Query 002901
Match_columns 869
No_of_seqs 460 out of 2744
Neff 8.5
Searched_HMMs 46136
Date Thu Mar 28 13:05:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002901.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002901hhsearch_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 2E-113 5E-118 899.3 37.5 572 168-868 155-790 (791)
2 KOG4439 RNA polymerase II tran 100.0 2.3E-97 5E-102 809.0 39.1 558 168-869 289-901 (901)
3 KOG0385 Chromatin remodeling c 100.0 4.9E-93 1.1E-97 782.3 35.9 458 193-851 159-623 (971)
4 KOG0387 Transcription-coupled 100.0 3E-90 6.6E-95 764.8 37.5 473 192-869 197-699 (923)
5 KOG0392 SNF2 family DNA-depend 100.0 1.9E-87 4E-92 766.2 35.5 495 194-868 969-1495(1549)
6 PLN03142 Probable chromatin-re 100.0 2.2E-86 4.7E-91 793.7 42.2 474 192-868 161-641 (1033)
7 KOG0389 SNF2 family DNA-depend 100.0 7.6E-86 1.7E-90 728.5 31.0 496 199-852 398-913 (941)
8 KOG1001 Helicase-like transcri 100.0 2.1E-86 4.7E-91 765.2 27.9 517 246-850 150-673 (674)
9 KOG0391 SNF2 family DNA-depend 100.0 6.2E-84 1.3E-88 727.5 31.9 562 190-869 605-1429(1958)
10 KOG0384 Chromodomain-helicase 100.0 2.5E-81 5.5E-86 720.3 34.8 473 197-867 367-856 (1373)
11 KOG0388 SNF2 family DNA-depend 100.0 5E-79 1.1E-83 661.9 31.2 536 192-852 559-1179(1185)
12 KOG0390 DNA repair protein, SN 100.0 5.6E-75 1.2E-79 663.9 38.7 495 195-868 233-748 (776)
13 KOG0386 Chromatin remodeling c 100.0 5.4E-76 1.2E-80 664.6 18.8 465 189-852 383-863 (1157)
14 KOG1015 Transcription regulato 100.0 6.9E-68 1.5E-72 589.0 31.9 564 193-869 661-1318(1567)
15 COG0553 HepA Superfamily II DN 100.0 2.8E-66 6E-71 646.9 37.4 492 195-869 333-865 (866)
16 KOG1000 Chromatin remodeling p 100.0 3.7E-58 7.9E-63 484.5 31.5 420 195-848 193-624 (689)
17 PRK04914 ATP-dependent helicas 100.0 8.4E-57 1.8E-61 538.0 33.1 423 196-851 148-629 (956)
18 KOG1016 Predicted DNA helicase 100.0 1.3E-56 2.8E-61 490.3 21.5 552 196-867 250-888 (1387)
19 KOG0298 DEAD box-containing he 100.0 3E-54 6.4E-59 499.2 19.0 461 348-844 419-1343(1394)
20 PF00176 SNF2_N: SNF2 family N 100.0 4.9E-46 1.1E-50 405.8 17.0 295 204-588 1-299 (299)
21 TIGR00603 rad25 DNA repair hel 100.0 2.9E-39 6.3E-44 374.7 36.6 357 198-845 253-623 (732)
22 KOG0383 Predicted helicase [Ge 100.0 5.7E-42 1.2E-46 389.8 10.2 378 199-781 294-696 (696)
23 PRK13766 Hef nuclease; Provisi 100.0 5.5E-34 1.2E-38 349.2 39.8 445 199-849 14-501 (773)
24 COG1111 MPH1 ERCC4-like helica 100.0 1.4E-29 2.9E-34 272.4 32.6 470 199-851 14-505 (542)
25 PHA02558 uvsW UvsW helicase; P 100.0 1.7E-27 3.7E-32 275.8 33.0 127 697-828 329-456 (501)
26 COG1061 SSL2 DNA or RNA helica 100.0 1.3E-26 2.9E-31 263.1 32.8 369 196-838 32-405 (442)
27 PTZ00110 helicase; Provisional 99.9 7.6E-22 1.7E-26 230.4 30.6 125 695-827 360-484 (545)
28 KOG1123 RNA polymerase II tran 99.9 1E-22 2.2E-27 216.5 20.8 344 198-831 300-657 (776)
29 KOG0354 DEAD-box like helicase 99.9 3.6E-21 7.7E-26 219.7 33.2 149 694-851 393-552 (746)
30 PRK11192 ATP-dependent RNA hel 99.9 9.2E-22 2E-26 225.6 27.9 117 696-820 231-347 (434)
31 PRK11776 ATP-dependent RNA hel 99.9 1.7E-21 3.7E-26 224.9 28.3 121 697-827 229-349 (460)
32 PRK01297 ATP-dependent RNA hel 99.9 3.8E-21 8.3E-26 222.6 29.7 123 695-827 320-442 (475)
33 TIGR00614 recQ_fam ATP-depende 99.9 1.7E-21 3.6E-26 224.8 26.5 105 713-821 225-329 (470)
34 PRK04837 ATP-dependent RNA hel 99.9 1.6E-21 3.4E-26 222.7 25.9 122 696-827 241-362 (423)
35 PLN00206 DEAD-box ATP-dependen 99.9 5.5E-21 1.2E-25 222.5 30.1 123 697-827 352-475 (518)
36 PRK10590 ATP-dependent RNA hel 99.9 3E-21 6.5E-26 221.9 27.5 109 713-827 244-352 (456)
37 PRK04537 ATP-dependent RNA hel 99.9 7.1E-21 1.5E-25 223.0 28.4 121 696-826 243-363 (572)
38 PTZ00424 helicase 45; Provisio 99.9 2E-20 4.3E-25 212.8 28.4 109 714-828 267-375 (401)
39 PRK11448 hsdR type I restricti 99.9 1.1E-20 2.3E-25 232.9 26.7 106 714-824 698-815 (1123)
40 PRK11634 ATP-dependent RNA hel 99.9 5.5E-20 1.2E-24 216.7 29.5 115 695-817 230-344 (629)
41 TIGR01389 recQ ATP-dependent D 99.9 4.1E-20 8.9E-25 219.4 27.5 115 697-819 211-325 (591)
42 PRK11057 ATP-dependent DNA hel 99.9 4.1E-20 9E-25 218.8 27.0 101 713-817 235-335 (607)
43 TIGR00643 recG ATP-dependent D 99.8 9.8E-19 2.1E-23 208.0 29.2 86 729-818 471-559 (630)
44 TIGR00580 mfd transcription-re 99.8 8.9E-19 1.9E-23 212.4 28.8 107 714-826 660-769 (926)
45 PLN03137 ATP-dependent DNA hel 99.8 4.4E-19 9.6E-24 211.6 25.2 104 714-821 680-783 (1195)
46 KOG0331 ATP-dependent RNA heli 99.8 1.6E-18 3.5E-23 192.6 26.1 118 695-817 323-440 (519)
47 PRK10917 ATP-dependent DNA hel 99.8 1.3E-18 2.9E-23 208.2 27.4 91 728-824 493-586 (681)
48 TIGR03817 DECH_helic helicase/ 99.8 4E-18 8.7E-23 204.9 28.5 114 714-833 271-392 (742)
49 PRK10689 transcription-repair 99.8 2.1E-18 4.7E-23 213.5 25.4 105 714-824 809-916 (1147)
50 PRK02362 ski2-like helicase; P 99.8 7.3E-18 1.6E-22 204.8 27.2 82 740-825 305-395 (737)
51 PRK13767 ATP-dependent helicas 99.8 1.6E-17 3.4E-22 203.8 29.0 104 714-821 284-394 (876)
52 PRK01172 ski2-like helicase; P 99.8 5.7E-17 1.2E-21 195.6 29.2 107 350-459 66-179 (674)
53 COG0513 SrmB Superfamily II DN 99.8 6.6E-17 1.4E-21 187.2 28.3 121 696-826 259-379 (513)
54 KOG0330 ATP-dependent RNA heli 99.8 1.2E-17 2.6E-22 174.1 19.3 136 696-841 286-423 (476)
55 PRK00254 ski2-like helicase; P 99.8 1.6E-16 3.5E-21 192.6 28.0 115 350-469 69-187 (720)
56 TIGR01587 cas3_core CRISPR-ass 99.7 2.3E-16 5E-21 176.6 25.3 121 697-827 208-338 (358)
57 TIGR00348 hsdR type I site-spe 99.7 6.5E-16 1.4E-20 184.3 28.7 108 714-825 514-649 (667)
58 TIGR03714 secA2 accessory Sec 99.7 5.2E-15 1.1E-19 173.1 28.1 116 693-817 405-529 (762)
59 KOG0328 Predicted ATP-dependen 99.7 1.5E-15 3.3E-20 151.9 20.1 125 696-830 252-376 (400)
60 TIGR02621 cas3_GSU0051 CRISPR- 99.7 5.5E-15 1.2E-19 174.6 27.7 104 714-823 272-390 (844)
61 COG1201 Lhr Lhr-like helicases 99.7 5.6E-15 1.2E-19 173.6 24.4 116 715-838 254-371 (814)
62 COG1200 RecG RecG-like helicas 99.7 1.8E-14 3.8E-19 163.0 26.0 106 350-465 312-427 (677)
63 PRK05580 primosome assembly pr 99.7 8.1E-15 1.7E-19 175.1 24.6 96 726-825 438-549 (679)
64 KOG0350 DEAD-box ATP-dependent 99.7 2.6E-15 5.7E-20 161.2 17.8 120 697-826 416-539 (620)
65 TIGR03158 cas3_cyano CRISPR-as 99.6 3.3E-14 7.1E-19 158.0 25.6 86 712-810 270-357 (357)
66 cd00079 HELICc Helicase superf 99.6 1.1E-15 2.3E-20 144.7 11.5 121 695-821 11-131 (131)
67 KOG0333 U5 snRNP-like RNA heli 99.6 3.2E-14 6.9E-19 153.7 21.8 124 694-827 501-624 (673)
68 COG4096 HsdR Type I site-speci 99.6 1.6E-14 3.4E-19 165.2 18.3 107 714-824 426-545 (875)
69 KOG0335 ATP-dependent RNA heli 99.6 6.4E-15 1.4E-19 161.3 14.4 124 694-821 312-440 (482)
70 PRK09200 preprotein translocas 99.6 1.9E-13 4.2E-18 161.6 27.6 116 694-817 410-533 (790)
71 PRK09751 putative ATP-dependen 99.6 6.3E-14 1.4E-18 175.0 24.2 95 714-812 244-371 (1490)
72 COG1204 Superfamily II helicas 99.6 4.8E-14 1E-18 168.0 22.1 168 200-479 31-205 (766)
73 PRK09401 reverse gyrase; Revie 99.6 8.6E-14 1.9E-18 173.3 24.7 104 696-812 315-431 (1176)
74 KOG0348 ATP-dependent RNA heli 99.6 4.8E-14 1E-18 152.6 19.1 119 696-818 407-547 (708)
75 TIGR00963 secA preprotein tran 99.6 2.2E-13 4.9E-18 158.5 26.0 115 695-817 388-509 (745)
76 KOG0345 ATP-dependent RNA heli 99.6 2.3E-13 4.9E-18 145.6 23.5 117 695-819 240-358 (567)
77 PRK12898 secA preprotein trans 99.6 6.5E-13 1.4E-17 153.9 27.4 114 694-815 455-576 (656)
78 PF04851 ResIII: Type III rest 99.6 1.2E-14 2.5E-19 146.3 10.2 157 199-460 2-183 (184)
79 COG0514 RecQ Superfamily II DN 99.5 6.6E-13 1.4E-17 150.9 24.7 109 714-828 230-338 (590)
80 KOG0336 ATP-dependent RNA heli 99.5 7.9E-13 1.7E-17 138.7 22.1 140 695-843 449-591 (629)
81 TIGR00595 priA primosomal prot 99.5 9.7E-13 2.1E-17 151.8 24.2 95 728-826 272-382 (505)
82 PF08797 HIRAN: HIRAN domain; 99.5 8.8E-15 1.9E-19 133.0 5.8 94 29-124 1-105 (107)
83 KOG4284 DEAD box protein [Tran 99.5 2.3E-13 5.1E-18 149.8 16.4 119 697-824 259-377 (980)
84 PHA02653 RNA helicase NPH-II; 99.5 6.4E-12 1.4E-16 148.0 29.7 108 714-830 395-517 (675)
85 smart00487 DEXDc DEAD-like hel 99.5 1.1E-13 2.3E-18 140.5 12.9 160 199-463 7-174 (201)
86 PF00271 Helicase_C: Helicase 99.5 2.2E-14 4.7E-19 122.8 6.4 78 732-813 1-78 (78)
87 KOG0343 RNA Helicase [RNA proc 99.5 1.1E-12 2.5E-17 142.5 20.9 135 695-840 298-434 (758)
88 COG4889 Predicted helicase [Ge 99.5 4.9E-13 1.1E-17 151.3 18.3 79 738-817 499-577 (1518)
89 cd00046 DEXDc DEAD-like helica 99.5 2.1E-13 4.5E-18 130.0 12.3 136 250-459 2-144 (144)
90 TIGR01054 rgy reverse gyrase. 99.5 1.8E-12 3.9E-17 161.9 22.7 88 698-797 315-409 (1171)
91 KOG0342 ATP-dependent RNA heli 99.5 5.4E-12 1.2E-16 136.2 22.5 114 695-815 314-427 (543)
92 KOG0340 ATP-dependent RNA heli 99.5 1E-11 2.2E-16 128.9 22.7 117 695-816 236-352 (442)
93 COG1205 Distinct helicase fami 99.5 4.1E-12 9E-17 153.8 22.9 116 714-835 306-430 (851)
94 KOG0339 ATP-dependent RNA heli 99.4 2E-11 4.4E-16 131.5 23.0 127 695-830 452-578 (731)
95 TIGR01970 DEAH_box_HrpB ATP-de 99.4 1.7E-11 3.7E-16 147.9 24.2 108 714-828 209-337 (819)
96 KOG0338 ATP-dependent RNA heli 99.4 4.7E-12 1E-16 136.6 16.3 98 714-815 426-523 (691)
97 smart00490 HELICc helicase sup 99.4 7.8E-13 1.7E-17 113.9 8.1 81 729-813 2-82 (82)
98 COG1202 Superfamily II helicas 99.4 1.1E-11 2.5E-16 135.4 18.0 107 714-825 440-551 (830)
99 PRK09694 helicase Cas3; Provis 99.4 3.7E-11 7.9E-16 145.1 24.4 98 714-815 560-665 (878)
100 PRK14701 reverse gyrase; Provi 99.4 2.2E-11 4.8E-16 155.2 23.5 104 699-815 320-446 (1638)
101 COG1197 Mfd Transcription-repa 99.4 1.6E-10 3.5E-15 138.3 27.9 107 714-826 803-912 (1139)
102 KOG0344 ATP-dependent RNA heli 99.4 1.5E-11 3.2E-16 136.0 17.1 115 695-817 372-487 (593)
103 PRK11664 ATP-dependent RNA hel 99.4 8.2E-11 1.8E-15 142.4 24.9 109 714-829 212-341 (812)
104 KOG0341 DEAD-box protein abstr 99.4 3.5E-12 7.7E-17 132.9 11.2 138 695-843 407-548 (610)
105 KOG0326 ATP-dependent RNA heli 99.3 1.4E-11 3.1E-16 125.7 13.8 121 695-825 307-427 (459)
106 PRK13104 secA preprotein trans 99.3 7E-10 1.5E-14 131.5 26.9 118 693-818 425-580 (896)
107 KOG0347 RNA helicase [RNA proc 99.3 4.4E-11 9.5E-16 130.4 15.4 131 714-850 463-614 (731)
108 TIGR00631 uvrb excinuclease AB 99.3 7.6E-09 1.6E-13 122.7 35.3 134 694-836 424-564 (655)
109 cd00268 DEADc DEAD-box helicas 99.3 3.1E-11 6.8E-16 123.7 12.9 110 349-460 69-185 (203)
110 PRK12906 secA preprotein trans 99.3 2.4E-09 5.2E-14 126.4 28.7 117 694-818 422-546 (796)
111 KOG0332 ATP-dependent RNA heli 99.2 2.6E-09 5.5E-14 111.9 23.0 154 695-866 315-474 (477)
112 KOG0334 RNA helicase [RNA proc 99.2 3.8E-10 8.2E-15 132.7 18.2 124 694-826 596-719 (997)
113 PRK12904 preprotein translocas 99.2 3.3E-09 7.2E-14 125.7 26.2 119 693-819 411-567 (830)
114 PF00270 DEAD: DEAD/DEAH box h 99.2 7.3E-11 1.6E-15 117.0 10.5 114 350-466 45-168 (169)
115 KOG0952 DNA/RNA helicase MER3/ 99.2 1.8E-09 3.8E-14 126.2 22.4 135 348-489 163-310 (1230)
116 PRK13107 preprotein translocas 99.2 1.5E-08 3.1E-13 120.1 29.5 118 692-817 429-583 (908)
117 KOG0346 RNA helicase [RNA proc 99.2 8E-10 1.7E-14 117.8 17.1 109 714-827 268-410 (569)
118 TIGR01967 DEAH_box_HrpA ATP-de 99.2 3.4E-09 7.3E-14 131.4 24.7 109 714-831 279-408 (1283)
119 PRK05298 excinuclease ABC subu 99.2 1.6E-07 3.4E-12 112.4 37.9 124 694-826 428-556 (652)
120 PRK11131 ATP-dependent RNA hel 99.2 3.1E-09 6.7E-14 131.3 23.9 109 713-830 285-414 (1294)
121 KOG0351 ATP-dependent DNA heli 99.1 1.6E-09 3.4E-14 130.7 16.3 115 704-822 475-589 (941)
122 PRK12900 secA preprotein trans 99.0 1.4E-07 3E-12 112.5 30.2 117 693-817 579-703 (1025)
123 PRK12899 secA preprotein trans 99.0 1.5E-06 3.4E-11 103.4 34.8 117 693-817 549-673 (970)
124 KOG0327 Translation initiation 98.9 3.1E-08 6.6E-13 104.9 17.8 120 697-828 252-371 (397)
125 COG0556 UvrB Helicase subunit 98.9 5.7E-06 1.2E-10 91.3 35.7 141 694-841 428-573 (663)
126 PF13872 AAA_34: P-loop contai 98.9 5.4E-09 1.2E-13 109.5 11.9 238 199-546 36-302 (303)
127 KOG0337 ATP-dependent RNA heli 98.9 5E-09 1.1E-13 111.4 11.3 114 695-815 245-358 (529)
128 COG1203 CRISPR-associated heli 98.9 4.2E-08 9.1E-13 118.9 19.3 126 712-841 438-566 (733)
129 PF11496 HDA2-3: Class II hist 98.9 1.2E-07 2.5E-12 101.5 19.4 224 528-839 4-257 (297)
130 COG1198 PriA Primosomal protei 98.9 1.4E-07 3E-12 111.2 21.1 97 728-828 494-606 (730)
131 PRK12326 preprotein translocas 98.8 1.2E-06 2.6E-11 101.9 25.9 118 693-818 408-540 (764)
132 KOG0353 ATP-dependent DNA heli 98.8 2.6E-07 5.7E-12 96.6 18.4 89 713-805 316-404 (695)
133 KOG0951 RNA helicase BRR2, DEA 98.8 2.6E-07 5.6E-12 109.9 19.5 122 349-478 364-498 (1674)
134 COG4098 comFA Superfamily II D 98.7 5.4E-06 1.2E-10 86.7 25.1 118 700-825 293-416 (441)
135 TIGR00596 rad1 DNA repair prot 98.7 7.2E-07 1.6E-11 107.4 20.7 138 393-562 5-148 (814)
136 KOG1513 Nuclear helicase MOP-3 98.7 8.3E-07 1.8E-11 100.9 19.5 74 769-843 859-940 (1300)
137 KOG0352 ATP-dependent DNA heli 98.6 9.5E-07 2E-11 94.3 16.3 100 717-820 258-357 (641)
138 TIGR01407 dinG_rel DnaQ family 98.6 2.9E-05 6.3E-10 96.4 32.3 113 699-819 660-808 (850)
139 PRK13103 secA preprotein trans 98.6 2E-05 4.4E-10 94.0 26.6 119 692-818 429-584 (913)
140 KOG0349 Putative DEAD-box RNA 98.5 1.7E-06 3.7E-11 92.3 13.4 95 713-811 504-601 (725)
141 COG0610 Type I site-specific r 98.5 2.8E-05 6E-10 96.6 25.4 145 247-466 272-420 (962)
142 COG1110 Reverse gyrase [DNA re 98.4 2.7E-05 5.9E-10 92.1 22.6 88 696-796 322-416 (1187)
143 PLN03208 E3 ubiquitin-protein 98.3 4.8E-07 1E-11 88.3 4.9 61 618-678 13-88 (193)
144 COG4581 Superfamily II RNA hel 98.3 2.6E-05 5.5E-10 94.6 20.5 156 192-459 111-270 (1041)
145 KOG0823 Predicted E3 ubiquitin 98.3 3.7E-07 8E-12 90.5 2.9 60 619-678 43-104 (230)
146 PF13871 Helicase_C_4: Helicas 98.2 2.3E-06 5.1E-11 89.7 7.6 93 755-851 52-152 (278)
147 PRK12903 secA preprotein trans 98.1 0.00097 2.1E-08 79.4 27.1 117 694-818 408-532 (925)
148 PRK15483 type III restriction- 98.1 2.4E-05 5.1E-10 94.6 13.8 72 768-840 501-580 (986)
149 PRK14873 primosome assembly pr 98.1 6.6E-05 1.4E-09 89.3 16.3 99 350-459 189-303 (665)
150 KOG0947 Cytoplasmic exosomal R 98.1 0.00029 6.2E-09 82.8 20.6 99 350-458 341-443 (1248)
151 KOG0320 Predicted E3 ubiquitin 98.0 2.3E-06 4.9E-11 81.0 2.4 54 621-675 129-184 (187)
152 KOG2164 Predicted E3 ubiquitin 98.0 3.2E-06 7E-11 92.9 3.8 58 623-680 186-247 (513)
153 PF07652 Flavi_DEAD: Flaviviru 98.0 1.5E-05 3.1E-10 74.7 7.2 102 348-460 32-137 (148)
154 PF02399 Herpes_ori_bp: Origin 97.9 0.00082 1.8E-08 79.4 21.8 98 713-821 281-384 (824)
155 KOG0317 Predicted E3 ubiquitin 97.9 5.4E-06 1.2E-10 84.7 2.8 53 621-674 237-289 (293)
156 smart00504 Ubox Modified RING 97.9 1.4E-05 2.9E-10 65.0 4.2 50 624-674 2-51 (63)
157 PHA02929 N1R/p28-like protein; 97.9 1.3E-05 2.8E-10 82.0 4.8 52 617-669 168-227 (238)
158 PF13923 zf-C3HC4_2: Zinc fing 97.9 7.5E-06 1.6E-10 59.4 2.1 38 626-664 1-39 (39)
159 KOG0329 ATP-dependent RNA heli 97.8 0.00036 7.9E-09 70.1 13.7 82 350-433 111-197 (387)
160 PF13920 zf-C3HC4_3: Zinc fing 97.8 1.1E-05 2.4E-10 62.1 2.4 46 623-669 2-48 (50)
161 PF15227 zf-C3HC4_4: zinc fing 97.8 1.4E-05 3.1E-10 58.7 2.6 39 626-664 1-42 (42)
162 PRK12901 secA preprotein trans 97.8 0.0045 9.7E-08 75.0 24.6 118 692-817 608-733 (1112)
163 CHL00122 secA preprotein trans 97.8 0.0036 7.8E-08 75.0 23.5 84 693-783 405-489 (870)
164 KOG0922 DEAH-box RNA helicase 97.8 0.0038 8.3E-08 71.6 22.5 114 713-830 257-393 (674)
165 KOG0948 Nuclear exosomal RNA h 97.7 0.00088 1.9E-08 76.9 16.8 98 351-458 174-275 (1041)
166 PHA02926 zinc finger-like prot 97.7 4.3E-05 9.2E-10 75.3 5.0 63 607-669 154-230 (242)
167 KOG0949 Predicted helicase, DE 97.7 0.0015 3.3E-08 77.2 18.0 70 744-817 968-1038(1330)
168 KOG0953 Mitochondrial RNA heli 97.7 0.00022 4.7E-09 79.4 10.5 108 712-824 356-474 (700)
169 COG1643 HrpA HrpA-like helicas 97.6 0.0056 1.2E-07 74.2 21.5 110 714-830 259-390 (845)
170 KOG0978 E3 ubiquitin ligase in 97.5 2.9E-05 6.4E-10 89.9 1.7 53 623-675 643-695 (698)
171 PF00097 zf-C3HC4: Zinc finger 97.5 6.9E-05 1.5E-09 55.0 2.5 39 626-664 1-41 (41)
172 TIGR00599 rad18 DNA repair pro 97.5 0.00013 2.8E-09 80.4 5.5 49 622-671 25-73 (397)
173 COG5574 PEX10 RING-finger-cont 97.5 4.9E-05 1.1E-09 76.9 2.1 52 621-672 213-265 (271)
174 KOG0925 mRNA splicing factor A 97.3 0.0048 1E-07 67.8 15.0 62 769-832 314-392 (699)
175 PF13639 zf-RING_2: Ring finge 97.3 6.9E-05 1.5E-09 56.0 0.5 41 624-665 1-44 (44)
176 KOG0950 DNA polymerase theta/e 97.3 0.012 2.6E-07 70.1 18.8 70 740-814 524-598 (1008)
177 smart00489 DEXDc3 DEAD-like he 97.3 0.0014 2.9E-08 70.9 10.5 42 393-435 209-250 (289)
178 smart00488 DEXDc2 DEAD-like he 97.3 0.0014 2.9E-08 70.9 10.5 42 393-435 209-250 (289)
179 PF04564 U-box: U-box domain; 97.3 0.00015 3.2E-09 60.8 2.3 52 623-674 4-55 (73)
180 COG5432 RAD18 RING-finger-cont 97.2 0.00014 3.1E-09 73.6 2.0 46 623-669 25-70 (391)
181 TIGR03117 cas_csf4 CRISPR-asso 97.2 0.0024 5.3E-08 75.3 11.9 100 697-800 454-564 (636)
182 cd00162 RING RING-finger (Real 97.2 0.00038 8.2E-09 51.8 3.4 43 625-667 1-44 (45)
183 PF14835 zf-RING_6: zf-RING of 97.2 0.00018 3.9E-09 56.7 1.6 47 624-673 8-55 (65)
184 PF14634 zf-RING_5: zinc-RING 97.1 0.00037 8.1E-09 52.0 3.1 41 625-666 1-44 (44)
185 PRK12902 secA preprotein trans 97.1 0.098 2.1E-06 63.1 24.3 85 693-784 420-505 (939)
186 KOG0287 Postreplication repair 97.1 0.00013 2.8E-09 75.7 0.3 49 624-673 24-72 (442)
187 TIGR00570 cdk7 CDK-activating 97.0 0.00075 1.6E-08 71.3 4.3 52 623-674 3-59 (309)
188 smart00184 RING Ring finger. E 96.9 0.00078 1.7E-08 48.2 3.1 39 626-664 1-39 (39)
189 KOG0924 mRNA splicing factor A 96.9 0.053 1.1E-06 62.3 18.5 105 738-848 597-721 (1042)
190 PF13086 AAA_11: AAA domain; P 96.9 0.0075 1.6E-07 62.6 11.5 57 395-462 170-229 (236)
191 KOG4172 Predicted E3 ubiquitin 96.9 0.00025 5.4E-09 53.1 0.1 47 623-669 7-54 (62)
192 KOG0920 ATP-dependent RNA heli 96.9 0.089 1.9E-06 64.0 21.1 126 698-830 397-547 (924)
193 KOG0926 DEAH-box RNA helicase 96.8 0.036 7.8E-07 64.7 16.7 66 757-826 620-703 (1172)
194 KOG1133 Helicase of the DEAD s 96.7 0.044 9.5E-07 63.3 15.8 102 695-798 611-721 (821)
195 PF13445 zf-RING_UBOX: RING-ty 96.6 0.0011 2.3E-08 48.8 1.7 36 626-662 1-43 (43)
196 PF02562 PhoH: PhoH-like prote 96.5 0.011 2.3E-07 59.9 8.7 60 394-464 101-160 (205)
197 TIGR00604 rad3 DNA repair heli 96.4 0.011 2.4E-07 72.1 10.1 120 698-819 507-668 (705)
198 KOG0824 Predicted E3 ubiquitin 96.4 0.0017 3.7E-08 67.0 2.2 53 622-674 6-58 (324)
199 PRK10536 hypothetical protein; 96.3 0.015 3.3E-07 60.5 8.5 58 396-464 160-217 (262)
200 COG5540 RING-finger-containing 96.2 0.0028 6.1E-08 65.2 2.7 50 620-669 320-372 (374)
201 TIGR02562 cas3_yersinia CRISPR 96.2 2.4 5.2E-05 52.6 27.6 47 768-817 838-884 (1110)
202 KOG0311 Predicted E3 ubiquitin 96.2 0.00087 1.9E-08 70.6 -1.0 48 622-669 42-90 (381)
203 KOG0923 mRNA splicing factor A 96.0 0.4 8.7E-06 55.3 18.4 77 741-826 509-605 (902)
204 KOG1802 RNA helicase nonsense 96.0 0.018 3.9E-07 65.7 7.7 41 200-273 410-450 (935)
205 KOG4265 Predicted E3 ubiquitin 95.9 0.0043 9.2E-08 66.1 2.4 50 620-670 287-337 (349)
206 PF12678 zf-rbx1: RING-H2 zinc 95.8 0.0078 1.7E-07 50.3 2.9 43 622-665 18-73 (73)
207 PRK07246 bifunctional ATP-depe 95.7 0.051 1.1E-06 67.2 11.0 112 698-818 633-776 (820)
208 COG3587 Restriction endonuclea 95.7 0.029 6.3E-07 66.1 8.0 110 349-459 104-242 (985)
209 COG0653 SecA Preprotein transl 95.6 0.88 1.9E-05 54.9 20.1 114 692-813 409-533 (822)
210 PF07517 SecA_DEAD: SecA DEAD- 95.6 0.043 9.3E-07 58.0 8.5 81 350-433 119-209 (266)
211 PRK08074 bifunctional ATP-depe 95.4 0.086 1.9E-06 66.3 11.5 116 698-818 737-886 (928)
212 KOG1803 DNA helicase [Replicat 95.3 0.052 1.1E-06 62.0 8.2 57 394-461 337-393 (649)
213 PF13307 Helicase_C_2: Helicas 95.3 0.062 1.4E-06 53.0 8.0 98 714-819 9-144 (167)
214 COG0553 HepA Superfamily II DN 95.2 0.004 8.7E-08 78.4 -1.0 93 697-815 432-524 (866)
215 KOG2177 Predicted E3 ubiquitin 95.0 0.01 2.3E-07 65.0 1.6 44 621-665 11-54 (386)
216 PF13604 AAA_30: AAA domain; P 94.9 0.056 1.2E-06 54.9 6.5 39 422-462 94-133 (196)
217 KOG1785 Tyrosine kinase negati 94.8 0.011 2.5E-07 62.8 1.2 50 625-674 371-421 (563)
218 PRK08074 bifunctional ATP-depe 94.8 0.21 4.6E-06 62.8 12.5 42 392-435 428-469 (928)
219 KOG4159 Predicted E3 ubiquitin 94.7 0.015 3.2E-07 64.4 2.0 49 621-670 82-130 (398)
220 TIGR00376 DNA helicase, putati 94.5 0.24 5.1E-06 59.6 11.5 63 699-775 511-574 (637)
221 KOG4628 Predicted E3 ubiquitin 94.5 0.027 5.8E-07 60.8 3.0 50 624-673 230-282 (348)
222 KOG2660 Locus-specific chromos 94.4 0.015 3.2E-07 61.3 1.0 51 620-671 12-63 (331)
223 KOG4692 Predicted E3 ubiquitin 94.4 0.025 5.4E-07 59.4 2.5 51 619-670 418-468 (489)
224 PF09848 DUF2075: Uncharacteri 94.4 0.091 2E-06 58.6 7.2 19 254-272 7-25 (352)
225 COG1199 DinG Rad3-related DNA 94.2 0.35 7.7E-06 58.8 12.4 116 698-820 464-612 (654)
226 KOG2879 Predicted E3 ubiquitin 94.1 0.041 8.8E-07 56.4 3.2 49 621-669 237-287 (298)
227 PF11789 zf-Nse: Zinc-finger o 94.1 0.029 6.4E-07 44.2 1.8 42 622-663 10-53 (57)
228 COG5222 Uncharacterized conser 94.0 0.027 5.9E-07 57.7 1.7 43 624-666 275-318 (427)
229 KOG1132 Helicase of the DEAD s 93.9 0.47 1E-05 56.7 11.8 85 714-799 561-658 (945)
230 PF13401 AAA_22: AAA domain; P 93.9 0.033 7.1E-07 52.2 2.1 35 423-459 89-125 (131)
231 PF12861 zf-Apc11: Anaphase-pr 93.8 0.067 1.5E-06 45.3 3.4 33 637-669 48-82 (85)
232 KOG0828 Predicted E3 ubiquitin 93.6 0.034 7.3E-07 61.1 1.8 47 623-669 571-634 (636)
233 KOG0952 DNA/RNA helicase MER3/ 93.1 0.13 2.9E-06 62.0 5.8 89 348-436 972-1061(1230)
234 COG5243 HRD1 HRD ubiquitin lig 93.1 0.077 1.7E-06 56.3 3.3 49 620-669 284-345 (491)
235 PF06733 DEAD_2: DEAD_2; Inte 92.9 0.048 1E-06 54.2 1.6 44 392-435 116-159 (174)
236 TIGR01447 recD exodeoxyribonuc 92.5 0.52 1.1E-05 55.9 9.6 43 420-464 258-300 (586)
237 KOG0802 E3 ubiquitin ligase [P 92.1 0.073 1.6E-06 62.8 2.0 52 621-673 289-345 (543)
238 smart00492 HELICc3 helicase su 91.9 1 2.2E-05 43.0 9.1 67 727-797 4-79 (141)
239 TIGR00604 rad3 DNA repair heli 91.8 1 2.2E-05 55.3 11.3 45 200-273 10-54 (705)
240 KOG1131 RNA polymerase II tran 91.6 0.21 4.5E-06 56.0 4.5 27 249-275 36-62 (755)
241 COG5152 Uncharacterized conser 91.5 0.069 1.5E-06 51.7 0.7 46 622-668 195-240 (259)
242 KOG1813 Predicted E3 ubiquitin 91.5 0.079 1.7E-06 55.0 1.1 46 623-669 241-286 (313)
243 PRK07246 bifunctional ATP-depe 91.2 1.8 4E-05 53.7 12.8 39 393-434 411-449 (820)
244 KOG0297 TNF receptor-associate 91.2 0.13 2.8E-06 57.9 2.5 53 622-675 20-73 (391)
245 TIGR01448 recD_rel helicase, p 91.1 0.6 1.3E-05 57.0 8.4 42 420-463 415-456 (720)
246 KOG4150 Predicted ATP-dependen 90.7 0.72 1.6E-05 52.2 7.6 116 694-815 507-630 (1034)
247 smart00491 HELICc2 helicase su 90.6 1.2 2.7E-05 42.5 8.3 69 727-797 4-80 (142)
248 PF14570 zf-RING_4: RING/Ubox 90.5 0.21 4.6E-06 37.5 2.3 43 626-668 1-47 (48)
249 KOG3039 Uncharacterized conser 90.4 0.27 5.9E-06 49.5 3.7 61 621-682 219-283 (303)
250 KOG1805 DNA replication helica 90.3 0.93 2E-05 54.8 8.5 39 418-461 793-831 (1100)
251 PF12340 DUF3638: Protein of u 90.3 1.7 3.7E-05 44.7 9.4 108 199-409 22-144 (229)
252 PRK04296 thymidine kinase; Pro 90.2 0.44 9.5E-06 48.1 5.1 22 252-273 6-27 (190)
253 TIGR02881 spore_V_K stage V sp 90.0 2.7 5.9E-05 44.6 11.4 24 249-272 43-66 (261)
254 PRK11747 dinG ATP-dependent DN 89.7 2.5 5.5E-05 51.6 12.1 94 697-797 519-616 (697)
255 PRK10875 recD exonuclease V su 89.2 0.92 2E-05 54.1 7.5 44 420-465 264-307 (615)
256 KOG4739 Uncharacterized protei 89.2 0.15 3.3E-06 51.8 0.9 45 625-672 5-51 (233)
257 PLN03025 replication factor C 89.0 6.6 0.00014 43.1 13.8 60 421-483 99-162 (319)
258 COG5175 MOT2 Transcriptional r 88.9 0.25 5.4E-06 51.8 2.2 53 621-673 12-68 (480)
259 PF06862 DUF1253: Protein of u 87.9 9.2 0.0002 43.5 13.9 145 694-841 279-431 (442)
260 KOG0298 DEAD box-containing he 87.6 0.24 5.3E-06 61.1 1.3 80 194-274 239-331 (1394)
261 PF04641 Rtf2: Rtf2 RING-finge 87.6 0.57 1.2E-05 49.8 4.0 58 621-680 111-172 (260)
262 PF14447 Prok-RING_4: Prokaryo 87.4 0.32 6.9E-06 37.5 1.4 46 624-672 8-53 (55)
263 KOG1039 Predicted E3 ubiquitin 87.4 0.33 7.2E-06 52.8 2.1 51 619-669 157-221 (344)
264 PRK11747 dinG ATP-dependent DN 87.2 0.41 8.8E-06 58.4 3.0 44 392-435 216-260 (697)
265 KOG1571 Predicted E3 ubiquitin 87.0 0.24 5.2E-06 53.2 0.7 43 623-669 305-347 (355)
266 PHA02533 17 large terminase pr 86.4 5.1 0.00011 47.1 11.3 42 417-459 165-209 (534)
267 TIGR03420 DnaA_homol_Hda DnaA 86.2 4 8.7E-05 42.1 9.5 24 249-272 39-62 (226)
268 KOG0951 RNA helicase BRR2, DEA 85.5 1.7 3.7E-05 54.0 6.8 79 349-437 1186-1269(1674)
269 PF05876 Terminase_GpA: Phage 84.6 2.4 5.2E-05 50.2 7.6 167 194-471 10-191 (557)
270 KOG4275 Predicted E3 ubiquitin 83.7 0.19 4.1E-06 51.9 -1.8 40 624-668 301-341 (350)
271 KOG3800 Predicted E3 ubiquitin 82.0 0.99 2.2E-05 47.0 2.6 49 625-673 2-55 (300)
272 COG1875 NYN ribonuclease and A 81.5 2 4.3E-05 46.8 4.7 38 422-461 352-389 (436)
273 COG5219 Uncharacterized conser 81.0 0.73 1.6E-05 54.9 1.4 49 621-669 1467-1523(1525)
274 PRK07003 DNA polymerase III su 81.0 8.1 0.00017 46.8 9.9 61 420-482 118-181 (830)
275 COG3421 Uncharacterized protei 80.7 1 2.3E-05 51.6 2.4 21 255-275 4-24 (812)
276 KOG1493 Anaphase-promoting com 80.1 0.7 1.5E-05 37.8 0.6 44 626-669 34-81 (84)
277 PRK14960 DNA polymerase III su 79.9 19 0.0004 43.2 12.3 59 421-482 118-180 (702)
278 KOG0804 Cytoplasmic Zn-finger 79.8 0.86 1.9E-05 50.2 1.4 46 621-669 173-222 (493)
279 CHL00181 cbbX CbbX; Provisiona 77.1 7.5 0.00016 41.9 7.6 23 250-272 61-83 (287)
280 TIGR03117 cas_csf4 CRISPR-asso 76.5 19 0.00041 43.2 11.3 41 393-435 180-220 (636)
281 TIGR02880 cbbX_cfxQ probable R 76.3 12 0.00025 40.4 8.8 25 249-273 59-83 (284)
282 TIGR02768 TraA_Ti Ti-type conj 75.9 8.3 0.00018 47.5 8.4 40 421-462 439-479 (744)
283 PRK12723 flagellar biosynthesi 75.9 8.9 0.00019 43.2 7.9 56 421-476 254-314 (388)
284 COG5220 TFB3 Cdk activating ki 75.3 1.1 2.3E-05 45.1 0.4 53 621-673 8-68 (314)
285 KOG0991 Replication factor C, 74.9 3.6 7.9E-05 41.9 4.0 25 249-273 49-73 (333)
286 KOG1645 RING-finger-containing 74.6 1.4 2.9E-05 48.1 1.1 51 624-674 5-61 (463)
287 PRK04132 replication factor C 74.5 15 0.00032 45.5 9.9 60 421-483 630-693 (846)
288 KOG4185 Predicted E3 ubiquitin 74.4 2 4.4E-05 46.5 2.4 45 624-668 4-54 (296)
289 smart00382 AAA ATPases associa 74.3 6 0.00013 36.4 5.4 24 250-273 4-27 (148)
290 KOG2817 Predicted E3 ubiquitin 74.0 2.2 4.8E-05 46.6 2.5 51 622-672 333-388 (394)
291 PF05290 Baculo_IE-1: Baculovi 73.8 2.7 5.9E-05 38.6 2.6 53 619-671 76-134 (140)
292 COG5236 Uncharacterized conser 73.6 6.9 0.00015 41.6 5.8 50 621-670 59-109 (493)
293 PRK12323 DNA polymerase III su 73.5 34 0.00074 41.0 12.1 61 420-482 123-186 (700)
294 cd00009 AAA The AAA+ (ATPases 73.5 8.8 0.00019 35.6 6.4 24 249-272 20-43 (151)
295 smart00744 RINGv The RING-vari 72.7 3.8 8.2E-05 31.2 2.8 41 625-665 1-49 (49)
296 KOG4445 Uncharacterized conser 72.6 1.7 3.8E-05 45.2 1.2 48 623-670 115-187 (368)
297 PRK00440 rfc replication facto 72.6 37 0.00079 36.9 11.9 60 421-480 102-162 (319)
298 COG5194 APC11 Component of SCF 72.3 4.2 9.1E-05 33.8 3.1 46 623-669 31-81 (88)
299 PRK14949 DNA polymerase III su 71.9 22 0.00048 44.0 10.4 22 252-273 42-63 (944)
300 KOG1814 Predicted E3 ubiquitin 71.8 1.9 4E-05 47.2 1.3 44 622-665 183-236 (445)
301 KOG0825 PHD Zn-finger protein 71.7 0.92 2E-05 53.0 -1.1 49 624-673 124-175 (1134)
302 PRK05580 primosome assembly pr 70.5 33 0.00072 41.9 11.7 96 692-794 170-266 (679)
303 PRK13889 conjugal transfer rel 70.4 9.3 0.0002 48.2 7.0 49 422-472 434-483 (988)
304 PRK08769 DNA polymerase III su 70.3 30 0.00066 37.8 10.3 51 198-274 2-52 (319)
305 PRK06893 DNA replication initi 70.0 33 0.00073 35.5 10.2 22 251-272 42-63 (229)
306 PRK14958 DNA polymerase III su 69.9 84 0.0018 36.9 14.4 60 421-482 119-181 (509)
307 KOG1734 Predicted RING-contain 69.7 1.8 3.8E-05 44.5 0.5 58 621-678 222-290 (328)
308 PRK14956 DNA polymerase III su 68.2 49 0.0011 38.3 11.7 23 251-273 43-65 (484)
309 PRK14087 dnaA chromosomal repl 68.2 21 0.00045 41.3 8.9 22 250-271 143-164 (450)
310 PRK07764 DNA polymerase III su 68.0 43 0.00094 41.7 12.0 23 251-273 40-62 (824)
311 TIGR00595 priA primosomal prot 67.5 38 0.00083 39.7 11.0 96 692-794 5-101 (505)
312 PF13245 AAA_19: Part of AAA d 67.1 11 0.00025 31.6 4.8 23 251-273 13-35 (76)
313 PRK10917 ATP-dependent DNA hel 67.0 33 0.00071 42.0 10.8 95 692-791 290-388 (681)
314 TIGR00365 monothiol glutaredox 66.8 39 0.00084 29.8 8.5 58 714-773 11-74 (97)
315 PRK12402 replication factor C 66.3 7.2 0.00016 43.0 4.6 24 250-273 38-61 (337)
316 KOG3039 Uncharacterized conser 66.2 3.4 7.4E-05 41.9 1.7 33 625-657 45-77 (303)
317 PRK13826 Dtr system oriT relax 66.1 19 0.00042 45.8 8.6 49 423-473 470-519 (1102)
318 PRK05703 flhF flagellar biosyn 65.9 20 0.00043 41.1 8.0 55 421-476 299-359 (424)
319 PRK08084 DNA replication initi 65.9 21 0.00044 37.3 7.6 22 250-271 47-68 (235)
320 PF11793 FANCL_C: FANCL C-term 65.4 2 4.4E-05 35.5 -0.0 47 623-669 2-66 (70)
321 PRK00149 dnaA chromosomal repl 64.9 14 0.00029 42.8 6.7 24 250-273 150-173 (450)
322 KOG0826 Predicted E3 ubiquitin 64.9 4.5 9.8E-05 43.0 2.4 48 621-669 298-346 (357)
323 KOG0827 Predicted E3 ubiquitin 64.8 3.5 7.6E-05 44.7 1.6 46 623-668 4-55 (465)
324 KOG3002 Zn finger protein [Gen 64.0 4.6 0.0001 43.4 2.4 46 621-670 46-92 (299)
325 COG4098 comFA Superfamily II D 63.9 17 0.00038 39.3 6.4 130 622-753 38-185 (441)
326 KOG2932 E3 ubiquitin ligase in 63.6 3.4 7.3E-05 43.3 1.2 42 625-669 92-134 (389)
327 PRK14961 DNA polymerase III su 63.0 38 0.00082 37.9 9.6 23 251-273 41-63 (363)
328 PRK09112 DNA polymerase III su 62.7 16 0.00034 40.7 6.3 25 250-274 47-71 (351)
329 PF07800 DUF1644: Protein of u 62.3 7 0.00015 37.3 2.9 21 622-642 1-21 (162)
330 TIGR00362 DnaA chromosomal rep 61.8 26 0.00056 39.8 8.1 24 250-273 138-161 (405)
331 CHL00095 clpC Clp protease ATP 60.4 21 0.00045 44.7 7.5 25 249-273 201-225 (821)
332 TIGR00643 recG ATP-dependent D 60.2 47 0.001 40.2 10.3 94 692-790 264-361 (630)
333 PRK14955 DNA polymerase III su 60.0 91 0.002 35.3 12.1 24 250-273 40-63 (397)
334 PRK08116 hypothetical protein; 59.7 26 0.00057 37.3 7.2 25 249-273 115-139 (268)
335 PHA02544 44 clamp loader, smal 59.7 65 0.0014 35.0 10.6 22 250-271 44-66 (316)
336 PRK06526 transposase; Provisio 59.6 20 0.00043 37.9 6.2 25 249-273 99-123 (254)
337 PRK08727 hypothetical protein; 59.6 34 0.00073 35.6 7.9 22 251-272 44-65 (233)
338 PRK08691 DNA polymerase III su 59.5 1.1E+02 0.0024 37.1 12.8 59 421-481 119-180 (709)
339 COG0353 RecR Recombinational D 59.1 90 0.002 31.2 10.0 52 694-749 120-175 (198)
340 PRK14963 DNA polymerase III su 58.9 92 0.002 36.5 12.0 22 252-273 40-61 (504)
341 TIGR00615 recR recombination p 58.8 88 0.0019 31.5 10.1 51 694-749 119-174 (195)
342 cd03028 GRX_PICOT_like Glutare 58.8 46 0.001 28.8 7.4 57 714-772 7-69 (90)
343 PRK07471 DNA polymerase III su 58.7 71 0.0015 35.8 10.6 25 250-274 43-67 (365)
344 PRK14962 DNA polymerase III su 57.8 47 0.001 38.6 9.3 23 251-273 39-61 (472)
345 KOG4367 Predicted Zn-finger pr 56.9 5.4 0.00012 43.6 1.3 34 622-655 3-36 (699)
346 PRK06921 hypothetical protein; 56.4 42 0.00091 35.8 8.0 25 249-273 118-142 (266)
347 PF13177 DNA_pol3_delta2: DNA 56.0 1.1E+02 0.0023 29.9 10.3 25 251-275 22-46 (162)
348 PRK14974 cell division protein 55.0 31 0.00067 38.1 6.9 23 251-273 143-165 (336)
349 PRK05642 DNA replication initi 54.9 43 0.00093 34.9 7.7 36 423-458 99-138 (234)
350 PRK14959 DNA polymerase III su 54.7 52 0.0011 39.4 9.0 24 250-273 40-63 (624)
351 KOG3970 Predicted E3 ubiquitin 54.5 36 0.00078 34.2 6.4 60 611-670 37-106 (299)
352 TIGR03345 VI_ClpV1 type VI sec 54.0 48 0.001 41.6 9.1 24 249-272 209-232 (852)
353 cd03418 GRX_GRXb_1_3_like Glut 53.3 68 0.0015 26.1 7.3 56 716-772 1-57 (75)
354 cd01121 Sms Sms (bacterial rad 53.3 40 0.00086 37.8 7.5 21 252-272 86-106 (372)
355 PRK14964 DNA polymerase III su 52.8 1.3E+02 0.0029 34.9 11.9 25 249-273 36-60 (491)
356 PRK09111 DNA polymerase III su 52.3 1E+02 0.0023 36.9 11.2 25 249-273 47-71 (598)
357 PRK13342 recombination factor 51.3 53 0.0012 37.4 8.4 22 250-271 38-59 (413)
358 PRK06645 DNA polymerase III su 50.9 1.4E+02 0.003 35.1 11.7 25 249-273 44-68 (507)
359 PF14569 zf-UDP: Zinc-binding 50.7 13 0.00029 30.9 2.3 51 620-670 6-63 (80)
360 PRK10824 glutaredoxin-4; Provi 50.1 1.1E+02 0.0023 28.1 8.4 65 714-780 14-84 (115)
361 PRK10689 transcription-repair 50.1 3.5E+02 0.0077 35.3 16.1 91 693-788 630-724 (1147)
362 KOG2114 Vacuolar assembly/sort 49.4 8.9 0.00019 46.0 1.6 41 624-668 841-882 (933)
363 TIGR02760 TraI_TIGR conjugativ 49.3 40 0.00087 46.2 7.9 38 422-462 1113-1152(1960)
364 PRK13844 recombination protein 49.0 1.2E+02 0.0026 30.6 9.3 51 694-749 123-177 (200)
365 PRK00076 recR recombination pr 48.9 1.4E+02 0.0031 30.1 9.8 49 695-749 120-173 (196)
366 PRK08181 transposase; Validate 48.8 61 0.0013 34.6 7.8 24 249-272 107-130 (269)
367 PRK11054 helD DNA helicase IV; 48.3 20 0.00044 43.6 4.5 22 251-273 213-234 (684)
368 KOG1941 Acetylcholine receptor 48.2 7.7 0.00017 42.1 0.8 60 621-680 363-430 (518)
369 PRK13341 recombination factor 48.2 74 0.0016 39.0 9.3 22 250-271 54-75 (725)
370 PRK12422 chromosomal replicati 47.6 61 0.0013 37.4 8.0 25 249-273 142-166 (445)
371 TIGR00580 mfd transcription-re 47.3 1E+02 0.0022 39.1 10.4 96 692-792 480-579 (926)
372 KOG0740 AAA+-type ATPase [Post 46.8 42 0.0009 38.0 6.3 26 247-272 185-210 (428)
373 PRK05896 DNA polymerase III su 46.8 3.2E+02 0.007 32.7 13.8 24 250-273 40-63 (605)
374 KOG2034 Vacuolar sorting prote 46.7 25 0.00055 42.6 4.8 32 623-654 817-850 (911)
375 PRK14952 DNA polymerase III su 46.6 1.1E+02 0.0024 36.5 10.2 23 251-273 38-60 (584)
376 COG1199 DinG Rad3-related DNA 46.3 38 0.00082 41.3 6.5 42 394-435 193-234 (654)
377 cd01120 RecA-like_NTPases RecA 45.8 1.7E+02 0.0037 27.4 10.0 21 253-273 4-24 (165)
378 PHA03368 DNA packaging termina 45.8 55 0.0012 39.1 7.2 42 415-458 346-389 (738)
379 KOG1428 Inhibitor of type V ad 44.7 18 0.00039 45.7 3.2 51 620-670 3483-3545(3738)
380 PF13173 AAA_14: AAA domain 44.1 19 0.00042 33.3 2.8 37 422-462 62-101 (128)
381 TIGR02760 TraI_TIGR conjugativ 43.8 1.8E+02 0.0039 40.3 12.6 48 422-472 530-579 (1960)
382 KOG0737 AAA+-type ATPase [Post 43.6 48 0.001 36.5 5.9 25 247-271 126-150 (386)
383 PRK06647 DNA polymerase III su 43.4 1.6E+02 0.0034 35.2 10.8 23 251-273 41-63 (563)
384 PF13607 Succ_CoA_lig: Succiny 43.4 1.2E+02 0.0027 28.6 8.1 86 716-824 3-90 (138)
385 PRK14873 primosome assembly pr 43.3 1.1E+02 0.0025 37.1 9.7 76 694-774 170-247 (665)
386 PHA03096 p28-like protein; Pro 42.7 13 0.00028 39.8 1.5 43 624-666 179-231 (284)
387 PRK14722 flhF flagellar biosyn 42.5 56 0.0012 36.6 6.5 21 252-272 141-161 (374)
388 KOG1807 Helicases [Replication 42.1 53 0.0012 39.4 6.3 47 698-746 857-906 (1025)
389 PRK14088 dnaA chromosomal repl 42.0 54 0.0012 37.7 6.6 24 250-273 132-155 (440)
390 PF05621 TniB: Bacterial TniB 41.8 23 0.0005 38.1 3.2 43 417-459 141-189 (302)
391 cd05566 PTS_IIB_galactitol PTS 41.7 38 0.00082 29.1 4.1 56 351-406 2-59 (89)
392 PRK13709 conjugal transfer nic 41.5 76 0.0017 42.7 8.4 41 422-464 1063-1104(1747)
393 COG1435 Tdk Thymidine kinase [ 41.1 75 0.0016 32.0 6.4 34 422-458 83-118 (201)
394 PRK12377 putative replication 40.9 51 0.0011 34.7 5.6 25 249-273 102-126 (248)
395 PRK14971 DNA polymerase III su 40.7 3.7E+02 0.0081 32.4 13.5 61 421-483 121-184 (614)
396 PHA00673 acetyltransferase dom 40.5 35 0.00076 33.0 3.9 45 421-465 87-134 (154)
397 KOG1100 Predicted E3 ubiquitin 40.4 14 0.0003 37.6 1.3 40 626-670 161-201 (207)
398 COG0626 MetC Cystathionine bet 40.2 94 0.002 35.1 7.8 91 694-813 84-175 (396)
399 PRK14086 dnaA chromosomal repl 40.0 59 0.0013 38.8 6.4 37 422-458 378-418 (617)
400 PF03354 Terminase_1: Phage Te 39.9 75 0.0016 37.0 7.4 51 694-746 349-402 (477)
401 PF10272 Tmpp129: Putative tra 39.8 22 0.00048 39.2 2.8 30 641-670 311-352 (358)
402 COG1702 PhoH Phosphate starvat 39.2 18 0.00038 39.4 1.9 40 422-463 244-283 (348)
403 KOG0953 Mitochondrial RNA heli 39.2 50 0.0011 38.2 5.4 85 353-450 219-306 (700)
404 COG1110 Reverse gyrase [DNA re 38.9 1.7E+02 0.0036 36.8 9.9 63 714-779 125-193 (1187)
405 KOG3113 Uncharacterized conser 38.1 27 0.00058 35.9 2.8 56 622-680 110-169 (293)
406 PRK07940 DNA polymerase III su 38.0 46 0.00099 37.7 5.0 25 249-273 37-61 (394)
407 COG4626 Phage terminase-like p 37.9 1.3E+02 0.0028 35.2 8.5 56 195-273 56-111 (546)
408 cd01524 RHOD_Pyr_redox Member 37.8 49 0.0011 28.3 4.2 38 712-749 49-86 (90)
409 PRK11034 clpA ATP-dependent Cl 37.8 83 0.0018 38.9 7.5 24 249-272 208-231 (758)
410 PF01443 Viral_helicase1: Vira 37.7 54 0.0012 33.7 5.3 42 421-465 62-103 (234)
411 KOG4175 Tryptophan synthase al 37.7 2.6E+02 0.0057 28.1 9.3 107 696-820 77-212 (268)
412 PRK11889 flhF flagellar biosyn 37.6 95 0.0021 35.1 7.2 22 252-273 245-266 (436)
413 COG1198 PriA Primosomal protei 37.6 98 0.0021 37.8 7.9 78 692-774 225-303 (730)
414 cd05568 PTS_IIB_bgl_like PTS_I 37.4 56 0.0012 27.5 4.4 53 351-405 2-56 (85)
415 KOG4362 Transcriptional regula 37.4 8.7 0.00019 45.5 -0.8 52 622-673 20-73 (684)
416 PRK10865 protein disaggregatio 37.2 1.1E+02 0.0024 38.6 8.6 25 249-273 200-224 (857)
417 PF00580 UvrD-helicase: UvrD/R 37.2 36 0.00078 36.6 4.0 20 254-273 19-38 (315)
418 cd01520 RHOD_YbbB Member of th 36.9 73 0.0016 29.5 5.5 54 696-750 69-123 (128)
419 PRK14712 conjugal transfer nic 36.8 86 0.0019 41.8 7.7 51 422-474 931-982 (1623)
420 cd01518 RHOD_YceA Member of th 36.6 72 0.0016 27.9 5.2 38 712-749 59-97 (101)
421 PRK14965 DNA polymerase III su 36.6 3.6E+02 0.0079 32.2 12.5 23 251-273 41-63 (576)
422 KOG1812 Predicted E3 ubiquitin 36.5 19 0.00042 40.5 1.7 50 622-671 145-205 (384)
423 cd01129 PulE-GspE PulE/GspE Th 36.4 43 0.00093 35.6 4.3 43 200-273 63-105 (264)
424 PRK14948 DNA polymerase III su 35.6 3.6E+02 0.0078 32.6 12.3 24 250-273 40-63 (620)
425 TIGR01243 CDC48 AAA family ATP 35.5 91 0.002 38.5 7.6 24 248-271 487-510 (733)
426 COG0159 TrpA Tryptophan syntha 35.4 4.4E+02 0.0095 28.0 11.3 105 695-818 75-208 (265)
427 cd03031 GRX_GRX_like Glutaredo 35.3 1.6E+02 0.0035 28.2 7.6 59 716-774 1-68 (147)
428 cd01124 KaiC KaiC is a circadi 34.9 49 0.0011 32.6 4.3 22 252-273 3-24 (187)
429 PF02302 PTS_IIB: PTS system, 34.8 35 0.00076 29.2 2.8 56 352-407 2-59 (90)
430 PF00290 Trp_syntA: Tryptophan 33.9 3.5E+02 0.0075 28.7 10.4 35 695-729 68-102 (259)
431 PRK07133 DNA polymerase III su 33.6 3.9E+02 0.0084 32.8 12.0 24 250-273 42-65 (725)
432 COG0464 SpoVK ATPases of the A 33.3 38 0.00081 39.7 3.6 52 199-271 248-299 (494)
433 PHA03372 DNA packaging termina 33.2 94 0.002 36.8 6.5 22 415-436 293-314 (668)
434 PRK06835 DNA replication prote 33.1 1.4E+02 0.003 33.0 7.6 25 249-273 184-208 (329)
435 KOG3579 Predicted E3 ubiquitin 32.9 21 0.00046 37.2 1.2 35 623-657 268-306 (352)
436 PHA03333 putative ATPase subun 32.9 1.3E+02 0.0028 36.3 7.6 41 417-460 290-332 (752)
437 cd03027 GRX_DEP Glutaredoxin ( 32.7 2.3E+02 0.0051 22.9 7.4 45 716-760 2-47 (73)
438 PRK04195 replication factor C 32.3 1.9E+02 0.0041 33.7 9.2 38 421-458 98-138 (482)
439 PTZ00062 glutaredoxin; Provisi 31.7 2.7E+02 0.0058 28.4 8.9 68 701-773 102-175 (204)
440 PRK14954 DNA polymerase III su 31.5 2.6E+02 0.0056 33.7 10.1 24 250-273 40-63 (620)
441 PF10593 Z1: Z1 domain; Inter 31.5 1.1E+02 0.0025 31.9 6.4 117 721-846 94-211 (239)
442 cd01523 RHOD_Lact_B Member of 31.4 64 0.0014 28.2 3.9 38 712-749 59-96 (100)
443 PF00448 SRP54: SRP54-type pro 31.2 97 0.0021 31.3 5.7 22 252-273 5-26 (196)
444 TIGR03877 thermo_KaiC_1 KaiC d 31.0 59 0.0013 33.9 4.2 23 251-273 24-46 (237)
445 COG1205 Distinct helicase fami 30.9 1.8E+02 0.0039 36.6 8.9 81 692-779 93-179 (851)
446 smart00450 RHOD Rhodanese Homo 30.8 1E+02 0.0022 26.2 5.1 39 711-749 53-92 (100)
447 cd05567 PTS_IIB_mannitol PTS_I 30.7 67 0.0014 27.6 3.8 54 351-407 2-57 (87)
448 KOG0738 AAA+-type ATPase [Post 30.5 48 0.001 36.8 3.4 22 249-270 246-267 (491)
449 TIGR03346 chaperone_ClpB ATP-d 30.1 1.3E+02 0.0027 38.1 7.6 24 249-272 195-218 (852)
450 PRK14950 DNA polymerase III su 29.9 2.4E+02 0.0052 33.9 9.6 22 252-273 42-63 (585)
451 cd05563 PTS_IIB_ascorbate PTS_ 29.7 97 0.0021 26.3 4.7 51 352-404 2-54 (86)
452 COG2247 LytB Putative cell wal 29.5 1.9E+02 0.0041 31.3 7.5 61 714-774 76-139 (337)
453 PRK04328 hypothetical protein; 29.3 79 0.0017 33.3 4.8 22 252-273 27-48 (249)
454 TIGR00614 recQ_fam ATP-depende 29.3 3.1E+02 0.0067 31.8 10.2 79 692-779 34-113 (470)
455 TIGR02639 ClpA ATP-dependent C 28.8 1.2E+02 0.0027 37.4 7.1 25 249-273 204-228 (731)
456 PRK06450 threonine synthase; V 28.7 4.3E+02 0.0094 29.2 10.7 102 691-801 75-176 (338)
457 PF10367 Vps39_2: Vacuolar sor 28.6 28 0.0006 31.1 1.1 31 621-651 76-108 (109)
458 cd00046 DEXDc DEAD-like helica 28.1 4E+02 0.0086 23.7 9.1 84 692-782 8-94 (144)
459 PRK11823 DNA repair protein Ra 27.9 1.6E+02 0.0035 34.0 7.4 21 252-272 84-104 (446)
460 cd00133 PTS_IIB PTS_IIB: subun 27.5 1.2E+02 0.0026 24.9 4.9 53 352-405 2-56 (84)
461 PLN02189 cellulose synthase 27.3 47 0.001 41.6 3.0 51 620-670 31-88 (1040)
462 PRK13556 azoreductase; Provisi 27.2 45 0.00098 33.9 2.5 30 784-813 87-119 (208)
463 PLN02400 cellulose synthase 27.2 54 0.0012 41.2 3.5 51 620-670 33-90 (1085)
464 PLN02638 cellulose synthase A 26.8 49 0.0011 41.6 3.0 50 621-670 15-71 (1079)
465 cd01528 RHOD_2 Member of the R 26.4 1.6E+02 0.0035 25.7 5.7 38 713-750 57-95 (101)
466 PRK06305 DNA polymerase III su 26.4 5.2E+02 0.011 29.9 11.2 23 251-273 42-64 (451)
467 PF02891 zf-MIZ: MIZ/SP-RING z 26.3 64 0.0014 24.6 2.5 44 624-667 3-50 (50)
468 COG0552 FtsY Signal recognitio 26.3 1.2E+02 0.0026 33.2 5.4 21 253-273 144-164 (340)
469 COG1222 RPT1 ATP-dependent 26S 26.3 50 0.0011 36.3 2.6 27 247-273 184-210 (406)
470 cd03030 GRX_SH3BGR Glutaredoxi 26.3 2.8E+02 0.0061 24.2 6.9 53 727-779 19-73 (92)
471 COG5109 Uncharacterized conser 26.2 37 0.00081 36.0 1.6 48 622-669 335-387 (396)
472 TIGR01073 pcrA ATP-dependent D 26.1 7.5E+02 0.016 30.5 13.3 40 420-462 208-248 (726)
473 COG4646 DNA methylase [Transcr 26.0 36 0.00078 38.2 1.5 31 449-479 473-503 (637)
474 COG0470 HolB ATPase involved i 25.9 2E+02 0.0043 31.1 7.6 24 251-274 27-50 (325)
475 KOG3259 Peptidyl-prolyl cis-tr 25.9 35 0.00075 32.1 1.2 29 220-248 6-40 (163)
476 cd01534 4RHOD_Repeat_3 Member 25.8 92 0.002 26.9 3.9 36 714-749 56-91 (95)
477 COG3972 Superfamily I DNA and 25.7 4.8E+02 0.01 30.3 10.0 82 695-782 454-552 (660)
478 PLN02436 cellulose synthase A 25.6 53 0.0011 41.3 3.0 51 620-670 33-90 (1094)
479 PF04055 Radical_SAM: Radical 25.5 2.6E+02 0.0056 26.2 7.5 128 695-836 27-162 (166)
480 TIGR01075 uvrD DNA helicase II 25.4 7.6E+02 0.016 30.4 13.1 39 420-461 207-246 (715)
481 PF00462 Glutaredoxin: Glutare 25.0 3.2E+02 0.007 21.0 7.6 54 717-772 1-55 (60)
482 PRK14701 reverse gyrase; Provi 24.4 3.5E+02 0.0076 36.7 10.3 80 692-776 102-187 (1638)
483 cd01529 4RHOD_Repeats Member o 24.2 1.3E+02 0.0029 25.9 4.7 38 712-749 54-92 (96)
484 PRK10329 glutaredoxin-like pro 23.9 4.3E+02 0.0093 22.2 7.5 43 716-758 2-45 (81)
485 TIGR02181 GRX_bact Glutaredoxi 23.9 2.8E+02 0.0061 22.8 6.4 53 718-772 2-55 (79)
486 PRK10638 glutaredoxin 3; Provi 23.9 3.5E+02 0.0075 22.6 7.1 44 716-759 3-47 (83)
487 cd06533 Glyco_transf_WecG_TagA 23.8 5.2E+02 0.011 25.3 9.2 60 714-776 46-108 (171)
488 cd01521 RHOD_PspE2 Member of t 23.7 1.1E+02 0.0024 27.3 4.2 39 712-750 62-102 (110)
489 PLN02195 cellulose synthase A 23.5 79 0.0017 39.4 3.9 49 622-670 5-60 (977)
490 KOG2340 Uncharacterized conser 23.5 2.2E+02 0.0049 33.0 7.0 131 693-826 531-667 (698)
491 cd02067 B12-binding B12 bindin 23.3 2.8E+02 0.0061 25.0 6.9 47 722-774 11-57 (119)
492 PRK12727 flagellar biosynthesi 23.0 2.7E+02 0.0059 32.8 7.9 20 253-272 355-374 (559)
493 TIGR03499 FlhF flagellar biosy 22.9 71 0.0015 34.3 3.1 21 253-273 199-219 (282)
494 PF00308 Bac_DnaA: Bacterial d 22.8 1.4E+02 0.0029 30.8 5.1 35 422-457 98-137 (219)
495 COG0514 RecQ Superfamily II DN 22.8 1.7E+02 0.0036 34.8 6.3 61 716-779 59-119 (590)
496 COG0541 Ffh Signal recognition 22.6 1.1E+02 0.0024 34.7 4.5 69 258-401 110-188 (451)
497 PF12622 NpwBP: mRNA biogenesi 22.4 42 0.00092 25.5 0.9 12 789-800 3-14 (48)
498 PRK06620 hypothetical protein; 22.4 1.4E+02 0.0031 30.5 5.1 44 423-472 87-137 (214)
499 PF07726 AAA_3: ATPase family 22.4 38 0.00083 31.7 0.8 23 251-273 2-24 (131)
500 COG2256 MGS1 ATPase related to 22.4 1.1E+02 0.0024 34.2 4.4 43 424-469 107-149 (436)
No 1
>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]
Probab=100.00 E-value=2.4e-113 Score=899.25 Aligned_cols=572 Identities=35% Similarity=0.626 Sum_probs=498.1
Q ss_pred ccHHHHHHHHhhhhhcccccccCCCCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCC
Q 002901 168 KSVDEIFKLVDKNVKKKAKMEAMEPPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEP 247 (869)
Q Consensus 168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~ 247 (869)
..++.+|..+.+. ..-.....++|..+..+|+|||+++|+|+...|.+ .
T Consensus 155 pE~~~v~~dlde~---~p~i~e~aeqP~dlii~LL~fQkE~l~Wl~~QE~S----------------------------s 203 (791)
T KOG1002|consen 155 PELRNVFTDLDEA---NPVIAERAEQPDDLIIPLLPFQKEGLAWLTSQEES----------------------------S 203 (791)
T ss_pred chhhhhhhhhhhc---CchhhhcccCcccceecchhhhHHHHHHHHHhhhh----------------------------h
Confidence 4456677777652 22233345677889999999999999999998874 2
Q ss_pred CCCcceecCcCCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCccccccccccccc
Q 002901 248 LRGGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTK 327 (869)
Q Consensus 248 ~~GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 327 (869)
+.||||||+||+|||+|+|||++...
T Consensus 204 ~~GGiLADEMGMGKTIQtIaLllae~------------------------------------------------------ 229 (791)
T KOG1002|consen 204 VAGGILADEMGMGKTIQTIALLLAEV------------------------------------------------------ 229 (791)
T ss_pred hccceehhhhccchHHHHHHHHHhcc------------------------------------------------------
Confidence 47999999999999999999998743
Q ss_pred ccccccCcccccccCCccccccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC-CCCCChhhhccccEEEEechhh
Q 002901 328 MDDNVKGKSVGMLNKSSSFMGKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG-DRTQDVEELKMYDLVLTTYSTL 406 (869)
Q Consensus 328 ~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G-~r~~~~~~l~~~dVVItTY~~l 406 (869)
...|||||||.-.+.||.+||.+|+. +.+++|+||| .|.++.+.|..||||+|||.++
T Consensus 230 --------------------~ra~tLVvaP~VAlmQW~nEI~~~T~-gslkv~~YhG~~R~~nikel~~YDvVLTty~vv 288 (791)
T KOG1002|consen 230 --------------------DRAPTLVVAPTVALMQWKNEIERHTS-GSLKVYIYHGAKRDKNIKELMNYDVVLTTYAVV 288 (791)
T ss_pred --------------------ccCCeeEEccHHHHHHHHHHHHHhcc-CceEEEEEecccccCCHHHhhcCcEEEEecHHH
Confidence 34569999999999999999999995 8999999999 9999999999999999999999
Q ss_pred Hhhhcc-------------cCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhh
Q 002901 407 AIEESW-------------LESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAF 473 (869)
Q Consensus 407 ~~~~~~-------------~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~f 473 (869)
.+.+.. ..+.|+++.|.||||||||.||++.|.+++|+++|.+.+||||||||+||++.+||||++|
T Consensus 289 Es~yRk~~~GfrrKngv~ke~SlLHsi~~~RiIlDEAH~IK~R~snTArAV~~L~tt~rw~LSGTPLQNrigElySLiRF 368 (791)
T KOG1002|consen 289 ESVYRKQDYGFRRKNGVDKEKSLLHSIKFYRIILDEAHNIKDRQSNTARAVFALETTYRWCLSGTPLQNRIGELYSLIRF 368 (791)
T ss_pred HHHHHhccccccccCCcccccchhhhceeeeeehhhhcccccccccHHHHHHhhHhhhhhhccCCcchhhHHHHHHHHHH
Confidence 988753 2488999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCCCc-------------------------------hHHHHHHhccccccCC-----hhhHHHHHHHHhhhhhhccC
Q 002901 474 LQFEPFSV-------------------------------KSYWQSLIQRPLAQGN-----RKGLSRLQVLMSTISLRRTK 517 (869)
Q Consensus 474 L~~~~~~~-------------------------------~~~f~~~~~~p~~~~~-----~~~~~~L~~ll~~~~lRRtk 517 (869)
|+..||.. ..+|+.+..+|+.... ..++...+.++..+||||||
T Consensus 369 L~i~Pfsyyfc~~cdc~~~~~~ftdr~~c~~c~h~~m~h~~~~n~~mlk~IqkfG~eGpGk~af~~~h~llk~ImlrrTk 448 (791)
T KOG1002|consen 369 LNINPFSYYFCTKCDCASLDWKFTDRMHCDHCSHNIMQHTCFFNHFMLKPIQKFGVEGPGKEAFNNIHTLLKNIMLRRTK 448 (791)
T ss_pred HccCcchhhhhhhccccccceeecccccCCcccchhhhhhhhhcccccccchhhcccCchHHHHHHHHHHHHHHHHHHhh
Confidence 99999852 2567777778876432 35567889999999999999
Q ss_pred CC--CCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCCccccccc
Q 002901 518 DK--GLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALCPSDVRSI 595 (869)
Q Consensus 518 ~~--~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~ 595 (869)
-. ..+.|||+.+.+..--|+.+|..+|+.+...++..|..|++.|.++.+|++|+..|.||||+++||+|+......-
T Consensus 449 l~RAdDLgLPPRiv~vRrD~fn~eE~D~YeSLY~dSkrkfntyieeGvvlNNYAnIF~LitRmRQ~aDHP~LVl~S~~~n 528 (791)
T KOG1002|consen 449 LERADDLGLPPRIVTVRRDFFNEEEKDLYESLYKDSKRKFNTYIEEGVVLNNYANIFTLITRMRQAADHPDLVLYSANAN 528 (791)
T ss_pred cccccccCCCccceeeehhhhhhHHHHHHHHHHHhhHHhhhhHHhhhhhhhhHHHHHHHHHHHHHhccCcceeeehhhcC
Confidence 73 3368999999999999999999999999999999999999999999999999999999999999999986532111
Q ss_pred CCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhcc----CCCCCCCCCCccCC
Q 002901 596 IPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHT----KPCCPLCRHPLLQS 671 (869)
Q Consensus 596 ~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~----~~~cp~c~~~~~~~ 671 (869)
+.. ...+..+|.+|.++.++++.+.|.|.||+-|+..++... ...||.|...++-.
T Consensus 529 ~~~--------------------enk~~~~C~lc~d~aed~i~s~ChH~FCrlCi~eyv~~f~~~~nvtCP~C~i~LsiD 588 (791)
T KOG1002|consen 529 LPD--------------------ENKGEVECGLCHDPAEDYIESSCHHKFCRLCIKEYVESFMENNNVTCPVCHIGLSID 588 (791)
T ss_pred CCc--------------------cccCceeecccCChhhhhHhhhhhHHHHHHHHHHHHHhhhcccCCCCcccccccccc
Confidence 111 123456899999999999999999999999999887653 58999999988754
Q ss_pred CcccCCCCCCCcc---cc-----cccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEE
Q 002901 672 DLFSSPPESSDMD---IA-----GKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLR 743 (869)
Q Consensus 672 ~~~~~~~~~~~~~---~~-----~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~r 743 (869)
.- ....+..... .+ ..-.++.+|+|++||.+.|..+++.+...|+|||||||+|||+|+-.|.+.|+..+.
T Consensus 589 ls-e~alek~~l~~Fk~sSIlnRinm~~~qsSTKIEAL~EEl~~l~~rd~t~KsIVFSQFTSmLDLi~~rL~kaGfscVk 667 (791)
T KOG1002|consen 589 LS-EPALEKTDLKGFKASSILNRINMDDWQSSTKIEALVEELYFLRERDRTAKSIVFSQFTSMLDLIEWRLGKAGFSCVK 667 (791)
T ss_pred cc-chhhhhcchhhhhhHHHhhhcchhhhcchhHHHHHHHHHHHHHHcccchhhhhHHHHHHHHHHHHHHhhccCceEEE
Confidence 21 1111111110 00 111257789999999999999998888999999999999999999999999999999
Q ss_pred EeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEE
Q 002901 744 LDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRL 823 (869)
Q Consensus 744 ldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rl 823 (869)
++|+|+++.|.+.|+.|.+ ++++ +|||+|++|||+.||||.|++||+|||||||++|.||.||+|||||.|||.|+||
T Consensus 668 L~GsMs~~ardatik~F~n-d~~c-~vfLvSLkAGGVALNLteASqVFmmDPWWNpaVe~Qa~DRiHRIGQ~rPvkvvrf 745 (791)
T KOG1002|consen 668 LVGSMSPAARDATIKYFKN-DIDC-RVFLVSLKAGGVALNLTEASQVFMMDPWWNPAVEWQAQDRIHRIGQYRPVKVVRF 745 (791)
T ss_pred eccCCChHHHHHHHHHhcc-CCCe-EEEEEEeccCceEeeechhceeEeecccccHHHHhhhhhhHHhhcCccceeEEEe
Confidence 9999999999999999999 7755 9999999999999999999999999999999999999999999999999999999
Q ss_pred EeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhC
Q 002901 824 IVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMS 868 (869)
Q Consensus 824 i~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~ 868 (869)
++++|||++|+++|++|.+++.+.++.+.....+++.+|+++||.
