTLLGVTGSGKTFTMANVIAQV----------------------------------- 53 (655)
T ss_pred ChHHHHHHHHHHHhhhcCC--CcEEEECCCCcHHHHHHHHHHHHh-----------------------------------
Confidence 3478888887765543221 123566778999999997777431
Q ss_pred ccccCCCCCCCCCCcccccccccCCCCCCCceEEEcChh-hHHHHHHHHHHHcCC
Q 001834 356 VKETGESDDIKPVPEVSTSTRSFSRRRPAAGTLVVCPAS-VLRQWARELEDKVPD 409 (1008)
Q Consensus 356 ~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~s-Ll~qW~~Ei~k~~~~ 409 (1008)
.+++|||+|.- +..||.+|++.|++.
T Consensus 54 ----------------------------~~p~Lvi~~n~~~A~ql~~el~~f~p~ 80 (655)
T TIGR00631 54 ----------------------------NRPTLVIAHNKTLAAQLYNEFKEFFPE 80 (655)
T ss_pred ----------------------------CCCEEEEECCHHHHHHHHHHHHHhCCC
Confidence 14599999965 678999999999874
No 257
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=71.93 E-value=3 Score=39.91 Aligned_cols=35 Identities=29% Similarity=0.357 Sum_probs=26.7
Q ss_pred eEEEEccCcccCCccchHHHHHHhc--ccCcEEEEeccC
Q 001834 513 FRVVLDEAQTIKNHRTQVARACCSL--RAKRRWCLSGTP 549 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~~s~~~kal~~L--~a~~r~lLTGTP 549 (1008)
.+|||||+|.+. .......++.+ .....++|+|||
T Consensus 89 ~~lviDe~~~l~--~~~~l~~l~~l~~~~~~~vvl~G~~ 125 (131)
T PF13401_consen 89 VLLVIDEADHLF--SDEFLEFLRSLLNESNIKVVLVGTP 125 (131)
T ss_dssp EEEEEETTHHHH--THHHHHHHHHHTCSCBEEEEEEESS
T ss_pred eEEEEeChHhcC--CHHHHHHHHHHHhCCCCeEEEEECh
Confidence 589999999984 24555555555 566789999999
No 258
>PRK05707 DNA polymerase III subunit delta'; Validated
Probab=71.68 E-value=18 Score=41.02 Aligned_cols=45 Identities=13% Similarity=0.102 Sum_probs=34.5
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~ 321 (1008)
.++|+|.....-|+++.+.+ ..=++.-..|+|||..|.+++....
T Consensus 3 ~~yPWl~~~~~~~~~~~r~~---ha~Lf~G~~G~GK~~~A~~~A~~ll 47 (328)
T PRK05707 3 EIYPWQQSLWQQLAGRGRHP---HAYLLHGPAGIGKRALAERLAAALL 47 (328)
T ss_pred cCCCCcHHHHHHHHHCCCcc---eeeeeECCCCCCHHHHHHHHHHHHc
Confidence 46899999999998773322 2346788999999999998886644
No 259
>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=71.62 E-value=23 Score=43.70 Aligned_cols=39 Identities=15% Similarity=0.198 Sum_probs=27.1
Q ss_pred CceEEEcChh-hHHHHHHHHHHHc-C-CCCCeEEEEEeCCCC
Q 001834 385 AGTLVVCPAS-VLRQWARELEDKV-P-DKAALSVLIYHGGSR 423 (1008)
Q Consensus 385 ~~tLIV~P~s-Ll~qW~~Ei~k~~-~-~~~~l~v~v~~g~~r 423 (1008)
+++||.+|+. |..|+.+++.... . ....+++.+..|...
T Consensus 47 ~rvlIstpT~~Lq~Ql~~~l~~l~~~~l~~~i~~~~lkGr~n 88 (636)
T TIGR03117 47 QKIAIAVPTLALMGQLWSELERLTAEGLAGPVQAGFFPGSQE 88 (636)
T ss_pred ceEEEECCcHHHHHHHHHHHHHHHHhhcCCCeeEEEEECCcc
Confidence 4589999965 7799998887654 1 112577777777654
No 260
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=71.37 E-value=16 Score=46.01 Aligned_cols=42 Identities=31% Similarity=0.334 Sum_probs=31.1
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~ 321 (1008)
.|-.-|++|+...+.-+.- .++--=.|.|||-+...+|..+.
T Consensus 669 ~LN~dQr~A~~k~L~aedy------~LI~GMPGTGKTTtI~~LIkiL~ 710 (1100)
T KOG1805|consen 669 RLNNDQRQALLKALAAEDY------ALILGMPGTGKTTTISLLIKILV 710 (1100)
T ss_pred hcCHHHHHHHHHHHhccch------heeecCCCCCchhhHHHHHHHHH
Confidence 5888999999988866543 23334469999998888886644
No 261
>PLN03025 replication factor C subunit; Provisional
Probab=71.23 E-value=42 Score=37.89 Aligned_cols=57 Identities=19% Similarity=0.280 Sum_probs=32.3
Q ss_pred eeeEEEEccCcccCCccch-HHHHHHhcccCcEEEEeccCCCCChhHHHHHHHHHccC
Q 001834 511 GWFRVVLDEAQTIKNHRTQ-VARACCSLRAKRRWCLSGTPIQNSIDDLYSYFRFLKYD 567 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~-~~kal~~L~a~~r~lLTGTPi~N~l~DL~sll~fL~~~ 567 (1008)
.|.+|||||+|.+-..... ..+.+.......+++|++++...-+..|-+-...+...
T Consensus 99 ~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~ 156 (319)
T PLN03025 99 RHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFS 156 (319)
T ss_pred CeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCC
Confidence 3678999999998532211 11222222345678888887655555555544433333
No 262
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.76 E-value=2 Score=45.00 Aligned_cols=50 Identities=26% Similarity=0.395 Sum_probs=36.5
Q ss_pred ccccccccCCCCCC----ccccccCcccchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 717 SSAICCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~----~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
..-+|++|.+.+.+ .++.+|||++|++|++.++..+ -.|| .|...+....
T Consensus 220 ~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D-~v~p--v~d~plkdrd 273 (303)
T KOG3039|consen 220 KRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKD-MVDP--VTDKPLKDRD 273 (303)
T ss_pred cceecccchhhhcCccceEEeccCCcEeeHHHHHHhcccc-cccc--CCCCcCcccc
Confidence 35589999887655 5899999999999999998754 3444 4555554443
No 263
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=70.17 E-value=28 Score=40.00 Aligned_cols=43 Identities=16% Similarity=0.139 Sum_probs=26.7
Q ss_pred hhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 278 HQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 278 yQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
-|..++..+......+.-...-++.-..|+|||..+..++...
T Consensus 27 Gh~~a~~~L~~a~~~grl~ha~L~~G~~G~GKttlA~~lA~~L 69 (351)
T PRK09112 27 GHEEAEAFLAQAYREGKLHHALLFEGPEGIGKATLAFHLANHI 69 (351)
T ss_pred CcHHHHHHHHHHHHcCCCCeeEeeECCCCCCHHHHHHHHHHHH
Confidence 3444555555433322111245779999999999988887553
No 264
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=68.45 E-value=3.3 Score=52.06 Aligned_cols=43 Identities=19% Similarity=0.153 Sum_probs=25.9
Q ss_pred cccchhhHHHHHHHHHhhccCCCccC--ceeecCCCCchHHHHHH
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLG--GILADDQGLGKTISIIA 315 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~G--GILADemGLGKTiqaIa 315 (1008)
+.-||-|.+-...+.+.........+ .++=-.+|+|||+-.|.
T Consensus 24 ~e~R~~Q~~M~~~V~~al~~~~~~~~~~lviEAgTGtGKTlaYLl 68 (697)
T PRK11747 24 FIPRAGQRQMIAEVAKTLAGEYLKDGRILVIEAGTGVGKTLSYLL 68 (697)
T ss_pred CCcCHHHHHHHHHHHHHHhcccccccceEEEECCCCcchhHHHHH
Confidence 47899999966666544332100012 23334799999997663
No 265
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=68.08 E-value=18 Score=43.76 Aligned_cols=101 Identities=18% Similarity=0.257 Sum_probs=65.4
Q ss_pred eEEEEeccHHHHHHHHHHHHhc----C-----CeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH----C-----IQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAA 924 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~----g-----i~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A 924 (1008)
-||||----+-++..+..|.+. | +-++-|+.+.+.+...++ |...|.+.+-+++.|..+.+.|.....
T Consensus 475 DILVFltGQeEIEt~~e~l~~~~~~LGski~eliv~PiYaNLPselQakI---FePtP~gaRKVVLATNIAETSlTIdgI 551 (902)
T KOG0923|consen 475 DILVFLTGQEEIETVKENLKERCRRLGSKIRELIVLPIYANLPSELQAKI---FEPTPPGARKVVLATNIAETSLTIDGI 551 (902)
T ss_pred cEEEEeccHHHHHHHHHHHHHHHHHhccccceEEEeeccccCChHHHHhh---cCCCCCCceeEEEeecchhhceeecCe
Confidence 6788876655555555555443 2 456778899987765554 655555466555577888888777776
Q ss_pred CEEEEecCCC------CC--------------ChhhHHHHhhhhcCCcccEEEEEEEe
Q 001834 925 SHVILLDLWW------NP--------------TTEDQAVDRAHRIGQTRPVTVTRLTI 962 (1008)
Q Consensus 925 ~~VI~~Dp~W------Np--------------~~e~QAigR~~RiGQ~k~V~V~rlv~ 962 (1008)
.+|| ||.+ || +.-.||.||++|.|--+- |||++
T Consensus 552 ~yVi--DpGf~K~nsynprtGmesL~v~piSKAsA~QRaGRAGRtgPGKC---fRLYt 604 (902)
T KOG0923|consen 552 KYVI--DPGFVKQNSYNPRTGMESLLVTPISKASANQRAGRAGRTGPGKC---FRLYT 604 (902)
T ss_pred EEEe--cCccccccCcCCCcCceeEEEeeechhhhhhhccccCCCCCCce---EEeec
Confidence 6665 4442 33 456688888888776654 55554
No 266
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.56 E-value=2.8 Score=47.32 Aligned_cols=47 Identities=23% Similarity=0.769 Sum_probs=33.8
Q ss_pred cccccccccCCCCCCc--------cccccCcccchhhhhhhhcCCC------CCCCCcccccc
Q 001834 716 TSSAICCVCSDPPEDS--------VVTMCGHVFCYQCASEYITGDD------NMCPAPRCKEQ 764 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~--------v~t~CgH~fc~~ci~~~~~~~~------~~cp~~~c~~~ 764 (1008)
.....|.||.+..... ++..|.|.||..|+..|..... ..|| .||..
T Consensus 159 s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP--~CRv~ 219 (344)
T KOG1039|consen 159 SSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCP--FCRVP 219 (344)
T ss_pred cccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCC--cccCc
Confidence 4577899999765433 4578999999999999874333 4566 55543
No 267
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=67.36 E-value=2.6 Score=47.03 Aligned_cols=50 Identities=30% Similarity=0.700 Sum_probs=41.3
Q ss_pred ccccccccCCCCCCccccccCcc-cchhhhhhhhcCCCCCCCCcccccccccce
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLGADV 769 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~-fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~ 769 (1008)
+..+|-||++.+.+-++.+|-|. .|..|..... ...+.|| .||..+....
T Consensus 289 ~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CP--ICRqpi~~ll 339 (349)
T KOG4265|consen 289 SGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCP--ICRQPIEELL 339 (349)
T ss_pred CCCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCC--ccccchHhhh
Confidence 56799999999999999999998 8999987655 6667888 6888776543
No 268
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.74 E-value=2.4 Score=48.67 Aligned_cols=44 Identities=30% Similarity=0.743 Sum_probs=34.3
Q ss_pred cccccccCCCCCC-----------------ccccccCcccchhhhhhhhcCCCCCCCCccc
Q 001834 718 SAICCVCSDPPED-----------------SVVTMCGHVFCYQCASEYITGDDNMCPAPRC 761 (1008)
Q Consensus 718 ~~~c~ic~d~~~~-----------------~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c 761 (1008)
...|.||..+.+. =.+|+|.|+|-.+|+.+|+.+-.-.||++.|
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~ 631 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRC 631 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCC
Confidence 4579999865431 2567999999999999999877778886544
No 269
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=66.03 E-value=1.5 Score=49.22 Aligned_cols=57 Identities=21% Similarity=0.509 Sum_probs=40.4
Q ss_pred cccccccCCCCCCc-----cccccCcccchhhhhhhhcCCCCCCCCcccccccccceeecccc
Q 001834 718 SAICCVCSDPPEDS-----VVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFSKTT 775 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~-----v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~~~~ 775 (1008)
..+|++|+|..+.+ +...|||.|..+||+.|+. ....-.||.|.....+..++..-.
T Consensus 4 g~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~-k~~~~~cp~c~~katkr~i~~e~a 65 (463)
T KOG1645|consen 4 GTTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLG-KKTKMQCPLCSGKATKRQIRPEYA 65 (463)
T ss_pred cccCceeeeeeeecCceEEeeecccccccHHHHHHHHh-hhhhhhCcccCChhHHHHHHHHHH
Confidence 35799999987665 5678999999999999994 433333447777666555544333
No 270
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=65.95 E-value=2.9 Score=47.29 Aligned_cols=53 Identities=30% Similarity=0.678 Sum_probs=40.1
Q ss_pred cccccccccCCCCC---CccccccCcccchhhhhhhhc----CC---CCCCCCcccccccccc
Q 001834 716 TSSAICCVCSDPPE---DSVVTMCGHVFCYQCASEYIT----GD---DNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~---~~v~t~CgH~fc~~ci~~~~~----~~---~~~cp~~~c~~~l~~~ 768 (1008)
.+.-.|+||.+... .-+..+|+|+||..|...|.+ +. .-.||.+.|+......
T Consensus 182 ~slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~C~~~a~~g 244 (445)
T KOG1814|consen 182 NSLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPKCGSVAPPG 244 (445)
T ss_pred hhcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCCCcccCCch
Confidence 45668999987543 468899999999999999875 21 2379999998765544
No 271
>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=65.60 E-value=7.7 Score=43.12 Aligned_cols=22 Identities=23% Similarity=0.344 Sum_probs=17.7
Q ss_pred CceeecCCCCchHHHHHHHHHh
Q 001834 298 GGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~ 319 (1008)
+-+|--+.|.|||..|-++...
T Consensus 60 ~vll~G~pGTGKT~lA~~ia~~ 81 (284)
T TIGR02880 60 HMSFTGNPGTGKTTVALRMAQI 81 (284)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 4577899999999988777654
No 272
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=65.45 E-value=16 Score=44.22 Aligned_cols=116 Identities=19% Similarity=0.257 Sum_probs=80.7
Q ss_pred ceEEEEeccH----HHHHHHHHHHHhc------CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccc
Q 001834 853 IKSIVFSQWT----RMLDLVENSLNQH------CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMV 922 (1008)
Q Consensus 853 ~KvIIFSq~~----~~ld~L~~~L~~~------gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~ 922 (1008)
.-+|||-.-. .+.+.|...|.+. ++.++-|...++.+-..+ =|+..+.+++-.|++|..+.+.|...