T Consensus 746 ~iEnsiE~kIieLQeKKa~mihaTi~qde~Ai~kLt~eDmqfLF~ 790 (791)
T KOG1002|consen 746 CIENSIEEKIIELQEKKANMIHATIGQDEEAISKLTEEDMQFLFN 790 (791)
T ss_pred ehhccHHHHHHHHHHHHhhhhhhhcCCcHHHHHhcCHHHHHHHhc
Confidence 999999999999999999999999999887778999999999995
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=2.3e-97 Score=809.03 Aligned_cols=558 Identities=35% Similarity=0.584 Sum_probs=446.7
Q ss_pred ccHHHHHHHHhhhhh----cccccccCCCCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCC
Q 002901 168 KSVDEIFKLVDKNVK----KKAKMEAMEPPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDK 243 (869)
Q Consensus 168 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~ 243 (869)
..+..+|+++...+. +...-+...++|.++++.|.|||+.|+.||+.||..
T Consensus 289 ~~v~~~~~r~~~ql~~~~e~~P~et~lte~P~g~~v~LmpHQkaal~Wl~wRE~q------------------------- 343 (901)
T KOG4439|consen 289 NNVNKIFDRLTQQLADATETIPGETDLTETPDGLKVELMPHQKAALRWLLWRESQ------------------------- 343 (901)
T ss_pred HhHHHHHHHHHHHHHHHhhcCCCcccccCCCCcceeecchhhhhhhhhhcccccC-------------------------
Confidence 345555655544432 222123456788999999999999999999999882
Q ss_pred CCCCCCCcceecCcCCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCccccccccc
Q 002901 244 RPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKT 323 (869)
Q Consensus 244 ~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (869)
...|||||||||||||+++|+||++.+... +...++
T Consensus 344 ---~~~GGILaddmGLGKTlsmislil~qK~~~---------------------------~~~~~~-------------- 379 (901)
T KOG4439|consen 344 ---PPSGGILADDMGLGKTLSMISLILHQKAAR---------------------------KAREKK-------------- 379 (901)
T ss_pred ---CCCCcccccccccccchHHHHHHHHHHHHH---------------------------Hhhccc--------------
Confidence 347999999999999999999999876322 000000
Q ss_pred ccccccccccCcccccccCCccccccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC-C-CCCChhhhccccEEEE
Q 002901 324 VNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG-D-RTQDVEELKMYDLVLT 401 (869)
Q Consensus 324 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G-~-r~~~~~~l~~~dVVIt 401 (869)
.....+||||||+|++.||..||++.+....++||+||| + |...++.|.+||||||
T Consensus 380 ----------------------~~~a~~TLII~PaSli~qW~~Ev~~rl~~n~LsV~~~HG~n~r~i~~~~L~~YDvViT 437 (901)
T KOG4439|consen 380 ----------------------GESASKTLIICPASLIHQWEAEVARRLEQNALSVYLYHGPNKREISAKELRKYDVVIT 437 (901)
T ss_pred ----------------------ccccCCeEEeCcHHHHHHHHHHHHHHHhhcceEEEEecCCccccCCHHHHhhcceEEE
Confidence 001225999999999999999999999888999999999 5 6778899999999999
Q ss_pred echhhHhhh------cccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhc
Q 002901 402 TYSTLAIEE------SWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQ 475 (869)
Q Consensus 402 TY~~l~~~~------~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~ 475 (869)
||..+.+.. ....++|+.+.|.||||||||+|||++|+.+.|+|.|.+..|||||||||||++-|+|+|++||+
T Consensus 438 TY~lva~~~~~e~~~~~~~spL~~I~W~RVILDEAH~IrN~~tq~S~AVC~L~a~~RWclTGTPiqNn~~DvysLlrFLr 517 (901)
T KOG4439|consen 438 TYNLVANKPDDELEEGKNSSPLARIAWSRVILDEAHNIRNSNTQCSKAVCKLSAKSRWCLTGTPIQNNLWDVYSLLRFLR 517 (901)
T ss_pred eeeccccCCchhhhcccCccHHHHhhHHHhhhhhhhhhcccchhHHHHHHHHhhcceeecccCccccchhHHHHHHHHhc
Confidence 999999821 22458999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhhhhccCC-----CCCcCCCCceEEEEEEeCCHHHHHHHHHHHHH
Q 002901 476 FEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISLRRTKD-----KGLIGLQPKTIEKYYVELSLEERKLYDELEGK 550 (869)
Q Consensus 476 ~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~lRRtk~-----~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~ 550 (869)
..||++...|++.+..+ ...+..|+.-++++++|||||+ ..++.||++...++.++|+..|...|+-+...
T Consensus 518 ~~pF~D~~~Wke~i~~~----s~~g~~rlnll~K~LmLRRTKdQl~a~~klv~Lp~k~i~l~~leLs~~E~~vY~i~~~a 593 (901)
T KOG4439|consen 518 CPPFGDLKQWKENIDNM----SKGGANRLNLLTKSLMLRRTKDQLQANGKLVNLPEKNIELHELELSGDEAKVYQIMMEA 593 (901)
T ss_pred CCCcchHHHHHHhccCc----cccchhhhhhhhhhHHhhhhHHhhccccccccCcccceEEEEEeecchHHHHHHHHHHH
Confidence 99999999999988654 4456679999999999999998 45679999999999999999999999999999
Q ss_pred HHHHHHHHHhcC------------------------------------CcccchHHHHHHHHHHHHhhcccCCCcccccc
Q 002901 551 AKGVVQDYINAG------------------------------------SLMRNYSTVLSILLRLRQICTNLALCPSDVRS 594 (869)
Q Consensus 551 ~~~~~~~~~~~~------------------------------------~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~ 594 (869)
++..+..++.+. ......++||..|+||||+|||+.+....+..
T Consensus 594 skk~~kq~L~~~e~~~~~~~~~s~~~~~~~~~e~~~~~~~~pR~~aagsn~~~~s~IL~LLlrLRQ~ccH~~~~k~~ld~ 673 (901)
T KOG4439|consen 594 SKKLFKQFLLQREDRNNDGGYQSRNRFIGGHDEFGNYYNIGPRFLAAGSNFEIMSHILVLLLRLRQACCHFGLLKAALDP 673 (901)
T ss_pred HHHHHHHHHHhhhhhccccCccccchhccccccccccccccchhhhcCCchhhHHHHHHHHHHHHHHhcCcchhccccCH
Confidence 999887765321 11234467999999999999999776543321
Q ss_pred cCCCCCccccCCChHHHH-HHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 595 IIPSNTIEDVSNNPDLLK-KLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 595 ~~~~~~~~~~~~~~e~~~-~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
......- ......+.+. ..+..+.......|. .--|. +.
T Consensus 674 ~~~~~~g-~~~sde~~~e~~~l~el~k~~~T~~~---------------~D~~e------------------------d~ 713 (901)
T KOG4439|consen 674 EEFQMNG-GDDSDEEQLEEDNLAELEKNDETDCS---------------DDNCE------------------------DL 713 (901)
T ss_pred HHhhhcC-cchhhhhhhhhhHHHhhhhccccccc---------------ccccc------------------------cc
Confidence 1111100 0001111111 111111111111111 10000 00
Q ss_pred ccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHH
Q 002901 674 FSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKR 753 (869)
Q Consensus 674 ~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R 753 (869)
-..++.. .......|.|+..+++.+..+ -....+|+||.|||+++|++++..|...|+.|..++|....++|
T Consensus 714 p~~~~~q-------~Fe~~r~S~Ki~~~l~~le~i-~~~skeK~viVSQwtsvLniv~~hi~~~g~~y~si~Gqv~vK~R 785 (901)
T KOG4439|consen 714 PTAFPDQ-------AFEPDRPSCKIAMVLEILETI-LTSSKEKVVIVSQWTSVLNIVRKHIQKGGHIYTSITGQVLVKDR 785 (901)
T ss_pred cccchhh-------hcccccchhHHHHHHHHHHHH-hhcccceeeehhHHHHHHHHHHHHHhhCCeeeeeecCccchhHH
Confidence 0000000 011234699999999999998 35668999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHH
Q 002901 754 AQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERI 833 (869)
Q Consensus 754 ~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i 833 (869)
+.+++.|+. ..++.+|+|+|+.|||+||||+.|||+|++|.+|||+.|.||-|||+|+||+|+|+||||+++||||++|
T Consensus 786 q~iv~~FN~-~k~~~rVmLlSLtAGGVGLNL~GaNHlilvDlHWNPaLEqQAcDRIYR~GQkK~V~IhR~~~~gTvEqrV 864 (901)
T KOG4439|consen 786 QEIVDEFNQ-EKGGARVMLLSLTAGGVGLNLIGANHLILVDLHWNPALEQQACDRIYRMGQKKDVFIHRLMCKGTVEQRV 864 (901)
T ss_pred HHHHHHHHh-ccCCceEEEEEEccCcceeeecccceEEEEecccCHHHHHHHHHHHHHhcccCceEEEEEEecCcHHHHH
Confidence 999999999 4455799999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhccc-cccccCCHHHHHHhhCC
Q 002901 834 LELQDRKKKLAREAFRRKG-KDQREVSTDDLRILMSL 869 (869)
Q Consensus 834 ~~~q~~K~~l~~~~~~~~~-~~~~~~~~~dl~~lf~~ 869 (869)
..+|+.|.+|+..++.+.. +...++++.||+.||||
T Consensus 865 ~~LQdkKldlA~~VL~G~~tr~~~kLT~adlk~LFgl 901 (901)
T KOG4439|consen 865 KSLQDKKLDLAKGVLTGSATRKMNKLTLADLKKLFGL 901 (901)
T ss_pred HHHHHHHHHHHhhhccCccccccccccHHHHHHHhCC
Confidence 9999999999999999776 57889999999999997
No 3
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=100.00 E-value=4.9e-93 Score=782.28 Aligned_cols=458 Identities=33% Similarity=0.508 Sum_probs=401.7
Q ss_pred Cccccc-ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 193 PKEVIK-SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 193 ~~~~~~-~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
.|..++ ..|+|||.+|+.||+.... | .-+|||||+||||||+|+||++.+
T Consensus 159 sP~~v~~g~lr~YQveGlnWLi~l~e----------------n-------------gingILaDEMGLGKTlQtIs~l~y 209 (971)
T KOG0385|consen 159 SPSYVKGGELRDYQLEGLNWLISLYE----------------N-------------GINGILADEMGLGKTLQTISLLGY 209 (971)
T ss_pred CchhhcCCccchhhhccHHHHHHHHh----------------c-------------CcccEeehhcccchHHHHHHHHHH
Confidence 355666 8999999999999998532 1 247999999999999999999998
Q ss_pred ccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccce
Q 002901 272 DKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKI 351 (869)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (869)
.+... ...+|
T Consensus 210 l~~~~----------------------------------------------------------------------~~~GP 219 (971)
T KOG0385|consen 210 LKGRK----------------------------------------------------------------------GIPGP 219 (971)
T ss_pred HHHhc----------------------------------------------------------------------CCCCC
Confidence 76422 14689
Q ss_pred EEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhh------hccccEEEEechhhHhhhcccCCCcceeeeeEE
Q 002901 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEE------LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRV 425 (869)
Q Consensus 352 tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~------l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rV 425 (869)
.||+||.|+++||.+||.+|+ |.+++.+|||++...... -..+||+||||++..++. +.|..+.|.++
T Consensus 220 fLVi~P~StL~NW~~Ef~rf~--P~l~~~~~~Gdk~eR~~~~r~~~~~~~fdV~iTsYEi~i~dk----~~lk~~~W~yl 293 (971)
T KOG0385|consen 220 FLVIAPKSTLDNWMNEFKRFT--PSLNVVVYHGDKEERAALRRDIMLPGRFDVCITSYEIAIKDK----SFLKKFNWRYL 293 (971)
T ss_pred eEEEeeHhhHHHHHHHHHHhC--CCcceEEEeCCHHHHHHHHHHhhccCCCceEeehHHHHHhhH----HHHhcCCceEE
Confidence 999999999999999999999 999999999954332221 147999999999999986 57899999999
Q ss_pred EEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHH
Q 002901 426 ILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQ 505 (869)
Q Consensus 426 IlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~ 505 (869)
|+||||+|||.+|..++.++.+++.+|++|||||+||++.+||+||+||-|+.|++...|..+|......++...+.+|+
T Consensus 294 vIDEaHRiKN~~s~L~~~lr~f~~~nrLLlTGTPLQNNL~ELWaLLnFllPdiF~~~e~F~swF~~~~~~~~~e~v~~Lh 373 (971)
T KOG0385|consen 294 VIDEAHRIKNEKSKLSKILREFKTDNRLLLTGTPLQNNLHELWALLNFLLPDIFNSAEDFDSWFDFTNCEGDQELVSRLH 373 (971)
T ss_pred EechhhhhcchhhHHHHHHHHhcccceeEeeCCcccccHHHHHHHHHhhchhhccCHHHHHHHHcccccccCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999887778888999999
Q ss_pred HHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhccc
Q 002901 506 VLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNL 585 (869)
Q Consensus 506 ~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~ 585 (869)
.++++|+|||.|.++...|||+.+.++++.||..|++.|..+...--. .....+ ......++.++++||++|+||
T Consensus 374 ~vL~pFlLRR~K~dVe~sLppKkE~~iyvgms~mQkk~Y~~iL~kdl~---~~n~~~--~~~k~kL~NI~mQLRKccnHP 448 (971)
T KOG0385|consen 374 KVLRPFLLRRIKSDVEKSLPPKKELIIYVGMSSMQKKWYKAILMKDLD---ALNGEG--KGEKTKLQNIMMQLRKCCNHP 448 (971)
T ss_pred hhhhHHHHHHHHHhHhhcCCCcceeeEeccchHHHHHHHHHHHHhcch---hhcccc--cchhhHHHHHHHHHHHhcCCc
Confidence 999999999999999999999999999999999999999987654221 111111 124567889999999999999
Q ss_pred CCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCC
Q 002901 586 ALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCR 665 (869)
Q Consensus 586 ~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~ 665 (869)
+|+.+...+
T Consensus 449 YLF~g~ePg----------------------------------------------------------------------- 457 (971)
T KOG0385|consen 449 YLFDGAEPG----------------------------------------------------------------------- 457 (971)
T ss_pred cccCCCCCC-----------------------------------------------------------------------
Confidence 998753110
Q ss_pred CCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEe
Q 002901 666 HPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLD 745 (869)
Q Consensus 666 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rld 745 (869)
||-..++ .-...|+|+..|-++|..+.++ |+|||||||++.|||+|++++.-+|+.|+|+|
T Consensus 458 -----------~pyttde------hLv~nSGKm~vLDkLL~~Lk~~--GhRVLIFSQmt~mLDILeDyc~~R~y~ycRiD 518 (971)
T KOG0385|consen 458 -----------PPYTTDE------HLVTNSGKMLVLDKLLPKLKEQ--GHRVLIFSQMTRMLDILEDYCMLRGYEYCRLD 518 (971)
T ss_pred -----------CCCCcch------HHHhcCcceehHHHHHHHHHhC--CCeEEEeHHHHHHHHHHHHHHHhcCceeEeec
Confidence 0000000 0123599999999999998755 99999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEe
Q 002901 746 GSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIV 825 (869)
Q Consensus 746 G~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~ 825 (869)
|+++.++|..+|+.|+.+.. ...|||+||+|||.|+||++|++||+||..|||.+..||+||+|||||+|+|.|||||+
T Consensus 519 GSt~~eeR~~aI~~fn~~~s-~~FiFlLSTRAGGLGINL~aADtVIlyDSDWNPQ~DLQAmDRaHRIGQ~K~V~V~RLit 597 (971)
T KOG0385|consen 519 GSTSHEEREDAIEAFNAPPS-EKFIFLLSTRAGGLGINLTAADTVILYDSDWNPQVDLQAMDRAHRIGQKKPVVVYRLIT 597 (971)
T ss_pred CCCCcHHHHHHHHhcCCCCc-ceEEEEEeccccccccccccccEEEEecCCCCchhhhHHHHHHHhhCCcCceEEEEEec
Confidence 99999999999999999544 45999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcc
Q 002901 826 RNSIEERILELQDRKKKLAREAFRRK 851 (869)
Q Consensus 826 ~~siEe~i~~~q~~K~~l~~~~~~~~ 851 (869)
++||||+|+++...|.+|-+.+++.+
T Consensus 598 entVEe~IveRA~~KL~Ld~~VIq~g 623 (971)
T KOG0385|consen 598 ENTVEEKIVERAAAKLRLDKLVIQQG 623 (971)
T ss_pred cchHHHHHHHHHHHHhchhhhhhccC
Confidence 99999999999999999999999987
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-90 Score=764.76 Aligned_cols=473 Identities=31% Similarity=0.465 Sum_probs=407.2
Q ss_pred CCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 192 PPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 192 ~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
-.|..|...|+|||++||.||..... +..|||||||||||||+|+|++++.
T Consensus 197 ~vPg~I~~~Lf~yQreGV~WL~~L~~-----------------------------q~~GGILgDeMGLGKTIQiisFLaa 247 (923)
T KOG0387|consen 197 KVPGFIWSKLFPYQREGVQWLWELYC-----------------------------QRAGGILGDEMGLGKTIQIISFLAA 247 (923)
T ss_pred cccHHHHHHhhHHHHHHHHHHHHHHh-----------------------------ccCCCeecccccCccchhHHHHHHH
Confidence 34667889999999999999987543 2369999999999999999999998
Q ss_pred ccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccce
Q 002901 272 DKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKI 351 (869)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (869)
....+ ...+|
T Consensus 248 L~~S~----------------------------------------------------------------------k~~~p 257 (923)
T KOG0387|consen 248 LHHSG----------------------------------------------------------------------KLTKP 257 (923)
T ss_pred Hhhcc----------------------------------------------------------------------cccCc
Confidence 76432 03588
Q ss_pred EEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC-CCC---CC-------h-----hhhccccEEEEechhhHhhhcccCC
Q 002901 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG-DRT---QD-------V-----EELKMYDLVLTTYSTLAIEESWLES 415 (869)
Q Consensus 352 tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G-~r~---~~-------~-----~~l~~~dVVItTY~~l~~~~~~~~~ 415 (869)
+|||||++++.||.+|+..|. +.++|.+||| ... .. . .......|.||||..++... .
T Consensus 258 aLIVCP~Tii~qW~~E~~~w~--p~~rv~ilh~t~s~~r~~~~~~~~~~~~~L~r~~~~~~~ilitty~~~r~~~----d 331 (923)
T KOG0387|consen 258 ALIVCPATIIHQWMKEFQTWW--PPFRVFILHGTGSGARYDASHSSHKKDKLLIRKVATDGGILITTYDGFRIQG----D 331 (923)
T ss_pred eEEEccHHHHHHHHHHHHHhC--cceEEEEEecCCcccccccchhhhhhhhhheeeecccCcEEEEehhhhcccC----c
Confidence 999999999999999999999 8999999999 221 10 0 11124558999999998765 5
Q ss_pred CcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcccccc
Q 002901 416 PVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQ 495 (869)
Q Consensus 416 ~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~ 495 (869)
.+..+.|+++||||||.|||++|+.+.+++.++..+|++||||||||++.+||+|+.|+.|+-+++...|++.|..|+..
T Consensus 332 ~l~~~~W~y~ILDEGH~IrNpns~islackki~T~~RiILSGTPiQNnL~ELwsLfDFv~PG~Lgt~~~F~~~f~~pI~~ 411 (923)
T KOG0387|consen 332 DLLGILWDYVILDEGHRIRNPNSKISLACKKIRTVHRIILSGTPIQNNLTELWSLFDFVFPGKLGTLPVFQQNFEHPINR 411 (923)
T ss_pred ccccccccEEEecCcccccCCccHHHHHHHhccccceEEeeCccccchHHHHHHHhhhccCCcccchHHHHhhhhhheec
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCh------------hhHHHHHHHHhhhhhhccCCCCCc-CCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcC
Q 002901 496 GNR------------KGLSRLQVLMSTISLRRTKDKGLI-GLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAG 562 (869)
Q Consensus 496 ~~~------------~~~~~L~~ll~~~~lRRtk~~~~~-~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~ 562 (869)
|.. .....|+.++.|++|||+|.++.. .||.|.+.++.|.||+.||.+|+.+.+... +...++
T Consensus 412 GgyaNAs~~qv~~aykca~~Lr~lI~PylLRR~K~dv~~~~Lp~K~E~VlfC~LT~~QR~~Y~~fl~s~~--v~~i~n-- 487 (923)
T KOG0387|consen 412 GGYANASPRQVQTAYKCAVALRDLISPYLLRRMKSDVKGLKLPKKEEIVLFCRLTKLQRRLYQRFLNSSE--VNKILN-- 487 (923)
T ss_pred cccCCCCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhccCCCccceEEEEeccHHHHHHHHHHhhhHH--HHHHHc--
Confidence 653 335578899999999999998888 999999999999999999999999876532 223222
Q ss_pred CcccchHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccC
Q 002901 563 SLMRNYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCA 642 (869)
Q Consensus 563 ~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~ 642 (869)
...++|..+.-||.+||||.++....+... .
T Consensus 488 ----g~~~~l~Gi~iLrkICnHPdll~~~~~~~~-----------------------~---------------------- 518 (923)
T KOG0387|consen 488 ----GKRNCLSGIDILRKICNHPDLLDRRDEDEK-----------------------Q---------------------- 518 (923)
T ss_pred ----CCccceechHHHHhhcCCcccccCcccccc-----------------------c----------------------
Confidence 234567778889999999999864310000 0
Q ss_pred CccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEec
Q 002901 643 HIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQ 722 (869)
Q Consensus 643 h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq 722 (869)
..+....+..|.|++.|.++|..+..+ |.|+|+|||
T Consensus 519 ------------------------------------------~~D~~g~~k~sGKm~vl~~ll~~W~kq--g~rvllFsq 554 (923)
T KOG0387|consen 519 ------------------------------------------GPDYEGDPKRSGKMKVLAKLLKDWKKQ--GDRVLLFSQ 554 (923)
T ss_pred ------------------------------------------CCCcCCChhhcchHHHHHHHHHHHhhC--CCEEEEehh
Confidence 000012355699999999999998755 789999999
Q ss_pred cHHHHHHHHHHHH-HcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcch
Q 002901 723 FRKMLILLEEPLQ-AAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAV 801 (869)
Q Consensus 723 ~~~~ld~l~~~L~-~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~ 801 (869)
...|||+|+..|. ..|+.|+|+||+++.+.|..+|++|+++ ..+.|||+++++||.|||||.||+||+|||.|||+.
T Consensus 555 s~~mLdilE~fL~~~~~ysylRmDGtT~~~~R~~lVd~Fne~--~s~~VFLLTTrvGGLGlNLTgAnRVIIfDPdWNPSt 632 (923)
T KOG0387|consen 555 SRQMLDILESFLRRAKGYSYLRMDGTTPAALRQKLVDRFNED--ESIFVFLLTTRVGGLGLNLTGANRVIIFDPDWNPST 632 (923)
T ss_pred HHHHHHHHHHHHHhcCCceEEEecCCCccchhhHHHHhhcCC--CceEEEEEEecccccccccccCceEEEECCCCCCcc
Confidence 9999999999999 6899999999999999999999999984 367999999999999999999999999999999999
Q ss_pred HHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhCC
Q 002901 802 EEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869 (869)
Q Consensus 802 e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~~ 869 (869)
..||.+|++|+||+|+|.||||++.+||||+|+..|--|..|.+.++... .+.+-....||..||.|
T Consensus 633 D~QAreRawRiGQkkdV~VYRL~t~gTIEEkiY~rQI~Kq~Ltn~il~~p-~q~RfF~~~dl~dLFsl 699 (923)
T KOG0387|consen 633 DNQARERAWRIGQKKDVVVYRLMTAGTIEEKIYHRQIFKQFLTNRILKNP-EQRRFFKGNDLHDLFSL 699 (923)
T ss_pred chHHHHHHHhhcCccceEEEEEecCCcHHHHHHHHHHHHHHHHHHHhcCH-HHhhhcccccHHHHhCC
Confidence 99999999999999999999999999999999999999999999999876 56667788899999975
No 5
>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]
Probab=100.00 E-value=1.9e-87 Score=766.15 Aligned_cols=495 Identities=34% Similarity=0.538 Sum_probs=419.7
Q ss_pred cccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 194 KEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 194 ~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
|-.|+++||.||.+|+.|+.-. | .|. ..||||||||||||+|+|++++...
T Consensus 969 p~pI~a~LRkYQqEGVnWLaFL------------------n---ky~--------LHGILcDDMGLGKTLQticilAsd~ 1019 (1549)
T KOG0392|consen 969 PVPISAKLRKYQQEGVNWLAFL------------------N---KYK--------LHGILCDDMGLGKTLQTICILASDH 1019 (1549)
T ss_pred ccchhHHHHHHHHhccHHHHHH------------------H---Hhc--------ccceeeccccccHHHHHHHHHHHHH
Confidence 3458899999999999998632 2 122 5799999999999999999999865
Q ss_pred CCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEE
Q 002901 274 CAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITL 353 (869)
Q Consensus 274 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tL 353 (869)
... ++ ........|.|
T Consensus 1020 y~r------------------------------~s----------------------------------~~~e~~~~PSL 1035 (1549)
T KOG0392|consen 1020 YKR------------------------------RS----------------------------------ESSEFNRLPSL 1035 (1549)
T ss_pred Hhh------------------------------cc----------------------------------cchhhccCCeE
Confidence 321 00 00012567899
Q ss_pred EecChhHHHHHHHHHHHhcCCCCeEEEEEeC---CCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCc
Q 002901 354 IVCPPSVFSTWITQLEEHTVPGMLKTYMYYG---DRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEA 430 (869)
Q Consensus 354 IV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G---~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEa 430 (869)
||||.+|..+|..|+.+|+ |.++|..|-| .|.....+.++++|+||+|++++++.. .+.++.|.++||||+
T Consensus 1036 IVCPsTLtGHW~~E~~kf~--pfL~v~~yvg~p~~r~~lR~q~~~~~iiVtSYDv~RnD~d----~l~~~~wNYcVLDEG 1109 (1549)
T KOG0392|consen 1036 IVCPSTLTGHWKSEVKKFF--PFLKVLQYVGPPAERRELRDQYKNANIIVTSYDVVRNDVD----YLIKIDWNYCVLDEG 1109 (1549)
T ss_pred EECCchhhhHHHHHHHHhc--chhhhhhhcCChHHHHHHHhhccccceEEeeHHHHHHHHH----HHHhcccceEEecCc
Confidence 9999999999999999999 7899999999 666777788899999999999999985 468899999999999
Q ss_pred cccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccC-C-----------h
Q 002901 431 HVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQG-N-----------R 498 (869)
Q Consensus 431 H~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~-~-----------~ 498 (869)
|.|||..++.++|++.|.+.+|++||||||||++.|||||++||.|+.++....|...|.+|+... + -
T Consensus 1110 HVikN~ktkl~kavkqL~a~hRLILSGTPIQNnvleLWSLFdFLMPGfLGtEKqFqsrf~kpI~asRd~K~Sske~EaG~ 1189 (1549)
T KOG0392|consen 1110 HVIKNSKTKLTKAVKQLRANHRLILSGTPIQNNVLELWSLFDFLMPGFLGTEKQFQSRFGKPILASRDPKSSSKEQEAGV 1189 (1549)
T ss_pred ceecchHHHHHHHHHHHhhcceEEeeCCCcccCHHHHHHHHHHhcccccCcHHHHHHHhcchhhhhcCcccchhHHHhhH
Confidence 999999999999999999999999999999999999999999999999999999999999998732 2 2
Q ss_pred hhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCccc--chHHHHHHHH
Q 002901 499 KGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMR--NYSTVLSILL 576 (869)
Q Consensus 499 ~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~--~~~~il~~ll 576 (869)
.+++.|++.+=||+|||+|.+++.+||||..+.++|+|+|-|+++|+.+...++.....-.+.+.... ...||++.|.
T Consensus 1190 lAleaLHKqVLPF~LRRlKedVL~DLPpKIIQDyyCeLs~lQ~kLY~df~~~~k~~~~~~~d~~~~S~gt~~~HvFqaLq 1269 (1549)
T KOG0392|consen 1190 LALEALHKQVLPFLLRRLKEDVLKDLPPKIIQDYYCELSPLQKKLYRDFVKKAKQCVSSQIDGGEESLGTDKTHVFQALQ 1269 (1549)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCChhhhhheeeccCHHHHHHHHHHHHHhccccccccccchhccCcchHHHHHHHH
Confidence 35778999999999999999999999999999999999999999999999886665554444333222 2789999999
Q ss_pred HHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhc
Q 002901 577 RLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQH 656 (869)
Q Consensus 577 rLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~ 656 (869)
.||..|+||+++... .++++ ..+.+.+ +|..
T Consensus 1270 YlrKLcnHpaLvlt~--------------~hp~l-a~i~~~l-----------------------~~~~----------- 1300 (1549)
T KOG0392|consen 1270 YLRKLCNHPALVLTP--------------VHPDL-AAIVSHL-----------------------AHFN----------- 1300 (1549)
T ss_pred HHHHhcCCcceeeCC--------------CcchH-HHHHHHH-----------------------HHhh-----------
Confidence 999999999998643 11121 1111111 1100
Q ss_pred cCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhc------------CCCCeEEEEeccH
Q 002901 657 TKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDK------------KPTTKSVVFSQFR 724 (869)
Q Consensus 657 ~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~------------~~~~K~lVFsq~~ 724 (869)
....+...|+|+.||-++|.+.--. -.++|++||+||.
T Consensus 1301 ------------------------------~~LHdi~hspKl~AL~qLL~eCGig~~~~~~~g~~s~vsqHRiLIFcQlK 1350 (1549)
T KOG0392|consen 1301 ------------------------------SSLHDIQHSPKLSALKQLLSECGIGNNSDSEVGTPSDVSQHRILIFCQLK 1350 (1549)
T ss_pred ------------------------------hhHHHhhhchhHHHHHHHHHHhCCCCCCcccccCcchhccceeEEeeeHH
Confidence 0001134588999999988865311 1468999999999
Q ss_pred HHHHHHHHHHHHc---CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcch
Q 002901 725 KMLILLEEPLQAA---GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAV 801 (869)
Q Consensus 725 ~~ld~l~~~L~~~---gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~ 801 (869)
+|+|+++..|-+. .+.|.|+||++++.+|++++++||+ || .+.|||++|.+||.|||||.|++|||+|-.|||..
T Consensus 1351 ~mlDlVekDL~k~~mpsVtymRLDGSVpp~~R~kiV~~FN~-Dp-tIDvLlLTThVGGLGLNLTGADTVVFvEHDWNPMr 1428 (1549)
T KOG0392|consen 1351 SMLDLVEKDLFKKYMPSVTYMRLDGSVPPGDRQKIVERFNE-DP-TIDVLLLTTHVGGLGLNLTGADTVVFVEHDWNPMR 1428 (1549)
T ss_pred HHHHHHHHHHhhhhcCceeEEEecCCCCcHHHHHHHHHhcC-CC-ceeEEEEeeeccccccccCCCceEEEEecCCCchh
Confidence 9999999998775 5668899999999999999999999 55 78999999999999999999999999999999999
Q ss_pred HHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhC
Q 002901 802 EEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMS 868 (869)
Q Consensus 802 e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~ 868 (869)
..||+||+|||||+|.|.|||||++||+||+|+.+|+-|.+.++.+++........+..++|-.||.
T Consensus 1429 DLQAMDRAHRIGQKrvVNVyRlItrGTLEEKVMgLQkFKmnvAntvInqqNasl~tM~TdqLLdlF~ 1495 (1549)
T KOG0392|consen 1429 DLQAMDRAHRIGQKRVVNVYRLITRGTLEEKVMGLQKFKMNVANTVINQQNASLETMDTDQLLDLFT 1495 (1549)
T ss_pred hHHHHHHHHhhcCceeeeeeeehhcccHHHHHhhHHHHhhHHHHHHHhcccccccccCHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999998877788889999999995
No 6
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=100.00 E-value=2.2e-86 Score=793.72 Aligned_cols=474 Identities=30% Similarity=0.473 Sum_probs=405.0
Q ss_pred CCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 192 PPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 192 ~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
..|..++..|+|||++|+.||+.... ...||||||+||||||+|+|+++..
T Consensus 161 ~qP~~i~~~Lr~YQleGlnWLi~l~~-----------------------------~g~gGILADEMGLGKTlQaIalL~~ 211 (1033)
T PLN03142 161 VQPSCIKGKMRDYQLAGLNWLIRLYE-----------------------------NGINGILADEMGLGKTLQTISLLGY 211 (1033)
T ss_pred cCChHhccchHHHHHHHHHHHHHHHh-----------------------------cCCCEEEEeCCCccHHHHHHHHHHH
Confidence 34567889999999999999987432 1268999999999999999999987
Q ss_pred ccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccce
Q 002901 272 DKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKI 351 (869)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (869)
..... ...+|
T Consensus 212 L~~~~----------------------------------------------------------------------~~~gp 221 (1033)
T PLN03142 212 LHEYR----------------------------------------------------------------------GITGP 221 (1033)
T ss_pred HHHhc----------------------------------------------------------------------CCCCC
Confidence 64211 03578
Q ss_pred EEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCCh------hhhccccEEEEechhhHhhhcccCCCcceeeeeEE
Q 002901 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDV------EELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRV 425 (869)
Q Consensus 352 tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~------~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rV 425 (869)
+|||||.|++.||.+||.+|+ +.+++++|+|+..... ....++|||||||+++.++. ..|..+.|++|
T Consensus 222 ~LIVvP~SlL~nW~~Ei~kw~--p~l~v~~~~G~~~eR~~~~~~~~~~~~~dVvITSYe~l~~e~----~~L~k~~W~~V 295 (1033)
T PLN03142 222 HMVVAPKSTLGNWMNEIRRFC--PVLRAVKFHGNPEERAHQREELLVAGKFDVCVTSFEMAIKEK----TALKRFSWRYI 295 (1033)
T ss_pred EEEEeChHHHHHHHHHHHHHC--CCCceEEEeCCHHHHHHHHHHHhcccCCCcceecHHHHHHHH----HHhccCCCCEE
Confidence 999999999999999999999 7899999999332111 11257999999999999886 45778899999
Q ss_pred EEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHH
Q 002901 426 ILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQ 505 (869)
Q Consensus 426 IlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~ 505 (869)
||||||+|||..|+.+++++.+++.+||+|||||++|++.|||+|++||.|+.|++...|..+|..+........+.+|+
T Consensus 296 IvDEAHrIKN~~Sklskalr~L~a~~RLLLTGTPlqNnl~ELwsLL~FL~P~~f~s~~~F~~~f~~~~~~~~~e~i~~L~ 375 (1033)
T PLN03142 296 IIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTPLQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLH 375 (1033)
T ss_pred EEcCccccCCHHHHHHHHHHHhhcCcEEEEecCCCCCCHHHHHHHHhcCCCCcCCCHHHHHHHHccccccchHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999998866566677889999
Q ss_pred HHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhccc
Q 002901 506 VLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNL 585 (869)
Q Consensus 506 ~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~ 585 (869)
.++.+++|||+|.++...|||+.+.+++|.||+.|+++|..+.......+ ..+ .....++..+++||++|+||
T Consensus 376 ~~L~pf~LRR~KsdV~~~LPpK~e~iv~v~LS~~Qk~lY~~ll~k~~~~l----~~g---~~~~~LlnilmqLRk~cnHP 448 (1033)
T PLN03142 376 KVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVV----NAG---GERKRLLNIAMQLRKCCNHP 448 (1033)
T ss_pred HHhhHHHhhhhHHHHhhhCCCceeEEEeeCCCHHHHHHHHHHHHHHHHHH----hcc---ccHHHHHHHHHHHHHHhCCH
Confidence 99999999999999989999999999999999999999999876644332 222 23456788999999999999
Q ss_pred CCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCC
Q 002901 586 ALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCR 665 (869)
Q Consensus 586 ~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~ 665 (869)
.++...... .+..+
T Consensus 449 ~L~~~~ep~----------------------------------------~~~~~-------------------------- 462 (1033)
T PLN03142 449 YLFQGAEPG----------------------------------------PPYTT-------------------------- 462 (1033)
T ss_pred Hhhhccccc----------------------------------------Ccccc--------------------------
Confidence 986432100 00000
Q ss_pred CCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEe
Q 002901 666 HPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLD 745 (869)
Q Consensus 666 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rld 745 (869)
.......|+|+..|.++|..+.. .+.|+||||||+.++++|+..|...|++|++||
T Consensus 463 ----------------------~e~lie~SgKl~lLdkLL~~Lk~--~g~KVLIFSQft~~LdiLed~L~~~g~~y~rId 518 (1033)
T PLN03142 463 ----------------------GEHLVENSGKMVLLDKLLPKLKE--RDSRVLIFSQMTRLLDILEDYLMYRGYQYCRID 518 (1033)
T ss_pred ----------------------hhHHhhhhhHHHHHHHHHHHHHh--cCCeEEeehhHHHHHHHHHHHHHHcCCcEEEEC
Confidence 00002248999999999998764 489999999999999999999999999999999
Q ss_pred CCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEe
Q 002901 746 GSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIV 825 (869)
Q Consensus 746 G~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~ 825 (869)
|+++.++|+++|++|+.+++ ...|||+|++|||+||||+.|++||+||+||||+.+.||+||+||+||+++|+||||++
T Consensus 519 Gsts~~eRq~~Id~Fn~~~s-~~~VfLLSTrAGGlGINLt~Ad~VIiyD~dWNP~~d~QAidRaHRIGQkk~V~VyRLIt 597 (1033)
T PLN03142 519 GNTGGEDRDASIDAFNKPGS-EKFVFLLSTRAGGLGINLATADIVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCT 597 (1033)
T ss_pred CCCCHHHHHHHHHHhccccC-CceEEEEeccccccCCchhhCCEEEEeCCCCChHHHHHHHHHhhhcCCCceEEEEEEEe
Confidence 99999999999999998543 34799999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhccc-cccccCCHHHHHHhhC
Q 002901 826 RNSIEERILELQDRKKKLAREAFRRKG-KDQREVSTDDLRILMS 868 (869)
Q Consensus 826 ~~siEe~i~~~q~~K~~l~~~~~~~~~-~~~~~~~~~dl~~lf~ 868 (869)
+|||||+|++++.+|..|...+++.+. .+....+.+||..||.
T Consensus 598 ~gTIEEkIlera~~Kl~Ld~~Vi~~g~~~~~~~~~~~eL~~ll~ 641 (1033)
T PLN03142 598 EYTIEEKVIERAYKKLALDALVIQQGRLAEQKTVNKDELLQMVR 641 (1033)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHhcCcccccccCCHHHHHHHHH
Confidence 999999999999999999999998764 3335678889888874
No 7
>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]
Probab=100.00 E-value=7.6e-86 Score=728.52 Aligned_cols=496 Identities=31% Similarity=0.452 Sum_probs=388.6
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.+|.|||+-||.|+.-..+. .-.||||||||||||+|+||+++..++.+
T Consensus 398 i~LkdYQlvGvNWL~Llyk~-----------------------------~l~gILADEMGLGKTiQvIaFlayLkq~g-- 446 (941)
T KOG0389|consen 398 IQLKDYQLVGVNWLLLLYKK-----------------------------KLNGILADEMGLGKTIQVIAFLAYLKQIG-- 446 (941)
T ss_pred CcccchhhhhHHHHHHHHHc-----------------------------cccceehhhccCcchhHHHHHHHHHHHcC--
Confidence 46999999999999864331 13689999999999999999999988655
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
..+|.|||||+
T Consensus 447 ---------------------------------------------------------------------~~gpHLVVvPs 457 (941)
T KOG0389|consen 447 ---------------------------------------------------------------------NPGPHLVVVPS 457 (941)
T ss_pred ---------------------------------------------------------------------CCCCcEEEecc
Confidence 56889999999
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEeCC---CCCChhhh----ccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCcc
Q 002901 359 SVFSTWITQLEEHTVPGMLKTYMYYGD---RTQDVEEL----KMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAH 431 (869)
Q Consensus 359 sll~qW~~Ei~~~~~~~~l~v~~y~G~---r~~~~~~l----~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH 431 (869)
|++.||..||.+|+ |.++|..|||+ |..-...+ ..|||++|||+.+..... .++.|...+|+.||.||||
T Consensus 458 STleNWlrEf~kwC--Psl~Ve~YyGSq~ER~~lR~~i~~~~~~ydVllTTY~la~~~kd-DRsflk~~~~n~viyDEgH 534 (941)
T KOG0389|consen 458 STLENWLREFAKWC--PSLKVEPYYGSQDERRELRERIKKNKDDYDVLLTTYNLAASSKD-DRSFLKNQKFNYVIYDEGH 534 (941)
T ss_pred hhHHHHHHHHHHhC--CceEEEeccCcHHHHHHHHHHHhccCCCccEEEEEeecccCChH-HHHHHHhccccEEEecchh
Confidence 99999999999999 99999999993 22111111 379999999999985443 3367888999999999999
Q ss_pred ccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCch-HHHHHHhccccc-cCC-------hhhHH
Q 002901 432 VIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVK-SYWQSLIQRPLA-QGN-------RKGLS 502 (869)
Q Consensus 432 ~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~-~~f~~~~~~p~~-~~~-------~~~~~ 502 (869)
++||..|.+++.++.++|..|++|||||+||++.+|+|||.|+.|..|+.. ..+...|..--. .++ ...+.
T Consensus 535 mLKN~~SeRy~~LM~I~An~RlLLTGTPLQNNL~ELiSLL~FvlP~vF~~~~~dl~~if~~k~~~d~d~e~~~l~qerIs 614 (941)
T KOG0389|consen 535 MLKNRTSERYKHLMSINANFRLLLTGTPLQNNLKELISLLAFVLPKVFDSSMEDLDVIFKAKKTSDGDIENALLSQERIS 614 (941)
T ss_pred hhhccchHHHHHhccccccceEEeeCCcccccHHHHHHHHHHHhhHhhhccchHHHHHHhccCCccchhhHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999998643 344444433211 222 34578
Q ss_pred HHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhh
Q 002901 503 RLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQIC 582 (869)
Q Consensus 503 ~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c 582 (869)
|...+|.||+|||.|++++..||||+.++.+|+|+..|+.+|+.+.+.........- ......+ -..+++||+++
T Consensus 615 rAK~im~PFILRR~K~qVL~~LPpK~~~Ie~c~mse~Q~~~Y~~~~~~~~~~~~~~~-~ns~~~~----~~vlmqlRK~A 689 (941)
T KOG0389|consen 615 RAKTIMKPFILRRLKSQVLKQLPPKIQRIEYCEMSEKQKQLYDELIELYDVKLNEVS-KNSELKS----GNVLMQLRKAA 689 (941)
T ss_pred HHHHhhhHHHHHHHHHHHHHhcCCccceeEeeecchHHHHHHHHHHHHHhhhccccc-ccccccc----chHHHHHHHHh
Confidence 889999999999999999999999999999999999999999998766522111110 0111111 45789999999
Q ss_pred cccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCC--Cc-ceec-ccCCccchhHHHHhhhccC
Q 002901 583 TNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPP--SD-IIIT-CCAHIFCRSCILKTLQHTK 658 (869)
Q Consensus 583 ~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~--~~-~~~t-~c~h~~c~~ci~~~~~~~~ 658 (869)
+||.|+.... +.+.+.+|...+-... ..|. |-... ++ .+++ --.|..|...
T Consensus 690 nHPLL~R~~Y--------------~de~L~~mak~il~e~-ay~~-~n~qyIfEDm~~msDfelHqLc~~f--------- 744 (941)
T KOG0389|consen 690 NHPLLFRSIY--------------TDEKLRKMAKRILNEP-AYKK-ANEQYIFEDMEVMSDFELHQLCCQF--------- 744 (941)
T ss_pred cChhHHHHhc--------------cHHHHHHHHHHHhCch-hhhh-cCHHHHHHHHHhhhHHHHHHHHHhc---------
Confidence 9999986432 2233444443331111 0000 00000 00 0010 0122222110
Q ss_pred CCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcC
Q 002901 659 PCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAG 738 (869)
Q Consensus 659 ~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~g 738 (869)
| |-..+. + ....+-.|+|++.|..+|.+++.+ |+|||||||||.|||+|+..|+..|
T Consensus 745 ---~-~~~~f~---L--------------~d~~~mdSgK~r~L~~LLp~~k~~--G~RVLiFSQFTqmLDILE~~L~~l~ 801 (941)
T KOG0389|consen 745 ---R-HLSKFQ---L--------------KDDLWMDSGKCRKLKELLPKIKKK--GDRVLIFSQFTQMLDILEVVLDTLG 801 (941)
T ss_pred ---C-CCcccc---c--------------CCchhhhhhhHhHHHHHHHHHhhc--CCEEEEeeHHHHHHHHHHHHHHhcC
Confidence 0 000000 0 011244699999999999998754 8999999999999999999999999
Q ss_pred CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 739 FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 739 i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
++|+|+||++....|+.+|+.|+.+ ..+.|||+|++|||.|||||+||+||++|..+||....||.||+||+||+|||
T Consensus 802 ~~ylRLDGsTqV~~RQ~lId~Fn~d--~difVFLLSTKAGG~GINLt~An~VIihD~dFNP~dD~QAEDRcHRvGQtkpV 879 (941)
T KOG0389|consen 802 YKYLRLDGSTQVNDRQDLIDEFNTD--KDIFVFLLSTKAGGFGINLTCANTVIIHDIDFNPYDDKQAEDRCHRVGQTKPV 879 (941)
T ss_pred ceEEeecCCccchHHHHHHHhhccC--CceEEEEEeeccCcceecccccceEEEeecCCCCcccchhHHHHHhhCCccee
Confidence 9999999999999999999999995 46899999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccc
Q 002901 819 KIVRLIVRNSIEERILELQDRKKKLAREAFRRKG 852 (869)
Q Consensus 819 ~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~ 852 (869)
+|||||+++||||.|+++.+.|..|-..+.+.+.
T Consensus 880 tV~rLItk~TIEE~I~~lA~~KL~Le~~lt~~~k 913 (941)
T KOG0389|consen 880 TVYRLITKSTIEEGILRLAKTKLALEADLTEDGK 913 (941)
T ss_pred EEEEEEecCcHHHHHHHHHHHhhhhhhhhccCcc
Confidence 9999999999999999999999999777766654
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=2.1e-86 Score=765.20 Aligned_cols=517 Identities=43% Similarity=0.687 Sum_probs=456.7
Q ss_pred CCCCCcceecCcCCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCccccccccccc
Q 002901 246 EPLRGGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVN 325 (869)
Q Consensus 246 ~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 325 (869)
..++|||+||+||+|||+++|++++..+.... + ++
T Consensus 150 ~~~~ggIladd~glgkt~~ti~l~l~~~~~~~-------------~-~~------------------------------- 184 (674)
T KOG1001|consen 150 QSLRGGILADDMGLGKTVKTIALILKQKLKSK-------------E-ED------------------------------- 184 (674)
T ss_pred CccccceEeeccccchHHHHHHHHHhcccCCc-------------c-hh-------------------------------
Confidence 46799999999999999999999998764320 0 00
Q ss_pred ccccccccCcccccccCCccccccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechh
Q 002901 326 TKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYST 405 (869)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~ 405 (869)
.....+.||||||++++.||..|++++..++.+.+++||| |.++...++.||||||||++
T Consensus 185 -------------------~~~~~kttLivcp~s~~~qW~~elek~~~~~~l~v~v~~g-r~kd~~el~~~dVVltTy~i 244 (674)
T KOG1001|consen 185 -------------------RQKEFKTTLIVCPTSLLTQWKTELEKVTEEDKLSIYVYHG-RTKDKSELNSYDVVLTTYDI 244 (674)
T ss_pred -------------------hccccCceeEecchHHHHHHHHHHhccCCccceEEEEecc-cccccchhcCCceEEeeHHH
Confidence 0115678999999999999999998888888999999999 99999999999999999999
Q ss_pred hHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHH
Q 002901 406 LAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYW 485 (869)
Q Consensus 406 l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f 485 (869)
+.+ +++..+.|.|||+||||+|+|++++.+++++.|.+.+||||||||+||+++|+|++++|++.+||.+..+|
T Consensus 245 l~~------~~l~~i~w~Riildea~~ikn~~tq~~~a~~~L~a~~RWcLtgtPiqn~~~~lysl~~fl~~~p~~~~~~~ 318 (674)
T KOG1001|consen 245 LKN------SPLVKIKWLRIVLDEAHTIKNKDTQIFKAVCQLDAKYRWCLTGTPIQNNLDELYSLFKFLEIHPYCDQNYF 318 (674)
T ss_pred hhc------ccccceeEEEEEeccccccCCcchHhhhhheeeccceeeeecCChhhhhHHHHHHHHHHhhcCCchhhHHH
Confidence 986 56788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccccccCC-hhhHHHHHHHHhhhhhhccCC-----CCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHH
Q 002901 486 QSLIQRPLAQGN-RKGLSRLQVLMSTISLRRTKD-----KGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYI 559 (869)
Q Consensus 486 ~~~~~~p~~~~~-~~~~~~L~~ll~~~~lRRtk~-----~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~ 559 (869)
...+..|+..+. ..++.+++.++..+++||+|. .++..|||+++.++.++++.+++.+|..+...++..+..+.
T Consensus 319 ~~~i~~p~~~~~~~~~~k~l~~~L~~v~lrrtK~~~~~gk~i~~lppk~v~~~~~~~~~~e~~~y~~l~~~~~~~~~~~~ 398 (674)
T KOG1001|consen 319 KLLIQDPDERNKYKEGVKTLQGILKKVMLRRTKEMEVDGKPILELPPKTVFVTEVDLSKSERSAYKALKANSRNQFSNYA 398 (674)
T ss_pred HHHhcChhhhhhHHHHHHHHHHHHHHHHhcccccccccCccccccCcceeEeeeccccHhHHHHHHHHhhhhhhHHHHHh
Confidence 999999999888 799999999999999999997 55779999999999999999999999999999999999999
Q ss_pred hcCCcccchHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceec
Q 002901 560 NAGSLMRNYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIIT 639 (869)
Q Consensus 560 ~~~~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t 639 (869)
..+.+..+|..++..++||||+|+||.++.......... .........+...+..+ ..|.+|.+ .+.++++
T Consensus 399 ~~~~~~~~Y~~~l~~lLrlrq~c~h~~lv~~~~~~~~~~------~~~~~~~~~~i~~l~~~--~~c~ic~~-~~~~~it 469 (674)
T KOG1001|consen 399 NEGTVSSTYAFFLKNLLRLRQACDHSLLVMYEMDSLGDS------GSAAALIIRLIVDLSVS--HWCHICCD-LDSFFIT 469 (674)
T ss_pred hhchhhhhHHHHHHHHHHHHHHccchHhhhhhhhccccc------cccchHHHHHHHHHhhc--cccccccc-cccceee
Confidence 999999999999999999999999999986443221111 11111222244444444 89999999 8889999
Q ss_pred ccCCccchhHHHHhhhccCC-CCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEE
Q 002901 640 CCAHIFCRSCILKTLQHTKP-CCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSV 718 (869)
Q Consensus 640 ~c~h~~c~~ci~~~~~~~~~-~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~l 718 (869)
.|+|.+|.+|+...++.... .||.|+..+....+++..+....... ....|.|+.++++.|........ .|+|
T Consensus 470 ~c~h~~c~~c~~~~i~~~~~~~~~~cr~~l~~~~l~s~~~~~~~~~~-----~~~~s~ki~~~~~~l~~~~~s~~-~kii 543 (674)
T KOG1001|consen 470 RCGHDFCVECLKKSIQQSENAPCPLCRNVLKEKKLLSANPLPSIIND-----LLPESSKIYAFLKILQAKEMSEQ-PKIV 543 (674)
T ss_pred cccchHHHHHHHhccccccCCCCcHHHHHHHHHHHhhcccccchhhh-----ccchhhhhHHHHHHHhhccCCCC-Ccee
Confidence 99999999999999988754 59999999998888876544332211 11179999999999995543333 5999
Q ss_pred EEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCC
Q 002901 719 VFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWN 798 (869)
Q Consensus 719 VFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wn 798 (869)
|||||+.++++++..|...|+.+.++||.|+.+.|..++..|.. ++ .++|+++|++|||+||||++|+|||++|||||
T Consensus 544 ifsq~~~~l~l~~~~l~~~~~~~~~~~g~~~~~~r~~s~~~~~~-~~-~~~vll~Slkag~~glnlt~a~~v~~~d~~wn 621 (674)
T KOG1001|consen 544 IFSQLIWGLALVCLRLFFKGFVFLRYDGEMLMKIRTKSFTDFPC-DP-LVTALLMSLKAGKVGLNLTAASHVLLMDPWWN 621 (674)
T ss_pred eehhHHHHHHHhhhhhhhcccccchhhhhhHHHHHHhhhccccc-Cc-cHHHHHHHHHHhhhhhchhhhhHHHhhchhcC
Confidence 99999999999999999999999999999999999999999996 55 56999999999999999999999999999999
Q ss_pred cchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc
Q 002901 799 PAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRR 850 (869)
Q Consensus 799 p~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~ 850 (869)
|++|+|||+|+||+||+|+|.|+||+++||+||+|+++|++|+.+...+++.
T Consensus 622 p~~eeQaidR~hrigq~k~v~v~r~~i~dtveer~l~iq~~K~~~~~~a~~~ 673 (674)
T KOG1001|consen 622 PAVEEQAIDRAHRIGQTKPVKVSRFIIKDTVEERILKIQEKKREYNASAFGE 673 (674)
T ss_pred hHHHHHHHHHHHHhcccceeeeeeehhhhccHHHHHHHHHHHHHHHhhhccC
Confidence 9999999999999999999999999999999999999999999999998875
No 9
>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]
Probab=100.00 E-value=6.2e-84 Score=727.47 Aligned_cols=562 Identities=30% Similarity=0.460 Sum_probs=426.7
Q ss_pred CCCCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHH
Q 002901 190 MEPPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLI 269 (869)
Q Consensus 190 ~~~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali 269 (869)
..+.|..+...||.||+.||.||....+.+ .+|||||+||||||+|+|+|+
T Consensus 605 ktpvPsLLrGqLReYQkiGLdWLatLYekn-----------------------------lNGILADEmGLGKTIQtISll 655 (1958)
T KOG0391|consen 605 KTPVPSLLRGQLREYQKIGLDWLATLYEKN-----------------------------LNGILADEMGLGKTIQTISLL 655 (1958)
T ss_pred ccCchHHHHHHHHHHHHhhHHHHHHHHHhc-----------------------------ccceehhhhcccchhHHHHHH
Confidence 346677899999999999999999865421 479999999999999999999
Q ss_pred HhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCcccccc
Q 002901 270 ALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGK 349 (869)
Q Consensus 270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 349 (869)
++..... .+.
T Consensus 656 AhLACee----------------------------------------------------------------------gnW 665 (1958)
T KOG0391|consen 656 AHLACEE----------------------------------------------------------------------GNW 665 (1958)
T ss_pred HHHHhcc----------------------------------------------------------------------cCC
Confidence 9876322 167
Q ss_pred ceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC---CCCCChhhh---ccccEEEEechhhHhhhcccCCCcceeeee
Q 002901 350 KITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG---DRTQDVEEL---KMYDLVLTTYSTLAIEESWLESPVKKIEWW 423 (869)
Q Consensus 350 ~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G---~r~~~~~~l---~~~dVVItTY~~l~~~~~~~~~~l~~~~w~ 423 (869)
+|.|||||.|++-||+-||++|+ +.++++.|+| .|.....-| ..++|.||||.++..+.. .+...+|.
T Consensus 666 GPHLIVVpTsviLnWEMElKRwc--PglKILTYyGs~kErkeKRqgW~kPnaFHVCItSYklv~qd~~----AFkrkrWq 739 (1958)
T KOG0391|consen 666 GPHLIVVPTSVILNWEMELKRWC--PGLKILTYYGSHKERKEKRQGWAKPNAFHVCITSYKLVFQDLT----AFKRKRWQ 739 (1958)
T ss_pred CCceEEeechhhhhhhHHHhhhC--CcceEeeecCCHHHHHHHhhcccCCCeeEEeehhhHHHHhHHH----HHHhhccc
Confidence 89999999999999999999999 9999999999 333333334 458899999999999984 46788999
Q ss_pred EEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcccccc-------C
Q 002901 424 RVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQ-------G 496 (869)
Q Consensus 424 rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~-------~ 496 (869)
++||||||+|||..|++.+|+..+++.+|++|||||+||++.+||||++||.|..|.+...|+.||.+|+.. .
T Consensus 740 yLvLDEaqnIKnfksqrWQAllnfnsqrRLLLtgTPLqNslmELWSLmhFLmP~~f~shd~fk~wfsnPltgmiEgsqey 819 (1958)
T KOG0391|consen 740 YLVLDEAQNIKNFKSQRWQALLNFNSQRRLLLTGTPLQNSLMELWSLMHFLMPQTFASHDIFKPWFSNPLTGMIEGSQEY 819 (1958)
T ss_pred eeehhhhhhhcchhHHHHHHHhccchhheeeecCCchhhHHHHHHHHHHHhhchhhhhhhhHHHHhcCcchhhcccchhh
Confidence 999999999999999999999999999999999999999999999999999999999999999999999863 2
Q ss_pred ChhhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHH
Q 002901 497 NRKGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILL 576 (869)
Q Consensus 497 ~~~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~ll 576 (869)
+...+.+|++.+++|+|||+|.++...||.|.+++++|.||..||.+|+.+..+... +..+. ..++.+|+..++
T Consensus 820 n~klV~RLHkVlrPfiLRRlK~dVEKQlpkKyEHvv~CrLSkRQR~LYDDfmsq~~T--KetLk----SGhfmsVlnilm 893 (1958)
T KOG0391|consen 820 NHKLVIRLHKVLRPFILRRLKRDVEKQLPKKYEHVVKCRLSKRQRALYDDFMSQPGT--KETLK----SGHFMSVLNILM 893 (1958)
T ss_pred chHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhheeeehhhhHHHHHHHHhhccch--hhHhh----cCchhHHHHHHH
Confidence 345688999999999999999999999999999999999999999999998755321 12222 367899999999
Q ss_pred HHHHhhcccCCCcccc--cccCCCC-CccccCCChHHHHHHHHHHhcCC----------CCCCCccC--------CCCCc
Q 002901 577 RLRQICTNLALCPSDV--RSIIPSN-TIEDVSNNPDLLKKLVEVLQDGE----------DFDCPICI--------SPPSD 635 (869)
Q Consensus 577 rLRq~c~h~~l~~~~~--~~~~~~~-~~~~~~~~~e~~~~~~~~l~~~~----------~~~c~~c~--------~~~~~ 635 (869)
+||++||||.|+...- ..+.... .....+ .....+.+++.... ....+... +++..
T Consensus 894 qLrKvCNHPnLfEpRpv~ssfV~e~l~~s~as---~~~r~l~el~~k~p~~~~ls~~p~~~~vp~v~pas~~~sAspl~s 970 (1958)
T KOG0391|consen 894 QLRKVCNHPNLFEPRPVGSSFVAEPLEYSSAS---KITRHLAELLSKKPIPRKLSEEPSTSAVPAVRPASAKLSASPLAS 970 (1958)
T ss_pred HHHHHcCCCCcCCCCCCCcccccCceeccccc---cchhhhhhhccCCCCchhhhcCCCcccccccchhhhhhccccccc
Confidence 9999999999986431 1111111 000111 12223333333221 01111000 00000
Q ss_pred --ceec----ccCC-----ccchhHHHHh---hhc--------------------cCCCCCC------------------
Q 002901 636 --IIIT----CCAH-----IFCRSCILKT---LQH--------------------TKPCCPL------------------ 663 (869)
Q Consensus 636 --~~~t----~c~h-----~~c~~ci~~~---~~~--------------------~~~~cp~------------------ 663 (869)
+++. +-.. .|-....... -+. ..-.||.
T Consensus 971 ~l~~ls~~~rPp~pt~~g~~F~~~aa~atsphteea~~~~v~r~~~~~~va~~q~r~lt~p~~~veq~n~~k~~~htt~~ 1050 (1958)
T KOG0391|consen 971 ALPQLSLRGRPPIPTFAGAPFQTSAASATSPHTEEASASSVARLPSGEVVAIAQLRSLTGPQSRVEQPNTPKTLQHTTAG 1050 (1958)
T ss_pred ccccccCCCCCCCccccccccccchhcccCCccccccccchhcccchheeeccccccccCcHhHhhcCCCceeeeeeccc
Confidence 0010 0000 1111000000 000 0001110
Q ss_pred --------------------CCCCccC-----CCcccCCCCC----C---------------------------------
Q 002901 664 --------------------CRHPLLQ-----SDLFSSPPES----S--------------------------------- 681 (869)
Q Consensus 664 --------------------c~~~~~~-----~~~~~~~~~~----~--------------------------------- 681 (869)
-+.+... ..+.+-++.. .
T Consensus 1051 ~p~~~~~svl~~~sv~t~pl~~ap~p~~~~l~~a~gsr~pv~~ddpa~ltp~sg~pkl~gtat~~~g~~pr~~~~klee~ 1130 (1958)
T KOG0391|consen 1051 QPLQLQGSVLQIVSVPTQPLLRAPGPVVMALHGALGSRPPVGGDDPAPLTPQSGVPKLVGTATLAVGEPPRAIGGKLEEE 1130 (1958)
T ss_pred CccccccceeeeccccccccccCCCCcceecchhhccCCCCCCCCccccccccCCCCCcchhhhccCCCccccccchhhH
Confidence 0000000 0000000000 0
Q ss_pred --------------------------------------C-----cc----------c-----------------------
Q 002901 682 --------------------------------------D-----MD----------I----------------------- 685 (869)
Q Consensus 682 --------------------------------------~-----~~----------~----------------------- 685 (869)
. +. .
T Consensus 1131 Rkrql~erl~ri~~~~APvyg~e~l~~c~lp~e~i~p~~~ea~~e~~l~~~r~le~l~~iIdrfafv~ppvva~ppslra 1210 (1958)
T KOG0391|consen 1131 RKRQLKERLDRIYLVNAPVYGRELLRICALPSEGIVPWRSEAPSELMLTLCRCLESLQDIIDRFAFVIPPVVAAPPSLRA 1210 (1958)
T ss_pred HHHHHHHHHHHHhhccCcccchhhhhhhccchhhhccccccCchhhhhhHHHHHHHHHHHHHHheeecccccCCChhhcC
Confidence 0 00 0
Q ss_pred ---------------------------------------ccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHH
Q 002901 686 ---------------------------------------AGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKM 726 (869)
Q Consensus 686 ---------------------------------------~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ 726 (869)
.+..+-...++|+.+|.=+|++++.. |+++|||+|.+.|
T Consensus 1211 ~~ppp~~~~r~r~~~~qlrsel~p~~~~~q~~~~r~lqFPelrLiqyDcGKLQtLAiLLqQLk~e--ghRvLIfTQMtkm 1288 (1958)
T KOG0391|consen 1211 PRPPPLYSHRMRILRQQLRSELAPYFQQRQTTAPRLLQFPELRLIQYDCGKLQTLAILLQQLKSE--GHRVLIFTQMTKM 1288 (1958)
T ss_pred CCCCcccchHHHHHHHHHHHHhccccchhhccchhhhcCcchheeecccchHHHHHHHHHHHHhc--CceEEehhHHHHH
Confidence 00000123488999999999998744 9999999999999
Q ss_pred HHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHh
Q 002901 727 LILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAM 806 (869)
Q Consensus 727 ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~Qai 806 (869)
||+|+.+|.-+|+.|+|+||+++.++|++++++||. |. .+.+|++|+++||+|+|||.|++|||||..|||....||-
T Consensus 1289 LDVLeqFLnyHgylY~RLDg~t~vEqRQaLmerFNa-D~-RIfcfILSTrSggvGiNLtgADTVvFYDsDwNPtMDaQAQ 1366 (1958)
T KOG0391|consen 1289 LDVLEQFLNYHGYLYVRLDGNTSVEQRQALMERFNA-DR-RIFCFILSTRSGGVGINLTGADTVVFYDSDWNPTMDAQAQ 1366 (1958)
T ss_pred HHHHHHHHhhcceEEEEecCCccHHHHHHHHHHhcC-CC-ceEEEEEeccCCccccccccCceEEEecCCCCchhhhHHH
Confidence 999999999999999999999999999999999999 44 6799999999999999999999999999999999999999
Q ss_pred hhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhCC
Q 002901 807 DRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869 (869)
Q Consensus 807 gRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~~ 869 (869)
||+|||||+|+|+|||||.+.||||+|++....|+.|-+.++.+++....-++-.+++.||++
T Consensus 1367 DrChRIGqtRDVHIYRLISe~TIEeniLkkanqKr~L~evaiqggdfTt~ff~q~ti~dLFd~ 1429 (1958)
T KOG0391|consen 1367 DRCHRIGQTRDVHIYRLISERTIEENILKKANQKRMLDEVAIQGGDFTTAFFKQRTIRDLFDV 1429 (1958)
T ss_pred HHHHhhcCccceEEEEeeccchHHHHHHhhhhHHHHHHHHhhccCCccHHHHhhhhHHHHhcC
Confidence 999999999999999999999999999999999999999999998766666777888899975
No 10
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=100.00 E-value=2.5e-81 Score=720.35 Aligned_cols=473 Identities=29% Similarity=0.447 Sum_probs=405.3
Q ss_pred ccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCC
Q 002901 197 IKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAG 276 (869)
Q Consensus 197 ~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~ 276 (869)
-..+||.||.+||+||+...- | ...|||||+||||||+|+|+++.......
T Consensus 367 ~g~~LRdyQLeGlNWl~~~W~----------------~-------------~~n~ILADEmgLgktvqti~fl~~l~~~~ 417 (1373)
T KOG0384|consen 367 GGNELRDYQLEGLNWLLYSWY----------------K-------------RNNCILADEMGLGKTVQTITFLSYLFHSL 417 (1373)
T ss_pred ccchhhhhhcccchhHHHHHH----------------h-------------cccceehhhcCCCcchHHHHHHHHHHHhh
Confidence 336899999999999997422 1 14799999999999999999998876332
Q ss_pred CCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEec
Q 002901 277 VAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVC 356 (869)
Q Consensus 277 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~ 356 (869)
.-.+|.||||
T Consensus 418 ----------------------------------------------------------------------~~~gpflvvv 427 (1373)
T KOG0384|consen 418 ----------------------------------------------------------------------QIHGPFLVVV 427 (1373)
T ss_pred ----------------------------------------------------------------------hccCCeEEEe
Confidence 1468899999
Q ss_pred ChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCCh------------hhhccccEEEEechhhHhhhcccCCCcceeeeeE
Q 002901 357 PPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDV------------EELKMYDLVLTTYSTLAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 357 P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~------------~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~r 424 (869)
|.|.+.+|+.||..|+ .+++.+|||+..... ..--+++++||||.++.++. ..|..++|..
T Consensus 428 plst~~~W~~ef~~w~---~mn~i~y~g~~~sr~~i~~ye~~~~~~~~~lkf~~lltTye~~LkDk----~~L~~i~w~~ 500 (1373)
T KOG0384|consen 428 PLSTITAWEREFETWT---DMNVIVYHGNLESRQLIRQYEFYHSSNTKKLKFNALLTTYEIVLKDK----AELSKIPWRY 500 (1373)
T ss_pred ehhhhHHHHHHHHHHh---hhceeeeecchhHHHHHHHHHheecCCccccccceeehhhHHHhccH----hhhccCCcce
Confidence 9999999999999998 799999999433110 11136899999999999987 4688999999
Q ss_pred EEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHH
Q 002901 425 VILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRL 504 (869)
Q Consensus 425 VIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L 504 (869)
+++||||++||..++.+.++..+...+|+++||||.||++.+||||++||.|+-|.....|...+ .......+..|
T Consensus 501 ~~vDeahrLkN~~~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~----~~~~e~~~~~L 576 (1373)
T KOG0384|consen 501 LLVDEAHRLKNDESKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEF----DEETEEQVRKL 576 (1373)
T ss_pred eeecHHhhcCchHHHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhh----cchhHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999998776 34567889999
Q ss_pred HHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcc
Q 002901 505 QVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTN 584 (869)
Q Consensus 505 ~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h 584 (869)
+.+|+|++|||.|+++...||++.+.++.|+||+-|++.|..+..+--. ++..|....+ .++|..++-||.||||
T Consensus 577 ~~~L~P~~lRr~kkdvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~----~LtKG~~g~~-~~lLNimmELkKccNH 651 (1373)
T KOG0384|consen 577 QQILKPFLLRRLKKDVEKSLPPKEETILRVELSDLQKQYYKAILTKNFS----ALTKGAKGST-PSLLNIMMELKKCCNH 651 (1373)
T ss_pred HHHhhHHHHHHHHhhhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHH----HHhccCCCCC-chHHHHHHHHHHhcCC
Confidence 9999999999999999999999999999999999999999999866422 3344444444 8899999999999999
Q ss_pred cCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCC
Q 002901 585 LALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLC 664 (869)
Q Consensus 585 ~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c 664 (869)
|+|+.+....+...... ....+.++.+
T Consensus 652 pyLi~gaee~~~~~~~~---~~~d~~L~~l-------------------------------------------------- 678 (1373)
T KOG0384|consen 652 PYLIKGAEEKILGDFRD---KMRDEALQAL-------------------------------------------------- 678 (1373)
T ss_pred ccccCcHHHHHHHhhhh---cchHHHHHHH--------------------------------------------------
Confidence 99997653322211100 0011111111
Q ss_pred CCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEE
Q 002901 665 RHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRL 744 (869)
Q Consensus 665 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rl 744 (869)
...|+|+-.|-++|..+++ .|+|||||||.+.|||+|+++|...||+|-||
T Consensus 679 ---------------------------I~sSGKlVLLDKLL~rLk~--~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRL 729 (1373)
T KOG0384|consen 679 ---------------------------IQSSGKLVLLDKLLPRLKE--GGHRVLIFSQMVRMLDILAEYLSLRGYPFQRL 729 (1373)
T ss_pred ---------------------------HHhcCcEEeHHHHHHHHhc--CCceEEEhHHHHHHHHHHHHHHHHcCCcceec
Confidence 1248899989999988874 48999999999999999999999999999999
Q ss_pred eCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEE
Q 002901 745 DGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLI 824 (869)
Q Consensus 745 dG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli 824 (869)
||++...-|+++|+.|+.++++. .|||+||+|||.||||++|++||+||..|||....||..|+|||||++.|.|||||
T Consensus 730 DGsvrgelRq~AIDhFnap~Sdd-FvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLV 808 (1373)
T KOG0384|consen 730 DGSVRGELRQQAIDHFNAPDSDD-FVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLV 808 (1373)
T ss_pred cCCcchHHHHHHHHhccCCCCCc-eEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEe
Confidence 99999999999999999988765 99999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCHHHHHHHHHHHHHHHHHHHHhccc-----cccccCCHHHHHHhh
Q 002901 825 VRNSIEERILELQDRKKKLAREAFRRKG-----KDQREVSTDDLRILM 867 (869)
Q Consensus 825 ~~~siEe~i~~~q~~K~~l~~~~~~~~~-----~~~~~~~~~dl~~lf 867 (869)
++||+||.|++...+|.-|-.+++.... ......+-+||..|+
T Consensus 809 Tk~TvEeEilERAk~KmvLD~aVIQ~m~t~~~~s~~~~f~K~ELsaIL 856 (1373)
T KOG0384|consen 809 TKNTVEEEILERAKLKMVLDHAVIQRMDTKGKTSKSNPFSKEELSAIL 856 (1373)
T ss_pred cCCchHHHHHHHHHHHhhhHHHHHHhhccccccCCCCCCCHHHHHHHH
Confidence 9999999999999999999999988653 355567888888875
No 11
>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]
Probab=100.00 E-value=5e-79 Score=661.88 Aligned_cols=536 Identities=27% Similarity=0.439 Sum_probs=404.1
Q ss_pred CCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 192 PPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 192 ~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
+.|..++++|..||..||.|+..... +.-.||||||||||||+|+|+++++
T Consensus 559 ~qPkil~ctLKEYQlkGLnWLvnlYd-----------------------------qGiNGILADeMGLGKTVQsisvlAh 609 (1185)
T KOG0388|consen 559 PQPKILKCTLKEYQLKGLNWLVNLYD-----------------------------QGINGILADEMGLGKTVQSISVLAH 609 (1185)
T ss_pred cCchhhhhhhHHHhhccHHHHHHHHH-----------------------------ccccceehhhhccchhHHHHHHHHH
Confidence 45678899999999999999997533 2357999999999999999999998
Q ss_pred ccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccce
Q 002901 272 DKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKI 351 (869)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (869)
..+.. .-.+|
T Consensus 610 LaE~~----------------------------------------------------------------------nIwGP 619 (1185)
T KOG0388|consen 610 LAETH----------------------------------------------------------------------NIWGP 619 (1185)
T ss_pred HHHhc----------------------------------------------------------------------cCCCc
Confidence 76432 14689
Q ss_pred EEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC---CCCCChh---------hhccccEEEEechhhHhhhcccCCCcce
Q 002901 352 TLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG---DRTQDVE---------ELKMYDLVLTTYSTLAIEESWLESPVKK 419 (869)
Q Consensus 352 tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G---~r~~~~~---------~l~~~dVVItTY~~l~~~~~~~~~~l~~ 419 (869)
.|||+|+|+|.||.+||.+|+ |.++++.|.| +|+...+ .-+.++||||||+++..+.. .|.+
T Consensus 620 FLVVtpaStL~NWaqEisrFl--P~~k~lpywGs~~eRkiLrKfw~rKnmY~rna~fhVviTSYQlvVtDek----y~qk 693 (1185)
T KOG0388|consen 620 FLVVTPASTLHNWAQEISRFL--PSFKVLPYWGSPSERKILRKFWNRKNMYRRNAPFHVVITSYQLVVTDEK----YLQK 693 (1185)
T ss_pred eEEeehHHHHhHHHHHHHHhC--ccceeecCcCChhhhHHHHHhcchhhhhccCCCceEEEEeeeeeechHH----HHHh
Confidence 999999999999999999999 9999999999 3332222 23568999999999998874 5789
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcccccc----
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQ---- 495 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~---- 495 (869)
++|...|||||+.||...|.+.+.+...++..|++||||||||+..+||+||+|+.|..|+....|+.+|.+.++.
T Consensus 694 vKWQYMILDEAQAIKSSsS~RWKtLLsF~cRNRLLLTGTPIQNsMqELWALLHFIMPsLFDshneFseWFSKdIEshAe~ 773 (1185)
T KOG0388|consen 694 VKWQYMILDEAQAIKSSSSSRWKTLLSFKCRNRLLLTGTPIQNSMQELWALLHFIMPSLFDSHNEFSEWFSKDIESHAEM 773 (1185)
T ss_pred hhhhheehhHHHHhhhhhhhHHHHHhhhhccceeeecCCccchHHHHHHHHHHHHhhHhhhchHHHHHHHhhhhHhHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999988763
Q ss_pred ---CChhhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHH
Q 002901 496 ---GNRKGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVL 572 (869)
Q Consensus 496 ---~~~~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il 572 (869)
-+...+.||+.+++||||||.|+++..+|..+++..++|+||..|+.+|+.+...+.. ....
T Consensus 774 ~~tlneqqL~RLH~ILKPFMLRRvKkdV~sELg~Kteidv~CdLs~RQ~~lYq~ik~~iS~---------------~E~~ 838 (1185)
T KOG0388|consen 774 NTTLNEQQLQRLHAILKPFMLRRVKKDVISELGQKTEIDVYCDLSYRQKVLYQEIKRSISS---------------MEME 838 (1185)
T ss_pred cCCcCHHHHHHHHHHHhHHHHHHHHHHHHHHhccceEEEEEechhHHHHHHHHHHHHHhhH---------------HHHH
Confidence 2467899999999999999999999999999999999999999999999988765431 1122
Q ss_pred HHHHHHHHhhcccCCCcccccc----cCCCCCccc---------cCCChHHHH-HHH--------HHHhcCCCCCCCccC
Q 002901 573 SILLRLRQICTNLALCPSDVRS----IIPSNTIED---------VSNNPDLLK-KLV--------EVLQDGEDFDCPICI 630 (869)
Q Consensus 573 ~~llrLRq~c~h~~l~~~~~~~----~~~~~~~~~---------~~~~~e~~~-~~~--------~~l~~~~~~~c~~c~ 630 (869)
..+++||.+|+||.|+...... +.-.+++.+ .-.-|.++. .++ +.+.......-.+.+
T Consensus 839 ~~vmQlrKVCNHPdLFer~e~~s~L~~~V~~nl~dv~S~Grnpi~ykiP~L~~~d~le~~~fniye~i~~~~g~~~~v~G 918 (1185)
T KOG0388|consen 839 NLVMQLRKVCNHPDLFERLEPRSGLSLEVSDNLGDVVSFGRNPIDYKIPSLVAKDALEMFRFNIYEMIERINGLRRIVNG 918 (1185)
T ss_pred HHHHHHHHhcCChHHHhhcCCcceeEEEcccCHHHHHhCCCCceeecchHHHHHHHHHHHHHhHHHHHHHHhhhHhhhcC
Confidence 3789999999999998643111 001111110 001111111 111 111100000000000
Q ss_pred CCCCc----cee-cccCCc---------------------cchhHHHHhhhcc--------CCCCCCCCCCcc-CCCccc
Q 002901 631 SPPSD----III-TCCAHI---------------------FCRSCILKTLQHT--------KPCCPLCRHPLL-QSDLFS 675 (869)
Q Consensus 631 ~~~~~----~~~-t~c~h~---------------------~c~~ci~~~~~~~--------~~~cp~c~~~~~-~~~~~~ 675 (869)
+.+.. .++ ..-+.. .-.+...+++... .+..|..+.+-. -.....
T Consensus 919 eg~~~w~~~l~~e~k~G~~~~~n~e~~~Kavtr~ll~p~~~~~e~~~rvi~~e~~~L~~~~y~y~P~v~apPvLI~~ead 998 (1185)
T KOG0388|consen 919 EGPNAWYLRLSLEFKYGGYVFRNVEEAGKAVTRNLLNPESSLLESMRRVIDEEAYRLQRHVYCYSPVVAAPPVLISNEAD 998 (1185)
T ss_pred CCcchhcccceeeeccCCcccccHHHHHHHHHHHhcCcccchhHHHHHHhhHHHHHhhhheeeeccccCCCCeeeecccC
Confidence 00000 000 000000 0011111122111 111233222110 011111
Q ss_pred CC---CCCCCcccccc------cccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeC
Q 002901 676 SP---PESSDMDIAGK------TLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDG 746 (869)
Q Consensus 676 ~~---~~~~~~~~~~~------~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG 746 (869)
.| .+......... ..-...|+|+..|-++|.+++++ |+++|+|.|.|.|+|+|+++|...|+.|.|+||
T Consensus 999 ~PeId~E~~~~pLn~~i~~Ppm~~FitdSgKL~~LDeLL~kLkae--gHRvL~yfQMTkM~dl~EdYl~yr~Y~ylRLDG 1076 (1185)
T KOG0388|consen 999 LPEIDLENRHIPLNTTIYVPPMNTFITDSGKLVVLDELLPKLKAE--GHRVLMYFQMTKMIDLIEDYLVYRGYTYLRLDG 1076 (1185)
T ss_pred CCCCCccccCcccccceecCcHHhhhccccceeeHHHHHHHhhcC--CceEEehhHHHHHHHHHHHHHHhhccceEEecC
Confidence 11 00000000000 00123599999999999998754 999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 747 SMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 747 ~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
+.+..+|..++..|+.+ .+.|||+|++|||.|+|||+|++|||||..|||....||+||+||+||+|+|+||||+++
T Consensus 1077 Ssk~~dRrd~vrDwQ~s---diFvFLLSTRAGGLGINLTAADTViFYdSDWNPT~D~QAMDRAHRLGQTrdvtvyrl~~r 1153 (1185)
T KOG0388|consen 1077 SSKASDRRDVVRDWQAS---DIFVFLLSTRAGGLGINLTAADTVIFYDSDWNPTADQQAMDRAHRLGQTRDVTVYRLITR 1153 (1185)
T ss_pred cchhhHHHHHHhhccCC---ceEEEEEecccCcccccccccceEEEecCCCCcchhhHHHHHHHhccCccceeeeeeccc
Confidence 99999999999999994 459999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhccc
Q 002901 827 NSIEERILELQDRKKKLAREAFRRKG 852 (869)
Q Consensus 827 ~siEe~i~~~q~~K~~l~~~~~~~~~ 852 (869)
+||||+|++....|......++.++.
T Consensus 1154 gTvEEk~l~rA~qK~~vQq~Vm~G~~ 1179 (1185)
T KOG0388|consen 1154 GTVEEKVLERANQKDEVQQMVMHGNI 1179 (1185)
T ss_pred ccHHHHHHHHhhhHHHHHHHHHcCCc
Confidence 99999999999999999888887753
No 12
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=100.00 E-value=5.6e-75 Score=663.91 Aligned_cols=495 Identities=29% Similarity=0.418 Sum_probs=399.0
Q ss_pred ccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccC
Q 002901 195 EVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 195 ~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~ 274 (869)
+.++..|||||++|+.||.+.-.+ ...|....|+|+||+||+|||+++|++|.+...
T Consensus 233 P~l~~~LrPHQ~EG~~FL~knl~g-----------------------~~~~~~~~GCImAd~~GlGKTlq~IsflwtlLr 289 (776)
T KOG0390|consen 233 PLLKKILRPHQREGFEFLYKNLAG-----------------------LIRPKNSGGCIMADEPGLGKTLQCISFIWTLLR 289 (776)
T ss_pred ccHhhhcCchHHHHHHHHHhhhhc-----------------------ccccCCCCceEeeCCCCcchHHHHHHHHHHHHH
Confidence 567889999999999999763221 122335689999999999999999999999885
Q ss_pred CCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEE
Q 002901 275 AGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLI 354 (869)
Q Consensus 275 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLI 354 (869)
..|..+ ......||
T Consensus 290 q~P~~~------------------------------------------------------------------~~~~k~lV 303 (776)
T KOG0390|consen 290 QFPQAK------------------------------------------------------------------PLINKPLV 303 (776)
T ss_pred hCcCcc------------------------------------------------------------------ccccccEE
Confidence 541000 02356899
Q ss_pred ecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCCh----------hhhccccEEEEechhhHhhhcccCCCcceeeeeE
Q 002901 355 VCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDV----------EELKMYDLVLTTYSTLAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 355 V~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~----------~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~r 424 (869)
|||.+|+.||++||.+|..+..+..+..+|...... ...-.+-|.+.+|++++.... .+....+++
T Consensus 304 V~P~sLv~nWkkEF~KWl~~~~i~~l~~~~~~~~~w~~~~sil~~~~~~~~~~vli~sye~~~~~~~----~il~~~~gl 379 (776)
T KOG0390|consen 304 VAPSSLVNNWKKEFGKWLGNHRINPLDFYSTKKSSWIKLKSILFLGYKQFTTPVLIISYETASDYCR----KILLIRPGL 379 (776)
T ss_pred EccHHHHHHHHHHHHHhccccccceeeeecccchhhhhhHHHHHhhhhheeEEEEeccHHHHHHHHH----HHhcCCCCe
Confidence 999999999999999999766888998888333200 111235688999999986663 356778899
Q ss_pred EEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCCh------
Q 002901 425 VILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNR------ 498 (869)
Q Consensus 425 VIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~------ 498 (869)
+|+||||+.||..+...+++..|+.++|++|||||+||++.|+|++++|.+|+.++....|.+.+..|+..+..
T Consensus 380 LVcDEGHrlkN~~s~~~kaL~~l~t~rRVLLSGTp~QNdl~EyFnlL~fvrP~~Lgs~~sf~k~~~~~i~~~~~~~~s~e 459 (776)
T KOG0390|consen 380 LVCDEGHRLKNSDSLTLKALSSLKTPRRVLLTGTPIQNDLKEYFNLLDFVRPGFLGSISSFKKKFEIPILRGRDADASEE 459 (776)
T ss_pred EEECCCCCccchhhHHHHHHHhcCCCceEEeeCCcccccHHHHHHHHhhcChhhccchHHHHHHhhcccccccCCCcchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999998875332
Q ss_pred -----hhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHH
Q 002901 499 -----KGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLS 573 (869)
Q Consensus 499 -----~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~ 573 (869)
..+..|..++..|++||+-+.....||++.+.++.+.+++-|+.+|..+.... . ... ...+ .|.
T Consensus 460 ~~~~~~rl~eL~~~t~~fi~rrt~~il~k~LP~k~e~vv~~n~t~~Q~~~~~~l~~~~-~-~~~-------~~~~--~l~ 528 (776)
T KOG0390|consen 460 DREREERLQELRELTNKFILRRTGDILLKYLPGKYEYVVFCNPTPIQKELYKKLLDSM-K-MRT-------LKGY--ALE 528 (776)
T ss_pred hhhhHHHHHHHHHHHHhheeecccchhhhhCCCceeEEEEeCCcHHHHHHHHHHHHHH-H-hhh-------hhcc--hhh
Confidence 22667899999999999997777799999999999999999999999987653 1 111 1111 688
Q ss_pred HHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHh
Q 002901 574 ILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKT 653 (869)
Q Consensus 574 ~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~ 653 (869)
.++.|+++|+||.|+..... ... +....++..
T Consensus 529 ~~~~L~k~cnhP~L~~~~~~--~~~---e~~~~~~~~------------------------------------------- 560 (776)
T KOG0390|consen 529 LITKLKKLCNHPSLLLLCEK--TEK---EKAFKNPAL------------------------------------------- 560 (776)
T ss_pred HHHHHHHHhcCHHhhccccc--ccc---cccccChHh-------------------------------------------
Confidence 89999999999999742100 000 000000000
Q ss_pred hhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHH
Q 002901 654 LQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEP 733 (869)
Q Consensus 654 ~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~ 733 (869)
+... ............|.|+..|+.+|...+ +....|+++.|+++.++|+++..
T Consensus 561 -------------------~~~~------~~~~~~~~~~~ks~kl~~L~~ll~~~~-ek~~~~~v~Isny~~tldl~e~~ 614 (776)
T KOG0390|consen 561 -------------------LLDP------GKLKLDAGDGSKSGKLLVLVFLLEVIR-EKLLVKSVLISNYTQTLDLFEQL 614 (776)
T ss_pred -------------------hhcc------cccccccccchhhhHHHHHHHHHHHHh-hhcceEEEEeccHHHHHHHHHHH
Confidence 0000 000000112234889999999986554 34578999999999999999999
Q ss_pred HHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcC
Q 002901 734 LQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIG 813 (869)
Q Consensus 734 L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiG 813 (869)
++..|+.++|+||+|+.++|+.+|+.||++.... +|||+|++|||+||||++|||||+|||.||||++.|||+||||.|
T Consensus 615 ~~~~g~~~~rLdG~~~~~qRq~~vd~FN~p~~~~-~vfLlSsKAgg~GinLiGAsRlil~D~dWNPa~d~QAmaR~~RdG 693 (776)
T KOG0390|consen 615 CRWRGYEVLRLDGKTSIKQRQKLVDTFNDPESPS-FVFLLSSKAGGEGLNLIGASRLILFDPDWNPAVDQQAMARAWRDG 693 (776)
T ss_pred HhhcCceEEEEcCCCchHHHHHHHHhccCCCCCc-eEEEEecccccCceeecccceEEEeCCCCCchhHHHHHHHhccCC
Confidence 9999999999999999999999999999975533 999999999999999999999999999999999999999999999
Q ss_pred CcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhC
Q 002901 814 QKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMS 868 (869)
Q Consensus 814 Q~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~ 868 (869)
|+|+|+||||++.||+||+|+++|..|..|...+|+.....-+....++++.||+
T Consensus 694 QKk~v~iYrLlatGtiEEk~~qrq~~K~~lS~~v~~~~~~~~~~~~~~~~~~lf~ 748 (776)
T KOG0390|consen 694 QKKPVYIYRLLATGTIEEKIYQRQTHKEGLSSMVFDEEEDVEKHFFTEDLKTLFD 748 (776)
T ss_pred CcceEEEEEeecCCCchHHHHHHHHHhhhhhheEEecccccccccchHHHHHHHh
Confidence 9999999999999999999999999999999999998865445555689998885
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-76 Score=664.57 Aligned_cols=465 Identities=29% Similarity=0.465 Sum_probs=402.0
Q ss_pred cCCCCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHH
Q 002901 189 AMEPPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSL 268 (869)
Q Consensus 189 ~~~~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lal 268 (869)
+..+|+.....+|++||..||.||+...+.. ..||||||||||||+|+|+|
T Consensus 383 v~~Qps~l~GG~Lk~YQl~GLqWmVSLyNNn-----------------------------LNGILADEMGLGKTIQtIsL 433 (1157)
T KOG0386|consen 383 VAKQPSSLQGGELKEYQLHGLQWMVSLYNNN-----------------------------LNGILADEMGLGKTIQTISL 433 (1157)
T ss_pred cccCcchhcCCCCchhhhhhhHHHhhccCCC-----------------------------cccccchhcccchHHHHHHH
Confidence 3456777788899999999999999865522 47999999999999999999
Q ss_pred HHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccc
Q 002901 269 IALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMG 348 (869)
Q Consensus 269 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 348 (869)
|++.++.. ..
T Consensus 434 itYLmE~K----------------------------------------------------------------------~~ 443 (1157)
T KOG0386|consen 434 ITYLMEHK----------------------------------------------------------------------QM 443 (1157)
T ss_pred HHHHHHHc----------------------------------------------------------------------cc
Confidence 99987432 15
Q ss_pred cceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeC---CCCCChhhh--ccccEEEEechhhHhhhcccCCCcceeeee
Q 002901 349 KKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG---DRTQDVEEL--KMYDLVLTTYSTLAIEESWLESPVKKIEWW 423 (869)
Q Consensus 349 ~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G---~r~~~~~~l--~~~dVVItTY~~l~~~~~~~~~~l~~~~w~ 423 (869)
.+|.|||||.|+|.||..||.+|. |++....|.| .|......+ .+++|++|||.-+..+. ..|.+++|.
T Consensus 444 ~GP~LvivPlstL~NW~~Ef~kWa--PSv~~i~YkGtp~~R~~l~~qir~gKFnVLlTtyEyiikdk----~lLsKI~W~ 517 (1157)
T KOG0386|consen 444 QGPFLIIVPLSTLVNWSSEFPKWA--PSVQKIQYKGTPQQRSGLTKQQRHGKFNVLLTTYEYIIKDK----ALLSKISWK 517 (1157)
T ss_pred CCCeEEeccccccCCchhhccccc--cceeeeeeeCCHHHHhhHHHHHhcccceeeeeeHHHhcCCH----HHHhccCCc
Confidence 688999999999999999999999 9999999999 333332222 68999999999999876 568999999
Q ss_pred EEEEcCccccCCcChHHHHHHh-hcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCCh----
Q 002901 424 RVILDEAHVIKNANAQQSRTVT-NLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNR---- 498 (869)
Q Consensus 424 rVIlDEaH~ikn~~s~~~ka~~-~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~---- 498 (869)
.+||||+|++||..++.+..+. ...+.+|++|||||+||++.+||+||+||-|..|+....|..+|..||.+...
T Consensus 518 yMIIDEGHRmKNa~~KLt~~L~t~y~~q~RLLLTGTPLQN~LpELWaLLNFlLP~IFnS~~~FeqWFN~PFantGek~eL 597 (1157)
T KOG0386|consen 518 YMIIDEGHRMKNAICKLTDTLNTHYRAQRRLLLTGTPLQNNLPELWALLNFLLPNIFNSCKAFEQWFNQPFANTGEKVEL 597 (1157)
T ss_pred ceeecccccccchhhHHHHHhhccccchhhhhhcCChhhhccHHHHHHHHHhccchhhhHhHHHHHhhhhhhhcCCcccc
Confidence 9999999999999999999888 56899999999999999999999999999999999999999999999985431
Q ss_pred ------hhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHH
Q 002901 499 ------KGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVL 572 (869)
Q Consensus 499 ------~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il 572 (869)
-.+.||+.+++||+|||.|+++-..||.+++.++.|+||.-|+.+|..+.+...-..+. ......+..+.
T Consensus 598 teEEtlLIIrRLHkVLRPFlLRRlKkeVE~~LPdKve~viKC~mSalQq~lY~~m~~~g~l~~d~----~~g~~g~k~L~ 673 (1157)
T KOG0386|consen 598 TEEETLLIIRRLHKVLRPFLLRRLKKEVEQELPDKVEDVIKCDMSALQQSLYKQMQNKGQLLKDT----AKGKKGYKPLF 673 (1157)
T ss_pred cchHHHHHHHHHHHhhhHHHHHhhhHHHhhhCchhhhHhhheehhhhhHhhhHHHHhCCCCCcCc----hhccccchhhh
Confidence 24679999999999999999999999999999999999999999999876443211111 12345677788
Q ss_pred HHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHH
Q 002901 573 SILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILK 652 (869)
Q Consensus 573 ~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~ 652 (869)
..++.||.+||||.++......
T Consensus 674 N~imqLRKiCNHP~lf~~ve~~---------------------------------------------------------- 695 (1157)
T KOG0386|consen 674 NTIMQLRKLCNHPYLFANVENS---------------------------------------------------------- 695 (1157)
T ss_pred hHhHHHHHhcCCchhhhhhccc----------------------------------------------------------
Confidence 8999999999999987432110
Q ss_pred hhhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHH
Q 002901 653 TLQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEE 732 (869)
Q Consensus 653 ~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~ 732 (869)
|-.|... .+ -...|+|++.|-.+|-++++. |++++.|+|.|..+++++.
T Consensus 696 --------~~~~~~~---~d------------------L~R~sGKfELLDRiLPKLkat--gHRVLlF~qMTrlmdimEd 744 (1157)
T KOG0386|consen 696 --------YTLHYDI---KD------------------LVRVSGKFELLDRILPKLKAT--GHRVLLFSQMTRLMDILED 744 (1157)
T ss_pred --------cccccCh---hH------------------HHHhccHHHHHHhhhHHHHhc--CcchhhHHHHHHHHHHHHH
Confidence 0000000 00 022489999999999998754 9999999999999999999
Q ss_pred HHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhc
Q 002901 733 PLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRI 812 (869)
Q Consensus 733 ~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRi 812 (869)
+|.-.+++|.|+||+++.++|...++.|+.++.+. ++||+|++|||.||||+.|++||++|+.|||..+.||.+|+|||
T Consensus 745 yL~~~~~kYlRLDG~TK~~eRg~ll~~FN~Pds~y-f~FllstragglglNlQtadtviifdsdwnp~~d~qaqdrahri 823 (1157)
T KOG0386|consen 745 YLQIREYKYLRLDGQTKVEERGDLLEIFNAPDSPY-FIFLLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRI 823 (1157)
T ss_pred HHhhhhhheeeecCCcchhhHHHHHHHhcCCCCce-eeeeeeecccccccchhhcceEEEecCCCCchhHHHHHHHHHHh
Confidence 99999999999999999999999999999988754 99999999999999999999999999999999999999999999
Q ss_pred CCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccc
Q 002901 813 GQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRKG 852 (869)
Q Consensus 813 GQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~ 852 (869)
||+++|.|+|+++-+|+||+|++.+..|.++...++..+.
T Consensus 824 gq~~evRv~rl~tv~sveE~il~~a~~Kl~~d~kviqag~ 863 (1157)
T KOG0386|consen 824 GQKKEVRVLRLITVNSVEEKILAEAFYKLDVDGKVIQAGK 863 (1157)
T ss_pred hchhheeeeeeehhhHHHHHHHHHHHHhcCchHhhhhccc
Confidence 9999999999999999999999999999999999988764
No 14
>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]
Probab=100.00 E-value=6.9e-68 Score=589.04 Aligned_cols=564 Identities=24% Similarity=0.283 Sum_probs=402.0
Q ss_pred CcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhc
Q 002901 193 PKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 193 ~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~ 272 (869)
.+..|...|.|||..|+.||...-- + .+ ....-.+..|||||+-||||||+|+|+++++.
T Consensus 661 V~rslv~kLKpHQv~GvqFMwd~~~--------e--------Sl----kr~~~~~GsGcILAHcMGLGKTlQVvtflhTv 720 (1567)
T KOG1015|consen 661 VHRSLVIKLKPHQVDGVQFMWDCCC--------E--------SL----KRTKKSPGSGCILAHCMGLGKTLQVVTFLHTV 720 (1567)
T ss_pred ccHhHHhhcCcccccchhHHHHHHH--------H--------HH----HhhcCCCCcchHHHHhhcccceehhhHHHHHH
Confidence 4456788999999999999975210 0 00 00012345799999999999999999999887
Q ss_pred cCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceE
Q 002901 273 KCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKIT 352 (869)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t 352 (869)
+... ....+++
T Consensus 721 L~c~---------------------------------------------------------------------klg~kta 731 (1567)
T KOG1015|consen 721 LLCD---------------------------------------------------------------------KLGFKTA 731 (1567)
T ss_pred HHhh---------------------------------------------------------------------ccCCceE
Confidence 6322 0156789
Q ss_pred EEecChhHHHHHHHHHHHhcCC----CCeEEEEEeC-CCCCCh-----hhhccccEEEEechhhHhhhcc----------
Q 002901 353 LIVCPPSVFSTWITQLEEHTVP----GMLKTYMYYG-DRTQDV-----EELKMYDLVLTTYSTLAIEESW---------- 412 (869)
Q Consensus 353 LIV~P~sll~qW~~Ei~~~~~~----~~l~v~~y~G-~r~~~~-----~~l~~~dVVItTY~~l~~~~~~---------- 412 (869)
|||||.+++.||.+||++|... ..+.|+.... .+..+. .+..+-.|.|..|..+++....
T Consensus 732 LvV~PlNt~~NW~~EFekWm~~~e~~~~leV~eL~~vkr~e~R~~~L~~W~~~ggVmIiGYdmyRnLa~gr~vk~rk~ke 811 (1567)
T KOG1015|consen 732 LVVCPLNTALNWMNEFEKWMEGLEDDEKLEVSELATVKRPEERSYMLQRWQEDGGVMIIGYDMYRNLAQGRNVKSRKLKE 811 (1567)
T ss_pred EEEcchHHHHHHHHHHHHhcccccccccceeehhhhccChHHHHHHHHHHHhcCCEEEEehHHHHHHhcccchhhhHHHH
Confidence 9999999999999999999952 1344444433 332211 2234568999999999875421
Q ss_pred -cCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcc
Q 002901 413 -LESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQR 491 (869)
Q Consensus 413 -~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~ 491 (869)
+...|..-..++||+||||.+||..|..++|+..+.+.||++|||||+||+|.++|.+++|++++.++....|.+.|..
T Consensus 812 ~f~k~lvdpGPD~vVCDE~HiLKNeksa~Skam~~irtkRRI~LTGTPLQNNLmEY~CMVnFVKe~lLGs~~EfrNRFvN 891 (1567)
T KOG1015|consen 812 IFNKALVDPGPDFVVCDEGHILKNEKSAVSKAMNSIRTKRRIILTGTPLQNNLMEYHCMVNFVKENLLGSIKEFRNRFVN 891 (1567)
T ss_pred HHHHhccCCCCCeEEecchhhhccchHHHHHHHHHHHhheeEEeecCchhhhhHHHHHHHHhcccccccCcHHHHHhhcC
Confidence 1234556678899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCh------------hhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHH
Q 002901 492 PLAQGNR------------KGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYI 559 (869)
Q Consensus 492 p~~~~~~------------~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~ 559 (869)
|+.+|.. .....|..+|..++-|+-..-.-..|||++++++.+.+|+-|..+|+.+....-
T Consensus 892 pI~nGq~~dST~~DVr~Mk~RsHILye~LkgcVqRkDy~Vltk~LPPK~eyVi~vrltelQ~~LYq~yL~h~~------- 964 (1567)
T KOG1015|consen 892 PIQNGQCADSTMVDVRVMKKRSHILYEMLKGCVQRKDYTVLTKFLPPKHEYVIAVRLTELQCKLYQYYLDHLT------- 964 (1567)
T ss_pred ccccCccCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccCCCceeEEEEEeccHHHHHHHHHHHhhcc-------
Confidence 9998753 234467788888888887776667999999999999999999999998865211
Q ss_pred hcC-Cc---ccchHHHHHHHHHHHHhhcccCCCccccccc-----CCCCCccccCCChHHHHHHHHHHhc---------C
Q 002901 560 NAG-SL---MRNYSTVLSILLRLRQICTNLALCPSDVRSI-----IPSNTIEDVSNNPDLLKKLVEVLQD---------G 621 (869)
Q Consensus 560 ~~~-~~---~~~~~~il~~llrLRq~c~h~~l~~~~~~~~-----~~~~~~~~~~~~~e~~~~~~~~l~~---------~ 621 (869)
..| +. ......+++.+.-|++|.+||..+..+.... ....+. ...+.+ .
T Consensus 965 ~~G~d~eg~~g~~arlf~dfqmlsrIwtHP~~lqL~s~~~enkR~~seddm-------------~~fi~D~sde~e~s~~ 1031 (1567)
T KOG1015|consen 965 GVGNDSEGGRGAGARLFQDFQMLSRIWTHPWCLQLDSISKENKRYFSEDDM-------------DEFIADDSDETEMSLS 1031 (1567)
T ss_pred ccCCccccccchhhhHHHHHHHHHHHhcCCCceeechhhhhhcccccccch-------------hccccCCCcccccccc
Confidence 111 11 1255678899999999999998765331110 000000 000000 0
Q ss_pred CCCCCCccCC---CCCcceecccCCccchhHHHHhhhccC-----------CCCCCCCCCccC------CCcccCCCCCC
Q 002901 622 EDFDCPICIS---PPSDIIITCCAHIFCRSCILKTLQHTK-----------PCCPLCRHPLLQ------SDLFSSPPESS 681 (869)
Q Consensus 622 ~~~~c~~c~~---~~~~~~~t~c~h~~c~~ci~~~~~~~~-----------~~cp~c~~~~~~------~~~~~~~~~~~ 681 (869)
.+..|..--+ ...+.-+..-+..--.+ +.+...... ..-|.-...+.. ..-.+.||+.-
T Consensus 1032 s~d~~~~~ks~~~s~~Desss~~~~~g~~e-v~k~k~rk~r~~~~~~~~~~g~~~D~~l~ll~dlag~~s~~~d~ppew~ 1110 (1567)
T KOG1015|consen 1032 SDDYTKKKKSGKKSKKDESSSGSGSDGDVE-VIKVKNRKSRGGGEGNVDETGNNPDVSLKLLEDLAGSSSNPSDPPPEWY 1110 (1567)
T ss_pred ccchhhcccccccccccccccccccCCchh-hhhhhhhhccccccCcccccCCCcchHHHHhhcccccccCCCCCchHhH
Confidence 0000100000 00000000000000000 000000000 000000000000 00000111110
Q ss_pred C-cccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc----------------------C
Q 002901 682 D-MDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA----------------------G 738 (869)
Q Consensus 682 ~-~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~----------------------g 738 (869)
. ............|+|+-.|+++|.... .-|.|+|||||....||+|+.+|... |
T Consensus 1111 kd~v~e~d~~v~~~SgKmiLLleIL~mce--eIGDKlLVFSQSL~SLdLIe~fLe~v~r~gk~~~d~~~~~~~eGkW~~G 1188 (1567)
T KOG1015|consen 1111 KDFVTEADAEVLEHSGKMILLLEILRMCE--EIGDKLLVFSQSLISLDLIEDFLELVSREGKEDKDKPLIYKGEGKWLRG 1188 (1567)
T ss_pred HhhhhhhhhhhhhcCcceehHHHHHHHHH--HhcceeEEeecccchhHHHHHHHHhhcccCccccccccccccccceecC
Confidence 0 000011112456999999999999765 34899999999999999999999742 5
Q ss_pred CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 739 FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 739 i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
..|.||||+++..+|.++.++||++.+-..+.+|||++||+.|+||.+|||||++|-.|||+-..|+|-||+|.||+|||
T Consensus 1189 kDyyriDGst~s~~R~k~~~~FNdp~NlRaRl~LISTRAGsLGiNLvAANRVIIfDasWNPSyDtQSIFRvyRfGQtKPv 1268 (1567)
T KOG1015|consen 1189 KDYYRLDGSTTSQSRKKWAEEFNDPTNLRARLFLISTRAGSLGINLVAANRVIIFDASWNPSYDTQSIFRVYRFGQTKPV 1268 (1567)
T ss_pred CceEEecCcccHHHHHHHHHHhcCcccceeEEEEEeeccCccccceeecceEEEEecccCCccchHHHHHHHhhcCcCce
Confidence 67999999999999999999999987666789999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhhCC
Q 002901 819 KIVRLIVRNSIEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILMSL 869 (869)
Q Consensus 819 ~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf~~ 869 (869)
+|||||+.||+||+|+++|-.|..++..+++.. .-.+..+.+||-.||.+
T Consensus 1269 yiYRfiAqGTmEeKIYkRQVTKqsls~RVVDeq-Qv~Rhy~~neLteLy~f 1318 (1567)
T KOG1015|consen 1269 YIYRFIAQGTMEEKIYKRQVTKQSLSFRVVDEQ-QVERHYTMNELTELYTF 1318 (1567)
T ss_pred eehhhhhcccHHHHHHHHHHhHhhhhhhhhhHH-HHHHHhhHhhhHHHhhc
Confidence 999999999999999999999999999999986 44467889999999853
No 15
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=100.00 E-value=2.8e-66 Score=646.90 Aligned_cols=492 Identities=39% Similarity=0.563 Sum_probs=408.0
Q ss_pred ccccccChHHHHHHHHHHHH-hhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 195 EVIKSELFVHQKEGLGWLVR-RENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 195 ~~~~~~L~p~Q~~al~wm~~-~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
..+...|+|||.+|+.||.. ... ...||||||+||||||+|+|+++.+..
T Consensus 333 ~~~~~~lr~yq~~g~~wl~~~l~~-----------------------------~~~~~ilaD~mglGKTiq~i~~l~~~~ 383 (866)
T COG0553 333 VDLSAELRPYQLEGVNWLSELLRS-----------------------------NLLGGILADDMGLGKTVQTIALLLSLL 383 (866)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHh-----------------------------ccCCCcccccccchhHHHHHHHHHhhh
Confidence 56778999999999999983 211 126999999999999999999998743
Q ss_pred CCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEE
Q 002901 274 CAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITL 353 (869)
Q Consensus 274 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tL 353 (869)
... ....+++|
T Consensus 384 ~~~---------------------------------------------------------------------~~~~~~~l 394 (866)
T COG0553 384 ESI---------------------------------------------------------------------KVYLGPAL 394 (866)
T ss_pred hcc---------------------------------------------------------------------cCCCCCeE
Confidence 211 00246899
Q ss_pred EecChhHHHHHHHHHHHhcCCCCeE-EEEEeCCCC------CChhhhcc------ccEEEEechhhHh---hhcccCCCc
Q 002901 354 IVCPPSVFSTWITQLEEHTVPGMLK-TYMYYGDRT------QDVEELKM------YDLVLTTYSTLAI---EESWLESPV 417 (869)
Q Consensus 354 IV~P~sll~qW~~Ei~~~~~~~~l~-v~~y~G~r~------~~~~~l~~------~dVVItTY~~l~~---~~~~~~~~l 417 (869)
||||.+++.||.+|+.+|. +.++ +.+|+|... .....+.+ +|+++|||+.+.. +. ..+
T Consensus 395 iv~p~s~~~nw~~e~~k~~--~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~v~itty~~l~~~~~~~----~~l 468 (866)
T COG0553 395 IVVPASLLSNWKREFEKFA--PDLRLVLVYHGEKSELDKKREALRDLLKLHLVIIFDVVITTYELLRRFLVDH----GGL 468 (866)
T ss_pred EEecHHHHHHHHHHHhhhC--ccccceeeeeCCcccccHHHHHHHHHhhhcccceeeEEechHHHHHHhhhhH----HHH
Confidence 9999999999999999998 7777 999999442 22333333 8999999999999 55 568
Q ss_pred ceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhh-hhccCCCC-chHHHHHHhcccccc
Q 002901 418 KKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMA-FLQFEPFS-VKSYWQSLIQRPLAQ 495 (869)
Q Consensus 418 ~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~-fL~~~~~~-~~~~f~~~~~~p~~~ 495 (869)
..+.|+++|+||||.|||..|..+++++.+++.+||+|||||++|++.+||++++ |+.|..++ ....|...|..|...
T Consensus 469 ~~~~~~~~v~DEa~~ikn~~s~~~~~l~~~~~~~~~~LtgTPlen~l~eL~sl~~~f~~p~~~~~~~~~f~~~~~~~~~~ 548 (866)
T COG0553 469 KKIEWDRVVLDEAHRIKNDQSSEGKALQFLKALNRLDLTGTPLENRLGELWSLLQEFLNPGLLGTSFAIFTRLFEKPIQA 548 (866)
T ss_pred hhceeeeeehhhHHHHhhhhhHHHHHHHHHhhcceeeCCCChHhhhHHHHHHHHHHHhCCccccchHHHHHHHHhhhhhh
Confidence 9999999999999999999999999999999999999999999999999999999 99999998 559999999999875
Q ss_pred CCh--------hhHHHHHHHHhhhhhhccCCC--CCcCCCCceEEEEEEeCCHHHHHHHHHHHH---HHHHHHHHHHhcC
Q 002901 496 GNR--------KGLSRLQVLMSTISLRRTKDK--GLIGLQPKTIEKYYVELSLEERKLYDELEG---KAKGVVQDYINAG 562 (869)
Q Consensus 496 ~~~--------~~~~~L~~ll~~~~lRRtk~~--~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~---~~~~~~~~~~~~~ 562 (869)
... ..+.+|+.++.+|+|||+|.+ ++.+||++.+.++.++++..|+.+|..+.. .....+......+
T Consensus 549 ~~~~~~~~~~~~~~~~l~~~i~~f~lrr~k~~~~v~~~Lp~k~e~~~~~~l~~~q~~~y~~~~~~~~~~~~~~~~~~~~~ 628 (866)
T COG0553 549 EEDIGPLEARELGIELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELSEEQRELYEALLEGAEKNQQLLEDLEKAD 628 (866)
T ss_pred cccccchhhHHHHHHHHHHHHHHHhhcccccchhHHHhCChhhhhhhhhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 443 345558899999999999999 777999999999999999999999999988 5555555544332
Q ss_pred Cc--cc--chHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCccee
Q 002901 563 SL--MR--NYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIII 638 (869)
Q Consensus 563 ~~--~~--~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~ 638 (869)
.. .. ...+++..+++||++|+||.++....... .+..+.....+...
T Consensus 629 ~~~~~~~~~~~~~l~~~~~lr~~~~~p~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~ 679 (866)
T COG0553 629 SDENRIGDSELNILALLTRLRQICNHPALVDEGLEAT-----------------------------FDRIVLLLREDKDF 679 (866)
T ss_pred cccccccchhhHHHHHHHHHHHhccCccccccccccc-----------------------------cchhhhhhhccccc
Confidence 11 11 37789999999999999999986541000 00000000000000
Q ss_pred cccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCc-chHHHHHHHH-HHhhhcCCCC-
Q 002901 639 TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTS-SKVSALLTLL-LQLRDKKPTT- 715 (869)
Q Consensus 639 t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s-~K~~~L~~~L-~~~~~~~~~~- 715 (869)
..|.|.. ...| .|+..+.++| .....+ +.
T Consensus 680 ~~~~~~~----------------------------------------------~~~s~~k~~~l~~ll~~~~~~~--~~~ 711 (866)
T COG0553 680 DYLKKPL----------------------------------------------IQLSKGKLQALDELLLDKLLEE--GHY 711 (866)
T ss_pred ccccchh----------------------------------------------hhccchHHHHHHHHHHHHHHhh--ccc
Confidence 0111111 2235 8999999999 566544 66
Q ss_pred -eEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEc
Q 002901 716 -KSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLE 794 (869)
Q Consensus 716 -K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~d 794 (869)
|+||||||+.++++|+..|+..++.++++||+++.++|..++++|+++ ....||++|++|||+||||+.|++||++|
T Consensus 712 ~kvlifsq~t~~l~il~~~l~~~~~~~~~ldG~~~~~~r~~~i~~f~~~--~~~~v~lls~kagg~glnLt~a~~vi~~d 789 (866)
T COG0553 712 HKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTPAKRRQELIDRFNAD--EEEKVFLLSLKAGGLGLNLTGADTVILFD 789 (866)
T ss_pred ccEEEEeCcHHHHHHHHHHHHhcCCcEEEEeCCCChhhHHHHHHHhhcC--CCCceEEEEecccccceeecccceEEEec
Confidence 999999999999999999999999999999999999999999999995 34599999999999999999999999999
Q ss_pred CCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhc-cccccccCCHHHHHHhhCC
Q 002901 795 PWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRR-KGKDQREVSTDDLRILMSL 869 (869)
Q Consensus 795 p~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~-~~~~~~~~~~~dl~~lf~~ 869 (869)
|||||+++.||++|+||+||+++|.||||+++|||||+|+++|..|+.+...+++. ..+.......+++..||.+
T Consensus 790 ~~wnp~~~~Qa~dRa~RigQ~~~v~v~r~i~~~tiEe~i~~~~~~K~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~ 865 (866)
T COG0553 790 PWWNPAVELQAIDRAHRIGQKRPVKVYRLITRGTIEEKILELQEKKQELLDSLIDAEGEKELSKLSIEDLLDLFSL 865 (866)
T ss_pred cccChHHHHHHHHHHHHhcCcceeEEEEeecCCcHHHHHHHHHHHHHHHHHHHhhhhcccchhhccHHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999996 6677888999999999864
No 16
>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]
Probab=100.00 E-value=3.7e-58 Score=484.49 Aligned_cols=420 Identities=25% Similarity=0.348 Sum_probs=334.9
Q ss_pred ccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccC
Q 002901 195 EVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 195 ~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~ 274 (869)
+.+...|+|||++|+.|.++|. ...+||||||||||+|||++....+
T Consensus 193 ~kLvs~LlPFQreGv~faL~Rg--------------------------------GR~llADeMGLGKTiQAlaIA~yyr- 239 (689)
T KOG1000|consen 193 PKLVSRLLPFQREGVIFALERG--------------------------------GRILLADEMGLGKTIQALAIARYYR- 239 (689)
T ss_pred HHHHHhhCchhhhhHHHHHhcC--------------------------------CeEEEecccccchHHHHHHHHHHHh-
Confidence 3467789999999999999863 2578999999999999999998876
Q ss_pred CCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEE
Q 002901 275 AGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLI 354 (869)
Q Consensus 275 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLI 354 (869)
..+|.||
T Consensus 240 -------------------------------------------------------------------------aEwplli 246 (689)
T KOG1000|consen 240 -------------------------------------------------------------------------AEWPLLI 246 (689)
T ss_pred -------------------------------------------------------------------------hcCcEEE
Confidence 3467999
Q ss_pred ecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccC
Q 002901 355 VCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIK 434 (869)
Q Consensus 355 V~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ik 434 (869)
|||+|+...|.+++.+|+. .-..+.+..+.....+..-....|+|.||+.+..... .|..-.|..||+||+|++|
T Consensus 247 VcPAsvrftWa~al~r~lp-s~~pi~vv~~~~D~~~~~~t~~~v~ivSye~ls~l~~----~l~~~~~~vvI~DEsH~Lk 321 (689)
T KOG1000|consen 247 VCPASVRFTWAKALNRFLP-SIHPIFVVDKSSDPLPDVCTSNTVAIVSYEQLSLLHD----ILKKEKYRVVIFDESHMLK 321 (689)
T ss_pred EecHHHhHHHHHHHHHhcc-cccceEEEecccCCccccccCCeEEEEEHHHHHHHHH----HHhcccceEEEEechhhhh
Confidence 9999999999999999993 2334666655333333333456799999999988774 4566679999999999999
Q ss_pred CcChHHHHHHhhc--ccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccc------cCChhhHHHHHH
Q 002901 435 NANAQQSRTVTNL--NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLA------QGNRKGLSRLQV 506 (869)
Q Consensus 435 n~~s~~~ka~~~L--~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~------~~~~~~~~~L~~ 506 (869)
+..+++++++..+ .+.+.++|||||-..++.+||.++..+++..|.+...|-..|..--. ...-.++..|..
T Consensus 322 ~sktkr~Ka~~dllk~akhvILLSGTPavSRP~elytqi~avd~tlfp~f~efa~rYCd~k~vr~~~Dykg~tnl~EL~~ 401 (689)
T KOG1000|consen 322 DSKTKRTKAATDLLKVAKHVILLSGTPAVSRPSELYTQIRAVDHTLFPNFHEFAIRYCDGKQVRFCFDYKGCTNLEELAA 401 (689)
T ss_pred ccchhhhhhhhhHHHHhhheEEecCCcccCCchhhhhhhhhhcccccccHHHHHHHhcCccccceeeecCCCCCHHHHHH
Confidence 9999999999988 68999999999999999999999999999999999999877754211 122345667776
Q ss_pred HHh-hhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHH-HHHHHHhcCCcccchHHHHHHHHHHHHhhcc
Q 002901 507 LMS-TISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKG-VVQDYINAGSLMRNYSTVLSILLRLRQICTN 584 (869)
Q Consensus 507 ll~-~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~-~~~~~~~~~~~~~~~~~il~~llrLRq~c~h 584 (869)
+|. .+|+||+|.+++.+||||...+++ ......-+.-+.+...+.. ......+ .+-...++..+
T Consensus 402 lL~k~lMIRRlK~dvL~qLPpKrr~Vv~-~~~gr~da~~~~lv~~a~~~t~~~~~e--------~~~~~l~l~y~----- 467 (689)
T KOG1000|consen 402 LLFKRLMIRRLKADVLKQLPPKRREVVY-VSGGRIDARMDDLVKAAADYTKVNSME--------RKHESLLLFYS----- 467 (689)
T ss_pred HHHHHHHHHHHHHHHHhhCCccceEEEE-EcCCccchHHHHHHHHhhhcchhhhhh--------hhhHHHHHHHH-----
Confidence 665 679999999999999999555444 4444444444444433322 0000000 00000011111
Q ss_pred cCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCC
Q 002901 585 LALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLC 664 (869)
Q Consensus 585 ~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c 664 (869)
T Consensus 468 -------------------------------------------------------------------------------- 467 (689)
T KOG1000|consen 468 -------------------------------------------------------------------------------- 467 (689)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHH--hhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEE
Q 002901 665 RHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQ--LRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLL 742 (869)
Q Consensus 665 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~--~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~ 742 (869)
...-.|+.++.+.|.. +....++.|+|||+.+..+||-|+..+.+.++.++
T Consensus 468 ---------------------------~tgiaK~~av~eyi~~~~~l~d~~~~KflVFaHH~~vLd~Iq~~~~~r~vg~I 520 (689)
T KOG1000|consen 468 ---------------------------LTGIAKAAAVCEYILENYFLPDAPPRKFLVFAHHQIVLDTIQVEVNKRKVGSI 520 (689)
T ss_pred ---------------------------HhcccccHHHHHHHHhCcccccCCCceEEEEehhHHHHHHHHHHHHHcCCCeE
Confidence 1124688888888876 11246789999999999999999999999999999
Q ss_pred EEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEE
Q 002901 743 RLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVR 822 (869)
Q Consensus 743 rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~r 822 (869)
||||+++..+|+.+++.|+.. +.+.|-++|..|||+||+|++|+.|+|.+.+|||.+..||.||+||+||+..|.||+
T Consensus 521 RIDGst~s~~R~ll~qsFQ~s--eev~VAvlsItA~gvGLt~tAa~~VVFaEL~wnPgvLlQAEDRaHRiGQkssV~v~y 598 (689)
T KOG1000|consen 521 RIDGSTPSHRRTLLCQSFQTS--EEVRVAVLSITAAGVGLTLTAASVVVFAELHWNPGVLLQAEDRAHRIGQKSSVFVQY 598 (689)
T ss_pred EecCCCCchhHHHHHHHhccc--cceEEEEEEEeecccceeeeccceEEEEEecCCCceEEechhhhhhccccceeeEEE
Confidence 999999999999999999995 356999999999999999999999999999999999999999999999999999999
Q ss_pred EEeCCCHHHHHHHHHHHHHHHHHHHH
Q 002901 823 LIVRNSIEERILELQDRKKKLAREAF 848 (869)
Q Consensus 823 li~~~siEe~i~~~q~~K~~l~~~~~ 848 (869)
|++++|+||.++.....|.+....+-
T Consensus 599 lvAKgT~Ddy~Wp~l~~KL~vl~s~g 624 (689)
T KOG1000|consen 599 LVAKGTADDYMWPMLQQKLDVLGSVG 624 (689)
T ss_pred EEecCchHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999988766553
No 17
>PRK04914 ATP-dependent helicase HepA; Validated
Probab=100.00 E-value=8.4e-57 Score=537.97 Aligned_cols=423 Identities=21% Similarity=0.291 Sum_probs=319.9
Q ss_pred cccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCC
Q 002901 196 VIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 196 ~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~ 275 (869)
+..+.|+|||..++.+++.+.. .+.|||||||||||++|++++......
T Consensus 148 ~~~~~l~pHQl~~~~~vl~~~~-------------------------------~R~LLADEvGLGKTIeAglil~~l~~~ 196 (956)
T PRK04914 148 GARASLIPHQLYIAHEVGRRHA-------------------------------PRVLLADEVGLGKTIEAGMIIHQQLLT 196 (956)
T ss_pred cCCCCCCHHHHHHHHHHhhccC-------------------------------CCEEEEeCCcCcHHHHHHHHHHHHHHc
Confidence 3567899999999998877533 478999999999999999998776532
Q ss_pred CCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEe
Q 002901 276 GVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIV 355 (869)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV 355 (869)
+ ..+++|||
T Consensus 197 g-----------------------------------------------------------------------~~~rvLIV 205 (956)
T PRK04914 197 G-----------------------------------------------------------------------RAERVLIL 205 (956)
T ss_pred C-----------------------------------------------------------------------CCCcEEEE
Confidence 2 45789999
Q ss_pred cChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCC-----ChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCc
Q 002901 356 CPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQ-----DVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEA 430 (869)
Q Consensus 356 ~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~-----~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEa 430 (869)
||.+|+.||..|+.+++ .+.+.++.+.+.. ....+..+++||+||+.+..+.... ..+....|++||+|||
T Consensus 206 vP~sL~~QW~~El~~kF---~l~~~i~~~~~~~~~~~~~~~pf~~~~~vI~S~~~l~~~~~~~-~~l~~~~wdlvIvDEA 281 (956)
T PRK04914 206 VPETLQHQWLVEMLRRF---NLRFSLFDEERYAEAQHDADNPFETEQLVICSLDFLRRNKQRL-EQALAAEWDLLVVDEA 281 (956)
T ss_pred cCHHHHHHHHHHHHHHh---CCCeEEEcCcchhhhcccccCccccCcEEEEEHHHhhhCHHHH-HHHhhcCCCEEEEech
Confidence 99999999999998887 2556666653321 1133457899999999998743211 2345679999999999
Q ss_pred cccCCc---ChHHHHHHhhc--ccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcc--cc-------ccC
Q 002901 431 HVIKNA---NAQQSRTVTNL--NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQR--PL-------AQG 496 (869)
Q Consensus 431 H~ikn~---~s~~~ka~~~L--~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~--p~-------~~~ 496 (869)
|++++. .|+.++++..| +++++++|||||++|+..|+|++++||+|+.|++...|...... |+ ..+
T Consensus 282 H~lk~~~~~~s~~y~~v~~La~~~~~~LLLTATP~q~~~~e~falL~lLdP~~f~~~~~F~~e~~~~~~~a~~v~~l~~~ 361 (956)
T PRK04914 282 HHLVWSEEAPSREYQVVEQLAEVIPGVLLLTATPEQLGQESHFARLRLLDPDRFHDYEAFVEEQQQYRPVADAVQALLAG 361 (956)
T ss_pred hhhccCCCCcCHHHHHHHHHhhccCCEEEEEcCcccCCcHHHHHhhhhhCCCcCCCHHHHHHHHHhhHHHHHHHHHHhcC
Confidence 999953 56778888888 57899999999999999999999999999999999999753321 11 111
Q ss_pred Ch---hhHHHH-------------------------------HHHH-----hhhhhhccCCCCCcCCCCceEEEEEEeCC
Q 002901 497 NR---KGLSRL-------------------------------QVLM-----STISLRRTKDKGLIGLQPKTIEKYYVELS 537 (869)
Q Consensus 497 ~~---~~~~~L-------------------------------~~ll-----~~~~lRRtk~~~~~~LP~k~~~~v~v~ls 537 (869)
+. .....| +.++ ..+++|+++.. ...+|++..+.+.+++.
T Consensus 362 ~~~~~~~~~~l~~ll~~~~~~~l~~~~~~~~~~~~~~~~~~i~~L~d~hg~~rvm~RntR~~-v~~fp~R~~~~~~l~~~ 440 (956)
T PRK04914 362 EKLSDDALNALGELLGEQDIEPLLQAANSDSEEAQAARQELISELLDRHGTGRVLFRNTRAA-VKGFPKRELHPIPLPLP 440 (956)
T ss_pred CcCCHHHHHHHHHHhcccchhHHHhhhcccccccHHHHHHHHHHHHhhcCcceEEEeccHHh-hcCCCcCceeEeecCCC
Confidence 11 111111 1111 25677888876 45799999999999997
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHH
Q 002901 538 LEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEV 617 (869)
Q Consensus 538 ~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 617 (869)
+..+..+.. .... .+++ +.+| +.+.. .
T Consensus 441 ~~y~~~~~~---~~~~-----------------------~~~~-~l~p-----------------------e~~~~---~ 467 (956)
T PRK04914 441 EQYQTAIKV---SLEA-----------------------RARD-MLYP-----------------------EQIYQ---E 467 (956)
T ss_pred HHHHHHHHH---hHHH-----------------------HHHh-hcCH-----------------------HHHHH---H
Confidence 654443321 0000 0111 0111 00000 0
Q ss_pred HhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcch
Q 002901 618 LQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSK 697 (869)
Q Consensus 618 l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K 697 (869)
+... ......++|
T Consensus 468 ~~~~-------------------------------------------------------------------~~~~~~d~K 480 (956)
T PRK04914 468 FEDN-------------------------------------------------------------------ATWWNFDPR 480 (956)
T ss_pred Hhhh-------------------------------------------------------------------hhccccCHH
Confidence 0000 001234789
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHH-HHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPL-QAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L-~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
+++|+++|+.. .++|+|||+++..+++.|...| ...|++++.++|+|+..+|.++++.|++++ +.+.|||+ +.
T Consensus 481 i~~L~~~L~~~----~~~KvLVF~~~~~t~~~L~~~L~~~~Gi~~~~ihG~~s~~eR~~~~~~F~~~~-~~~~VLIs-Td 554 (956)
T PRK04914 481 VEWLIDFLKSH----RSEKVLVICAKAATALQLEQALREREGIRAAVFHEGMSIIERDRAAAYFADEE-DGAQVLLC-SE 554 (956)
T ss_pred HHHHHHHHHhc----CCCeEEEEeCcHHHHHHHHHHHhhccCeeEEEEECCCCHHHHHHHHHHHhcCC-CCccEEEe-ch
Confidence 99999999864 3789999999999999999999 567999999999999999999999999842 24467665 59
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFRRK 851 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~ 851 (869)
+||+|+||+.|++||+||+||||..++|||||+||+||+++|.||.++.++|+|++|+++..+|.++++.++...
T Consensus 555 vgseGlNlq~a~~VInfDlP~nP~~~eQRIGR~~RiGQ~~~V~i~~~~~~~t~~e~i~~~~~~~l~ife~~~~~~ 629 (956)
T PRK04914 555 IGSEGRNFQFASHLVLFDLPFNPDLLEQRIGRLDRIGQKHDIQIHVPYLEGTAQERLFRWYHEGLNAFEHTCPTG 629 (956)
T ss_pred hhccCCCcccccEEEEecCCCCHHHHHHHhcccccCCCCceEEEEEccCCCCHHHHHHHHHhhhcCceeccCCCH
Confidence 999999999999999999999999999999999999999999999999999999999999999997776665543
No 18
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=100.00 E-value=1.3e-56 Score=490.30 Aligned_cols=552 Identities=22% Similarity=0.272 Sum_probs=387.7
Q ss_pred cccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCC
Q 002901 196 VIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 196 ~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~ 275 (869)
-+.--|.|||.=|+.||...--. + -| -|+-- ...|+|||+.||||||||+|+++-.....
T Consensus 250 qla~v~kPHQiGGiRFlYDN~iE----S-----l~-rykkS----------sGFGCILAHSMGLGKTlQVisF~diflRh 309 (1387)
T KOG1016|consen 250 QLAHVLKPHQIGGIRFLYDNTIE----S-----LG-RYKKS----------SGFGCILAHSMGLGKTLQVISFSDIFLRH 309 (1387)
T ss_pred hhHhhcCccccCcEEEehhhHHH----H-----Hh-hcccc----------CCcceeeeeccccCceeEEeehhHHHhhc
Confidence 45667999999999999863110 0 00 11112 23699999999999999999998776632
Q ss_pred CCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEe
Q 002901 276 GVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIV 355 (869)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV 355 (869)
. ..+++|+|
T Consensus 310 T-----------------------------------------------------------------------~AKtVL~i 318 (1387)
T KOG1016|consen 310 T-----------------------------------------------------------------------KAKTVLVI 318 (1387)
T ss_pred C-----------------------------------------------------------------------ccceEEEE
Confidence 2 46789999
Q ss_pred cChhHHHHHHHHHHHhcCC---------CCeEEEEEeC-CCCC--Ch----hhhccccEEEEechhhHhhhcc-------
Q 002901 356 CPPSVFSTWITQLEEHTVP---------GMLKTYMYYG-DRTQ--DV----EELKMYDLVLTTYSTLAIEESW------- 412 (869)
Q Consensus 356 ~P~sll~qW~~Ei~~~~~~---------~~l~v~~y~G-~r~~--~~----~~l~~~dVVItTY~~l~~~~~~------- 412 (869)
+|-..+.||..||..|+.+ ..+.|++... .++- +. .+...-.|.+..|++++-..-.
T Consensus 319 vPiNTlQNWlsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~Wv~~GGVlLvGYemfRLL~lk~~~~~gr 398 (1387)
T KOG1016|consen 319 VPINTLQNWLSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQWVQTGGVLLVGYEMFRLLILKTLPKKGR 398 (1387)
T ss_pred EehHHHHHHHHHhhhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHHhccCCEEEehHHHHHHHHHhcccccCC
Confidence 9999999999999999953 2466666654 2211 11 1224567999999998754311
Q ss_pred ---------------------------cCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChh
Q 002901 413 ---------------------------LESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSF 465 (869)
Q Consensus 413 ---------------------------~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~ 465 (869)
..+.|..-..++||+||+|+|||..+..+.|+++++.+||++|||-|+||++-
T Consensus 399 pkkt~kr~~~~~i~~d~eD~~qe~~~li~~AL~~PGPDlVICDEGHrIKN~~A~iS~aLk~IrtrRRiVLTGYPLQNNLl 478 (1387)
T KOG1016|consen 399 PKKTLKRISSGFIKDDSEDQRQEAYSLIRSALLEPGPDLVICDEGHRIKNITAEISMALKAIRTRRRIVLTGYPLQNNLL 478 (1387)
T ss_pred ccccccccCCcccCCchhhhHHHHHHHHHHHhcCCCCCeEEecCCceeccchHHHHHHHHHhhhceeEEEeccccccchH
Confidence 01455566788999999999999999999999999999999999999999999
Q ss_pred hhHhhhhhhccCCCCchHHHHHHhccccccCC-----h-------hhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEE
Q 002901 466 DLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGN-----R-------KGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYY 533 (869)
Q Consensus 466 DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~-----~-------~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~ 533 (869)
++|.+++|+||..++.+..|-..|.+|+.+|. + .....|+.|+..|+-||+-.-.-+.||.+.+.++.
T Consensus 479 EYwCMVDFVRP~yLGTR~eF~nmFErPI~NGQCvDStPdDvklmryRtHVLhsLl~GFVQRR~HtvLk~~LP~k~EyViL 558 (1387)
T KOG1016|consen 479 EYWCMVDFVRPKYLGTRKEFINMFERPIKNGQCVDSTPDDVKLMRYRTHVLHSLLKGFVQRRTHTVLKKILPEKKEYVIL 558 (1387)
T ss_pred HHhhhheeccccccchHHHHHHHhhccccCCccccCChhHHHHHHHHHHHHHHHHHHHHHhcchhhHhhhcccccceEEE
Confidence 99999999999999999999999999999874 2 22346788999999999988656789999999999
Q ss_pred EeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHH
Q 002901 534 VELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKK 613 (869)
Q Consensus 534 v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~ 613 (869)
|.+|.-||++|+.+...+.+.+.. .+. .--+-|..+---..|.+||+.+...++.-... .+.-..
T Consensus 559 vr~s~iQR~LY~~Fm~d~~r~~~~---~~~---~~~NPLkAF~vCcKIWNHPDVLY~~l~k~~~a---------~e~dl~ 623 (1387)
T KOG1016|consen 559 VRKSQIQRQLYRNFMLDAKREIAA---NND---AVFNPLKAFSVCCKIWNHPDVLYRLLEKKKRA---------EEDDLR 623 (1387)
T ss_pred EeHHHHHHHHHHHHHHHHHHhhcc---ccc---cccChHHHHHHHHHhcCChHHHHHHHHHhhhh---------hhhhhh
Confidence 999999999999987555433221 111 11133444445566668998664332210000 000000
Q ss_pred HHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCC-----ccc--c
Q 002901 614 LVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSD-----MDI--A 686 (869)
Q Consensus 614 ~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~-----~~~--~ 686 (869)
+-+.--.+....|+--.+...++-.+- + +-..+.... ..-|.- .+....+.+-.++... .+. .
T Consensus 624 vee~~~ag~~~~~~P~~~~~~~~s~~l-a-----Ss~~k~~n~--t~kp~~--s~~~p~f~ee~~e~~~y~~w~~el~~n 693 (1387)
T KOG1016|consen 624 VEEMKFAGLQQQQSPFNSIPSNPSTPL-A-----SSTSKSANK--TKKPRG--SKKAPKFDEEDEEVEKYSDWTFELFEN 693 (1387)
T ss_pred HHHHhhhcccccCCCCCCCCCCCCCcc-c-----chhhhhhcc--cCCccc--CcCCCCcccccccccchhhHHHHHHhh
Confidence 111111122233332222221110000 0 000000000 000000 0000000000000000 000 0
Q ss_pred cccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcC------------------CcEEEEeCCC
Q 002901 687 GKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAG------------------FKLLRLDGSM 748 (869)
Q Consensus 687 ~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~g------------------i~~~rldG~~ 748 (869)
....-...++|+-.+++++.+.. .-+.|+|||||....||.|++.|.... +.|.|+||.+
T Consensus 694 Yq~gvLen~pk~V~~~~~~des~--~~g~kil~fSq~l~~Ld~ieeil~krq~pc~~gdnG~~aqkW~~n~sy~rldG~t 771 (1387)
T KOG1016|consen 694 YQEGVLENGPKIVISLEILDEST--QIGEKILIFSQNLTALDMIEEILKKRQIPCKDGDNGCPAQKWEKNRSYLRLDGTT 771 (1387)
T ss_pred hhcccccCCCceEEEEeeecccc--ccCceEEEeecchhHHHHHHHHHhcccccCCCCCCCCchhhhhhccceecccCCc
Confidence 00001223677777777777654 448999999999999999999998752 3489999999
Q ss_pred CHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 749 NAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 749 ~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
+..+|+++|++|+. .++....||+|+++|..|+||..||+++++|-.|||....||+.||+|.||+|+++|||+|+.+|
T Consensus 772 ~a~~rekLinqfN~-e~~lsWlfllstrag~lGinLIsanr~~ifda~wnpchdaqavcRvyrYGQ~KpcfvYRlVmD~~ 850 (1387)
T KOG1016|consen 772 SAADREKLINQFNS-EPGLSWLFLLSTRAGSLGINLISANRCIIFDACWNPCHDAQAVCRVYRYGQQKPCFVYRLVMDNS 850 (1387)
T ss_pred ccchHHHHHHhccC-CCCceeeeeehhccccccceeeccceEEEEEeecCccccchhhhhhhhhcCcCceeEEeehhhhh
Confidence 99999999999999 55565699999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHhh
Q 002901 829 IEERILELQDRKKKLAREAFRRKGKDQREVSTDDLRILM 867 (869)
Q Consensus 829 iEe~i~~~q~~K~~l~~~~~~~~~~~~~~~~~~dl~~lf 867 (869)
.|.+|+.+|-.|+.+.+.++++.. -...++..||..|+
T Consensus 851 lEkkIydRQIsKqGmsdRvVDd~n-p~an~s~Ke~enLl 888 (1387)
T KOG1016|consen 851 LEKKIYDRQISKQGMSDRVVDDAN-PDANISQKELENLL 888 (1387)
T ss_pred hHHHHHHHHHhhccchhhhhcccC-ccccccHHHHHHHh
Confidence 999999999999999999998763 34567888888775
No 19
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=100.00 E-value=3e-54 Score=499.23 Aligned_cols=461 Identities=31% Similarity=0.468 Sum_probs=355.4
Q ss_pred ccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCC---CCChhhhccccEEEEechhhHhhhcc------------
Q 002901 348 GKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDR---TQDVEELKMYDLVLTTYSTLAIEESW------------ 412 (869)
Q Consensus 348 ~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r---~~~~~~l~~~dVVItTY~~l~~~~~~------------ 412 (869)
..|+||||||.+++.||-.||.+|+.. .++|+.|.|-| ...+..+.+||||+|||+++++|...
T Consensus 419 ~tgaTLII~P~aIl~QW~~EI~kH~~~-~lKv~~Y~Girk~~~~~~~el~~yDIVlTtYdiLr~El~hte~~~~~R~lR~ 497 (1394)
T KOG0298|consen 419 ETGATLIICPNAILMQWFEEIHKHISS-LLKVLLYFGIRKTFWLSPFELLQYDIVLTTYDILRNELYHTEDFGSDRQLRH 497 (1394)
T ss_pred ecCceEEECcHHHHHHHHHHHHHhccc-cceEEEEechhhhcccCchhhhccCEEEeehHHHHhHhhcccccCChhhhhc
Confidence 579999999999999999999999943 47999999922 23457889999999999999998743
Q ss_pred ------cCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHH
Q 002901 413 ------LESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQ 486 (869)
Q Consensus 413 ------~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~ 486 (869)
..+||..+.|+||+||||+++....|..++.+..|.+.+|||+||||||+ ++||+.|+.||+..||+...+|-
T Consensus 498 qsr~~~~~SPL~~v~wWRIclDEaQMvesssS~~a~M~~rL~~in~W~VTGTPiq~-Iddl~~Ll~fLk~~Pf~~~~~~i 576 (1394)
T KOG0298|consen 498 QSRYMRPNSPLLMVNWWRICLDEAQMVESSSSAAAEMVRRLHAINRWCVTGTPIQK-IDDLFPLLEFLKLPPFCRPQDFI 576 (1394)
T ss_pred ccCCCCCCCchHHHHHHHHhhhHHHhhcchHHHHHHHHHHhhhhceeeecCCchhh-hhhhHHHHHHhcCCCCCChHHHH
Confidence 24899999999999999999999999999999999999999999999999 99999999999999999999999
Q ss_pred HHhccccccCChhhHHHHHHHHhhhhhhccCCCCC--cCCCCceEEEEEEeCCHHHHHHHH----HHHHHHHHHHHHHHh
Q 002901 487 SLIQRPLAQGNRKGLSRLQVLMSTISLRRTKDKGL--IGLQPKTIEKYYVELSLEERKLYD----ELEGKAKGVVQDYIN 560 (869)
Q Consensus 487 ~~~~~p~~~~~~~~~~~L~~ll~~~~lRRtk~~~~--~~LP~k~~~~v~v~ls~~e~~~Y~----~l~~~~~~~~~~~~~ 560 (869)
+.+..++... .....+..++...+-|+.|.++. +.+||..+.+....+++.+-.+|. ....++...+.....
T Consensus 577 q~v~~~~~~r--a~~~~~~dl~~q~l~R~~k~~v~~el~~ppq~e~~h~~~~sa~~s~v~r~~~~t~v~e~~~~~~~~k~ 654 (1394)
T KOG0298|consen 577 QTVDKAYQLR--AKCEPLLDLFKQLLWRTFKSKVEHELGLPPQTEVVHRLELSAVESHVYREEHFTCVEEFAAAVEKLKR 654 (1394)
T ss_pred HHHHHHHHHH--hhhhhHHHHHHhhhhhhhhHHHHHHhCCCchHHHHHHHHhcchhhhhhHHHHhhHHHHHHHHHHHHHH
Confidence 9999887654 44556778888899999988554 478998888877777777655554 444444444333321
Q ss_pred c-------CC--cccchHHHHHHHHHHHHhhcccCCCcccccccC-----------------------------------
Q 002901 561 A-------GS--LMRNYSTVLSILLRLRQICTNLALCPSDVRSII----------------------------------- 596 (869)
Q Consensus 561 ~-------~~--~~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~----------------------------------- 596 (869)
. +. .......++..++||||+||||-.......++.
T Consensus 655 ~~l~~~sd~~~l~~~~~a~i~~~l~rLRq~Cchplv~~~~ls~~k~~s~~DiL~~lle~~ed~~~~~~R~~~~~~~~~a~ 734 (1394)
T KOG0298|consen 655 HNLDNSSDLASLSPQLLAIILKWLLRLRQACCHPLVGNSNLSSTKYLSIQDILARLLENTEDECKTELRTLASSKNGLAA 734 (1394)
T ss_pred hccccccccccCChhhHHHHHHHHHHHHHhhcccccccCCcchhcCCCHHHHHHHHHHhcchhhhHHHHHHHHHhhhhHH
Confidence 1 11 113456788999999999999843221100000
Q ss_pred --------CC----------------C----C-c-c--------------------------------------------
Q 002901 597 --------PS----------------N----T-I-E-------------------------------------------- 602 (869)
Q Consensus 597 --------~~----------------~----~-~-~-------------------------------------------- 602 (869)
+. . . + .
T Consensus 735 i~~~~n~f~~~~l~i~k~y~~~~nl~~~~~~~~~~~d~d~h~~ei~~~~~~~~~~~sd~~~~~~~~~~~~~~~s~~~~~~ 814 (1394)
T KOG0298|consen 735 IYFEKNDFPGGILQIIKYYRLKLNLANEPNEQNISVDSDLHIHEIYNLLQASSLAPSDRKLTELEHKKYQAQMSRLEWKY 814 (1394)
T ss_pred HHHHHhcCchhHHHHHHHhccccccCCCchhcccccchhhHHHHHhhhhccccccchhhhHHHHHHHhhhhhhccccchh
Confidence 00 0 0 0 0
Q ss_pred --------------------------------------------------------------------------------
Q 002901 603 -------------------------------------------------------------------------------- 602 (869)
Q Consensus 603 -------------------------------------------------------------------------------- 602 (869)
T Consensus 815 ~~d~~~~~~~~~q~~~~kl~s~~~~~~t~~~~e~~~~~~~~~~v~s~m~~k~~~~v~~~~~lqe~~~~~~~eLrai~~~~ 894 (1394)
T KOG0298|consen 815 LEDETRVLYSLLQDLNEKLESVSILKKTFELEEFDLLATNMVNVKSSMGDKIWNKVRDDRLLQEINVEFLEELRAIAFRA 894 (1394)
T ss_pred hchhhHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhhhhhhccccchhHHHHHhhhHHHHHHHHHHHHHHHHHhhh
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 002901 603 -------------------------------------------------------------------------------- 602 (869)
Q Consensus 603 -------------------------------------------------------------------------------- 602 (869)
T Consensus 895 ~~i~i~~l~L~~~~~~l~~s~~e~~~~~~~i~~~Ie~~~~~~~n~~~i~d~~~k~~~~h~~~~~~~d~~~~i~~~r~~~~ 974 (1394)
T KOG0298|consen 895 RFIHIMKLKLQNLKSDLIASFEEVKGVMQEICEAIETGGALVLNRMEIIDFIEKVTVCHLTDIEDYDKDKPIKPKRHRRC 974 (1394)
T ss_pred hccccchhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhHHHHHhHHHHHHHHHhccCCCcchHhhcccccccccchhhhh
Confidence
Q ss_pred -----------------------c------cCC-----ChH-------------------------H-------------
Q 002901 603 -----------------------D------VSN-----NPD-------------------------L------------- 610 (869)
Q Consensus 603 -----------------------~------~~~-----~~e-------------------------~------------- 610 (869)
+ ... ..+ .
T Consensus 975 ~~~~~~~~~i~~~ce~~~~q~k~~~~~s~~~~l~~~~~~~ekSi~~~~~~~~l~~e~~~~~t~~~~~l~~lqnt~~~~~~ 1054 (1394)
T KOG0298|consen 975 RLCLRRKSLILFECELFALQPKEDATVSESLELSSMEKSFEKSIIAFLRKKQLFSEWKEEATPLLELLSCLQNTYKFRIE 1054 (1394)
T ss_pred hhhhhhhHHHHHHHHHHhcCccccchhhhhhccchhhhcchhhHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHH
Confidence 0 000 000 0
Q ss_pred ----HHH-------------------------------------------------------------HHHHHhc-----
Q 002901 611 ----LKK-------------------------------------------------------------LVEVLQD----- 620 (869)
Q Consensus 611 ----~~~-------------------------------------------------------------~~~~l~~----- 620 (869)
.+. +..+..+
T Consensus 1055 ~~~~~qq~~~~~~~~~~~~m~l~lkd~~~~~~~y~i~~~qld~~~~~nt~s~~~~q~~~ls~~G~~r~lk~l~e~~~~~~ 1134 (1394)
T KOG0298|consen 1055 YWIEVQQMVDALDELEMSKMRLYLKDDEEEQSIYRILACQLDEQSQLNTYSLQTSQLSFLSIPGLLRYLKGLKESKADTP 1134 (1394)
T ss_pred HHHHHHHHHHhhcccchhhheeeecCcHHHHHHHHHHHhhHHHHHHHhHHHHHHhhhhhhccchHHHHHHHHHHHhccCc
Confidence 000 0000000
Q ss_pred ----------------CCCCCCCccCCCCC-cceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCCc
Q 002901 621 ----------------GEDFDCPICISPPS-DIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSDM 683 (869)
Q Consensus 621 ----------------~~~~~c~~c~~~~~-~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~ 683 (869)
.....|++|.+.+. ...+..|+|.+|..|....+..+. .||.|....
T Consensus 1135 ~~i~~~es~~~y~~~~~~~~~c~ic~dil~~~~~I~~cgh~~c~~c~~~~l~~~s-~~~~~ksi~--------------- 1198 (1394)
T KOG0298|consen 1135 CKIAQTESDVRYLMNLSGHFVCEICLDILRNQGGIAGCGHEPCCRCDELWLYASS-RCPICKSIK--------------- 1198 (1394)
T ss_pred cccCCccchHHHHHHhhcccchHHHHHHHHhcCCeeeechhHhhhHHHHHHHHhc-cCcchhhhh---------------
Confidence 11223555555554 466888999999999888776654 788887322
Q ss_pred ccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCC
Q 002901 684 DIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNP 763 (869)
Q Consensus 684 ~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~ 763 (869)
...++|+......+.-++-+++-+|+||||||...+|.++..+..++|.+.+..++ ++-...+..|++
T Consensus 1199 --------~dfg~kI~~v~~~il~iK~k~~qekvIvfsqws~~ldV~e~~~~~N~I~~~~~~~t---~d~~dc~~~fk~- 1266 (1394)
T KOG0298|consen 1199 --------GDFGTKIDSVVIAILYIKFKNEQEKVIVFSQWSVVLDVKELRYLMNLIKKQLDGET---EDFDDCIICFKS- 1266 (1394)
T ss_pred --------hhhccCchhHHHHHHHHhccCcCceEEEEEehHHHHHHHHHHHHhhhhHhhhccCC---cchhhhhhhccc-
Confidence 23488999998888877777888999999999999999999999999998766653 456678888866
Q ss_pred CCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHH
Q 002901 764 GPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKL 843 (869)
Q Consensus 764 ~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l 843 (869)
+.+|++-.+.|+-||||..|.|||+.+|--||++|.|||||+||+||++|+.||+|+..+||||.|+.+...|...
T Consensus 1267 ----I~clll~~~~~~~GLNL~eA~Hvfl~ePiLN~~~E~QAigRvhRiGQ~~pT~V~~fiv~~TvEe~Il~l~~~~ee~ 1342 (1394)
T KOG0298|consen 1267 ----IDCLLLFVSKGSKGLNLIEATHVFLVEPILNPGDEAQAIGRVHRIGQKRPTFVHRFIVNETVEENILSLITSKEET 1342 (1394)
T ss_pred ----ceEEEEEeccCcccccHHhhhhhheeccccCchHHHhhhhhhhhcccccchhhhhhhhccchHHHHHHHhhhhHHH
Confidence 5899999999999999999999999999999999999999999999999999999999999999999988877654
Q ss_pred H
Q 002901 844 A 844 (869)
Q Consensus 844 ~ 844 (869)
.
T Consensus 1343 l 1343 (1394)
T KOG0298|consen 1343 L 1343 (1394)
T ss_pred H
Confidence 4
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=4.9e-46 Score=405.76 Aligned_cols=295 Identities=39% Similarity=0.618 Sum_probs=229.8
Q ss_pred HHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCCCCCCC
Q 002901 204 HQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTG 283 (869)
Q Consensus 204 ~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~ 283 (869)
||++|+.||+.++.... + .......+||||||+||+|||+++++++.......
T Consensus 1 ~Q~~~v~~m~~~~~~~~-----------~---------~~~~~~~~g~lL~de~GlGKT~~~i~~~~~l~~~~------- 53 (299)
T PF00176_consen 1 HQLEAVRWMLDRELVEE-----------Y---------PNSESPPRGGLLADEMGLGKTITAIALISYLKNEF------- 53 (299)
T ss_dssp HHHHHHHHHHHHH---------------T---------TSSSTTT-EEEE---TTSSHHHHHHHHHHHHHHCC-------
T ss_pred CHHHHHHHHHHHhhhhc-----------c---------cccccCCCCEEEEECCCCCchhhhhhhhhhhhhcc-------
Confidence 89999999999981000 0 00012358999999999999999999998654221
Q ss_pred CCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecChhHHHH
Q 002901 284 TNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPPSVFST 363 (869)
Q Consensus 284 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll~q 363 (869)
.....+++|||||.+++.|
T Consensus 54 -------------------------------------------------------------~~~~~~~~LIv~P~~l~~~ 72 (299)
T PF00176_consen 54 -------------------------------------------------------------PQRGEKKTLIVVPSSLLSQ 72 (299)
T ss_dssp -------------------------------------------------------------TTSS-S-EEEEE-TTTHHH
T ss_pred -------------------------------------------------------------ccccccceeEeeccchhhh
Confidence 0002346999999999999
Q ss_pred HHHHHHHhcCCCCeEEEEEeCCC---CCChhhhccccEEEEechhhHhh-hcccCCCcceeeeeEEEEcCccccCCcChH
Q 002901 364 WITQLEEHTVPGMLKTYMYYGDR---TQDVEELKMYDLVLTTYSTLAIE-ESWLESPVKKIEWWRVILDEAHVIKNANAQ 439 (869)
Q Consensus 364 W~~Ei~~~~~~~~l~v~~y~G~r---~~~~~~l~~~dVVItTY~~l~~~-~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~ 439 (869)
|..||.+|+.+..+++++|+|.. .........++++||||+++... .......+..++|++||+||||.+||..+.
T Consensus 73 W~~E~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~vvi~ty~~~~~~~~~~~~~~l~~~~~~~vIvDEaH~~k~~~s~ 152 (299)
T PF00176_consen 73 WKEEIEKWFDPDSLRVIIYDGDSERRRLSKNQLPKYDVVITTYETLRKARKKKDKEDLKQIKWDRVIVDEAHRLKNKDSK 152 (299)
T ss_dssp HHHHHHHHSGT-TS-EEEESSSCHHHHTTSSSCCCSSEEEEEHHHHH--TSTHTTHHHHTSEEEEEEETTGGGGTTTTSH
T ss_pred hhhhhccccccccccccccccccccccccccccccceeeeccccccccccccccccccccccceeEEEeccccccccccc
Confidence 99999999977688999999943 33445568899999999999911 111124456688999999999999999999
Q ss_pred HHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhhhhccCCC
Q 002901 440 QSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISLRRTKDK 519 (869)
Q Consensus 440 ~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~lRRtk~~ 519 (869)
.++++..|.+.++|+|||||++|++.|+|++++||.+.++.+...|.+.+..+..........+|+.+++.+++||++.+
T Consensus 153 ~~~~l~~l~~~~~~lLSgTP~~n~~~dl~~~l~~L~~~~~~~~~~f~~~~~~~~~~~~~~~~~~L~~~l~~~~~r~~~~d 232 (299)
T PF00176_consen 153 RYKALRKLRARYRWLLSGTPIQNSLEDLYSLLRFLNPDPFSDRRSFKKWFYRPDKENSYENIERLRELLSEFMIRRTKKD 232 (299)
T ss_dssp HHHHHHCCCECEEEEE-SS-SSSGSHHHHHHHHHHCTTTCSSHHHHHHHTHHHHHTHHHHHHHHHHHHHCCCEECHCGGG
T ss_pred ccccccccccceEEeeccccccccccccccchheeeccccccchhhhhhhhhhccccccccccccccccchhhhhhhccc
Confidence 99999999999999999999999999999999999999999999999998777445566788999999999999999998
Q ss_pred CCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCC
Q 002901 520 GLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALC 588 (869)
Q Consensus 520 ~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~ 588 (869)
....||+..+.++.++|+++|++.|+.+....+..+.... .....+...++..+.+|||+|+||.|+
T Consensus 233 ~~~~lp~~~~~~~~~~ls~~q~~~Y~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~lr~~c~hp~l~ 299 (299)
T PF00176_consen 233 VEKELPPKIEHVINVELSPEQRELYNELLKEARENLKQSS--RKKSKKLSSLLQILKRLRQVCNHPYLV 299 (299)
T ss_dssp GCTTSTCEEEEEEEEGG-HHHHHHHHHHHHHHGGCCTT-T----TCHHHHHHHHHHHHHHHHHH-THHC
T ss_pred ccccCCceEEEEEEeCCCHHHHHHHHHHHHHHHHHHHhhc--ccchhhHHHHHHHHHHHHHHhCCcccC
Confidence 8789999999999999999999999988776654433322 234578889999999999999999874
No 21
>TIGR00603 rad25 DNA repair helicase rad25. All proteins in this family for which functions are known are DNA-DNA helicases used for the initiation of nucleotide excision repair and transacription as part of the TFIIH complex.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.9e-39 Score=374.67 Aligned_cols=357 Identities=19% Similarity=0.254 Sum_probs=259.4
Q ss_pred cccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCC
Q 002901 198 KSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGV 277 (869)
Q Consensus 198 ~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~ 277 (869)
...|||||++|+.+|..... .++|||..+||+|||+++++++...