T Consensus 564 GdilIfmtGqediE~t~~~i~~~l~ql~~~~~~~L~vlpiYSQLp~dlQ~k---iFq~a~~~vRK~IvATNIAETSLTi~ 640 (1042)
T KOG0924|consen 564 GDILIFMTGQEDIECTCDIIKEKLEQLDSAPTTDLAVLPIYSQLPADLQAK---IFQKAEGGVRKCIVATNIAETSLTIP 640 (1042)
T ss_pred CCEEEecCCCcchhHHHHHHHHHHHhhhcCCCCceEEEeehhhCchhhhhh---hcccCCCCceeEEEeccchhhceeec
Confidence 3678886433 3456666666554 577888889888665444 46655555787788999999999999
Q ss_pred cCCEEEEecC----CCCC-----------ChhhHHHHhhhhcCCcccEEEEEEEeCCCHHHHHH
Q 001834 923 AASHVILLDL----WWNP-----------TTEDQAVDRAHRIGQTRPVTVTRLTIRDTVEDRIL 971 (1008)
Q Consensus 923 ~A~~VI~~Dp----~WNp-----------~~e~QAigR~~RiGQ~k~V~V~rlv~~~TiEe~I~ 971 (1008)
...+||=-.. .+|| ....||--|++|-|.+.+-+-||++++++....|+
T Consensus 641 gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml 704 (1042)
T KOG0924|consen 641 GIRYVIDTGYCKLKVYNPRIGMDALQIVPISQANADQRAGRAGRTGPGTCYRLYTEDAYKNEML 704 (1042)
T ss_pred ceEEEEecCceeeeecccccccceeEEEechhccchhhccccCCCCCcceeeehhhhHHHhhcc
Confidence 8888772221 1333 34456666777777788889999999988777665
No 273
>CHL00181 cbbX CbbX; Provisional
Probab=65.22 E-value=13 Score=41.27 Aligned_cols=21 Identities=19% Similarity=0.330 Sum_probs=17.7
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|--..|.|||..|-++...
T Consensus 62 ill~G~pGtGKT~lAr~la~~ 82 (287)
T CHL00181 62 MSFTGSPGTGKTTVALKMADI 82 (287)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478899999999999888654
No 274
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=65.01 E-value=14 Score=41.92 Aligned_cols=43 Identities=28% Similarity=0.251 Sum_probs=30.3
Q ss_pred cccceeeEEEEccCccc--CCccchHHHHHHhcc-cCcEEEEeccC
Q 001834 507 LAKVGWFRVVLDEAQTI--KNHRTQVARACCSLR-AKRRWCLSGTP 549 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~i--KN~~s~~~kal~~L~-a~~r~lLTGTP 549 (1008)
|..-.....|+|||... ++...+.+.....+. ....+++|||-
T Consensus 165 l~~~~iKmfvlDEaDEmLs~gfkdqI~~if~~lp~~vQv~l~SAT~ 210 (397)
T KOG0327|consen 165 LSTDGIKMFVLDEADEMLSRGFKDQIYDIFQELPSDVQVVLLSATM 210 (397)
T ss_pred ccccceeEEeecchHhhhccchHHHHHHHHHHcCcchhheeecccC
Confidence 44445668999999886 455567766666774 44678899984
No 275
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=64.41 E-value=3.4 Score=43.79 Aligned_cols=43 Identities=30% Similarity=0.739 Sum_probs=28.3
Q ss_pred cccccCC--CCCCccccccCcccchhhhhhhhcCCCCCCCCccccccccc
Q 001834 720 ICCVCSD--PPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGA 767 (1008)
Q Consensus 720 ~c~ic~d--~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~ 767 (1008)
.|..|.. ....-.+|.|+|+||..|...-... .|+ .|+..+..
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~--lCkk~ir~ 49 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCP--LCKKSIRI 49 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCCcc---ccc--cccceeee
Confidence 3656643 3344589999999999998653322 555 78776543
No 276
>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=64.01 E-value=36 Score=41.14 Aligned_cols=96 Identities=15% Similarity=0.066 Sum_probs=69.8
Q ss_pred cccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc-CCeEEE
Q 001834 803 EYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH-CIQYRR 881 (1008)
Q Consensus 803 ~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~-gi~~~~ 881 (1008)
...|.|-...+..+......+. ++||.+........+.+.|++. |..+..
T Consensus 5 ~TGsGKT~v~l~~i~~~l~~g~-----------------------------~vLvlvP~i~L~~Q~~~~l~~~f~~~v~v 55 (505)
T TIGR00595 5 VTGSGKTEVYLQAIEKVLALGK-----------------------------SVLVLVPEIALTPQMIQRFKYRFGSQVAV 55 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHcCC-----------------------------eEEEEeCcHHHHHHHHHHHHHHhCCcEEE
Confidence 3468899888888877776655 8999999999888888888765 788899
Q ss_pred ecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 882 LDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 882 l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
++|.++..+|.+...+-..+. ..|++.+..+. =+-+.....||+=+
T Consensus 56 lhs~~~~~er~~~~~~~~~g~--~~IVVGTrsal--f~p~~~l~lIIVDE 101 (505)
T TIGR00595 56 LHSGLSDSEKLQAWRKVKNGE--ILVVIGTRSAL--FLPFKNLGLIIVDE 101 (505)
T ss_pred EECCCCHHHHHHHHHHHHcCC--CCEEECChHHH--cCcccCCCEEEEEC
Confidence 999999999988877776664 56766553322 12344444455433
No 277
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.61 E-value=52 Score=40.76 Aligned_cols=21 Identities=24% Similarity=0.336 Sum_probs=17.7
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-||.-..|.|||-.|.+++..
T Consensus 40 yLF~GPpGvGKTTlAriLAK~ 60 (702)
T PRK14960 40 YLFTGTRGVGKTTIARILAKC 60 (702)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 488999999999888777755
No 278
>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=63.08 E-value=15 Score=46.29 Aligned_cols=43 Identities=28% Similarity=0.333 Sum_probs=34.0
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
+.||.|++...-+.+-...+ ..++|--.+|.|||+.+|+..+.
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~~---~~~llEsPTGtGKTlslL~~aL~ 52 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDRG---DEAILEMPSGTGKTISLLSLILA 52 (705)
T ss_pred CCCHHHHHHHHHHHHHhccC---CceEEeCCCCCCccHHHHHHHHH
Confidence 36899999888887655543 33789999999999999887765
No 279
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=62.97 E-value=9.7 Score=43.12 Aligned_cols=22 Identities=27% Similarity=0.315 Sum_probs=18.6
Q ss_pred CceeecCCCCchHHHHHHHHHh
Q 001834 298 GGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~ 319 (1008)
.-+|.-+.|.|||..+.+++..
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~ 59 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARE 59 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4688899999999999888754
No 280
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=62.80 E-value=37 Score=42.74 Aligned_cols=73 Identities=10% Similarity=0.106 Sum_probs=53.8
Q ss_pred eEEEEeccHHHHHHH----HHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEE
Q 001834 854 KSIVFSQWTRMLDLV----ENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVI 928 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L----~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI 928 (1008)
+++|.+.-...+.-+ ...+...|+++..++|+++..+|.+.++...++. +.|++.+.......+.+.....||
T Consensus 312 q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g~--~~IvVgT~~ll~~~v~~~~l~lvV 388 (681)
T PRK10917 312 QAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASGE--ADIVIGTHALIQDDVEFHNLGLVI 388 (681)
T ss_pred eEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCCC--CCEEEchHHHhcccchhcccceEE
Confidence 889999887766544 4445555899999999999999999999998775 678887654454455555554444
No 281
>PRK04195 replication factor C large subunit; Provisional
Probab=62.66 E-value=48 Score=39.85 Aligned_cols=23 Identities=30% Similarity=0.218 Sum_probs=18.6
Q ss_pred cCceeecCCCCchHHHHHHHHHh
Q 001834 297 LGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 297 ~GGILADemGLGKTiqaIali~~ 319 (1008)
...+|.-..|.|||..+-+++..
T Consensus 40 ~~lLL~GppG~GKTtla~ala~e 62 (482)
T PRK04195 40 KALLLYGPPGVGKTSLAHALAND 62 (482)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 45789999999999888777643
No 282
>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=61.31 E-value=52 Score=31.11 Aligned_cols=23 Identities=26% Similarity=0.183 Sum_probs=17.2
Q ss_pred cCceeecCCCCchHHHHHHHHHh
Q 001834 297 LGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 297 ~GGILADemGLGKTiqaIali~~ 319 (1008)
...++--+.|.|||..+-.++..
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~ 42 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANE 42 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHH
Confidence 34688889999999766665533
No 283
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=61.14 E-value=79 Score=38.26 Aligned_cols=57 Identities=12% Similarity=0.114 Sum_probs=31.0
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---ccCcEEEEeccCCCCChhHHHHHHHHHccCCc
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~ 569 (1008)
+|.++||||+|.+... .....++.| ....+++|..|-...-+.-+.+-...+...++
T Consensus 119 ~~kV~iIDE~~~ls~~--a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l 178 (509)
T PRK14958 119 RFKVYLIDEVHMLSGH--SFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQL 178 (509)
T ss_pred CcEEEEEEChHhcCHH--HHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCC
Confidence 4678999999998532 222333444 34556777666544444444443333333333
No 284
>PRK05580 primosome assembly protein PriA; Validated
Probab=60.81 E-value=47 Score=41.73 Aligned_cols=95 Identities=12% Similarity=0.015 Sum_probs=70.5
Q ss_pred ccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc-CCeEEEe
Q 001834 804 YISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH-CIQYRRL 882 (1008)
Q Consensus 804 ~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~-gi~~~~l 882 (1008)
..|.|-...+..+......+. ++||.+........+.+.|++. |..+..+
T Consensus 171 TGSGKT~v~l~~i~~~l~~g~-----------------------------~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~ 221 (679)
T PRK05580 171 TGSGKTEVYLQAIAEVLAQGK-----------------------------QALVLVPEIALTPQMLARFRARFGAPVAVL 221 (679)
T ss_pred CCChHHHHHHHHHHHHHHcCC-----------------------------eEEEEeCcHHHHHHHHHHHHHHhCCCEEEE
Confidence 468899888887777666554 8999999999988888888765 8889999
Q ss_pred cCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 883 DGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 883 ~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
+|+++..+|.+...+...+. ++|++.+..+. =+.+.....||+=+
T Consensus 222 ~s~~s~~~r~~~~~~~~~g~--~~IVVgTrsal--~~p~~~l~liVvDE 266 (679)
T PRK05580 222 HSGLSDGERLDEWRKAKRGE--AKVVIGARSAL--FLPFKNLGLIIVDE 266 (679)
T ss_pred ECCCCHHHHHHHHHHHHcCC--CCEEEeccHHh--cccccCCCEEEEEC
Confidence 99999999988888887665 67777654322 23444555555444
No 285
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=60.74 E-value=42 Score=39.92 Aligned_cols=22 Identities=27% Similarity=0.225 Sum_probs=17.4
Q ss_pred CceeecCCCCchHHHHHHHHHh
Q 001834 298 GGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~ 319 (1008)
.-+|.-..|+|||-.+-|+...
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~ 171 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNY 171 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 3578899999999888776644
No 286
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=60.29 E-value=64 Score=36.16 Aligned_cols=20 Identities=35% Similarity=0.386 Sum_probs=15.7
Q ss_pred cee-ecCCCCchHHHHHHHHH
Q 001834 299 GIL-ADDQGLGKTISIIALIQ 318 (1008)
Q Consensus 299 GIL-ADemGLGKTiqaIali~ 318 (1008)
.+| .-+.|.|||-.+-++..
T Consensus 45 ~lll~G~~G~GKT~la~~l~~ 65 (316)
T PHA02544 45 MLLHSPSPGTGKTTVAKALCN 65 (316)
T ss_pred EEEeeCcCCCCHHHHHHHHHH
Confidence 455 89999999988877753
No 287
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=59.60 E-value=35 Score=40.64 Aligned_cols=21 Identities=24% Similarity=0.264 Sum_probs=16.1
Q ss_pred CceeecCCCCchHHHHHHHHH
Q 001834 298 GGILADDQGLGKTISIIALIQ 318 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~ 318 (1008)
+-+|.-+.|+|||-.+-|+..
T Consensus 143 pl~i~G~~G~GKTHLl~Ai~~ 163 (450)
T PRK14087 143 PLFIYGESGMGKTHLLKAAKN 163 (450)
T ss_pred ceEEECCCCCcHHHHHHHHHH
Confidence 356888999999977766654
No 288
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=59.30 E-value=18 Score=46.05 Aligned_cols=61 Identities=15% Similarity=0.267 Sum_probs=38.3
Q ss_pred CCCCceEEEcCh-hhHHHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhhhh
Q 001834 382 RPAAGTLVVCPA-SVLRQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVT 444 (1008)
Q Consensus 382 ~~~~~tLIV~P~-sLl~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~l~ 444 (1008)
.|.+.+.+|+|. .|+.-=.+.+.+..-.. .++++-..|.... +.......+++|||.+..-
T Consensus 971 ~p~~kvvyIap~kalvker~~Dw~~r~~~~-g~k~ie~tgd~~p-d~~~v~~~~~~ittpek~d 1032 (1230)
T KOG0952|consen 971 YPGSKVVYIAPDKALVKERSDDWSKRDELP-GIKVIELTGDVTP-DVKAVREADIVITTPEKWD 1032 (1230)
T ss_pred CCCccEEEEcCCchhhcccccchhhhcccC-CceeEeccCccCC-ChhheecCceEEccccccc
Confidence 344678999994 46643222223322222 5777777776544 3677788999999987653
No 289
>PF13245 AAA_19: Part of AAA domain
Probab=59.03 E-value=19 Score=31.42 Aligned_cols=22 Identities=27% Similarity=0.344 Sum_probs=17.3
Q ss_pred eeecCCCCchHHHHHHHHHhhc
Q 001834 300 ILADDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~~~ 321 (1008)
++---.|.|||-+++.++....
T Consensus 14 vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 14 VVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred EEECCCCCCHHHHHHHHHHHHH
Confidence 4467789999988888887643
No 290
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=58.38 E-value=13 Score=44.90 Aligned_cols=45 Identities=22% Similarity=0.112 Sum_probs=35.3
Q ss_pred cchhhHHHHHHHHHhhc-----cCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 275 LLKHQKIALAWMLQKET-----RSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 275 LrpyQ~~~v~wml~~e~-----~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
.....++++.|.+.+.. .-..++|.||+--.|.|||+.|-|+...