T Consensus 253 ~~~LRpYQ~eAl~~~~~~gr------------------------------~r~GIIvLPtGaGKTlvai~aa~~l----- 297 (732)
T TIGR00603 253 TTQIRPYQEKSLSKMFGNGR------------------------------ARSGIIVLPCGAGKSLVGVTAACTV----- 297 (732)
T ss_pred CCCcCHHHHHHHHHHHhcCC------------------------------CCCcEEEeCCCCChHHHHHHHHHHh-----
Confidence 47899999999999975211 2589999999999999999988653
Q ss_pred CCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecC
Q 002901 278 APGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCP 357 (869)
Q Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P 357 (869)
.++||||||
T Consensus 298 -----------------------------------------------------------------------~k~tLILvp 306 (732)
T TIGR00603 298 -----------------------------------------------------------------------KKSCLVLCT 306 (732)
T ss_pred -----------------------------------------------------------------------CCCEEEEeC
Confidence 245999999
Q ss_pred hhH-HHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhccc------CCCcceeeeeEEEEcCc
Q 002901 358 PSV-FSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWL------ESPVKKIEWWRVILDEA 430 (869)
Q Consensus 358 ~sl-l~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~------~~~l~~~~w~rVIlDEa 430 (869)
.++ +.||.+||.+|+.-+...+..|+|+.... .....+|+||||+++.+..... -..+....|++||+|||
T Consensus 307 s~~Lv~QW~~ef~~~~~l~~~~I~~~tg~~k~~--~~~~~~VvVtTYq~l~~~~~r~~~~~~~l~~l~~~~~gLII~DEv 384 (732)
T TIGR00603 307 SAVSVEQWKQQFKMWSTIDDSQICRFTSDAKER--FHGEAGVVVSTYSMVAHTGKRSYESEKVMEWLTNREWGLILLDEV 384 (732)
T ss_pred cHHHHHHHHHHHHHhcCCCCceEEEEecCcccc--cccCCcEEEEEHHHhhcccccchhhhHHHHHhccccCCEEEEEcc
Confidence 875 79999999999755566788888843222 1245889999999997643211 02244568999999999
Q ss_pred cccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhh-ccCCCCchHHHHHHhccccccCChhhHHHHHHHHh
Q 002901 431 HVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFL-QFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMS 509 (869)
Q Consensus 431 H~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL-~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~ 509 (869)
|++.+ ....+.+..+.+.+||+|||||+.+. +.+..+.|+ .|..|. ..|...+..
T Consensus 385 H~lpA--~~fr~il~~l~a~~RLGLTATP~ReD--~~~~~L~~LiGP~vye--~~~~eLi~~------------------ 440 (732)
T TIGR00603 385 HVVPA--AMFRRVLTIVQAHCKLGLTATLVRED--DKITDLNFLIGPKLYE--ANWMELQKK------------------ 440 (732)
T ss_pred ccccH--HHHHHHHHhcCcCcEEEEeecCcccC--CchhhhhhhcCCeeee--cCHHHHHhC------------------
Confidence 99954 33445677789999999999999864 444445444 332221 122222111
Q ss_pred hhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCCc
Q 002901 510 TISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALCP 589 (869)
Q Consensus 510 ~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~~ 589 (869)
..|.+.....++|+|++++...|-..... . +.+..
T Consensus 441 ------------G~LA~~~~~ev~v~~t~~~~~~yl~~~~~---------------~----------k~~l~-------- 475 (732)
T TIGR00603 441 ------------GFIANVQCAEVWCPMTPEFYREYLRENSR---------------K----------RMLLY-------- 475 (732)
T ss_pred ------------CccccceEEEEEecCCHHHHHHHHHhcch---------------h----------hhHHh--------
Confidence 23456666789999999865444321000 0 00000
Q ss_pred ccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 590 SDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 590 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
T Consensus 476 -------------------------------------------------------------------------------- 475 (732)
T TIGR00603 476 -------------------------------------------------------------------------------- 475 (732)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred CCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 670 QSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 670 ~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
...+.|+.++..++.... ..+.|+|||++++..++.+...| |. ..++|+|+
T Consensus 476 ----------------------~~np~K~~~~~~Li~~he--~~g~kiLVF~~~~~~l~~~a~~L---~~--~~I~G~ts 526 (732)
T TIGR00603 476 ----------------------VMNPNKFRACQFLIRFHE--QRGDKIIVFSDNVFALKEYAIKL---GK--PFIYGPTS 526 (732)
T ss_pred ----------------------hhChHHHHHHHHHHHHHh--hcCCeEEEEeCCHHHHHHHHHHc---CC--ceEECCCC
Confidence 012468888877776542 35899999999999988888777 33 34899999
Q ss_pred HHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCC-CcchHHHHhhhhhhcCCcc-----cEEEEEE
Q 002901 750 AKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWW-NPAVEEQAMDRVHRIGQKE-----DVKIVRL 823 (869)
Q Consensus 750 ~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~w-np~~e~QaigRvhRiGQ~k-----~V~V~rl 823 (869)
.++|.+++++|+.+ +.+.+|++| ++|++|+||+.|++||++++++ |+..+.||+||+.|.+..+ +..+|.|
T Consensus 527 ~~ER~~il~~Fr~~--~~i~vLv~S-kVgdeGIDlP~a~vvI~~s~~~gS~~q~iQRlGRilR~~~~~~~~~~~A~fY~l 603 (732)
T TIGR00603 527 QQERMQILQNFQHN--PKVNTIFLS-KVGDTSIDLPEANVLIQISSHYGSRRQEAQRLGRILRAKKGSDAEEYNAFFYSL 603 (732)
T ss_pred HHHHHHHHHHHHhC--CCccEEEEe-cccccccCCCCCCEEEEeCCCCCCHHHHHHHhcccccCCCCCccccccceEEEE
Confidence 99999999999873 245777777 9999999999999999999986 9999999999999999765 3799999
Q ss_pred EeCCCHHHHHHHHHHHHHHHHH
Q 002901 824 IVRNSIEERILELQDRKKKLAR 845 (869)
Q Consensus 824 i~~~siEe~i~~~q~~K~~l~~ 845 (869)
+++||.|+..-. ++.+-|++
T Consensus 604 Vs~dT~E~~~s~--~Rq~fl~~ 623 (732)
T TIGR00603 604 VSKDTQEMYYST--KRQRFLVD 623 (732)
T ss_pred ecCCchHHHHHH--HHHHHHHH
Confidence 999999987643 44444443
No 22
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=100.00 E-value=5.7e-42 Score=389.81 Aligned_cols=378 Identities=29% Similarity=0.423 Sum_probs=313.5
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
..|.|||.+|++|+..... ..--+||||+||||||++++.+........
T Consensus 294 g~L~~~qleGln~L~~~ws-----------------------------~~~~~ilADEmgLgktVqsi~fl~sl~~~~-- 342 (696)
T KOG0383|consen 294 GTLHPYQLEGLNWLRISWS-----------------------------PGVDAILADEMGLGKTVQSIVFLYSLPKEI-- 342 (696)
T ss_pred ccccccchhhhhhhhcccc-----------------------------cCCCcccchhhcCCceeeEEEEEeeccccc--
Confidence 7899999999999986543 124699999999999999998887765322
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
...+|.|+++|.
T Consensus 343 --------------------------------------------------------------------~~~~P~Lv~ap~ 354 (696)
T KOG0383|consen 343 --------------------------------------------------------------------HSPGPPLVVAPL 354 (696)
T ss_pred --------------------------------------------------------------------CCCCCceeeccC
Confidence 145789999999
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEeCCCCC------------Ch-------------hhhccccEEEEechhhHhhhccc
Q 002901 359 SVFSTWITQLEEHTVPGMLKTYMYYGDRTQ------------DV-------------EELKMYDLVLTTYSTLAIEESWL 413 (869)
Q Consensus 359 sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~------------~~-------------~~l~~~dVVItTY~~l~~~~~~~ 413 (869)
+.+-||+.|+..|. +.+.+..|+|.... +. ..-.+++|.+|+|.+...+.
T Consensus 355 sT~~nwe~e~~~wa--p~~~vv~~~G~~k~r~iirepe~s~ed~~~~~~~~i~~~~~~s~~k~~vl~~s~~~~~~~~--- 429 (696)
T KOG0383|consen 355 STIVNWEREFELWA--PSFYVVPYPGTAKSRAIIREPEFSFEDSSIKSSPKISEMKTESSAKFHVLLPSYETIEIDQ--- 429 (696)
T ss_pred ccccCCCCchhccC--CCcccccCCCCccchhhhhcccccccccccccCCccccccchhhcccccCCCchhhcccCH---
Confidence 99999999999998 88999999993221 10 11235678899999998887
Q ss_pred CCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhcccc
Q 002901 414 ESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPL 493 (869)
Q Consensus 414 ~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~ 493 (869)
+.++.+.|..+|+||+|.++|..|..++.+......++++|||||.+|++.+|+++|+||.++-|++..+|...|..-
T Consensus 430 -~il~~v~w~~livde~~rlkn~~s~~f~~l~~~~~~~~~lltgtPlqnn~~el~~ll~flt~~~~~~~~~f~e~~~d~- 507 (696)
T KOG0383|consen 430 -SILFSVQWGLLIVDEAHRLKNKQSKRFRVLTAYPIDSKLLLTGTPLQNNLEELFNLLNFLTPGRFNSLEWFLEEFHDI- 507 (696)
T ss_pred -HHHhhhhcceeEeechhhcccchhhhhhhccccccchhhhccCCcchhhhHHhhhcccccCcccccchhhhhhhcchh-
Confidence 578999999999999999999999999999999999999999999999999999999999999999999998877653
Q ss_pred ccCChhhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHH
Q 002901 494 AQGNRKGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLS 573 (869)
Q Consensus 494 ~~~~~~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~ 573 (869)
.....++.|+.++.+.||||.|.+++...|+|++.++.+.|++-|++.|..++..--..+. . ..+....+.
T Consensus 508 --~~~~~~~~l~~l~~p~~lrr~k~d~l~~~P~Kte~i~~~~~~~~Q~~~yk~~~t~n~~~l~---~----~~~~~s~~n 578 (696)
T KOG0383|consen 508 --SCEEQIKKLHLLLCPHMLRRLKLDVLKPMPLKTELIGRVELSPCQKKYYKKILTRNWQGLL---A----GVHQYSLLN 578 (696)
T ss_pred --hHHHHHHhhccccCchhhhhhhhhhccCCCccceeEEEEecCHHHHHHHHHHHcCChHHHh---h----cchhHHHHH
Confidence 3457788999999999999999999999999999999999999999999988754322211 1 334556788
Q ss_pred HHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHh
Q 002901 574 ILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKT 653 (869)
Q Consensus 574 ~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~ 653 (869)
.++.||+.|+||+++... . ....+.+.+... +
T Consensus 579 ~~mel~K~~~hpy~~~~~-e---------~~~~~~~~~~~~---l----------------------------------- 610 (696)
T KOG0383|consen 579 IVMELRKQCNHPYLSPLE-E---------PLEENGEYLGSA---L----------------------------------- 610 (696)
T ss_pred HHHHHHHhhcCcccCccc-c---------ccccchHHHHHH---H-----------------------------------
Confidence 999999999999998641 0 011111111100 0
Q ss_pred hhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHH
Q 002901 654 LQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEP 733 (869)
Q Consensus 654 ~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~ 733 (869)
...|.|+..|...++++.+ .++||+||||++.++|++++.
T Consensus 611 --------------------------------------~k~~~k~~~l~~~~~~l~~--~ghrvl~~~q~~~~ldlled~ 650 (696)
T KOG0383|consen 611 --------------------------------------IKASGKLTLLLKMLKKLKS--SGHRVLIFSQMIHMLDLLEDY 650 (696)
T ss_pred --------------------------------------HHHHHHHHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhHHH
Confidence 1238899999999999874 499999999999999999999
Q ss_pred HHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcccc
Q 002901 734 LQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAG 781 (869)
Q Consensus 734 L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~G 781 (869)
+...| .|.|+||..+-.+|++++++|+.++.+. .+||+|++|||.|
T Consensus 651 ~~~~~-~~~r~dG~~~~~~rq~ai~~~n~~~~~~-~cfllstra~g~g 696 (696)
T KOG0383|consen 651 LTYEG-KYERIDGPITGPERQAAIDRFNAPGSNQ-FCFLLSTRAGGLG 696 (696)
T ss_pred HhccC-cceeccCCccchhhhhhccccCCCCccc-eEEEeecccccCC
Confidence 99999 9999999999999999999999866544 8999999999998
No 23
>PRK13766 Hef nuclease; Provisional
Probab=100.00 E-value=5.5e-34 Score=349.20 Aligned_cols=445 Identities=18% Similarity=0.191 Sum_probs=280.5
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.++|+||++.+...+. +++|+++++|+|||++++.++..... .
T Consensus 14 ~~~r~yQ~~~~~~~l~----------------------------------~n~lv~~ptG~GKT~~a~~~i~~~l~-~-- 56 (773)
T PRK13766 14 IEARLYQQLLAATALK----------------------------------KNTLVVLPTGLGKTAIALLVIAERLH-K-- 56 (773)
T ss_pred CCccHHHHHHHHHHhc----------------------------------CCeEEEcCCCccHHHHHHHHHHHHHH-h--
Confidence 4789999999988875 36999999999999999888876431 1
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
..+++|||||.
T Consensus 57 ---------------------------------------------------------------------~~~~vLvl~Pt 67 (773)
T PRK13766 57 ---------------------------------------------------------------------KGGKVLILAPT 67 (773)
T ss_pred ---------------------------------------------------------------------CCCeEEEEeCc
Confidence 24579999998
Q ss_pred -hHHHHHHHHHHHhcCCCCeEEEEEeCCCC--CChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 359 -SVFSTWITQLEEHTVPGMLKTYMYYGDRT--QDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 359 -sll~qW~~Ei~~~~~~~~l~v~~y~G~r~--~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
.++.||.+++++++..+..++..++|+.. .....+.+++|+++|++++.++... ..+....|..||+||||++.+
T Consensus 68 ~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~r~~~~~~~~iiv~T~~~l~~~l~~--~~~~~~~~~liVvDEaH~~~~ 145 (773)
T PRK13766 68 KPLVEQHAEFFRKFLNIPEEKIVVFTGEVSPEKRAELWEKAKVIVATPQVIENDLIA--GRISLEDVSLLIFDEAHRAVG 145 (773)
T ss_pred HHHHHHHHHHHHHHhCCCCceEEEEeCCCCHHHHHHHHhCCCEEEECHHHHHHHHHc--CCCChhhCcEEEEECCccccc
Confidence 67899999999998554568888988322 2234456889999999999887632 334455789999999999987
Q ss_pred cChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhh
Q 002901 436 ANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTIS 512 (869)
Q Consensus 436 ~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~ 512 (869)
..+..+.+-... ...++++|||||..+ ...+..++.-|.......+..|...+.
T Consensus 146 ~~~~~~i~~~~~~~~~~~~il~lTaTP~~~-~~~i~~~~~~L~i~~v~~~~~~~~~v~---------------------- 202 (773)
T PRK13766 146 NYAYVYIAERYHEDAKNPLVLGLTASPGSD-EEKIKEVCENLGIEHVEVRTEDDPDVK---------------------- 202 (773)
T ss_pred cccHHHHHHHHHhcCCCCEEEEEEcCCCCC-HHHHHHHHHhCCceEEEEcCCCChhHH----------------------
Confidence 655444332222 345699999999875 455656665554432211111111100
Q ss_pred hhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCc----------------------------
Q 002901 513 LRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSL---------------------------- 564 (869)
Q Consensus 513 lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~---------------------------- 564 (869)
..+.+.....+.+.+++..+++++.+.......+......+..
T Consensus 203 ---------~~~~~~~v~~~~v~l~~~~~~i~~~l~~~~~~~l~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~ 273 (773)
T PRK13766 203 ---------PYVHKVKIEWVRVELPEELKEIRDLLNEALKDRLKKLKELGVIVSISPDVSKKELLGLQKKLQQEIANDDS 273 (773)
T ss_pred ---------hhhccceeEEEEeCCcHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCCcCHHHHHHHHHHHHHHhhcCch
Confidence 0111222333344444444444444333332222222211111
Q ss_pred -ccchHHHHHHHHHHHHhhcccCCCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCC
Q 002901 565 -MRNYSTVLSILLRLRQICTNLALCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAH 643 (869)
Q Consensus 565 -~~~~~~il~~llrLRq~c~h~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h 643 (869)
......++..++.+++....- . ......+..+...+....... ........-...
T Consensus 274 ~~~~~~~~~~~~~~l~~~~~~l---~---------------~~~~~~~~~y~~~l~~~~~~~------~~~~~~~~l~~~ 329 (773)
T PRK13766 274 EGYEAISILAEAMKLRHAVELL---E---------------TQGVEALRRYLERLREEARSS------GGSKASKRLVED 329 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---H---------------HhCHHHHHHHHHHHHhhcccc------CCcHHHHHHHhC
Confidence 000111222233333321100 0 000011111111111100000 000000000000
Q ss_pred ccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEecc
Q 002901 644 IFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQF 723 (869)
Q Consensus 644 ~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~ 723 (869)
... .+.+. ....-...++|++.|.++|.+.....++.|+|||+++
T Consensus 330 ---~~~-~~~~~-------------------------------~~~~~~~~~pK~~~L~~il~~~~~~~~~~kvlIF~~~ 374 (773)
T PRK13766 330 ---PRF-RKAVR-------------------------------KAKELDIEHPKLEKLREIVKEQLGKNPDSRIIVFTQY 374 (773)
T ss_pred ---HHH-HHHHH-------------------------------HHHhcccCChHHHHHHHHHHHHHhcCCCCeEEEEeCc
Confidence 000 00000 0000022478999999999988766778999999999
Q ss_pred HHHHHHHHHHHHHcCCcEEEEeCC--------CCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcC
Q 002901 724 RKMLILLEEPLQAAGFKLLRLDGS--------MNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEP 795 (869)
Q Consensus 724 ~~~ld~l~~~L~~~gi~~~rldG~--------~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp 795 (869)
..+++.|...|...|+++.+++|. |++.+|.+++++|+++ .+.|| +++.++++|+|++.+++||+|||
T Consensus 375 ~~t~~~L~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~g---~~~vL-vaT~~~~eGldi~~~~~VI~yd~ 450 (773)
T PRK13766 375 RDTAEKIVDLLEKEGIKAVRFVGQASKDGDKGMSQKEQIEILDKFRAG---EFNVL-VSTSVAEEGLDIPSVDLVIFYEP 450 (773)
T ss_pred HHHHHHHHHHHHhCCCceEEEEccccccccCCCCHHHHHHHHHHHHcC---CCCEE-EECChhhcCCCcccCCEEEEeCC
Confidence 999999999999999999999997 8999999999999984 33655 56689999999999999999999
Q ss_pred CCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHh
Q 002901 796 WWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAFR 849 (869)
Q Consensus 796 ~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~ 849 (869)
+|||....|++||++|.|+ +.||.|+.++|+||.++....+|.+.+...+.
T Consensus 451 ~~s~~r~iQR~GR~gR~~~---~~v~~l~~~~t~ee~~y~~~~~ke~~~~~~l~ 501 (773)
T PRK13766 451 VPSEIRSIQRKGRTGRQEE---GRVVVLIAKGTRDEAYYWSSRRKEKKMKEELK 501 (773)
T ss_pred CCCHHHHHHHhcccCcCCC---CEEEEEEeCCChHHHHHHHhhHHHHHHHHHHH
Confidence 9999999998888888765 67999999999999999888777777644444
No 24
>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.4e-29 Score=272.40 Aligned_cols=470 Identities=17% Similarity=0.141 Sum_probs=306.3
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.+-|.||..-.+-.+. +..+++-++|||||+.|+.+|+......
T Consensus 14 ie~R~YQ~~i~a~al~----------------------------------~NtLvvlPTGLGKT~IA~~V~~~~l~~~-- 57 (542)
T COG1111 14 IEPRLYQLNIAAKALF----------------------------------KNTLVVLPTGLGKTFIAAMVIANRLRWF-- 57 (542)
T ss_pred ccHHHHHHHHHHHHhh----------------------------------cCeEEEecCCccHHHHHHHHHHHHHHhc--
Confidence 4678999998887776 4689999999999999999998765321
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
.+..|+++|+
T Consensus 58 ----------------------------------------------------------------------~~kvlfLAPT 67 (542)
T COG1111 58 ----------------------------------------------------------------------GGKVLFLAPT 67 (542)
T ss_pred ----------------------------------------------------------------------CCeEEEecCC
Confidence 2368999998
Q ss_pred -hHHHHHHHHHHHhcCCCCeEEEEEeC--CCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 359 -SVFSTWITQLEEHTVPGMLKTYMYYG--DRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 359 -sll~qW~~Ei~~~~~~~~l~v~~y~G--~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
.|+.|-..-+.+.+.-+.-.+..+.| ........+.+..|++.|.+++.+|... ..+.--++..||+||||+.-.
T Consensus 68 KPLV~Qh~~~~~~v~~ip~~~i~~ltGev~p~~R~~~w~~~kVfvaTPQvveNDl~~--Grid~~dv~~lifDEAHRAvG 145 (542)
T COG1111 68 KPLVLQHAEFCRKVTGIPEDEIAALTGEVRPEEREELWAKKKVFVATPQVVENDLKA--GRIDLDDVSLLIFDEAHRAVG 145 (542)
T ss_pred chHHHHHHHHHHHHhCCChhheeeecCCCChHHHHHHHhhCCEEEeccHHHHhHHhc--CccChHHceEEEechhhhccC
Confidence 78999999999999877889999999 3334566789999999999999999843 455556788899999999866
Q ss_pred cChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhh
Q 002901 436 ANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTIS 512 (869)
Q Consensus 436 ~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~ 512 (869)
..+-.+-|=..+ +..+.++|||||=. +.+.+...+.=|+++ .+.
T Consensus 146 nyAYv~Va~~y~~~~k~~~ilgLTASPGs-~~ekI~eV~~nLgIe--------------------------------~ve 192 (542)
T COG1111 146 NYAYVFVAKEYLRSAKNPLILGLTASPGS-DLEKIQEVVENLGIE--------------------------------KVE 192 (542)
T ss_pred cchHHHHHHHHHHhccCceEEEEecCCCC-CHHHHHHHHHhCCcc--------------------------------eEE
Confidence 555444433333 34578999999932 222222222222221 122
Q ss_pred hhccCC--CCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccc----hHHHHHHHHHHHHhhcccC
Q 002901 513 LRRTKD--KGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRN----YSTVLSILLRLRQICTNLA 586 (869)
Q Consensus 513 lRRtk~--~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~----~~~il~~llrLRq~c~h~~ 586 (869)
+ ||-. ++-..+.++..+.+.|+++++-.++-+.+..-.+..++.+.+.|-.... ...++... . .+......
T Consensus 193 v-rTE~d~DV~~Yv~~~kve~ikV~lp~e~~~ir~~l~~~l~~~Lk~L~~~g~~~~~~~~~~kdl~~~~-~-~~~~~a~~ 269 (542)
T COG1111 193 V-RTEEDPDVRPYVKKIKVEWIKVDLPEEIKEIRDLLRDALKPRLKPLKELGVIESSSPVSKKDLLELR-Q-IRLIMAKN 269 (542)
T ss_pred E-ecCCCccHHHhhccceeEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHcCceeccCcccHhHHHHHH-H-HHHHhccC
Confidence 2 2322 2223566788899999999988877777776666666665554422211 12222222 1 11111011
Q ss_pred CCcccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCC
Q 002901 587 LCPSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRH 666 (869)
Q Consensus 587 l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~ 666 (869)
. ....-.... . . ...-.+.++.+++.... -.-+..+++.....|.. ..
T Consensus 270 ~-~~~~~~~l~---~--~-a~~~kl~~a~elletqG------------------------i~~~~~Yl~~l~e~~~~-~~ 317 (542)
T COG1111 270 E-DSDKFRLLS---V--L-AEAIKLAHALELLETQG------------------------IRPFYQYLEKLEEEATK-GG 317 (542)
T ss_pred c-cHHHHHHHH---H--H-HHHHHHHHHHHHHHhhC------------------------hHHHHHHHHHHHHHhcc-cc
Confidence 0 000000000 0 0 00000111111111100 00011111111111111 00
Q ss_pred CccCCCcccCCCCCCCcc-cccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEE-EE
Q 002901 667 PLLQSDLFSSPPESSDMD-IAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLL-RL 744 (869)
Q Consensus 667 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~-rl 744 (869)
.-....++..+.-..... ..........++|++.+.++|.+..++.++.++|||++|+++++.|...|...|+... ++
T Consensus 318 sk~a~~l~~d~~~~~al~~~~~~~~~~v~HPKl~~l~eilke~~~k~~~~RvIVFT~yRdTae~i~~~L~~~~~~~~~rF 397 (542)
T COG1111 318 SKAAKSLLADPYFKRALRLLIRADESGVEHPKLEKLREILKEQLEKNGDSRVIVFTEYRDTAEEIVNFLKKIGIKARVRF 397 (542)
T ss_pred hHHHHHHhcChhhHHHHHHHHHhccccCCCccHHHHHHHHHHHHhcCCCceEEEEehhHhHHHHHHHHHHhcCCcceeEE
Confidence 000000111000000000 0000112345899999999999999888899999999999999999999999998876 77
Q ss_pred eC--------CCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcc
Q 002901 745 DG--------SMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKE 816 (869)
Q Consensus 745 dG--------~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k 816 (869)
-| +|++++..++|++|+++ .+.||+ +|..|.+||++...+-||+|||.=+|....||.||.+| ++
T Consensus 398 iGQa~r~~~~GMsQkeQ~eiI~~Fr~G---e~nVLV-aTSVgEEGLDIp~vDlVifYEpvpSeIR~IQR~GRTGR---~r 470 (542)
T COG1111 398 IGQASREGDKGMSQKEQKEIIDQFRKG---EYNVLV-ATSVGEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGR---KR 470 (542)
T ss_pred eeccccccccccCHHHHHHHHHHHhcC---CceEEE-EcccccccCCCCcccEEEEecCCcHHHHHHHhhCcccc---CC
Confidence 76 59999999999999994 336655 66999999999999999999999999999999999877 47
Q ss_pred cEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 002901 817 DVKIVRLIVRNSIEERILELQDRKKKLAREAFRRK 851 (869)
Q Consensus 817 ~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~~~~ 851 (869)
+-.||-|+++||-||.-+....+|.+-+...+.+-
T Consensus 471 ~Grv~vLvt~gtrdeayy~~s~rke~~m~e~i~~~ 505 (542)
T COG1111 471 KGRVVVLVTEGTRDEAYYYSSRRKEQKMIESIRGL 505 (542)
T ss_pred CCeEEEEEecCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 78899999999999998888888887777766654
No 25
>PHA02558 uvsW UvsW helicase; Provisional
Probab=99.96 E-value=1.7e-27 Score=275.81 Aligned_cols=127 Identities=17% Similarity=0.187 Sum_probs=109.7
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
|...+.+++..+. ..+.+++||+..+.+++.|.+.|...|+++..++|+|+.++|.++++.|+++ ...|||+|.+
T Consensus 329 Rn~~I~~~~~~~~--~~~~~~lV~~~~~~h~~~L~~~L~~~g~~v~~i~G~~~~~eR~~i~~~~~~~---~~~vLvaT~~ 403 (501)
T PHA02558 329 RNKWIANLALKLA--KKGENTFVMFKYVEHGKPLYEMLKKVYDKVYYVSGEVDTEDRNEMKKIAEGG---KGIIIVASYG 403 (501)
T ss_pred HHHHHHHHHHHHH--hcCCCEEEEEEEHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHhCC---CCeEEEEEcc
Confidence 4444555554443 2367899999999999999999999999999999999999999999999873 3478888889
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc-EEEEEEEeCCC
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED-VKIVRLIVRNS 828 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~-V~V~rli~~~s 828 (869)
..|+|+|++..++||+++|.-+.....|++||++|.|..|+ +.||.|+-.-+
T Consensus 404 ~l~eG~Dip~ld~vIl~~p~~s~~~~~QriGR~~R~~~~K~~~~i~D~vD~~~ 456 (501)
T PHA02558 404 VFSTGISIKNLHHVIFAHPSKSKIIVLQSIGRVLRKHGSKSIATVWDIIDDLS 456 (501)
T ss_pred eeccccccccccEEEEecCCcchhhhhhhhhccccCCCCCceEEEEEeecccc
Confidence 99999999999999999999999999999999999998765 99999997544
No 26
>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]
Probab=99.96 E-value=1.3e-26 Score=263.13 Aligned_cols=369 Identities=22% Similarity=0.258 Sum_probs=259.7
Q ss_pred cccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCC
Q 002901 196 VIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 196 ~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~ 275 (869)
.....|||||.+|+.-+...-. . .+.|++.-.+|.|||+.++.+|....
T Consensus 32 ~~~~~lr~yQ~~al~a~~~~~~----------------------------~-~~~gvivlpTGaGKT~va~~~~~~~~-- 80 (442)
T COG1061 32 AFEFELRPYQEEALDALVKNRR----------------------------T-ERRGVIVLPTGAGKTVVAAEAIAELK-- 80 (442)
T ss_pred ccCCCCcHHHHHHHHHHHhhcc----------------------------c-CCceEEEeCCCCCHHHHHHHHHHHhc--
Confidence 4556799999999997776211 0 25799999999999999999998753
Q ss_pred CCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEe
Q 002901 276 GVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIV 355 (869)
Q Consensus 276 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV 355 (869)
..||||
T Consensus 81 --------------------------------------------------------------------------~~~Lvl 86 (442)
T COG1061 81 --------------------------------------------------------------------------RSTLVL 86 (442)
T ss_pred --------------------------------------------------------------------------CCEEEE
Confidence 229999
Q ss_pred cChh-HHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccC
Q 002901 356 CPPS-VFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIK 434 (869)
Q Consensus 356 ~P~s-ll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ik 434 (869)
||.. ++.||.+.+.+++..+ -.+..|.|....... .+|+++||+++.+.... ..+..-+|++||+||+|++-
T Consensus 87 v~~~~L~~Qw~~~~~~~~~~~-~~~g~~~~~~~~~~~----~~i~vat~qtl~~~~~l--~~~~~~~~~liI~DE~Hh~~ 159 (442)
T COG1061 87 VPTKELLDQWAEALKKFLLLN-DEIGIYGGGEKELEP----AKVTVATVQTLARRQLL--DEFLGNEFGLIIFDEVHHLP 159 (442)
T ss_pred ECcHHHHHHHHHHHHHhcCCc-cccceecCceeccCC----CcEEEEEhHHHhhhhhh--hhhcccccCEEEEEccccCC
Confidence 9985 5699999999888322 245566663322111 67999999999986200 12233489999999999996
Q ss_pred CcChHHHHHHhhcccCe-EEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhhh
Q 002901 435 NANAQQSRTVTNLNAKR-RWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISL 513 (869)
Q Consensus 435 n~~s~~~ka~~~L~a~~-r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~l 513 (869)
.+..+ +.+..+.+.+ |++|||||....-..+..+..++.+-.+.. .+ ..++.
T Consensus 160 a~~~~--~~~~~~~~~~~~LGLTATp~R~D~~~~~~l~~~~g~~vy~~--~~-------------------~~li~---- 212 (442)
T COG1061 160 APSYR--RILELLSAAYPRLGLTATPEREDGGRIGDLFDLIGPIVYEV--SL-------------------KELID---- 212 (442)
T ss_pred cHHHH--HHHHhhhcccceeeeccCceeecCCchhHHHHhcCCeEeec--CH-------------------HHHHh----
Confidence 54322 2344456666 999999998544334444444443222211 11 11111
Q ss_pred hccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCCccccc
Q 002901 514 RRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALCPSDVR 593 (869)
Q Consensus 514 RRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~~~~~~ 593 (869)
...|.|.....+.+.++..+...|................ ....-..+.
T Consensus 213 -------~g~Lap~~~~~i~~~~t~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~------------- 261 (442)
T COG1061 213 -------EGYLAPYKYVEIKVTLTEDEEREYAKESARFRELLRARGT-----------LRAENEARR------------- 261 (442)
T ss_pred -------CCCccceEEEEEEeccchHHHHHhhhhhhhhhhhhhhhhh-----------hhHHHHHHH-------------
Confidence 1456788888999999999998888765443221111000 000000000
Q ss_pred ccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 594 SIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 594 ~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
T Consensus 262 -------------------------------------------------------------------------------- 261 (442)
T COG1061 262 -------------------------------------------------------------------------------- 261 (442)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred ccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHH
Q 002901 674 FSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKR 753 (869)
Q Consensus 674 ~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R 753 (869)
.......|+..+..++.... .+.+++||+......+.+...+...|+ ...++|.++..+|
T Consensus 262 ----------------~~~~~~~~~~~~~~~~~~~~---~~~~~lif~~~~~~a~~i~~~~~~~~~-~~~it~~t~~~eR 321 (442)
T COG1061 262 ----------------IAIASERKIAAVRGLLLKHA---RGDKTLIFASDVEHAYEIAKLFLAPGI-VEAITGETPKEER 321 (442)
T ss_pred ----------------HhhccHHHHHHHHHHHHHhc---CCCcEEEEeccHHHHHHHHHHhcCCCc-eEEEECCCCHHHH
Confidence 00123567777777776542 378999999999999999999999988 8899999999999
Q ss_pred HHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcC-Cccc--EEEEEEEeCCCHH
Q 002901 754 AQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIG-QKED--VKIVRLIVRNSIE 830 (869)
Q Consensus 754 ~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiG-Q~k~--V~V~rli~~~siE 830 (869)
.+++++|+.++ +.+ |++.+++.+|++++.|+.+|++.|.=++..+.|++||+.|.- .+.. +..|-++..++.|
T Consensus 322 ~~il~~fr~g~---~~~-lv~~~vl~EGvDiP~~~~~i~~~~t~S~~~~~Q~lGR~LR~~~~k~~~~~~~~~~~~~~~~~ 397 (442)
T COG1061 322 EAILERFRTGG---IKV-LVTVKVLDEGVDIPDADVLIILRPTGSRRLFIQRLGRGLRPAEGKEDTLALDYSLVPDDLGE 397 (442)
T ss_pred HHHHHHHHcCC---CCE-EEEeeeccceecCCCCcEEEEeCCCCcHHHHHHHhhhhccCCCCCCceEEEEEEeecCcccc
Confidence 99999999942 345 556699999999999999999999999999999999999954 3443 7788888888888
Q ss_pred HHHHHHHH
Q 002901 831 ERILELQD 838 (869)
Q Consensus 831 e~i~~~q~ 838 (869)
..+.....
T Consensus 398 ~~~~~~~~ 405 (442)
T COG1061 398 EDIARRRR 405 (442)
T ss_pred cchhhhhh
Confidence 87766544
No 27
>PTZ00110 helicase; Provisional
Probab=99.90 E-value=7.6e-22 Score=230.35 Aligned_cols=125 Identities=18% Similarity=0.247 Sum_probs=106.9
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|...|.++|..... .+.|+|||++.....+.|...|...|++...++|++++.+|.+++++|+++ ...| |++
T Consensus 360 ~~k~~~L~~ll~~~~~--~~~k~LIF~~t~~~a~~l~~~L~~~g~~~~~ihg~~~~~eR~~il~~F~~G---~~~I-LVa 433 (545)
T PTZ00110 360 HEKRGKLKMLLQRIMR--DGDKILIFVETKKGADFLTKELRLDGWPALCIHGDKKQEERTWVLNEFKTG---KSPI-MIA 433 (545)
T ss_pred hhHHHHHHHHHHHhcc--cCCeEEEEecChHHHHHHHHHHHHcCCcEEEEECCCcHHHHHHHHHHHhcC---CCcE-EEE
Confidence 3456666666665532 478999999999999999999999999999999999999999999999984 3355 556
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
|.++++|||+..+++||++|+++++....|++||++|.|.+- .++.|+..+
T Consensus 434 Tdv~~rGIDi~~v~~VI~~d~P~s~~~yvqRiGRtGR~G~~G--~ai~~~~~~ 484 (545)
T PTZ00110 434 TDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKG--ASYTFLTPD 484 (545)
T ss_pred cchhhcCCCcccCCEEEEeCCCCCHHHHHHHhcccccCCCCc--eEEEEECcc
Confidence 799999999999999999999999999999999999999864 445666665
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=99.90 E-value=1e-22 Score=216.53 Aligned_cols=344 Identities=20% Similarity=0.276 Sum_probs=237.7
Q ss_pred cccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCC
Q 002901 198 KSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGV 277 (869)
Q Consensus 198 ~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~ 277 (869)
.+.+||||...|.-|...-+ .|.||+.-++|.|||+..+..++..
T Consensus 300 st~iRpYQEksL~KMFGNgR------------------------------ARSGiIVLPCGAGKtLVGvTAa~ti----- 344 (776)
T KOG1123|consen 300 STQIRPYQEKSLSKMFGNGR------------------------------ARSGIIVLPCGAGKTLVGVTAACTI----- 344 (776)
T ss_pred ccccCchHHHHHHHHhCCCc------------------------------ccCceEEEecCCCCceeeeeeeeee-----
Confidence 36899999999999976332 4789999999999999887666543
Q ss_pred CCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecC
Q 002901 278 APGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCP 357 (869)
Q Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P 357 (869)
.+..||+|-
T Consensus 345 -----------------------------------------------------------------------kK~clvLct 353 (776)
T KOG1123|consen 345 -----------------------------------------------------------------------KKSCLVLCT 353 (776)
T ss_pred -----------------------------------------------------------------------cccEEEEec
Confidence 355899999
Q ss_pred hhH-HHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcc------cCCCcceeeeeEEEEcCc
Q 002901 358 PSV-FSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESW------LESPVKKIEWWRVILDEA 430 (869)
Q Consensus 358 ~sl-l~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~------~~~~l~~~~w~rVIlDEa 430 (869)
.++ +.||+.||..|..-..-.++.+..+.+.. .-...+||||||+++..-... .-..|....|.++||||.
T Consensus 354 s~VSVeQWkqQfk~wsti~d~~i~rFTsd~Ke~--~~~~~gvvvsTYsMva~t~kRS~eaek~m~~l~~~EWGllllDEV 431 (776)
T KOG1123|consen 354 SAVSVEQWKQQFKQWSTIQDDQICRFTSDAKER--FPSGAGVVVTTYSMVAYTGKRSHEAEKIMDFLRGREWGLLLLDEV 431 (776)
T ss_pred CccCHHHHHHHHHhhcccCccceEEeecccccc--CCCCCcEEEEeeehhhhcccccHHHHHHHHHHhcCeeeeEEeehh
Confidence 987 79999999999865566677776632221 225688999999999865421 113567789999999999
Q ss_pred cccCCcChHHHHHHhhc-ccCeEEEEecccccCChhhhHhhhhhh-ccCCCCchHHHHHHhccccccCChhhHHHHHHHH
Q 002901 431 HVIKNANAQQSRTVTNL-NAKRRWVVTGTPIQNGSFDLFSLMAFL-QFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLM 508 (869)
Q Consensus 431 H~ikn~~s~~~ka~~~L-~a~~r~~LTGTPi~N~l~DL~sll~fL-~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll 508 (869)
|.+ -+++++-+..+ ++..+++||||-+.. +|=..=|+|| .|..|. ..|...-..
T Consensus 432 Hvv---PA~MFRRVlsiv~aHcKLGLTATLvRE--DdKI~DLNFLIGPKlYE--AnWmdL~~k----------------- 487 (776)
T KOG1123|consen 432 HVV---PAKMFRRVLSIVQAHCKLGLTATLVRE--DDKITDLNFLIGPKLYE--ANWMDLQKK----------------- 487 (776)
T ss_pred ccc---hHHHHHHHHHHHHHHhhccceeEEeec--cccccccceeecchhhh--ccHHHHHhC-----------------
Confidence 998 45666665554 889999999998763 2323334555 333332 223222111
Q ss_pred hhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHHhhcccCCC
Q 002901 509 STISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMRNYSTVLSILLRLRQICTNLALC 588 (869)
Q Consensus 509 ~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~~~~~il~~llrLRq~c~h~~l~ 588 (869)
-.+....--.|+|+|+++--..|-.. .++. |++ |
T Consensus 488 -------------GhIA~VqCaEVWCpMt~eFy~eYL~~--~t~k-------------------------r~l-----L- 521 (776)
T KOG1123|consen 488 -------------GHIAKVQCAEVWCPMTPEFYREYLRE--NTRK-------------------------RML-----L- 521 (776)
T ss_pred -------------CceeEEeeeeeecCCCHHHHHHHHhh--hhhh-------------------------hhe-----e-
Confidence 12223344578999998654333221 1000 000 0
Q ss_pred cccccccCCCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCc
Q 002901 589 PSDVRSIIPSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 589 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
T Consensus 522 -------------------------------------------------------------------------------- 521 (776)
T KOG1123|consen 522 -------------------------------------------------------------------------------- 521 (776)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cCCCcccCCCCCCCcccccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCC
Q 002901 669 LQSDLFSSPPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSM 748 (869)
Q Consensus 669 ~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~ 748 (869)
..-...|.++.-=+++-. + ..+.|+||||...-.|..-.-. .|-+| |.|.+
T Consensus 522 ----------------------yvMNP~KFraCqfLI~~H-E-~RgDKiIVFsDnvfALk~YAik---l~Kpf--IYG~T 572 (776)
T KOG1123|consen 522 ----------------------YVMNPNKFRACQFLIKFH-E-RRGDKIIVFSDNVFALKEYAIK---LGKPF--IYGPT 572 (776)
T ss_pred ----------------------eecCcchhHHHHHHHHHH-H-hcCCeEEEEeccHHHHHHHHHH---cCCce--EECCC
Confidence 011245666554444433 2 3589999999876555433332 34444 78999
Q ss_pred CHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCC-cchHHHHhhhhhhcCCc----ccEEEEEE
Q 002901 749 NAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWN-PAVEEQAMDRVHRIGQK----EDVKIVRL 823 (869)
Q Consensus 749 ~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wn-p~~e~QaigRvhRiGQ~----k~V~V~rl 823 (869)
++.+|-++++.|+. ++ .+.-+.+| ++|-..++|+.|+.+|-...+.- -..|.||.|||-|--.. -++..|-|
T Consensus 573 sq~ERm~ILqnFq~-n~-~vNTIFlS-KVgDtSiDLPEAnvLIQISSH~GSRRQEAQRLGRILRAKk~~de~fnafFYSL 649 (776)
T KOG1123|consen 573 SQNERMKILQNFQT-NP-KVNTIFLS-KVGDTSIDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKRNDEEFNAFFYSL 649 (776)
T ss_pred chhHHHHHHHhccc-CC-ccceEEEe-eccCccccCCcccEEEEEcccccchHHHHHHHHHHHHHhhcCccccceeeeee
Confidence 99999999999998 44 45667778 99999999999999999998864 46799999999996522 24899999
Q ss_pred EeCCCHHH
Q 002901 824 IVRNSIEE 831 (869)
Q Consensus 824 i~~~siEe 831 (869)
+.+||.|-
T Consensus 650 VS~DTqEM 657 (776)
T KOG1123|consen 650 VSKDTQEM 657 (776)
T ss_pred eecchHHH
Confidence 99999874
No 29
>KOG0354 consensus DEAD-box like helicase [General function prediction only]
Probab=99.90 E-value=3.6e-21 Score=219.69 Aligned_cols=149 Identities=21% Similarity=0.291 Sum_probs=120.3
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH---cCCcEEEEeC--------CCCHHHHHHHHHHhCC
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA---AGFKLLRLDG--------SMNAKKRAQVIEEFGN 762 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~---~gi~~~rldG--------~~~~~~R~~~i~~F~~ 762 (869)
.++|++.|.+.|.+.....+..++|||+.++..++.|..+|.. .|++...+-| +|++++..++|+.|++
T Consensus 393 ~npkle~l~~~l~e~f~~~~dsR~IIFve~R~sa~~l~~~l~~~~~~~ir~~~fiGq~~s~~~~gmtqk~Q~evl~~Fr~ 472 (746)
T KOG0354|consen 393 ENPKLEKLVEILVEQFEQNPDSRTIIFVETRESALALKKWLLQLHELGIKAEIFIGQGKSTQSTGMTQKEQKEVLDKFRD 472 (746)
T ss_pred cChhHHHHHHHHHHHhhcCCCccEEEEEehHHHHHHHHHHHHhhhhcccccceeeeccccccccccCHHHHHHHHHHHhC
Confidence 5899999999999988888899999999999999999999983 3667666666 6899999999999999
Q ss_pred CCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHH
Q 002901 763 PGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKK 842 (869)
Q Consensus 763 ~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~ 842 (869)
+ .+.||+ +|..|.+||+...+|-||.||..=||....||+|| +|- +.=+++-+.. ++=+-+-...+..|+.
T Consensus 473 G---~~NvLV-ATSV~EEGLDI~ec~lVIcYd~~snpIrmIQrrGR-gRa---~ns~~vll~t-~~~~~~~E~~~~~~e~ 543 (746)
T KOG0354|consen 473 G---EINVLV-ATSVAEEGLDIGECNLVICYDYSSNPIRMVQRRGR-GRA---RNSKCVLLTT-GSEVIEFERNNLAKEK 543 (746)
T ss_pred C---CccEEE-EecchhccCCcccccEEEEecCCccHHHHHHHhcc-ccc---cCCeEEEEEc-chhHHHHHHHHHhHHH
Confidence 4 335555 56999999999999999999999999999999999 664 4444444455 5444444556667777
Q ss_pred HHHHHHhcc
Q 002901 843 LAREAFRRK 851 (869)
Q Consensus 843 l~~~~~~~~ 851 (869)
+++..+...
T Consensus 544 lm~~~i~~~ 552 (746)
T KOG0354|consen 544 LMNQTISKI 552 (746)
T ss_pred HHHHHHHHH
Confidence 777776654
No 30
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=99.90 E-value=9.2e-22 Score=225.62 Aligned_cols=117 Identities=26% Similarity=0.315 Sum_probs=100.4
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
.|...|..++.. ....++|||++....++.+...|...|+....++|+|++.+|..+++.|+++ .+.||++ +
T Consensus 231 ~k~~~l~~l~~~----~~~~~~lVF~~s~~~~~~l~~~L~~~~~~~~~l~g~~~~~~R~~~l~~f~~G---~~~vLVa-T 302 (434)
T PRK11192 231 HKTALLCHLLKQ----PEVTRSIVFVRTRERVHELAGWLRKAGINCCYLEGEMVQAKRNEAIKRLTDG---RVNVLVA-T 302 (434)
T ss_pred HHHHHHHHHHhc----CCCCeEEEEeCChHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHhCC---CCcEEEE-c
Confidence 355555555542 3467999999999999999999999999999999999999999999999984 4466654 5
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEE
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKI 820 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V 820 (869)
.+++.|+|+..+++||++|+++++....|++||++|.|.+-.+.+
T Consensus 303 d~~~~GiDip~v~~VI~~d~p~s~~~yiqr~GR~gR~g~~g~ai~ 347 (434)
T PRK11192 303 DVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTAIS 347 (434)
T ss_pred cccccCccCCCCCEEEEECCCCCHHHHhhcccccccCCCCceEEE
Confidence 999999999999999999999999999999999999998654433
No 31
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=99.89 E-value=1.7e-21 Score=224.88 Aligned_cols=121 Identities=28% Similarity=0.434 Sum_probs=104.8
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
|+.+|.++|... .+.++|||++.....+.+...|...|+....++|+|++++|..+++.|+++ ..+||+ ++.
T Consensus 229 k~~~l~~ll~~~----~~~~~lVF~~t~~~~~~l~~~L~~~~~~v~~~hg~~~~~eR~~~l~~F~~g---~~~vLV-aTd 300 (460)
T PRK11776 229 RLPALQRLLLHH----QPESCVVFCNTKKECQEVADALNAQGFSALALHGDLEQRDRDQVLVRFANR---SCSVLV-ATD 300 (460)
T ss_pred HHHHHHHHHHhc----CCCceEEEECCHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHHHHHcC---CCcEEE-Eec
Confidence 666777776542 367899999999999999999999999999999999999999999999984 446655 559
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
+++.|||+..+++||++|++.++....|++||++|.|++- ..|.|+..+
T Consensus 301 v~~rGiDi~~v~~VI~~d~p~~~~~yiqR~GRtGR~g~~G--~ai~l~~~~ 349 (460)
T PRK11776 301 VAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKG--LALSLVAPE 349 (460)
T ss_pred ccccccchhcCCeEEEecCCCCHhHhhhhcccccCCCCcc--eEEEEEchh
Confidence 9999999999999999999999999999999999999763 455566654
No 32
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.89 E-value=3.8e-21 Score=222.56 Aligned_cols=123 Identities=23% Similarity=0.327 Sum_probs=103.7
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
+.|...|.+++.. .+..|+|||++.....+.+...|...|+.+..++|.++.++|.++++.|+++ .+.||+ +
T Consensus 320 ~~k~~~l~~ll~~----~~~~~~IVF~~s~~~~~~l~~~L~~~~~~~~~~~g~~~~~~R~~~~~~Fr~G---~~~vLv-a 391 (475)
T PRK01297 320 SDKYKLLYNLVTQ----NPWERVMVFANRKDEVRRIEERLVKDGINAAQLSGDVPQHKRIKTLEGFREG---KIRVLV-A 391 (475)
T ss_pred hhHHHHHHHHHHh----cCCCeEEEEeCCHHHHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHhCC---CCcEEE-E
Confidence 3455555555543 3467999999999999999999999999999999999999999999999984 346655 5
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
+.+++.|+|+..+++||++++++++....|++||++|.|+.- .++-|+..+
T Consensus 392 T~~l~~GIDi~~v~~VI~~~~P~s~~~y~Qr~GRaGR~g~~g--~~i~~~~~~ 442 (475)
T PRK01297 392 TDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASG--VSISFAGED 442 (475)
T ss_pred ccccccCCcccCCCEEEEeCCCCCHHHHHHhhCccCCCCCCc--eEEEEecHH
Confidence 699999999999999999999999999999999999999864 344455544
No 33
>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=99.89 E-value=1.7e-21 Score=224.75 Aligned_cols=105 Identities=17% Similarity=0.157 Sum_probs=94.8
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL 792 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~ 792 (869)
++.+.|||+......+.+...|...|++...++|+|+.++|.++++.|+++ .+.||+ ++.+.|.|+|++..+.||+
T Consensus 225 ~~~~~IIF~~s~~~~e~la~~L~~~g~~~~~~H~~l~~~eR~~i~~~F~~g---~~~vLV-aT~~~~~GID~p~V~~VI~ 300 (470)
T TIGR00614 225 KGKSGIIYCPSRKKSEQVTASLQNLGIAAGAYHAGLEISARDDVHHKFQRD---EIQVVV-ATVAFGMGINKPDVRFVIH 300 (470)
T ss_pred CCCceEEEECcHHHHHHHHHHHHhcCCCeeEeeCCCCHHHHHHHHHHHHcC---CCcEEE-EechhhccCCcccceEEEE
Confidence 466779999999999999999999999999999999999999999999983 446665 5589999999999999999
Q ss_pred EcCCCCcchHHHHhhhhhhcCCcccEEEE
Q 002901 793 LEPWWNPAVEEQAMDRVHRIGQKEDVKIV 821 (869)
Q Consensus 793 ~dp~wnp~~e~QaigRvhRiGQ~k~V~V~ 821 (869)
++++.++....|++||++|.|+.....++
T Consensus 301 ~~~P~s~~~y~Qr~GRaGR~G~~~~~~~~ 329 (470)
T TIGR00614 301 YSLPKSMESYYQESGRAGRDGLPSECHLF 329 (470)
T ss_pred eCCCCCHHHHHhhhcCcCCCCCCceEEEE
Confidence 99999999999999999999987664443
No 34
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.89 E-value=1.6e-21 Score=222.71 Aligned_cols=122 Identities=20% Similarity=0.293 Sum_probs=104.6
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
.|+..|.+++.. ....++|||++....++.+...|...|+++..++|+|++++|.++++.|+++ .+.||+ ++
T Consensus 241 ~k~~~l~~ll~~----~~~~~~lVF~~t~~~~~~l~~~L~~~g~~v~~lhg~~~~~~R~~~l~~F~~g---~~~vLV-aT 312 (423)
T PRK04837 241 EKMRLLQTLIEE----EWPDRAIIFANTKHRCEEIWGHLAADGHRVGLLTGDVAQKKRLRILEEFTRG---DLDILV-AT 312 (423)
T ss_pred HHHHHHHHHHHh----cCCCeEEEEECCHHHHHHHHHHHHhCCCcEEEecCCCChhHHHHHHHHHHcC---CCcEEE-Ee
Confidence 466666666654 2367999999999999999999999999999999999999999999999984 346655 55
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
.+++.|||+...++||+||+++++....|++||++|.|+.- .++-|+.++
T Consensus 313 dv~~rGiDip~v~~VI~~d~P~s~~~yiqR~GR~gR~G~~G--~ai~~~~~~ 362 (423)
T PRK04837 313 DVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASG--HSISLACEE 362 (423)
T ss_pred chhhcCCCccccCEEEEeCCCCchhheEeccccccCCCCCe--eEEEEeCHH
Confidence 99999999999999999999999999999999999999764 445566553
No 35
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=99.89 E-value=5.5e-21 Score=222.53 Aligned_cols=123 Identities=22% Similarity=0.292 Sum_probs=101.0
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH-cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA-AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~-~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
|...|.++|.... ....++|||++.....+.+...|.. .|+++..++|++++++|..++++|+++ .+.|| ++|
T Consensus 352 k~~~l~~~l~~~~--~~~~~~iVFv~s~~~a~~l~~~L~~~~g~~~~~~Hg~~~~~eR~~il~~Fr~G---~~~IL-VaT 425 (518)
T PLN00206 352 KKQKLFDILKSKQ--HFKPPAVVFVSSRLGADLLANAITVVTGLKALSIHGEKSMKERREVMKSFLVG---EVPVI-VAT 425 (518)
T ss_pred HHHHHHHHHHhhc--ccCCCEEEEcCCchhHHHHHHHHhhccCcceEEeeCCCCHHHHHHHHHHHHCC---CCCEE-EEe
Confidence 3444555554322 1245899999999999999999975 699999999999999999999999984 34665 566
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
.+++.|||+..+++||++|++.++....|++||++|.|.. -.++.|+..+
T Consensus 426 dvl~rGiDip~v~~VI~~d~P~s~~~yihRiGRaGR~g~~--G~ai~f~~~~ 475 (518)
T PLN00206 426 GVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEK--GTAIVFVNEE 475 (518)
T ss_pred cHhhccCCcccCCEEEEeCCCCCHHHHHHhccccccCCCC--eEEEEEEchh
Confidence 9999999999999999999999999999999999999965 4455566554
No 36
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=99.89 E-value=3e-21 Score=221.94 Aligned_cols=109 Identities=17% Similarity=0.243 Sum_probs=96.4
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL 792 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~ 792 (869)
...++|||++.....+.|...|...|+....++|+|++++|.++++.|+++ .+.||+ ++.+++.|||+...++||+
T Consensus 244 ~~~~~lVF~~t~~~~~~l~~~L~~~g~~~~~lhg~~~~~~R~~~l~~F~~g---~~~iLV-aTdv~~rGiDip~v~~VI~ 319 (456)
T PRK10590 244 NWQQVLVFTRTKHGANHLAEQLNKDGIRSAAIHGNKSQGARTRALADFKSG---DIRVLV-ATDIAARGLDIEELPHVVN 319 (456)
T ss_pred CCCcEEEEcCcHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHcC---CCcEEE-EccHHhcCCCcccCCEEEE
Confidence 357899999999999999999999999999999999999999999999984 446665 5599999999999999999
Q ss_pred EcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 793 LEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 793 ~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
||++.++....|++||++|.|.+-. .+-|+..+
T Consensus 320 ~~~P~~~~~yvqR~GRaGR~g~~G~--ai~l~~~~ 352 (456)
T PRK10590 320 YELPNVPEDYVHRIGRTGRAAATGE--ALSLVCVD 352 (456)
T ss_pred eCCCCCHHHhhhhccccccCCCCee--EEEEecHH
Confidence 9999999999999999999998654 44455444
No 37
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=99.88 E-value=7.1e-21 Score=222.99 Aligned_cols=121 Identities=18% Similarity=0.361 Sum_probs=103.3
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
.|+..|+.++.. ..+.++|||++.....+.|...|...|+.+..++|+|++.+|..+++.|+++ .+.||+ ++
T Consensus 243 ~k~~~L~~ll~~----~~~~k~LVF~nt~~~ae~l~~~L~~~g~~v~~lhg~l~~~eR~~il~~Fr~G---~~~VLV-aT 314 (572)
T PRK04537 243 EKQTLLLGLLSR----SEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQKKRESLLNRFQKG---QLEILV-AT 314 (572)
T ss_pred HHHHHHHHHHhc----ccCCcEEEEeCCHHHHHHHHHHHHHcCCCEEEEeCCCCHHHHHHHHHHHHcC---CCeEEE-Ee
Confidence 355556655543 3478999999999999999999999999999999999999999999999984 446665 55
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
.++++|||+...++||+||++|++....|++||+.|.|.+-. .+.|+..
T Consensus 315 dv~arGIDip~V~~VInyd~P~s~~~yvqRiGRaGR~G~~G~--ai~~~~~ 363 (572)
T PRK04537 315 DVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGD--AISFACE 363 (572)
T ss_pred hhhhcCCCccCCCEEEEcCCCCCHHHHhhhhcccccCCCCce--EEEEecH
Confidence 999999999999999999999999999999999999998643 4445554
No 38
>PTZ00424 helicase 45; Provisional
Probab=99.87 E-value=2e-20 Score=212.76 Aligned_cols=109 Identities=18% Similarity=0.331 Sum_probs=96.9
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
..++|||+.....++.+...|...|+.+..++|+++.++|..+++.|+++ .++|| +++.++++|+|++.++.||++
T Consensus 267 ~~~~ivF~~t~~~~~~l~~~l~~~~~~~~~~h~~~~~~~R~~i~~~f~~g---~~~vL-vaT~~l~~GiDip~v~~VI~~ 342 (401)
T PTZ00424 267 ITQAIIYCNTRRKVDYLTKKMHERDFTVSCMHGDMDQKDRDLIMREFRSG---STRVL-ITTDLLARGIDVQQVSLVINY 342 (401)
T ss_pred CCeEEEEecCcHHHHHHHHHHHHCCCcEEEEeCCCCHHHHHHHHHHHHcC---CCCEE-EEcccccCCcCcccCCEEEEE
Confidence 56899999999999999999999999999999999999999999999984 44665 566999999999999999999
Q ss_pred cCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
|++.++....|++||++|.|.. -.++.|+..+.
T Consensus 343 ~~p~s~~~y~qr~GRagR~g~~--G~~i~l~~~~~ 375 (401)
T PTZ00424 343 DLPASPENYIHRIGRSGRFGRK--GVAINFVTPDD 375 (401)
T ss_pred CCCCCHHHEeecccccccCCCC--ceEEEEEcHHH
Confidence 9999999999999999999854 45666776554
No 39
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=99.87 E-value=1.1e-20 Score=232.87 Aligned_cols=106 Identities=18% Similarity=0.323 Sum_probs=87.2
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc------CC---cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA------GF---KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNL 784 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~------gi---~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNL 784 (869)
+.|+|||+....+++.+.+.|... ++ .+..++|+++ ++.+++++|+++ .. ..+++|.+..++|++.
T Consensus 698 ~~KtiIF~~s~~HA~~i~~~L~~~f~~~~~~~~~~~v~~itg~~~--~~~~li~~Fk~~--~~-p~IlVsvdmL~TG~Dv 772 (1123)
T PRK11448 698 EGKTLIFAATDAHADMVVRLLKEAFKKKYGQVEDDAVIKITGSID--KPDQLIRRFKNE--RL-PNIVVTVDLLTTGIDV 772 (1123)
T ss_pred CCcEEEEEcCHHHHHHHHHHHHHHHHhhcCCcCccceEEEeCCcc--chHHHHHHHhCC--CC-CeEEEEecccccCCCc
Confidence 579999999999999888887653 22 3467999875 678899999883 22 3567788999999999
Q ss_pred cccCEEEEEcCCCCcchHHHHhhhhhhcCC---cccEEEEEEE
Q 002901 785 TAASRVFLLEPWWNPAVEEQAMDRVHRIGQ---KEDVKIVRLI 824 (869)
Q Consensus 785 t~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ---~k~V~V~rli 824 (869)
+..+.||++.|.-++....|+|||+.|+.- +....|+.++
T Consensus 773 P~v~~vVf~rpvkS~~lf~QmIGRgtR~~~~~~K~~f~I~D~v 815 (1123)
T PRK11448 773 PSICNLVFLRRVRSRILYEQMLGRATRLCPEIGKTHFRIFDAV 815 (1123)
T ss_pred ccccEEEEecCCCCHHHHHHHHhhhccCCccCCCceEEEEehH
Confidence 999999999999999999999999999865 4456676665
No 40
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=99.86 E-value=5.5e-20 Score=216.69 Aligned_cols=115 Identities=19% Similarity=0.291 Sum_probs=101.3
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|..+|.++|.. ....++|||+......+.|...|...|+....++|.|++++|..++++|+++ .+.| |++
T Consensus 230 ~~k~~~L~~~L~~----~~~~~~IVF~~tk~~a~~l~~~L~~~g~~~~~lhgd~~q~~R~~il~~Fr~G---~~~I-LVA 301 (629)
T PRK11634 230 MRKNEALVRFLEA----EDFDAAIIFVRTKNATLEVAEALERNGYNSAALNGDMNQALREQTLERLKDG---RLDI-LIA 301 (629)
T ss_pred hhHHHHHHHHHHh----cCCCCEEEEeccHHHHHHHHHHHHhCCCCEEEeeCCCCHHHHHHHHHHHhCC---CCCE-EEE
Confidence 3467777777764 2357899999999999999999999999999999999999999999999984 3355 556
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
|.+++.|||+...++||+||++.++....|++||+.|.|.+-.
T Consensus 302 Tdv~arGIDip~V~~VI~~d~P~~~e~yvqRiGRtGRaGr~G~ 344 (629)
T PRK11634 302 TDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGR 344 (629)
T ss_pred cchHhcCCCcccCCEEEEeCCCCCHHHHHHHhccccCCCCcce
Confidence 6999999999999999999999999999999999999997644
No 41
>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=99.86 E-value=4.1e-20 Score=219.45 Aligned_cols=115 Identities=23% Similarity=0.234 Sum_probs=98.6
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
|...+.+.|... .+.+.|||+......+.+...|...|+++..++|+|+.++|..+++.|..+ .+.||+ +|.
T Consensus 211 ~~~~l~~~l~~~----~~~~~IIf~~sr~~~e~la~~L~~~g~~~~~~H~~l~~~~R~~i~~~F~~g---~~~vlV-aT~ 282 (591)
T TIGR01389 211 KQKFLLDYLKKH----RGQSGIIYASSRKKVEELAERLESQGISALAYHAGLSNKVRAENQEDFLYD---DVKVMV-ATN 282 (591)
T ss_pred HHHHHHHHHHhc----CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEEECCCCHHHHHHHHHHHHcC---CCcEEE-Eec
Confidence 334455555432 267899999999999999999999999999999999999999999999984 345555 559
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEE
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVK 819 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~ 819 (869)
+.|.|+|+..++.||+++++.|+....|++||++|.|+...+.
T Consensus 283 a~~~GID~p~v~~VI~~~~p~s~~~y~Q~~GRaGR~G~~~~~i 325 (591)
T TIGR01389 283 AFGMGIDKPNVRFVIHYDMPGNLESYYQEAGRAGRDGLPAEAI 325 (591)
T ss_pred hhhccCcCCCCCEEEEcCCCCCHHHHhhhhccccCCCCCceEE
Confidence 9999999999999999999999999999999999999765543
No 42
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=99.86 E-value=4.1e-20 Score=218.80 Aligned_cols=101 Identities=19% Similarity=0.202 Sum_probs=92.7
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL 792 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~ 792 (869)
.+.++|||++.....+.+...|...|+++..++|+|+.++|.++++.|+.+ .+.||+ +|.+.|.|+|+...+.||+
T Consensus 235 ~~~~~IIFc~tr~~~e~la~~L~~~g~~v~~~Ha~l~~~~R~~i~~~F~~g---~~~VLV-aT~a~~~GIDip~V~~VI~ 310 (607)
T PRK11057 235 RGKSGIIYCNSRAKVEDTAARLQSRGISAAAYHAGLDNDVRADVQEAFQRD---DLQIVV-ATVAFGMGINKPNVRFVVH 310 (607)
T ss_pred CCCCEEEEECcHHHHHHHHHHHHhCCCCEEEecCCCCHHHHHHHHHHHHCC---CCCEEE-EechhhccCCCCCcCEEEE
Confidence 467999999999999999999999999999999999999999999999984 346655 5589999999999999999
Q ss_pred EcCCCCcchHHHHhhhhhhcCCccc
Q 002901 793 LEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 793 ~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
+|++.+.....|++||++|.|....
T Consensus 311 ~d~P~s~~~y~Qr~GRaGR~G~~~~ 335 (607)
T PRK11057 311 FDIPRNIESYYQETGRAGRDGLPAE 335 (607)
T ss_pred eCCCCCHHHHHHHhhhccCCCCCce
Confidence 9999999999999999999997654
No 43
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=99.83 E-value=9.8e-19 Score=208.00 Aligned_cols=86 Identities=21% Similarity=0.260 Sum_probs=70.1
Q ss_pred HHHHHHHH--cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCC-CcchHHHH
Q 002901 729 LLEEPLQA--AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWW-NPAVEEQA 805 (869)
Q Consensus 729 ~l~~~L~~--~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~w-np~~e~Qa 805 (869)
.+...|.. .++++..++|+|+.++|.+++++|+++ ...|| ++|.+.++|+|++.++.||+++++. +-+...|+
T Consensus 471 ~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g---~~~IL-VaT~vie~GvDiP~v~~VIi~~~~r~gls~lhQ~ 546 (630)
T TIGR00643 471 ALYERLKKAFPKYNVGLLHGRMKSDEKEAVMEEFREG---EVDIL-VATTVIEVGVDVPNATVMVIEDAERFGLSQLHQL 546 (630)
T ss_pred HHHHHHHhhCCCCcEEEEeCCCCHHHHHHHHHHHHcC---CCCEE-EECceeecCcccCCCcEEEEeCCCcCCHHHHHHH
Confidence 33444443 378899999999999999999999984 33555 5669999999999999999999874 67889999
Q ss_pred hhhhhhcCCcccE
Q 002901 806 MDRVHRIGQKEDV 818 (869)
Q Consensus 806 igRvhRiGQ~k~V 818 (869)
+||++|-|..-.+
T Consensus 547 ~GRvGR~g~~g~~ 559 (630)
T TIGR00643 547 RGRVGRGDHQSYC 559 (630)
T ss_pred hhhcccCCCCcEE
Confidence 9999999875443
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=99.83 E-value=8.9e-19 Score=212.35 Aligned_cols=107 Identities=17% Similarity=0.128 Sum_probs=91.4
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVF 791 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi 791 (869)
+.+++||++....++.+...|+.. ++++..++|.|+.++|.+++++|.++ ...|| ++|.+.++|+|++.+++||
T Consensus 660 g~qv~if~n~i~~~e~l~~~L~~~~p~~~v~~lHG~m~~~eRe~im~~F~~G---k~~IL-VaT~iie~GIDIp~v~~VI 735 (926)
T TIGR00580 660 GGQVFYVHNRIESIEKLATQLRELVPEARIAIAHGQMTENELEEVMLEFYKG---EFQVL-VCTTIIETGIDIPNANTII 735 (926)
T ss_pred CCeEEEEECCcHHHHHHHHHHHHhCCCCeEEEecCCCCHHHHHHHHHHHHcC---CCCEE-EECChhhcccccccCCEEE
Confidence 578999999999999999999984 88999999999999999999999994 33555 5669999999999999999
Q ss_pred EEcCC-CCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 792 LLEPW-WNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 792 ~~dp~-wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
+++++ +..+...|++||++|-|.. -++|-|+..
T Consensus 736 i~~a~~~gls~l~Qr~GRvGR~g~~--g~aill~~~ 769 (926)
T TIGR00580 736 IERADKFGLAQLYQLRGRVGRSKKK--AYAYLLYPH 769 (926)
T ss_pred EecCCCCCHHHHHHHhcCCCCCCCC--eEEEEEECC
Confidence 99985 5667889999999998864 455656644
No 45
>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional
Probab=99.83 E-value=4.4e-19 Score=211.58 Aligned_cols=104 Identities=22% Similarity=0.186 Sum_probs=94.1
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
+...|||+......+.+...|...|++...++|+|+.++|..++++|..+ .+.||++ |.+.|.|||+...+.||++
T Consensus 680 ~esgIIYC~SRke~E~LAe~L~~~Gika~~YHAGLs~eeR~~vqe~F~~G---ei~VLVA-TdAFGMGIDkPDVR~VIHy 755 (1195)
T PLN03137 680 DECGIIYCLSRMDCEKVAERLQEFGHKAAFYHGSMDPAQRAFVQKQWSKD---EINIICA-TVAFGMGINKPDVRFVIHH 755 (1195)
T ss_pred CCCceeEeCchhHHHHHHHHHHHCCCCeeeeeCCCCHHHHHHHHHHHhcC---CCcEEEE-echhhcCCCccCCcEEEEc
Confidence 56789999999999999999999999999999999999999999999994 3466655 5999999999999999999
Q ss_pred cCCCCcchHHHHhhhhhhcCCcccEEEE
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQKEDVKIV 821 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~k~V~V~ 821 (869)
+++-+.....|++||++|.|+.-.+..+
T Consensus 756 dlPkSiEsYyQriGRAGRDG~~g~cILl 783 (1195)
T PLN03137 756 SLPKSIEGYHQECGRAGRDGQRSSCVLY 783 (1195)
T ss_pred CCCCCHHHHHhhhcccCCCCCCceEEEE
Confidence 9999999999999999999987664443
No 46
>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.82 E-value=1.6e-18 Score=192.57 Aligned_cols=118 Identities=19% Similarity=0.275 Sum_probs=105.5
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|...|.++|.... ..++.|+|||++.....+.|+..|...|++..-|||..++.+|..+|+.|+++ +..||+ .
T Consensus 323 ~~K~~~l~~lL~~~~-~~~~~KvIIFc~tkr~~~~l~~~l~~~~~~a~~iHGd~sQ~eR~~~L~~FreG---~~~vLV-A 397 (519)
T KOG0331|consen 323 TAKLRKLGKLLEDIS-SDSEGKVIIFCETKRTCDELARNLRRKGWPAVAIHGDKSQSERDWVLKGFREG---KSPVLV-A 397 (519)
T ss_pred HHHHHHHHHHHHHHh-ccCCCcEEEEecchhhHHHHHHHHHhcCcceeeecccccHHHHHHHHHhcccC---CcceEE-E
Confidence 568888888888876 45678999999999999999999999999999999999999999999999994 325555 5
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
|.+++.||++...++||+||+|-|...+.+|+||.+|-|++=.
T Consensus 398 TdVAaRGLDi~dV~lVInydfP~~vEdYVHRiGRTGRa~~~G~ 440 (519)
T KOG0331|consen 398 TDVAARGLDVPDVDLVINYDFPNNVEDYVHRIGRTGRAGKKGT 440 (519)
T ss_pred cccccccCCCccccEEEeCCCCCCHHHHHhhcCccccCCCCce
Confidence 6999999999999999999999999999999999999877643
No 47
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=99.82 E-value=1.3e-18 Score=208.19 Aligned_cols=91 Identities=22% Similarity=0.191 Sum_probs=73.2
Q ss_pred HHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCC-CcchHHH
Q 002901 728 ILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWW-NPAVEEQ 804 (869)
Q Consensus 728 d~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~w-np~~e~Q 804 (869)
..+.+.|... ++++..++|+|+.++|.+++++|+++ ...|| ++|.+.++|+|++.++.||+++++. ..+...|
T Consensus 493 ~~~~~~L~~~~~~~~v~~lHG~m~~~eR~~i~~~F~~g---~~~IL-VaT~vie~GiDip~v~~VIi~~~~r~gls~lhQ 568 (681)
T PRK10917 493 EETYEELQEAFPELRVGLLHGRMKPAEKDAVMAAFKAG---EIDIL-VATTVIEVGVDVPNATVMVIENAERFGLAQLHQ 568 (681)
T ss_pred HHHHHHHHHHCCCCcEEEEeCCCCHHHHHHHHHHHHcC---CCCEE-EECcceeeCcccCCCcEEEEeCCCCCCHHHHHH
Confidence 3445555554 57899999999999999999999984 33555 5669999999999999999999874 5688999
Q ss_pred HhhhhhhcCCcccEEEEEEE
Q 002901 805 AMDRVHRIGQKEDVKIVRLI 824 (869)
Q Consensus 805 aigRvhRiGQ~k~V~V~rli 824 (869)
++||++|-|..- +++-+.
T Consensus 569 ~~GRvGR~g~~g--~~ill~ 586 (681)
T PRK10917 569 LRGRVGRGAAQS--YCVLLY 586 (681)
T ss_pred HhhcccCCCCce--EEEEEE
Confidence 999999998754 444444
No 48
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=99.81 E-value=4e-18 Score=204.88 Aligned_cols=114 Identities=14% Similarity=0.114 Sum_probs=95.9
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--------CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcccccccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--------GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLT 785 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--------gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt 785 (869)
+.++|||++.....+.|...|... +.++..++|++++++|.+++++|+++ .+++ |++|.+++.|||+.
T Consensus 271 ~~~~IVF~~sr~~ae~l~~~l~~~l~~~~~~l~~~v~~~hgg~~~~eR~~ie~~f~~G---~i~v-LVaTd~lerGIDI~ 346 (742)
T TIGR03817 271 GARTLTFVRSRRGAELVAAIARRLLGEVDPDLAERVAAYRAGYLPEDRRELERALRDG---ELLG-VATTNALELGVDIS 346 (742)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHHHHhhccccccchhheecCCCHHHHHHHHHHHHcC---CceE-EEECchHhccCCcc
Confidence 579999999999999999988764 56778899999999999999999994 4455 56779999999999
Q ss_pred ccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHH
Q 002901 786 AASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERI 833 (869)
Q Consensus 786 ~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i 833 (869)
..+.||+++.|-+.....|++||++|.|+.-- ++-++..+..|...
T Consensus 347 ~vd~VI~~~~P~s~~~y~qRiGRaGR~G~~g~--ai~v~~~~~~d~~~ 392 (742)
T TIGR03817 347 GLDAVVIAGFPGTRASLWQQAGRAGRRGQGAL--VVLVARDDPLDTYL 392 (742)
T ss_pred cccEEEEeCCCCCHHHHHHhccccCCCCCCcE--EEEEeCCChHHHHH
Confidence 99999999999999999999999999997643 34444445566543
No 49
>PRK10689 transcription-repair coupling factor; Provisional
Probab=99.81 E-value=2.1e-18 Score=213.47 Aligned_cols=105 Identities=15% Similarity=0.140 Sum_probs=90.3
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVF 791 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi 791 (869)
+.+++||++....++.+...|... ++++..++|+|++++|.+++.+|+++ .+.||+ +|.+.+.|+|++.+++||
T Consensus 809 ~gqv~vf~n~i~~ie~la~~L~~~~p~~~v~~lHG~m~q~eRe~im~~Fr~G---k~~VLV-aTdIierGIDIP~v~~VI 884 (1147)
T PRK10689 809 GGQVYYLYNDVENIQKAAERLAELVPEARIAIGHGQMRERELERVMNDFHHQ---RFNVLV-CTTIIETGIDIPTANTII 884 (1147)
T ss_pred CCeEEEEECCHHHHHHHHHHHHHhCCCCcEEEEeCCCCHHHHHHHHHHHHhc---CCCEEE-ECchhhcccccccCCEEE
Confidence 568999999999999999999887 88999999999999999999999994 446655 559999999999999999
Q ss_pred EEcCC-CCcchHHHHhhhhhhcCCcccEEEEEEE
Q 002901 792 LLEPW-WNPAVEEQAMDRVHRIGQKEDVKIVRLI 824 (869)
Q Consensus 792 ~~dp~-wnp~~e~QaigRvhRiGQ~k~V~V~rli 824 (869)
+.++. |+.+...|++||++|.|.+- ++|-+.
T Consensus 885 i~~ad~fglaq~~Qr~GRvGR~g~~g--~a~ll~ 916 (1147)
T PRK10689 885 IERADHFGLAQLHQLRGRVGRSHHQA--YAWLLT 916 (1147)
T ss_pred EecCCCCCHHHHHHHhhccCCCCCce--EEEEEe
Confidence 88774 78888999999999998764 444444
No 50
>PRK02362 ski2-like helicase; Provisional
Probab=99.80 E-value=7.3e-18 Score=204.75 Aligned_cols=82 Identities=20% Similarity=0.102 Sum_probs=66.4
Q ss_pred cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE----Ec-----CCCCcchHHHHhhhhh
Q 002901 740 KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL----LE-----PWWNPAVEEQAMDRVH 810 (869)
Q Consensus 740 ~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~----~d-----p~wnp~~e~QaigRvh 810 (869)
.+..++|+++..+|..+.+.|++ +.++||+ +|.+.+.|+|+++.+.||. || .+.++....|++||++
T Consensus 305 gva~hHagl~~~eR~~ve~~Fr~---G~i~VLv-aT~tla~GvnlPa~~VVI~~~~~yd~~~g~~~~s~~~y~Qm~GRAG 380 (737)
T PRK02362 305 GAAFHHAGLSREHRELVEDAFRD---RLIKVIS-STPTLAAGLNLPARRVIIRDYRRYDGGAGMQPIPVLEYHQMAGRAG 380 (737)
T ss_pred CEEeecCCCCHHHHHHHHHHHHc---CCCeEEE-echhhhhhcCCCceEEEEecceeecCCCCceeCCHHHHHHHhhcCC
Confidence 56788999999999999999998 4557666 5599999999998877765 66 4677889999999999
Q ss_pred hcCCcccEEEEEEEe
Q 002901 811 RIGQKEDVKIVRLIV 825 (869)
Q Consensus 811 RiGQ~k~V~V~rli~ 825 (869)
|.|....-.++-+..
T Consensus 381 R~g~d~~G~~ii~~~ 395 (737)
T PRK02362 381 RPGLDPYGEAVLLAK 395 (737)
T ss_pred CCCCCCCceEEEEec
Confidence 999876545555543
No 51
>PRK13767 ATP-dependent helicase; Provisional
Probab=99.79 E-value=1.6e-17 Score=203.76 Aligned_cols=104 Identities=16% Similarity=0.133 Sum_probs=89.0
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc------CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcccccccccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA------GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAA 787 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~------gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A 787 (869)
+.++|||++.....+.+...|... +..+..++|+++.++|..+++.|+++ .++|++ +|.+.+.|+|+...
T Consensus 284 ~~~~LVF~nTr~~ae~la~~L~~~~~~~~~~~~i~~hHg~ls~~~R~~ve~~fk~G---~i~vLV-aTs~Le~GIDip~V 359 (876)
T PRK13767 284 HRTTLIFTNTRSGAERVLYNLRKRFPEEYDEDNIGAHHSSLSREVRLEVEEKLKRG---ELKVVV-SSTSLELGIDIGYI 359 (876)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHhchhhccccceeeeeCCCCHHHHHHHHHHHHcC---CCeEEE-ECChHHhcCCCCCC
Confidence 578999999999999999998773 46788899999999999999999994 446555 56999999999999
Q ss_pred CEEEEEcCCCCcchHHHHhhhhhhc-CCcccEEEE
Q 002901 788 SRVFLLEPWWNPAVEEQAMDRVHRI-GQKEDVKIV 821 (869)
Q Consensus 788 ~~Vi~~dp~wnp~~e~QaigRvhRi-GQ~k~V~V~ 821 (869)
+.||+++++.+.+...|++||++|- |+...-.++
T Consensus 360 d~VI~~~~P~sv~~ylQRiGRaGR~~g~~~~g~ii 394 (876)
T PRK13767 360 DLVVLLGSPKSVSRLLQRIGRAGHRLGEVSKGRII 394 (876)
T ss_pred cEEEEeCCCCCHHHHHHhcccCCCCCCCCCcEEEE
Confidence 9999999999999999999999975 454444444
No 52
>PRK01172 ski2-like helicase; Provisional
Probab=99.78 E-value=5.7e-17 Score=195.61 Aligned_cols=107 Identities=16% Similarity=0.133 Sum_probs=72.2
Q ss_pred ceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEc
Q 002901 350 KITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILD 428 (869)
Q Consensus 350 ~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlD 428 (869)
+.+++|+|. +|..|+.+++.++. .-..++....|+.......+..+||+|+|++.+..-...... .--++.+||+|
T Consensus 66 ~k~v~i~P~raLa~q~~~~~~~l~-~~g~~v~~~~G~~~~~~~~~~~~dIiv~Tpek~~~l~~~~~~--~l~~v~lvViD 142 (674)
T PRK01172 66 LKSIYIVPLRSLAMEKYEELSRLR-SLGMRVKISIGDYDDPPDFIKRYDVVILTSEKADSLIHHDPY--IINDVGLIVAD 142 (674)
T ss_pred CcEEEEechHHHHHHHHHHHHHHh-hcCCeEEEEeCCCCCChhhhccCCEEEECHHHHHHHHhCChh--HHhhcCEEEEe
Confidence 357999998 67799999998864 235788888886555566678899999999877554422111 12345789999
Q ss_pred CccccCCcC-hHHHHH-H---hhc-ccCeEEEEeccc
Q 002901 429 EAHVIKNAN-AQQSRT-V---TNL-NAKRRWVVTGTP 459 (869)
Q Consensus 429 EaH~ikn~~-s~~~ka-~---~~L-~a~~r~~LTGTP 459 (869)
|+|.+.+.. ...... + ..+ ...+.++||||+
T Consensus 143 EaH~l~d~~rg~~le~ll~~~~~~~~~~riI~lSATl 179 (674)
T PRK01172 143 EIHIIGDEDRGPTLETVLSSARYVNPDARILALSATV 179 (674)
T ss_pred cchhccCCCccHHHHHHHHHHHhcCcCCcEEEEeCcc
Confidence 999986432 112222 2 222 235679999997
No 53
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=6.6e-17 Score=187.23 Aligned_cols=121 Identities=23% Similarity=0.400 Sum_probs=106.4
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
.|+..|..++... ...++|||+.-....+.|...|...|++...|+|++++.+|.++++.|+++ ...||++|
T Consensus 259 ~k~~~L~~ll~~~----~~~~~IVF~~tk~~~~~l~~~l~~~g~~~~~lhG~l~q~~R~~~l~~F~~g---~~~vLVaT- 330 (513)
T COG0513 259 EKLELLLKLLKDE----DEGRVIVFVRTKRLVEELAESLRKRGFKVAALHGDLPQEERDRALEKFKDG---ELRVLVAT- 330 (513)
T ss_pred HHHHHHHHHHhcC----CCCeEEEEeCcHHHHHHHHHHHHHCCCeEEEecCCCCHHHHHHHHHHHHcC---CCCEEEEe-
Confidence 4777788777753 244799999999999999999999999999999999999999999999983 44777766
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
++++.||++...++||+||++.++....++|||.+|.|. .=..+.|+..
T Consensus 331 DvaaRGiDi~~v~~VinyD~p~~~e~yvHRiGRTgRaG~--~G~ai~fv~~ 379 (513)
T COG0513 331 DVAARGLDIPDVSHVINYDLPLDPEDYVHRIGRTGRAGR--KGVAISFVTE 379 (513)
T ss_pred chhhccCCccccceeEEccCCCCHHHheeccCccccCCC--CCeEEEEeCc
Confidence 999999999999999999999999999999999999994 3466667766
No 54
>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.77 E-value=1.2e-17 Score=174.12 Aligned_cols=136 Identities=21% Similarity=0.292 Sum_probs=116.3
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
-|-.+|+.+|.+.. +.-+||||.-..+.+.+.-.|+..|+....++|.|+++.|..++++|+++ ...| |+++
T Consensus 286 ~K~~yLV~ll~e~~----g~s~iVF~~t~~tt~~la~~L~~lg~~a~~LhGqmsq~~Rlg~l~~Fk~~---~r~i-Lv~T 357 (476)
T KOG0330|consen 286 DKDTYLVYLLNELA----GNSVIVFCNTCNTTRFLALLLRNLGFQAIPLHGQMSQSKRLGALNKFKAG---ARSI-LVCT 357 (476)
T ss_pred ccchhHHHHHHhhc----CCcEEEEEeccchHHHHHHHHHhcCcceecccchhhHHHHHHHHHHHhcc---CCcE-EEec
Confidence 46678888888753 68899999999999999999999999999999999999999999999994 3244 5566
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHH--HHHHHHHHHHH
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE--ERILELQDRKK 841 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siE--e~i~~~q~~K~ 841 (869)
++|+.||+.+.++.||+||.|-+...+..|+||+.|.| +.-.++.||+.-.|| .+|.....+|.
T Consensus 358 DVaSRGLDip~Vd~VVNyDiP~~skDYIHRvGRtaRaG--rsG~~ItlVtqyDve~~qrIE~~~gkkl 423 (476)
T KOG0330|consen 358 DVASRGLDIPHVDVVVNYDIPTHSKDYIHRVGRTARAG--RSGKAITLVTQYDVELVQRIEHALGKKL 423 (476)
T ss_pred chhcccCCCCCceEEEecCCCCcHHHHHHHcccccccC--CCcceEEEEehhhhHHHHHHHHHHhcCC
Confidence 99999999999999999999999999999999999999 777888899875555 34444444443
No 55
>PRK00254 ski2-like helicase; Provisional
Probab=99.75 E-value=1.6e-16 Score=192.57 Aligned_cols=115 Identities=19% Similarity=0.157 Sum_probs=78.9
Q ss_pred ceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEc
Q 002901 350 KITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILD 428 (869)
Q Consensus 350 ~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlD 428 (869)
+.+|+|+|. ++..|+.+++.++. .-.+++..++|+-......+.++||+|+|++.+..........+. +..+||+|
T Consensus 69 ~~~l~l~P~~aLa~q~~~~~~~~~-~~g~~v~~~~Gd~~~~~~~~~~~~IiV~Tpe~~~~ll~~~~~~l~--~l~lvViD 145 (720)
T PRK00254 69 GKAVYLVPLKALAEEKYREFKDWE-KLGLRVAMTTGDYDSTDEWLGKYDIIIATAEKFDSLLRHGSSWIK--DVKLVVAD 145 (720)
T ss_pred CeEEEEeChHHHHHHHHHHHHHHh-hcCCEEEEEeCCCCCchhhhccCCEEEEcHHHHHHHHhCCchhhh--cCCEEEEc
Confidence 458999998 67799999998764 336889999995544555678899999999887665432212222 45679999
Q ss_pred CccccCC--cChHHHHHHhhc-ccCeEEEEecccccCChhhhHh
Q 002901 429 EAHVIKN--ANAQQSRTVTNL-NAKRRWVVTGTPIQNGSFDLFS 469 (869)
Q Consensus 429 EaH~ikn--~~s~~~ka~~~L-~a~~r~~LTGTPi~N~l~DL~s 469 (869)
|+|.+.. ........+..+ ...+.++||||.- | ..|+..
T Consensus 146 E~H~l~~~~rg~~le~il~~l~~~~qiI~lSATl~-n-~~~la~ 187 (720)
T PRK00254 146 EIHLIGSYDRGATLEMILTHMLGRAQILGLSATVG-N-AEELAE 187 (720)
T ss_pred CcCccCCccchHHHHHHHHhcCcCCcEEEEEccCC-C-HHHHHH
Confidence 9999864 333334444444 3467899999973 2 455543
No 56
>TIGR01587 cas3_core CRISPR-associated helicase Cas3. This model represents the highly conserved core region of an alignment of Cas3, a protein found in association with CRISPR repeat elements in a broad range of bacteria and archaea. Cas3 appears to be a helicase, with regions found by pfam00270 (DEAD/DEAH box helicase) and pfam00271 (Helicase conserved C-terminal domain). Some but not all members have an N-terminal HD domain region (pfam01966) that is not included within this model.
Probab=99.74 E-value=2.3e-16 Score=176.58 Aligned_cols=121 Identities=20% Similarity=0.242 Sum_probs=92.6
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCC--cEEEEeCCCCHHHHHH----HHHHhCCCCCCCCEE
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGF--KLLRLDGSMNAKKRAQ----VIEEFGNPGPGGPTV 770 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi--~~~rldG~~~~~~R~~----~i~~F~~~~~~~~~V 770 (869)
|...+.+++... ..+.++|||++.....+.+...|.+.+. .+..++|+++..+|.+ +++.|+++ .+.|
T Consensus 208 ~~~~l~~l~~~~---~~~~~~lVf~~t~~~~~~~~~~L~~~~~~~~~~~~h~~~~~~~r~~~~~~~~~~f~~~---~~~i 281 (358)
T TIGR01587 208 EISSLERLLEFI---KKGGKIAIIVNTVDRAQEFYQQLKENAPEEEIMLLHSRFTEKDRAKKEAELLEEMKKN---EKFV 281 (358)
T ss_pred CHHHHHHHHHHh---hCCCeEEEEECCHHHHHHHHHHHHhhcCCCeEEEEECCCCHHHHHHHHHHHHHHhcCC---CCeE
Confidence 344444444332 2368999999999999999999988776 4899999999999976 48999883 3355
Q ss_pred EEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcc----cEEEEEEEeCC
Q 002901 771 LLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKE----DVKIVRLIVRN 827 (869)
Q Consensus 771 lL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k----~V~V~rli~~~ 827 (869)
|++|.+.+.|+|+ .++.||.++.+ +....|++||++|.|.+. .|+|+.....+
T Consensus 282 -lvaT~~~~~GiDi-~~~~vi~~~~~--~~~~iqr~GR~gR~g~~~~~~~~~~v~~~~~~~ 338 (358)
T TIGR01587 282 -IVATQVIEASLDI-SADVMITELAP--IDSLIQRLGRLHRYGRKNGENFEVYIITIAPEG 338 (358)
T ss_pred -EEECcchhceecc-CCCEEEEcCCC--HHHHHHHhccccCCCCCCCCCCeEEEEeecCCC
Confidence 5567999999999 47888877654 788999999999999764 35555554443
No 57
>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=99.73 E-value=6.5e-16 Score=184.28 Aligned_cols=108 Identities=19% Similarity=0.194 Sum_probs=80.0
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc-----CCcEEEEeCCCCHH---------------------HHHHHHHHhCCCCCCC
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA-----GFKLLRLDGSMNAK---------------------KRAQVIEEFGNPGPGG 767 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~-----gi~~~rldG~~~~~---------------------~R~~~i~~F~~~~~~~ 767 (869)
+.|.+||+.....+..+...|.+. +...+.++|+.+.+ ....++++|+++ +.
T Consensus 514 ~~kamvv~~sr~~a~~~~~~l~~~~~~~~~~~~vv~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fk~~--~~ 591 (667)
T TIGR00348 514 KFKAMVVAISRYACVEEKNALDEELNEKFEASAIVMTGKESDDAEIRDYNKHIRTKFDKSDGFEIYYKDLERFKKE--EN 591 (667)
T ss_pred cCceeEEEecHHHHHHHHHHHHhhcccccCCeeEEecCCccchhHHHHHHHHhccccccchhhhHHHHHHHHhcCC--CC
Confidence 578888888888887777777554 34455666654332 234799999874 34
Q ss_pred CEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhc-CCcc-cEEEEEEEe
Q 002901 768 PTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRI-GQKE-DVKIVRLIV 825 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRi-GQ~k-~V~V~rli~ 825 (869)
+.++++. ....+|.+.+..+++|+.-|--+.. ..|||||+.|+ +-.| ...|+.|+-
T Consensus 592 ~~ilIVv-dmllTGFDaP~l~tLyldKplk~h~-LlQai~R~nR~~~~~K~~g~IvDy~g 649 (667)
T TIGR00348 592 PKLLIVV-DMLLTGFDAPILNTLYLDKPLKYHG-LLQAIARTNRIDGKDKTFGLIVDYRG 649 (667)
T ss_pred ceEEEEE-cccccccCCCccceEEEeccccccH-HHHHHHHhccccCCCCCCEEEEECcC
Confidence 5666655 9999999999999999999987655 68999999995 5444 467777764
No 58
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=99.69 E-value=5.2e-15 Score=173.09 Aligned_cols=116 Identities=17% Similarity=0.130 Sum_probs=97.9
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..++++.+.+... .+..+|||+......+.+...|...|+++..++|.+..++|..+..+|+. + .| +
T Consensus 405 ~~~~K~~ai~~~i~~~~~--~~~pvLIft~s~~~se~ls~~L~~~gi~~~~L~a~~~~~E~~ii~~ag~~---g--~V-l 476 (762)
T TIGR03714 405 TLPEKLMATLEDVKEYHE--TGQPVLLITGSVEMSEIYSELLLREGIPHNLLNAQNAAKEAQIIAEAGQK---G--AV-T 476 (762)
T ss_pred CHHHHHHHHHHHHHHHhh--CCCCEEEEECcHHHHHHHHHHHHHCCCCEEEecCCChHHHHHHHHHcCCC---C--eE-E
Confidence 347799999999987643 37899999999999999999999999999999999998888777666655 2 44 5
Q ss_pred EecCCcccccccc---------ccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 773 ASLKASGAGVNLT---------AASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 773 ~S~~agg~GLNLt---------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
++|..+|.|+++. ..+.|+.++++-+. .+.|++||++|.|..-.
T Consensus 477 IATdmAgRGtDI~l~~~v~~~GGL~vIit~~~ps~r-id~qr~GRtGRqG~~G~ 529 (762)
T TIGR03714 477 VATSMAGRGTDIKLGKGVAELGGLAVIGTERMENSR-VDLQLRGRSGRQGDPGS 529 (762)
T ss_pred EEccccccccCCCCCccccccCCeEEEEecCCCCcH-HHHHhhhcccCCCCcee
Confidence 6779999999998 77889999998665 55999999999987644
No 59
>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]
Probab=99.69 E-value=1.5e-15 Score=151.93 Aligned_cols=125 Identities=21% Similarity=0.343 Sum_probs=107.6
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
-|.++|+++-..+. -...||||+-....|.|.+.++..++.+..++|.|++++|.++++.|+.+.+ +||+ |+
T Consensus 252 wKfdtLcdLYd~Lt----ItQavIFcnTk~kVdwLtekm~~~nftVssmHGDm~qkERd~im~dFRsg~S---rvLi-tT 323 (400)
T KOG0328|consen 252 WKFDTLCDLYDTLT----ITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMEQKERDKIMNDFRSGKS---RVLI-TT 323 (400)
T ss_pred hhHhHHHHHhhhhe----hheEEEEecccchhhHHHHHHHhhCceeeeccCCcchhHHHHHHHHhhcCCc---eEEE-Ee
Confidence 36666666655432 4689999999999999999999999999999999999999999999999533 6655 66
Q ss_pred CCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 776 KASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 776 ~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
++-+.|++.+..|.||+||.|-|+.....||||.+|.|.+ -.++.|+..+.++
T Consensus 324 DVwaRGiDv~qVslviNYDLP~nre~YIHRIGRSGRFGRk--GvainFVk~~d~~ 376 (400)
T KOG0328|consen 324 DVWARGIDVQQVSLVINYDLPNNRELYIHRIGRSGRFGRK--GVAINFVKSDDLR 376 (400)
T ss_pred chhhccCCcceeEEEEecCCCccHHHHhhhhccccccCCc--ceEEEEecHHHHH
Confidence 9999999999999999999999999999999999999975 3567788776554
No 60
>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype. This model describes a CRISPR-associated putative DEAH-box helicase, or Cas3, of a subtype found in Actinomyces naeslundii MG1, Geobacter sulfurreducens PCA, Gemmata obscuriglobus UQM 2246, and Desulfotalea psychrophila. This protein includes both DEAH and HD motifs.
Probab=99.69 E-value=5.5e-15 Score=174.58 Aligned_cols=104 Identities=24% Similarity=0.311 Sum_probs=85.8
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHH-----HHHHHhCC----CC----CCCCEEEEEecCCccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRA-----QVIEEFGN----PG----PGGPTVLLASLKASGA 780 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~-----~~i~~F~~----~~----~~~~~VlL~S~~agg~ 780 (869)
+.++|||++....++.|...|...|+ ..++|.|++++|. .++++|++ +. .++ ..+|++|.+++.
T Consensus 272 g~~vLVF~NTv~~Aq~L~~~L~~~g~--~lLHG~m~q~dR~~~~~~~il~~Fk~~~~~g~~~~~~~g-~~ILVATdVaer 348 (844)
T TIGR02621 272 GGAILVFCRTVKHVRKVFAKLPKEKF--ELLTGTLRGAERDDLVKKEIFNRFLPQMLSGSRARPQQG-TVYLVCTSAGEV 348 (844)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhcCC--eEeeCCCCHHHHhhHHHHHHHHHHhcccccccccccccc-ceEEeccchhhh
Confidence 67899999999999999999999887 8999999999999 88999986 21 112 356788899999
Q ss_pred cccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc--EEEEEE
Q 002901 781 GVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED--VKIVRL 823 (869)
Q Consensus 781 GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~--V~V~rl 823 (869)
|||+.. ++||....+ .....||+||++|.|.... ++++..
T Consensus 349 GLDId~-d~VI~d~aP--~esyIQRiGRtgR~G~~~~~~i~vv~~ 390 (844)
T TIGR02621 349 GVNISA-DHLVCDLAP--FESMQQRFGRVNRFGELQACQIAVVHL 390 (844)
T ss_pred cccCCc-ceEEECCCC--HHHHHHHhcccCCCCCCCCceEEEEee
Confidence 999975 898886655 4689999999999998644 455433
No 61
>COG1201 Lhr Lhr-like helicases [General function prediction only]
Probab=99.67 E-value=5.6e-15 Score=173.55 Aligned_cols=116 Identities=18% Similarity=0.175 Sum_probs=97.4
Q ss_pred CeEEEEeccHHHHHHHHHHHHHcC-CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 715 TKSVVFSQFRKMLILLEEPLQAAG-FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 715 ~K~lVFsq~~~~ld~l~~~L~~~g-i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
..+|||.+.+++.+.+...|+..+ ..+..-||+++.++|..+-++|+++ ..+++++| .+...|++.-..+.||.+
T Consensus 254 ~ttLIF~NTR~~aE~l~~~L~~~~~~~i~~HHgSlSre~R~~vE~~lk~G---~lravV~T-SSLELGIDiG~vdlVIq~ 329 (814)
T COG1201 254 RTTLIFTNTRSGAERLAFRLKKLGPDIIEVHHGSLSRELRLEVEERLKEG---ELKAVVAT-SSLELGIDIGDIDLVIQL 329 (814)
T ss_pred CcEEEEEeChHHHHHHHHHHHHhcCCceeeecccccHHHHHHHHHHHhcC---CceEEEEc-cchhhccccCCceEEEEe
Confidence 489999999999999999999986 8899999999999999999999995 35776655 999999999999999999
Q ss_pred cCCCCcchHHHHhhhh-hhcCCcccEEEEEEEeCCCHHHHHHHHHH
Q 002901 794 EPWWNPAVEEQAMDRV-HRIGQKEDVKIVRLIVRNSIEERILELQD 838 (869)
Q Consensus 794 dp~wnp~~e~QaigRv-hRiGQ~k~V~V~rli~~~siEe~i~~~q~ 838 (869)
..|-.-+...|++||+ ||+|.... ..+++.+ .++.+.-+..
T Consensus 330 ~SP~sV~r~lQRiGRsgHr~~~~Sk---g~ii~~~-r~dllE~~vi 371 (814)
T COG1201 330 GSPKSVNRFLQRIGRAGHRLGEVSK---GIIIAED-RDDLLECLVL 371 (814)
T ss_pred CCcHHHHHHhHhccccccccCCccc---EEEEecC-HHHHHHHHHH
Confidence 9999999999999999 78886433 3445555 5555544443
No 62
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=99.66 E-value=1.8e-14 Score=163.00 Aligned_cols=106 Identities=19% Similarity=0.226 Sum_probs=80.5
Q ss_pred ceEEEecChhHH-HHHHHHHHHhcCCCCeEEEEEeCC-CC----CChhhh--ccccEEEEechhhHhhhcccCCCcceee
Q 002901 350 KITLIVCPPSVF-STWITQLEEHTVPGMLKTYMYYGD-RT----QDVEEL--KMYDLVLTTYSTLAIEESWLESPVKKIE 421 (869)
Q Consensus 350 ~~tLIV~P~sll-~qW~~Ei~~~~~~~~l~v~~y~G~-r~----~~~~~l--~~~dVVItTY~~l~~~~~~~~~~l~~~~ 421 (869)
.-+.+.+|+.+| .|-...+.+|+.+-.++|....|+ +. .....+ ...|+||-|...+.... ...+
T Consensus 312 ~Q~ALMAPTEILA~QH~~~~~~~l~~~~i~V~lLtG~~kgk~r~~~l~~l~~G~~~ivVGTHALiQd~V-------~F~~ 384 (677)
T COG1200 312 YQAALMAPTEILAEQHYESLRKWLEPLGIRVALLTGSLKGKARKEILEQLASGEIDIVVGTHALIQDKV-------EFHN 384 (677)
T ss_pred CeeEEeccHHHHHHHHHHHHHHHhhhcCCeEEEeecccchhHHHHHHHHHhCCCCCEEEEcchhhhcce-------eecc
Confidence 447889999887 899999999997768999999992 11 122233 45899999999887554 2345
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcc--cCeEEEEecccccCChh
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLN--AKRRWVVTGTPIQNGSF 465 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~--a~~r~~LTGTPi~N~l~ 465 (869)
..+||+||=|++ +..+-.++.+-. ..+.+.||||||+.++.
T Consensus 385 LgLVIiDEQHRF---GV~QR~~L~~KG~~~Ph~LvMTATPIPRTLA 427 (677)
T COG1200 385 LGLVIIDEQHRF---GVHQRLALREKGEQNPHVLVMTATPIPRTLA 427 (677)
T ss_pred eeEEEEeccccc---cHHHHHHHHHhCCCCCcEEEEeCCCchHHHH
Confidence 678999999998 555666666653 47999999999997754
No 63
>PRK05580 primosome assembly protein PriA; Validated
Probab=99.66 E-value=8.1e-15 Score=175.06 Aligned_cols=96 Identities=20% Similarity=0.251 Sum_probs=73.5
Q ss_pred HHHHHHHHHHHc--CCcEEEEeCCCC--HHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCC---CC
Q 002901 726 MLILLEEPLQAA--GFKLLRLDGSMN--AKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPW---WN 798 (869)
Q Consensus 726 ~ld~l~~~L~~~--gi~~~rldG~~~--~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~---wn 798 (869)
-.+.+++.|.+. +.++.++||++. .+++++++++|+++ .+.||+ .|...+.|+|+...+.|+++|.+ ..
T Consensus 438 G~e~~~e~l~~~fp~~~v~~~~~d~~~~~~~~~~~l~~f~~g---~~~ILV-gT~~iakG~d~p~v~lV~il~aD~~l~~ 513 (679)
T PRK05580 438 GTERLEEELAELFPEARILRIDRDTTRRKGALEQLLAQFARG---EADILI-GTQMLAKGHDFPNVTLVGVLDADLGLFS 513 (679)
T ss_pred cHHHHHHHHHHhCCCCcEEEEeccccccchhHHHHHHHHhcC---CCCEEE-EChhhccCCCCCCcCEEEEEcCchhccC
Confidence 345566666665 788999999986 46799999999984 336655 56889999999999999888754 33
Q ss_pred c---------chHHHHhhhhhhcCCcccEEEEEEEe
Q 002901 799 P---------AVEEQAMDRVHRIGQKEDVKIVRLIV 825 (869)
Q Consensus 799 p---------~~e~QaigRvhRiGQ~k~V~V~rli~ 825 (869)
| ....|++||++|.|....|.+..+-.
T Consensus 514 pdfra~Er~~~~l~q~~GRagR~~~~g~viiqT~~p 549 (679)
T PRK05580 514 PDFRASERTFQLLTQVAGRAGRAEKPGEVLIQTYHP 549 (679)
T ss_pred CccchHHHHHHHHHHHHhhccCCCCCCEEEEEeCCC
Confidence 3 56899999999988777777655443
No 64
>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.66 E-value=2.6e-15 Score=161.16 Aligned_cols=120 Identities=22% Similarity=0.321 Sum_probs=99.8
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHH----HcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQ----AAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~----~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
|.-++..+|... ...++|+|+...+....+...|+ ..++++-.++|+.+.+.|.+.+++|+.+ .++||+
T Consensus 416 kpl~~~~lI~~~----k~~r~lcf~~S~~sa~Rl~~~L~v~~~~~~~~~s~~t~~l~~k~r~k~l~~f~~g---~i~vLI 488 (620)
T KOG0350|consen 416 KPLAVYALITSN----KLNRTLCFVNSVSSANRLAHVLKVEFCSDNFKVSEFTGQLNGKRRYKMLEKFAKG---DINVLI 488 (620)
T ss_pred chHhHHHHHHHh----hcceEEEEecchHHHHHHHHHHHHHhccccchhhhhhhhhhHHHHHHHHHHHhcC---CceEEE
Confidence 344555556543 36899999999999888888777 3477788899999999999999999994 458888
Q ss_pred EecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 773 ~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
+| ++.+.|+++-..+.||.|||+-.-.....|+||..|-||.- ++|.+...
T Consensus 489 cS-D~laRGiDv~~v~~VINYd~P~~~ktyVHR~GRTARAgq~G--~a~tll~~ 539 (620)
T KOG0350|consen 489 CS-DALARGIDVNDVDNVINYDPPASDKTYVHRAGRTARAGQDG--YAITLLDK 539 (620)
T ss_pred eh-hhhhcCCcccccceEeecCCCchhhHHHHhhcccccccCCc--eEEEeecc
Confidence 87 99999999999999999999999999999999999999964 44555543
No 65
>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=99.64 E-value=3.3e-14 Score=157.98 Aligned_cols=86 Identities=17% Similarity=0.201 Sum_probs=69.2
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcC--CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCE
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAG--FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASR 789 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~g--i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~ 789 (869)
.++.|+|||++....++.+...|+..| +.+..++|.+++.+|.++. . ..+|+++.+++.|||+... .
T Consensus 270 ~~~~k~LIf~nt~~~~~~l~~~L~~~~~~~~~~~l~g~~~~~~R~~~~---------~-~~iLVaTdv~~rGiDi~~~-~ 338 (357)
T TIGR03158 270 LPGERGAIILDSLDEVNRLSDLLQQQGLGDDIGRITGFAPKKDRERAM---------Q-FDILLGTSTVDVGVDFKRD-W 338 (357)
T ss_pred cCCCeEEEEECCHHHHHHHHHHHhhhCCCceEEeeecCCCHHHHHHhc---------c-CCEEEEecHHhcccCCCCc-e
Confidence 457899999999999999999999865 5788999999999987653 1 2256677999999999754 6
Q ss_pred EEEEcCCCCcchHHHHhhhhh
Q 002901 790 VFLLEPWWNPAVEEQAMDRVH 810 (869)
Q Consensus 790 Vi~~dp~wnp~~e~QaigRvh 810 (869)
|| ++ +-++....||+||++
T Consensus 339 vi-~~-p~~~~~yiqR~GR~g 357 (357)
T TIGR03158 339 LI-FS-ARDAAAFWQRLGRLG 357 (357)
T ss_pred EE-EC-CCCHHHHhhhcccCC
Confidence 66 56 457788889998863
No 66
>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=99.64 E-value=1.1e-15 Score=144.70 Aligned_cols=121 Identities=29% Similarity=0.424 Sum_probs=109.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
+.|...+.+.+.+... ++.++|||+.....++.+...|...++.+..++|+++..+|..+++.|++++ ..+|++
T Consensus 11 ~~k~~~i~~~i~~~~~--~~~~~lvf~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~----~~ili~ 84 (131)
T cd00079 11 DEKLEALLELLKEHLK--KGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQEEREEVLKDFREGE----IVVLVA 84 (131)
T ss_pred HHHHHHHHHHHHhccc--CCCcEEEEeCcHHHHHHHHHHHHhcCCcEEEEECCCCHHHHHHHHHHHHcCC----CcEEEE
Confidence 3799999999987642 5789999999999999999999999999999999999999999999999842 345557
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEE
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIV 821 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~ 821 (869)
+.++++|+|++.+++||+++++||+..+.|++||++|.||+..|.++
T Consensus 85 t~~~~~G~d~~~~~~vi~~~~~~~~~~~~Q~~GR~~R~~~~~~~~~~ 131 (131)
T cd00079 85 TDVIARGIDLPNVSVVINYDLPWSPSSYLQRIGRAGRAGQKGTAILL 131 (131)
T ss_pred cChhhcCcChhhCCEEEEeCCCCCHHHheecccccccCCCCceEEeC
Confidence 79999999999999999999999999999999999999998877764
No 67
>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]
Probab=99.62 E-value=3.2e-14 Score=153.70 Aligned_cols=124 Identities=19% Similarity=0.293 Sum_probs=109.4
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
.+.|..+|+++|... -...+|||.+.....|.|.+.|++.|+++++++|+-++++|+.++..|+++ ...||++
T Consensus 501 ed~k~kkL~eil~~~----~~ppiIIFvN~kk~~d~lAk~LeK~g~~~~tlHg~k~qeQRe~aL~~fr~~---t~dIlVa 573 (673)
T KOG0333|consen 501 EDEKRKKLIEILESN----FDPPIIIFVNTKKGADALAKILEKAGYKVTTLHGGKSQEQRENALADFREG---TGDILVA 573 (673)
T ss_pred chHHHHHHHHHHHhC----CCCCEEEEEechhhHHHHHHHHhhccceEEEeeCCccHHHHHHHHHHHHhc---CCCEEEE
Confidence 478899999999875 367899999999999999999999999999999999999999999999994 2266665
Q ss_pred ecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 774 SLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
+ .++|.|++++..++||.||..-+-.....+|||.+|-|+.-. ++.|+++.
T Consensus 574 T-DvAgRGIDIpnVSlVinydmaksieDYtHRIGRTgRAGk~Gt--aiSflt~~ 624 (673)
T KOG0333|consen 574 T-DVAGRGIDIPNVSLVINYDMAKSIEDYTHRIGRTGRAGKSGT--AISFLTPA 624 (673)
T ss_pred e-cccccCCCCCccceeeecchhhhHHHHHHHhccccccccCce--eEEEeccc
Confidence 5 999999999999999999999999999999999999998654 44555554
No 68
>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=99.61 E-value=1.6e-14 Score=165.21 Aligned_cols=107 Identities=14% Similarity=0.223 Sum_probs=86.2
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc----CCc-EEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccC
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA----GFK-LLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAAS 788 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~----gi~-~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~ 788 (869)
-.|.|||+...++++.|...|.+. +-. ...|+|.. ++-+..|+.|... ..- ..+.+|.....+|++...+.
T Consensus 426 ~~KTIvFa~n~dHAe~i~~~~~~~ype~~~~~a~~IT~d~--~~~q~~Id~f~~k-e~~-P~IaitvdlL~TGiDvpev~ 501 (875)
T COG4096 426 IGKTIVFAKNHDHAERIREALVNEYPEYNGRYAMKITGDA--EQAQALIDNFIDK-EKY-PRIAITVDLLTTGVDVPEVV 501 (875)
T ss_pred cCceEEEeeCcHHHHHHHHHHHHhCccccCceEEEEeccc--hhhHHHHHHHHhc-CCC-CceEEehhhhhcCCCchhee
Confidence 469999999999999999999875 223 45678865 4556788888873 334 44566779999999999999
Q ss_pred EEEEEcCCCCcchHHHHhhhhhhcC-------Cccc-EEEEEEE
Q 002901 789 RVFLLEPWWNPAVEEQAMDRVHRIG-------QKED-VKIVRLI 824 (869)
Q Consensus 789 ~Vi~~dp~wnp~~e~QaigRvhRiG-------Q~k~-V~V~rli 824 (869)
.++|+-+.-+-....|.+||.-|+. |.|. .+|+.|+
T Consensus 502 nlVF~r~VrSktkF~QMvGRGTRl~~~~~~~~~dK~~F~ifDf~ 545 (875)
T COG4096 502 NLVFDRKVRSKTKFKQMVGRGTRLCPDLGGPEQDKEFFTIFDFV 545 (875)
T ss_pred eeeehhhhhhHHHHHHHhcCccccCccccCccccceeEEEEEhh
Confidence 9999999999999999999999963 5454 7777765
No 69
>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.60 E-value=6.4e-15 Score=161.31 Aligned_cols=124 Identities=20% Similarity=0.244 Sum_probs=107.5
Q ss_pred CcchHHHHHHHHHHhhhc-----CCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCC
Q 002901 694 TSSKVSALLTLLLQLRDK-----KPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGP 768 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~-----~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~ 768 (869)
...|...|+++|...... ...++++||..-...++.++..|...|+++.-++|.-++.+|.++++.|+++ +.
T Consensus 312 ~~~kr~~Lldll~~~~~~~~~~~~~~e~tlvFvEt~~~~d~l~~~l~~~~~~~~sIhg~~tq~er~~al~~Fr~g---~~ 388 (482)
T KOG0335|consen 312 EMEKRSKLLDLLNKDDGPPSDGEPKWEKTLVFVETKRGADELAAFLSSNGYPAKSIHGDRTQIEREQALNDFRNG---KA 388 (482)
T ss_pred chhhHHHHHHHhhcccCCcccCCcccceEEEEeeccchhhHHHHHHhcCCCCceeecchhhhhHHHHHHHHhhcC---Cc
Confidence 367899999999865421 1234999999999999999999999999999999999999999999999994 44
Q ss_pred EEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEE
Q 002901 769 TVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIV 821 (869)
Q Consensus 769 ~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~ 821 (869)
.||+++ .+++.|||.....|||+||.+-+-..+..||||.+|.|+.=-.+.+
T Consensus 389 pvlVaT-~VaaRGlDi~~V~hVInyDmP~d~d~YvHRIGRTGR~Gn~G~atsf 440 (482)
T KOG0335|consen 389 PVLVAT-NVAARGLDIPNVKHVINYDMPADIDDYVHRIGRTGRVGNGGRATSF 440 (482)
T ss_pred ceEEEe-hhhhcCCCCCCCceeEEeecCcchhhHHHhccccccCCCCceeEEE
Confidence 666655 9999999999999999999999999999999999999998554443
No 70
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=99.60 E-value=1.9e-13 Score=161.60 Aligned_cols=116 Identities=17% Similarity=0.141 Sum_probs=100.2
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...|..+|++.+.+.. ..+.++|||+......+.+...|...|+++..++|.+...+|..+...|+. + .| ++
T Consensus 410 ~~~K~~al~~~i~~~~--~~~~pvLIf~~t~~~se~l~~~L~~~gi~~~~L~~~~~~~e~~~i~~ag~~---g--~V-lI 481 (790)
T PRK09200 410 LDEKYKAVIEEVKERH--ETGRPVLIGTGSIEQSETFSKLLDEAGIPHNLLNAKNAAKEAQIIAEAGQK---G--AV-TV 481 (790)
T ss_pred HHHHHHHHHHHHHHHH--hcCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEecCCccHHHHHHHHHcCCC---C--eE-EE
Confidence 3679999999998753 237899999999999999999999999999999999988888777777655 2 44 56
Q ss_pred ecCCccccccc---cccC-----EEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 774 SLKASGAGVNL---TAAS-----RVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 774 S~~agg~GLNL---t~A~-----~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
+|..+|.|+++ ...+ +||.+|++-|+..+.|++||++|.|+.-.
T Consensus 482 ATdmAgRG~DI~l~~~V~~~GGL~VI~~d~p~s~r~y~qr~GRtGR~G~~G~ 533 (790)
T PRK09200 482 ATNMAGRGTDIKLGEGVHELGGLAVIGTERMESRRVDLQLRGRSGRQGDPGS 533 (790)
T ss_pred EccchhcCcCCCcccccccccCcEEEeccCCCCHHHHHHhhccccCCCCCee
Confidence 67999999999 4677 99999999999999999999999998643
No 71
>PRK09751 putative ATP-dependent helicase Lhr; Provisional
Probab=99.60 E-value=6.3e-14 Score=174.95 Aligned_cols=95 Identities=17% Similarity=0.174 Sum_probs=81.7
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcC---------------------------------CcEEEEeCCCCHHHHHHHHHHh
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAG---------------------------------FKLLRLDGSMNAKKRAQVIEEF 760 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~g---------------------------------i~~~rldG~~~~~~R~~~i~~F 760 (869)
+.++|||++.....+.+...|++.. +....++|+++.++|..+.+.|
T Consensus 244 ~~stLVFvNSR~~AE~La~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ia~~HHGsLSkeeR~~IE~~f 323 (1490)
T PRK09751 244 HRSTIVFTNSRGLAEKLTARLNELYAARLQRSPSIAVDAAHFESTSGATSNRVQSSDVFIARSHHGSVSKEQRAITEQAL 323 (1490)
T ss_pred CCCEEEECCCHHHHHHHHHHHHHhhhhhccccccccchhhhhhhccccchhccccccceeeeeccccCCHHHHHHHHHHH
Confidence 5689999999999999998887531 1145678999999999999999
Q ss_pred CCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhc
Q 002901 761 GNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRI 812 (869)
Q Consensus 761 ~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRi 812 (869)
+++ ..++++ +|.+.+.|||+...+.||.++.+.+.+...|++||++|-
T Consensus 324 K~G---~LrvLV-ATssLELGIDIg~VDlVIq~gsP~sVas~LQRiGRAGR~ 371 (1490)
T PRK09751 324 KSG---ELRCVV-ATSSLELGIDMGAVDLVIQVATPLSVASGLQRIGRAGHQ 371 (1490)
T ss_pred HhC---CceEEE-eCcHHHccCCcccCCEEEEeCCCCCHHHHHHHhCCCCCC
Confidence 994 446555 569999999999999999999999999999999999885
No 72
>COG1204 Superfamily II helicase [General function prediction only]
Probab=99.60 E-value=4.8e-14 Score=168.05 Aligned_cols=168 Identities=20% Similarity=0.156 Sum_probs=121.7
Q ss_pred cChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCCC
Q 002901 200 ELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVAP 279 (869)
Q Consensus 200 ~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~~ 279 (869)
+|+|+|+.++.-.+.. + ...+++-.+|.|||+.|+..|......
T Consensus 31 el~~~qq~av~~~~~~-~-------------------------------~N~li~aPTgsGKTlIA~lai~~~l~~---- 74 (766)
T COG1204 31 ELFNPQQEAVEKGLLS-D-------------------------------ENVLISAPTGSGKTLIALLAILSTLLE---- 74 (766)
T ss_pred HhhHHHHHHhhccccC-C-------------------------------CcEEEEcCCCCchHHHHHHHHHHHHHh----
Confidence 8999999999866543 1 468999999999999999888876521
Q ss_pred CCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh-
Q 002901 280 GLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP- 358 (869)
Q Consensus 280 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~- 358 (869)
..++.+-|||.
T Consensus 75 --------------------------------------------------------------------~~~k~vYivPlk 86 (766)
T COG1204 75 --------------------------------------------------------------------GGGKVVYIVPLK 86 (766)
T ss_pred --------------------------------------------------------------------cCCcEEEEeChH
Confidence 13568999998
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCCc-C
Q 002901 359 SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNA-N 437 (869)
Q Consensus 359 sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~-~ 437 (869)
+|..+=.+|+.++- .-.++|.+++|+.....+.+.++||+||||+.+-+-.....+ .....+.||+||+|.+... .
T Consensus 87 ALa~Ek~~~~~~~~-~~GirV~~~TgD~~~~~~~l~~~~ViVtT~EK~Dsl~R~~~~--~~~~V~lvViDEiH~l~d~~R 163 (766)
T COG1204 87 ALAEEKYEEFSRLE-ELGIRVGISTGDYDLDDERLARYDVIVTTPEKLDSLTRKRPS--WIEEVDLVVIDEIHLLGDRTR 163 (766)
T ss_pred HHHHHHHHHhhhHH-hcCCEEEEecCCcccchhhhccCCEEEEchHHhhHhhhcCcc--hhhcccEEEEeeeeecCCccc
Confidence 77788888888332 347999999998887889999999999999999876654333 4445678999999999765 2
Q ss_pred -----hHHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCC
Q 002901 438 -----AQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPF 479 (869)
Q Consensus 438 -----s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~ 479 (869)
+-.++....-..-+.++||+|= .+..| +-.||+..++
T Consensus 164 G~~lE~iv~r~~~~~~~~rivgLSATl--pN~~e---vA~wL~a~~~ 205 (766)
T COG1204 164 GPVLESIVARMRRLNELIRIVGLSATL--PNAEE---VADWLNAKLV 205 (766)
T ss_pred CceehhHHHHHHhhCcceEEEEEeeec--CCHHH---HHHHhCCccc
Confidence 1222221111225789999992 13444 4456655544
No 73
>PRK09401 reverse gyrase; Reviewed
Probab=99.59 E-value=8.6e-14 Score=173.28 Aligned_cols=104 Identities=16% Similarity=0.136 Sum_probs=83.5
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHH---HHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKM---LILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~---ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
.|...|.+++..+ +.++|||++.... ++.|...|...|+++..++|+| .+.+++|+++ .+.||+
T Consensus 315 ~k~~~L~~ll~~l-----~~~~LIFv~t~~~~~~ae~l~~~L~~~gi~v~~~hg~l-----~~~l~~F~~G---~~~VLV 381 (1176)
T PRK09401 315 DSVEKLVELVKRL-----GDGGLIFVPSDKGKEYAEELAEYLEDLGINAELAISGF-----ERKFEKFEEG---EVDVLV 381 (1176)
T ss_pred cHHHHHHHHHHhc-----CCCEEEEEecccChHHHHHHHHHHHHCCCcEEEEeCcH-----HHHHHHHHCC---CCCEEE
Confidence 4666777777643 3589999998666 9999999999999999999998 2346999994 458888
Q ss_pred Ee---cCCccccccccc-cCEEEEEcCCC------CcchHHHHhhhhhhc
Q 002901 773 AS---LKASGAGVNLTA-ASRVFLLEPWW------NPAVEEQAMDRVHRI 812 (869)
Q Consensus 773 ~S---~~agg~GLNLt~-A~~Vi~~dp~w------np~~e~QaigRvhRi 812 (869)
.+ +.+++.|||++. ..+||+++.|- .......+++|.-.+
T Consensus 382 atas~tdv~aRGIDiP~~IryVI~y~vP~~~~~~~~~~~~~~~~~r~~~~ 431 (1176)
T PRK09401 382 GVASYYGVLVRGIDLPERIRYAIFYGVPKFKFSLEEELAPPFLLLRLLSL 431 (1176)
T ss_pred EecCCCCceeecCCCCcceeEEEEeCCCCEEEeccccccCHHHHHHHHhh
Confidence 86 789999999998 89999999986 445556777777543
No 74
>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.59 E-value=4.8e-14 Score=152.58 Aligned_cols=119 Identities=25% Similarity=0.358 Sum_probs=96.4
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc----------------------CCcEEEEeCCCCHHHH
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA----------------------GFKLLRLDGSMNAKKR 753 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~----------------------gi~~~rldG~~~~~~R 753 (869)
-++-+|...|.+..+..+..|+|||-.-.++.+.=...|... +.+|.|++|+|++.+|
T Consensus 407 LRLV~Laa~L~~~~k~~~~qk~iVF~S~~d~VeFHy~lf~~~l~~~~e~~s~~~~s~g~~~l~~~~k~~rLHGsm~QeeR 486 (708)
T KOG0348|consen 407 LRLVALAALLLNKVKFEEKQKMIVFFSCSDSVEFHYSLFSEALLSHLEGSSGAPDSEGLPPLFMDLKFYRLHGSMEQEER 486 (708)
T ss_pred hhHHHHHHHHHHHhhhhhhceeEEEEechhHHHHHHHHHHhhhhcccccccCCcccCCChhhhhcceEEEecCchhHHHH
Confidence 456677777777666666779999988777766544444321 3459999999999999
Q ss_pred HHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 754 AQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 754 ~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
..++..|... .. .| |+++++++.||+|+...-||-|||+..++....||||..|+|-+-.-
T Consensus 487 ts~f~~Fs~~-~~--~V-LLcTDVAaRGLDlP~V~~vVQYd~P~s~adylHRvGRTARaG~kG~a 547 (708)
T KOG0348|consen 487 TSVFQEFSHS-RR--AV-LLCTDVAARGLDLPHVGLVVQYDPPFSTADYLHRVGRTARAGEKGEA 547 (708)
T ss_pred HHHHHhhccc-cc--eE-EEehhhhhccCCCCCcCeEEEeCCCCCHHHHHHHhhhhhhccCCCce
Confidence 9999999993 32 34 55569999999999999999999999999999999999999987553
No 75
>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=99.59 E-value=2.2e-13 Score=158.51 Aligned_cols=115 Identities=17% Similarity=0.136 Sum_probs=101.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|..++++.+.+... .+..+|||+......+.+...|...|+++..++|. +.+|++.|..|... + ..|++ +
T Consensus 388 ~~k~~ai~~~i~~~~~--~grpvLV~t~si~~se~ls~~L~~~gi~~~~Lna~--q~~rEa~ii~~ag~-~--g~VtI-A 459 (745)
T TIGR00963 388 EEKWKAVVDEIKERHA--KGQPVLVGTTSVEKSELLSNLLKERGIPHNVLNAK--NHEREAEIIAQAGR-K--GAVTI-A 459 (745)
T ss_pred HHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHcCCCeEEeeCC--hHHHHHHHHHhcCC-C--ceEEE-E
Confidence 5689999998877653 48999999999999999999999999999999998 78999999999873 2 25554 5
Q ss_pred cCCccccccccc-------cCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 775 LKASGAGVNLTA-------ASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 775 ~~agg~GLNLt~-------A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
|..+|.|+++.. ..+||.++++-|+..+.|++||++|-|+.=.
T Consensus 460 TnmAgRGtDI~l~~V~~~GGl~VI~t~~p~s~ri~~q~~GRtGRqG~~G~ 509 (745)
T TIGR00963 460 TNMAGRGTDIKLEEVKELGGLYVIGTERHESRRIDNQLRGRSGRQGDPGS 509 (745)
T ss_pred eccccCCcCCCccchhhcCCcEEEecCCCCcHHHHHHHhccccCCCCCcc
Confidence 699999999977 6799999999999999999999999998643
No 76
>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.58 E-value=2.3e-13 Score=145.64 Aligned_cols=117 Identities=21% Similarity=0.302 Sum_probs=100.7
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
.-|+..|+++|... ...|+|||-..-...++....|... ++.++-++|.|++++|..+++.|.+ ..+ .| |
T Consensus 240 ~eK~~~lv~~L~~~----~~kK~iVFF~TCasVeYf~~~~~~~l~~~~i~~iHGK~~q~~R~k~~~~F~~-~~~--~v-l 311 (567)
T KOG0345|consen 240 DEKLSQLVHLLNNN----KDKKCIVFFPTCASVEYFGKLFSRLLKKREIFSIHGKMSQKARAKVLEAFRK-LSN--GV-L 311 (567)
T ss_pred HHHHHHHHHHHhcc----ccccEEEEecCcchHHHHHHHHHHHhCCCcEEEecchhcchhHHHHHHHHHh-ccC--ce-E
Confidence 56888999999863 3789999988888888888877764 7889999999999999999999998 332 44 4
Q ss_pred EecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEE
Q 002901 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVK 819 (869)
Q Consensus 773 ~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~ 819 (869)
+++++++.||+....+.||.+|||-+|....+|.||..|.|..-.-.
T Consensus 312 ~~TDVaARGlDip~iD~VvQ~DpP~~~~~FvHR~GRTaR~gr~G~Ai 358 (567)
T KOG0345|consen 312 FCTDVAARGLDIPGIDLVVQFDPPKDPSSFVHRCGRTARAGREGNAI 358 (567)
T ss_pred EeehhhhccCCCCCceEEEecCCCCChhHHHhhcchhhhccCccceE
Confidence 56699999999999999999999999999999999999999765433
No 77
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=99.57 E-value=6.5e-13 Score=153.93 Aligned_cols=114 Identities=18% Similarity=0.209 Sum_probs=95.3
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...|..+|++.+.+... .+..+|||+......+.+...|...|+++..++|.++ +|++.+..|... +. . +++
T Consensus 455 ~~~K~~aL~~~i~~~~~--~~~pvLIft~t~~~se~L~~~L~~~gi~~~~Lhg~~~--~rE~~ii~~ag~-~g--~-VlV 526 (656)
T PRK12898 455 AAAKWAAVAARVRELHA--QGRPVLVGTRSVAASERLSALLREAGLPHQVLNAKQD--AEEAAIVARAGQ-RG--R-ITV 526 (656)
T ss_pred HHHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHCCCCEEEeeCCcH--HHHHHHHHHcCC-CC--c-EEE
Confidence 46799999999987542 2567999999999999999999999999999999864 666666667652 22 4 556
Q ss_pred ecCCcccccccc---ccC-----EEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 774 SLKASGAGVNLT---AAS-----RVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 774 S~~agg~GLNLt---~A~-----~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
+|..+|.|+++. ... +||.+|.+-|...+.|++||++|.|..
T Consensus 527 ATdmAgRGtDI~l~~~V~~~GGLhVI~~d~P~s~r~y~hr~GRTGRqG~~ 576 (656)
T PRK12898 527 ATNMAGRGTDIKLEPGVAARGGLHVILTERHDSARIDRQLAGRCGRQGDP 576 (656)
T ss_pred EccchhcccCcCCccchhhcCCCEEEEcCCCCCHHHHHHhcccccCCCCC
Confidence 779999999987 443 999999999999999999999999975
No 78
>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=99.56 E-value=1.2e-14 Score=146.25 Aligned_cols=157 Identities=22% Similarity=0.270 Sum_probs=106.3
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.+|||||.+++.-+.+.-... ...+.++|..++|.|||++++.++....
T Consensus 2 ~~lr~~Q~~ai~~i~~~~~~~--------------------------~~~~~~ll~~~tGsGKT~~~~~~~~~l~----- 50 (184)
T PF04851_consen 2 YKLRPYQQEAIARIINSLENK--------------------------KEERRVLLNAPTGSGKTIIALALILELA----- 50 (184)
T ss_dssp -EE-HHHHHHHHHHHHHHHTT--------------------------SGCSEEEEEESTTSSHHHHHHHHHHHHH-----
T ss_pred CCCCHHHHHHHHHHHHHHHhc--------------------------CCCCCEEEEECCCCCcChhhhhhhhccc-----
Confidence 469999999999988742210 0125799999999999999999887653
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
. ++|||||.
T Consensus 51 ---------------------------------------------------------------------~--~~l~~~p~ 59 (184)
T PF04851_consen 51 ---------------------------------------------------------------------R--KVLIVAPN 59 (184)
T ss_dssp ---------------------------------------------------------------------C--EEEEEESS
T ss_pred ---------------------------------------------------------------------c--ceeEecCH
Confidence 1 68999998
Q ss_pred -hHHHHHHHHHHHhcCCCCeEEEEEeC----------CCCC-----ChhhhccccEEEEechhhHhhhcccC--------
Q 002901 359 -SVFSTWITQLEEHTVPGMLKTYMYYG----------DRTQ-----DVEELKMYDLVLTTYSTLAIEESWLE-------- 414 (869)
Q Consensus 359 -sll~qW~~Ei~~~~~~~~l~v~~y~G----------~r~~-----~~~~l~~~dVVItTY~~l~~~~~~~~-------- 414 (869)
+++.||.++|..+... ......... .... ........++++++|+.+........
T Consensus 60 ~~l~~Q~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~~~~~~~~~~~ 138 (184)
T PF04851_consen 60 ISLLEQWYDEFDDFGSE-KYNFFEKSIKPAYDSKEFISIQDDISDKSESDNNDKDIILTTYQSLQSDIKEEKKIDESARR 138 (184)
T ss_dssp HHHHHHHHHHHHHHSTT-SEEEEE--GGGCCE-SEEETTTTEEEHHHHHCBSS-SEEEEEHHHHHHHHHH---------G
T ss_pred HHHHHHHHHHHHHhhhh-hhhhcccccccccccccccccccccccccccccccccchhhHHHHHHhhcccccccccchhh
Confidence 7889999999877732 222211110 0000 11123568899999999998764211
Q ss_pred -CCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccc
Q 002901 415 -SPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPI 460 (869)
Q Consensus 415 -~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi 460 (869)
.......++.||+||||++.+... ++.+....+.++++|||||.
T Consensus 139 ~~~~~~~~~~~vI~DEaH~~~~~~~--~~~i~~~~~~~~l~lTATp~ 183 (184)
T PF04851_consen 139 SYKLLKNKFDLVIIDEAHHYPSDSS--YREIIEFKAAFILGLTATPF 183 (184)
T ss_dssp CHHGGGGSESEEEEETGGCTHHHHH--HHHHHHSSCCEEEEEESS-S
T ss_pred hhhhccccCCEEEEehhhhcCCHHH--HHHHHcCCCCeEEEEEeCcc
Confidence 112334688999999999865432 66666688999999999995
No 79
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=99.55 E-value=6.6e-13 Score=150.93 Aligned_cols=109 Identities=19% Similarity=0.201 Sum_probs=95.7
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
+.-.|||+..+...+.|...|...|+....++|+|+..+|+.+-++|.++ ...|+++ |.|.|.|+|=.+...||+|
T Consensus 230 ~~~GIIYc~sRk~~E~ia~~L~~~g~~a~~YHaGl~~~eR~~~q~~f~~~---~~~iiVA-T~AFGMGIdKpdVRfViH~ 305 (590)
T COG0514 230 SKSGIIYCLTRKKVEELAEWLRKNGISAGAYHAGLSNEERERVQQAFLND---EIKVMVA-TNAFGMGIDKPDVRFVIHY 305 (590)
T ss_pred CCCeEEEEeeHHhHHHHHHHHHHCCCceEEecCCCCHHHHHHHHHHHhcC---CCcEEEE-eccccCccCCCCceEEEEe
Confidence 55679999999999999999999999999999999999999999999984 3356554 5999999999999999999
Q ss_pred cCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
|++-+....-|=+||++|-|..-.. +-|.....
T Consensus 306 ~lP~s~EsYyQE~GRAGRDG~~a~a--ill~~~~D 338 (590)
T COG0514 306 DLPGSIESYYQETGRAGRDGLPAEA--ILLYSPED 338 (590)
T ss_pred cCCCCHHHHHHHHhhccCCCCcceE--EEeecccc
Confidence 9999999999999999999986554 44555443
No 80
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.54 E-value=7.9e-13 Score=138.66 Aligned_cols=140 Identities=19% Similarity=0.300 Sum_probs=109.8
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
+.|++.+-..+..+ .++.|+|||+....++|-|..-|--.||..-.++|.-.+.+|+.+++.|+. +.++||+ .
T Consensus 449 ~~k~~~~~~f~~~m---s~ndKvIiFv~~K~~AD~LSSd~~l~gi~~q~lHG~r~Q~DrE~al~~~ks---G~vrILv-a 521 (629)
T KOG0336|consen 449 SEKLEIVQFFVANM---SSNDKVIIFVSRKVMADHLSSDFCLKGISSQSLHGNREQSDREMALEDFKS---GEVRILV-A 521 (629)
T ss_pred HHHHHHHHHHHHhc---CCCceEEEEEechhhhhhccchhhhcccchhhccCChhhhhHHHHHHhhhc---CceEEEE-E
Confidence 45554444444443 458999999999999999999999999999999999999999999999999 4446655 5
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC---HHHHHHHHHHHHHHH
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS---IEERILELQDRKKKL 843 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s---iEe~i~~~q~~K~~l 843 (869)
++.++.||++....||+.||-+-|-.....++||.+|-|.+-. - ..|+.++. .+|-|.-+++.-+..
T Consensus 522 TDlaSRGlDv~DiTHV~NyDFP~nIeeYVHRvGrtGRaGr~G~-s-is~lt~~D~~~a~eLI~ILe~aeQev 591 (629)
T KOG0336|consen 522 TDLASRGLDVPDITHVYNYDFPRNIEEYVHRVGRTGRAGRTGT-S-ISFLTRNDWSMAEELIQILERAEQEV 591 (629)
T ss_pred echhhcCCCchhcceeeccCCCccHHHHHHHhcccccCCCCcc-e-EEEEehhhHHHHHHHHHHHHHhhhhC
Confidence 5999999999999999999999999999999999999997643 2 33444432 355554444444433
No 81
>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=99.53 E-value=9.7e-13 Score=151.82 Aligned_cols=95 Identities=20% Similarity=0.277 Sum_probs=70.7
Q ss_pred HHHHHHHHHc--CCcEEEEeCCCCHHHH--HHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCC--CC-c-
Q 002901 728 ILLEEPLQAA--GFKLLRLDGSMNAKKR--AQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPW--WN-P- 799 (869)
Q Consensus 728 d~l~~~L~~~--gi~~~rldG~~~~~~R--~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~--wn-p- 799 (869)
+.+++.|.+. +.++.++|+.++..++ ++++++|+++ .+.|| +.|...+.|+|+...+.|+++|.+ .| |
T Consensus 272 e~~~e~l~~~fp~~~v~~~d~d~~~~~~~~~~~l~~f~~g---~~~IL-VgT~~i~kG~d~~~v~lV~vl~aD~~l~~pd 347 (505)
T TIGR00595 272 EQVEEELAKLFPGARIARIDSDTTSRKGAHEALLNQFANG---KADIL-IGTQMIAKGHHFPNVTLVGVLDADSGLHSPD 347 (505)
T ss_pred HHHHHHHHhhCCCCcEEEEecccccCccHHHHHHHHHhcC---CCCEE-EeCcccccCCCCCcccEEEEEcCcccccCcc
Confidence 4455555554 6789999999887666 8999999984 33555 556889999999999999776654 22 3
Q ss_pred --------chHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 800 --------AVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 800 --------~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
....|+.||++|-+..-.|.+..+-..
T Consensus 348 ~ra~E~~~~ll~q~~GRagR~~~~g~viiqt~~p~ 382 (505)
T TIGR00595 348 FRAAERGFQLLTQVAGRAGRAEDPGQVIIQTYNPN 382 (505)
T ss_pred cchHHHHHHHHHHHHhccCCCCCCCEEEEEeCCCC
Confidence 568999999999887766765554443
No 82
>PF08797 HIRAN: HIRAN domain; InterPro: IPR014905 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p. HIRAN is found as a standalone protein in several bacteria and prophages, or fused to other catalytic domains, such as a nuclease of the restriction endonuclease fold and TDP1-like DNA phosphoesterases, in the eukaryotes []. It has been predicted that this protein functions as a DNA-binding domain that probably recognises features associated with damaged DNA or stalled replication forks [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides; PDB: 2L1I_A 3K2Y_C.
Probab=99.53 E-value=8.8e-15 Score=133.02 Aligned_cols=94 Identities=36% Similarity=0.619 Sum_probs=71.0
Q ss_pred EEEEEeEEEEEEee-----ccccCCCCeEEEEecCCCcCCCccEEEecCC------CCeEeeeechhhhhhhccccCCce
Q 002901 29 LGFVIANIVGLQYY-----SGTISGREMVGLVREPLNPYDSNAVKVLNTR------TDQVGHIERSVAAVLAPLIDSGMI 97 (869)
Q Consensus 29 ~g~~~~~ivg~~~~-----~g~~~~~~~~~l~rep~n~~d~~ai~v~~~~------g~~~G~i~~~~a~~L~plld~~~v 97 (869)
+|+|.+.++|++|+ .+.++.|+.|.|+|||+||||+|||+|.+.. |.+|||||+..|.+|+||||.+.+
T Consensus 1 ~G~~~~~v~g~~~~~~~~~~~~l~~g~~v~L~re~~N~~D~nAi~v~~~~~~~~~~~~~iGylp~~~a~~l~~Lld~~~~ 80 (107)
T PF08797_consen 1 IGSFYFFVAGTRYYDGRAGRGKLKPGDRVVLVREPDNPYDPNAIKVYTIDRFSNSRGREIGYLPREIAKWLSPLLDSGGV 80 (107)
T ss_dssp --B--EEEE-CCCSTTHHCCTT--TTSEEEEEEETT-TTHCCCCCEEETT------BGCCCCCHHHHHHHHHHHCCT-TE
T ss_pred CcEEEEEEEEeecccccccccccCCCCEEEEEEcCCCCCCcccEEEEEeecccccCCCEEEEecHHHHHHHHHHHhCCCc
Confidence 69999999999994 4588899999999999999999999999887 789999999999999999999989
Q ss_pred EEEEEEecCCCCCCceeeeEEEEEEeC
Q 002901 98 LVEGIVPNTRSKGNRFKIPCQVHIFTR 124 (869)
Q Consensus 98 ~~e~~v~~~~~~~~~~~l~i~i~~~~~ 124 (869)
.++|.+...+. ....++++|.+|..
T Consensus 81 ~~~~~v~~~~~--~~~~~~~~i~l~~~ 105 (107)
T PF08797_consen 81 KFEGTVVFVPD--KRLRIGIEIYLFLK 105 (107)
T ss_dssp EEEEEEECCCT--TT-----EEEEEE-
T ss_pred EEEEEEEECCc--cccccCeEEEEEEE
Confidence 99999976554 35677778777753
No 83
>KOG4284 consensus DEAD box protein [Transcription]
Probab=99.51 E-value=2.3e-13 Score=149.82 Aligned_cols=119 Identities=16% Similarity=0.240 Sum_probs=100.0
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
|+..|-+++.. -|-...||||...+-.+-|...|...|+.+..|.|.|++++|..+++.+++ -.++ +|+|++
T Consensus 259 klq~L~~vf~~----ipy~QAlVF~~~~sra~~~a~~L~ssG~d~~~ISgaM~Q~~Rl~a~~~lr~---f~~r-ILVsTD 330 (980)
T KOG4284|consen 259 KLQKLTHVFKS----IPYVQALVFCDQISRAEPIATHLKSSGLDVTFISGAMSQKDRLLAVDQLRA---FRVR-ILVSTD 330 (980)
T ss_pred HHHHHHHHHhh----CchHHHHhhhhhhhhhhHHHHHhhccCCCeEEeccccchhHHHHHHHHhhh---ceEE-EEEecc
Confidence 44444444443 346788999999999999999999999999999999999999999999988 3334 566889
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEE
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLI 824 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli 824 (869)
-.+.|++-..+|-||.+|++-+-.....||||++|.|.. -..|..+.
T Consensus 331 LtaRGIDa~~vNLVVNiD~p~d~eTY~HRIGRAgRFG~~-G~aVT~~~ 377 (980)
T KOG4284|consen 331 LTARGIDADNVNLVVNIDAPADEETYFHRIGRAGRFGAH-GAAVTLLE 377 (980)
T ss_pred hhhccCCccccceEEecCCCcchHHHHHHhhhccccccc-ceeEEEec
Confidence 999999999999999999999999999999999999964 44444333
No 84
>PHA02653 RNA helicase NPH-II; Provisional
Probab=99.51 E-value=6.4e-12 Score=148.04 Aligned_cols=108 Identities=14% Similarity=0.189 Sum_probs=88.1
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhC-CCCCCCCEEEEEecCCccccccccccCEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFG-NPGPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~-~~~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
+.++|||..-...++.+...|... ++.+..++|++++ +++++++|. + +. .-+|++|..++.||++...++|
T Consensus 395 ~g~iLVFlpg~~ei~~l~~~L~~~~~~~~v~~LHG~Lsq--~eq~l~~ff~~---gk-~kILVATdIAERGIDIp~V~~V 468 (675)
T PHA02653 395 GSSGIVFVASVSQCEEYKKYLEKRLPIYDFYIIHGKVPN--IDEILEKVYSS---KN-PSIIISTPYLESSVTIRNATHV 468 (675)
T ss_pred CCcEEEEECcHHHHHHHHHHHHhhcCCceEEeccCCcCH--HHHHHHHHhcc---Cc-eeEEeccChhhccccccCeeEE
Confidence 468999999999999999999987 7999999999986 467788884 4 23 3456678999999999999999
Q ss_pred EEEc----C--------CCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 791 FLLE----P--------WWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 791 i~~d----p--------~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
|-++ | |.+.+...||.||++|. ++-.+|+|+.++..+
T Consensus 469 ID~G~~k~p~~~~g~~~~iSkasa~QRaGRAGR~---~~G~c~rLyt~~~~~ 517 (675)
T PHA02653 469 YDTGRVYVPEPFGGKEMFISKSMRTQRKGRVGRV---SPGTYVYFYDLDLLK 517 (675)
T ss_pred EECCCccCCCcccCcccccCHHHHHHhccCcCCC---CCCeEEEEECHHHhH
Confidence 9886 3 23666777888888886 578999999887653
No 85
>smart00487 DEXDc DEAD-like helicases superfamily.
Probab=99.51 E-value=1.1e-13 Score=140.45 Aligned_cols=160 Identities=24% Similarity=0.206 Sum_probs=114.4
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.+++|||.+++..++... +..++..++|+|||.+++.++.......
T Consensus 7 ~~~~~~Q~~~~~~~~~~~--------------------------------~~~~i~~~~GsGKT~~~~~~~~~~~~~~-- 52 (201)
T smart00487 7 EPLRPYQKEAIEALLSGL--------------------------------RDVILAAPTGSGKTLAALLPALEALKRG-- 52 (201)
T ss_pred CCCCHHHHHHHHHHHcCC--------------------------------CcEEEECCCCCchhHHHHHHHHHHhccc--
Confidence 468999999999998521 3689999999999998877777654211
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
..+.+||++|.
T Consensus 53 ---------------------------------------------------------------------~~~~~l~~~p~ 63 (201)
T smart00487 53 ---------------------------------------------------------------------KGKRVLVLVPT 63 (201)
T ss_pred ---------------------------------------------------------------------CCCcEEEEeCC
Confidence 23569999994
Q ss_pred -hHHHHHHHHHHHhcCCCC-eEEEEEeCCC-CCChhhhc-c-ccEEEEechhhHhhhcccCCCcceeeeeEEEEcCcccc
Q 002901 359 -SVFSTWITQLEEHTVPGM-LKTYMYYGDR-TQDVEELK-M-YDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVI 433 (869)
Q Consensus 359 -sll~qW~~Ei~~~~~~~~-l~v~~y~G~r-~~~~~~l~-~-~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~i 433 (869)
++..||.+++.+...... .....+++.. ......+. . ++++++||+.+....... .+...+|.+||+||+|.+
T Consensus 64 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~t~~~l~~~~~~~--~~~~~~~~~iIiDE~h~~ 141 (201)
T smart00487 64 RELAEQWAEELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPGRLLDLLEND--LLELSNVDLVILDEAHRL 141 (201)
T ss_pred HHHHHHHHHHHHHHhccCCeEEEEEeCCcchHHHHHHHhcCCCCEEEeChHHHHHHHHcC--CcCHhHCCEEEEECHHHH
Confidence 778999999999885443 5666666632 22222232 3 399999999999887532 245557888999999999
Q ss_pred CC-cChHHHHHH-hhc-ccCeEEEEecccccCC
Q 002901 434 KN-ANAQQSRTV-TNL-NAKRRWVVTGTPIQNG 463 (869)
Q Consensus 434 kn-~~s~~~ka~-~~L-~a~~r~~LTGTPi~N~ 463 (869)
.+ ........+ ..+ ...+++++||||..+.
T Consensus 142 ~~~~~~~~~~~~~~~~~~~~~~v~~saT~~~~~ 174 (201)
T smart00487 142 LDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEI 174 (201)
T ss_pred hcCCcHHHHHHHHHhCCccceEEEEecCCchhH
Confidence 86 333333333 334 5789999999996443
No 86
>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase. The eukaryotic translation initiation factor 4A (eIF4A) is a member of the DEA(D/H)-box RNA helicase family This is a diverse group of proteins that couples an ATPase activity to RNA binding and unwinding. The structure of the carboxyl-terminal domain of eIF4A has been determined to 1.75 A resolution; it has a parallel alpha-beta topology that superimposes, with minor variations, on the structures and conserved motifs of the equivalent domain in other, distantly related helicases [].; GO: 0003676 nucleic acid binding, 0004386 helicase activity, 0005524 ATP binding; PDB: 2Z83_A 2JGN_C 2I4I_A 2BMF_A 2BHR_B 1WP9_E 2WAX_C 2WAY_C 3JUX_A 3DIN_B ....
Probab=99.51 E-value=2.2e-14 Score=122.79 Aligned_cols=78 Identities=31% Similarity=0.559 Sum_probs=71.1
Q ss_pred HHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhh
Q 002901 732 EPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHR 811 (869)
Q Consensus 732 ~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhR 811 (869)
..|+..|+++..++|+++.++|..+++.|++++. .|| +++.++++|+|++.+++||+++++||+..+.|++||++|
T Consensus 1 ~~L~~~~~~~~~i~~~~~~~~r~~~~~~f~~~~~---~vl-i~t~~~~~Gid~~~~~~vi~~~~~~~~~~~~Q~~GR~~R 76 (78)
T PF00271_consen 1 KFLEKKGIKVAIIHGDMSQKERQEILKKFNSGEI---RVL-IATDILGEGIDLPDASHVIFYDPPWSPEEYIQRIGRAGR 76 (78)
T ss_dssp HHHHHTTSSEEEESTTSHHHHHHHHHHHHHTTSS---SEE-EESCGGTTSSTSTTESEEEESSSESSHHHHHHHHTTSST
T ss_pred CChHHCCCcEEEEECCCCHHHHHHHHHHhhccCc---eEE-EeeccccccccccccccccccccCCCHHHHHHHhhcCCC
Confidence 3688899999999999999999999999999532 454 456999999999999999999999999999999999999
Q ss_pred cC
Q 002901 812 IG 813 (869)
Q Consensus 812 iG 813 (869)
.|
T Consensus 77 ~g 78 (78)
T PF00271_consen 77 IG 78 (78)
T ss_dssp TT
T ss_pred CC
Confidence 98
No 87
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=99.51 E-value=1.1e-12 Score=142.45 Aligned_cols=135 Identities=24% Similarity=0.320 Sum_probs=112.9
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
..|+..|...|.. +...|+|||-..-.-..++...+.+. |++...++|+|+++.|.++..+|... . .++|
T Consensus 298 ~~Ki~~L~sFI~s----hlk~K~iVF~SscKqvkf~~e~F~rlrpg~~l~~L~G~~~Q~~R~ev~~~F~~~---~-~~vL 369 (758)
T KOG0343|consen 298 EDKIDMLWSFIKS----HLKKKSIVFLSSCKQVKFLYEAFCRLRPGIPLLALHGTMSQKKRIEVYKKFVRK---R-AVVL 369 (758)
T ss_pred hhHHHHHHHHHHh----ccccceEEEEehhhHHHHHHHHHHhcCCCCceeeeccchhHHHHHHHHHHHHHh---c-ceEE
Confidence 4588888888876 44789999999999999999988774 99999999999999999999999883 2 5677
Q ss_pred EecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHH
Q 002901 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRK 840 (869)
Q Consensus 773 ~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K 840 (869)
.++..++.||++.+.+.||-+|.|=+...+..|+||..|.+-.-+..++ .--|-||.|+...++|
T Consensus 370 F~TDv~aRGLDFpaVdwViQ~DCPedv~tYIHRvGRtAR~~~~G~sll~---L~psEeE~~l~~Lq~k 434 (758)
T KOG0343|consen 370 FCTDVAARGLDFPAVDWVIQVDCPEDVDTYIHRVGRTARYKERGESLLM---LTPSEEEAMLKKLQKK 434 (758)
T ss_pred EeehhhhccCCCcccceEEEecCchhHHHHHHHhhhhhcccCCCceEEE---EcchhHHHHHHHHHHc
Confidence 7889999999999999999999999999999999999999876554432 2344557776666555
No 88
>COG4889 Predicted helicase [General function prediction only]
Probab=99.50 E-value=4.9e-13 Score=151.26 Aligned_cols=79 Identities=24% Similarity=0.335 Sum_probs=62.2
Q ss_pred CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 738 GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 738 gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
.+.+-.+||+|+..+|...+..-+.-.++.++ +|-..++.++|++.++-+-|||+||--+-....||+|||-|-.-.|.
T Consensus 499 ~iSi~HvDGtmNal~R~~l~~l~~~~~~neck-IlSNaRcLSEGVDVPaLDsViFf~pr~smVDIVQaVGRVMRKa~gK~ 577 (1518)
T COG4889 499 KISIDHVDGTMNALERLDLLELKNTFEPNECK-ILSNARCLSEGVDVPALDSVIFFDPRSSMVDIVQAVGRVMRKAKGKK 577 (1518)
T ss_pred eEEeecccccccHHHHHHHHhccCCCCcchhe-eeccchhhhcCCCccccceEEEecCchhHHHHHHHHHHHHHhCcCCc
Confidence 45567789999999996655543332334434 56678999999999999999999999888889999999999766554
No 89
>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=99.49 E-value=2.1e-13 Score=130.02 Aligned_cols=136 Identities=21% Similarity=0.121 Sum_probs=101.2
Q ss_pred CcceecCcCCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCccccccccccccccc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMD 329 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 329 (869)
+.++..++|.|||.+++.++.......
T Consensus 2 ~~~i~~~~G~GKT~~~~~~~~~~~~~~----------------------------------------------------- 28 (144)
T cd00046 2 DVLLAAPTGSGKTLAALLPILELLDSL----------------------------------------------------- 28 (144)
T ss_pred CEEEECCCCCchhHHHHHHHHHHHhcc-----------------------------------------------------
Confidence 688999999999999999998765321
Q ss_pred ccccCcccccccCCccccccceEEEecChhHH-HHHHHHHHHhcCCCCeEEEEEeCCCCCCh---hhhccccEEEEechh
Q 002901 330 DNVKGKSVGMLNKSSSFMGKKITLIVCPPSVF-STWITQLEEHTVPGMLKTYMYYGDRTQDV---EELKMYDLVLTTYST 405 (869)
Q Consensus 330 ~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sll-~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~---~~l~~~dVVItTY~~ 405 (869)
..+.++|+||...+ .+|.+.+..+... ...+..+++...... ......+|+++||+.