T Consensus 250 ~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~~ 299 (494)
T COG0464 250 AKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVALE 299 (494)
T ss_pred HHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHhh
Confidence 66778888999887655 2234578899999999999999887753
No 291
>PRK08084 DNA replication initiation factor; Provisional
Probab=58.15 E-value=69 Score=34.39 Aligned_cols=21 Identities=19% Similarity=0.090 Sum_probs=15.9
Q ss_pred CceeecCCCCchHHHHHHHHH
Q 001834 298 GGILADDQGLGKTISIIALIQ 318 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~ 318 (1008)
.-+|.-..|.|||-.+.++..
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~ 67 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACA 67 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHH
Confidence 358888999999976666553
No 292
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=56.28 E-value=7.2 Score=31.54 Aligned_cols=45 Identities=29% Similarity=0.626 Sum_probs=30.6
Q ss_pred ccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 719 AICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 719 ~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
..|..|.......++.+|||+.|..|..- .+-+-|| .|...+...
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~---~rYngCP--fC~~~~~~~ 52 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPG---ERYNGCP--FCGTPFEFD 52 (55)
T ss_pred eeEEEccccccccccccccceeeccccCh---hhccCCC--CCCCcccCC
Confidence 35666777767788999999999999753 1223455 666655443
No 293
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=54.98 E-value=59 Score=29.70 Aligned_cols=56 Identities=5% Similarity=-0.037 Sum_probs=40.0
Q ss_pred eEEEEec------cHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEE
Q 001834 854 KSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLM 910 (1008)
Q Consensus 854 KvIIFSq------~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLi 910 (1008)
+|+||+. +-.....+...|...|++|..++=....+.|+.+.+......- +.|++-
T Consensus 13 ~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~~tv-P~vfi~ 74 (97)
T TIGR00365 13 PVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNWPTI-PQLYVK 74 (97)
T ss_pred CEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCCCCC-CEEEEC
Confidence 9999975 4566788899999999999988866566667666655543322 556653
No 294
>PRK08116 hypothetical protein; Validated
Probab=54.98 E-value=70 Score=35.18 Aligned_cols=24 Identities=25% Similarity=0.264 Sum_probs=19.7
Q ss_pred ccCceeecCCCCchHHHHHHHHHh
Q 001834 296 CLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 296 ~~GGILADemGLGKTiqaIali~~ 319 (1008)
..|-+|.-+.|.|||..+.|++..
T Consensus 114 ~~gl~l~G~~GtGKThLa~aia~~ 137 (268)
T PRK08116 114 NVGLLLWGSVGTGKTYLAACIANE 137 (268)
T ss_pred CceEEEECCCCCCHHHHHHHHHHH
Confidence 356789999999999998887654
No 295
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=54.76 E-value=48 Score=40.84 Aligned_cols=40 Identities=20% Similarity=0.158 Sum_probs=24.9
Q ss_pred cccceeeEEEEccCcccCCccchHHHHHHhc--ccCcEEEEecc
Q 001834 507 LAKVGWFRVVLDEAQTIKNHRTQVARACCSL--RAKRRWCLSGT 548 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~iKN~~s~~~kal~~L--~a~~r~lLTGT 548 (1008)
+....|+++||||||.|+.. .....+-.+ .....|++|-|
T Consensus 348 iRGqtfDLLIVDEAqFIk~~--al~~ilp~l~~~n~k~I~ISS~ 389 (738)
T PHA03368 348 IRGQDFNLLFVDEANFIRPD--AVQTIMGFLNQTNCKIIFVSST 389 (738)
T ss_pred ccCCcccEEEEechhhCCHH--HHHHHHHHHhccCccEEEEecC
Confidence 44557999999999999852 222222222 34456777755
No 296
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=54.76 E-value=1.2e+02 Score=36.15 Aligned_cols=21 Identities=24% Similarity=0.245 Sum_probs=16.5
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|.-..|+|||-.+-|+...
T Consensus 133 l~lyG~~G~GKTHLl~ai~~~ 153 (440)
T PRK14088 133 LFIYGGVGLGKTHLLQSIGNY 153 (440)
T ss_pred EEEEcCCCCcHHHHHHHHHHH
Confidence 577888999999887766644
No 297
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=54.72 E-value=52 Score=40.99 Aligned_cols=72 Identities=13% Similarity=0.109 Sum_probs=50.9
Q ss_pred eEEEEeccHHHHHHHHHHH----HhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEE
Q 001834 854 KSIVFSQWTRMLDLVENSL----NQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHV 927 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L----~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V 927 (1008)
+++|-+.....+.-+...+ ...|+++..++|+++.++|...++...++. +.|++.+....-..+.+.....|
T Consensus 286 qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g~--~~IiVgT~~ll~~~~~~~~l~lv 361 (630)
T TIGR00643 286 QVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASGQ--IHLVVGTHALIQEKVEFKRLALV 361 (630)
T ss_pred cEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCCC--CCEEEecHHHHhccccccccceE
Confidence 8888888877766555444 445899999999999999999999888765 66777654444444444444433
No 298
>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=54.57 E-value=64 Score=37.74 Aligned_cols=21 Identities=29% Similarity=0.232 Sum_probs=16.8
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|--..|+|||-.+-|+...
T Consensus 139 l~l~G~~G~GKThL~~ai~~~ 159 (405)
T TIGR00362 139 LFIYGGVGLGKTHLLHAIGNE 159 (405)
T ss_pred EEEECCCCCcHHHHHHHHHHH
Confidence 468889999999988776644
No 299
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=54.43 E-value=79 Score=38.05 Aligned_cols=49 Identities=14% Similarity=0.059 Sum_probs=32.5
Q ss_pred ccccchhhHHHHHHHHHh---hccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 272 SVNLLKHQKIALAWMLQK---ETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~---e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
...|.|||+..+.-++-- ++...+-.-+++.-.=|=|||-.+-+++.+.
T Consensus 59 p~~l~PwQkFiia~l~G~~~k~T~~rrf~e~fI~v~RkngKt~l~A~i~~~~ 110 (546)
T COG4626 59 PESLEPWQKFIVAALFGFYDKQTGIRRFKEAFIFIPRKNGKSTLAAGIMMTA 110 (546)
T ss_pred ccccchHHHHHHHHHhceeecCCCceEEEEEEEEEecCCchHHHHHHHHHHH
Confidence 567999999998877722 1111112235777778889998776666553
No 300
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=53.81 E-value=51 Score=32.41 Aligned_cols=86 Identities=16% Similarity=0.086 Sum_probs=55.5
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeE--EEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQY--RRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVILLD 931 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~--~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~~D 931 (1008)
.|=++||.-.+...+-..+..+|+.+ +.=.|....-.-.++++.|.+|++ .+++++-+.
T Consensus 3 ~valisQSG~~~~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~D~~-t~~I~ly~E------------------ 63 (138)
T PF13607_consen 3 GVALISQSGALGTAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAEDPD-TRVIVLYLE------------------ 63 (138)
T ss_dssp SEEEEES-HHHHHHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT-SS---EEEEEES------------------
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhcCCC-CCEEEEEcc------------------
Confidence 56799999999999999999886654 555676666677789999999987 888886644
Q ss_pred CCCCCChhhHHHHhhhhcCCcccEEEEEEE
Q 001834 932 LWWNPTTEDQAVDRAHRIGQTRPVTVTRLT 961 (1008)
Q Consensus 932 p~WNp~~e~QAigR~~RiGQ~k~V~V~rlv 961 (1008)
..=||..+.++.-|+.|- |||.+++-=
T Consensus 64 ~~~d~~~f~~~~~~a~~~---KPVv~lk~G 90 (138)
T PF13607_consen 64 GIGDGRRFLEAARRAARR---KPVVVLKAG 90 (138)
T ss_dssp --S-HHHHHHHHHHHCCC---S-EEEEE--
T ss_pred CCCCHHHHHHHHHHHhcC---CCEEEEeCC
Confidence 334676677776666544 999887754
No 301
>PF04641 Rtf2: Rtf2 RING-finger
Probab=53.66 E-value=11 Score=41.46 Aligned_cols=51 Identities=22% Similarity=0.449 Sum_probs=37.1
Q ss_pred ccccccccCCCCCC----ccccccCcccchhhhhhhhcCCCCCCCCcccccccccceee
Q 001834 717 SSAICCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVF 771 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~----~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~ 771 (1008)
....||++...+.. -++-+|||+|++.|+.++- .+..|| .|........++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp--~c~~~f~~~DiI 166 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCP--VCGKPFTEEDII 166 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--cccccc--ccCCccccCCEE
Confidence 45689999877743 3677999999999999983 345566 677776655443
No 302
>PRK06526 transposase; Provisional
Probab=53.23 E-value=41 Score=36.71 Aligned_cols=23 Identities=26% Similarity=0.151 Sum_probs=19.0
Q ss_pred cCceeecCCCCchHHHHHHHHHh
Q 001834 297 LGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 297 ~GGILADemGLGKTiqaIali~~ 319 (1008)
.+-+|.-..|.|||..+.++...
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~ 121 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIR 121 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHH
Confidence 34688889999999999888754
No 303
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=53.15 E-value=53 Score=38.19 Aligned_cols=55 Identities=15% Similarity=0.210 Sum_probs=34.8
Q ss_pred eeEEEEccCcccCCccchHHH---HHHhcc--cCcEEEEeccCCCCChhHHHHHHHHHcc
Q 001834 512 WFRVVLDEAQTIKNHRTQVAR---ACCSLR--AKRRWCLSGTPIQNSIDDLYSYFRFLKY 566 (1008)
Q Consensus 512 w~rVIiDEAH~iKN~~s~~~k---al~~L~--a~~r~lLTGTPi~N~l~DL~sll~fL~~ 566 (1008)
+++||||++.+.....-...+ .+.... ....+.|+||==++.+.+++.-+..+.+
T Consensus 255 ~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~ 314 (388)
T PRK12723 255 FDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSY 314 (388)
T ss_pred CCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCC
Confidence 678999999987533222222 222222 2466889999888888877766655544
No 304
>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=52.94 E-value=70 Score=40.69 Aligned_cols=42 Identities=17% Similarity=0.145 Sum_probs=31.1
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
...|-+-|+.|+.-++... . =.+|---.|.|||.++-+++..
T Consensus 350 ~~~Ls~~Q~~Av~~i~~s~--~----~~il~G~aGTGKTtll~~i~~~ 391 (744)
T TIGR02768 350 HYRLSEEQYEAVRHVTGSG--D----IAVVVGRAGTGKSTMLKAAREA 391 (744)
T ss_pred cCCCCHHHHHHHHHHhcCC--C----EEEEEecCCCCHHHHHHHHHHH
Confidence 3568899999999887421 1 1578888999999887776544
No 305
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=52.85 E-value=11 Score=29.83 Aligned_cols=42 Identities=24% Similarity=0.756 Sum_probs=20.7
Q ss_pred ccccCCCCCC----ccccccCcccchhhhhhhhcCCCCCCCCcccccc
Q 001834 721 CCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQ 764 (1008)
Q Consensus 721 c~ic~d~~~~----~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~ 764 (1008)
|++|.+..+. -.-=.||+-+|..|....+...+..|| .||+.
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CP--gCr~~ 46 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCP--GCREP 46 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-T--TT--B
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCC--CCCCC
Confidence 5666655421 122378999999999999987788888 67653
No 306
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.37 E-value=6.1 Score=45.80 Aligned_cols=53 Identities=32% Similarity=0.733 Sum_probs=39.5
Q ss_pred cccccccC-CCCCC---ccccccCcccchhhhhhhhc-----CCCCCCCCccccccccccee
Q 001834 718 SAICCVCS-DPPED---SVVTMCGHVFCYQCASEYIT-----GDDNMCPAPRCKEQLGADVV 770 (1008)
Q Consensus 718 ~~~c~ic~-d~~~~---~v~t~CgH~fc~~ci~~~~~-----~~~~~cp~~~c~~~l~~~~~ 770 (1008)
..+|.+|. +.+.. ..+..|+|-||..|...++. +....||...|...+..+.+
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c 207 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESC 207 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHH
Confidence 45788887 33322 34788999999999999886 45578998888877766544
No 307
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=50.38 E-value=1.9e+02 Score=36.28 Aligned_cols=53 Identities=11% Similarity=0.095 Sum_probs=30.9
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---ccCcEEEEeccCCCCChhHHHHHHHHHc
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~DL~sll~fL~ 565 (1008)
++.+|||||+|.+.. ......++.| ....+++|+.|=...-+.-+.+-+..+.
T Consensus 119 k~KVIIIDEad~Ls~--~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~ 174 (709)
T PRK08691 119 KYKVYIIDEVHMLSK--SAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFV 174 (709)
T ss_pred CcEEEEEECccccCH--HHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhh
Confidence 356899999998853 2222334444 3445778877755555544544443333
No 308
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=50.16 E-value=57 Score=39.84 Aligned_cols=28 Identities=18% Similarity=0.210 Sum_probs=19.9
Q ss_pred cccccccCCEEEEecCCCCCChhhHHHHhh
Q 001834 917 LGLNMVAASHVILLDLWWNPTTEDQAVDRA 946 (1008)
Q Consensus 917 ~GLNL~~A~~VI~~Dp~WNp~~e~QAigR~ 946 (1008)
.|+ -.-++||+++.--.-..+.|+.--+
T Consensus 932 ~g~--y~p~Yivyhel~~T~keym~cvT~v 959 (1042)
T KOG0924|consen 932 HGL--YTPDYIVYHELLMTTKEYMQCVTSV 959 (1042)
T ss_pred hcC--CCCCeeeehHHHHhHHHHHHHHhhC
Confidence 455 4568888888887777777776543
No 309
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=50.09 E-value=36 Score=41.37 Aligned_cols=19 Identities=32% Similarity=0.452 Sum_probs=15.2
Q ss_pred ceeecCCCCchHHHHHHHH
Q 001834 299 GILADDQGLGKTISIIALI 317 (1008)
Q Consensus 299 GILADemGLGKTiqaIali 317 (1008)
-|+--|+|.|||-|.=-++
T Consensus 283 LiI~GeTGSGKTTQiPQyL 301 (902)
T KOG0923|consen 283 LIIVGETGSGKTTQIPQYL 301 (902)
T ss_pred EEEEcCCCCCccccccHHH
Confidence 4788999999999875444
No 310
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.62 E-value=2.2e+02 Score=35.51 Aligned_cols=53 Identities=17% Similarity=0.158 Sum_probs=30.2
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhcc---cCcEEEEeccCCCCChhHHHHHHHHHc
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSLR---AKRRWCLSGTPIQNSIDDLYSYFRFLK 565 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L~---a~~r~lLTGTPi~N~l~DL~sll~fL~ 565 (1008)
+|.++||||+|.+... .....++.|. ...+++|..|=.+.=+.-|.|=...+.
T Consensus 124 r~KViIIDEah~Ls~~--AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~ 179 (700)
T PRK12323 124 RFKVYMIDEVHMLTNH--AFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFN 179 (700)
T ss_pred CceEEEEEChHhcCHH--HHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcc
Confidence 4778999999999532 2334455553 345777776643333333444333333
No 311
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=49.52 E-value=59 Score=39.95 Aligned_cols=21 Identities=29% Similarity=0.355 Sum_probs=17.8
Q ss_pred eeecCCCCchHHHHHHHHHhh
Q 001834 300 ILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~~ 320 (1008)
|+.-.-|.|||-.|.+++...
T Consensus 39 Lf~Gp~G~GKTt~A~~lAk~l 59 (584)
T PRK14952 39 LFSGPRGCGKTSSARILARSL 59 (584)
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 788999999999998887553
No 312
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=49.17 E-value=1.7e+02 Score=32.46 Aligned_cols=21 Identities=33% Similarity=0.433 Sum_probs=17.2
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
.+|.-+.|.|||..+-+++..
T Consensus 41 ~ll~G~~G~GKt~~~~~l~~~ 61 (319)
T PRK00440 41 LLFAGPPGTGKTTAALALARE 61 (319)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 588999999999888776643
No 313
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=48.66 E-value=1.3e+02 Score=38.79 Aligned_cols=20 Identities=20% Similarity=0.311 Sum_probs=17.2
Q ss_pred eeecCCCCchHHHHHHHHHh
Q 001834 300 ILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~ 319 (1008)
||.-..|.|||..+.+++..
T Consensus 42 LFtGPpGtGKTTLARiLAk~ 61 (944)
T PRK14949 42 LFTGTRGVGKTSLARLFAKG 61 (944)
T ss_pred EEECCCCCCHHHHHHHHHHh
Confidence 78999999999988877754
No 314
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=48.63 E-value=60 Score=39.94 Aligned_cols=21 Identities=29% Similarity=0.336 Sum_probs=16.7
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|.-..|+|||-.+-|+...
T Consensus 317 L~LyG~sGsGKTHLL~AIa~~ 337 (617)
T PRK14086 317 LFIYGESGLGKTHLLHAIGHY 337 (617)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478889999999877776644
No 315
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.84 E-value=8.6 Score=43.08 Aligned_cols=44 Identities=34% Similarity=0.866 Sum_probs=31.6
Q ss_pred ccccccccCCCCCCccccccCcccchhhhhhhhcCCCCCCCCcccccccc
Q 001834 717 SSAICCVCSDPPEDSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
....|.+|.+.+.+.+..+|||+-| |..-... -..|| .|+..|.
T Consensus 304 ~p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CP--vCR~rI~ 347 (355)
T KOG1571|consen 304 QPDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCP--VCRQRIR 347 (355)
T ss_pred CCCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCc--hhHHHHH
Confidence 4567999999999999999999977 5433221 12366 6877654
No 316
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=47.82 E-value=8.9 Score=41.72 Aligned_cols=36 Identities=36% Similarity=0.850 Sum_probs=23.5
Q ss_pred ccccccCCCCC-CccccccCcccchhhhhhhhcCCCCCCC
Q 001834 719 AICCVCSDPPE-DSVVTMCGHVFCYQCASEYITGDDNMCP 757 (1008)
Q Consensus 719 ~~c~ic~d~~~-~~v~t~CgH~fc~~ci~~~~~~~~~~cp 757 (1008)
-.|-.|.-+.. .-....|.|+||++|.... .+..||
T Consensus 91 HfCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~---~dK~Cp 127 (389)
T KOG2932|consen 91 HFCDRCDFPIAIYGRMIPCKHVFCLECARSD---SDKICP 127 (389)
T ss_pred EeecccCCcceeeecccccchhhhhhhhhcC---ccccCc
Confidence 35667765432 3567799999999997532 244555
No 317
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=47.66 E-value=14 Score=45.63 Aligned_cols=63 Identities=22% Similarity=0.342 Sum_probs=49.5
Q ss_pred HHhccCcCceEEEEEecCCCccccccccCCEEE--------Eec----------CCCCCChhhHHHHhhhhcCCcccEEE
Q 001834 896 KDFNTDREQITVMLMSLKAGNLGLNMVAASHVI--------LLD----------LWWNPTTEDQAVDRAHRIGQTRPVTV 957 (1008)
Q Consensus 896 ~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI--------~~D----------p~WNp~~e~QAigR~~RiGQ~k~V~V 957 (1008)
+-|..-+.+.+..+++|.++.+.|......+|| +|| -|-+.+.-.||.||++|+|--+ -
T Consensus 621 RVF~~~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgpGH---c 697 (1172)
T KOG0926|consen 621 RVFDEVPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGPGH---C 697 (1172)
T ss_pred hhccCCCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCCCc---e
Confidence 457777777999999999999999999999987 233 3456677889999999998764 4
Q ss_pred EEEE
Q 001834 958 TRLT 961 (1008)
Q Consensus 958 ~rlv 961 (1008)
|||+
T Consensus 698 YRLY 701 (1172)
T KOG0926|consen 698 YRLY 701 (1172)
T ss_pred eehh
Confidence 5554
No 318
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=47.41 E-value=73 Score=41.59 Aligned_cols=49 Identities=27% Similarity=0.259 Sum_probs=32.1
Q ss_pred eeEEEEccCcccCCccchHHHHHHhc-ccCcEEEEeccCCCCChhHHHHHHH
Q 001834 512 WFRVVLDEAQTIKNHRTQVARACCSL-RAKRRWCLSGTPIQNSIDDLYSYFR 562 (1008)
Q Consensus 512 w~rVIiDEAH~iKN~~s~~~kal~~L-~a~~r~lLTGTPi~N~l~DL~sll~ 562 (1008)
-++||||||-.+... ...+.+... ....+++|.|=|-|-..-+--..|.
T Consensus 434 ~~vlIVDEASMv~~~--~m~~LL~~a~~~garvVLVGD~~QLpsV~aG~~f~ 483 (988)
T PRK13889 434 RDVLVIDEAGMVGTR--QLERVLSHAADAGAKVVLVGDPQQLQAIEAGAAFR 483 (988)
T ss_pred CcEEEEECcccCCHH--HHHHHHHhhhhCCCEEEEECCHHHcCCCCCCchHH
Confidence 458999999998643 334444433 5678999999887765544333333
No 319
>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=46.97 E-value=1.3e+02 Score=30.21 Aligned_cols=22 Identities=18% Similarity=0.273 Sum_probs=18.4
Q ss_pred eeecCCCCchHHHHHHHHHhhc
Q 001834 300 ILADDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~~~ 321 (1008)
|+.-.-|.||+-.|.+++....
T Consensus 23 L~~G~~g~gk~~~a~~~a~~ll 44 (162)
T PF13177_consen 23 LFHGPSGSGKKTLALAFARALL 44 (162)
T ss_dssp EEECSTTSSHHHHHHHHHHHHC
T ss_pred EEECCCCCCHHHHHHHHHHHHc
Confidence 7777889999999999986643
No 320
>PF13173 AAA_14: AAA domain
Probab=46.85 E-value=18 Score=34.72 Aligned_cols=37 Identities=14% Similarity=0.157 Sum_probs=23.6
Q ss_pred eEEEEccCcccCCccchHHHHHHhcccCcEEEEeccCC
Q 001834 513 FRVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPI 550 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi 550 (1008)
.+|||||+|++.+.....-.. ..-....++++||.-.
T Consensus 63 ~~i~iDEiq~~~~~~~~lk~l-~d~~~~~~ii~tgS~~ 99 (128)
T PF13173_consen 63 KYIFIDEIQYLPDWEDALKFL-VDNGPNIKIILTGSSS 99 (128)
T ss_pred cEEEEehhhhhccHHHHHHHH-HHhccCceEEEEccch
Confidence 479999999997643332222 2212356999999753
No 321
>PRK10824 glutaredoxin-4; Provisional
Probab=46.36 E-value=77 Score=30.11 Aligned_cols=62 Identities=6% Similarity=0.012 Sum_probs=42.8
Q ss_pred eEEEEec------cHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCc
Q 001834 854 KSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGN 916 (1008)
Q Consensus 854 KvIIFSq------~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg 916 (1008)
+|+||+. +--....+...|...|+.|..++=....+.| ..+.++..-+.-++|||-..-.||
T Consensus 16 ~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~i~~~~idi~~d~~~~-~~l~~~sg~~TVPQIFI~G~~IGG 83 (115)
T PRK10824 16 PILLYMKGSPKLPSCGFSAQAVQALSACGERFAYVDILQNPDIR-AELPKYANWPTFPQLWVDGELVGG 83 (115)
T ss_pred CEEEEECCCCCCCCCchHHHHHHHHHHcCCCceEEEecCCHHHH-HHHHHHhCCCCCCeEEECCEEEcC
Confidence 9999998 4567888888999999887766554444444 445666544444778886655565
No 322
>PRK07994 DNA polymerase III subunits gamma and tau; Validated
Probab=46.04 E-value=1e+02 Score=38.40 Aligned_cols=21 Identities=24% Similarity=0.297 Sum_probs=17.4
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-|+.-..|.|||..+..+...
T Consensus 41 yLf~Gp~GvGKTTlAr~lAk~ 61 (647)
T PRK07994 41 YLFSGTRGVGKTTIARLLAKG 61 (647)
T ss_pred EEEECCCCCCHHHHHHHHHHh
Confidence 378899999999988877755
No 323
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=45.85 E-value=1.2e+02 Score=40.10 Aligned_cols=56 Identities=18% Similarity=0.329 Sum_probs=37.4
Q ss_pred CCceEEEcChhhH-----HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhhhh
Q 001834 384 AAGTLVVCPASVL-----RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSIVT 444 (1008)
Q Consensus 384 ~~~tLIV~P~sLl-----~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~l~ 444 (1008)
.++..-|.|...+ .-|.+-|.+-. .+.+. --|+...-+...+...+|+|.|.+.+.
T Consensus 1186 ~~~~vyi~p~~~i~~~~~~~w~~~f~~~~----G~~~~-~l~ge~s~~lkl~~~~~vii~tpe~~d 1246 (1674)
T KOG0951|consen 1186 IGRAVYIAPLEEIADEQYRDWEKKFSKLL----GLRIV-KLTGETSLDLKLLQKGQVIISTPEQWD 1246 (1674)
T ss_pred ceEEEEecchHHHHHHHHHHHHHhhcccc----CceEE-ecCCccccchHHhhhcceEEechhHHH
Confidence 3557888997754 34776665542 34444 445556667777888999999987654
No 324
>PHA03096 p28-like protein; Provisional
Probab=45.70 E-value=9.4 Score=42.19 Aligned_cols=34 Identities=21% Similarity=0.478 Sum_probs=27.6
Q ss_pred ccccccCCCCC--------CccccccCcccchhhhhhhhcCC
Q 001834 719 AICCVCSDPPE--------DSVVTMCGHVFCYQCASEYITGD 752 (1008)
Q Consensus 719 ~~c~ic~d~~~--------~~v~t~CgH~fc~~ci~~~~~~~ 752 (1008)
.+|.+|++... ..+++.|.|.||..|+..|.+..
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~ 220 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTES 220 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhh
Confidence 68999987543 24788999999999999887643
No 325
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=45.62 E-value=13 Score=41.61 Aligned_cols=46 Identities=30% Similarity=0.730 Sum_probs=36.5
Q ss_pred cccccccCCCCC------CccccccCcccchhhhhhhhcCCCCCCCCccccccc
Q 001834 718 SAICCVCSDPPE------DSVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQL 765 (1008)
Q Consensus 718 ~~~c~ic~d~~~------~~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l 765 (1008)
...|.+|.+... .|-+..|||.+|..|+...+......| |.||...
T Consensus 3 ~~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~c--pfcR~~~ 54 (296)
T KOG4185|consen 3 FPECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILC--PFCRETT 54 (296)
T ss_pred CCceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeec--cCCCCcc
Confidence 356888876542 367778999999999999998888888 5888774
No 326
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=44.90 E-value=80 Score=28.26 Aligned_cols=44 Identities=16% Similarity=0.120 Sum_probs=33.5
Q ss_pred eEEEEec------cHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHH
Q 001834 854 KSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKD 897 (1008)
Q Consensus 854 KvIIFSq------~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~ 897 (1008)
+|+||+. +-.....+.+.|...|+.|..++=....+.|+.+.+.
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~ 58 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEY 58 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHH
Confidence 9999987 5667888999999999999988865555555544443
No 327
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=44.64 E-value=1.2e+02 Score=35.32 Aligned_cols=23 Identities=13% Similarity=0.270 Sum_probs=18.7
Q ss_pred CceeecCCCCchHHHHHHHHHhh
Q 001834 298 GGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~~ 320 (1008)
+-|+.-..|.|||..|.++....
T Consensus 38 a~Lf~Gp~G~GKt~lA~~lA~~l 60 (394)
T PRK07940 38 AWLFTGPPGSGRSVAARAFAAAL 60 (394)
T ss_pred EEEEECCCCCcHHHHHHHHHHHh
Confidence 34688999999999998887653
No 328
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=43.88 E-value=1.1e+02 Score=32.87 Aligned_cols=21 Identities=38% Similarity=0.507 Sum_probs=17.9
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-|++-..|.|||-.+.+|...
T Consensus 51 liisGpPG~GKTTsi~~LAr~ 71 (333)
T KOG0991|consen 51 LIISGPPGTGKTTSILCLARE 71 (333)
T ss_pred eEeeCCCCCchhhHHHHHHHH
Confidence 588889999999998888754
No 329
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.85 E-value=20 Score=42.97 Aligned_cols=19 Identities=32% Similarity=0.312 Sum_probs=16.1
Q ss_pred cCCCCchHHHHHHHHHhhc
Q 001834 303 DDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 303 DemGLGKTiqaIali~~~~ 321 (1008)
..+|.|||++|.+||+...
T Consensus 4 matgsgkt~~ma~lil~~y 22 (812)
T COG3421 4 MATGSGKTLVMAGLILECY 22 (812)
T ss_pred cccCCChhhHHHHHHHHHH
Confidence 4579999999999998754
No 330
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=43.60 E-value=43 Score=37.67 Aligned_cols=61 Identities=11% Similarity=-0.023 Sum_probs=47.2
Q ss_pred ccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc--CCeE
Q 001834 802 NEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH--CIQY 879 (1008)
Q Consensus 802 ~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~--gi~~ 879 (1008)
....++|-+.+.+-+......|. .|.|-|..+++.--|...|+.. ++..