T Consensus 29 ------------------~~~~~lv~~p~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~i~t~~~ 89 (144)
T cd00046 29 ------------------KGGQVLVLAPTRELANQVAERLKELFGE-GIKVGYLIGGTSIKQQEKLLSGKTDIVVGTPGR 89 (144)
T ss_pred ------------------cCCCEEEEcCcHHHHHHHHHHHHHHhhC-CcEEEEEecCcchhHHHHHhcCCCCEEEECcHH
Confidence 34679999999765 6667777777643 577777777332222 235689999999999
Q ss_pred hHhhhcccCCCcceeeeeEEEEcCccccCCcChHHH---HHHhhcccCeEEEEeccc
Q 002901 406 LAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQS---RTVTNLNAKRRWVVTGTP 459 (869)
Q Consensus 406 l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~---ka~~~L~a~~r~~LTGTP 459 (869)
+....... .+....|++||+||+|.+.+...... .........+++++||||
T Consensus 90 ~~~~~~~~--~~~~~~~~~iiiDE~h~~~~~~~~~~~~~~~~~~~~~~~~i~~saTp 144 (144)
T cd00046 90 LLDELERL--KLSLKKLDLLILDEAHRLLNQGFGLLGLKILLKLPKDRQVLLLSATP 144 (144)
T ss_pred HHHHHHcC--CcchhcCCEEEEeCHHHHhhcchHHHHHHHHhhCCccceEEEEeccC
Confidence 98876432 23455789999999999988765554 344445788999999998
No 90
>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=99.48 E-value=1.8e-12 Score=161.89 Aligned_cols=88 Identities=18% Similarity=0.208 Sum_probs=74.7
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccH---HHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFR---KMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~---~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
...|.++|..+ +.++|||++.. ..++.|...|...|+++..++|+++ ++++++|+++ .+.||+.+
T Consensus 315 ~~~L~~ll~~l-----~~~~IVFv~t~~~~~~a~~l~~~L~~~g~~a~~lhg~~~----~~~l~~Fr~G---~~~vLVat 382 (1171)
T TIGR01054 315 KETLLEIVKKL-----GTGGIVYVSIDYGKEKAEEIAEFLENHGVKAVAYHATKP----KEDYEKFAEG---EIDVLIGV 382 (1171)
T ss_pred HHHHHHHHHHc-----CCCEEEEEeccccHHHHHHHHHHHHhCCceEEEEeCCCC----HHHHHHHHcC---CCCEEEEe
Confidence 45666666543 46899999988 8999999999999999999999986 3689999994 45888886
Q ss_pred ---cCCccccccccc-cCEEEEEcCCC
Q 002901 775 ---LKASGAGVNLTA-ASRVFLLEPWW 797 (869)
Q Consensus 775 ---~~agg~GLNLt~-A~~Vi~~dp~w 797 (869)
+..++.|||++. .++||++|+|-
T Consensus 383 a~~tdv~aRGIDip~~V~~vI~~~~P~ 409 (1171)
T TIGR01054 383 ASYYGTLVRGLDLPERVRYAVFLGVPK 409 (1171)
T ss_pred ccccCcccccCCCCccccEEEEECCCC
Confidence 689999999998 79999999873
No 91
>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]
Probab=99.47 E-value=5.4e-12 Score=136.24 Aligned_cols=114 Identities=21% Similarity=0.277 Sum_probs=101.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..++..|...|++... ..|++||+....+..+....|+...+++..|+|++++..|..+..+|.+. . ..+|++
T Consensus 314 ~~~f~ll~~~LKk~~~---~~KiiVF~sT~~~vk~~~~lL~~~dlpv~eiHgk~~Q~kRT~~~~~F~ka-e---sgIL~c 386 (543)
T KOG0342|consen 314 DSRFSLLYTFLKKNIK---RYKIIVFFSTCMSVKFHAELLNYIDLPVLEIHGKQKQNKRTSTFFEFCKA-E---SGILVC 386 (543)
T ss_pred cchHHHHHHHHHHhcC---CceEEEEechhhHHHHHHHHHhhcCCchhhhhcCCcccccchHHHHHhhc-c---cceEEe
Confidence 4457788888887642 38999999999999999999999999999999999999999999999994 2 345666
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
+++++.|+|.++.+.|+-|||+-+|..++.|+||..|-|-+
T Consensus 387 TDVaARGlD~P~V~~VvQ~~~P~d~~~YIHRvGRTaR~gk~ 427 (543)
T KOG0342|consen 387 TDVAARGLDIPDVDWVVQYDPPSDPEQYIHRVGRTAREGKE 427 (543)
T ss_pred cchhhccCCCCCceEEEEeCCCCCHHHHHHHhccccccCCC
Confidence 69999999999999999999999999999999999997755
No 92
>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.46 E-value=1e-11 Score=128.87 Aligned_cols=117 Identities=20% Similarity=0.305 Sum_probs=104.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|-..|+..|.....+ +...++||.|.+.+..+|...|+..++..+.+++.|++++|..++.+|+. +..+||+++
T Consensus 236 ~vkdaYLv~~Lr~~~~~-~~~simIFvnttr~cQ~l~~~l~~le~r~~~lHs~m~Q~eR~~aLsrFrs---~~~~iliaT 311 (442)
T KOG0340|consen 236 DVKDAYLVHLLRDFENK-ENGSIMIFVNTTRECQLLSMTLKNLEVRVVSLHSQMPQKERLAALSRFRS---NAARILIAT 311 (442)
T ss_pred hhhHHHHHHHHhhhhhc-cCceEEEEeehhHHHHHHHHHHhhhceeeeehhhcchHHHHHHHHHHHhh---cCccEEEEe
Confidence 45667788888877644 57789999999999999999999999999999999999999999999999 344777665
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcc
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKE 816 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k 816 (869)
++++.||+++...-|+++|.+-.|.....++||..|-|..-
T Consensus 312 -DVAsRGLDIP~V~LVvN~diPr~P~~yiHRvGRtARAGR~G 352 (442)
T KOG0340|consen 312 -DVASRGLDIPTVELVVNHDIPRDPKDYIHRVGRTARAGRKG 352 (442)
T ss_pred -chhhcCCCCCceeEEEecCCCCCHHHHHHhhcchhcccCCc
Confidence 99999999999999999999999999999999998888653
No 93
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=99.45 E-value=4.1e-12 Score=153.76 Aligned_cols=116 Identities=19% Similarity=0.198 Sum_probs=92.1
Q ss_pred CCeEEEEeccHHHHHHHH----HHHHHcC----CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcccccccc
Q 002901 714 TTKSVVFSQFRKMLILLE----EPLQAAG----FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLT 785 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~----~~L~~~g----i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt 785 (869)
+.|.|+|+.+...+..+. ..+...+ ..+..+.|++...+|..+...|+.++. ..++|+.|.-.|+++-
T Consensus 306 ~~~tL~F~~sr~~~e~~~~~~~~~~~~~~~~l~~~v~~~~~~~~~~er~~ie~~~~~g~~----~~~~st~AlelgidiG 381 (851)
T COG1205 306 GIQTLVFFRSRKQVELLYLSPRRRLVREGGKLLDAVSTYRAGLHREERRRIEAEFKEGEL----LGVIATNALELGIDIG 381 (851)
T ss_pred CceEEEEEehhhhhhhhhhchhHHHhhcchhhhhheeeccccCCHHHHHHHHHHHhcCCc----cEEecchhhhhceeeh
Confidence 789999999999999986 4444445 567888999999999999999999532 3566889999999999
Q ss_pred ccCEEEEEcCCC-CcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHH
Q 002901 786 AASRVFLLEPWW-NPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILE 835 (869)
Q Consensus 786 ~A~~Vi~~dp~w-np~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~ 835 (869)
..+.||...-+- .-....|+.||++|-||.-.+.+. .-.+-++..+..
T Consensus 382 ~ldavi~~g~P~~s~~~~~Q~~GRaGR~~~~~l~~~v--~~~~~~d~yy~~ 430 (851)
T COG1205 382 SLDAVIAYGYPGVSVLSFRQRAGRAGRRGQESLVLVV--LRSDPLDSYYLR 430 (851)
T ss_pred hhhhHhhcCCCCchHHHHHHhhhhccCCCCCceEEEE--eCCCccchhhhh
Confidence 999999998877 668899999999999965443222 225666665543
No 94
>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.43 E-value=2e-11 Score=131.49 Aligned_cols=127 Identities=20% Similarity=0.301 Sum_probs=111.8
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|+.+|+..|-+... ..|+|||..-....+-|...|...||.+..++|+|.+.+|.++|.+|+... ..|+++
T Consensus 452 ~~Kl~wl~~~L~~f~S---~gkvlifVTKk~~~e~i~a~Lklk~~~v~llhgdkdqa~rn~~ls~fKkk~---~~Vlva- 524 (731)
T KOG0339|consen 452 EKKLNWLLRHLVEFSS---EGKVLIFVTKKADAEEIAANLKLKGFNVSLLHGDKDQAERNEVLSKFKKKR---KPVLVA- 524 (731)
T ss_pred HHHHHHHHHHhhhhcc---CCcEEEEEeccCCHHHHHHHhccccceeeeecCchhhHHHHHHHHHHhhcC---CceEEE-
Confidence 5799999999987642 469999999999999999999999999999999999999999999999942 256655
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
+++++.||++....+|+++|..-.-....|+|||..|-|-+ -..|.||++...+
T Consensus 525 tDvaargldI~~ikTVvnyD~ardIdththrigrtgRag~k--GvayTlvTeKDa~ 578 (731)
T KOG0339|consen 525 TDVAARGLDIPSIKTVVNYDFARDIDTHTHRIGRTGRAGEK--GVAYTLVTEKDAE 578 (731)
T ss_pred eeHhhcCCCccccceeecccccchhHHHHHHhhhccccccc--ceeeEEechhhHH
Confidence 49999999999999999999998889999999999999987 5678888876555
No 95
>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=99.41 E-value=1.7e-11 Score=147.90 Aligned_cols=108 Identities=16% Similarity=0.150 Sum_probs=90.3
Q ss_pred CCeEEEEeccHHHHHHHHHHHHH---cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQA---AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~---~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
+.++|||..-...++.+...|.. .++.++.++|+++.++|.++++.|.++ ..+| |++|..++.||++...++|
T Consensus 209 ~g~iLVFlpg~~eI~~l~~~L~~~~~~~~~v~pLHg~L~~~eq~~~~~~~~~G---~rkV-lVATnIAErgItIp~V~~V 284 (819)
T TIGR01970 209 TGSILVFLPGQAEIRRVQEQLAERLDSDVLICPLYGELSLAAQDRAIKPDPQG---RRKV-VLATNIAETSLTIEGIRVV 284 (819)
T ss_pred CCcEEEEECCHHHHHHHHHHHHhhcCCCcEEEEecCCCCHHHHHHHHhhcccC---CeEE-EEecchHhhcccccCceEE
Confidence 45799999999999999999987 489999999999999999999999873 3354 5677999999999999999
Q ss_pred EEEcCC----CCcch--------------HHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 791 FLLEPW----WNPAV--------------EEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 791 i~~dp~----wnp~~--------------e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
|.++.. +||.. ..||.||++|. ++=.+|+|+.+..
T Consensus 285 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRAGR~---~~G~cyrL~t~~~ 337 (819)
T TIGR01970 285 IDSGLARVARFDPKTGITRLETVRISQASATQRAGRAGRL---EPGVCYRLWSEEQ 337 (819)
T ss_pred EEcCcccccccccccCCceeeEEEECHHHHHhhhhhcCCC---CCCEEEEeCCHHH
Confidence 998754 55543 67888888886 5778999997653
No 96
>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.40 E-value=4.7e-12 Score=136.58 Aligned_cols=98 Identities=20% Similarity=0.272 Sum_probs=89.7
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
..+++||.+.......+.-.|--.|++...++|+.++.+|-++++.|++. .+.||+ ++++++.||++....+||+|
T Consensus 426 ~~~~ivFv~tKk~AHRl~IllGLlgl~agElHGsLtQ~QRlesL~kFk~~---eidvLi-aTDvAsRGLDI~gV~tVINy 501 (691)
T KOG0338|consen 426 QDRTIVFVRTKKQAHRLRILLGLLGLKAGELHGSLTQEQRLESLEKFKKE---EIDVLI-ATDVASRGLDIEGVQTVINY 501 (691)
T ss_pred ccceEEEEehHHHHHHHHHHHHHhhchhhhhcccccHHHHHHHHHHHHhc---cCCEEE-EechhhccCCccceeEEEec
Confidence 46899999999999999999999999999999999999999999999993 446655 55999999999999999999
Q ss_pred cCCCCcchHHHHhhhhhhcCCc
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
+.|-.--.+..++||..|-|..
T Consensus 502 ~mP~t~e~Y~HRVGRTARAGRa 523 (691)
T KOG0338|consen 502 AMPKTIEHYLHRVGRTARAGRA 523 (691)
T ss_pred cCchhHHHHHHHhhhhhhcccC
Confidence 9999999999999999998864
No 97
>smart00490 HELICc helicase superfamily c-terminal domain.
Probab=99.39 E-value=7.8e-13 Score=113.86 Aligned_cols=81 Identities=28% Similarity=0.507 Sum_probs=74.1
Q ss_pred HHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhh
Q 002901 729 LLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDR 808 (869)
Q Consensus 729 ~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigR 808 (869)
.|...|...++.+..++|+++.++|..+++.|++++ ..+|+++.++++|+|++.+++||+++++||+..+.|++||
T Consensus 2 ~l~~~l~~~~~~~~~~~~~~~~~~r~~~~~~f~~~~----~~vli~t~~~~~Gi~~~~~~~vi~~~~~~~~~~~~Q~~gR 77 (82)
T smart00490 2 ELAELLKELGIKVARLHGGLSQEEREEILEKFNNGK----IKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGR 77 (82)
T ss_pred HHHHHHHHCCCeEEEEECCCCHHHHHHHHHHHHcCC----CeEEEECChhhCCcChhcCCEEEEeCCCCCHHHHHHhhcc
Confidence 467788888999999999999999999999999842 3566788999999999999999999999999999999999
Q ss_pred hhhcC
Q 002901 809 VHRIG 813 (869)
Q Consensus 809 vhRiG 813 (869)
++|.|
T Consensus 78 ~~R~g 82 (82)
T smart00490 78 AGRAG 82 (82)
T ss_pred cccCC
Confidence 99987
No 98
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=99.39 E-value=1.1e-11 Score=135.43 Aligned_cols=107 Identities=22% Similarity=0.294 Sum_probs=90.9
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE-
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL- 792 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~- 792 (869)
..++|||++.+.-...|..+|...|++..-++++++..+|..+-..|.+.+- . .++++.|.|.|+++++ |.|||
T Consensus 440 rGQtIVFT~SRrr~h~lA~~L~~kG~~a~pYHaGL~y~eRk~vE~~F~~q~l---~-~VVTTAAL~AGVDFPA-SQVIFE 514 (830)
T COG1202 440 RGQTIVFTYSRRRCHELADALTGKGLKAAPYHAGLPYKERKSVERAFAAQEL---A-AVVTTAALAAGVDFPA-SQVIFE 514 (830)
T ss_pred CCceEEEecchhhHHHHHHHhhcCCcccccccCCCcHHHHHHHHHHHhcCCc---c-eEeehhhhhcCCCCch-HHHHHH
Confidence 4578999999999999999999999999999999999999999999998432 3 4568899999999985 44443
Q ss_pred ----EcCCCCcchHHHHhhhhhhcCCcccEEEEEEEe
Q 002901 793 ----LEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIV 825 (869)
Q Consensus 793 ----~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~ 825 (869)
=--|.+|....|..||++|.|-...-.||-++-
T Consensus 515 sLaMG~~WLs~~EF~QM~GRAGRp~yHdrGkVyllve 551 (830)
T COG1202 515 SLAMGIEWLSVREFQQMLGRAGRPDYHDRGKVYLLVE 551 (830)
T ss_pred HHHcccccCCHHHHHHHhcccCCCCcccCceEEEEec
Confidence 235779999999999999999876667777763
No 99
>PRK09694 helicase Cas3; Provisional
Probab=99.38 E-value=3.7e-11 Score=145.07 Aligned_cols=98 Identities=15% Similarity=0.143 Sum_probs=78.8
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcC---CcEEEEeCCCCHHHH----HHHHHHh-CCCCCCCCEEEEEecCCcccccccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAG---FKLLRLDGSMNAKKR----AQVIEEF-GNPGPGGPTVLLASLKASGAGVNLT 785 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~g---i~~~rldG~~~~~~R----~~~i~~F-~~~~~~~~~VlL~S~~agg~GLNLt 785 (869)
+.+++||++....+..+...|++.+ +++..++|.++..+| .++++.| +++.... ..+|++|.+...||++
T Consensus 560 g~~vLVf~NTV~~Aq~ly~~L~~~~~~~~~v~llHsrf~~~dR~~~E~~vl~~fgk~g~r~~-~~ILVaTQViE~GLDI- 637 (878)
T PRK09694 560 GAQVCLICNLVDDAQKLYQRLKELNNTQVDIDLFHARFTLNDRREKEQRVIENFGKNGKRNQ-GRILVATQVVEQSLDL- 637 (878)
T ss_pred CCEEEEEECCHHHHHHHHHHHHhhCCCCceEEEEeCCCCHHHHHHHHHHHHHHHHhcCCcCC-CeEEEECcchhheeec-
Confidence 7799999999999999999999765 678999999999999 5688999 4421111 3467788999999999
Q ss_pred ccCEEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 786 AASRVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 786 ~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
.++.+|....+ .....|++||+||.|.+
T Consensus 638 d~DvlItdlaP--idsLiQRaGR~~R~~~~ 665 (878)
T PRK09694 638 DFDWLITQLCP--VDLLFQRLGRLHRHHRK 665 (878)
T ss_pred CCCeEEECCCC--HHHHHHHHhccCCCCCC
Confidence 56877764433 46789999999999875
No 100
>PRK14701 reverse gyrase; Provisional
Probab=99.38 E-value=2.2e-11 Score=155.20 Aligned_cols=104 Identities=14% Similarity=0.152 Sum_probs=82.7
Q ss_pred HHHHHHHHHhhhcCCCCeEEEEeccHHH---HHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 699 SALLTLLLQLRDKKPTTKSVVFSQFRKM---LILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 699 ~~L~~~L~~~~~~~~~~K~lVFsq~~~~---ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
..|++++... +...|||++.... ++.|...|...|+++..++|+ |.+++++|+++ .+.||+.+.
T Consensus 320 ~~L~~ll~~~-----g~~gIVF~~t~~~~e~ae~la~~L~~~Gi~a~~~h~~-----R~~~l~~F~~G---~~~VLVaT~ 386 (1638)
T PRK14701 320 EHVRELLKKL-----GKGGLIFVPIDEGAEKAEEIEKYLLEDGFKIELVSAK-----NKKGFDLFEEG---EIDYLIGVA 386 (1638)
T ss_pred HHHHHHHHhC-----CCCeEEEEeccccchHHHHHHHHHHHCCCeEEEecch-----HHHHHHHHHcC---CCCEEEEec
Confidence 4566666543 4688999987653 589999999999999999994 89999999994 448888774
Q ss_pred ---CCccccccccc-cCEEEEEcCCC---CcchHHH-------------HhhhhhhcCCc
Q 002901 776 ---KASGAGVNLTA-ASRVFLLEPWW---NPAVEEQ-------------AMDRVHRIGQK 815 (869)
Q Consensus 776 ---~agg~GLNLt~-A~~Vi~~dp~w---np~~e~Q-------------aigRvhRiGQ~ 815 (869)
..++.|||++. ..+||++|.|- |-..+.| .++|+.|-|..
T Consensus 387 s~~gvaaRGIDiP~~Vryvi~~~~Pk~~~~~e~~~~~~~~~~~~~~~~~~~~~a~~~g~~ 446 (1638)
T PRK14701 387 TYYGTLVRGLDLPERIRFAVFYGVPKFRFRVDLEDPTIYRILGLLSEILKIEEELKEGIP 446 (1638)
T ss_pred CCCCeeEecCccCCccCEEEEeCCCCCCcchhhcccchhhhhcchHHHHHhhhhcccCCc
Confidence 57899999998 99999999987 5554444 45999988864
No 101
>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]
Probab=99.37 E-value=1.6e-10 Score=138.30 Aligned_cols=107 Identities=16% Similarity=0.140 Sum_probs=83.5
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVF 791 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi 791 (869)
|.++-...+....+.-+...|+.. .-++...||.|+..+=+++|..|.++ ...|||+| .....||+++.||++|
T Consensus 803 gGQvfYv~NrV~~Ie~~~~~L~~LVPEarI~vaHGQM~e~eLE~vM~~F~~g---~~dVLv~T-TIIEtGIDIPnANTiI 878 (1139)
T COG1197 803 GGQVFYVHNRVESIEKKAERLRELVPEARIAVAHGQMRERELEEVMLDFYNG---EYDVLVCT-TIIETGIDIPNANTII 878 (1139)
T ss_pred CCEEEEEecchhhHHHHHHHHHHhCCceEEEEeecCCCHHHHHHHHHHHHcC---CCCEEEEe-eeeecCcCCCCCceEE
Confidence 445555556666666677777664 45678899999999999999999994 44676655 8889999999999999
Q ss_pred EEcCC-CCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 792 LLEPW-WNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 792 ~~dp~-wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
+-+-. +--+..-|--|||+|-.+ .-+.|-++..
T Consensus 879 Ie~AD~fGLsQLyQLRGRVGRS~~--~AYAYfl~p~ 912 (1139)
T COG1197 879 IERADKFGLAQLYQLRGRVGRSNK--QAYAYFLYPP 912 (1139)
T ss_pred EeccccccHHHHHHhccccCCccc--eEEEEEeecC
Confidence 97765 777899999999998543 4677777764
No 102
>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.36 E-value=1.5e-11 Score=136.02 Aligned_cols=115 Identities=19% Similarity=0.197 Sum_probs=101.8
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHH-HHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPL-QAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L-~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
-.|+-++.+.+.... .-.++||.|...-...|...| .-.+|.+..++|.-++.+|.+.+++|+. +.+.||++
T Consensus 372 ~~K~lA~rq~v~~g~----~PP~lIfVQs~eRak~L~~~L~~~~~i~v~vIh~e~~~~qrde~~~~FR~---g~IwvLic 444 (593)
T KOG0344|consen 372 KGKLLALRQLVASGF----KPPVLIFVQSKERAKQLFEELEIYDNINVDVIHGERSQKQRDETMERFRI---GKIWVLIC 444 (593)
T ss_pred hhHHHHHHHHHhccC----CCCeEEEEecHHHHHHHHHHhhhccCcceeeEecccchhHHHHHHHHHhc---cCeeEEEe
Confidence 568888888887643 557899999999999999999 6679999999999999999999999999 46688776
Q ss_pred ecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 774 SLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
+ ...+.|+++..+|.||+||.+-.-.....+|||++|-|+.-.
T Consensus 445 T-dll~RGiDf~gvn~VInyD~p~s~~syihrIGRtgRag~~g~ 487 (593)
T KOG0344|consen 445 T-DLLARGIDFKGVNLVINYDFPQSDLSYIHRIGRTGRAGRSGK 487 (593)
T ss_pred h-hhhhccccccCcceEEecCCCchhHHHHHHhhccCCCCCCcc
Confidence 5 999999999999999999999999999999999999998643
No 103
>PRK11664 ATP-dependent RNA helicase HrpB; Provisional
Probab=99.35 E-value=8.2e-11 Score=142.37 Aligned_cols=109 Identities=14% Similarity=0.124 Sum_probs=89.7
Q ss_pred CCeEEEEeccHHHHHHHHHHHHH---cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQA---AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~---~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
+..+|||..-...++.+...|.. .++.+..++|+++.++|.+++..|.++ . .-+|++|..+..||++...++|
T Consensus 212 ~g~iLVFlpg~~ei~~l~~~L~~~~~~~~~v~~Lhg~l~~~eq~~~~~~~~~G---~-rkVlvATnIAErsLtIp~V~~V 287 (812)
T PRK11664 212 SGSLLLFLPGVGEIQRVQEQLASRVASDVLLCPLYGALSLAEQQKAILPAPAG---R-RKVVLATNIAETSLTIEGIRLV 287 (812)
T ss_pred CCCEEEEcCCHHHHHHHHHHHHHhccCCceEEEeeCCCCHHHHHHHhccccCC---C-eEEEEecchHHhcccccCceEE
Confidence 46899999999999999999987 588899999999999999999999873 3 3456677999999999999999
Q ss_pred EEEcCC----CCc--------------chHHHHhhhhhhcCCcccEEEEEEEeCCCH
Q 002901 791 FLLEPW----WNP--------------AVEEQAMDRVHRIGQKEDVKIVRLIVRNSI 829 (869)
Q Consensus 791 i~~dp~----wnp--------------~~e~QaigRvhRiGQ~k~V~V~rli~~~si 829 (869)
|..+.. |+| +...||.||++|. ++-++|||+.+...
T Consensus 288 ID~Gl~r~~~yd~~~g~~~L~~~~iSkasa~QR~GRaGR~---~~G~cyrL~t~~~~ 341 (812)
T PRK11664 288 VDSGLERVARFDPKTGLTRLVTQRISQASMTQRAGRAGRL---EPGICLHLYSKEQA 341 (812)
T ss_pred EECCCcccccccccCCcceeEEEeechhhhhhhccccCCC---CCcEEEEecCHHHH
Confidence 996543 333 3467888877776 47899999986644
No 104
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=99.35 E-value=3.5e-12 Score=132.92 Aligned_cols=138 Identities=20% Similarity=0.271 Sum_probs=114.1
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
.+|+-.|++-|++. .-++|||+.-..-.|-|.++|--.|+..+-|+|+-.+++|..+|+.|+.+.. .||+ .
T Consensus 407 EaKiVylLeCLQKT-----~PpVLIFaEkK~DVD~IhEYLLlKGVEavaIHGGKDQedR~~ai~afr~gkK---DVLV-A 477 (610)
T KOG0341|consen 407 EAKIVYLLECLQKT-----SPPVLIFAEKKADVDDIHEYLLLKGVEAVAIHGGKDQEDRHYAIEAFRAGKK---DVLV-A 477 (610)
T ss_pred hhhhhhHHHHhccC-----CCceEEEeccccChHHHHHHHHHccceeEEeecCcchhHHHHHHHHHhcCCC---ceEE-E
Confidence 46888888888753 6789999999999999999999999999999999999999999999999533 5655 4
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHH----HHHHHHH
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILEL----QDRKKKL 843 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~----q~~K~~l 843 (869)
+++++-||++++..|||+||.+-.-.....+|||.+|-|.+- ....||-+++-|.-++.+ |+.|+++
T Consensus 478 TDVASKGLDFp~iqHVINyDMP~eIENYVHRIGRTGRsg~~G--iATTfINK~~~esvLlDLK~LL~EakQ~v 548 (610)
T KOG0341|consen 478 TDVASKGLDFPDIQHVINYDMPEEIENYVHRIGRTGRSGKTG--IATTFINKNQEESVLLDLKHLLQEAKQEV 548 (610)
T ss_pred ecchhccCCCccchhhccCCChHHHHHHHHHhcccCCCCCcc--eeeeeecccchHHHHHHHHHHHHHhhccC
Confidence 599999999999999999999887788888999988888653 456688888766655543 4455443
No 105
>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.33 E-value=1.4e-11 Score=125.67 Aligned_cols=121 Identities=21% Similarity=0.306 Sum_probs=103.3
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
+.|+..|-.++.++. -..+||||+.+...++++....+.|++...++.+|.++.|..+...|+++ .++.|++|
T Consensus 307 ~qKvhCLntLfskLq----INQsIIFCNS~~rVELLAkKITelGyscyyiHakM~Q~hRNrVFHdFr~G---~crnLVct 379 (459)
T KOG0326|consen 307 RQKVHCLNTLFSKLQ----INQSIIFCNSTNRVELLAKKITELGYSCYYIHAKMAQEHRNRVFHDFRNG---KCRNLVCT 379 (459)
T ss_pred hhhhhhHHHHHHHhc----ccceEEEeccchHhHHHHHHHHhccchhhHHHHHHHHhhhhhhhhhhhcc---ccceeeeh
Confidence 455555555555543 35889999999999999999999999999999999999999999999994 45888877
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEe
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIV 825 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~ 825 (869)
+-.-.|++.++.|.||.+|-+-|+.....+|||.+|.|-- -..+.||+
T Consensus 380 -DL~TRGIDiqavNvVINFDfpk~aEtYLHRIGRsGRFGhl--GlAInLit 427 (459)
T KOG0326|consen 380 -DLFTRGIDIQAVNVVINFDFPKNAETYLHRIGRSGRFGHL--GLAINLIT 427 (459)
T ss_pred -hhhhcccccceeeEEEecCCCCCHHHHHHHccCCccCCCc--ceEEEEEe
Confidence 9999999999999999999999999999999999999953 23444553
No 106
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=99.29 E-value=7e-10 Score=131.47 Aligned_cols=118 Identities=14% Similarity=0.128 Sum_probs=103.5
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..++++.+.+... .+.-+|||+......+.|...|...||++..++|.+.+++|+.+.+.|+.+ . ++
T Consensus 425 t~~~k~~av~~~i~~~~~--~g~PVLVgt~Sie~sE~ls~~L~~~gi~h~vLnak~~q~Ea~iia~Ag~~G-----~-Vt 496 (896)
T PRK13104 425 TQADKFQAIIEDVRECGV--RKQPVLVGTVSIEASEFLSQLLKKENIKHQVLNAKFHEKEAQIIAEAGRPG-----A-VT 496 (896)
T ss_pred CHHHHHHHHHHHHHHHHh--CCCCEEEEeCcHHHHHHHHHHHHHcCCCeEeecCCCChHHHHHHHhCCCCC-----c-EE
Confidence 346799999999988754 489999999999999999999999999999999999999999999999983 3 55
Q ss_pred EecCCcccccccc--------------------------------------ccCEEEEEcCCCCcchHHHHhhhhhhcCC
Q 002901 773 ASLKASGAGVNLT--------------------------------------AASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814 (869)
Q Consensus 773 ~S~~agg~GLNLt--------------------------------------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ 814 (869)
++|..+|.|+++. ..=+||.-+.+=|--++.|..||++|-|.
T Consensus 497 IATNmAGRGtDI~Lggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerhesrRID~QLrGRaGRQGD 576 (896)
T PRK13104 497 IATNMAGRGTDIVLGGSLAADLANLPADASEQEKEAVKKEWQKRHDEVIAAGGLRIIGSERHESRRIDNQLRGRAGRQGD 576 (896)
T ss_pred EeccCccCCcceecCCchhhhhhccccchhhHHHHHHHHHhhhhhhHHHHcCCCEEEeeccCchHHHHHHhccccccCCC
Confidence 5679999999864 23489999999999999999999999998
Q ss_pred cccE
Q 002901 815 KEDV 818 (869)
Q Consensus 815 ~k~V 818 (869)
.-..
T Consensus 577 PGss 580 (896)
T PRK13104 577 PGSS 580 (896)
T ss_pred CCce
Confidence 6543
No 107
>KOG0347 consensus RNA helicase [RNA processing and modification]
Probab=99.29 E-value=4.4e-11 Score=130.36 Aligned_cols=131 Identities=21% Similarity=0.290 Sum_probs=107.6
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
+.+.|||++..+-+..|...|...+|+...++..|.+++|-+.+++|++ .++ .||| .+++++.||+++...|||+|
T Consensus 463 PGrTlVF~NsId~vKRLt~~L~~L~i~p~~LHA~M~QKqRLknLEkF~~-~~~--~VLi-aTDVAARGLDIp~V~HVIHY 538 (731)
T KOG0347|consen 463 PGRTLVFCNSIDCVKRLTVLLNNLDIPPLPLHASMIQKQRLKNLEKFKQ-SPS--GVLI-ATDVAARGLDIPGVQHVIHY 538 (731)
T ss_pred CCceEEEechHHHHHHHHHHHhhcCCCCchhhHHHHHHHHHHhHHHHhc-CCC--eEEE-eehhhhccCCCCCcceEEEe
Confidence 4589999999999999999999999999999999999999999999999 442 4555 55999999999999999999
Q ss_pred cCCCCcchHHHHhhhhhhcCCcccEEEEEEEe-----------------C----CCHHHHHHHHHHHHHHHHHHHHhc
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIV-----------------R----NSIEERILELQDRKKKLAREAFRR 850 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~-----------------~----~siEe~i~~~q~~K~~l~~~~~~~ 850 (869)
--+-....+..|-||..|-+.. -|.|. |+. . =-|++.++...+..-.|+..+-..
T Consensus 539 qVPrtseiYVHRSGRTARA~~~-Gvsvm-l~~P~e~~~~~KL~ktL~k~~dlpifPv~~~~m~~lkeRvrLA~ei~~~ 614 (731)
T KOG0347|consen 539 QVPRTSEIYVHRSGRTARANSE-GVSVM-LCGPQEVGPLKKLCKTLKKKEDLPIFPVETDIMDALKERVRLAREIDKL 614 (731)
T ss_pred ecCCccceeEecccccccccCC-CeEEE-EeChHHhHHHHHHHHHHhhccCCCceeccHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999997642 23221 111 0 124788888888888888766543
No 108
>TIGR00631 uvrb excinuclease ABC, B subunit. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University)
Probab=99.28 E-value=7.6e-09 Score=122.65 Aligned_cols=134 Identities=21% Similarity=0.234 Sum_probs=109.4
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...++..|++.|..... .+.++|||+.....++.|...|...|+++..++|.++..+|.++++.|+.+ .+.|+ +
T Consensus 424 ~~~qi~~Ll~eI~~~~~--~g~~vLIf~~tk~~ae~L~~~L~~~gi~~~~lh~~~~~~eR~~~l~~fr~G---~i~VL-V 497 (655)
T TIGR00631 424 TDGQVDDLLSEIRQRVA--RNERVLVTTLTKKMAEDLTDYLKELGIKVRYLHSEIDTLERVEIIRDLRLG---EFDVL-V 497 (655)
T ss_pred ccchHHHHHHHHHHHHc--CCCEEEEEECCHHHHHHHHHHHhhhccceeeeeCCCCHHHHHHHHHHHhcC---CceEE-E
Confidence 46688899999987653 388999999999999999999999999999999999999999999999883 44555 5
Q ss_pred ecCCccccccccccCEEEEEc-----CCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC--HHHHHHHH
Q 002901 774 SLKASGAGVNLTAASRVFLLE-----PWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS--IEERILEL 836 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~d-----p~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s--iEe~i~~~ 836 (869)
++...+.|+++..++.|+++| .+-+.....|++||+.|.. +-.++-|+...| +...|.+.
T Consensus 498 ~t~~L~rGfDiP~v~lVvi~DadifG~p~~~~~~iqriGRagR~~---~G~vi~~~~~~~~~~~~ai~~~ 564 (655)
T TIGR00631 498 GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNV---NGKVIMYADKITDSMQKAIEET 564 (655)
T ss_pred EcChhcCCeeeCCCcEEEEeCcccccCCCCHHHHHHHhcCCCCCC---CCEEEEEEcCCCHHHHHHHHHH
Confidence 669999999999999999999 4557889999999999973 234555655543 44444443
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=99.27 E-value=3.1e-11 Score=123.65 Aligned_cols=110 Identities=18% Similarity=0.151 Sum_probs=76.8
Q ss_pred cceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCC--Chhhhc-cccEEEEechhhHhhhcccCCCcceeeeeE
Q 002901 349 KKITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQ--DVEELK-MYDLVLTTYSTLAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 349 ~~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~--~~~~l~-~~dVVItTY~~l~~~~~~~~~~l~~~~w~r 424 (869)
...+|||||. .++.||...++.+.....+++..++|+... ....+. +.+|+|+|.+.+........ +.--.+.+
T Consensus 69 ~~~viii~p~~~L~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiv~T~~~l~~~l~~~~--~~~~~l~~ 146 (203)
T cd00268 69 GPQALILAPTRELALQIAEVARKLGKHTNLKVVVIYGGTSIDKQIRKLKRGPHIVVATPGRLLDLLERGK--LDLSKVKY 146 (203)
T ss_pred CceEEEEcCCHHHHHHHHHHHHHHhccCCceEEEEECCCCHHHHHHHhcCCCCEEEEChHHHHHHHHcCC--CChhhCCE
Confidence 3568999998 677999999999886668888889884332 223343 78999999988877654322 22335678
Q ss_pred EEEcCccccCCcC-hHHHHH-Hhhcc-cCeEEEEecccc
Q 002901 425 VILDEAHVIKNAN-AQQSRT-VTNLN-AKRRWVVTGTPI 460 (869)
Q Consensus 425 VIlDEaH~ikn~~-s~~~ka-~~~L~-a~~r~~LTGTPi 460 (869)
+|+||+|.+.+.. ...... +..+. ....+++||||-
T Consensus 147 lIvDE~h~~~~~~~~~~~~~~~~~l~~~~~~~~~SAT~~ 185 (203)
T cd00268 147 LVLDEADRMLDMGFEDQIREILKLLPKDRQTLLFSATMP 185 (203)
T ss_pred EEEeChHHhhccChHHHHHHHHHhCCcccEEEEEeccCC
Confidence 9999999986543 222222 23333 567899999996
No 110
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=99.25 E-value=2.4e-09 Score=126.37 Aligned_cols=117 Identities=17% Similarity=0.159 Sum_probs=99.2
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...|..++++.+.+.. ..+..+|||+......+.|...|.+.|+++..++|.+...+++-+...|+. + . +++
T Consensus 422 ~~~K~~al~~~i~~~~--~~g~pvLI~t~si~~se~ls~~L~~~gi~~~~Lna~~~~~Ea~ii~~ag~~---g--~-VtI 493 (796)
T PRK12906 422 LDSKFNAVVKEIKERH--AKGQPVLVGTVAIESSERLSHLLDEAGIPHAVLNAKNHAKEAEIIMNAGQR---G--A-VTI 493 (796)
T ss_pred HHHHHHHHHHHHHHHH--hCCCCEEEEeCcHHHHHHHHHHHHHCCCCeeEecCCcHHHHHHHHHhcCCC---c--e-EEE
Confidence 3679999999998764 348999999999999999999999999999999999886666666666655 2 4 455
Q ss_pred ecCCcccccccc---ccC-----EEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 774 SLKASGAGVNLT---AAS-----RVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 774 S~~agg~GLNLt---~A~-----~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
+|..+|.|+++. ... +||.++.+-|.-++.|++||++|-|..=..
T Consensus 494 ATnmAGRGtDI~l~~~V~~~GGLhVI~te~pes~ri~~Ql~GRtGRqG~~G~s 546 (796)
T PRK12906 494 ATNMAGRGTDIKLGPGVKELGGLAVIGTERHESRRIDNQLRGRSGRQGDPGSS 546 (796)
T ss_pred EeccccCCCCCCCCcchhhhCCcEEEeeecCCcHHHHHHHhhhhccCCCCcce
Confidence 669999999984 566 999999999999999999999999986543
No 111
>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=99.21 E-value=2.6e-09 Score=111.87 Aligned_cols=154 Identities=21% Similarity=0.302 Sum_probs=115.0
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|.++|.++-.-+ .-..+|||++-..++..|...|...|..+..++|.+...+|.+++++|+.+.. +| |++
T Consensus 315 ~~K~~~l~~lyg~~----tigqsiIFc~tk~ta~~l~~~m~~~Gh~V~~l~G~l~~~~R~~ii~~Fr~g~~---kV-Lit 386 (477)
T KOG0332|consen 315 DDKYQALVNLYGLL----TIGQSIIFCHTKATAMWLYEEMRAEGHQVSLLHGDLTVEQRAAIIDRFREGKE---KV-LIT 386 (477)
T ss_pred hhHHHHHHHHHhhh----hhhheEEEEeehhhHHHHHHHHHhcCceeEEeeccchhHHHHHHHHHHhcCcc---eE-EEE
Confidence 56888888844322 23578999999999999999999999999999999999999999999999533 55 456
Q ss_pred cCCccccccccccCEEEEEcCCC------CcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHHHHHHHHH
Q 002901 775 LKASGAGVNLTAASRVFLLEPWW------NPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKKKLAREAF 848 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~w------np~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~~l~~~~~ 848 (869)
+.+.+.|++....+.||+||.+- .+.+...||||.+|.|.+- .++.|+-.+--=+-|..+|+. |
T Consensus 387 TnV~ARGiDv~qVs~VvNydlP~~~~~~pD~etYlHRiGRtGRFGkkG--~a~n~v~~~~s~~~mn~iq~~--------F 456 (477)
T KOG0332|consen 387 TNVCARGIDVAQVSVVVNYDLPVKYTGEPDYETYLHRIGRTGRFGKKG--LAINLVDDKDSMNIMNKIQKH--------F 456 (477)
T ss_pred echhhcccccceEEEEEecCCccccCCCCCHHHHHHHhcccccccccc--eEEEeecccCcHHHHHHHHHH--------H
Confidence 79999999999999999999874 4678899999999999643 344466543322333344432 3
Q ss_pred hccccccccCCHHHHHHh
Q 002901 849 RRKGKDQREVSTDDLRIL 866 (869)
Q Consensus 849 ~~~~~~~~~~~~~dl~~l 866 (869)
+..-..+....++|++.+
T Consensus 457 ~~~i~~~~~~d~~E~eki 474 (477)
T KOG0332|consen 457 NMKIKRLDPDDLDELEKI 474 (477)
T ss_pred hhcceecCCccHHHHHHH
Confidence 332233333566666553
No 112
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.20 E-value=3.8e-10 Score=132.73 Aligned_cols=124 Identities=23% Similarity=0.261 Sum_probs=108.6
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
.+.|+..|.++|.+... ..|+|||++-..-+|.|.+.|.+.|+...-++|..++.+|...++.|+++ . ..||+
T Consensus 596 e~eKf~kL~eLl~e~~e---~~~tiiFv~~qe~~d~l~~~L~~ag~~~~slHGgv~q~dR~sti~dfK~~---~-~~LLv 668 (997)
T KOG0334|consen 596 ENEKFLKLLELLGERYE---DGKTIIFVDKQEKADALLRDLQKAGYNCDSLHGGVDQHDRSSTIEDFKNG---V-VNLLV 668 (997)
T ss_pred chHHHHHHHHHHHHHhh---cCCEEEEEcCchHHHHHHHHHHhcCcchhhhcCCCchHHHHhHHHHHhcc---C-ceEEE
Confidence 47899999999998753 68999999999999999999999999999999999999999999999993 2 45666
Q ss_pred ecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 774 SLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
.++..+.||+...-..||+||.+---.....|.||..|-|.+- ..|.|+..
T Consensus 669 aTsvvarGLdv~~l~Lvvnyd~pnh~edyvhR~gRTgragrkg--~AvtFi~p 719 (997)
T KOG0334|consen 669 ATSVVARGLDVKELILVVNYDFPNHYEDYVHRVGRTGRAGRKG--AAVTFITP 719 (997)
T ss_pred ehhhhhcccccccceEEEEcccchhHHHHHHHhcccccCCccc--eeEEEeCh
Confidence 7799999999999999999999877777888888888888766 66667766
No 113
>PRK12904 preprotein translocase subunit SecA; Reviewed
Probab=99.20 E-value=3.3e-09 Score=125.69 Aligned_cols=119 Identities=18% Similarity=0.169 Sum_probs=100.7
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..++++.+.+... .+..+|||+......+.|...|...|+++..++|. +.+|++.|..|... + ..|++
T Consensus 411 t~~~K~~aI~~~I~~~~~--~grpVLIft~Si~~se~Ls~~L~~~gi~~~vLnak--q~eREa~Iia~Ag~-~--g~VtI 483 (830)
T PRK12904 411 TEKEKFDAVVEDIKERHK--KGQPVLVGTVSIEKSELLSKLLKKAGIPHNVLNAK--NHEREAEIIAQAGR-P--GAVTI 483 (830)
T ss_pred CHHHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHCCCceEeccCc--hHHHHHHHHHhcCC-C--ceEEE
Confidence 346799999999987543 37899999999999999999999999999999996 68999999999983 2 25555
Q ss_pred EecCCccccccccc--------------------------------------cCEEEEEcCCCCcchHHHHhhhhhhcCC
Q 002901 773 ASLKASGAGVNLTA--------------------------------------ASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814 (869)
Q Consensus 773 ~S~~agg~GLNLt~--------------------------------------A~~Vi~~dp~wnp~~e~QaigRvhRiGQ 814 (869)
+|..+|.|+++.- .=|||.-+.+=|--++.|..||++|-|.
T Consensus 484 -ATNmAGRGtDI~LgGn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~GGLhVigTerhesrRid~QlrGRagRQGd 562 (830)
T PRK12904 484 -ATNMAGRGTDIKLGGNPEMLAAALLEEETEEQIAKIKAEWQEEHEEVLEAGGLHVIGTERHESRRIDNQLRGRSGRQGD 562 (830)
T ss_pred -ecccccCCcCccCCCchhhhhhhhhhhhhhHHHHHHHHHHhhhhhhHHHcCCCEEEecccCchHHHHHHhhcccccCCC
Confidence 5699999998633 4589999999999999999999999998
Q ss_pred cccEE
Q 002901 815 KEDVK 819 (869)
Q Consensus 815 ~k~V~ 819 (869)
.-...
T Consensus 563 pGss~ 567 (830)
T PRK12904 563 PGSSR 567 (830)
T ss_pred CCcee
Confidence 65543
No 114
>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0008026 ATP-dependent helicase activity; PDB: 3RRM_A 3RRN_A 3PEW_A 2KBE_A 3PEY_A 3FHO_A 2ZJA_A 2ZJ8_A 2ZJ5_A 2ZJ2_A ....
Probab=99.20 E-value=7.3e-11 Score=116.97 Aligned_cols=114 Identities=16% Similarity=0.143 Sum_probs=79.7
Q ss_pred ceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCC---Chhhh-ccccEEEEechhhHhhhcccCCCcceeeeeE
Q 002901 350 KITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQ---DVEEL-KMYDLVLTTYSTLAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 350 ~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~---~~~~l-~~~dVVItTY~~l~~~~~~~~~~l~~~~w~r 424 (869)
..+||++|. +++.|-.+++.+++....+++..++|+... ....+ .+.+|+|+|++.+..........+. +..+
T Consensus 45 ~~~lii~P~~~l~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ilv~T~~~l~~~~~~~~~~~~--~~~~ 122 (169)
T PF00270_consen 45 ARVLIIVPTRALAEQQFERLRKFFSNTNVRVVLLHGGQSISEDQREVLSNQADILVTTPEQLLDLISNGKINIS--RLSL 122 (169)
T ss_dssp SEEEEEESSHHHHHHHHHHHHHHTTTTTSSEEEESTTSCHHHHHHHHHHTTSSEEEEEHHHHHHHHHTTSSTGT--TESE
T ss_pred ceEEEEeecccccccccccccccccccccccccccccccccccccccccccccccccCcchhhccccccccccc--ccee
Confidence 368999997 678999999999997667888888884332 22333 4699999999999887754222232 3678
Q ss_pred EEEcCccccCCc-ChHHH-HHHhhc---ccCeEEEEecccccCChhh
Q 002901 425 VILDEAHVIKNA-NAQQS-RTVTNL---NAKRRWVVTGTPIQNGSFD 466 (869)
Q Consensus 425 VIlDEaH~ikn~-~s~~~-ka~~~L---~a~~r~~LTGTPi~N~l~D 466 (869)
||+||+|.+... ..... ..+..+ ...+.+++||||- .++++
T Consensus 123 iViDE~h~l~~~~~~~~~~~i~~~~~~~~~~~~i~~SAT~~-~~~~~ 168 (169)
T PF00270_consen 123 IVIDEAHHLSDETFRAMLKSILRRLKRFKNIQIILLSATLP-SNVEK 168 (169)
T ss_dssp EEEETHHHHHHTTHHHHHHHHHHHSHTTTTSEEEEEESSST-HHHHH
T ss_pred eccCcccccccccHHHHHHHHHHHhcCCCCCcEEEEeeCCC-hhHhh
Confidence 999999998663 22222 223333 3467899999997 55544
No 115
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=99.18 E-value=1.8e-09 Score=126.18 Aligned_cols=135 Identities=16% Similarity=0.164 Sum_probs=86.1
Q ss_pred ccceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhh---HhhhcccCCCcceeeee
Q 002901 348 GKKITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTL---AIEESWLESPVKKIEWW 423 (869)
Q Consensus 348 ~~~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l---~~~~~~~~~~l~~~~w~ 423 (869)
..-.++-|+|. +|...-.+-+.+.+.+-.++|.-+.|+......++.+.||+|||.+.. .+..... ..|. -.-.
T Consensus 163 ~~fKiVYIaPmKALa~Em~~~~~kkl~~~gi~v~ELTGD~ql~~tei~~tqiiVTTPEKwDvvTRk~~~d-~~l~-~~V~ 240 (1230)
T KOG0952|consen 163 DDFKIVYIAPMKALAAEMVDKFSKKLAPLGISVRELTGDTQLTKTEIADTQIIVTTPEKWDVVTRKSVGD-SALF-SLVR 240 (1230)
T ss_pred CCceEEEEechHHHHHHHHHHHhhhcccccceEEEecCcchhhHHHHHhcCEEEecccceeeeeeeeccc-hhhh-hhee
Confidence 34568999998 555555555566664558999999996665566689999999996654 2222111 1121 2345
Q ss_pred EEEEcCccccCCcChHH-----HHHHhhc----ccCeEEEEecccccCChhhhHhhhhhhccCCCCchHHHHHHh
Q 002901 424 RVILDEAHVIKNANAQQ-----SRTVTNL----NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKSYWQSLI 489 (869)
Q Consensus 424 rVIlDEaH~ikn~~s~~-----~ka~~~L----~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~~f~~~~ 489 (869)
+||+||.|.+....... ++..+.. +.-|.++||||- + ++.| +..||+..|+...-.|...|
T Consensus 241 LviIDEVHlLhd~RGpvlEtiVaRtlr~vessqs~IRivgLSATl-P-N~eD---vA~fL~vn~~~glfsFd~~y 310 (1230)
T KOG0952|consen 241 LVIIDEVHLLHDDRGPVLETIVARTLRLVESSQSMIRIVGLSATL-P-NYED---VARFLRVNPYAGLFSFDQRY 310 (1230)
T ss_pred eEEeeeehhhcCcccchHHHHHHHHHHHHHhhhhheEEEEeeccC-C-CHHH---HHHHhcCCCccceeeecccc
Confidence 79999999998765433 3333222 345778999992 1 3444 56788887766555555444
No 116
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=99.17 E-value=1.5e-08 Score=120.11 Aligned_cols=118 Identities=13% Similarity=0.121 Sum_probs=103.9
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
.....|..++++.+.+..+. |..+|||+......+.+...|...|+++..+++.++..+|..+.+.|+.+ . +
T Consensus 429 ~t~~~K~~Aii~ei~~~~~~--GrpVLV~t~sv~~se~ls~~L~~~gi~~~vLnak~~~~Ea~ii~~Ag~~G-----~-V 500 (908)
T PRK13107 429 LTADEKYQAIIKDIKDCRER--GQPVLVGTVSIEQSELLARLMVKEKIPHEVLNAKFHEREAEIVAQAGRTG-----A-V 500 (908)
T ss_pred eCHHHHHHHHHHHHHHHHHc--CCCEEEEeCcHHHHHHHHHHHHHCCCCeEeccCcccHHHHHHHHhCCCCC-----c-E
Confidence 34478999999999988654 89999999999999999999999999999999999999999999999883 3 5
Q ss_pred EEecCCcccccccc-------------------------------------ccCEEEEEcCCCCcchHHHHhhhhhhcCC
Q 002901 772 LASLKASGAGVNLT-------------------------------------AASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814 (869)
Q Consensus 772 L~S~~agg~GLNLt-------------------------------------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ 814 (869)
+++|..+|.|+++. ..=+||.-+.+=|--++.|..||++|-|.
T Consensus 501 tIATnmAGRGTDIkLggn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~~GGL~VIgTerheSrRID~QLrGRaGRQGD 580 (908)
T PRK13107 501 TIATNMAGRGTDIVLGGNWNMEIEALENPTAEQKAKIKADWQIRHDEVVAAGGLHILGTERHESRRIDNQLRGRAGRQGD 580 (908)
T ss_pred EEecCCcCCCcceecCCchHHhhhhhcchhhHHHHHHHHHHHhhHHHHHHcCCCEEEecccCchHHHHhhhhcccccCCC
Confidence 55669999999964 23489999999999999999999999998
Q ss_pred ccc
Q 002901 815 KED 817 (869)
Q Consensus 815 ~k~ 817 (869)
.=.
T Consensus 581 PGs 583 (908)
T PRK13107 581 AGS 583 (908)
T ss_pred CCc
Confidence 644
No 117
>KOG0346 consensus RNA helicase [RNA processing and modification]
Probab=99.17 E-value=8e-10 Score=117.78 Aligned_cols=109 Identities=20% Similarity=0.240 Sum_probs=93.2
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec------------------
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL------------------ 775 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~------------------ 775 (869)
..|+|||.+-.+..-.+.-.|+..||+.+.++|.++...|..+|++||. +...++++|-
T Consensus 268 ~gKsliFVNtIdr~YrLkLfLeqFGiksciLNseLP~NSR~Hii~QFNk---G~YdivIAtD~s~~~~~~eee~kgk~~e 344 (569)
T KOG0346|consen 268 RGKSLIFVNTIDRCYRLKLFLEQFGIKSCILNSELPANSRCHIIEQFNK---GLYDIVIATDDSADGDKLEEEVKGKSDE 344 (569)
T ss_pred cCceEEEEechhhhHHHHHHHHHhCcHhhhhcccccccchhhHHHHhhC---cceeEEEEccCccchhhhhccccccccc
Confidence 3699999999999999999999999999999999999999999999998 4556777664
Q ss_pred ------C-C---------ccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCC
Q 002901 776 ------K-A---------SGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRN 827 (869)
Q Consensus 776 ------~-a---------gg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~ 827 (869)
+ + .+.|+++...+.|+++|.+-++.....|+||..|-|.+- ++.-|+...
T Consensus 345 ~~~kndkkskkK~D~E~GVsRGIDF~~V~~VlNFD~P~t~~sYIHRvGRTaRg~n~G--talSfv~P~ 410 (569)
T KOG0346|consen 345 KNPKNDKKSKKKLDKESGVSRGIDFHHVSNVLNFDFPETVTSYIHRVGRTARGNNKG--TALSFVSPK 410 (569)
T ss_pred cCCCCccccccccCchhchhccccchheeeeeecCCCCchHHHHHhccccccCCCCC--ceEEEecch
Confidence 0 1 247999999999999999999999999999999987654 444566543
No 118
>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA. This model represents HrpA, one of two related but uncharacterized DEAH-box ATP-dependent helicases in many Proteobacteria and a few high-GC Gram-positive bacteria. HrpA is about 1300 amino acids long, while its paralog HrpB, also uncharacterized, is about 800 amino acids long. Related characterized eukarotic proteins are RNA helicases associated with pre-mRNA processing.
Probab=99.16 E-value=3.4e-09 Score=131.43 Aligned_cols=109 Identities=14% Similarity=0.171 Sum_probs=87.3
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcC---CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAG---FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~g---i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
..++|||..-...++.+...|...+ +.+.-++|+++.++|.++++.+. ..+ +|+||..+..||++....+|
T Consensus 279 ~GdILVFLpg~~EI~~l~~~L~~~~~~~~~VlpLhg~Ls~~eQ~~vf~~~~-----~rk-IVLATNIAEtSLTIpgV~yV 352 (1283)
T TIGR01967 279 PGDILIFLPGEREIRDAAEILRKRNLRHTEILPLYARLSNKEQQRVFQPHS-----GRR-IVLATNVAETSLTVPGIHYV 352 (1283)
T ss_pred CCCEEEeCCCHHHHHHHHHHHHhcCCCCcEEEeccCCCCHHHHHHHhCCCC-----Cce-EEEeccHHHhccccCCeeEE
Confidence 4689999999999999999999875 45788999999999998854431 224 56678999999999999999
Q ss_pred EEEcCC------------------CCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHH
Q 002901 791 FLLEPW------------------WNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEE 831 (869)
Q Consensus 791 i~~dp~------------------wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe 831 (869)
|-.+.. -+.+...||.||++|.| +-.+|+|+.+...+.
T Consensus 353 IDsGl~r~~~yd~~~~~~~L~~~~ISkasa~QRaGRAGR~~---~G~cyRLyte~~~~~ 408 (1283)
T TIGR01967 353 IDTGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRVA---PGICIRLYSEEDFNS 408 (1283)
T ss_pred EeCCCccccccccccCccccCCccCCHHHHHHHhhhhCCCC---CceEEEecCHHHHHh
Confidence 987621 23467889999999987 678899998765543
No 119
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=99.15 E-value=1.6e-07 Score=112.35 Aligned_cols=124 Identities=19% Similarity=0.237 Sum_probs=105.0
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...++..|++.|..... .+.++|||+.....++.|...|...|+++..++|.++..+|..+++.|+.+ .+.| |+
T Consensus 428 ~~~q~~~L~~~L~~~~~--~g~~viIf~~t~~~ae~L~~~L~~~gi~~~~~h~~~~~~~R~~~l~~f~~g---~i~v-lV 501 (652)
T PRK05298 428 TKGQVDDLLSEIRKRVA--KGERVLVTTLTKRMAEDLTDYLKELGIKVRYLHSDIDTLERVEIIRDLRLG---EFDV-LV 501 (652)
T ss_pred ccccHHHHHHHHHHHHh--CCCEEEEEeCCHHHHHHHHHHHhhcceeEEEEECCCCHHHHHHHHHHHHcC---CceE-EE
Confidence 35678899999988753 488999999999999999999999999999999999999999999999883 3355 45
Q ss_pred ecCCccccccccccCEEEEEcC-----CCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 774 SLKASGAGVNLTAASRVFLLEP-----WWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~dp-----~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
++...+.|+++..++.||++|. +-++....|++||++|- . .-.++.|+..
T Consensus 502 ~t~~L~rGfdlp~v~lVii~d~eifG~~~~~~~yiqr~GR~gR~-~--~G~~i~~~~~ 556 (652)
T PRK05298 502 GINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN-V--NGKVILYADK 556 (652)
T ss_pred EeCHHhCCccccCCcEEEEeCCcccccCCCHHHHHHHhccccCC-C--CCEEEEEecC
Confidence 6699999999999999999995 45888999999999994 2 3345666653
No 120
>PRK11131 ATP-dependent RNA helicase HrpA; Provisional
Probab=99.15 E-value=3.1e-09 Score=131.30 Aligned_cols=109 Identities=13% Similarity=0.189 Sum_probs=86.4
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCc---EEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFK---LLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASR 789 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~---~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~ 789 (869)
+..++|||......++.+...|...+++ +.-++|++++++|..+++.+ +. +-+|++|..++.||++...++
T Consensus 285 ~~GdILVFLpg~~EIe~lae~L~~~~~~~~~VlpLhg~Ls~~eQ~~Vf~~~-----g~-rkIIVATNIAEtSITIpgI~y 358 (1294)
T PRK11131 285 GPGDILIFMSGEREIRDTADALNKLNLRHTEILPLYARLSNSEQNRVFQSH-----SG-RRIVLATNVAETSLTVPGIKY 358 (1294)
T ss_pred CCCCEEEEcCCHHHHHHHHHHHHhcCCCcceEeecccCCCHHHHHHHhccc-----CC-eeEEEeccHHhhccccCcceE
Confidence 3568999999999999999999998775 56789999999999987653 23 345667799999999999999
Q ss_pred EEEEc---------------CCCCc---chHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 790 VFLLE---------------PWWNP---AVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 790 Vi~~d---------------p~wnp---~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
||.++ .+-.| +...||.||++|. ++=.+|+|+.++..+
T Consensus 359 VID~Gl~k~~~Yd~~~~~~~Lp~~~iSkasa~QRaGRAGR~---~~G~c~rLyte~d~~ 414 (1294)
T PRK11131 359 VIDPGTARISRYSYRTKVQRLPIEPISQASANQRKGRCGRV---SEGICIRLYSEDDFL 414 (1294)
T ss_pred EEECCCccccccccccCcccCCeeecCHhhHhhhccccCCC---CCcEEEEeCCHHHHH
Confidence 99874 23233 5677888888877 467889999876543
No 121
>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=99.07 E-value=1.6e-09 Score=130.71 Aligned_cols=115 Identities=17% Similarity=0.149 Sum_probs=100.4
Q ss_pred HHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcccccc
Q 002901 704 LLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVN 783 (869)
Q Consensus 704 ~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLN 783 (869)
++.......++.-.||||....+.+.+...|...|++..-|+.+|+.++|+.+-..|..+ .++|++++ -|.|-|+|
T Consensus 475 ~~~~~~~~~~~~s~IIYC~sr~~ce~vs~~L~~~~~~a~~YHAGl~~~~R~~Vq~~w~~~---~~~VivAT-VAFGMGId 550 (941)
T KOG0351|consen 475 ILEESKLRHPDQSGIIYCLSRKECEQVSAVLRSLGKSAAFYHAGLPPKERETVQKAWMSD---KIRVIVAT-VAFGMGID 550 (941)
T ss_pred HHHHhhhcCCCCCeEEEeCCcchHHHHHHHHHHhchhhHhhhcCCCHHHHHHHHHHHhcC---CCeEEEEE-eeccCCCC
Confidence 333333446678899999999999999999999999999999999999999999999993 45776655 89999999
Q ss_pred ccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEE
Q 002901 784 LTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVR 822 (869)
Q Consensus 784 Lt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~r 822 (869)
-.+..-||++..+-+---.-|.+||++|.|+...+..|.
T Consensus 551 K~DVR~ViH~~lPks~E~YYQE~GRAGRDG~~s~C~l~y 589 (941)
T KOG0351|consen 551 KPDVRFVIHYSLPKSFEGYYQEAGRAGRDGLPSSCVLLY 589 (941)
T ss_pred CCceeEEEECCCchhHHHHHHhccccCcCCCcceeEEec
Confidence 999999999999999999999999999999987755443
No 122
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=99.04 E-value=1.4e-07 Score=112.45 Aligned_cols=117 Identities=15% Similarity=0.129 Sum_probs=99.1
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..+|++.+.+... .+..+|||++.....+.|...|...||++..+++ .+.+|++.|..|... + ..| +
T Consensus 579 t~~eK~~Ali~~I~~~~~--~grpVLIft~Sve~sE~Ls~~L~~~gI~h~vLna--kq~~REa~Iia~AG~-~--g~V-t 650 (1025)
T PRK12900 579 TRREKYNAIVLKVEELQK--KGQPVLVGTASVEVSETLSRMLRAKRIAHNVLNA--KQHDREAEIVAEAGQ-K--GAV-T 650 (1025)
T ss_pred CHHHHHHHHHHHHHHHhh--CCCCEEEEeCcHHHHHHHHHHHHHcCCCceeecC--CHHHhHHHHHHhcCC-C--CeE-E
Confidence 346799999999987653 3899999999999999999999999999999998 578999999999983 2 255 4
Q ss_pred EecCCccccccccccC--------EEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 773 ASLKASGAGVNLTAAS--------RVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 773 ~S~~agg~GLNLt~A~--------~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
++|..+|.|+++.-.. +||..+.+-+.-++.|++||++|.|..=.
T Consensus 651 IATNMAGRGtDIkl~~~V~~vGGL~VIgterhes~Rid~Ql~GRtGRqGdpGs 703 (1025)
T PRK12900 651 IATNMAGRGTDIKLGEGVRELGGLFILGSERHESRRIDRQLRGRAGRQGDPGE 703 (1025)
T ss_pred EeccCcCCCCCcCCccchhhhCCceeeCCCCCchHHHHHHHhhhhhcCCCCcc
Confidence 5669999999987333 45888999999999999999999998644
No 123
>PRK12899 secA preprotein translocase subunit SecA; Reviewed
Probab=98.96 E-value=1.5e-06 Score=103.44 Aligned_cols=117 Identities=15% Similarity=0.190 Sum_probs=92.4
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..++++.+.+..+. +.-+||-+.....-+.|...|.+.||++..++.... .+-.++|.+--. ++ . +-
T Consensus 549 t~~~k~~ai~~ei~~~~~~--grPvLigt~si~~se~ls~~L~~~gi~h~vLNak~~-~~Ea~iia~AG~--~g--~-VT 620 (970)
T PRK12899 549 TEREKYHAIVAEIASIHRK--GNPILIGTESVEVSEKLSRILRQNRIEHTVLNAKNH-AQEAEIIAGAGK--LG--A-VT 620 (970)
T ss_pred CHHHHHHHHHHHHHHHHhC--CCCEEEEeCcHHHHHHHHHHHHHcCCcceecccchh-hhHHHHHHhcCC--CC--c-EE
Confidence 3468999999999987644 788999999999999999999999999999998733 233345544333 22 3 44
Q ss_pred EecCCccccccccc--------cCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 773 ASLKASGAGVNLTA--------ASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 773 ~S~~agg~GLNLt~--------A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
++|..+|.|-++.- .=+||.-+.+-|..++.|..||++|-|..-.
T Consensus 621 IATNmAGRGTDIkl~~~v~~~GGLhVIgTer~es~Rid~Ql~GRagRQGdpGs 673 (970)
T PRK12899 621 VATNMAGRGTDIKLDEEAVAVGGLYVIGTSRHQSRRIDRQLRGRCARLGDPGA 673 (970)
T ss_pred EeeccccCCcccccCchHHhcCCcEEEeeccCchHHHHHHHhcccccCCCCCc
Confidence 56688899987632 4489999999999999999999999998654
No 124
>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]
Probab=98.95 E-value=3.1e-08 Score=104.93 Aligned_cols=120 Identities=22% Similarity=0.350 Sum_probs=104.6
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
|+..|.++..+ -...+||++...-++.|...|..+|+....++|.|.+.+|..++..|+.+ ..+||+ ++.
T Consensus 252 k~~~l~dl~~~------~~q~~if~nt~r~v~~l~~~L~~~~~~~s~~~~d~~q~~R~~~~~ef~~g---ssrvlI-ttd 321 (397)
T KOG0327|consen 252 KLDTLCDLYRR------VTQAVIFCNTRRKVDNLTDKLRAHGFTVSAIHGDMEQNERDTLMREFRSG---SSRVLI-TTD 321 (397)
T ss_pred cccHHHHHHHh------hhcceEEecchhhHHHHHHHHhhCCceEEEeecccchhhhhHHHHHhhcC---CceEEe-ecc
Confidence 77778877773 35889999999999999999999999999999999999999999999994 336655 558
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
-.+.|++++..+-||.||.+-|......++||.+|.|-+ -.+..++.+++
T Consensus 322 l~argidv~~~slvinydlP~~~~~yihR~gr~gr~grk--g~~in~v~~~d 371 (397)
T KOG0327|consen 322 LLARGIDVQQVSLVVNYDLPARKENYIHRIGRAGRFGRK--GVAINFVTEED 371 (397)
T ss_pred ccccccchhhcceeeeeccccchhhhhhhcccccccCCC--ceeeeeehHhh
Confidence 999999999999999999999999999999999999964 35556666654
No 125
>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]
Probab=98.95 E-value=5.7e-06 Score=91.29 Aligned_cols=141 Identities=22% Similarity=0.250 Sum_probs=114.2
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...-++-|+..+++..+. +++++|-+=-..|+.-|.++|.+.|+++.+++.....-+|.++|...+.+ .+.|| +
T Consensus 428 ~~~QvdDL~~EI~~r~~~--~eRvLVTtLTKkmAEdLT~Yl~e~gikv~YlHSdidTlER~eIirdLR~G---~~DvL-V 501 (663)
T COG0556 428 TKGQVDDLLSEIRKRVAK--NERVLVTTLTKKMAEDLTEYLKELGIKVRYLHSDIDTLERVEIIRDLRLG---EFDVL-V 501 (663)
T ss_pred CCCcHHHHHHHHHHHHhc--CCeEEEEeehHHHHHHHHHHHHhcCceEEeeeccchHHHHHHHHHHHhcC---CccEE-E
Confidence 355677788888776544 79999999999999999999999999999999999999999999999994 44554 4
Q ss_pred ecCCccccccccccCEEEEEcCC-----CCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHHH
Q 002901 774 SLKASGAGVNLTAASRVFLLEPW-----WNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRKK 841 (869)
Q Consensus 774 S~~agg~GLNLt~A~~Vi~~dp~-----wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K~ 841 (869)
-..-.-+||+|+.++-|.++|-. -+-....|-|||+.|--.- .|..|-=.+.+|.++.|-+...+.+
T Consensus 502 GINLLREGLDiPEVsLVAIlDADKeGFLRse~SLIQtIGRAARN~~G-kvIlYAD~iT~sM~~Ai~ET~RRR~ 573 (663)
T COG0556 502 GINLLREGLDLPEVSLVAILDADKEGFLRSERSLIQTIGRAARNVNG-KVILYADKITDSMQKAIDETERRRE 573 (663)
T ss_pred eehhhhccCCCcceeEEEEeecCccccccccchHHHHHHHHhhccCC-eEEEEchhhhHHHHHHHHHHHHHHH
Confidence 57889999999999999999965 4678899999999994332 2555544556777777777665543
No 126
>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1
Probab=98.94 E-value=5.4e-09 Score=109.47 Aligned_cols=238 Identities=18% Similarity=0.232 Sum_probs=149.8
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCC-CCCCcceecCcCCChhHHHHHHHHhccCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPE-PLRGGIFADDMGLGKTLTLLSLIALDKCAGV 277 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~-~~~GgILAD~mGLGKTl~~lali~~~~~~~~ 277 (869)
..|=.-|.+++.+..++.... -|. ...|-+|+|.+|.||-.++.++|..+...+
T Consensus 36 g~LS~~QLEaV~yA~q~h~~~------------------------Lp~~~R~Gf~lGDGtGvGKGR~iAgiI~~n~l~G- 90 (303)
T PF13872_consen 36 GLLSALQLEAVIYACQRHEQI------------------------LPGGSRAGFFLGDGTGVGKGRQIAGIILENWLRG- 90 (303)
T ss_pred ccccHHHHHHHHHHHHHHHhh------------------------cccccCcEEEeccCCCcCccchhHHHHHHHHHcC-
Confidence 468889999999998764411 011 236899999999999999999999876433
Q ss_pred CCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecC
Q 002901 278 APGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCP 357 (869)
Q Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P 357 (869)
+.+++-|-+.
T Consensus 91 ----------------------------------------------------------------------r~r~vwvS~s 100 (303)
T PF13872_consen 91 ----------------------------------------------------------------------RKRAVWVSVS 100 (303)
T ss_pred ----------------------------------------------------------------------CCceEEEECC
Confidence 2344555555
Q ss_pred hhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcc---cCCCcce-eee------eEEEE
Q 002901 358 PSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESW---LESPVKK-IEW------WRVIL 427 (869)
Q Consensus 358 ~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~---~~~~l~~-~~w------~rVIl 427 (869)
..|..-=++.+..-- ...+.+.....-+..+... .+.+|+.+||.+|..+... ..+.|.. +.| .+||+
T Consensus 101 ~dL~~Da~RDl~DIG-~~~i~v~~l~~~~~~~~~~-~~~GvlF~TYs~L~~~~~~~~~~~sRl~ql~~W~g~dfdgvivf 178 (303)
T PF13872_consen 101 NDLKYDAERDLRDIG-ADNIPVHPLNKFKYGDIIR-LKEGVLFSTYSTLISESQSGGKYRSRLDQLVDWCGEDFDGVIVF 178 (303)
T ss_pred hhhhhHHHHHHHHhC-CCcccceechhhccCcCCC-CCCCccchhHHHHHhHHhccCCccchHHHHHHHHhcCCCceEEe
Confidence 566655555555443 2244444443311111111 2567999999999988531 2233332 234 37999
Q ss_pred cCccccCCcCh------HHHHHHhhcc----cCeEEEEecccccCChhhhHhhhhhhccC------CCCchHHHHHHhcc
Q 002901 428 DEAHVIKNANA------QQSRTVTNLN----AKRRWVVTGTPIQNGSFDLFSLMAFLQFE------PFSVKSYWQSLIQR 491 (869)
Q Consensus 428 DEaH~ikn~~s------~~~ka~~~L~----a~~r~~LTGTPi~N~l~DL~sll~fL~~~------~~~~~~~f~~~~~~ 491 (869)
||+|..+|-.+ ++..++..|+ .-|.+-.|||...+ +..| .-.-|.+ ||.+...|...+.+
T Consensus 179 DEcH~akn~~~~~~~~sk~g~avl~LQ~~LP~ARvvY~SATgase-p~Nm---aYm~RLGLWG~gtpf~~~~~f~~a~~~ 254 (303)
T PF13872_consen 179 DECHKAKNLSSGSKKPSKTGIAVLELQNRLPNARVVYASATGASE-PRNM---AYMSRLGLWGPGTPFPDFDDFLEAMEK 254 (303)
T ss_pred ccchhcCCCCccCccccHHHHHHHHHHHhCCCCcEEEecccccCC-Ccee---eeeeeccccCCCCCCCCHHHHHHHHHh
Confidence 99999999654 6777877763 34788899998642 3333 2222333 55666666655543
Q ss_pred ccccCChhhHHHHHHHHh--hhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHH
Q 002901 492 PLAQGNRKGLSRLQVLMS--TISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDE 546 (869)
Q Consensus 492 p~~~~~~~~~~~L~~ll~--~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~ 546 (869)
+.....+.+-.-|+ ...++|.. .+-.....++.+++++++.++|+.
T Consensus 255 ----gGv~amE~vA~dlKa~G~yiaR~L-----Sf~gvef~~~e~~l~~~~~~~Yd~ 302 (303)
T PF13872_consen 255 ----GGVGAMEMVAMDLKARGMYIARQL-----SFEGVEFEIEEVPLTPEQIKMYDA 302 (303)
T ss_pred ----cCchHHHHHHHHHHhcchheeeec-----ccCCceEEEEEecCCHHHHHHhcC
Confidence 34444444433332 45677764 444567889999999999999985
No 127
>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=98.93 E-value=5e-09 Score=111.37 Aligned_cols=114 Identities=18% Similarity=0.192 Sum_probs=101.6
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
..|..+|+.++.+... +...+||..-.....++...|...|+....+.|++.+..|..-+.+|+.. . .-+|++
T Consensus 245 a~K~aaLl~il~~~~~---~~~t~vf~~tk~hve~~~~ll~~~g~~~s~iysslD~~aRk~~~~~F~~~---k-~~~lvv 317 (529)
T KOG0337|consen 245 AEKEAALLSILGGRIK---DKQTIVFVATKHHVEYVRGLLRDFGGEGSDIYSSLDQEARKINGRDFRGR---K-TSILVV 317 (529)
T ss_pred HHHHHHHHHHHhcccc---ccceeEEecccchHHHHHHHHHhcCCCccccccccChHhhhhccccccCC---c-cceEEE
Confidence 5688899988887542 46799999999999999999999999999999999999999999999984 2 235666
Q ss_pred cCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 775 LKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 775 ~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
++.++.|++..--+.||.||.+-.+.....++||+.|-|.+
T Consensus 318 TdvaaRG~diplldnvinyd~p~~~klFvhRVgr~aragrt 358 (529)
T KOG0337|consen 318 TDVAARGLDIPLLDNVINYDFPPDDKLFVHRVGRVARAGRT 358 (529)
T ss_pred ehhhhccCCCccccccccccCCCCCceEEEEecchhhcccc
Confidence 69999999999999999999999999999999999999865
No 128
>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]
Probab=98.90 E-value=4.2e-08 Score=118.92 Aligned_cols=126 Identities=21% Similarity=0.188 Sum_probs=93.4
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCC-CCCCCEEEEEecCCccccccccccCEE
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNP-GPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~-~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
..+.|++|.++-...+-.+...|+..+.+++.+++.+..+.|.+.+++..+- ..+. ..++++|.+..+|+|+. ..+
T Consensus 438 ~~~~kvlvI~NTV~~Aie~Y~~Lk~~~~~v~LlHSRf~~~dR~~ke~~l~~~~~~~~-~~IvVaTQVIEagvDid--fd~ 514 (733)
T COG1203 438 KEGKKVLVIVNTVDRAIELYEKLKEKGPKVLLLHSRFTLKDREEKERELKKLFKQNE-GFIVVATQVIEAGVDID--FDV 514 (733)
T ss_pred ccCCcEEEEEecHHHHHHHHHHHHhcCCCEEEEecccchhhHHHHHHHHHHHHhccC-CeEEEEeeEEEEEeccc--cCe
Confidence 3478999999999999999999999887899999999999999988865421 0112 44677889999999998 334
Q ss_pred EEEcCCCCcchHHHHhhhhhhcC--CcccEEEEEEEeCCCHHHHHHHHHHHHH
Q 002901 791 FLLEPWWNPAVEEQAMDRVHRIG--QKEDVKIVRLIVRNSIEERILELQDRKK 841 (869)
Q Consensus 791 i~~dp~wnp~~e~QaigRvhRiG--Q~k~V~V~rli~~~siEe~i~~~q~~K~ 841 (869)
++-|+. -.....||.|||+|-| ....++|+...-......+.++....+.
T Consensus 515 mITe~a-PidSLIQR~GRv~R~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 566 (733)
T COG1203 515 LITELA-PIDSLIQRAGRVNRHGKKENGKIYVYNDEERGPYLKYSYEKLEKKL 566 (733)
T ss_pred eeecCC-CHHHHHHHHHHHhhcccccCCceeEeecccCCCchhhhhhcchhhh
Confidence 444442 2356789999999999 5556777777766555555554444443
No 129
>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=98.87 E-value=1.2e-07 Score=101.51 Aligned_cols=224 Identities=16% Similarity=0.139 Sum_probs=133.6
Q ss_pred eEEEEEEeCCHHHHHHHHHHHHHHHHHHHHHHhcCCccc---------chHHHHHHHHHHHHhhcccCCCcccc--cccC
Q 002901 528 TIEKYYVELSLEERKLYDELEGKAKGVVQDYINAGSLMR---------NYSTVLSILLRLRQICTNLALCPSDV--RSII 596 (869)
Q Consensus 528 ~~~~v~v~ls~~e~~~Y~~l~~~~~~~~~~~~~~~~~~~---------~~~~il~~llrLRq~c~h~~l~~~~~--~~~~ 596 (869)
.+..+++.|+..|+++|+.+...-...+..+.+...... ....+-..+.+++.+|+||.|+.... +.+.
T Consensus 4 ~~y~lP~pmt~~QKdl~e~iislh~~~il~~~~~~~~~~~i~~~~~~~~~~~~~~~~~nl~~V~~HP~LlvdH~mPk~ll 83 (297)
T PF11496_consen 4 GEYYLPTPMTSFQKDLYEQIISLHYSDILKFCETNDSSESIDSLLDESLVQSMELLIENLRLVANHPSLLVDHYMPKQLL 83 (297)
T ss_dssp SEEEEEE---HHHHHHHHHHHHHTHHHHHHHHHSTTT--HHHH-------HHHHHHHHHHHHHHH-GGGT--TT--S-S-
T ss_pred ceEEEecCccHHHHHHHHHHHHHHHHHHHHHHcccCccccccchhhhhhHHHHHHHHHHHHHhccCccccccccCccccc
Confidence 367889999999999999999888888888876544332 23556777889999999999864321 0000
Q ss_pred CCCCccccCCChHHHHHHHHHHhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccC
Q 002901 597 PSNTIEDVSNNPDLLKKLVEVLQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSS 676 (869)
Q Consensus 597 ~~~~~~~~~~~~e~~~~~~~~l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~ 676 (869)
.. +.