T Consensus 123 AV~GaGKTEMif~~i~~al~~G~-----------------------------~vciASPRvDVclEl~~Rlk~aF~~~~I 173 (441)
T COG4098 123 AVTGAGKTEMIFQGIEQALNQGG-----------------------------RVCIASPRVDVCLELYPRLKQAFSNCDI 173 (441)
T ss_pred EecCCCchhhhHHHHHHHHhcCC-----------------------------eEEEecCcccchHHHHHHHHHhhccCCe
Confidence 34467777777777777777665 9999999999999888888877 5677
Q ss_pred EEecCCCCHHHH
Q 001834 880 RRLDGTMSLPAR 891 (1008)
Q Consensus 880 ~~l~Gs~s~~~R 891 (1008)
..++|..+..-|
T Consensus 174 ~~Lyg~S~~~fr 185 (441)
T COG4098 174 DLLYGDSDSYFR 185 (441)
T ss_pred eeEecCCchhcc
Confidence 778887765555
No 331
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=43.60 E-value=1.7e+02 Score=37.69 Aligned_cols=41 Identities=22% Similarity=0.195 Sum_probs=26.3
Q ss_pred hhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 277 KHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 277 pyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
++-+..|..++...+.. ..-||.-.-|+|||..+..|...+
T Consensus 21 e~v~~~L~~~i~~~ri~---Ha~Lf~Gp~G~GKTt~A~~lAr~L 61 (824)
T PRK07764 21 EHVTEPLSTALDSGRIN---HAYLFSGPRGCGKTSSARILARSL 61 (824)
T ss_pred HHHHHHHHHHHHhCCCC---ceEEEECCCCCCHHHHHHHHHHHh
Confidence 33344566666543321 123788999999999888887553
No 332
>PRK08727 hypothetical protein; Validated
Probab=42.99 E-value=1.2e+02 Score=32.43 Aligned_cols=21 Identities=33% Similarity=0.302 Sum_probs=16.3
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|.-..|.|||-.+.|+...
T Consensus 44 l~l~G~~G~GKThL~~a~~~~ 64 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAA 64 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478888999999777676543
No 333
>PRK14951 DNA polymerase III subunits gamma and tau; Provisional
Probab=42.94 E-value=87 Score=38.78 Aligned_cols=21 Identities=24% Similarity=0.363 Sum_probs=17.6
Q ss_pred eeecCCCCchHHHHHHHHHhh
Q 001834 300 ILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~~ 320 (1008)
|+.-.-|.|||-.+.+++...
T Consensus 42 Lf~Gp~GvGKTtlAr~lAk~L 62 (618)
T PRK14951 42 LFTGTRGVGKTTVSRILAKSL 62 (618)
T ss_pred EEECCCCCCHHHHHHHHHHHh
Confidence 778899999999888887554
No 334
>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=41.85 E-value=1.1e+02 Score=39.72 Aligned_cols=74 Identities=11% Similarity=0.138 Sum_probs=55.8
Q ss_pred eEEEEeccHHHHHHHHHHHHh----cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ----HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL 929 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~----~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~ 929 (1008)
+++|.+..+..+......+.+ .++.+..++|.++.+++.++++.+..+. +.|++.+.......+.+.....||+
T Consensus 502 qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g~--~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 502 QVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASGK--IDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred eEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcCC--ceEEEchHHHhhCCCCcccCCEEEe
Confidence 899999999888777666554 4778889999999999999999998764 6788877655544555655555443
No 335
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.16 E-value=20 Score=42.52 Aligned_cols=55 Identities=29% Similarity=0.698 Sum_probs=43.1
Q ss_pred ccccccccCCCCCC-ccccccCcccchhhhhhhhcC-----CC--CCCCCcccccccccceee
Q 001834 717 SSAICCVCSDPPED-SVVTMCGHVFCYQCASEYITG-----DD--NMCPAPRCKEQLGADVVF 771 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~-~v~t~CgH~fc~~ci~~~~~~-----~~--~~cp~~~c~~~l~~~~~~ 771 (1008)
....|.+|.+.... .+...|||.||..|...|++. .. -.||...|...+..+.+.
T Consensus 69 ~~~~c~ic~~~~~~~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~ 131 (444)
T KOG1815|consen 69 GDVQCGICVESYDGEIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVE 131 (444)
T ss_pred ccccCCcccCCCcchhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceee
Confidence 45689999887764 777799999999999999863 12 368999999888876543
No 336
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=41.13 E-value=61 Score=40.58 Aligned_cols=47 Identities=13% Similarity=0.063 Sum_probs=35.3
Q ss_pred ccccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhc
Q 001834 272 SVNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQR 321 (1008)
Q Consensus 272 ~~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~ 321 (1008)
....|+.|++...-+..-... ..++++=-.+|.|||+..|+.+....
T Consensus 13 ~~~~r~~Q~~~~~~v~~a~~~---~~~~~iEapTGtGKTl~yL~~al~~~ 59 (654)
T COG1199 13 GFEPRPEQREMAEAVAEALKG---GEGLLIEAPTGTGKTLAYLLPALAYA 59 (654)
T ss_pred CCCCCHHHHHHHHHHHHHHcC---CCcEEEECCCCccHHHHHHHHHHHHH
Confidence 447999999988777743332 23478888999999999988876643
No 337
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=40.83 E-value=13 Score=42.83 Aligned_cols=35 Identities=23% Similarity=0.599 Sum_probs=28.9
Q ss_pred ccccccccCCCCCCc----cccccCcccchhhhhhhhcC
Q 001834 717 SSAICCVCSDPPEDS----VVTMCGHVFCYQCASEYITG 751 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~~----v~t~CgH~fc~~ci~~~~~~ 751 (1008)
..+.|++|++.++.. +-+.|.|.|-..|++.|...
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~ 212 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS 212 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcccC
Confidence 567999999988765 35699999999999988643
No 338
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.03 E-value=2.2e+02 Score=35.30 Aligned_cols=22 Identities=18% Similarity=0.277 Sum_probs=18.0
Q ss_pred ceeecCCCCchHHHHHHHHHhh
Q 001834 299 GILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~~ 320 (1008)
-|+.-..|.|||..|..++...
T Consensus 41 ~Lf~GPpG~GKTtiArilAk~L 62 (624)
T PRK14959 41 YLFSGTRGVGKTTIARIFAKAL 62 (624)
T ss_pred EEEECCCCCCHHHHHHHHHHhc
Confidence 4678999999999998887553
No 339
>PRK14873 primosome assembly protein PriA; Provisional
Probab=39.88 E-value=1.1e+02 Score=38.21 Aligned_cols=76 Identities=13% Similarity=0.027 Sum_probs=65.0
Q ss_pred cchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc-C-CeEEEe
Q 001834 805 ISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH-C-IQYRRL 882 (1008)
Q Consensus 805 ~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~-g-i~~~~l 882 (1008)
.|.|-+..++++.+....|. .+||...-......+...|+.. | ..++.+
T Consensus 170 GSGKTevyl~~i~~~l~~Gk-----------------------------~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~l 220 (665)
T PRK14873 170 GEDWARRLAAAAAATLRAGR-----------------------------GALVVVPDQRDVDRLEAALRALLGAGDVAVL 220 (665)
T ss_pred CCcHHHHHHHHHHHHHHcCC-----------------------------eEEEEecchhhHHHHHHHHHHHcCCCcEEEE
Confidence 57899999999999998876 8999998888888888888766 4 678999
Q ss_pred cCCCCHHHHHHHHHHhccCcCceEEEEEe
Q 001834 883 DGTMSLPARDRAVKDFNTDREQITVMLMS 911 (1008)
Q Consensus 883 ~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS 911 (1008)
++.++..+|.+.-.....+. .+|+|.+
T Consensus 221 hS~l~~~~R~~~w~~~~~G~--~~IViGt 247 (665)
T PRK14873 221 SAGLGPADRYRRWLAVLRGQ--ARVVVGT 247 (665)
T ss_pred CCCCCHHHHHHHHHHHhCCC--CcEEEEc
Confidence 99999999999998888775 6777755
No 340
>PRK14974 cell division protein FtsY; Provisional
Probab=39.77 E-value=1e+02 Score=35.23 Aligned_cols=43 Identities=7% Similarity=0.070 Sum_probs=25.1
Q ss_pred eeEEEEccCcccCCccchHHHHHHhc----cc-CcEEEEeccCCCCChh
Q 001834 512 WFRVVLDEAQTIKNHRTQVARACCSL----RA-KRRWCLSGTPIQNSID 555 (1008)
Q Consensus 512 w~rVIiDEAH~iKN~~s~~~kal~~L----~a-~~r~lLTGTPi~N~l~ 555 (1008)
+++||||+|+...+....+. .++.+ .. ...++|++|--++.+.
T Consensus 223 ~DvVLIDTaGr~~~~~~lm~-eL~~i~~~~~pd~~iLVl~a~~g~d~~~ 270 (336)
T PRK14974 223 IDVVLIDTAGRMHTDANLMD-ELKKIVRVTKPDLVIFVGDALAGNDAVE 270 (336)
T ss_pred CCEEEEECCCccCCcHHHHH-HHHHHHHhhCCceEEEeeccccchhHHH
Confidence 57899999999875443322 22222 33 3356778876443333
No 341
>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=39.65 E-value=2.1e+02 Score=34.33 Aligned_cols=44 Identities=16% Similarity=0.010 Sum_probs=27.3
Q ss_pred hhhHHHHHHHHHhh--ccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 277 KHQKIALAWMLQKE--TRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 277 pyQ~~~v~wml~~e--~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
|+|+..+..++--. ......+-++|--.=|=|||..+.+++++.
T Consensus 1 PwQ~fi~~~i~G~~~~~g~rrf~~~~l~v~RkNGKS~l~a~i~ly~ 46 (477)
T PF03354_consen 1 PWQKFILRSIFGWRKDDGRRRFREVYLEVPRKNGKSTLAAAIALYM 46 (477)
T ss_pred CcHHHHHHHHhceEcCCCCEEEEEEEEEEcCccCccHHHHHHHHHH
Confidence 78988777776321 111112335666677889999887776653
No 342
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=38.98 E-value=1.2e+02 Score=25.65 Aligned_cols=57 Identities=11% Similarity=0.198 Sum_probs=39.8
Q ss_pred eEEEEe-ccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEe
Q 001834 854 KSIVFS-QWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMS 911 (1008)
Q Consensus 854 KvIIFS-q~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS 911 (1008)
|+.||+ .+-.....+...|.+.++.|..++-....+.++++.+....... +.++++.
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~~~~-vP~v~i~ 58 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGGRRT-VPQIFIG 58 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCc-cCEEEEC
Confidence 456776 35567788888999999999999888777777777766654312 4444444
No 343
>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=37.98 E-value=1.5e+02 Score=34.31 Aligned_cols=20 Identities=20% Similarity=0.554 Sum_probs=16.6
Q ss_pred eeecCCCCchHHHHHHHHHh
Q 001834 300 ILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~ 319 (1008)
+|.-++|.|||..++.++..
T Consensus 86 LI~G~pG~GKStLllq~a~~ 105 (372)
T cd01121 86 LIGGDPGIGKSTLLLQVAAR 105 (372)
T ss_pred EEEeCCCCCHHHHHHHHHHH
Confidence 67889999999988877644
No 344
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=37.82 E-value=81 Score=39.66 Aligned_cols=83 Identities=13% Similarity=0.080 Sum_probs=70.1
Q ss_pred cCccccchhHHHHHHHHHhhhhcccccchhhhhccccCCCCCcccCCCCCCCCceEEEEeccHHHHHHHHHHHHhc-CCe
Q 001834 800 LDNEYISSKIRTVLDILHTQCELNTKCSIVEIHDLAGSNGSSAVHSKSPIEGPIKSIVFSQWTRMLDLVENSLNQH-CIQ 878 (1008)
Q Consensus 800 ~~~~~~SsKl~~l~~lL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~KvIIFSq~~~~ld~L~~~L~~~-gi~ 878 (1008)
......|.|.+..++++.+..+.|+ .+||-..-......+...|+.+ |.+
T Consensus 222 l~GvTGSGKTEvYl~~i~~~L~~Gk-----------------------------qvLvLVPEI~Ltpq~~~rf~~rFg~~ 272 (730)
T COG1198 222 LDGVTGSGKTEVYLEAIAKVLAQGK-----------------------------QVLVLVPEIALTPQLLARFKARFGAK 272 (730)
T ss_pred EeCCCCCcHHHHHHHHHHHHHHcCC-----------------------------EEEEEeccccchHHHHHHHHHHhCCC
Confidence 3445689999999999999999887 8999988887777777777766 888
Q ss_pred EEEecCCCCHHHHHHHHHHhccCcCceEEEEEecC
Q 001834 879 YRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLK 913 (1008)
Q Consensus 879 ~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~k 913 (1008)
+..++.+.+..+|...-.+..++. .+|+|.+-.
T Consensus 273 v~vlHS~Ls~~er~~~W~~~~~G~--~~vVIGtRS 305 (730)
T COG1198 273 VAVLHSGLSPGERYRVWRRARRGE--ARVVIGTRS 305 (730)
T ss_pred hhhhcccCChHHHHHHHHHHhcCC--ceEEEEech
Confidence 999999999999999999999886 788886633
No 345
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=36.63 E-value=7.5 Score=47.23 Aligned_cols=49 Identities=22% Similarity=0.549 Sum_probs=0.0
Q ss_pred ccccCCCCCCcccc---ccCcccchhhhhhhhcCCCCCCCCcccccccccceeec
Q 001834 721 CCVCSDPPEDSVVT---MCGHVFCYQCASEYITGDDNMCPAPRCKEQLGADVVFS 772 (1008)
Q Consensus 721 c~ic~d~~~~~v~t---~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~~~~~ 772 (1008)
|++|.....+-.+. .|+|+||..|+..| ......|| .|+.....-.+..
T Consensus 126 CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sW-sR~aqTCP--iDR~EF~~v~V~e 177 (1134)
T KOG0825|consen 126 CPNCLKSCNDQLEESEKHTAHYFCEECVGSW-SRCAQTCP--VDRGEFGEVKVLE 177 (1134)
T ss_pred hhHHHHHHHHHhhccccccccccHHHHhhhh-hhhcccCc--hhhhhhheeeeec
No 346
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=35.71 E-value=1.2e+02 Score=36.08 Aligned_cols=22 Identities=27% Similarity=0.212 Sum_probs=16.8
Q ss_pred CceeecCCCCchHHHHHHHHHh
Q 001834 298 GGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali~~ 319 (1008)
+.+|.-..|+|||-.+-|+...