T Consensus 84 ~~----------e~------------------------------------------------------------------ 87 (297)
T PF11496_consen 84 LS----------EP------------------------------------------------------------------ 87 (297)
T ss_dssp ST----------TH------------------------------------------------------------------
T ss_pred cc----------hH------------------------------------------------------------------
Confidence 00 00
Q ss_pred CCCCCCcccccccccccCcchHHHHHHHHHHhhh---cCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHH
Q 002901 677 PPESSDMDIAGKTLKNFTSSKVSALLTLLLQLRD---KKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKR 753 (869)
Q Consensus 677 ~~~~~~~~~~~~~~~~~~s~K~~~L~~~L~~~~~---~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R 753 (869)
.......|+|+..|-++|..+.. ...+.++||.++-..++|+||..|...++.|.|++|.+-..+.
T Consensus 88 -----------~~~~~~tS~KF~~L~~Li~~li~~~~~~~~~~ilIv~~~~k~ldllE~~llGk~~~~kr~sg~~l~~~~ 156 (297)
T PF11496_consen 88 -----------AEWLAYTSGKFQFLNDLIDSLIDRDRREYPLHILIVSRSGKELDLLEGLLLGKKLNYKRYSGESLYDEK 156 (297)
T ss_dssp -----------HHHHHHT-HHHHHHHHHHHHH-----TTSSEEEEEEE-STHHHHHHHHHHTTSSSEEEESSS--S--S-
T ss_pred -----------HHHHHHcCchHHHHHHHHHHHHhhhcccCCceEEEEecCccHHHHHHHHHccCCeeEEecCCCCCcCcc
Confidence 00112469999999998888732 3447899999999999999999999999999999997654443
Q ss_pred HHHH------------HHhCCCCCCCCEEEEEecCCccc----cccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 754 AQVI------------EEFGNPGPGGPTVLLASLKASGA----GVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 754 ~~~i------------~~F~~~~~~~~~VlL~S~~agg~----GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
...- ............|.|+++.-... .++-...+.||-+||.+++....-..-|.+--.+ +.
T Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~ts~~l~~~~~~~~~~~~~d~IIsfD~~~d~~~p~i~~lR~~~~~~-~~ 235 (297)
T PF11496_consen 157 HKVPKNGNTESNSSNNSKKKDKGSLSVWIHLITSDQLYNNKPPLLSNYNFDLIISFDPSFDTSLPSIEQLRTQNRRN-RL 235 (297)
T ss_dssp --S----------------------SEEEEEEESS---TTTS--TT-S-EEEEEE-SST--TTSHHHHHHH--------S
T ss_pred ccCCcccccccccccccccccccccceEEEEecCccccccCCCccccCCcCEEEEecCCCCCCChHHHHHHhhcCCC-CC
Confidence 3222 11111122355777877554433 2334567899999999999876655555543333 78
Q ss_pred EEEEEEEeCCCHHHHHHHHHHH
Q 002901 818 VKIVRLIVRNSIEERILELQDR 839 (869)
Q Consensus 818 V~V~rli~~~siEe~i~~~q~~ 839 (869)
+-|+|++..+|+|--++.....
T Consensus 236 ~PiirLv~~nSiEHi~L~~~~~ 257 (297)
T PF11496_consen 236 CPIIRLVPSNSIEHIELCFPKS 257 (297)
T ss_dssp --EEEEEETTSHHHHHHHHTTT
T ss_pred CcEEEEeeCCCHHHHHHHccCc
Confidence 9999999999999988777663
No 130
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=98.86 E-value=1.4e-07 Score=111.23 Aligned_cols=97 Identities=21% Similarity=0.328 Sum_probs=70.0
Q ss_pred HHHHHHHHHc--CCcEEEEeCCCCHHH--HHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCC---CCc-
Q 002901 728 ILLEEPLQAA--GFKLLRLDGSMNAKK--RAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPW---WNP- 799 (869)
Q Consensus 728 d~l~~~L~~~--gi~~~rldG~~~~~~--R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~---wnp- 799 (869)
..|++.|... +.+++|+|++++..+ =+..++.|.+++. .||+ -|...+.|+|+....-|.++|.+ .+|
T Consensus 494 erieeeL~~~FP~~rv~r~d~Dtt~~k~~~~~~l~~~~~ge~---dILi-GTQmiaKG~~fp~vtLVgvl~aD~~L~~~D 569 (730)
T COG1198 494 ERIEEELKRLFPGARIIRIDSDTTRRKGALEDLLDQFANGEA---DILI-GTQMIAKGHDFPNVTLVGVLDADTGLGSPD 569 (730)
T ss_pred HHHHHHHHHHCCCCcEEEEccccccchhhHHHHHHHHhCCCC---Ceee-cchhhhcCCCcccceEEEEEechhhhcCCC
Confidence 4455556553 778899999876644 4578999999543 5555 55999999999999988877654 222
Q ss_pred --------chHHHHhhhhhhcCCcccEEEEEEEeCCC
Q 002901 800 --------AVEEQAMDRVHRIGQKEDVKIVRLIVRNS 828 (869)
Q Consensus 800 --------~~e~QaigRvhRiGQ~k~V~V~rli~~~s 828 (869)
....|..||++|-+-.-.|.+-.+-..+.
T Consensus 570 fRA~Er~fqll~QvaGRAgR~~~~G~VvIQT~~P~hp 606 (730)
T COG1198 570 FRASERTFQLLMQVAGRAGRAGKPGEVVIQTYNPDHP 606 (730)
T ss_pred cchHHHHHHHHHHHHhhhccCCCCCeEEEEeCCCCcH
Confidence 45679999999987666677666665543
No 131
>PRK12326 preprotein translocase subunit SecA; Reviewed
Probab=98.81 E-value=1.2e-06 Score=101.85 Aligned_cols=118 Identities=19% Similarity=0.238 Sum_probs=94.1
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....|..++++.+.+..+ .+.-|||.+......+.|...|.+.||++..++.... .+-.++|.+--. ++ . +-
T Consensus 408 t~~~k~~Aii~ei~~~~~--~GrPVLVgt~sI~~SE~ls~~L~~~gI~h~vLNAk~~-~~EA~IIa~AG~--~g--a-VT 479 (764)
T PRK12326 408 TAAEKNDAIVEHIAEVHE--TGQPVLVGTHDVAESEELAERLRAAGVPAVVLNAKND-AEEARIIAEAGK--YG--A-VT 479 (764)
T ss_pred CHHHHHHHHHHHHHHHHH--cCCCEEEEeCCHHHHHHHHHHHHhCCCcceeeccCch-HhHHHHHHhcCC--CC--c-EE
Confidence 346799999999988764 4899999999999999999999999999999998744 333555554433 22 3 44
Q ss_pred EecCCcccccccc---------------ccCEEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 773 ASLKASGAGVNLT---------------AASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 773 ~S~~agg~GLNLt---------------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
++|..+|.|-++. ..=|||.-+.+=|--++.|..||++|-|+.=..
T Consensus 480 IATNMAGRGTDIkLg~~~~~~~~~V~~~GGLhVIgTerheSrRID~QLrGRaGRQGDpGss 540 (764)
T PRK12326 480 VSTQMAGRGTDIRLGGSDEADRDRVAELGGLHVIGTGRHRSERLDNQLRGRAGRQGDPGSS 540 (764)
T ss_pred EEecCCCCccCeecCCCcccchHHHHHcCCcEEEeccCCchHHHHHHHhcccccCCCCCce
Confidence 5668899998764 234899999999999999999999999986543
No 132
>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]
Probab=98.80 E-value=2.6e-07 Score=96.64 Aligned_cols=89 Identities=13% Similarity=0.113 Sum_probs=77.3
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFL 792 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~ 792 (869)
.|..-|||+-...-.+.+..+|+.+||...-++..+.+.+|..+-..+-. +.+.|++.+ -|.|.|++-+....||+
T Consensus 316 ~gqsgiiyc~sq~d~ekva~alkn~gi~a~~yha~lep~dks~~hq~w~a---~eiqvivat-vafgmgidkpdvrfvih 391 (695)
T KOG0353|consen 316 AGQSGIIYCFSQKDCEKVAKALKNHGIHAGAYHANLEPEDKSGAHQGWIA---GEIQVIVAT-VAFGMGIDKPDVRFVIH 391 (695)
T ss_pred CCCcceEEEeccccHHHHHHHHHhcCccccccccccCccccccccccccc---cceEEEEEE-eeecccCCCCCeeEEEe
Confidence 36667888888888899999999999999999999999999998888877 466887766 88999999999999999
Q ss_pred EcCCCCcchHHHH
Q 002901 793 LEPWWNPAVEEQA 805 (869)
Q Consensus 793 ~dp~wnp~~e~Qa 805 (869)
-..+-+-...-||
T Consensus 392 hsl~ksienyyqa 404 (695)
T KOG0353|consen 392 HSLPKSIENYYQA 404 (695)
T ss_pred cccchhHHHHHHH
Confidence 9998888777783
No 133
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=98.78 E-value=2.6e-07 Score=109.89 Aligned_cols=122 Identities=16% Similarity=0.200 Sum_probs=80.6
Q ss_pred cceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechh---hHhhhcccCCCcceeeeeE
Q 002901 349 KKITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYST---LAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 349 ~~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~---l~~~~~~~~~~l~~~~w~r 424 (869)
.....-|+|. +|+..|...|.++..+-.++|.-..|+......++....|++||.+- +.+.... .-..--+.+
T Consensus 364 ~fKIVYIAPmKaLvqE~VgsfSkRla~~GI~V~ElTgD~~l~~~qieeTqVIV~TPEK~DiITRk~gd---raY~qlvrL 440 (1674)
T KOG0951|consen 364 PFKIVYIAPMKALVQEMVGSFSKRLAPLGITVLELTGDSQLGKEQIEETQVIVTTPEKWDIITRKSGD---RAYEQLVRL 440 (1674)
T ss_pred cceEEEEeeHHHHHHHHHHHHHhhccccCcEEEEecccccchhhhhhcceeEEeccchhhhhhcccCc---hhHHHHHHH
Confidence 3457788897 78899999999999777899999999776677788888899998544 3333110 001112356
Q ss_pred EEEcCcccc---CCcC--hHHHHHHhhc----ccCeEEEEecccccCChhhhHhhhhhhccCC
Q 002901 425 VILDEAHVI---KNAN--AQQSRTVTNL----NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEP 478 (869)
Q Consensus 425 VIlDEaH~i---kn~~--s~~~ka~~~L----~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~ 478 (869)
+|+||.|.+ |.+. |-..+..++. ...+-.+||||-- +..|..+ ||+..+
T Consensus 441 lIIDEIHLLhDdRGpvLESIVaRt~r~ses~~e~~RlVGLSATLP--Ny~DV~~---Fl~v~~ 498 (1674)
T KOG0951|consen 441 LIIDEIHLLHDDRGPVLESIVARTFRRSESTEEGSRLVGLSATLP--NYEDVAS---FLRVDP 498 (1674)
T ss_pred HhhhhhhhcccccchHHHHHHHHHHHHhhhcccCceeeeecccCC--chhhhHH---HhccCc
Confidence 899999999 4432 2222333333 3467789999931 4566655 555544
No 134
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=98.73 E-value=5.4e-06 Score=86.67 Aligned_cols=118 Identities=17% Similarity=0.163 Sum_probs=86.3
Q ss_pred HHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CC-cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCC
Q 002901 700 ALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GF-KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKA 777 (869)
Q Consensus 700 ~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi-~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~a 777 (869)
+|...|++.. ..+.-++||..-..++..+...|+.. +. ..+.++.. ...|.+-+++|+++ . .-+|+++..
T Consensus 293 kl~~~lekq~--~~~~P~liF~p~I~~~eq~a~~lk~~~~~~~i~~Vhs~--d~~R~EkV~~fR~G---~-~~lLiTTTI 364 (441)
T COG4098 293 KLKRWLEKQR--KTGRPVLIFFPEIETMEQVAAALKKKLPKETIASVHSE--DQHRKEKVEAFRDG---K-ITLLITTTI 364 (441)
T ss_pred HHHHHHHHHH--hcCCcEEEEecchHHHHHHHHHHHhhCCccceeeeecc--CccHHHHHHHHHcC---c-eEEEEEeeh
Confidence 4455665544 33788999999999999999999553 22 22344443 26799999999994 3 446778899
Q ss_pred ccccccccccCEEEEEcCC--CCcchHHHHhhhhhhcCCcc--cEEEEEEEe
Q 002901 778 SGAGVNLTAASRVFLLEPW--WNPAVEEQAMDRVHRIGQKE--DVKIVRLIV 825 (869)
Q Consensus 778 gg~GLNLt~A~~Vi~~dp~--wnp~~e~QaigRvhRiGQ~k--~V~V~rli~ 825 (869)
...|+.....+..++=.-. ++.+...|.-||++|-=..- +|..+++=.
T Consensus 365 LERGVTfp~vdV~Vlgaeh~vfTesaLVQIaGRvGRs~~~PtGdv~FFH~G~ 416 (441)
T COG4098 365 LERGVTFPNVDVFVLGAEHRVFTESALVQIAGRVGRSLERPTGDVLFFHYGK 416 (441)
T ss_pred hhcccccccceEEEecCCcccccHHHHHHHhhhccCCCcCCCCcEEEEeccc
Confidence 9999999999988875544 89999999999999955432 355555433
No 135
>TIGR00596 rad1 DNA repair protein (rad1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford Universit
Probab=98.70 E-value=7.2e-07 Score=107.39 Aligned_cols=138 Identities=8% Similarity=-0.035 Sum_probs=83.6
Q ss_pred hccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhc----ccCeEEEEecccccC--Chhh
Q 002901 393 LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNL----NAKRRWVVTGTPIQN--GSFD 466 (869)
Q Consensus 393 l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L----~a~~r~~LTGTPi~N--~l~D 466 (869)
+.+..|++.|-..+.+|.-. ..+.--....||+||||++.+..+-.+ .+... +.....++|+.|-.. +..-
T Consensus 5 y~~ggi~~~T~rIl~~DlL~--~ri~~~~itgiiv~~Ahr~~~~~~eaF-I~rlyr~~n~~gfIkafSdsP~~~~~g~~~ 81 (814)
T TIGR00596 5 YLEGGIFSITSRILVVDLLT--GIIPPELITGILVLRADRIIESSQEAF-ILRLYRQKNKTGFIKAFSDNPEAFTMGFSP 81 (814)
T ss_pred hhcCCEEEEechhhHhHHhc--CCCCHHHccEEEEeecccccccccHHH-HHHHHHHhCCCcceEEecCCCcccccchHH
Confidence 45678999999999999832 334444566799999999965443333 22222 345688999999542 3344
Q ss_pred hHhhhhhhccCCCCchHHHHHHhccccccCChhhHHHHHHHHhhhhhhccCCCCCcCCCCceEEEEEEeCCHHHHHHHHH
Q 002901 467 LFSLMAFLQFEPFSVKSYWQSLIQRPLAQGNRKGLSRLQVLMSTISLRRTKDKGLIGLQPKTIEKYYVELSLEERKLYDE 546 (869)
Q Consensus 467 L~sll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~ll~~~~lRRtk~~~~~~LP~k~~~~v~v~ls~~e~~~Y~~ 546 (869)
+-..++-|.+.-..-+..|...+... + +=-+..+..+.++|++.-+++...
T Consensus 82 l~~vmk~L~i~~v~l~prf~~~V~~~-------------------l----------~~~~~~V~ei~V~l~~~m~~Iq~~ 132 (814)
T TIGR00596 82 LETKMRNLFLRHVYLWPRFHVEVASS-------------------L----------EKHKAEVIELHVSLTDSMSQIQSA 132 (814)
T ss_pred HHHHHHHhCcCeEEEeCCCchHHHHH-------------------h----------ccCCCeEEEEEeCCCHHHHHHHHH
Confidence 44555544443222222222222111 0 001245777899999999998888
Q ss_pred HHHHHHHHHHHHHhcC
Q 002901 547 LEGKAKGVVQDYINAG 562 (869)
Q Consensus 547 l~~~~~~~~~~~~~~~ 562 (869)
+..-....+..+...+
T Consensus 133 l~~~l~~~l~eLkr~n 148 (814)
T TIGR00596 133 ILECLNKCIAELKRKN 148 (814)
T ss_pred HHHHHHHHHHHHHHhC
Confidence 8777666666655443
No 136
>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]
Probab=98.70 E-value=8.3e-07 Score=100.88 Aligned_cols=74 Identities=27% Similarity=0.344 Sum_probs=57.7
Q ss_pred EEEEEecCCccccccccccCEE--------EEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHHHHHH
Q 002901 769 TVLLASLKASGAGVNLTAASRV--------FLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILELQDRK 840 (869)
Q Consensus 769 ~VlL~S~~agg~GLNLt~A~~V--------i~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~q~~K 840 (869)
.|-++| .|++-|+.|+.-.|| |-++++|+...-+|-.||.||-.|-.--..+.+|.+=-=|.|.-.+..++
T Consensus 859 ~vAIIS-EAaSSGiSLQsDrRv~NqRRRvHiTLELPWSADrAIQQFGRTHRSNQVsaPEYvFlIseLAGErRFAS~VAKR 937 (1300)
T KOG1513|consen 859 LVAIIS-EAASSGISLQSDRRVQNQRRRVHITLELPWSADRAIQQFGRTHRSNQVSAPEYVFLISELAGERRFASIVAKR 937 (1300)
T ss_pred eeeeee-hhhccCceeecchhhhhhhheEEEEEECCcchhHHHHHhcccccccccCCCeEEEEehhhccchHHHHHHHHH
Confidence 677888 899999999985544 45899999999999999999999987766666776655566666666555
Q ss_pred HHH
Q 002901 841 KKL 843 (869)
Q Consensus 841 ~~l 843 (869)
.+-
T Consensus 938 LES 940 (1300)
T KOG1513|consen 938 LES 940 (1300)
T ss_pred HHh
Confidence 433
No 137
>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]
Probab=98.62 E-value=9.5e-07 Score=94.27 Aligned_cols=100 Identities=23% Similarity=0.256 Sum_probs=88.1
Q ss_pred EEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCC
Q 002901 717 SVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPW 796 (869)
Q Consensus 717 ~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~ 796 (869)
-|||+.-+...+.+...|...||+..-++.+...++|.++-+.+-++ .+.|+.. +-+.|.|++=....-||+.+++
T Consensus 258 GIVYCRTR~~cEq~AI~l~~~Gi~A~AYHAGLK~~ERTeVQe~WM~~---~~PvI~A-T~SFGMGVDKp~VRFViHW~~~ 333 (641)
T KOG0352|consen 258 GIVYCRTRNECEQVAIMLEIAGIPAMAYHAGLKKKERTEVQEKWMNN---EIPVIAA-TVSFGMGVDKPDVRFVIHWSPS 333 (641)
T ss_pred eEEEeccHHHHHHHHHHhhhcCcchHHHhcccccchhHHHHHHHhcC---CCCEEEE-EeccccccCCcceeEEEecCch
Confidence 48999999999999999999999999999999999999999999884 3356555 4888999999999999999999
Q ss_pred CCcchHHHHhhhhhhcCCcccEEE
Q 002901 797 WNPAVEEQAMDRVHRIGQKEDVKI 820 (869)
Q Consensus 797 wnp~~e~QaigRvhRiGQ~k~V~V 820 (869)
-|-+-.-|--||++|-|-..=+..
T Consensus 334 qn~AgYYQESGRAGRDGk~SyCRL 357 (641)
T KOG0352|consen 334 QNLAGYYQESGRAGRDGKRSYCRL 357 (641)
T ss_pred hhhHHHHHhccccccCCCccceee
Confidence 999999999999999996544443
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=98.62 E-value=2.9e-05 Score=96.41 Aligned_cols=113 Identities=19% Similarity=0.314 Sum_probs=77.9
Q ss_pred HHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH----cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 699 SALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA----AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 699 ~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~----~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
+++.+.|.++.... +.++|||.....+++.+...|.. .++.. +..+.. ..|.+++++|++++. .|||.
T Consensus 660 ~~ia~~i~~l~~~~-~g~~LVlftS~~~l~~v~~~L~~~~~~~~~~~--l~q~~~-~~r~~ll~~F~~~~~---~iLlg- 731 (850)
T TIGR01407 660 QEIASYIIEITAIT-SPKILVLFTSYEMLHMVYDMLNELPEFEGYEV--LAQGIN-GSRAKIKKRFNNGEK---AILLG- 731 (850)
T ss_pred HHHHHHHHHHHHhc-CCCEEEEeCCHHHHHHHHHHHhhhccccCceE--EecCCC-ccHHHHHHHHHhCCC---eEEEE-
Confidence 45566665554333 45899999999999999999875 34443 333333 579999999998422 56664
Q ss_pred cCCccccccccccC--EEEEEcCCC-Cc-----------------------------chHHHHhhhhhhcCCcccEE
Q 002901 775 LKASGAGVNLTAAS--RVFLLEPWW-NP-----------------------------AVEEQAMDRVHRIGQKEDVK 819 (869)
Q Consensus 775 ~~agg~GLNLt~A~--~Vi~~dp~w-np-----------------------------~~e~QaigRvhRiGQ~k~V~ 819 (869)
+...++|+++..-+ .||+.-.|+ || ....|++||+.|-.+.+-|.
T Consensus 732 t~sf~EGVD~~g~~l~~viI~~LPf~~p~dp~~~a~~~~~~~~g~~~f~~~~lP~A~~~l~Qa~GRlIRs~~D~G~v 808 (850)
T TIGR01407 732 TSSFWEGVDFPGNGLVCLVIPRLPFANPKHPLTKKYWQKLEQEGKNPFYDYVLPMAIIRLRQALGRLIRRENDRGSI 808 (850)
T ss_pred cceeecccccCCCceEEEEEeCCCCCCCCCHHHHHHHHHHHHhcCCchHHhhHHHHHHHHHHhhccccccCCceEEE
Confidence 59999999997644 566665443 22 22459999999988877653
No 139
>PRK13103 secA preprotein translocase subunit SecA; Reviewed
Probab=98.55 E-value=2e-05 Score=94.05 Aligned_cols=119 Identities=18% Similarity=0.198 Sum_probs=93.3
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
.....|..++++.+.+..+. |.-|||-+......+.|...|...||++-.++.... .+-.+++.+= +.++ . +
T Consensus 429 ~t~~eK~~Ai~~ei~~~~~~--GrPVLVGT~SVe~SE~ls~~L~~~gi~h~VLNAk~~-~~EA~IIa~A--G~~G--a-V 500 (913)
T PRK13103 429 LTAEEKYAAIITDIKECMAL--GRPVLVGTATIETSEHMSNLLKKEGIEHKVLNAKYH-EKEAEIIAQA--GRPG--A-L 500 (913)
T ss_pred cCHHHHHHHHHHHHHHHHhC--CCCEEEEeCCHHHHHHHHHHHHHcCCcHHHhccccc-hhHHHHHHcC--CCCC--c-E
Confidence 34478999999999987644 899999999999999999999999999988887643 3333444432 2233 3 4
Q ss_pred EEecCCcccccccc-------------------------------------ccCEEEEEcCCCCcchHHHHhhhhhhcCC
Q 002901 772 LASLKASGAGVNLT-------------------------------------AASRVFLLEPWWNPAVEEQAMDRVHRIGQ 814 (869)
Q Consensus 772 L~S~~agg~GLNLt-------------------------------------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ 814 (869)
-++|..+|.|-++. ..=+||.-+.+=|--++.|..||++|-|.
T Consensus 501 TIATNMAGRGTDIkLg~n~~~~~~~~~~~~~~~~~~~~~~~~~~~e~V~e~GGLhVIgTerheSrRID~QLrGRaGRQGD 580 (913)
T PRK13103 501 TIATNMAGRGTDILLGGNWEVEVAALENPTPEQIAQIKADWQKRHQQVIEAGGLHVIASERHESRRIDNQLRGRAGRQGD 580 (913)
T ss_pred EEeccCCCCCCCEecCCchHHHHHhhhhhhHHHHHHHHHHHHhHHHHHHHcCCCEEEeeccCchHHHHHHhccccccCCC
Confidence 45668899998764 34489999999999999999999999998
Q ss_pred cccE
Q 002901 815 KEDV 818 (869)
Q Consensus 815 ~k~V 818 (869)
.-..
T Consensus 581 PGsS 584 (913)
T PRK13103 581 PGSS 584 (913)
T ss_pred CCce
Confidence 6543
No 140
>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]
Probab=98.48 E-value=1.7e-06 Score=92.33 Aligned_cols=95 Identities=17% Similarity=0.237 Sum_probs=83.6
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcC---CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAG---FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASR 789 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~g---i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~ 789 (869)
.-.|.|||+.-..-.|-|++.+.+.| +..+.++|.-.+.+|.+.+++|+..+ ++ ||+.+++++.||+++..-.
T Consensus 504 ~mdkaiifcrtk~dcDnLer~~~qkgg~~~scvclhgDrkP~Erk~nle~Fkk~d---vk-flictdvaargldi~g~p~ 579 (725)
T KOG0349|consen 504 AMDKAIIFCRTKQDCDNLERMMNQKGGKHYSCVCLHGDRKPDERKANLESFKKFD---VK-FLICTDVAARGLDITGLPF 579 (725)
T ss_pred ccCceEEEEeccccchHHHHHHHHcCCccceeEEEecCCChhHHHHHHHhhhhcC---eE-EEEEehhhhccccccCCce
Confidence 36799999999999999999998863 67889999999999999999999842 24 5666699999999999999
Q ss_pred EEEEcCCCCcchHHHHhhhhhh
Q 002901 790 VFLLEPWWNPAVEEQAMDRVHR 811 (869)
Q Consensus 790 Vi~~dp~wnp~~e~QaigRvhR 811 (869)
+|.+..+-.......+|||++|
T Consensus 580 ~invtlpd~k~nyvhrigrvgr 601 (725)
T KOG0349|consen 580 MINVTLPDDKTNYVHRIGRVGR 601 (725)
T ss_pred EEEEecCcccchhhhhhhccch
Confidence 9999999999999999988876
No 141
>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]
Probab=98.45 E-value=2.8e-05 Score=96.56 Aligned_cols=145 Identities=21% Similarity=0.132 Sum_probs=92.2
Q ss_pred CCCCcceecCcCCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccc
Q 002901 247 PLRGGIFADDMGLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNT 326 (869)
Q Consensus 247 ~~~GgILAD~mGLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 326 (869)
..+||++-+-.|+|||++++-+........
T Consensus 272 ~~~~G~IWHtqGSGKTlTm~~~A~~l~~~~-------------------------------------------------- 301 (962)
T COG0610 272 DGKGGYIWHTQGSGKTLTMFKLARLLLELP-------------------------------------------------- 301 (962)
T ss_pred cCCceEEEeecCCchHHHHHHHHHHHHhcc--------------------------------------------------
Confidence 347999999999999999987776654211
Q ss_pred cccccccCcccccccCCccccccceEEEecChhH-HHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhc--cccEEEEec
Q 002901 327 KMDDNVKGKSVGMLNKSSSFMGKKITLIVCPPSV-FSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELK--MYDLVLTTY 403 (869)
Q Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~sl-l~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~--~~dVVItTY 403 (869)
....+++|+--.- -.|-.++|..+... ..... -..+.....+.|. .-.||+||-
T Consensus 302 ---------------------~~~~v~fvvDR~dLd~Q~~~~f~~~~~~-~~~~~-~~~s~~~Lk~~l~~~~~~ii~TTI 358 (962)
T COG0610 302 ---------------------KNPKVLFVVDRKDLDDQTSDEFQSFGKV-AFNDP-KAESTSELKELLEDGKGKIIVTTI 358 (962)
T ss_pred ---------------------CCCeEEEEechHHHHHHHHHHHHHHHHh-hhhcc-cccCHHHHHHHHhcCCCcEEEEEe
Confidence 2345788887754 48999999988621 11111 0012222222333 247999999
Q ss_pred hhhHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhh-cccCeEEEEecccccCChhh
Q 002901 404 STLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTN-LNAKRRWVVTGTPIQNGSFD 466 (869)
Q Consensus 404 ~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~-L~a~~r~~LTGTPi~N~l~D 466 (869)
+.+.............-+...||+||||+-- .....+.+.. +..-.-++.|||||...-.+
T Consensus 359 QKf~~~~~~~~~~~~~~~~ivvI~DEaHRSQ--~G~~~~~~~~~~~~a~~~gFTGTPi~~~d~~ 420 (962)
T COG0610 359 QKFNKAVKEDELELLKRKNVVVIIDEAHRSQ--YGELAKLLKKALKKAIFIGFTGTPIFKEDKD 420 (962)
T ss_pred cccchhhhcccccccCCCcEEEEEechhhcc--ccHHHHHHHHHhccceEEEeeCCcccccccc
Confidence 9998776432122245567789999999742 2333333333 34567789999999865444
No 142
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=98.42 E-value=2.7e-05 Score=92.11 Aligned_cols=88 Identities=16% Similarity=0.234 Sum_probs=68.1
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEecc---HHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQF---RKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~---~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
.=+..++++++++ |.-.|||.+- ...++.|...|+.+||+..-+... +.+.++.|..+ .+.||+
T Consensus 322 ~~~e~~~elvk~l-----G~GgLIfV~~d~G~e~aeel~e~Lr~~Gi~a~~~~a~-----~~~~le~F~~G---eidvLV 388 (1187)
T COG1110 322 ESLEKVVELVKKL-----GDGGLIFVPIDYGREKAEELAEYLRSHGINAELIHAE-----KEEALEDFEEG---EVDVLV 388 (1187)
T ss_pred ccHHHHHHHHHHh-----CCCeEEEEEcHHhHHHHHHHHHHHHhcCceEEEeecc-----chhhhhhhccC---ceeEEE
Confidence 3355666777765 5678999998 888999999999999998877663 36789999994 457777
Q ss_pred Eec---CCccccccc-cccCEEEEEcCC
Q 002901 773 ASL---KASGAGVNL-TAASRVFLLEPW 796 (869)
Q Consensus 773 ~S~---~agg~GLNL-t~A~~Vi~~dp~ 796 (869)
... .+.-.||+| ....++||+..|
T Consensus 389 GvAsyYG~lVRGlDLP~rirYaIF~GvP 416 (1187)
T COG1110 389 GVASYYGVLVRGLDLPHRIRYAVFYGVP 416 (1187)
T ss_pred EecccccceeecCCchhheeEEEEecCC
Confidence 543 344569999 568889999987
No 143
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=98.34 E-value=4.8e-07 Score=88.31 Aligned_cols=61 Identities=34% Similarity=0.810 Sum_probs=50.7
Q ss_pred HhcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhc---------------cCCCCCCCCCCccCCCcccCCC
Q 002901 618 LQDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQH---------------TKPCCPLCRHPLLQSDLFSSPP 678 (869)
Q Consensus 618 l~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~---------------~~~~cp~c~~~~~~~~~~~~~~ 678 (869)
+..+++.+|+||.+...++++|.|+|.||..|+..++.. ....||+|+..+...+++....
T Consensus 13 ~~~~~~~~CpICld~~~dPVvT~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvPiyg 88 (193)
T PLN03208 13 VDSGGDFDCNICLDQVRDPVVTLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVPIYG 88 (193)
T ss_pred ccCCCccCCccCCCcCCCcEEcCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEEeec
Confidence 345677899999999999999999999999999987642 2368999999999887765543
No 144
>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]
Probab=98.34 E-value=2.6e-05 Score=94.56 Aligned_cols=156 Identities=21% Similarity=0.174 Sum_probs=106.2
Q ss_pred CCcccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 192 PPKEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 192 ~~~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
+|...+..+|-|+|++|++-+-+. .+-+++-.+|.|||+.+-..|..
T Consensus 111 ~~~~~~~F~LD~fQ~~a~~~Ler~---------------------------------esVlV~ApTssGKTvVaeyAi~~ 157 (1041)
T COG4581 111 PPAREYPFELDPFQQEAIAILERG---------------------------------ESVLVCAPTSSGKTVVAEYAIAL 157 (1041)
T ss_pred cHHHhCCCCcCHHHHHHHHHHhCC---------------------------------CcEEEEccCCCCcchHHHHHHHH
Confidence 333456679999999999988653 36899999999999998877766
Q ss_pred ccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccce
Q 002901 272 DKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKI 351 (869)
Q Consensus 272 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (869)
....+ ..
T Consensus 158 al~~~-------------------------------------------------------------------------qr 164 (1041)
T COG4581 158 ALRDG-------------------------------------------------------------------------QR 164 (1041)
T ss_pred HHHcC-------------------------------------------------------------------------Cc
Confidence 54222 23
Q ss_pred EEEecChh-HHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCc
Q 002901 352 TLIVCPPS-VFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEA 430 (869)
Q Consensus 352 tLIV~P~s-ll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEa 430 (869)
+.-..|.- |..|=..+|...+..-.-.+-++.|+-.-+ .++.++++|-+.|++-.......+..+.| ||+||.
T Consensus 165 viYTsPIKALsNQKyrdl~~~fgdv~~~vGL~TGDv~IN----~~A~clvMTTEILRnMlyrg~~~~~~i~~--ViFDEv 238 (1041)
T COG4581 165 VIYTSPIKALSNQKYRDLLAKFGDVADMVGLMTGDVSIN----PDAPCLVMTTEILRNMLYRGSESLRDIEW--VVFDEV 238 (1041)
T ss_pred eEeccchhhhhhhHHHHHHHHhhhhhhhccceecceeeC----CCCceEEeeHHHHHHHhccCcccccccce--EEEEee
Confidence 78888874 456666777766621122345666633322 35667777779998877554456677777 999999
Q ss_pred cccCCcC--hHHHHHHhhc-ccCeEEEEeccc
Q 002901 431 HVIKNAN--AQQSRTVTNL-NAKRRWVVTGTP 459 (869)
Q Consensus 431 H~ikn~~--s~~~ka~~~L-~a~~r~~LTGTP 459 (869)
|.|+... .-.-..+..+ .+-+-++||||=
T Consensus 239 Hyi~D~eRG~VWEE~Ii~lP~~v~~v~LSATv 270 (1041)
T COG4581 239 HYIGDRERGVVWEEVIILLPDHVRFVFLSATV 270 (1041)
T ss_pred eeccccccchhHHHHHHhcCCCCcEEEEeCCC
Confidence 9997643 3333334444 344789999993
No 145
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.29 E-value=3.7e-07 Score=90.51 Aligned_cols=60 Identities=32% Similarity=0.759 Sum_probs=53.0
Q ss_pred hcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhcc--CCCCCCCCCCccCCCcccCCC
Q 002901 619 QDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLLQSDLFSSPP 678 (869)
Q Consensus 619 ~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~~~~~~~~~~ 678 (869)
.++..++|.||++...+||+|.|+|.||..||.++++.. ...||+|...+....++.+-.
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCGHLFCWpClyqWl~~~~~~~~cPVCK~~Vs~~~vvPlYG 104 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCGHLFCWPCLYQWLQTRPNSKECPVCKAEVSIDTVVPLYG 104 (230)
T ss_pred CCCCceeeeeeccccCCCEEeecccceehHHHHHHHhhcCCCeeCCccccccccceEEeeec
Confidence 457789999999999999999999999999999999877 457899999999888876543
No 146
>PF13871 Helicase_C_4: Helicase_C-like
Probab=98.23 E-value=2.3e-06 Score=89.66 Aligned_cols=93 Identities=24% Similarity=0.241 Sum_probs=76.4
Q ss_pred HHHHHhCCCCCCCCEEEEEecCCcccccccccc-------CEE-EEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 755 QVIEEFGNPGPGGPTVLLASLKASGAGVNLTAA-------SRV-FLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 755 ~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A-------~~V-i~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
...+.|+++. ..|+++| .|||+|+.|++- -|| |.++++|+.....|-.||+||-||..+..+..+++.
T Consensus 52 ~e~~~F~~g~---k~v~iis-~AgstGiSlHAd~~~~nqr~Rv~i~le~pwsad~aiQ~~GR~hRsnQ~~~P~y~~l~t~ 127 (278)
T PF13871_consen 52 AEKQAFMDGE---KDVAIIS-DAGSTGISLHADRRVKNQRRRVHITLELPWSADKAIQQFGRTHRSNQVSAPEYRFLVTD 127 (278)
T ss_pred HHHHHHhCCC---ceEEEEe-cccccccchhccccCCCCCceEEEEeeCCCCHHHHHHHhccccccccccCCEEEEeecC
Confidence 4667899953 3899998 999999999863 245 689999999999999999999999988655556666
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhcc
Q 002901 827 NSIEERILELQDRKKKLAREAFRRK 851 (869)
Q Consensus 827 ~siEe~i~~~q~~K~~l~~~~~~~~ 851 (869)
-..|.|...+..+|.+-..+...++
T Consensus 128 ~~gE~Rfas~va~rL~sLgAlt~gd 152 (278)
T PF13871_consen 128 LPGERRFASTVARRLESLGALTRGD 152 (278)
T ss_pred CHHHHHHHHHHHHHHhhccccccCc
Confidence 6789999999999988777666654
No 147
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=98.13 E-value=0.00097 Score=79.35 Aligned_cols=117 Identities=14% Similarity=0.097 Sum_probs=93.3
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
...|..++++.+.+..+ .+.-+||.+......+.|...|.+.||++..++... .+|++.|=. +.+.+ --+.+
T Consensus 408 ~~~K~~Aii~ei~~~~~--~gqPVLVgT~SIe~SE~ls~~L~~~gi~h~vLNAk~--~e~EA~IIa-~AG~~---GaVTI 479 (925)
T PRK12903 408 KHAKWKAVVKEVKRVHK--KGQPILIGTAQVEDSETLHELLLEANIPHTVLNAKQ--NAREAEIIA-KAGQK---GAITI 479 (925)
T ss_pred HHHHHHHHHHHHHHHHh--cCCCEEEEeCcHHHHHHHHHHHHHCCCCceeecccc--hhhHHHHHH-hCCCC---CeEEE
Confidence 46899999999988764 488999999999999999999999999999999874 344444433 33223 33455
Q ss_pred ecCCccccccccccC--------EEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 774 SLKASGAGVNLTAAS--------RVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 774 S~~agg~GLNLt~A~--------~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
+|..+|.|-++.-.. |||..+.+=|--++.|..||++|-|..=..
T Consensus 480 ATNMAGRGTDI~Lg~~V~~~GGLhVIgTerheSrRIDnQLrGRaGRQGDpGss 532 (925)
T PRK12903 480 ATNMAGRGTDIKLSKEVLELGGLYVLGTDKAESRRIDNQLRGRSGRQGDVGES 532 (925)
T ss_pred ecccccCCcCccCchhHHHcCCcEEEecccCchHHHHHHHhcccccCCCCCcc
Confidence 669999998875433 999999999999999999999999986543
No 148
>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional
Probab=98.12 E-value=2.4e-05 Score=94.57 Aligned_cols=72 Identities=13% Similarity=0.066 Sum_probs=59.4
Q ss_pred CEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcC-----Cc---ccEEEEEEEeCCCHHHHHHHHHHH
Q 002901 768 PTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIG-----QK---EDVKIVRLIVRNSIEERILELQDR 839 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiG-----Q~---k~V~V~rli~~~siEe~i~~~q~~ 839 (869)
+.-++.|-.|..+|.+-+.+-.+.-+...-+...-.|-+||+-|+. .. +.+ +-.+++..|-++-.-.+|..
T Consensus 501 ~~~fifs~~al~egwd~~~~~~~~~l~~~~s~~~~~q~~gr~lr~~vnq~G~R~~~~~~-~LTvianesy~dFa~~LQ~E 579 (986)
T PRK15483 501 TRRFLFSKWTLREGWDNPNVFQIAKLRSSGSETSKLQEVGRGLRLPVDENGHRVSQEEF-RLNYLIDYDEKDFASKLVGE 579 (986)
T ss_pred CeEEEEEhHHhhhcCCCCCeEEEEEeccCCchHHHHHHhccceeccccccCccccCccE-EEEEEeCccHHHHHHHHHHH
Confidence 5778999999999999999988888888888999999999999974 21 346 77778888888888887754
Q ss_pred H
Q 002901 840 K 840 (869)
Q Consensus 840 K 840 (869)
=
T Consensus 580 I 580 (986)
T PRK15483 580 I 580 (986)
T ss_pred H
Confidence 3
No 149
>PRK14873 primosome assembly protein PriA; Provisional
Probab=98.07 E-value=6.6e-05 Score=89.32 Aligned_cols=99 Identities=12% Similarity=0.044 Sum_probs=65.7
Q ss_pred ceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCC--CCCChhh---h--ccccEEEEechhhHhhhcccCCCcceee
Q 002901 350 KITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGD--RTQDVEE---L--KMYDLVLTTYSTLAIEESWLESPVKKIE 421 (869)
Q Consensus 350 ~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~--r~~~~~~---l--~~~dVVItTY~~l~~~~~~~~~~l~~~~ 421 (869)
+.+||++|. ++..|+..-|+.++ +.-.+.+||.. ....... + ++.+|||-|.+.+..-+. +
T Consensus 189 k~vLvLvPEi~lt~q~~~rl~~~f--~~~~v~~lhS~l~~~~R~~~w~~~~~G~~~IViGtRSAvFaP~~---------~ 257 (665)
T PRK14873 189 RGALVVVPDQRDVDRLEAALRALL--GAGDVAVLSAGLGPADRYRRWLAVLRGQARVVVGTRSAVFAPVE---------D 257 (665)
T ss_pred CeEEEEecchhhHHHHHHHHHHHc--CCCcEEEECCCCCHHHHHHHHHHHhCCCCcEEEEcceeEEeccC---------C
Confidence 458999998 78899999999999 44568889982 2222221 1 457899999988865442 3
Q ss_pred eeEEEEcCccc--cCCcChHHHHH--Hhhc----ccCeEEEEeccc
Q 002901 422 WWRVILDEAHV--IKNANAQQSRT--VTNL----NAKRRWVVTGTP 459 (869)
Q Consensus 422 w~rVIlDEaH~--ikn~~s~~~ka--~~~L----~a~~r~~LTGTP 459 (869)
..+||+||=|. .|...+..+.| +..+ ..-..++-|+||
T Consensus 258 LgLIIvdEEhd~sykq~~~p~yhaRdvA~~Ra~~~~~~lvLgSaTP 303 (665)
T PRK14873 258 LGLVAIWDDGDDLLAEPRAPYPHAREVALLRAHQHGCALLIGGHAR 303 (665)
T ss_pred CCEEEEEcCCchhhcCCCCCCccHHHHHHHHHHHcCCcEEEECCCC
Confidence 46799999886 45544443322 2222 233456669999
No 150
>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]
Probab=98.07 E-value=0.00029 Score=82.84 Aligned_cols=99 Identities=17% Similarity=0.168 Sum_probs=65.9
Q ss_pred ceEEEecChhHHHH-HHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEc
Q 002901 350 KITLIVCPPSVFST-WITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILD 428 (869)
Q Consensus 350 ~~tLIV~P~sll~q-W~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlD 428 (869)
.+++--.|--.++| =-++|+..+.... +..|+-.-. .++..+|+|-+.|++-.......+..+.| ||+|
T Consensus 341 TR~iYTSPIKALSNQKfRDFk~tF~Dvg----LlTGDvqin----PeAsCLIMTTEILRsMLYrgadliRDvE~--VIFD 410 (1248)
T KOG0947|consen 341 TRTIYTSPIKALSNQKFRDFKETFGDVG----LLTGDVQIN----PEASCLIMTTEILRSMLYRGADLIRDVEF--VIFD 410 (1248)
T ss_pred cceEecchhhhhccchHHHHHHhccccc----eeecceeeC----CCcceEeehHHHHHHHHhcccchhhccce--EEEe
Confidence 34677778766654 4577887773322 566643222 35779999999999987666667788888 9999
Q ss_pred CccccCCcC--hHHHHHHhhc-ccCeEEEEecc
Q 002901 429 EAHVIKNAN--AQQSRTVTNL-NAKRRWVVTGT 458 (869)
Q Consensus 429 EaH~ikn~~--s~~~ka~~~L-~a~~r~~LTGT 458 (869)
|.|+|-+.. .-.-..+..| +.-.-++||||
T Consensus 411 EVHYiND~eRGvVWEEViIMlP~HV~~IlLSAT 443 (1248)
T KOG0947|consen 411 EVHYINDVERGVVWEEVIIMLPRHVNFILLSAT 443 (1248)
T ss_pred eeeecccccccccceeeeeeccccceEEEEecc
Confidence 999996632 2222223333 33456899999
No 151
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=2.3e-06 Score=81.05 Aligned_cols=54 Identities=33% Similarity=0.891 Sum_probs=45.1
Q ss_pred CCCCCCCccCCCCCc--ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCccc
Q 002901 621 GEDFDCPICISPPSD--IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFS 675 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~--~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~ 675 (869)
.+.+.|++|++.... ++.|.|||+||..||+..+.... .||.|+..+...+++.
T Consensus 129 ~~~~~CPiCl~~~sek~~vsTkCGHvFC~~Cik~alk~~~-~CP~C~kkIt~k~~~r 184 (187)
T KOG0320|consen 129 EGTYKCPICLDSVSEKVPVSTKCGHVFCSQCIKDALKNTN-KCPTCRKKITHKQFHR 184 (187)
T ss_pred ccccCCCceecchhhccccccccchhHHHHHHHHHHHhCC-CCCCcccccchhhhee
Confidence 345789999998876 56799999999999999998876 8999998887666553
No 152
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=98.03 E-value=3.2e-06 Score=92.92 Aligned_cols=58 Identities=41% Similarity=0.911 Sum_probs=51.4
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhcc----CCCCCCCCCCccCCCcccCCCCC
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHT----KPCCPLCRHPLLQSDLFSSPPES 680 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~----~~~cp~c~~~~~~~~~~~~~~~~ 680 (869)
+..||||+.++.-+++|.|||+||..||.+++... ...||+|+..+...|+....-+.
T Consensus 186 ~~~CPICL~~~~~p~~t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~ 247 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVRTNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIED 247 (513)
T ss_pred CCcCCcccCCCCcccccccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecc
Confidence 78999999999999999999999999999999876 46899999999998887665443
No 153
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=98.01 E-value=1.5e-05 Score=74.70 Aligned_cols=102 Identities=16% Similarity=0.146 Sum_probs=54.0
Q ss_pred ccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEE
Q 002901 348 GKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVIL 427 (869)
Q Consensus 348 ~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIl 427 (869)
....|||+.|.-++- +|+.+...... +.....-+. ...-...-|-+++|.++..-.-. +....+|+.||+
T Consensus 32 ~~~rvLvL~PTRvva---~em~~aL~~~~--~~~~t~~~~--~~~~g~~~i~vMc~at~~~~~~~---p~~~~~yd~II~ 101 (148)
T PF07652_consen 32 RRLRVLVLAPTRVVA---EEMYEALKGLP--VRFHTNARM--RTHFGSSIIDVMCHATYGHFLLN---PCRLKNYDVIIM 101 (148)
T ss_dssp TT--EEEEESSHHHH---HHHHHHTTTSS--EEEESTTSS------SSSSEEEEEHHHHHHHHHT---SSCTTS-SEEEE
T ss_pred ccCeEEEecccHHHH---HHHHHHHhcCC--cccCceeee--ccccCCCcccccccHHHHHHhcC---cccccCccEEEE
Confidence 346799999997662 34444442222 222221111 12234556888999998776532 445578999999
Q ss_pred cCccccCCcChHHHHH-Hhhc---ccCeEEEEecccc
Q 002901 428 DEAHVIKNANAQQSRT-VTNL---NAKRRWVVTGTPI 460 (869)
Q Consensus 428 DEaH~ikn~~s~~~ka-~~~L---~a~~r~~LTGTPi 460 (869)
||+|.. .+.|-..+- +..+ ...+.+.+||||-
T Consensus 102 DEcH~~-Dp~sIA~rg~l~~~~~~g~~~~i~mTATPP 137 (148)
T PF07652_consen 102 DECHFT-DPTSIAARGYLRELAESGEAKVIFMTATPP 137 (148)
T ss_dssp CTTT---SHHHHHHHHHHHHHHHTTS-EEEEEESS-T
T ss_pred eccccC-CHHHHhhheeHHHhhhccCeeEEEEeCCCC
Confidence 999984 333333222 1222 1236899999993
No 154
>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein. It functions as a docking protein to recruit essential components of the viral replication machinery to viral DNA origins. In the presence of the major DNA-binding protein, it opens dsDNA which leads to a conformational change in the origin that facilitates DNA unwinding and subsequent replication [].; GO: 0003688 DNA replication origin binding, 0005524 ATP binding, 0006260 DNA replication
Probab=97.95 E-value=0.00082 Score=79.41 Aligned_cols=98 Identities=14% Similarity=0.199 Sum_probs=71.9
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccc--cCEE
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTA--ASRV 790 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~--A~~V 790 (869)
.|+++-|||...++.+++++.....+.++..++|..+..+ ++.+. ..+|++-| .+..+|+++-. -+.|
T Consensus 281 ~gknIcvfsSt~~~~~~v~~~~~~~~~~Vl~l~s~~~~~d----v~~W~-----~~~VviYT-~~itvG~Sf~~~HF~~~ 350 (824)
T PF02399_consen 281 AGKNICVFSSTVSFAEIVARFCARFTKKVLVLNSTDKLED----VESWK-----KYDVVIYT-PVITVGLSFEEKHFDSM 350 (824)
T ss_pred CCCcEEEEeChHHHHHHHHHHHHhcCCeEEEEcCCCCccc----ccccc-----ceeEEEEe-ceEEEEeccchhhceEE
Confidence 3899999999999999999999999999999998766542 23343 34777766 77789999853 4556
Q ss_pred EEE--cCCCCcch--HHHHhhhhhhcCCcccEEEE
Q 002901 791 FLL--EPWWNPAV--EEQAMDRVHRIGQKEDVKIV 821 (869)
Q Consensus 791 i~~--dp~wnp~~--e~QaigRvhRiGQ~k~V~V~ 821 (869)
|.| .....|.. ..|.+|||-.+... ++.||
T Consensus 351 f~yvk~~~~gpd~~s~~Q~lgRvR~l~~~-ei~v~ 384 (824)
T PF02399_consen 351 FAYVKPMSYGPDMVSVYQMLGRVRSLLDN-EIYVY 384 (824)
T ss_pred EEEecCCCCCCcHHHHHHHHHHHHhhccC-eEEEE
Confidence 655 33344544 58999999988854 44444
No 155
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.91 E-value=5.4e-06 Score=84.74 Aligned_cols=53 Identities=36% Similarity=0.763 Sum_probs=46.1
Q ss_pred CCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcc
Q 002901 621 GEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~ 674 (869)
.....|.+|++...+|.-|+|||+||..||..+..... .||+||....++++.
T Consensus 237 ~a~~kC~LCLe~~~~pSaTpCGHiFCWsCI~~w~~ek~-eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 237 EATRKCSLCLENRSNPSATPCGHIFCWSCILEWCSEKA-ECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCceEEEecCCCCCCcCcCcchHHHHHHHHHHcccc-CCCcccccCCCccee
Confidence 34578999999999999999999999999999987765 499999998876653
No 156
>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=97.89 E-value=1.4e-05 Score=65.03 Aligned_cols=50 Identities=30% Similarity=0.448 Sum_probs=44.7
Q ss_pred CCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcc
Q 002901 624 FDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~ 674 (869)
..|++|.+.+.+|++++|+|+||+.|+.+++.. ...||.|+.++...++.
T Consensus 2 ~~Cpi~~~~~~~Pv~~~~G~v~~~~~i~~~~~~-~~~cP~~~~~~~~~~l~ 51 (63)
T smart00504 2 FLCPISLEVMKDPVILPSGQTYERRAIEKWLLS-HGTDPVTGQPLTHEDLI 51 (63)
T ss_pred cCCcCCCCcCCCCEECCCCCEEeHHHHHHHHHH-CCCCCCCcCCCChhhce
Confidence 569999999999999999999999999999987 67899999988765544
No 157
>PHA02929 N1R/p28-like protein; Provisional
Probab=97.87 E-value=1.3e-05 Score=82.05 Aligned_cols=52 Identities=35% Similarity=0.856 Sum_probs=41.5
Q ss_pred HHhcCCCCCCCccCCCCCc--------ceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 617 VLQDGEDFDCPICISPPSD--------IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 617 ~l~~~~~~~c~~c~~~~~~--------~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
......+.+|++|++...+ ++++.|+|.||..|+...+.. ...||+||.++.
T Consensus 168 ~~~~~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~-~~tCPlCR~~~~ 227 (238)
T PHA02929 168 LYNRSKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKE-KNTCPVCRTPFI 227 (238)
T ss_pred hhcCCCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhc-CCCCCCCCCEee
Confidence 3344567899999997543 367899999999999998764 669999998765
No 158
>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=97.87 E-value=7.5e-06 Score=59.40 Aligned_cols=38 Identities=47% Similarity=1.213 Sum_probs=33.4
Q ss_pred CCccCCCCCcc-eecccCCccchhHHHHhhhccCCCCCCC
Q 002901 626 CPICISPPSDI-IITCCAHIFCRSCILKTLQHTKPCCPLC 664 (869)
Q Consensus 626 c~~c~~~~~~~-~~t~c~h~~c~~ci~~~~~~~~~~cp~c 664 (869)
|++|.+.+.++ +++.|+|.||.+|+.++++. ...||+|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~~C~~~~~~~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCKECIEKYLEK-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEHHHHHHHHHC-TSB-TTT
T ss_pred CCCCCCcccCcCEECCCCCchhHHHHHHHHHC-cCCCcCC
Confidence 78999999998 68999999999999999999 6899987
No 159
>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.82 E-value=0.00036 Score=70.14 Aligned_cols=82 Identities=18% Similarity=0.196 Sum_probs=57.6
Q ss_pred ceEEEecChh-HHHHHHHHHHHhcC-CCCeEEEEEeC--CCCCChhhhcc-ccEEEEechhhHhhhcccCCCcceeeeeE
Q 002901 350 KITLIVCPPS-VFSTWITQLEEHTV-PGMLKTYMYYG--DRTQDVEELKM-YDLVLTTYSTLAIEESWLESPVKKIEWWR 424 (869)
Q Consensus 350 ~~tLIV~P~s-ll~qW~~Ei~~~~~-~~~l~v~~y~G--~r~~~~~~l~~-~dVVItTY~~l~~~~~~~~~~l~~~~w~r 424 (869)
-.+|++|-+. |-.|-.+|.++|.+ -|+.++.+++| .-.++.+.|.+ ..||+.|.+.+........-.|..+ .-
T Consensus 111 vsvlvmchtrelafqi~~ey~rfskymP~vkvaVFfGG~~Ikkdee~lk~~PhivVgTPGrilALvr~k~l~lk~v--kh 188 (387)
T KOG0329|consen 111 VSVLVMCHTRELAFQISKEYERFSKYMPSVKVSVFFGGLFIKKDEELLKNCPHIVVGTPGRILALVRNRSLNLKNV--KH 188 (387)
T ss_pred EEEEEEeccHHHHHHHHHHHHHHHhhCCCceEEEEEcceeccccHHHHhCCCeEEEcCcHHHHHHHHhccCchhhc--ce
Confidence 4589999985 55788888776653 26899999999 55566666655 6799999998877664322333333 34
Q ss_pred EEEcCcccc
Q 002901 425 VILDEAHVI 433 (869)
Q Consensus 425 VIlDEaH~i 433 (869)
.||||+..+
T Consensus 189 FvlDEcdkm 197 (387)
T KOG0329|consen 189 FVLDECDKM 197 (387)
T ss_pred eehhhHHHH
Confidence 789998764
No 160
>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=97.81 E-value=1.1e-05 Score=62.14 Aligned_cols=46 Identities=41% Similarity=1.131 Sum_probs=40.4
Q ss_pred CCCCCccCCCCCcceecccCCc-cchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHI-FCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~-~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
+..|.+|.+...+.++.+|+|. +|..|+.+++. ....||.||.++.
T Consensus 2 ~~~C~iC~~~~~~~~~~pCgH~~~C~~C~~~~~~-~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 2 DEECPICFENPRDVVLLPCGHLCFCEECAERLLK-RKKKCPICRQPIE 48 (50)
T ss_dssp HSB-TTTSSSBSSEEEETTCEEEEEHHHHHHHHH-TTSBBTTTTBB-S
T ss_pred cCCCccCCccCCceEEeCCCChHHHHHHhHHhcc-cCCCCCcCChhhc
Confidence 4679999999999999999999 99999999988 6779999999875
No 161
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=97.79 E-value=1.4e-05 Score=58.74 Aligned_cols=39 Identities=38% Similarity=0.966 Sum_probs=31.7
Q ss_pred CCccCCCCCcceecccCCccchhHHHHhhhccCC---CCCCC
Q 002901 626 CPICISPPSDIIITCCAHIFCRSCILKTLQHTKP---CCPLC 664 (869)
Q Consensus 626 c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~---~cp~c 664 (869)
|++|.+.+.+|+...|+|.||..|+.++++.... .||.|
T Consensus 1 CpiC~~~~~~Pv~l~CGH~FC~~Cl~~~~~~~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFKDPVSLPCGHSFCRSCLERLWKEPSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-SSEEE-SSSSEEEHHHHHHHHCCSSSST---SSS
T ss_pred CCccchhhCCccccCCcCHHHHHHHHHHHHccCCcCCCCcCC
Confidence 7999999999999999999999999999887643 58876
No 162
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=97.79 E-value=0.0045 Score=75.01 Aligned_cols=118 Identities=20% Similarity=0.270 Sum_probs=93.4
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
.....|..|+++.+.+..+. |.-|||-+.....-.+|...|...||++-.++.... .+=.+++.+=-. ++ .|
T Consensus 608 ~t~~eK~~Aii~ei~~~~~~--GrPVLVGT~SVe~SE~lS~~L~~~gI~H~VLNAK~h-~~EAeIVA~AG~--~G--aV- 679 (1112)
T PRK12901 608 KTKREKYNAVIEEITELSEA--GRPVLVGTTSVEISELLSRMLKMRKIPHNVLNAKLH-QKEAEIVAEAGQ--PG--TV- 679 (1112)
T ss_pred cCHHHHHHHHHHHHHHHHHC--CCCEEEEeCcHHHHHHHHHHHHHcCCcHHHhhccch-hhHHHHHHhcCC--CC--cE-
Confidence 34478999999999988644 899999999999999999999999999988888643 223344444333 22 34
Q ss_pred EEecCCcccccccc--------ccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 772 LASLKASGAGVNLT--------AASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 772 L~S~~agg~GLNLt--------~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
-++|..+|.|-++. ..=+||.-+.+=|.-++.|..||++|-|..-.
T Consensus 680 TIATNMAGRGTDIkLg~~V~e~GGL~VIgTerheSrRID~QLrGRaGRQGDPGs 733 (1112)
T PRK12901 680 TIATNMAGRGTDIKLSPEVKAAGGLAIIGTERHESRRVDRQLRGRAGRQGDPGS 733 (1112)
T ss_pred EEeccCcCCCcCcccchhhHHcCCCEEEEccCCCcHHHHHHHhcccccCCCCCc
Confidence 44668888998764 45689999999999999999999999998644
No 163
>CHL00122 secA preprotein translocase subunit SecA; Validated
Probab=97.78 E-value=0.0036 Score=75.01 Aligned_cols=84 Identities=17% Similarity=0.214 Sum_probs=63.5
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCC-CHHHHHHHHHHhCCCCCCCCEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSM-NAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~-~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
....|..++++.+.+... .+.-|||-+.....-+.|...|...|+++-.++... ...+=.++|.+=-. ++ . +
T Consensus 405 t~~~K~~AI~~ei~~~~~--~grPVLIgT~SIe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIA~AG~--~G--~-V 477 (870)
T CHL00122 405 DELSKWRAIADECLQMHQ--TGRPILIGTTTIEKSELLSQLLKEYRLPHQLLNAKPENVRRESEIVAQAGR--KG--S-I 477 (870)
T ss_pred CHHHHHHHHHHHHHHHHh--cCCCEEEeeCCHHHHHHHHHHHHHcCCccceeeCCCccchhHHHHHHhcCC--CC--c-E
Confidence 346799999999887654 489999999999999999999999999999999974 33444456655322 22 3 4
Q ss_pred EEecCCcccccc
Q 002901 772 LASLKASGAGVN 783 (869)
Q Consensus 772 L~S~~agg~GLN 783 (869)
-++|..+|.|-+
T Consensus 478 TIATNMAGRGTD 489 (870)
T CHL00122 478 TIATNMAGRGTD 489 (870)
T ss_pred EEeccccCCCcC
Confidence 456688888854
No 164
>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]
Probab=97.77 E-value=0.0038 Score=71.63 Aligned_cols=114 Identities=19% Similarity=0.287 Sum_probs=78.3
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHc------CC--cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccc
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAA------GF--KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNL 784 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~------gi--~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNL 784 (869)
+..-+|||=.-...++...+.|.+. +. -++-+.|+++.++..+ -|....+ +.+=+++|+..+.+.|..
T Consensus 257 ~~GDILvFLtGqeEIe~~~~~l~e~~~~~~~~~~~~~lply~aL~~e~Q~r---vF~p~p~-g~RKvIlsTNIAETSlTI 332 (674)
T KOG0922|consen 257 PPGDILVFLTGQEEIEAACELLRERAKSLPEDCPELILPLYGALPSEEQSR---VFDPAPP-GKRKVILSTNIAETSLTI 332 (674)
T ss_pred CCCCEEEEeCCHHHHHHHHHHHHHHhhhccccCcceeeeecccCCHHHhhc---cccCCCC-CcceEEEEcceeeeeEEe
Confidence 3446777777766666666655543 11 2466899999877544 4666333 346667788999999988
Q ss_pred cccCEEE----EEcCCCCc-----------chHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 785 TAASRVF----LLEPWWNP-----------AVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 785 t~A~~Vi----~~dp~wnp-----------~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
....+|| .---.||| ..-.||.-|++|-|.+.+..+|||+++.-.+
T Consensus 333 ~GI~YVVDsG~vK~~~y~p~~g~~~L~v~~ISkasA~QRaGRAGRt~pGkcyRLYte~~~~ 393 (674)
T KOG0922|consen 333 DGIRYVVDSGFVKQKKYNPRTGLDSLIVVPISKASANQRAGRAGRTGPGKCYRLYTESAYD 393 (674)
T ss_pred cceEEEEcCCceEEEeeccccCccceeEEechHHHHhhhcccCCCCCCceEEEeeeHHHHh
Confidence 8776664 11224555 3556788888888889999999999987763
No 165
>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]
Probab=97.74 E-value=0.00088 Score=76.93 Aligned_cols=98 Identities=19% Similarity=0.210 Sum_probs=62.5
Q ss_pred eEEEecChhHHH-HHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcC
Q 002901 351 ITLIVCPPSVFS-TWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDE 429 (869)
Q Consensus 351 ~tLIV~P~sll~-qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDE 429 (869)
+++--.|--.|+ |=.+|+..-+. .|....|+-+-.+ ++.-+|+|-+.|++-.......+..+.| ||+||
T Consensus 174 RVIYTSPIKALSNQKYREl~~EF~----DVGLMTGDVTInP----~ASCLVMTTEILRsMLYRGSEvmrEVaW--VIFDE 243 (1041)
T KOG0948|consen 174 RVIYTSPIKALSNQKYRELLEEFK----DVGLMTGDVTINP----DASCLVMTTEILRSMLYRGSEVMREVAW--VIFDE 243 (1041)
T ss_pred eEEeeChhhhhcchhHHHHHHHhc----ccceeecceeeCC----CCceeeeHHHHHHHHHhccchHhheeee--EEeee
Confidence 356666765554 45566666552 2444556443333 4567888999998877655567788999 99999
Q ss_pred ccccCCcChHH--HHHHhhc-ccCeEEEEecc
Q 002901 430 AHVIKNANAQQ--SRTVTNL-NAKRRWVVTGT 458 (869)
Q Consensus 430 aH~ikn~~s~~--~ka~~~L-~a~~r~~LTGT 458 (869)
.|++|...-.. -..+.-| ..-+-..||||
T Consensus 244 IHYMRDkERGVVWEETIIllP~~vr~VFLSAT 275 (1041)
T KOG0948|consen 244 IHYMRDKERGVVWEETIILLPDNVRFVFLSAT 275 (1041)
T ss_pred ehhccccccceeeeeeEEeccccceEEEEecc
Confidence 99998743211 1122223 45566889999
No 166
>PHA02926 zinc finger-like protein; Provisional
Probab=97.70 E-value=4.3e-05 Score=75.33 Aligned_cols=63 Identities=27% Similarity=0.568 Sum_probs=50.5
Q ss_pred ChHHHHHHHHHHhcCCCCCCCccCCCCC---------cceecccCCccchhHHHHhhhcc-----CCCCCCCCCCcc
Q 002901 607 NPDLLKKLVEVLQDGEDFDCPICISPPS---------DIIITCCAHIFCRSCILKTLQHT-----KPCCPLCRHPLL 669 (869)
Q Consensus 607 ~~e~~~~~~~~l~~~~~~~c~~c~~~~~---------~~~~t~c~h~~c~~ci~~~~~~~-----~~~cp~c~~~~~ 669 (869)
-+..+.+..+..+...+.+|++|++..- -+++..|.|.||..||....+.. ...||+||..+.
T Consensus 154 i~~il~~ye~~~~~SkE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 154 IIKILDKYEDVYRVSKEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred hhHHHHHHHHHHhccCCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3456777778888889999999998642 26889999999999999998753 346999998765
No 167
>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]
Probab=97.69 E-value=0.0015 Score=77.15 Aligned_cols=70 Identities=23% Similarity=0.214 Sum_probs=58.7
Q ss_pred EeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcC-CCCcchHHHHhhhhhhcCCccc
Q 002901 744 LDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEP-WWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 744 ldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp-~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
-+.+++.+.|..+---|+.+ ...| |+++...+.|+|+++-..||.-|. ..||-...|+-||++|-|=..-
T Consensus 968 HHaglNr~yR~~VEvLFR~g---~L~V-lfaT~TLsLGiNMPCrTVvF~gDsLQL~plny~QmaGRAGRRGFD~l 1038 (1330)
T KOG0949|consen 968 HHAGLNRKYRSLVEVLFRQG---HLQV-LFATETLSLGINMPCRTVVFAGDSLQLDPLNYKQMAGRAGRRGFDTL 1038 (1330)
T ss_pred cccccchHHHHHHHHHhhcC---ceEE-EEEeeehhcccCCCceeEEEeccccccCchhHHhhhccccccccccc
Confidence 57789999999999999994 3355 456699999999999888888874 6999999999999999885433
No 168
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=97.67 E-value=0.00022 Score=79.37 Aligned_cols=108 Identities=26% Similarity=0.340 Sum_probs=84.3
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCCc-EEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEE
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGFK-LLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi~-~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~V 790 (869)
.+|.=+|-||.-. +--+...++++|.. .+.|.|+.++..|.+--..||+++. ...||++| +|.|.||||. ..||
T Consensus 356 k~GDCvV~FSkk~--I~~~k~kIE~~g~~k~aVIYGsLPPeTr~aQA~~FNd~~~-e~dvlVAs-DAIGMGLNL~-IrRi 430 (700)
T KOG0953|consen 356 KPGDCVVAFSKKD--IFTVKKKIEKAGNHKCAVIYGSLPPETRLAQAALFNDPSN-ECDVLVAS-DAIGMGLNLN-IRRI 430 (700)
T ss_pred CCCCeEEEeehhh--HHHHHHHHHHhcCcceEEEecCCCCchhHHHHHHhCCCCC-ccceEEee-cccccccccc-eeEE
Confidence 5688889999743 33456667777776 9999999999999999999999655 44888888 9999999994 6899
Q ss_pred EEEcCC---------CCcchHHHHhhhhhhcCCccc-EEEEEEE
Q 002901 791 FLLEPW---------WNPAVEEQAMDRVHRIGQKED-VKIVRLI 824 (869)
Q Consensus 791 i~~dp~---------wnp~~e~QaigRvhRiGQ~k~-V~V~rli 824 (869)
||++.. -.-....|--||++|.|.+-+ -.|..|-
T Consensus 431 iF~sl~Kysg~e~~~it~sqikQIAGRAGRf~s~~~~G~vTtl~ 474 (700)
T KOG0953|consen 431 IFYSLIKYSGRETEDITVSQIKQIAGRAGRFGSKYPQGEVTTLH 474 (700)
T ss_pred EEeecccCCcccceeccHHHHHHHhhcccccccCCcCceEEEee
Confidence 998875 233566799999999997755 3444443
No 169
>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]
Probab=97.58 E-value=0.0056 Score=74.15 Aligned_cols=110 Identities=19% Similarity=0.272 Sum_probs=76.6
Q ss_pred CCeEEEEeccHHHHHHHHHHHHH----cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCE
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQA----AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASR 789 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~----~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~ 789 (869)
..-+|||=.-...++...+.|.+ ..+.++-+.|.++.++..+ -|+.. +...+-+++||..+.++|+......
T Consensus 259 ~GdILvFLpG~~EI~~~~~~L~~~~l~~~~~i~PLy~~L~~~eQ~r---vF~p~-~~~~RKVVlATNIAETSLTI~gIr~ 334 (845)
T COG1643 259 SGSILVFLPGQREIERTAEWLEKAELGDDLEILPLYGALSAEEQVR---VFEPA-PGGKRKVVLATNIAETSLTIPGIRY 334 (845)
T ss_pred CCCEEEECCcHHHHHHHHHHHHhccccCCcEEeeccccCCHHHHHh---hcCCC-CCCcceEEEEccccccceeeCCeEE
Confidence 45678888777777777777776 3577888999999988776 56653 3332436678899999999988777
Q ss_pred EEEE----cCCCCc--------------chHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 790 VFLL----EPWWNP--------------AVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 790 Vi~~----dp~wnp--------------~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
||=- .+-||| +.-.||-||++| +.+=..|||+.++..+
T Consensus 335 VIDsG~ak~~~y~~~~g~~~L~~~~ISqAsA~QRaGRAGR---~~pGicyRLyse~~~~ 390 (845)
T COG1643 335 VIDSGLAKEKRYDPRTGLTRLETEPISKASADQRAGRAGR---TGPGICYRLYSEEDFL 390 (845)
T ss_pred EecCCcccccccccccCceeeeEEEechhhhhhhcccccc---CCCceEEEecCHHHHH
Confidence 6511 122333 444566665555 6678999999986655
No 170
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=97.55 E-value=2.9e-05 Score=89.88 Aligned_cols=53 Identities=26% Similarity=0.714 Sum_probs=49.3
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCccc
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFS 675 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~ 675 (869)
...|+.|...+.+.+|+-|+|.||..|+...++....+||.|+.++...|+..
T Consensus 643 ~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFganDv~~ 695 (698)
T KOG0978|consen 643 LLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGANDVHR 695 (698)
T ss_pred ceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCcccccc
Confidence 45799999999999999999999999999999999999999999999988754
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=97.49 E-value=6.9e-05 Score=55.04 Aligned_cols=39 Identities=46% Similarity=1.122 Sum_probs=35.5
Q ss_pred CCccCCCCCcce-ecccCCccchhHHHHhhh-ccCCCCCCC
Q 002901 626 CPICISPPSDII-ITCCAHIFCRSCILKTLQ-HTKPCCPLC 664 (869)
Q Consensus 626 c~~c~~~~~~~~-~t~c~h~~c~~ci~~~~~-~~~~~cp~c 664 (869)
|++|.+....++ ++.|+|.||..|+.++++ .....||.|
T Consensus 1 C~iC~~~~~~~~~~~~C~H~fC~~C~~~~~~~~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPVILLPCGHSFCRDCLRKWLENSGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEEEETTTSEEEEHHHHHHHHHHTSSSBTTTT
T ss_pred CCcCCccccCCCEEecCCCcchHHHHHHHHHhcCCccCCcC
Confidence 789999999988 999999999999999999 567789987
No 172
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.48 E-value=0.00013 Score=80.40 Aligned_cols=49 Identities=37% Similarity=0.806 Sum_probs=43.1
Q ss_pred CCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCC
Q 002901 622 EDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQS 671 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~ 671 (869)
....|++|.+....+++++|+|.||..|+..++... ..||+|+..+...
T Consensus 25 ~~l~C~IC~d~~~~PvitpCgH~FCs~CI~~~l~~~-~~CP~Cr~~~~~~ 73 (397)
T TIGR00599 25 TSLRCHICKDFFDVPVLTSCSHTFCSLCIRRCLSNQ-PKCPLCRAEDQES 73 (397)
T ss_pred cccCCCcCchhhhCccCCCCCCchhHHHHHHHHhCC-CCCCCCCCccccc
Confidence 457899999999999999999999999999998764 4899999887643
No 173
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.48 E-value=4.9e-05 Score=76.85 Aligned_cols=52 Identities=35% Similarity=0.821 Sum_probs=43.6
Q ss_pred CCCCCCCccCCCCCcceecccCCccchhHHHHhhhccC-CCCCCCCCCccCCC
Q 002901 621 GEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTK-PCCPLCRHPLLQSD 672 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~-~~cp~c~~~~~~~~ 672 (869)
..+..|.+|++.+..+..+.|+|+||..|+...+.... ..||+||+.....+
T Consensus 213 ~~d~kC~lC~e~~~~ps~t~CgHlFC~~Cl~~~~t~~k~~~CplCRak~~pk~ 265 (271)
T COG5574 213 LADYKCFLCLEEPEVPSCTPCGHLFCLSCLLISWTKKKYEFCPLCRAKVYPKK 265 (271)
T ss_pred ccccceeeeecccCCcccccccchhhHHHHHHHHHhhccccCchhhhhccchh
Confidence 45788999999999999999999999999999655554 55999998766543
No 174
>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=97.33 E-value=0.0048 Score=67.82 Aligned_cols=62 Identities=23% Similarity=0.410 Sum_probs=47.3
Q ss_pred EEEEEecCCccccccccccCEEEEEcCCC------C-----------cchHHHHhhhhhhcCCcccEEEEEEEeCCCHHH
Q 002901 769 TVLLASLKASGAGVNLTAASRVFLLEPWW------N-----------PAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEE 831 (869)
Q Consensus 769 ~VlL~S~~agg~GLNLt~A~~Vi~~dp~w------n-----------p~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe 831 (869)
+-+++|+..+...|.+. +.|+..||-+ | |..-.||..|.+|.|.++|-..++|+++...+.
T Consensus 314 RkvVvstniaetsltid--giv~VIDpGf~kqkVYNPRIRvesllv~PISkasA~qR~gragrt~pGkcfrLYte~~~~~ 391 (699)
T KOG0925|consen 314 RKVVVSTNIAETSLTID--GIVFVIDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFEK 391 (699)
T ss_pred ceEEEEecchheeeeec--cEEEEecCchhhhcccCcceeeeeeeeccchHhHHHHHhhhccCCCCCceEEeecHHhhhh
Confidence 44677888888777665 4566677743 4 456679999999999999999999999876654
Q ss_pred H
Q 002901 832 R 832 (869)
Q Consensus 832 ~ 832 (869)
.
T Consensus 392 e 392 (699)
T KOG0925|consen 392 E 392 (699)
T ss_pred c
Confidence 3
No 175
>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=97.30 E-value=6.9e-05 Score=55.97 Aligned_cols=41 Identities=39% Similarity=0.971 Sum_probs=33.5
Q ss_pred CCCCccCCCCC---cceecccCCccchhHHHHhhhccCCCCCCCC
Q 002901 624 FDCPICISPPS---DIIITCCAHIFCRSCILKTLQHTKPCCPLCR 665 (869)
Q Consensus 624 ~~c~~c~~~~~---~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~ 665 (869)
++|+||++... ..+.+.|+|.||..|+..+++.. ..||+||
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~-~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN-NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS-SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC-CcCCccC
Confidence 36999998763 46778899999999999999885 5999996
No 176
>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]
Probab=97.28 E-value=0.012 Score=70.09 Aligned_cols=70 Identities=26% Similarity=0.346 Sum_probs=52.1
Q ss_pred cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCC-----CcchHHHHhhhhhhcCC
Q 002901 740 KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWW-----NPAVEEQAMDRVHRIGQ 814 (869)
Q Consensus 740 ~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~w-----np~~e~QaigRvhRiGQ 814 (869)
.++..+.+.+.++|.-+=..|+++ .++|++.+ ...+-|.||+ |.+||+=-|.. .-....|.+||++|.|=
T Consensus 524 GvAyHhaGLT~eER~~iE~afr~g---~i~vl~aT-STlaaGVNLP-ArRVIiraP~~g~~~l~~~~YkQM~GRAGR~gi 598 (1008)
T KOG0950|consen 524 GVAYHHAGLTSEEREIIEAAFREG---NIFVLVAT-STLAAGVNLP-ARRVIIRAPYVGREFLTRLEYKQMVGRAGRTGI 598 (1008)
T ss_pred cceecccccccchHHHHHHHHHhc---CeEEEEec-chhhccCcCC-cceeEEeCCccccchhhhhhHHhhhhhhhhccc
Confidence 345567777889999888899993 44666655 5589999998 46666655543 34677899999999983
No 177
>smart00489 DEXDc3 DEAD-like helicases superfamily.
Probab=97.28 E-value=0.0014 Score=70.88 Aligned_cols=42 Identities=24% Similarity=0.269 Sum_probs=28.6
Q ss_pred hccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 393 LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 393 l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
+..+||||++|..+..+....... ....-..||+||||++-.
T Consensus 209 ~~~Adivi~ny~yll~~~~r~~~~-~~l~~~~lIiDEAHnL~d 250 (289)
T smart00489 209 IEFANVVVLPYQYLLDPKIRQALS-IELKDSIVIFDEAHNLDN 250 (289)
T ss_pred hhcCCEEEECHHHHhcHHHHHHhc-ccccccEEEEeCccChHH
Confidence 357899999999998765211001 122467899999999843
No 178
>smart00488 DEXDc2 DEAD-like helicases superfamily.