T Consensus 143 pl~L~G~~G~GKTHLl~Ai~~~ 164 (445)
T PRK12422 143 PIYLFGPEGSGKTHLMQAAVHA 164 (445)
T ss_pred eEEEEcCCCCCHHHHHHHHHHH
Confidence 3577778999999877766644
No 347
>PHA00673 acetyltransferase domain containing protein
Probab=35.69 E-value=53 Score=32.91 Aligned_cols=45 Identities=13% Similarity=0.059 Sum_probs=36.6
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---ccCcEEEEeccCCCCChh
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RAKRRWCLSGTPIQNSID 555 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a~~r~lLTGTPi~N~l~ 555 (1008)
..+-|.||+.|+=++-.+++.+.+... ..-++|-+||||-.|.++
T Consensus 87 ~Ie~l~V~~~~RGqGIG~~Ll~~A~~~Ar~~Gc~~lyis~~p~~~tv~ 134 (154)
T PHA00673 87 TTESIFVAAAHRPGGAGMALLRATEALARDLGATGLYVSGPTEGRLVQ 134 (154)
T ss_pred EEEEEEEChhccCCCHHHHHHHHHHHHHHHCCCCEEEEecCCCccchH
Confidence 356799999999888888877766554 456799999999999875
No 348
>KOG2979 consensus Protein involved in DNA repair [General function prediction only]
Probab=35.46 E-value=89 Score=33.70 Aligned_cols=47 Identities=21% Similarity=0.410 Sum_probs=37.4
Q ss_pred cccccccccCCCCCCcc-ccccCcccchhhhhhhhcCC-CCCCCCcccc
Q 001834 716 TSSAICCVCSDPPEDSV-VTMCGHVFCYQCASEYITGD-DNMCPAPRCK 762 (1008)
Q Consensus 716 ~~~~~c~ic~d~~~~~v-~t~CgH~fc~~ci~~~~~~~-~~~cp~~~c~ 762 (1008)
.-+..||+-.-+...|+ ...|||+|=..-+..++... .-.||+..|.
T Consensus 174 ~fs~rdPis~~~I~nPviSkkC~HvydrDsI~~~l~~~~~i~CPv~gC~ 222 (262)
T KOG2979|consen 174 VFSNRDPISKKPIVNPVISKKCGHVYDRDSIMQILCDEITIRCPVLGCE 222 (262)
T ss_pred hhcccCchhhhhhhchhhhcCcCcchhhhhHHHHhccCceeecccccCC
Confidence 34667888777777775 45899999999999998764 4589999997
No 349
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.68 E-value=16 Score=39.43 Aligned_cols=40 Identities=33% Similarity=0.879 Sum_probs=31.0
Q ss_pred ccccccCCCCCCcccccc----CcccchhhhhhhhcC----CCCCCCC
Q 001834 719 AICCVCSDPPEDSVVTMC----GHVFCYQCASEYITG----DDNMCPA 758 (1008)
Q Consensus 719 ~~c~ic~d~~~~~v~t~C----gH~fc~~ci~~~~~~----~~~~cp~ 758 (1008)
.-|.+|.+.+|+-....| .|-||..|..+.++. .+-+||.
T Consensus 269 LcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Qg~sgevYCPS 316 (352)
T KOG3579|consen 269 LCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQGASGEVYCPS 316 (352)
T ss_pred eeehhhhhhhccCceeecCCCcccceecccCHHHHHhhcCCCceeCCC
Confidence 357799999998766666 899999999998863 3447774
No 350
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=34.61 E-value=1.6e+02 Score=34.84 Aligned_cols=55 Identities=18% Similarity=0.207 Sum_probs=34.6
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc-c-----cCcEEEEeccCCCCChhHHHHHHHHHcc
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL-R-----AKRRWCLSGTPIQNSIDDLYSYFRFLKY 566 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L-~-----a~~r~lLTGTPi~N~l~DL~sll~fL~~ 566 (1008)
.+++||||.+-+....... ...+..+ . .+..++|++|+-.+.+.+++..+..+.+
T Consensus 299 ~~DlVlIDt~G~~~~d~~~-~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRDKRL-IEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCCHHH-HHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 3688999998765432222 2222222 2 2457889999877788887777765554
No 351
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=34.54 E-value=19 Score=31.09 Aligned_cols=45 Identities=24% Similarity=0.568 Sum_probs=30.8
Q ss_pred ccccccCCCCCC--ccccccCcccchhhhhhhhcCCCCCCCCccccc
Q 001834 719 AICCVCSDPPED--SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (1008)
Q Consensus 719 ~~c~ic~d~~~~--~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~ 763 (1008)
..|+.|.-+-++ -+...|.|.|-..||.+++......--+|.||.
T Consensus 32 g~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq 78 (84)
T KOG1493|consen 32 GCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQ 78 (84)
T ss_pred CcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchh
Confidence 345556544443 378899999999999999876554444446764
No 352
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=34.32 E-value=30 Score=42.99 Aligned_cols=49 Identities=27% Similarity=0.686 Sum_probs=35.7
Q ss_pred HHHHhcccccc-----cccccCCCCCCcc-ccccCcccchhhhhhhhcCCCCCCCCccccc
Q 001834 709 DLLSRLETSSA-----ICCVCSDPPEDSV-VTMCGHVFCYQCASEYITGDDNMCPAPRCKE 763 (1008)
Q Consensus 709 ~l~~~le~~~~-----~c~ic~d~~~~~v-~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~ 763 (1008)
..++.+..+.. .|..|.-+++-|. --.|||.|-..|+. ..+..|| .|..
T Consensus 826 ~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP--~C~~ 880 (933)
T KOG2114|consen 826 QELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCP--KCLP 880 (933)
T ss_pred HHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhc----cCcccCC--ccch
Confidence 34444555544 7999999998874 55999999999998 3445676 6654
No 353
>PRK10689 transcription-repair coupling factor; Provisional
Probab=33.68 E-value=1.7e+02 Score=39.17 Aligned_cols=72 Identities=8% Similarity=0.058 Sum_probs=52.3
Q ss_pred eEEEEeccHHHHHHHHHHHHh----cCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEE
Q 001834 854 KSIVFSQWTRMLDLVENSLNQ----HCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHV 927 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~----~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~V 927 (1008)
+++|.+..+..+.-+...+.+ .++.+..++|..+.+++.++++...++. +.|++.+.......+++.....|
T Consensus 651 qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g~--~dIVVgTp~lL~~~v~~~~L~lL 726 (1147)
T PRK10689 651 QVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEGK--IDILIGTHKLLQSDVKWKDLGLL 726 (1147)
T ss_pred eEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhCC--CCEEEECHHHHhCCCCHhhCCEE
Confidence 899999999887777666654 3577788999999999999999887664 67888775544444444444333
No 354
>CHL00095 clpC Clp protease ATP binding subunit
Probab=33.06 E-value=1e+02 Score=39.76 Aligned_cols=23 Identities=35% Similarity=0.362 Sum_probs=19.1
Q ss_pred cCceeecCCCCchHHHHHHHHHh
Q 001834 297 LGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 297 ~GGILADemGLGKTiqaIali~~ 319 (1008)
.+-||--+.|.|||..+-+++..
T Consensus 201 ~n~lL~G~pGvGKTal~~~la~~ 223 (821)
T CHL00095 201 NNPILIGEPGVGKTAIAEGLAQR 223 (821)
T ss_pred CCeEEECCCCCCHHHHHHHHHHH
Confidence 35699999999999988887754
No 355
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=32.81 E-value=23 Score=40.92 Aligned_cols=31 Identities=29% Similarity=0.498 Sum_probs=27.5
Q ss_pred cCcEEEEeccCCCCChhHHHHHHHHHccCCc
Q 001834 539 AKRRWCLSGTPIQNSIDDLYSYFRFLKYDPY 569 (1008)
Q Consensus 539 a~~r~lLTGTPi~N~l~DL~sll~fL~~~~~ 569 (1008)
.++..++||||+.|.+.++|++.++|.++.+
T Consensus 473 G~~L~l~sgTpi~ntlgem~~vqRyl~~~al 503 (637)
T COG4646 473 GRALVLASGTPITNTLGEMFSVQRYLGAGAL 503 (637)
T ss_pred CCeEEecCCCchhhhHHhhhhhhhhcCccHH
Confidence 3567899999999999999999999998764
No 356
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=32.74 E-value=2.1e+02 Score=35.42 Aligned_cols=41 Identities=17% Similarity=0.137 Sum_probs=25.7
Q ss_pred hhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 277 KHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 277 pyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
++-+..+..++...+. ...-||.-.-|+|||..|.+++...
T Consensus 30 ~~~v~~L~~~~~~gri---~ha~L~~Gp~GvGKTt~Ar~lAk~L 70 (598)
T PRK09111 30 EAMVRTLTNAFETGRI---AQAFMLTGVRGVGKTTTARILARAL 70 (598)
T ss_pred HHHHHHHHHHHHcCCC---CceEEEECCCCCCHHHHHHHHHHhh
Confidence 3444445455543322 1245778899999999998887554
No 357
>PRK11054 helD DNA helicase IV; Provisional
Probab=32.58 E-value=60 Score=40.80 Aligned_cols=39 Identities=21% Similarity=0.062 Sum_probs=27.8
Q ss_pred cccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 273 VNLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 273 ~~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
.+|-+.|+++|..-. . ..++--..|.|||-++++-+.++
T Consensus 195 ~~L~~~Q~~av~~~~----~-----~~lV~agaGSGKT~vl~~r~ayL 233 (684)
T PRK11054 195 SPLNPSQARAVVNGE----D-----SLLVLAGAGSGKTSVLVARAGWL 233 (684)
T ss_pred CCCCHHHHHHHhCCC----C-----CeEEEEeCCCCHHHHHHHHHHHH
Confidence 369999999996431 1 12344448999999999888664
No 358
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=32.49 E-value=19 Score=40.90 Aligned_cols=33 Identities=24% Similarity=0.649 Sum_probs=29.5
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYIT 750 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~ 750 (1008)
...|++|..-.++|++.+|+|..|.-|..+.+.
T Consensus 4 elkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 4 ELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred cccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 346999999999999999999999999988764
No 359
>PRK05563 DNA polymerase III subunits gamma and tau; Validated
Probab=32.43 E-value=1.6e+02 Score=36.08 Aligned_cols=21 Identities=19% Similarity=0.287 Sum_probs=17.1
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-|+.-.-|+|||..|-.+...
T Consensus 41 yLf~Gp~GtGKTt~Ak~lAka 61 (559)
T PRK05563 41 YLFSGPRGTGKTSAAKIFAKA 61 (559)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 366999999999988777644
No 360
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=32.18 E-value=1.1e+02 Score=37.27 Aligned_cols=20 Identities=25% Similarity=0.414 Sum_probs=16.3
Q ss_pred cccceeeEEEEccCcccCCc
Q 001834 507 LAKVGWFRVVLDEAQTIKNH 526 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~iKN~ 526 (1008)
+....|++++|||||.||-.
T Consensus 295 iRGQ~fnll~VDEA~FI~~~ 314 (668)
T PHA03372 295 IRGQNFHLLLVDEAHFIKKD 314 (668)
T ss_pred ccCCCCCEEEEehhhccCHH
Confidence 45667999999999999843
No 361
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.04 E-value=14 Score=39.92 Aligned_cols=42 Identities=33% Similarity=0.933 Sum_probs=32.7
Q ss_pred cccccccCCCCCCccccccCcc-cchhhhhhhhcCCCCCCCCcccccccc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHV-FCYQCASEYITGDDNMCPAPRCKEQLG 766 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~-fc~~ci~~~~~~~~~~cp~~~c~~~l~ 766 (1008)
...|.||.|.|.+=+...|||. -|.+|-...- .|| .||..+.
T Consensus 300 ~~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~-----eCP--ICRqyi~ 342 (350)
T KOG4275|consen 300 RRLCAICMDAPRDCVFLECGHMVTCTKCGKRMN-----ECP--ICRQYIV 342 (350)
T ss_pred HHHHHHHhcCCcceEEeecCcEEeehhhccccc-----cCc--hHHHHHH
Confidence 4579999999999999999997 6888865432 555 6776554
No 362
>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=31.39 E-value=57 Score=36.09 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=23.2
Q ss_pred cchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhh
Q 001834 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 275 LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~ 320 (1008)
|-+-|..++.+ .. .. .++---.|.|||.+++..+...
T Consensus 1 l~~eQ~~~i~~-~~---~~-----~lV~a~AGSGKT~~l~~ri~~l 37 (315)
T PF00580_consen 1 LTDEQRRIIRS-TE---GP-----LLVNAGAGSGKTTTLLERIAYL 37 (315)
T ss_dssp S-HHHHHHHHS--S---SE-----EEEEE-TTSSHHHHHHHHHHHH
T ss_pred CCHHHHHHHhC-CC---CC-----EEEEeCCCCCchHHHHHHHHHh
Confidence 45678888887 31 11 1233337999999998877654
No 363
>PRK07993 DNA polymerase III subunit delta'; Validated
Probab=31.35 E-value=2.2e+02 Score=32.44 Aligned_cols=49 Identities=10% Similarity=0.030 Sum_probs=34.3
Q ss_pred ccchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhcc
Q 001834 274 NLLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRS 322 (1008)
Q Consensus 274 ~LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~ 322 (1008)
.++|+|...-..+.+....+.-..+=+++-.-|+||+..|.+++.....
T Consensus 2 ~~yPWl~~~~~~l~~~~~~~rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC 50 (334)
T PRK07993 2 KWYPWLRPDYEQLVGSYQAGRGHHALLIQALPGMGDDALIYALSRWLMC 50 (334)
T ss_pred CCCCCChHHHHHHHHHHHcCCcceEEeeECCCCCCHHHHHHHHHHHHcC
Confidence 4789888887777655433211223467889999999999999877543
No 364
>PRK05642 DNA replication initiation factor; Validated
Probab=31.28 E-value=2.1e+02 Score=30.73 Aligned_cols=36 Identities=22% Similarity=0.222 Sum_probs=22.4
Q ss_pred eEEEEccCcccCCccch---HHHHHHhc-ccCcEEEEecc
Q 001834 513 FRVVLDEAQTIKNHRTQ---VARACCSL-RAKRRWCLSGT 548 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~~s~---~~kal~~L-~a~~r~lLTGT 548 (1008)
+++|||+.|.+.+.... ....+..+ ....++++|+|
T Consensus 99 d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 99 ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 57999999998654322 22222222 34567888887
No 365
>PRK06893 DNA replication initiation factor; Validated
Probab=30.92 E-value=2.2e+02 Score=30.33 Aligned_cols=21 Identities=14% Similarity=0.047 Sum_probs=16.0
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-+|.-..|.|||-.+-|+...
T Consensus 42 l~l~G~~G~GKThL~~ai~~~ 62 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNH 62 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 378899999999777666533
No 366
>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=30.23 E-value=2.2e+02 Score=36.90 Aligned_cols=40 Identities=23% Similarity=0.243 Sum_probs=25.5
Q ss_pred hHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHh
Q 001834 279 QKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 279 Q~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~ 319 (1008)
|..-+.+|++..... ...+-||--+.|.|||..+=+++..
T Consensus 192 r~~ei~~~i~~l~r~-~~~n~lLvG~pGvGKTal~~~La~~ 231 (852)
T TIGR03345 192 RDDEIRQMIDILLRR-RQNNPILTGEAGVGKTAVVEGLALR 231 (852)
T ss_pred CHHHHHHHHHHHhcC-CcCceeEECCCCCCHHHHHHHHHHH
Confidence 444466666522211 1235799999999999888666644
No 367
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=28.85 E-value=2.6e+02 Score=37.08 Aligned_cols=50 Identities=30% Similarity=0.281 Sum_probs=33.4
Q ss_pred eEEEEccCcccCCccchHHHHHHhc-ccCcEEEEeccCCCCChhHHHHHHHHH
Q 001834 513 FRVVLDEAQTIKNHRTQVARACCSL-RAKRRWCLSGTPIQNSIDDLYSYFRFL 564 (1008)
Q Consensus 513 ~rVIiDEAH~iKN~~s~~~kal~~L-~a~~r~lLTGTPi~N~l~DL~sll~fL 564 (1008)
++||||||..+.. ....+.+..+ ++..+++|.|=|-|-..-+--..|+.|
T Consensus 470 ~vlVIDEAsMv~~--~~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~l 520 (1102)
T PRK13826 470 TVFVLDEAGMVAS--RQMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRAI 520 (1102)
T ss_pred cEEEEECcccCCH--HHHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHHH
Confidence 4799999999853 3344555555 467899999998876654433444433
No 368
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=28.74 E-value=3.6e+02 Score=33.24 Aligned_cols=21 Identities=24% Similarity=0.406 Sum_probs=17.6
Q ss_pred eeecCCCCchHHHHHHHHHhh
Q 001834 300 ILADDQGLGKTISIIALIQMQ 320 (1008)
Q Consensus 300 ILADemGLGKTiqaIali~~~ 320 (1008)
|+.-.-|.|||..+.+++...
T Consensus 42 Lf~Gp~G~GKtt~A~~lak~l 62 (576)
T PRK14965 42 LFTGARGVGKTSTARILAKAL 62 (576)
T ss_pred EEECCCCCCHHHHHHHHHHhh
Confidence 678899999999998887553
No 369
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=28.47 E-value=1.8e+02 Score=28.94 Aligned_cols=58 Identities=10% Similarity=0.112 Sum_probs=42.6
Q ss_pred eEEEEecc-------HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhcc---CcCceEEEEEe
Q 001834 854 KSIVFSQW-------TRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNT---DREQITVMLMS 911 (1008)
Q Consensus 854 KvIIFSq~-------~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~---~~~~~~VLLiS 911 (1008)
||+||+.. -..-..+...|+..++.|..+|=++..+.++++.+.... ...-++||+-.
T Consensus 1 ~VvlYttsl~giR~t~~~C~~ak~iL~~~~V~~~e~DVs~~~~~~~EL~~~~g~~~~~~tvPqVFI~G 68 (147)
T cd03031 1 RVVLYTTSLRGVRKTFEDCNNVRAILESFRVKFDERDVSMDSGFREELRELLGAELKAVSLPRVFVDG 68 (147)
T ss_pred CEEEEEcCCcCCCCcChhHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCCCCCCCCCCEEEECC
Confidence 56788776 355678889999999999999999988888887776543 12225666643
No 370
>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=28.31 E-value=36 Score=37.93 Aligned_cols=43 Identities=16% Similarity=0.121 Sum_probs=26.8
Q ss_pred cccceeeEEEEccCccc-CCccchHHHHH---Hhccc--CcEEEEeccC
Q 001834 507 LAKVGWFRVVLDEAQTI-KNHRTQVARAC---CSLRA--KRRWCLSGTP 549 (1008)
Q Consensus 507 L~~~~w~rVIiDEAH~i-KN~~s~~~kal---~~L~a--~~r~lLTGTP 549 (1008)
|..++..++||||.|++ .+...++...+ +.|.. +--+++.||+
T Consensus 141 lr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~ 189 (302)
T PF05621_consen 141 LRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR 189 (302)
T ss_pred HHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence 66778889999999996 44444433333 33322 3345677775
No 371
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=27.68 E-value=44 Score=29.16 Aligned_cols=26 Identities=27% Similarity=0.754 Sum_probs=22.5
Q ss_pred cccccCcccchhhhhhhhcCCCCCCCC
Q 001834 732 VVTMCGHVFCYQCASEYITGDDNMCPA 758 (1008)
Q Consensus 732 v~t~CgH~fc~~ci~~~~~~~~~~cp~ 758 (1008)
+-..|.|.|-..||..++.. .+.||.
T Consensus 50 ~wG~CnHaFH~HCI~rWL~T-k~~CPl 75 (88)
T COG5194 50 VWGVCNHAFHDHCIYRWLDT-KGVCPL 75 (88)
T ss_pred EEEecchHHHHHHHHHHHhh-CCCCCC
Confidence 56799999999999999987 677873
No 372
>PTZ00062 glutaredoxin; Provisional
Probab=27.35 E-value=3e+02 Score=28.99 Aligned_cols=55 Identities=16% Similarity=0.213 Sum_probs=39.9
Q ss_pred eEEEEec------cHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEE
Q 001834 854 KSIVFSQ------WTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVML 909 (1008)
Q Consensus 854 KvIIFSq------~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLL 909 (1008)
+|+||+. +-.....+...|...|+.|..++=....+.|+.+. ++..-+.-+.|++
T Consensus 114 ~Vvvf~Kg~~~~p~C~~C~~~k~~L~~~~i~y~~~DI~~d~~~~~~l~-~~sg~~TvPqVfI 174 (204)
T PTZ00062 114 KILLFMKGSKTFPFCRFSNAVVNMLNSSGVKYETYNIFEDPDLREELK-VYSNWPTYPQLYV 174 (204)
T ss_pred CEEEEEccCCCCCCChhHHHHHHHHHHcCCCEEEEEcCCCHHHHHHHH-HHhCCCCCCeEEE
Confidence 9999988 45677888999999999999888776666666544 5544333245555
No 373
>cd05568 PTS_IIB_bgl_like PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved in sugar utilization. The domain architecture of the IIB-containing protein includes a region N-terminal to the IIB domain which is homologous to the BglG transcription antiterminator with an RNA-binding domain followed by two homologous domains, PRD1 and PRD2 (PTS Regulation Domains). C-terminal to the IIB domain is a domain similar to the PTS IIA domain. In this system, the BglG-like region and the IIB and IIA-like domains are all expressed together as a single multidomain protein. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include this sensory system with similarity to the bacterial
Probab=27.08 E-value=95 Score=26.98 Aligned_cols=52 Identities=25% Similarity=0.524 Sum_probs=31.7
Q ss_pred eEEEcChhhH--HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhh
Q 001834 387 TLVVCPASVL--RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSI 442 (1008)
Q Consensus 387 tLIV~P~sLl--~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~ 442 (1008)
+||||+...- .--+..+++.++. ..++......... .....++|+||||...
T Consensus 3 ilivC~~G~~~s~~l~~~l~~~~~~---~~~v~~~~~~~~~-~~~~~~~DlIitT~~l 56 (85)
T cd05568 3 ALVVCPSGIGTSRLLKSKLKKLFPE---IEIIDVISLRELE-EVDLDDYDLIISTVPL 56 (85)
T ss_pred EEEECCCCHHHHHHHHHHHHHHCCC---ceEEEEEeHHHHh-hCcccCCCEEEEcccc
Confidence 7999997743 4467788888863 3332222211111 1135679999999864
No 374
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=26.99 E-value=74 Score=28.23 Aligned_cols=55 Identities=16% Similarity=0.251 Sum_probs=30.7
Q ss_pred ceEEEcChhh-HH-HHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhh
Q 001834 386 GTLVVCPASV-LR-QWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSI 442 (1008)
Q Consensus 386 ~tLIV~P~sL-l~-qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~ 442 (1008)
.+|||||..+ .. .-...++++++.. .+.+.+-+.+...... ...++|+||||-..
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~~-~i~~~v~~~~~~~~~~-~~~~~Dliist~~~ 58 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKEN-GIDVKVEQCKIAEVPS-LLDDADLIVSTTKV 58 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHC-CCceEEEEecHHHhhc-ccCCCcEEEEcCCc
Confidence 3799999765 22 4556676666421 3333332222211111 34689999999865
No 375
>PRK13342 recombination factor protein RarA; Reviewed
Probab=26.80 E-value=1.7e+02 Score=34.26 Aligned_cols=20 Identities=30% Similarity=0.225 Sum_probs=16.3
Q ss_pred CceeecCCCCchHHHHHHHH
Q 001834 298 GGILADDQGLGKTISIIALI 317 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali 317 (1008)
.-||.-..|+|||..+-++.
T Consensus 38 ~ilL~GppGtGKTtLA~~ia 57 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIA 57 (413)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 46888999999998776665
No 376
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=26.02 E-value=2.5e+02 Score=32.90 Aligned_cols=54 Identities=11% Similarity=0.071 Sum_probs=28.6
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc---cc-CcEEEEeccCCCCChhHHHHHHHHH
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL---RA-KRRWCLSGTPIQNSIDDLYSYFRFL 564 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L---~a-~~r~lLTGTPi~N~l~DL~sll~fL 564 (1008)
++++||||-+=+.-+..-.+......+ .. ...+.|++|=-.+.+.++...|+.+
T Consensus 320 ~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~~F~~~ 377 (436)
T PRK11889 320 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKDI 377 (436)
T ss_pred CCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHHHhcCC
Confidence 468899998866433332232222222 22 2345677776555555555555443
No 377
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=25.88 E-value=1.6e+02 Score=32.90 Aligned_cols=59 Identities=19% Similarity=0.296 Sum_probs=50.0
Q ss_pred CceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccC-----cCceEEEEEe
Q 001834 852 PIKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTD-----REQITVMLMS 911 (1008)
Q Consensus 852 ~~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~-----~~~~~VLLiS 911 (1008)
+++|||.-.-..+-...+..|+..||.+.|+-|+...+.-+++.+.|+++ .+ ++|++++
T Consensus 76 pd~VLIIGGp~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n-~kvvvv~ 139 (337)
T COG2247 76 PDLVLIIGGPIAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFREDYPNAFKN-VKVVVVY 139 (337)
T ss_pred CceEEEECCCCcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHHhhchhhhcC-eEEEEEe
Confidence 45999999999999999999999999999999999888888888888632 22 6777777
No 378
>PRK06871 DNA polymerase III subunit delta'; Validated
Probab=25.45 E-value=4.2e+02 Score=30.06 Aligned_cols=48 Identities=23% Similarity=0.158 Sum_probs=31.7
Q ss_pred cchhhHHHHHHHHHhhccCCCccCceeecCCCCchHHHHHHHHHhhcc
Q 001834 275 LLKHQKIALAWMLQKETRSLHCLGGILADDQGLGKTISIIALIQMQRS 322 (1008)
Q Consensus 275 LrpyQ~~~v~wml~~e~~~~~~~GGILADemGLGKTiqaIali~~~~~ 322 (1008)
++|+|...-.-+.+....+.-..+-++.-..|+||+..|.+++...-.
T Consensus 3 ~yPW~~~~~~~l~~~~~~~rl~HA~Lf~G~~G~GK~~lA~~~A~~llC 50 (325)
T PRK06871 3 LYPWLQPTYQQITQAFQQGLGHHALLFKADSGLGTEQLIRALAQWLMC 50 (325)
T ss_pred CCcchHHHHHHHHHHHHcCCcceeEEeECCCCCCHHHHHHHHHHHHcC
Confidence 578877766666554333211123457888999999999998876543
No 379
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=25.31 E-value=2.3e+02 Score=33.11 Aligned_cols=36 Identities=11% Similarity=0.121 Sum_probs=27.7
Q ss_pred eEEEEec-cHHHHHHHHHHHHhcCCeEEEecCCCCHH
Q 001834 854 KSIVFSQ-WTRMLDLVENSLNQHCIQYRRLDGTMSLP 889 (1008)
Q Consensus 854 KvIIFSq-~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~ 889 (1008)
++|+... |-.+..++...|++.||.+..++.....+
T Consensus 104 ~vl~~~~~YG~t~~~~~~~l~~~gi~~~~~d~~~~~~ 140 (396)
T COG0626 104 HVLLPDDLYGGTYRLFEKILQKFGVEVTFVDPGDDEA 140 (396)
T ss_pred EEEecCCccchHHHHHHHHHHhcCeEEEEECCCChHH
Confidence 7776665 78888889999999999888777765433
No 380
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=24.21 E-value=4.8e+02 Score=33.16 Aligned_cols=20 Identities=30% Similarity=0.285 Sum_probs=16.4
Q ss_pred CceeecCCCCchHHHHHHHH
Q 001834 298 GGILADDQGLGKTISIIALI 317 (1008)
Q Consensus 298 GGILADemGLGKTiqaIali 317 (1008)
..||.-+.|.|||..|-++.
T Consensus 54 slLL~GPpGtGKTTLA~aIA 73 (725)
T PRK13341 54 SLILYGPPGVGKTTLARIIA 73 (725)
T ss_pred eEEEECCCCCCHHHHHHHHH
Confidence 46889999999998776655
No 381
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.05 E-value=7.5e+02 Score=30.79 Aligned_cols=21 Identities=19% Similarity=0.327 Sum_probs=16.6
Q ss_pred ceeecCCCCchHHHHHHHHHh
Q 001834 299 GILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 299 GILADemGLGKTiqaIali~~ 319 (1008)
-|+.-+.|.|||-.|..++..
T Consensus 42 yLf~Gp~G~GKtt~A~~lAk~ 62 (614)
T PRK14971 42 YLFCGPRGVGKTTCARIFAKT 62 (614)
T ss_pred EEEECCCCCCHHHHHHHHHHH
Confidence 478899999999977666644
No 382
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=23.93 E-value=54 Score=38.46 Aligned_cols=45 Identities=20% Similarity=0.224 Sum_probs=0.0
Q ss_pred eeeEEEEccCcccCCccchHHHHHHhc--------ccCcEEEEeccCCCCChhHHHH
Q 001834 511 GWFRVVLDEAQTIKNHRTQVARACCSL--------RAKRRWCLSGTPIQNSIDDLYS 559 (1008)
Q Consensus 511 ~w~rVIiDEAH~iKN~~s~~~kal~~L--------~a~~r~lLTGTPi~N~l~DL~s 559 (1008)
.|..+|+|||| .+|..+..+..| .--+.+++|+|-....+..+|+
T Consensus 159 ~y~viiLDeah----ERtlATDiLmGllk~v~~~rpdLk~vvmSatl~a~Kfq~yf~ 211 (699)
T KOG0925|consen 159 RYGVIILDEAH----ERTLATDILMGLLKEVVRNRPDLKLVVMSATLDAEKFQRYFG 211 (699)
T ss_pred cccEEEechhh----hhhHHHHHHHHHHHHHHhhCCCceEEEeecccchHHHHHHhC
No 383
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=23.72 E-value=3.3e+02 Score=22.92 Aligned_cols=56 Identities=7% Similarity=0.131 Sum_probs=37.6
Q ss_pred eEEEEecc-HHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEe
Q 001834 854 KSIVFSQW-TRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMS 911 (1008)
Q Consensus 854 KvIIFSq~-~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS 911 (1008)
++.||+.. -.....+...|.+.|++|..++=......+.++.+.-.. .. +.++++.
T Consensus 2 ~v~ly~~~~C~~C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~-~~-vP~v~i~ 58 (73)
T cd03027 2 RVTIYSRLGCEDCTAVRLFLREKGLPYVEINIDIFPERKAELEERTGS-SV-VPQIFFN 58 (73)
T ss_pred EEEEEecCCChhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCC-CC-cCEEEEC
Confidence 67788764 466788889999999999988777665555555444332 22 4444444
No 384
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=23.67 E-value=3.9e+02 Score=21.42 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=33.5
Q ss_pred EEEEeccH-HHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhc
Q 001834 855 SIVFSQWT-RMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFN 899 (1008)
Q Consensus 855 vIIFSq~~-~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~ 899 (1008)
|+||+... .........|++.|++|..++=+...+.++++.+...
T Consensus 1 V~vy~~~~C~~C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g 46 (60)
T PF00462_consen 1 VVVYTKPGCPYCKKAKEFLDEKGIPYEEVDVDEDEEAREELKELSG 46 (60)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHS
T ss_pred cEEEEcCCCcCHHHHHHHHHHcCCeeeEcccccchhHHHHHHHHcC
Confidence 35565533 5567788899999999999988887777777776653
No 385
>PRK13556 azoreductase; Provisional
Probab=23.58 E-value=52 Score=34.62 Aligned_cols=30 Identities=27% Similarity=0.499 Sum_probs=25.8
Q ss_pred cccCCEEEEecCCCC---CChhhHHHHhhhhcC
Q 001834 921 MVAASHVILLDLWWN---PTTEDQAVDRAHRIG 950 (1008)
Q Consensus 921 L~~A~~VI~~Dp~WN---p~~e~QAigR~~RiG 950 (1008)
|..|+.||+.-|-|| |+.+-+.|||+.|.|
T Consensus 87 l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~~g 119 (208)
T PRK13556 87 FLEADKVVFAFPLWNFTIPAVLHTYIDYLNRAG 119 (208)
T ss_pred HHHCCEEEEeccccccCCcHHHHHHHHHHhcCC
Confidence 456888899999999 668889999999986
No 386
>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=23.22 E-value=3.6e+02 Score=28.57 Aligned_cols=36 Identities=11% Similarity=0.138 Sum_probs=22.7
Q ss_pred eeEEEEccCcccCCccchH---HHHHHhc-ccCcEEEEec
Q 001834 512 WFRVVLDEAQTIKNHRTQV---ARACCSL-RAKRRWCLSG 547 (1008)
Q Consensus 512 w~rVIiDEAH~iKN~~s~~---~kal~~L-~a~~r~lLTG 547 (1008)
.+++|||..|.+.+..... ...+..+ ....++++|+
T Consensus 98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEe
Confidence 5789999999998764222 2222222 3456777776
No 387
>cd05563 PTS_IIB_ascorbate PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=23.21 E-value=1.7e+02 Score=25.76 Aligned_cols=52 Identities=13% Similarity=0.270 Sum_probs=27.9
Q ss_pred eEEEcChhh-HHH-HHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhh
Q 001834 387 TLVVCPASV-LRQ-WARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSI 442 (1008)
Q Consensus 387 tLIV~P~sL-l~q-W~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~ 442 (1008)
+|||||... ..+ -...++++++.. .....+-...-.. ....++|++|||-..
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~-~i~~~~~~~~~~~---~~~~~~DlIisT~~l 55 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKEL-GIEAEVEHTDLGS---AKASSADIIVTSKDL 55 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHC-CCcEEEEEecccc---cCCCCCCEEEEchhh
Confidence 799999764 223 344666666422 2222222211111 124679999999853
No 388
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=23.20 E-value=44 Score=30.78 Aligned_cols=30 Identities=43% Similarity=0.883 Sum_probs=24.0
Q ss_pred ccccccccCCCCCC--ccccccCcccchhhhh
Q 001834 717 SSAICCVCSDPPED--SVVTMCGHVFCYQCAS 746 (1008)
Q Consensus 717 ~~~~c~ic~d~~~~--~v~t~CgH~fc~~ci~ 746 (1008)
....|.+|..+... -++-+|||++.+.|+.
T Consensus 77 ~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 77 ESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 45679999988765 3677999999999974
No 389
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=22.89 E-value=4.6e+02 Score=26.55 Aligned_cols=57 Identities=9% Similarity=0.242 Sum_probs=46.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEE-ecCCCCHHHHHHHHHHhccCcCceEEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRR-LDGTMSLPARDRAVKDFNTDREQITVMLMSL 912 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~-l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~ 912 (1008)
++-++-.-...++.+.+.|++. |+.++- .+|-+...+...+++..+... +.++++.+
T Consensus 48 ~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~--pdiv~vgl 107 (171)
T cd06533 48 RVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASG--ADILFVGL 107 (171)
T ss_pred eEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcC--CCEEEEEC
Confidence 8889999999999999998887 777665 788888888887888887665 67777664
No 390
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=22.42 E-value=53 Score=36.33 Aligned_cols=52 Identities=21% Similarity=0.560 Sum_probs=37.7
Q ss_pred ccccccccccCCCCCC----ccccccCcccchhhhhhhhcCCCCCCCCcccccccccc
Q 001834 715 ETSSAICCVCSDPPED----SVVTMCGHVFCYQCASEYITGDDNMCPAPRCKEQLGAD 768 (1008)
Q Consensus 715 e~~~~~c~ic~d~~~~----~v~t~CgH~fc~~ci~~~~~~~~~~cp~~~c~~~l~~~ 768 (1008)
|+...-|+.|.++++- ..--.||--.|.-|...+...-..+|| .||.....+
T Consensus 11 edeed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcp--acrr~y~de 66 (480)
T COG5175 11 EDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCP--ACRRKYDDE 66 (480)
T ss_pred ccccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCCh--Hhhhhcccc
Confidence 3455669999988752 234579999999999888776677888 577655443
No 391
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=22.38 E-value=1.2e+02 Score=26.75 Aligned_cols=35 Identities=20% Similarity=0.204 Sum_probs=28.4
Q ss_pred ceEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCC
Q 001834 853 IKSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMS 887 (1008)
Q Consensus 853 ~KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s 887 (1008)
.++|+||..-.........|+..|+.+..++|++.
T Consensus 52 ~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~ 86 (90)
T cd01524 52 KEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK 86 (90)
T ss_pred CcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence 38899998765677777889999998888999874
No 392
>cd00133 PTS_IIB PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby r
Probab=22.28 E-value=1.7e+02 Score=24.76 Aligned_cols=53 Identities=25% Similarity=0.410 Sum_probs=29.8
Q ss_pred eEEEcChhhH--HHHHHHHHHHcCCCCCeEEEEEeCCCCCCCccccCCCcEEEechhh
Q 001834 387 TLVVCPASVL--RQWARELEDKVPDKAALSVLIYHGGSRTKDPVELAKYDVVLTTYSI 442 (1008)
Q Consensus 387 tLIV~P~sLl--~qW~~Ei~k~~~~~~~l~v~v~~g~~r~~~~~~l~~~dVVItTy~~ 442 (1008)
+|+|||...- ..-...+++.++.. .+...+....-.. .....++|++|||...
T Consensus 2 il~vc~~G~~~s~~l~~~l~~~~~~~-~~~~~~~~~~~~~--~~~~~~~dliitt~~~ 56 (84)
T cd00133 2 ILVVCGSGIGSSSMLAEKLEKAAKEL-GIEVKVEAQGLSE--VIDLADADLIISTVPL 56 (84)
T ss_pred EEEECCCcHhHHHHHHHHHHHHHHHC-CCeEEEEEcccch--hhhcCCccEEEECCcc
Confidence 6899998743 23446666666532 2322222221111 0446789999999864
No 393
>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=22.19 E-value=2.6e+02 Score=33.48 Aligned_cols=60 Identities=13% Similarity=0.197 Sum_probs=50.0
Q ss_pred eEEEEeccHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCC
Q 001834 854 KSIVFSQWTRMLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAG 915 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kag 915 (1008)
.+||.+.....+.-....|...|+....+.|..+..++..++.....+. +++++++....
T Consensus 53 ~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~~--~~il~~TPe~l 112 (470)
T TIGR00614 53 ITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDGK--IKLLYVTPEKC 112 (470)
T ss_pred cEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcCC--CCEEEECHHHH
Confidence 7899999998887777788889999999999999998888888886554 78888876554
No 394
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=21.70 E-value=64 Score=25.56 Aligned_cols=38 Identities=26% Similarity=0.712 Sum_probs=28.9
Q ss_pred cccccCC--CCCCccccccC-----cccchhhhhhhhcCC-CCCCC
Q 001834 720 ICCVCSD--PPEDSVVTMCG-----HVFCYQCASEYITGD-DNMCP 757 (1008)
Q Consensus 720 ~c~ic~d--~~~~~v~t~Cg-----H~fc~~ci~~~~~~~-~~~cp 757 (1008)
.|.||.+ ..+++.+.+|. |.+=..|+..|+... ...||
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~ 46 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCE 46 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCC
Confidence 4788886 56678899995 888899999998654 34565
No 395
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=21.46 E-value=49 Score=37.31 Aligned_cols=40 Identities=23% Similarity=0.235 Sum_probs=27.8
Q ss_pred EEEEccCcccCCccchHHHHHHhcccCcEEEEeccCCCCChh
Q 001834 514 RVVLDEAQTIKNHRTQVARACCSLRAKRRWCLSGTPIQNSID 555 (1008)
Q Consensus 514 rVIiDEAH~iKN~~s~~~kal~~L~a~~r~lLTGTPi~N~l~ 555 (1008)
.||+||||+ . .--+.--.+..|-...+..+||.+.|-.+-
T Consensus 246 fVIlDEaQN-t-T~~QmKMfLTRiGf~skmvItGD~tQiDLp 285 (348)
T COG1702 246 FVILDEAQN-T-TVGQMKMFLTRIGFESKMVITGDITQIDLP 285 (348)
T ss_pred EEEEecccc-c-chhhhceeeeeecCCceEEEEcCcccccCC
Confidence 699999997 2 222333334566788899999999876543
No 396
>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=21.18 E-value=2.7e+02 Score=32.30 Aligned_cols=38 Identities=18% Similarity=0.197 Sum_probs=25.2
Q ss_pred eeEEEEccCcccCCccchHHHHHHhcc---cCcEEEEeccCCC
Q 001834 512 WFRVVLDEAQTIKNHRTQVARACCSLR---AKRRWCLSGTPIQ 551 (1008)
Q Consensus 512 w~rVIiDEAH~iKN~~s~~~kal~~L~---a~~r~lLTGTPi~ 551 (1008)
++.+++|||..+.. ......+..|+ ++.++++|.||-.
T Consensus 102 ~~~~~idEa~~~~~--~~~~~l~~rlr~~~~~~~i~~t~NP~~ 142 (396)
T TIGR01547 102 IAIIWFEEASQLTF--EDIKELIPRLRETGGKKFIIFSSNPES 142 (396)
T ss_pred eeeehhhhhhhcCH--HHHHHHHHHhhccCCccEEEEEcCcCC
Confidence 57899999999943 23334444454 2235999999944
No 397
>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=21.17 E-value=99 Score=31.69 Aligned_cols=24 Identities=29% Similarity=0.209 Sum_probs=19.1
Q ss_pred ccCceeecCCCCchHHHHHHHHHh
Q 001834 296 CLGGILADDQGLGKTISIIALIQM 319 (1008)
Q Consensus 296 ~~GGILADemGLGKTiqaIali~~ 319 (1008)
+.|-+|--.+|.|||-.|.|++..
T Consensus 47 ~~~l~l~G~~G~GKThLa~ai~~~ 70 (178)
T PF01695_consen 47 GENLILYGPPGTGKTHLAVAIANE 70 (178)
T ss_dssp --EEEEEESTTSSHHHHHHHHHHH
T ss_pred CeEEEEEhhHhHHHHHHHHHHHHH
Confidence 356788889999999999888754
No 398
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=20.74 E-value=2.3e+02 Score=35.16 Aligned_cols=64 Identities=14% Similarity=0.168 Sum_probs=49.1
Q ss_pred HHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEecCCCccccccccCCEEEE
Q 001834 864 MLDLVENSLNQHCIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSLKAGNLGLNMVAASHVIL 929 (1008)
Q Consensus 864 ~ld~L~~~L~~~gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~kagg~GLNL~~A~~VI~ 929 (1008)
..+-+..+|...|+.+..++|+++.++|.+++++-.++. +.++|.+=.-.-..++++..-.||+
T Consensus 327 H~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~--~~ivVGTHALiQd~V~F~~LgLVIi 390 (677)
T COG1200 327 HYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGE--IDIVVGTHALIQDKVEFHNLGLVII 390 (677)
T ss_pred HHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCC--CCEEEEcchhhhcceeecceeEEEE
Confidence 356678888888999999999999999999999999886 6777755333555666665555543
No 399
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=20.43 E-value=1.4e+02 Score=32.91 Aligned_cols=33 Identities=27% Similarity=0.576 Sum_probs=25.8
Q ss_pred cccccccCCCCCCccccccCcccchhhhhhhhc
Q 001834 718 SAICCVCSDPPEDSVVTMCGHVFCYQCASEYIT 750 (1008)
Q Consensus 718 ~~~c~ic~d~~~~~v~t~CgH~fc~~ci~~~~~ 750 (1008)
..+|.+|...-+.-.+|.|.|.+-..|+..|++
T Consensus 118 CvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~ 150 (368)
T KOG4445|consen 118 CVICLYGFASSPAFTVTACDHYMHFACLARYLT 150 (368)
T ss_pred eEEEEEeecCCCceeeehhHHHHHHHHHHHHHH
Confidence 445555555556678999999999999999886
No 400
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=20.22 E-value=6.5e+02 Score=25.79 Aligned_cols=57 Identities=11% Similarity=0.170 Sum_probs=44.7
Q ss_pred eEEEEeccHHHHHHHHHHHHhc--CCeEEEecCCCCHHHHHHHHHHhccCcCceEEEEEec
Q 001834 854 KSIVFSQWTRMLDLVENSLNQH--CIQYRRLDGTMSLPARDRAVKDFNTDREQITVMLMSL 912 (1008)
Q Consensus 854 KvIIFSq~~~~ld~L~~~L~~~--gi~~~~l~Gs~s~~~R~~~i~~F~~~~~~~~VLLiS~ 912 (1008)
++-++-.-..+++.+.+.|++. ++.++-.+|-.+.++.+++++.-+... ..++++.+
T Consensus 50 ~vfllG~~~~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~--~dil~Vgl 108 (177)
T TIGR00696 50 PIFLYGGKPDVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSG--AGIVFVGL 108 (177)
T ss_pred eEEEECCCHHHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcC--CCEEEEEc
Confidence 8888888899999999999887 677666688888777777787777654 56777664
Done!