Probab=97.28 E-value=0.0014 Score=70.88 Aligned_cols=42 Identities=24% Similarity=0.269 Sum_probs=28.6
Q ss_pred hccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 393 LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 393 l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
+..+||||++|..+..+....... ....-..||+||||++-.
T Consensus 209 ~~~Adivi~ny~yll~~~~r~~~~-~~l~~~~lIiDEAHnL~d 250 (289)
T smart00488 209 IEFANVVVLPYQYLLDPKIRQALS-IELKDSIVIFDEAHNLDN 250 (289)
T ss_pred hhcCCEEEECHHHHhcHHHHHHhc-ccccccEEEEeCccChHH
Confidence 357899999999998765211001 122467899999999843
No 179
>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=97.28 E-value=0.00015 Score=60.77 Aligned_cols=52 Identities=35% Similarity=0.507 Sum_probs=42.7
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~ 674 (869)
.+.|++|.+.+.+||+++|+|.|++.||..++......||.|+.++...++.
T Consensus 4 ~f~CpIt~~lM~dPVi~~~G~tyer~~I~~~l~~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 4 EFLCPITGELMRDPVILPSGHTYERSAIERWLEQNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGB-TTTSSB-SSEEEETTSEEEEHHHHHHHHCTTSSB-TTT-SB-SGGGSE
T ss_pred ccCCcCcCcHhhCceeCCcCCEEcHHHHHHHHHcCCCCCCCCCCcCCcccce
Confidence 4679999999999999999999999999999999889999999988876554
No 180
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=97.22 E-value=0.00014 Score=73.64 Aligned_cols=46 Identities=35% Similarity=0.690 Sum_probs=41.0
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
...|.||......+++|+|+|.||.-||..++..+. .||+|+.+..
T Consensus 25 ~lrC~IC~~~i~ip~~TtCgHtFCslCIR~hL~~qp-~CP~Cr~~~~ 70 (391)
T COG5432 25 MLRCRICDCRISIPCETTCGHTFCSLCIRRHLGTQP-FCPVCREDPC 70 (391)
T ss_pred HHHhhhhhheeecceecccccchhHHHHHHHhcCCC-CCccccccHH
Confidence 356999999999999999999999999999998764 8999997653
No 181
>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=97.18 E-value=0.0024 Score=75.29 Aligned_cols=100 Identities=9% Similarity=0.088 Sum_probs=63.5
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
-.+++.+.+.++.....|.-.|.|+.+..+ ..+...|... .++ +.+.|.. ..|.+++++|+........-+|+.+
T Consensus 454 ~~~~~~~~~~~~~~~~~G~~lvLfTS~~~~-~~~~~~l~~~l~~~-~l~qg~~--~~~~~l~~~f~~~~~~~~~~vL~gt 529 (636)
T TIGR03117 454 WLENVSLSTAAILRKAQGGTLVLTTAFSHI-SAIGQLVELGIPAE-IVIQSEK--NRLASAEQQFLALYANGIQPVLIAA 529 (636)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEechHHHH-HHHHHHHHhhcCCC-EEEeCCC--ccHHHHHHHHHHhhcCCCCcEEEeC
Confidence 345566666665555557677778877654 4455556543 233 4455643 2568899999983101112345566
Q ss_pred CCccccccc----------cccCEEEEEcCCCCcc
Q 002901 776 KASGAGVNL----------TAASRVFLLEPWWNPA 800 (869)
Q Consensus 776 ~agg~GLNL----------t~A~~Vi~~dp~wnp~ 800 (869)
.+..+|+++ ...+.||+.-.|+-|.
T Consensus 530 ~sfweGvDv~~~~~~p~~G~~Ls~ViI~kLPF~~~ 564 (636)
T TIGR03117 530 GGAWTGIDLTHKPVSPDKDNLLTDLIITCAPFGLN 564 (636)
T ss_pred CccccccccCCccCCCCCCCcccEEEEEeCCCCcC
Confidence 999999999 4588999988887763
No 182
>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=97.17 E-value=0.00038 Score=51.80 Aligned_cols=43 Identities=49% Similarity=1.146 Sum_probs=35.9
Q ss_pred CCCccCCCCCccee-cccCCccchhHHHHhhhccCCCCCCCCCC
Q 002901 625 DCPICISPPSDIII-TCCAHIFCRSCILKTLQHTKPCCPLCRHP 667 (869)
Q Consensus 625 ~c~~c~~~~~~~~~-t~c~h~~c~~ci~~~~~~~~~~cp~c~~~ 667 (869)
+|++|.+....++. ..|+|.||..|+..++......||.|+..
T Consensus 1 ~C~iC~~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEFREPVVLLPCGHVFCRSCIDKWLKSGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhhhCceEecCCCChhcHHHHHHHHHhCcCCCCCCCCc
Confidence 48999998855544 45999999999999988877889999865
No 183
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=97.17 E-value=0.00018 Score=56.66 Aligned_cols=47 Identities=34% Similarity=0.899 Sum_probs=25.8
Q ss_pred CCCCccCCCCCcce-ecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 624 FDCPICISPPSDII-ITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 624 ~~c~~c~~~~~~~~-~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
..|++|.+.+..|| ++.|.|+||..|+...+.. .||+|+.+-...|+
T Consensus 8 LrCs~C~~~l~~pv~l~~CeH~fCs~Ci~~~~~~---~CPvC~~Paw~qD~ 55 (65)
T PF14835_consen 8 LRCSICFDILKEPVCLGGCEHIFCSSCIRDCIGS---ECPVCHTPAWIQDI 55 (65)
T ss_dssp TS-SSS-S--SS-B---SSS--B-TTTGGGGTTT---B-SSS--B-S-SS-
T ss_pred cCCcHHHHHhcCCceeccCccHHHHHHhHHhcCC---CCCCcCChHHHHHH
Confidence 46999999999997 5889999999999887764 49999987765543
No 184
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=97.15 E-value=0.00037 Score=51.96 Aligned_cols=41 Identities=37% Similarity=0.892 Sum_probs=34.5
Q ss_pred CCCccCCCC---CcceecccCCccchhHHHHhhhccCCCCCCCCC
Q 002901 625 DCPICISPP---SDIIITCCAHIFCRSCILKTLQHTKPCCPLCRH 666 (869)
Q Consensus 625 ~c~~c~~~~---~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~ 666 (869)
.|++|.... ..+.++.|+|+||..|+.... .....||.|+.
T Consensus 1 ~C~~C~~~~~~~~~~~l~~CgH~~C~~C~~~~~-~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKYSEERRPRLTSCGHIFCEKCLKKLK-GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccccCCCCeEEcccCCHHHHHHHHhhc-CCCCCCcCCCC
Confidence 378888877 348999999999999999988 66679999974
No 185
>PRK12902 secA preprotein translocase subunit SecA; Reviewed
Probab=97.12 E-value=0.098 Score=63.12 Aligned_cols=85 Identities=18% Similarity=0.230 Sum_probs=65.3
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCC-CCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGS-MNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~-~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
....|..++++.+.+..+. |.-|||-+.....-+.|...|...|+++-.++.. ....+-.++|.+=-. ++ . +
T Consensus 420 t~~~K~~Ai~~ei~~~~~~--GrPVLIgT~SVe~SE~ls~~L~~~gi~h~vLNAk~~~~~~EA~IIa~AG~--~G--a-V 492 (939)
T PRK12902 420 TEIAKWRAVANETAEMHKQ--GRPVLVGTTSVEKSELLSALLQEQGIPHNLLNAKPENVEREAEIVAQAGR--KG--A-V 492 (939)
T ss_pred CHHHHHHHHHHHHHHHHhC--CCCEEEeeCCHHHHHHHHHHHHHcCCchheeeCCCcchHhHHHHHHhcCC--CC--c-E
Confidence 3468999999999987644 8999999999999999999999999999999997 333444456655322 22 3 4
Q ss_pred EEecCCccccccc
Q 002901 772 LASLKASGAGVNL 784 (869)
Q Consensus 772 L~S~~agg~GLNL 784 (869)
-++|..+|.|-++
T Consensus 493 TIATNMAGRGTDI 505 (939)
T PRK12902 493 TIATNMAGRGTDI 505 (939)
T ss_pred EEeccCCCCCcCE
Confidence 4566888999765
No 186
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=97.11 E-value=0.00013 Score=75.65 Aligned_cols=49 Identities=41% Similarity=0.788 Sum_probs=43.3
Q ss_pred CCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 624 FDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
..|.||.+....|++|+|+|.||.-||..++... +.||.|..++...++
T Consensus 24 LRC~IC~eyf~ip~itpCsHtfCSlCIR~~L~~~-p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 24 LRCGICFEYFNIPMITPCSHTFCSLCIRKFLSYK-PQCPTCCVTVTESDL 72 (442)
T ss_pred HHHhHHHHHhcCceeccccchHHHHHHHHHhccC-CCCCceecccchhhh
Confidence 4699999999999999999999999999999775 599999988876544
No 187
>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=96.95 E-value=0.00075 Score=71.30 Aligned_cols=52 Identities=27% Similarity=0.754 Sum_probs=41.7
Q ss_pred CCCCCccCCCC--Cc---ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcc
Q 002901 623 DFDCPICISPP--SD---IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 623 ~~~c~~c~~~~--~~---~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~ 674 (869)
+..||+|.+.. .. ..+..|+|.||..|+...+......||.|+.++....+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~~CGH~~C~sCv~~l~~~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccCCCCCcccHHHHHHHhcCCCCCCCCCCCccchhhcc
Confidence 45799998842 11 244489999999999999988888999999999887754
No 188
>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=96.94 E-value=0.00078 Score=48.19 Aligned_cols=39 Identities=46% Similarity=1.123 Sum_probs=34.8
Q ss_pred CCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCC
Q 002901 626 CPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLC 664 (869)
Q Consensus 626 c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c 664 (869)
|++|.+....++++.|+|.||..|+..++......||+|
T Consensus 1 C~iC~~~~~~~~~~~C~H~~c~~C~~~~~~~~~~~CP~C 39 (39)
T smart00184 1 CPICLEELKDPVVLPCGHTFCRSCIRKWLKSGNNTCPIC 39 (39)
T ss_pred CCcCccCCCCcEEecCCChHHHHHHHHHHHhCcCCCCCC
Confidence 788999888899999999999999999988666789987
No 189
>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.91 E-value=0.053 Score=62.25 Aligned_cols=105 Identities=18% Similarity=0.286 Sum_probs=65.3
Q ss_pred CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEc----CCCCc-----------chH
Q 002901 738 GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLE----PWWNP-----------AVE 802 (869)
Q Consensus 738 gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~d----p~wnp-----------~~e 802 (869)
++.+.-|...++.+-..+ -|+. .+++++-.++++..+.+.|.+.....||=.. -.+|| ..-
T Consensus 597 ~L~vlpiYSQLp~dlQ~k---iFq~-a~~~vRK~IvATNIAETSLTi~gI~yVID~Gy~K~kvyn~~~G~D~L~~~pIS~ 672 (1042)
T KOG0924|consen 597 DLAVLPIYSQLPADLQAK---IFQK-AEGGVRKCIVATNIAETSLTIPGIRYVIDTGYCKLKVYNPRIGMDALQIVPISQ 672 (1042)
T ss_pred ceEEEeehhhCchhhhhh---hccc-CCCCceeEEEeccchhhceeecceEEEEecCceeeeecccccccceeEEEechh
Confidence 444555556666554433 3665 3345566777889999999988877776211 12333 333
Q ss_pred HHHhhhhhhcCCcccEEEEEEEeCCCHHHHHH-----HHHHHHHHHHHHHH
Q 002901 803 EQAMDRVHRIGQKEDVKIVRLIVRNSIEERIL-----ELQDRKKKLAREAF 848 (869)
Q Consensus 803 ~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~-----~~q~~K~~l~~~~~ 848 (869)
.+|--|++|-|.+.|-+.||++++++....|+ ++|. .+|.+.++
T Consensus 673 AnA~QRaGRAGRt~pG~cYRlYTe~ay~~eml~stvPEIqR--TNl~nvVL 721 (1042)
T KOG0924|consen 673 ANADQRAGRAGRTGPGTCYRLYTEDAYKNEMLPSTVPEIQR--TNLSNVVL 721 (1042)
T ss_pred ccchhhccccCCCCCcceeeehhhhHHHhhcccCCCchhhh--cchhhHHH
Confidence 45555555666677889999999998877665 4553 34555444
No 190
>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A.
Probab=96.90 E-value=0.0075 Score=62.63 Aligned_cols=57 Identities=32% Similarity=0.387 Sum_probs=33.2
Q ss_pred cccEEEEechhhHhhhcccCCCccee--eeeEEEEcCccccCCcChHHHHHHhhc-ccCeEEEEecccccC
Q 002901 395 MYDLVLTTYSTLAIEESWLESPVKKI--EWWRVILDEAHVIKNANAQQSRTVTNL-NAKRRWVVTGTPIQN 462 (869)
Q Consensus 395 ~~dVVItTY~~l~~~~~~~~~~l~~~--~w~rVIlDEaH~ikn~~s~~~ka~~~L-~a~~r~~LTGTPi~N 462 (869)
.++||++|..+..... +... .|+.||+|||=.+..+ .++..| .+.++|+|-|=|-|-
T Consensus 170 ~~~vi~~T~~~~~~~~------~~~~~~~~d~vIvDEAsq~~e~-----~~l~~l~~~~~~~vlvGD~~QL 229 (236)
T PF13086_consen 170 EADVIFTTLSSAASPF------LSNFKEKFDVVIVDEASQITEP-----EALIPLSRAPKRIVLVGDPKQL 229 (236)
T ss_dssp T-SEEEEETCGGG-CC------GTT-----SEEEETTGGGS-HH-----HHHHHHTTTBSEEEEEE-TTS-
T ss_pred cccccccccccchhhH------hhhhcccCCEEEEeCCCCcchH-----HHHHHHHHhCCEEEEECChhhc
Confidence 4568888887774332 2333 7899999999776432 233333 344999999988663
No 191
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.88 E-value=0.00025 Score=53.14 Aligned_cols=47 Identities=34% Similarity=0.963 Sum_probs=43.3
Q ss_pred CCCCCccCCCCCcceecccCCc-cchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHI-FCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~-~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
+.+|.||.+.+-+.|+..|+|. .|-+|-.+.+...++.||.||+++.
T Consensus 7 ~dECTICye~pvdsVlYtCGHMCmCy~Cg~rl~~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHPVDSVLYTCGHMCMCYACGLRLKKALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCcchHHHHHcchHHhHHHHHHHHHHccCCcCcchhhHHH
Confidence 3789999999999999999996 7999999999999999999999875
No 192
>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]
Probab=96.86 E-value=0.089 Score=64.01 Aligned_cols=126 Identities=19% Similarity=0.295 Sum_probs=86.1
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-------CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-------GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-------gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
...+.+++.-+.+.....-+|||-.-..-+..+...|..+ .+-...++++|+..+.+.+ |+.+-+ +.+=
T Consensus 397 ~~Li~~li~~I~~~~~~GaILVFLPG~~eI~~~~~~L~~~~~f~~~~~~~ilplHs~~~s~eQ~~V---F~~pp~-g~RK 472 (924)
T KOG0920|consen 397 YDLIEDLIEYIDEREFEGAILVFLPGWEEILQLKELLEVNLPFADSLKFAILPLHSSIPSEEQQAV---FKRPPK-GTRK 472 (924)
T ss_pred HHHHHHHHHhcccCCCCceEEEEcCCHHHHHHHHHHhhhccccccccceEEEeccccCChHHHHHh---cCCCCC-Ccch
Confidence 3444444444444444678999999988888888888652 2556778999998665554 666333 3355
Q ss_pred EEEecCCccccccccccCEEE--------EEcC----------CCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHH
Q 002901 771 LLASLKASGAGVNLTAASRVF--------LLEP----------WWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIE 830 (869)
Q Consensus 771 lL~S~~agg~GLNLt~A~~Vi--------~~dp----------~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siE 830 (869)
+++++..+..++...+.-+|| .||| |-+-+.-.||.||++| .++=.+|+++.+.-.+
T Consensus 473 IIlaTNIAETSITIdDVvyVIDsG~~Ke~~yD~~~~~s~l~~~wvSkAna~QR~GRAGR---v~~G~cy~L~~~~~~~ 547 (924)
T KOG0920|consen 473 IILATNIAETSITIDDVVYVIDSGLVKEKSYDPERKVSCLLLSWVSKANAKQRRGRAGR---VRPGICYHLYTRSRYE 547 (924)
T ss_pred hhhhhhhHhhcccccCeEEEEecCeeeeeeecccCCcchhheeeccccchHHhcccccC---ccCCeeEEeechhhhh
Confidence 667889999999988776665 3444 3445677788888877 5566889998765433
No 193
>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.84 E-value=0.036 Score=64.70 Aligned_cols=66 Identities=20% Similarity=0.350 Sum_probs=52.1
Q ss_pred HHHhCCCCCCCCEEEEEecCCccccccccccCEEE--------EEc----------CCCCcchHHHHhhhhhhcCCcccE
Q 002901 757 IEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVF--------LLE----------PWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 757 i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi--------~~d----------p~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
++-|.. -|.+.+..++++.++.+.|.++...+|| +|| -|-+-|.-.||.||++|+|- -
T Consensus 620 ~RVF~~-~p~g~RLcVVaTNVAETSLTIPgIkYVVD~Gr~K~R~Yd~~TGV~~FeV~wiSkASadQRAGRAGRtgp---G 695 (1172)
T KOG0926|consen 620 MRVFDE-VPKGERLCVVATNVAETSLTIPGIKYVVDCGRVKERLYDSKTGVSSFEVDWISKASADQRAGRAGRTGP---G 695 (1172)
T ss_pred hhhccC-CCCCceEEEEeccchhcccccCCeeEEEeccchhhhccccccCceeEEEEeeeccccchhccccCCCCC---C
Confidence 455776 3455699999999999999999988887 333 26677888999999999884 5
Q ss_pred EEEEEEeC
Q 002901 819 KIVRLIVR 826 (869)
Q Consensus 819 ~V~rli~~ 826 (869)
+.|||+..
T Consensus 696 HcYRLYSS 703 (1172)
T KOG0926|consen 696 HCYRLYSS 703 (1172)
T ss_pred ceeehhhh
Confidence 88999863
No 194
>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=96.68 E-value=0.044 Score=63.26 Aligned_cols=102 Identities=16% Similarity=0.215 Sum_probs=61.7
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCC-----HHHHHHHHHHhCCCCCCCCE
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMN-----AKKRAQVIEEFGNPGPGGPT 769 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~-----~~~R~~~i~~F~~~~~~~~~ 769 (869)
..=++.|-..+..+...-| .-+|+|-..-..|..+....+..|+- .++.|.-+ .+.-+.+++.|...-..+.-
T Consensus 611 ~~~l~~l~~~~~nL~~~VP-gGvV~FfPSy~yL~~v~k~w~~~gil-~ri~~kK~vF~E~k~~~~dvl~~Ya~a~~~g~G 688 (821)
T KOG1133|consen 611 PEMIKDLGSSISNLSNAVP-GGVVCFFPSYAYLGQVRKRWEQNGIL-ARIVGKKKVFYEPKDTVEDVLEGYAEAAERGRG 688 (821)
T ss_pred hHHHHHHHHHHHHHHhhCC-CcEEEEeccHHHHHHHHHHHHhcchH-HHhhccchhhccCcccHHHHHHHHHHHhhcCCC
Confidence 3445566666666554454 67888888888999999999988763 23333211 11135677777653211212
Q ss_pred EEEEe--cCCccccccccc--cCEEEEEcCCCC
Q 002901 770 VLLAS--LKASGAGVNLTA--ASRVFLLEPWWN 798 (869)
Q Consensus 770 VlL~S--~~agg~GLNLt~--A~~Vi~~dp~wn 798 (869)
.||++ -.-.++|||+.+ +.-|+++..|+-
T Consensus 689 aiLlaVVGGKlSEGINF~D~LgRaVvvVGlPyP 721 (821)
T KOG1133|consen 689 AILLAVVGGKLSEGINFSDDLGRAVVVVGLPYP 721 (821)
T ss_pred eEEEEEeccccccccccccccccEEEEeecCCC
Confidence 34444 234468999965 677777777663
No 195
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=96.61 E-value=0.0011 Score=48.85 Aligned_cols=36 Identities=36% Similarity=0.960 Sum_probs=21.6
Q ss_pred CCccCCCCCc----ceecccCCccchhHHHHhhhcc---CCCCC
Q 002901 626 CPICISPPSD----IIITCCAHIFCRSCILKTLQHT---KPCCP 662 (869)
Q Consensus 626 c~~c~~~~~~----~~~t~c~h~~c~~ci~~~~~~~---~~~cp 662 (869)
|+||.+ ... |++.+|+|+||.+|+.+..... ..+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKSDRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH-S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcCCCCeeeCc
Confidence 788888 544 8888999999999999998754 34554
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=96.51 E-value=0.011 Score=59.95 Aligned_cols=60 Identities=15% Similarity=0.208 Sum_probs=30.9
Q ss_pred ccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCCh
Q 002901 394 KMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGS 464 (869)
Q Consensus 394 ~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l 464 (869)
.+..|.+.+...++. ..+.+..||+|||+++... ..-..+-.+....+++++|=|.|...
T Consensus 101 ~~~~Ie~~~~~~iRG---------rt~~~~~iIvDEaQN~t~~--~~k~ilTR~g~~skii~~GD~~Q~D~ 160 (205)
T PF02562_consen 101 QNGKIEIEPLAFIRG---------RTFDNAFIIVDEAQNLTPE--ELKMILTRIGEGSKIIITGDPSQIDL 160 (205)
T ss_dssp HTTSEEEEEGGGGTT-----------B-SEEEEE-SGGG--HH--HHHHHHTTB-TT-EEEEEE-------
T ss_pred hcCeEEEEehhhhcC---------ccccceEEEEecccCCCHH--HHHHHHcccCCCcEEEEecCceeecC
Confidence 445566776666644 3355678999999997432 23334555677899999999987553
No 197
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.44 E-value=0.011 Score=72.15 Aligned_cols=120 Identities=20% Similarity=0.244 Sum_probs=76.5
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCC-------cEEEEeCCCCHHHHHHHHHHhCCC-CCCCCE
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGF-------KLLRLDGSMNAKKRAQVIEEFGNP-GPGGPT 769 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi-------~~~rldG~~~~~~R~~~i~~F~~~-~~~~~~ 769 (869)
++.+.+.|.++.... +..+|||-..-..++.+...+...|+ +.+.+.+.- ..++.+++++|+.. +.+...
T Consensus 507 ~~~l~~~i~~~~~~~-pgg~lvfFpSy~~l~~v~~~~~~~~~~~~i~~~k~i~~E~~~-~~~~~~~l~~f~~~~~~~~ga 584 (705)
T TIGR00604 507 VRNLGELLVEFSKII-PDGIVVFFPSYSYLENIVSTWKEMGILENIEKKKLIFVETKD-AQETSDALERYKQAVSEGRGA 584 (705)
T ss_pred HHHHHHHHHHHhhcC-CCcEEEEccCHHHHHHHHHHHHhcCHHHHHhcCCCEEEeCCC-cchHHHHHHHHHHHHhcCCce
Confidence 456666666665444 45777777777777777777665432 233444432 26889999999752 111114
Q ss_pred EEEEec-CCccccccccc--cCEEEEEcCCC-Ccc------------------------------hHHHHhhhhhhcCCc
Q 002901 770 VLLASL-KASGAGVNLTA--ASRVFLLEPWW-NPA------------------------------VEEQAMDRVHRIGQK 815 (869)
Q Consensus 770 VlL~S~-~agg~GLNLt~--A~~Vi~~dp~w-np~------------------------------~e~QaigRvhRiGQ~ 815 (869)
||+... ...++|+|+.. +..||++-.|+ ||. ...||+||+.|--+.
T Consensus 585 vL~av~gGk~sEGIDf~~~~~r~ViivGlPf~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~a~~~v~QaiGR~IR~~~D 664 (705)
T TIGR00604 585 VLLSVAGGKVSEGIDFCDDLGRAVIMVGIPYEYTESRILLARLEFLRDQYPIRENQDFYEFDAMRAVNQAIGRVIRHKDD 664 (705)
T ss_pred EEEEecCCcccCccccCCCCCcEEEEEccCCCCCCCHHHHHHHHHHHhhcCCCccHHHHHHHHHHHHHHHhCccccCcCc
Confidence 555432 57889999965 78889998776 441 234888888887666
Q ss_pred ccEE
Q 002901 816 EDVK 819 (869)
Q Consensus 816 k~V~ 819 (869)
+-+.
T Consensus 665 ~G~i 668 (705)
T TIGR00604 665 YGSI 668 (705)
T ss_pred eEEE
Confidence 6543
No 198
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.39 E-value=0.0017 Score=67.04 Aligned_cols=53 Identities=28% Similarity=0.640 Sum_probs=48.0
Q ss_pred CCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcc
Q 002901 622 EDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~ 674 (869)
...+|+||.....-|+...|.|.||-.||+-...+....|++||.++...-++
T Consensus 6 ~~~eC~IC~nt~n~Pv~l~C~HkFCyiCiKGsy~ndk~~CavCR~pids~i~~ 58 (324)
T KOG0824|consen 6 KKKECLICYNTGNCPVNLYCFHKFCYICIKGSYKNDKKTCAVCRFPIDSTIDF 58 (324)
T ss_pred cCCcceeeeccCCcCccccccchhhhhhhcchhhcCCCCCceecCCCCcchhc
Confidence 45789999999999999999999999999999999999999999999865443
No 199
>PRK10536 hypothetical protein; Provisional
Probab=96.27 E-value=0.015 Score=60.54 Aligned_cols=58 Identities=24% Similarity=0.211 Sum_probs=40.0
Q ss_pred ccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCCh
Q 002901 396 YDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGS 464 (869)
Q Consensus 396 ~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l 464 (869)
.-|.|.+...++.. .+.-..||||||+++.- ......+..+....+++++|-|-|..+
T Consensus 160 ~~Iei~~l~ymRGr---------tl~~~~vIvDEaqn~~~--~~~k~~ltR~g~~sk~v~~GD~~QiD~ 217 (262)
T PRK10536 160 GKVEIAPFAYMRGR---------TFENAVVILDEAQNVTA--AQMKMFLTRLGENVTVIVNGDITQCDL 217 (262)
T ss_pred CcEEEecHHHhcCC---------cccCCEEEEechhcCCH--HHHHHHHhhcCCCCEEEEeCChhhccC
Confidence 34666666665432 23346699999999854 344455677788999999999977543
No 200
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.23 E-value=0.0028 Score=65.16 Aligned_cols=50 Identities=28% Similarity=0.604 Sum_probs=43.0
Q ss_pred cCCCCCCCccCCCCC---cceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 620 DGEDFDCPICISPPS---DIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~---~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
.+...+|.||++... .-+.++|.|.|...|+.+++..-..+||+||.++.
T Consensus 320 a~~GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 320 ADKGVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred cCCCceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 345588999999764 36789999999999999999988889999998875
No 201
>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=96.23 E-value=2.4 Score=52.59 Aligned_cols=47 Identities=13% Similarity=0.070 Sum_probs=33.8
Q ss_pred CEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCccc
Q 002901 768 PTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKED 817 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~ 817 (869)
..++++++.+..+|+++- .+.+| -||. .-....|+.||++|-|+...
T Consensus 838 ~~~i~v~Tqv~E~g~D~d-fd~~~-~~~~-~~~sliQ~aGR~~R~~~~~~ 884 (1110)
T TIGR02562 838 HLFIVLATPVEEVGRDHD-YDWAI-ADPS-SMRSIIQLAGRVNRHRLEKV 884 (1110)
T ss_pred CCeEEEEeeeEEEEeccc-CCeee-eccC-cHHHHHHHhhcccccccCCC
Confidence 357788899999999985 33333 3332 23467899999999998654
No 202
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.00087 Score=70.57 Aligned_cols=48 Identities=40% Similarity=0.834 Sum_probs=41.9
Q ss_pred CCCCCCccCCCCCcceec-ccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 622 EDFDCPICISPPSDIIIT-CCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t-~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
.+..|++|++.+.....+ .|+|-||..||...+......||.||..+.
T Consensus 42 ~~v~c~icl~llk~tmttkeClhrfc~~ci~~a~r~gn~ecptcRk~l~ 90 (381)
T KOG0311|consen 42 IQVICPICLSLLKKTMTTKECLHRFCFDCIWKALRSGNNECPTCRKKLV 90 (381)
T ss_pred hhhccHHHHHHHHhhcccHHHHHHHHHHHHHHHHHhcCCCCchHHhhcc
Confidence 457899999988876655 499999999999999999999999997664
No 203
>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]
Probab=96.02 E-value=0.4 Score=55.33 Aligned_cols=77 Identities=26% Similarity=0.435 Sum_probs=48.7
Q ss_pred EEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCC------Cc--------------c
Q 002901 741 LLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWW------NP--------------A 800 (869)
Q Consensus 741 ~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~w------np--------------~ 800 (869)
++-|....+.+....+ |....++.-+|+|+ +..+.+.|.+.....| +||-+ || +
T Consensus 509 v~PiYaNLPselQakI---FePtP~gaRKVVLA-TNIAETSlTIdgI~yV--iDpGf~K~nsynprtGmesL~v~piSKA 582 (902)
T KOG0923|consen 509 VLPIYANLPSELQAKI---FEPTPPGARKVVLA-TNIAETSLTIDGIKYV--IDPGFVKQNSYNPRTGMESLLVTPISKA 582 (902)
T ss_pred EeeccccCChHHHHhh---cCCCCCCceeEEEe-ecchhhceeecCeEEE--ecCccccccCcCCCcCceeEEEeeechh
Confidence 5556777776655444 55533334355554 5888888877755544 56643 33 5
Q ss_pred hHHHHhhhhhhcCCcccEEEEEEEeC
Q 002901 801 VEEQAMDRVHRIGQKEDVKIVRLIVR 826 (869)
Q Consensus 801 ~e~QaigRvhRiGQ~k~V~V~rli~~ 826 (869)
.-.||.||++|.| |-..|||++.
T Consensus 583 sA~QRaGRAGRtg---PGKCfRLYt~ 605 (902)
T KOG0923|consen 583 SANQRAGRAGRTG---PGKCFRLYTA 605 (902)
T ss_pred hhhhhccccCCCC---CCceEEeech
Confidence 6678888887766 5678999884
No 204
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=95.97 E-value=0.018 Score=65.75 Aligned_cols=41 Identities=20% Similarity=0.253 Sum_probs=33.5
Q ss_pred cChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 200 ELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 200 ~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+|-..|..|+.-.+++.- .||--..|.|||++.-+++.+..
T Consensus 410 kLN~SQ~~AV~~VL~rpl---------------------------------sLIQGPPGTGKTvtsa~IVyhl~ 450 (935)
T KOG1802|consen 410 KLNASQSNAVKHVLQRPL---------------------------------SLIQGPPGTGKTVTSATIVYHLA 450 (935)
T ss_pred hhchHHHHHHHHHHcCCc---------------------------------eeeecCCCCCceehhHHHHHHHH
Confidence 578889999999998633 57777999999999888877654
No 205
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.92 E-value=0.0043 Score=66.12 Aligned_cols=50 Identities=28% Similarity=0.784 Sum_probs=42.9
Q ss_pred cCCCCCCCccCCCCCcceecccCCc-cchhHHHHhhhccCCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPSDIIITCCAHI-FCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~~~~~t~c~h~-~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
++...+|.||++.+.+.++.+|.|. .|..|.+... -+...||+||.++..
T Consensus 287 ~~~gkeCVIClse~rdt~vLPCRHLCLCs~Ca~~Lr-~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 287 SESGKECVICLSESRDTVVLPCRHLCLCSGCAKSLR-YQTNNCPICRQPIEE 337 (349)
T ss_pred ccCCCeeEEEecCCcceEEecchhhehhHhHHHHHH-HhhcCCCccccchHh
Confidence 3556789999999999999999996 7999987655 667799999998864
No 206
>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=95.78 E-value=0.0078 Score=50.30 Aligned_cols=43 Identities=44% Similarity=0.940 Sum_probs=33.8
Q ss_pred CCCCCCccCCCCCc-------------ceecccCCccchhHHHHhhhccCCCCCCCC
Q 002901 622 EDFDCPICISPPSD-------------IIITCCAHIFCRSCILKTLQHTKPCCPLCR 665 (869)
Q Consensus 622 ~~~~c~~c~~~~~~-------------~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~ 665 (869)
.++.|.||.+.+.+ .+...|+|.|...||.+.+.... .||+||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~~~-~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQNN-TCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTTSS-B-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhcCC-cCCCCC
Confidence 35569999987621 24568999999999999997766 999997
No 207
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.72 E-value=0.051 Score=67.17 Aligned_cols=112 Identities=15% Similarity=0.130 Sum_probs=73.9
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCC
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKA 777 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~a 777 (869)
.+++.+.|..+. . .+.+++|+-....++..+...|....++. ...|... .|.+++++|+..+. .||+.+ .+
T Consensus 633 ~~~~~~~i~~~~-~-~~g~~LVLFtS~~~l~~v~~~l~~~~~~~-l~Qg~~~--~~~~l~~~F~~~~~---~vLlG~-~s 703 (820)
T PRK07246 633 AEEIAKRLEELK-Q-LQQPILVLFNSKKHLLAVSDLLDQWQVSH-LAQEKNG--TAYNIKKRFDRGEQ---QILLGL-GS 703 (820)
T ss_pred HHHHHHHHHHHH-h-cCCCEEEEECcHHHHHHHHHHHhhcCCcE-EEeCCCc--cHHHHHHHHHcCCC---eEEEec-ch
Confidence 345666665554 2 25577777777788888888887665544 5556332 36679999998322 566655 89
Q ss_pred cccccccc--ccCEEEEEcCC-CCc-----------------------------chHHHHhhhhhhcCCcccE
Q 002901 778 SGAGVNLT--AASRVFLLEPW-WNP-----------------------------AVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 778 gg~GLNLt--~A~~Vi~~dp~-wnp-----------------------------~~e~QaigRvhRiGQ~k~V 818 (869)
..+|++++ .+..||+.-.| .+| ....|++||..|--..+-|
T Consensus 704 FwEGVD~p~~~~~~viI~kLPF~~P~dP~~~a~~~~~~~~g~~~F~~~~lP~A~iklkQg~GRLIRs~~D~Gv 776 (820)
T PRK07246 704 FWEGVDFVQADRMIEVITRLPFDNPEDPFVKKMNQYLLQEGKNPFYDYFLPMTILRLKQAIGRTMRREDQKSA 776 (820)
T ss_pred hhCCCCCCCCCeEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhheeHHHHHHHHHHHhcccccCCCCcEE
Confidence 99999996 35566666634 334 1234899999997766665
No 208
>COG3587 Restriction endonuclease [Defense mechanisms]
Probab=95.67 E-value=0.029 Score=66.12 Aligned_cols=110 Identities=20% Similarity=0.156 Sum_probs=66.6
Q ss_pred cceEEEecChhHH--H--HHHHHHHHhc-----CCCCeEEEEEeC-CCCCChhhhccccEEEEechhhHhh---hccc--
Q 002901 349 KKITLIVCPPSVF--S--TWITQLEEHT-----VPGMLKTYMYYG-DRTQDVEELKMYDLVLTTYSTLAIE---ESWL-- 413 (869)
Q Consensus 349 ~~~tLIV~P~sll--~--qW~~Ei~~~~-----~~~~l~v~~y~G-~r~~~~~~l~~~dVVItTY~~l~~~---~~~~-- 413 (869)
--..+||||...+ . .--.++.+|+ ..-.+..++|.. ........-....|+|.+.+.+.++ ....
T Consensus 104 ~~KFIivVPs~AIkeGv~~~s~~~~ehF~k~~Yent~~e~~i~~~~~~~~~~~~~~~~~vLl~~~~Afnk~~inan~iN~ 183 (985)
T COG3587 104 LFKFIIVVPSLAIKEGVFLTSKETTEHFFKSEYENTRLESYIYDEDIEKFKFKSNNKPCVLLIFVSAFNKEEINANMINS 183 (985)
T ss_pred ceeEEEEeccHHHHhhhHHHHHHHHHHHhhhhccCcceeEEeechHHHHHhhccCCCceEEEEehhhhccccccccccch
Confidence 4568999998433 2 3344555555 334677777742 1111111113445777777777766 1110
Q ss_pred ------------CCCcceee--eeEEEEcCccccCCcChHHHHHHhhcccCeEEEEeccc
Q 002901 414 ------------ESPVKKIE--WWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTP 459 (869)
Q Consensus 414 ------------~~~l~~~~--w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTP 459 (869)
.+|+..+. --.||+||-|.+... .+.+.++..+++...+=..||-
T Consensus 184 ~s~~~~~~~~~~~spvd~la~~rPIvIvDEPh~f~~~-~k~~~~i~~l~pl~ilRfgATf 242 (985)
T COG3587 184 ESMENTNLFNGATSPVDALASMRPIVIVDEPHRFLGD-DKTYGAIKQLNPLLILRFGATF 242 (985)
T ss_pred hhhcccCccccccCHHHHHHhcCCEEEecChhhcccc-hHHHHHHHhhCceEEEEecccc
Confidence 12221111 124999999999875 7899999999999888888883
No 209
>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]
Probab=95.62 E-value=0.88 Score=54.93 Aligned_cols=114 Identities=20% Similarity=0.208 Sum_probs=86.9
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
.....|..|.++.+.+.... |..+||-+.....-..+...|.+.||+...++-.-. .|++-+-.+.- .++ -|
T Consensus 409 ~t~~~K~~Aiv~~I~~~~~~--gqPvLvgT~sie~SE~ls~~L~~~~i~h~VLNAk~h--~~EA~Iia~AG-~~g--aV- 480 (822)
T COG0653 409 KTEEEKFKAIVEDIKERHEK--GQPVLVGTVSIEKSELLSKLLRKAGIPHNVLNAKNH--AREAEIIAQAG-QPG--AV- 480 (822)
T ss_pred cchHHHHHHHHHHHHHHHhc--CCCEEEcCcceecchhHHHHHHhcCCCceeeccccH--HHHHHHHhhcC-CCC--cc-
Confidence 44578999999999988654 899999999999999999999999999999988754 55555555543 222 33
Q ss_pred EEecCCccccccccccC-----------EEEEEcCCCCcchHHHHhhhhhhcC
Q 002901 772 LASLKASGAGVNLTAAS-----------RVFLLEPWWNPAVEEQAMDRVHRIG 813 (869)
Q Consensus 772 L~S~~agg~GLNLt~A~-----------~Vi~~dp~wnp~~e~QaigRvhRiG 813 (869)
-+++..+|.|-++.-.. +||=-+-+=+--...|--||++|.|
T Consensus 481 TiATNMAGRGTDIkLg~~~~~V~~lGGL~VIgTERhESRRIDnQLRGRsGRQG 533 (822)
T COG0653 481 TIATNMAGRGTDIKLGGNPEFVMELGGLHVIGTERHESRRIDNQLRGRAGRQG 533 (822)
T ss_pred ccccccccCCcccccCCCHHHHHHhCCcEEEecccchhhHHHHHhhcccccCC
Confidence 34668888998875433 4555566666666779999999999
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=95.61 E-value=0.043 Score=57.98 Aligned_cols=81 Identities=17% Similarity=0.119 Sum_probs=47.8
Q ss_pred ceEEEecChhHH----HHHHHHHHHhcCCCCeEEEEEeCC-CCCChhhhccccEEEEechhhHhhhc-----ccCCCcce
Q 002901 350 KITLIVCPPSVF----STWITQLEEHTVPGMLKTYMYYGD-RTQDVEELKMYDLVLTTYSTLAIEES-----WLESPVKK 419 (869)
Q Consensus 350 ~~tLIV~P~sll----~qW~~Ei~~~~~~~~l~v~~y~G~-r~~~~~~l~~~dVVItTY~~l~~~~~-----~~~~~l~~ 419 (869)
+++=||+....| .+|...|-+++ .+.+....++ ........=..||+-+|-+.+.-++- ........
T Consensus 119 ~~V~vvT~NdyLA~RD~~~~~~~y~~L---Glsv~~~~~~~~~~~r~~~Y~~dI~Y~t~~~~~fD~Lrd~~~~~~~~~~~ 195 (266)
T PF07517_consen 119 KGVHVVTSNDYLAKRDAEEMRPFYEFL---GLSVGIITSDMSSEERREAYAADIVYGTNSEFGFDYLRDNLALSKNEQVQ 195 (266)
T ss_dssp S-EEEEESSHHHHHHHHHHHHHHHHHT---T--EEEEETTTEHHHHHHHHHSSEEEEEHHHHHHHHHHHTT-SSGGG--S
T ss_pred CCcEEEeccHHHhhccHHHHHHHHHHh---hhccccCccccCHHHHHHHHhCcccccccchhhHHHHHHHHhhccchhcc
Confidence 457777877655 56888888877 5677666652 22222234467898888777776541 11111123
Q ss_pred eeeeEEEEcCcccc
Q 002901 420 IEWWRVILDEAHVI 433 (869)
Q Consensus 420 ~~w~rVIlDEaH~i 433 (869)
-.++.+|+||+..+
T Consensus 196 r~~~~~ivDEvDs~ 209 (266)
T PF07517_consen 196 RGFDFAIVDEVDSI 209 (266)
T ss_dssp SSSSEEEECTHHHH
T ss_pred CCCCEEEEeccceE
Confidence 46677999998865
No 211
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.39 E-value=0.086 Score=66.32 Aligned_cols=116 Identities=14% Similarity=0.190 Sum_probs=77.3
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCC--cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGF--KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi--~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
.+.+.+.|.++.... +.+++||.....++..+...|..... .+..+.-+++...|.+++++|+..+. .||+. +
T Consensus 737 ~~~la~~i~~l~~~~-~g~~LVLFtSy~~l~~v~~~l~~~~~~~~~~ll~Qg~~~~~r~~l~~~F~~~~~---~iLlG-~ 811 (928)
T PRK08074 737 IEEVAAYIAKIAKAT-KGRMLVLFTSYEMLKKTYYNLKNEEELEGYVLLAQGVSSGSRARLTKQFQQFDK---AILLG-T 811 (928)
T ss_pred HHHHHHHHHHHHHhC-CCCEEEEECCHHHHHHHHHHHhhcccccCceEEecCCCCCCHHHHHHHHHhcCC---eEEEe-c
Confidence 356666666655433 44677776677888888888875422 13233323333568999999998322 56655 5
Q ss_pred CCccccccccc--cCEEEEEcCCC-Ccc-----------------------------hHHHHhhhhhhcCCcccE
Q 002901 776 KASGAGVNLTA--ASRVFLLEPWW-NPA-----------------------------VEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 776 ~agg~GLNLt~--A~~Vi~~dp~w-np~-----------------------------~e~QaigRvhRiGQ~k~V 818 (869)
.+..+|+|+.. .+.||+.-.|+ +|. ...|++||..|-.+.+-|
T Consensus 812 ~sFwEGVD~pg~~l~~viI~kLPF~~p~dp~~~a~~~~~~~~g~~~F~~~~lP~A~~~lkQg~GRlIRs~~D~G~ 886 (928)
T PRK08074 812 SSFWEGIDIPGDELSCLVIVRLPFAPPDQPVMEAKSEWAKEQGENPFQELSLPQAVLRFKQGFGRLIRTETDRGT 886 (928)
T ss_pred CcccCccccCCCceEEEEEecCCCCCCCCHHHHHHHHHHHHhCCCchhhhhhHHHHHHHHhhhhhhcccCCceEE
Confidence 88999999975 47888888666 442 124888999998887765
No 212
>KOG1803 consensus DNA helicase [Replication, recombination and repair]
Probab=95.32 E-value=0.052 Score=61.99 Aligned_cols=57 Identities=19% Similarity=0.233 Sum_probs=37.0
Q ss_pred ccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEeccccc
Q 002901 394 KMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQ 461 (869)
Q Consensus 394 ~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~ 461 (869)
....||.+|-+.-... .+....|+.||+|||-..-.+.++. + +-..++++|.|-|.|
T Consensus 337 ~n~~VVfaTl~ga~~~------~~~~~~fD~vIIDEaaQamE~~cWi--p---vlk~kk~ILaGDp~Q 393 (649)
T KOG1803|consen 337 SNSRVVFATLGGALDR------LLRKRTFDLVIIDEAAQAMEPQCWI--P---VLKGKKFILAGDPKQ 393 (649)
T ss_pred cccceEEEeccchhhh------hhcccCCCEEEEehhhhhccchhhh--H---HhcCCceEEeCCccc
Confidence 3455777766555442 2355678999999987665554332 1 233459999999977
No 213
>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A.
Probab=95.29 E-value=0.062 Score=52.99 Aligned_cols=98 Identities=21% Similarity=0.329 Sum_probs=62.7
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc----CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC--Cccccccccc-
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA----GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK--ASGAGVNLTA- 786 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~----gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~--agg~GLNLt~- 786 (869)
+.++|||...-..++.+...+... ++.+. ..+ ..++.+++++|+.. . ..+|++.. ..++|+|+..
T Consensus 9 ~g~~lv~f~Sy~~l~~~~~~~~~~~~~~~~~v~-~q~---~~~~~~~l~~~~~~-~---~~il~~v~~g~~~EGiD~~~~ 80 (167)
T PF13307_consen 9 PGGVLVFFPSYRRLEKVYERLKERLEEKGIPVF-VQG---SKSRDELLEEFKRG-E---GAILLAVAGGSFSEGIDFPGD 80 (167)
T ss_dssp SSEEEEEESSHHHHHHHHTT-TSS-E-ETSCEE-EST---CCHHHHHHHHHCCS-S---SEEEEEETTSCCGSSS--ECE
T ss_pred CCCEEEEeCCHHHHHHHHHHHHhhcccccceee-ecC---cchHHHHHHHHHhc-c---CeEEEEEecccEEEeecCCCc
Confidence 579999999999999999998875 34332 222 46889999999993 3 23444445 8899999964
Q ss_pred -cCEEEEEcCCC-Ccc-----------------------------hHHHHhhhhhhcCCcccEE
Q 002901 787 -ASRVFLLEPWW-NPA-----------------------------VEEQAMDRVHRIGQKEDVK 819 (869)
Q Consensus 787 -A~~Vi~~dp~w-np~-----------------------------~e~QaigRvhRiGQ~k~V~ 819 (869)
+..||+.-.|+ +|. ...||+||+.|-.+.+-+.
T Consensus 81 ~~r~vii~glPfp~~~d~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~Qa~GR~iR~~~D~g~i 144 (167)
T PF13307_consen 81 LLRAVIIVGLPFPPPSDPLVQAKREYLDKQGKNPFRDWYLPPAIRKLKQAIGRLIRSEDDYGVI 144 (167)
T ss_dssp SEEEEEEES-----TTCHHHHHHHHHHHHCCTTCHHHHTHHHHHHHHHHHHHCC--STT-EEEE
T ss_pred hhheeeecCCCCCCCCCHHHHHHHHHHHHHhccchhhHhhHHHHHHHhhhcCcceeccCCcEEE
Confidence 77888888776 331 1238999999977765544
No 214
>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]
Probab=95.21 E-value=0.004 Score=78.38 Aligned_cols=93 Identities=19% Similarity=0.149 Sum_probs=61.6
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
+.+.+.+.+... . +++|+-...+...+...+. ..+.++..+...++..|... +...
T Consensus 432 ~~~~~~~~~~~~------~-~~~~~v~itty~~l~~~~~--------~~~~l~~~~~~~~v~DEa~~---------ikn~ 487 (866)
T COG0553 432 KREALRDLLKLH------L-VIIFDVVITTYELLRRFLV--------DHGGLKKIEWDRVVLDEAHR---------IKND 487 (866)
T ss_pred HHHHHHHHhhhc------c-cceeeEEechHHHHHHhhh--------hHHHHhhceeeeeehhhHHH---------Hhhh
Confidence 456666665542 1 7889888888888887541 11111222222222222220 2346
Q ss_pred CccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 777 ASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 777 agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
.+..|.|+..++..+.++.+|+| .+|++++.++++|.
T Consensus 488 ~s~~~~~l~~~~~~~~~~LtgTP--len~l~eL~sl~~~ 524 (866)
T COG0553 488 QSSEGKALQFLKALNRLDLTGTP--LENRLGELWSLLQE 524 (866)
T ss_pred hhHHHHHHHHHhhcceeeCCCCh--HhhhHHHHHHHHHH
Confidence 67789999999999999999999 79999999999995
No 215
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.97 E-value=0.01 Score=65.05 Aligned_cols=44 Identities=34% Similarity=0.986 Sum_probs=40.4
Q ss_pred CCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCC
Q 002901 621 GEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCR 665 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~ 665 (869)
.+...|+||++....+.+.+|+|.||..|+...+. ....||.|+
T Consensus 11 ~~~~~C~iC~~~~~~p~~l~C~H~~c~~C~~~~~~-~~~~Cp~cr 54 (386)
T KOG2177|consen 11 QEELTCPICLEYFREPVLLPCGHNFCRACLTRSWE-GPLSCPVCR 54 (386)
T ss_pred cccccChhhHHHhhcCccccccchHhHHHHHHhcC-CCcCCcccC
Confidence 45678999999999999999999999999999998 778999999
No 216
>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A.
Probab=94.89 E-value=0.056 Score=54.86 Aligned_cols=39 Identities=23% Similarity=0.293 Sum_probs=22.7
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcc-cCeEEEEecccccC
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLN-AKRRWVVTGTPIQN 462 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~-a~~r~~LTGTPi~N 462 (869)
.++||+|||-.+-+. .....+..+. ...++++.|-|-|-
T Consensus 94 ~~vliVDEasmv~~~--~~~~ll~~~~~~~~klilvGD~~QL 133 (196)
T PF13604_consen 94 KDVLIVDEASMVDSR--QLARLLRLAKKSGAKLILVGDPNQL 133 (196)
T ss_dssp TSEEEESSGGG-BHH--HHHHHHHHS-T-T-EEEEEE-TTSH
T ss_pred ccEEEEecccccCHH--HHHHHHHHHHhcCCEEEEECCcchh
Confidence 357999999998432 2223333333 36799999999763
No 217
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=94.79 E-value=0.011 Score=62.80 Aligned_cols=50 Identities=28% Similarity=0.712 Sum_probs=44.0
Q ss_pred CCCccCCCCCcceecccCCccchhHHHHhhhcc-CCCCCCCCCCccCCCcc
Q 002901 625 DCPICISPPSDIIITCCAHIFCRSCILKTLQHT-KPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 625 ~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~~~~~~ 674 (869)
-|.||.+...+.-|.+|+|..|..|+..+...+ ...||.||..|+-.+-+
T Consensus 371 LCKICaendKdvkIEPCGHLlCt~CLa~WQ~sd~gq~CPFCRcEIKGte~v 421 (563)
T KOG1785|consen 371 LCKICAENDKDVKIEPCGHLLCTSCLAAWQDSDEGQTCPFCRCEIKGTEPV 421 (563)
T ss_pred HHHHhhccCCCcccccccchHHHHHHHhhcccCCCCCCCceeeEeccccce
Confidence 499999999999999999999999999998776 67899999999865544
No 218
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=94.76 E-value=0.21 Score=62.83 Aligned_cols=42 Identities=29% Similarity=0.351 Sum_probs=31.1
Q ss_pred hhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 392 ELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 392 ~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
....+|||||++..+..+.......| -.+..+|+||||++-.
T Consensus 428 ~a~~AdivItNHalLl~dl~~~~~il--p~~~~lViDEAH~l~d 469 (928)
T PRK08074 428 RAKFADLVITNHALLLTDLTSEEPLL--PSYEHIIIDEAHHFEE 469 (928)
T ss_pred HHhcCCEEEECHHHHHHHHhhhcccC--CCCCeEEEECCchHHH
Confidence 35689999999999998874322222 2368899999999843
No 219
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.75 E-value=0.015 Score=64.45 Aligned_cols=49 Identities=33% Similarity=0.871 Sum_probs=43.7
Q ss_pred CCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 621 GEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
..+++|.+|...+..++.|+|+|.+|..|+.+.+. ....||.|+.++..
T Consensus 82 ~sef~c~vc~~~l~~pv~tpcghs~c~~Cl~r~ld-~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 82 RSEFECCVCSRALYPPVVTPCGHSFCLECLDRSLD-QETECPLCRDELVE 130 (398)
T ss_pred cchhhhhhhHhhcCCCccccccccccHHHHHHHhc-cCCCCccccccccc
Confidence 45789999999999999999999999999999666 67899999988875
No 220
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=94.50 E-value=0.24 Score=59.57 Aligned_cols=63 Identities=14% Similarity=0.246 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhh-cCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEec
Q 002901 699 SALLTLLLQLRD-KKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASL 775 (869)
Q Consensus 699 ~~L~~~L~~~~~-~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~ 775 (869)
..+++.+..+.. ..+...+-|-+.|..-...|...|...++.+. -..++.|+..+. .|+++|+
T Consensus 511 ~~V~~~v~~l~~~g~~~~~IgVItPY~aQv~~L~~~l~~~~~~i~-----------v~TVd~fQG~E~---DvIi~S~ 574 (637)
T TIGR00376 511 ELVSEIIQALVKMGVPANDIGVITPYDAQVDLLRQLLEHRHIDIE-----------VSSVDGFQGREK---EVIIISF 574 (637)
T ss_pred HHHHHHHHHHHhcCCCcceEEEEcccHHHHHHHHHHHHhhCCCeE-----------EccccccCCccc---cEEEEEE
Confidence 334445544432 23456788999999999999999987665432 122457887543 4455543
No 221
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.48 E-value=0.027 Score=60.82 Aligned_cols=50 Identities=28% Similarity=0.621 Sum_probs=42.6
Q ss_pred CCCCccCCCCCc---ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 624 FDCPICISPPSD---IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 624 ~~c~~c~~~~~~---~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
+.|.||++.... ..+.+|.|.|-..||..++......||+|+..+....-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~r~~CPvCK~di~~~~~ 282 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQTRTFCPVCKRDIRTDSG 282 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhcCccCCCCCCcCCCCCC
Confidence 589999998654 56799999999999999999998889999987765433
No 222
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=94.43 E-value=0.015 Score=61.30 Aligned_cols=51 Identities=33% Similarity=0.716 Sum_probs=43.4
Q ss_pred cCCCCCCCccCCCCCc-ceecccCCccchhHHHHhhhccCCCCCCCCCCccCC
Q 002901 620 DGEDFDCPICISPPSD-IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQS 671 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~~-~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~ 671 (869)
-+....|..|..-+.+ ..++.|.|.||..||.+++.. ...||.|...+...
T Consensus 12 ~n~~itC~LC~GYliDATTI~eCLHTFCkSCivk~l~~-~~~CP~C~i~ih~t 63 (331)
T KOG2660|consen 12 LNPHITCRLCGGYLIDATTITECLHTFCKSCIVKYLEE-SKYCPTCDIVIHKT 63 (331)
T ss_pred cccceehhhccceeecchhHHHHHHHHHHHHHHHHHHH-hccCCccceeccCc
Confidence 3456789999998876 478999999999999999999 67999999887654
No 223
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.40 E-value=0.025 Score=59.41 Aligned_cols=51 Identities=33% Similarity=0.791 Sum_probs=43.9
Q ss_pred hcCCCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 619 QDGEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 619 ~~~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
.+.++..|+||...+..+++++|+|..|..||.+++-+.+ .|-.|...+..
T Consensus 418 p~sEd~lCpICyA~pi~Avf~PC~H~SC~~CI~qHlmN~k-~CFfCktTv~~ 468 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGPINAVFAPCSHRSCYGCITQHLMNCK-RCFFCKTTVID 468 (489)
T ss_pred CCcccccCcceecccchhhccCCCCchHHHHHHHHHhcCC-eeeEecceeee
Confidence 3467788999999999999999999999999999987765 68888876653
No 224
>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=94.38 E-value=0.091 Score=58.64 Aligned_cols=19 Identities=32% Similarity=0.316 Sum_probs=16.2
Q ss_pred ecCcCCChhHHHHHHHHhc
Q 002901 254 ADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 254 AD~mGLGKTl~~lali~~~ 272 (869)
--..|.|||+.++.++...
T Consensus 7 ~G~aGTGKTvla~~l~~~l 25 (352)
T PF09848_consen 7 TGGAGTGKTVLALNLAKEL 25 (352)
T ss_pred EecCCcCHHHHHHHHHHHh
Confidence 3468999999999999876
No 225
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=94.21 E-value=0.35 Score=58.83 Aligned_cols=116 Identities=20% Similarity=0.274 Sum_probs=81.6
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCc-EEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFK-LLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~-~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
...+...|.++....++ ++|||...-.++..+...|...... .+...|. ..+.+.+++|+.... . .+++.+.
T Consensus 464 ~~~~~~~i~~~~~~~~~-~~lvlF~Sy~~l~~~~~~~~~~~~~~~v~~q~~---~~~~~~l~~f~~~~~-~--~~lv~~g 536 (654)
T COG1199 464 LAKLAAYLREILKASPG-GVLVLFPSYEYLKRVAERLKDERSTLPVLTQGE---DEREELLEKFKASGE-G--LILVGGG 536 (654)
T ss_pred HHHHHHHHHHHHhhcCC-CEEEEeccHHHHHHHHHHHhhcCccceeeecCC---CcHHHHHHHHHHhcC-C--eEEEeec
Confidence 45555555555555555 8888888888899999998887653 4445555 345689999998433 2 5677779
Q ss_pred Cccccccccc--cCEEEEEcCCCC-c-----------------------------chHHHHhhhhhhcCCcccEEE
Q 002901 777 ASGAGVNLTA--ASRVFLLEPWWN-P-----------------------------AVEEQAMDRVHRIGQKEDVKI 820 (869)
Q Consensus 777 agg~GLNLt~--A~~Vi~~dp~wn-p-----------------------------~~e~QaigRvhRiGQ~k~V~V 820 (869)
..++|+|+.. .+.||+.-.||- | ....||+||+.|--+.+-|.|
T Consensus 537 sf~EGVD~~g~~l~~vvI~~lPfp~p~dp~~~~r~~~~~~~g~~~f~~~~l~~A~~~l~QavGRlIR~~~D~G~iv 612 (654)
T COG1199 537 SFWEGVDFPGDALRLVVIVGLPFPNPDDPLLKARLEFLKRLGGDPFEEFYLPPAVIKLRQAVGRLIRSEDDRGVIV 612 (654)
T ss_pred cccCcccCCCCCeeEEEEEecCCCCCCCHHHHHHHHHHHHhcCCCceEeehHHHHHHHHHhhccccccCCCceEEE
Confidence 9999999965 577888776664 2 234599999999655555443
No 226
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.10 E-value=0.041 Score=56.38 Aligned_cols=49 Identities=33% Similarity=0.786 Sum_probs=40.5
Q ss_pred CCCCCCCccCCCCCcceec-ccCCccchhHHHHhhhcc-CCCCCCCCCCcc
Q 002901 621 GEDFDCPICISPPSDIIIT-CCAHIFCRSCILKTLQHT-KPCCPLCRHPLL 669 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t-~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~ 669 (869)
..+.+|++|...+..|... +|+|++|--|+......+ ...||.|..+..
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 3467899999999998655 599999999999887655 578999987665
No 227
>PF11789 zf-Nse: Zinc-finger of the MIZ type in Nse subunit; PDB: 2YU4_A 3HTK_C.
Probab=94.08 E-value=0.029 Score=44.17 Aligned_cols=42 Identities=31% Similarity=0.693 Sum_probs=29.7
Q ss_pred CCCCCCccCCCCCcceec-ccCCccchhHHHHhhhc-cCCCCCC
Q 002901 622 EDFDCPICISPPSDIIIT-CCAHIFCRSCILKTLQH-TKPCCPL 663 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t-~c~h~~c~~ci~~~~~~-~~~~cp~ 663 (869)
....||+....+.+|+.. .|+|+|.++.|.++++. ....||+
T Consensus 10 ~~~~CPiT~~~~~~PV~s~~C~H~fek~aI~~~i~~~~~~~CPv 53 (57)
T PF11789_consen 10 ISLKCPITLQPFEDPVKSKKCGHTFEKEAILQYIQRNGSKRCPV 53 (57)
T ss_dssp --SB-TTTSSB-SSEEEESSS--EEEHHHHHHHCTTTS-EE-SC
T ss_pred eccCCCCcCChhhCCcCcCCCCCeecHHHHHHHHHhcCCCCCCC
Confidence 357899999999999885 89999999999999943 4578987
No 228
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.95 E-value=0.027 Score=57.71 Aligned_cols=43 Identities=35% Similarity=0.905 Sum_probs=39.8
Q ss_pred CCCCccCCCCCcceec-ccCCccchhHHHHhhhccCCCCCCCCC
Q 002901 624 FDCPICISPPSDIIIT-CCAHIFCRSCILKTLQHTKPCCPLCRH 666 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~t-~c~h~~c~~ci~~~~~~~~~~cp~c~~ 666 (869)
..|+.|...+.+++-| +|+|.||.+||...+-.....||.|.+
T Consensus 275 LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCcccCccccchHHHHHHhhhhhhccccCCCccc
Confidence 5799999999999998 799999999999999999999999975
No 229
>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]
Probab=93.91 E-value=0.47 Score=56.67 Aligned_cols=85 Identities=13% Similarity=0.155 Sum_probs=48.9
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc-------CCcEEEEeCCCCHHHHHHHHHHhCCC----CCCCCEEEEEecCCccccc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA-------GFKLLRLDGSMNAKKRAQVIEEFGNP----GPGGPTVLLASLKASGAGV 782 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~-------gi~~~rldG~~~~~~R~~~i~~F~~~----~~~~~~VlL~S~~agg~GL 782 (869)
...+|||-..-.++|.+....... +.+-+.+--. +..+=.+++.+|.+. +......+-+.-...++||
T Consensus 561 p~G~L~FfPSY~vmdk~~tfw~~~~~we~~~~vk~l~vEPr-~k~~f~e~m~~y~~~i~~pes~ga~~~aVcRGKVSEGl 639 (945)
T KOG1132|consen 561 PYGLLIFFPSYPVMDKLITFWQNRGLWERMEKVKKLVVEPR-SKSEFTEVMSRYYNAIADPESSGAVFFAVCRGKVSEGL 639 (945)
T ss_pred ccceEEeccchHHHHHHHHHHHcchHHHHhhcccCceeccC-CccchHHHHHHHHHHhhCccccceEEEEEecccccCCC
Confidence 455889888777888875555442 2222222222 334455667777653 2222223445556778999
Q ss_pred ccc--ccCEEEEEcCCCCc
Q 002901 783 NLT--AASRVFLLEPWWNP 799 (869)
Q Consensus 783 NLt--~A~~Vi~~dp~wnp 799 (869)
+.. .+.-||..-.++=|
T Consensus 640 DFsD~~~RaVI~tGlPyP~ 658 (945)
T KOG1132|consen 640 DFSDDNGRAVIITGLPYPP 658 (945)
T ss_pred CccccCCceeEEecCCCCC
Confidence 984 46677877766533
No 230
>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B.
Probab=93.88 E-value=0.033 Score=52.17 Aligned_cols=35 Identities=23% Similarity=0.346 Sum_probs=26.9
Q ss_pred eEEEEcCccccCCcChHHHHHHhhc--ccCeEEEEeccc
Q 002901 423 WRVILDEAHVIKNANAQQSRTVTNL--NAKRRWVVTGTP 459 (869)
Q Consensus 423 ~rVIlDEaH~ikn~~s~~~ka~~~L--~a~~r~~LTGTP 459 (869)
..|||||+|++. +......++.+ ...-.++|.|||
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 679999999984 24555556555 567789999999
No 231
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=93.79 E-value=0.067 Score=45.35 Aligned_cols=33 Identities=42% Similarity=0.842 Sum_probs=28.7
Q ss_pred eecccCCccchhHHHHhhhcc--CCCCCCCCCCcc
Q 002901 637 IITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLL 669 (869)
Q Consensus 637 ~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~ 669 (869)
+.-.|.|.|..-||.+.++.+ ...||+||++..
T Consensus 48 v~g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 48 VWGKCSHNFHMHCILKWLSTQSSKGQCPMCRQPWK 82 (85)
T ss_pred eeccCccHHHHHHHHHHHccccCCCCCCCcCCeee
Confidence 566799999999999999875 689999998764
No 232
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.61 E-value=0.034 Score=61.08 Aligned_cols=47 Identities=43% Similarity=0.967 Sum_probs=39.7
Q ss_pred CCCCCccCCCCC-----------------cceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPS-----------------DIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~-----------------~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
...|+||+.+.+ +-..|+|.|+|.+.|++...+.-+-.||+||.++.
T Consensus 571 t~dC~ICMt~I~l~~~~s~~~~~~~~~~~nYm~tPC~HifH~~CL~~WMd~ykl~CPvCR~pLP 634 (636)
T KOG0828|consen 571 TNDCVICMTPIDLRSTGSDCMVASMMVRRNYMLTPCHHIFHRQCLLQWMDTYKLICPVCRCPLP 634 (636)
T ss_pred cccceEeccccceeeccCcchhhhhhhhccccccchHHHHHHHHHHHHHhhhcccCCccCCCCC
Confidence 457999998643 23578999999999999999988889999999875
No 233
>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]
Probab=93.13 E-value=0.13 Score=62.04 Aligned_cols=89 Identities=17% Similarity=0.154 Sum_probs=59.1
Q ss_pred ccceEEEecCh-hHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEE
Q 002901 348 GKKITLIVCPP-SVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVI 426 (869)
Q Consensus 348 ~~~~tLIV~P~-sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVI 426 (869)
+.+.+.+|+|. +++.-=.+...+....+.+++.-..|+...+...+.+.+++|||.+..-.........-.-.....+|
T Consensus 972 p~~kvvyIap~kalvker~~Dw~~r~~~~g~k~ie~tgd~~pd~~~v~~~~~~ittpek~dgi~Rsw~~r~~v~~v~~iv 1051 (1230)
T KOG0952|consen 972 PGSKVVYIAPDKALVKERSDDWSKRDELPGIKVIELTGDVTPDVKAVREADIVITTPEKWDGISRSWQTRKYVQSVSLIV 1051 (1230)
T ss_pred CCccEEEEcCCchhhcccccchhhhcccCCceeEeccCccCCChhheecCceEEcccccccCccccccchhhhcccccee
Confidence 34678999997 55543333333333345788999999877788899999999999887754432111111122345699
Q ss_pred EcCccccCCc
Q 002901 427 LDEAHVIKNA 436 (869)
Q Consensus 427 lDEaH~ikn~ 436 (869)
+||.|.....
T Consensus 1052 ~de~hllg~~ 1061 (1230)
T KOG0952|consen 1052 LDEIHLLGED 1061 (1230)
T ss_pred ecccccccCC
Confidence 9999998654
No 234
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=93.06 E-value=0.077 Score=56.34 Aligned_cols=49 Identities=29% Similarity=0.703 Sum_probs=40.5
Q ss_pred cCCCCCCCccCCCCCc-------------ceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 620 DGEDFDCPICISPPSD-------------IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~~-------------~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
...+..|.||++.+.. |--.+|+|++...|++-+++++. .||.||.++.
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ERqQ-TCPICr~p~i 345 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLERQQ-TCPICRRPVI 345 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHhcc-CCCcccCccc
Confidence 4567889999998432 45678999999999999999876 8999999853
No 235
>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=92.94 E-value=0.048 Score=54.18 Aligned_cols=44 Identities=25% Similarity=0.151 Sum_probs=28.3
Q ss_pred hhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 392 ELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 392 ~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
....+||||.+|..+..+............-..||+||||+|-+
T Consensus 116 ~~~~adivi~~y~yl~~~~~~~~~~~~~~~~~ivI~DEAHNL~~ 159 (174)
T PF06733_consen 116 LAKNADIVICNYNYLFDPSIRKSLFGIDLKDNIVIFDEAHNLED 159 (174)
T ss_dssp CGGG-SEEEEETHHHHSHHHHHHHCT--CCCEEEEETTGGGCGG
T ss_pred hcccCCEEEeCHHHHhhHHHHhhhccccccCcEEEEecccchHH
Confidence 34679999999999987653210111223446799999999854
No 236
>TIGR01447 recD exodeoxyribonuclease V, alpha subunit. This family describes the exodeoxyribonuclease V alpha subunit, RecD. RecD is part of a RecBCD complex. A related family in the Gram-positive bacteria separates in a phylogenetic tree, has an additional N-terminal extension of about 200 residues, and is not supported as a member of a RecBCD complex by neighboring genes. The related family is consequently described by a different model.
Probab=92.46 E-value=0.52 Score=55.95 Aligned_cols=43 Identities=16% Similarity=0.224 Sum_probs=33.2
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCCh
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGS 464 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l 464 (869)
..++.||||||-++-.+ .+.+.+..+....|++|.|=|-|=..
T Consensus 258 l~~dvlIiDEaSMvd~~--l~~~ll~al~~~~rlIlvGD~~QLps 300 (586)
T TIGR01447 258 LPLDVLVVDEASMVDLP--LMAKLLKALPPNTKLILLGDKNQLPS 300 (586)
T ss_pred CcccEEEEcccccCCHH--HHHHHHHhcCCCCEEEEECChhhCCC
Confidence 36789999999998543 45666777888899999999866443
No 237
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=92.13 E-value=0.073 Score=62.80 Aligned_cols=52 Identities=31% Similarity=0.548 Sum_probs=43.4
Q ss_pred CCCCCCCccCCCCCc-----ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 621 GEDFDCPICISPPSD-----IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~-----~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
..+..|.||.+.+.. +-..+|+|+||..|+..+++. ...||.||..+.....
T Consensus 289 ~~~~~C~IC~e~l~~~~~~~~~rL~C~Hifh~~CL~~W~er-~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHNITPKRLPCGHIFHDSCLRSWFER-QQTCPTCRTVLYDYVL 345 (543)
T ss_pred hcCCeeeeechhhccccccccceeecccchHHHHHHHHHHH-hCcCCcchhhhhcccc
Confidence 346789999999887 788999999999999999998 4589999985554433
No 238
>smart00492 HELICc3 helicase superfamily c-terminal domain.
Probab=91.87 E-value=1 Score=42.96 Aligned_cols=67 Identities=15% Similarity=0.241 Sum_probs=40.6
Q ss_pred HHHHHHHHHHcCC-------cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccc--cCEEEEEcCCC
Q 002901 727 LILLEEPLQAAGF-------KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTA--ASRVFLLEPWW 797 (869)
Q Consensus 727 ld~l~~~L~~~gi-------~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~--A~~Vi~~dp~w 797 (869)
++.+...+...++ ..+.+-| .+..+..+++++|+.. .++ .|| +++...++|+|+.. +..||+.-.|+
T Consensus 4 m~~v~~~~~~~~~~~~l~~~~~i~~e~-~~~~~~~~~l~~f~~~-~~~-~iL-~~~~~~~EGiD~~g~~~r~vii~glPf 79 (141)
T smart00492 4 MESFVQYWKENGILENINKNLLLLVQG-EDGKETGKLLEKYVEA-CEN-AIL-LATARFSEGVDFPGDYLRAVIIDGLPF 79 (141)
T ss_pred HHHHHHHHHHcCchhhHhcCCeEEEeC-CChhHHHHHHHHHHHc-CCC-EEE-EEccceecceecCCCCeeEEEEEecCC
Confidence 3444444444443 3334444 3445689999999973 211 344 55555999999965 56777777443
No 239
>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=91.79 E-value=1 Score=55.27 Aligned_cols=45 Identities=29% Similarity=0.329 Sum_probs=34.8
Q ss_pred cChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 200 ELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 200 ~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+.||.|++...-+..--.. ...++|--++|.|||+.+|+..+...
T Consensus 10 ~~y~~Q~~~m~~v~~~l~~-----------------------------~~~~llEsPTGtGKTlslL~~aL~~~ 54 (705)
T TIGR00604 10 KIYPEQRSYMRDLKRSLDR-----------------------------GDEAILEMPSGTGKTISLLSLILAYQ 54 (705)
T ss_pred CCCHHHHHHHHHHHHHhcc-----------------------------CCceEEeCCCCCCccHHHHHHHHHHH
Confidence 4699999998888763321 24688888999999999988877654
No 240
>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]
Probab=91.63 E-value=0.21 Score=55.95 Aligned_cols=27 Identities=33% Similarity=0.357 Sum_probs=23.4
Q ss_pred CCcceecCcCCChhHHHHHHHHhccCC
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~~~ 275 (869)
..|+|-.+.|.|||++.||||.+....
T Consensus 36 Gh~llEMPSGTGKTvsLLSli~aYq~~ 62 (755)
T KOG1131|consen 36 GHCLLEMPSGTGKTVSLLSLIIAYQLH 62 (755)
T ss_pred CcEEEECCCCCCcchHHHHHHHHHHHh
Confidence 468999999999999999999887643
No 241
>COG5152 Uncharacterized conserved protein, contains RING and CCCH-type Zn-fingers [General function prediction only]
Probab=91.54 E-value=0.069 Score=51.68 Aligned_cols=46 Identities=28% Similarity=0.667 Sum_probs=37.5
Q ss_pred CCCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCc
Q 002901 622 EDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
..+.|.+|-.....|++|.|+|.||..|..+-.+.. ..|-.|....
T Consensus 195 IPF~C~iCKkdy~spvvt~CGH~FC~~Cai~~y~kg-~~C~~Cgk~t 240 (259)
T COG5152 195 IPFLCGICKKDYESPVVTECGHSFCSLCAIRKYQKG-DECGVCGKAT 240 (259)
T ss_pred CceeehhchhhccchhhhhcchhHHHHHHHHHhccC-Ccceecchhh
Confidence 356799999999999999999999999988765543 4788887543
No 242
>KOG1813 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=91.52 E-value=0.079 Score=54.98 Aligned_cols=46 Identities=33% Similarity=0.676 Sum_probs=40.0
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
.+.|-+|......+|+|.|+|.||..|....++.. ..|.+|...+.
T Consensus 241 Pf~c~icr~~f~~pVvt~c~h~fc~~ca~~~~qk~-~~c~vC~~~t~ 286 (313)
T KOG1813|consen 241 PFKCFICRKYFYRPVVTKCGHYFCEVCALKPYQKG-EKCYVCSQQTH 286 (313)
T ss_pred CccccccccccccchhhcCCceeehhhhccccccC-Ccceecccccc
Confidence 45699999999999999999999999998877664 48999997765
No 243
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=91.21 E-value=1.8 Score=53.66 Aligned_cols=39 Identities=15% Similarity=0.051 Sum_probs=29.7
Q ss_pred hccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccC
Q 002901 393 LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIK 434 (869)
Q Consensus 393 l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ik 434 (869)
..++|||||++..+..+.... ..+ -.++.||+||||++-
T Consensus 411 a~~AdivItNHall~~~~~~~-~~~--p~~~~lIiDEAH~l~ 449 (820)
T PRK07246 411 AKTARLLITNHAYFLTRVQDD-KDF--ARNKVLVFDEAQKLM 449 (820)
T ss_pred HHhCCEEEEchHHHHHHHhhc-cCC--CCCCEEEEECcchhH
Confidence 467899999999998876322 122 357889999999985
No 244
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=91.16 E-value=0.13 Score=57.90 Aligned_cols=53 Identities=40% Similarity=0.934 Sum_probs=45.9
Q ss_pred CCCCCCccCCCCCcceec-ccCCccchhHHHHhhhccCCCCCCCCCCccCCCccc
Q 002901 622 EDFDCPICISPPSDIIIT-CCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFS 675 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t-~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~ 675 (869)
++..|++|...+.+++.+ .|+|.||..|+...... +..||.|+..+.....+.
T Consensus 20 ~~l~C~~C~~vl~~p~~~~~cgh~fC~~C~~~~~~~-~~~cp~~~~~~~~~~~~~ 73 (391)
T KOG0297|consen 20 ENLLCPICMSVLRDPVQTTTCGHRFCAGCLLESLSN-HQKCPVCRQELTQAEELP 73 (391)
T ss_pred ccccCccccccccCCCCCCCCCCcccccccchhhcc-CcCCcccccccchhhccC
Confidence 456799999999999995 99999999999999888 889999998887665543
No 245
>TIGR01448 recD_rel helicase, putative, RecD/TraA family. This model describes a family similar to RecD, the exodeoxyribonuclease V alpha chain of TIGR01447. Members of this family, however, are not found in a context of RecB and RecC and are longer by about 200 amino acids at the amino end. Chlamydia muridarum has both a member of this family and a RecD.
Probab=91.13 E-value=0.6 Score=57.03 Aligned_cols=42 Identities=19% Similarity=0.198 Sum_probs=31.1
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCC
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNG 463 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~ 463 (869)
...++||+|||+++-.. ...+.+..+....|++|-|=|-|-.
T Consensus 415 ~~~~llIvDEaSMvd~~--~~~~Ll~~~~~~~rlilvGD~~QLp 456 (720)
T TIGR01448 415 IDCDLLIVDESSMMDTW--LALSLLAALPDHARLLLVGDTDQLP 456 (720)
T ss_pred ccCCEEEEeccccCCHH--HHHHHHHhCCCCCEEEEECcccccc
Confidence 34678999999999432 3455566677788999999886643
No 246
>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]
Probab=90.67 E-value=0.72 Score=52.17 Aligned_cols=116 Identities=17% Similarity=0.119 Sum_probs=89.1
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH----cCC----cEEEEeCCCCHHHHHHHHHHhCCCCC
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA----AGF----KLLRLDGSMNAKKRAQVIEEFGNPGP 765 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~----~gi----~~~rldG~~~~~~R~~~i~~F~~~~~ 765 (869)
.++|+.....++.++... +-++|-|+..+...+++-...+. .|- .+..+.|+-+..+|.++-...-.+
T Consensus 507 ~~~~i~E~s~~~~~~i~~--~~R~IAFC~~R~~CEL~~~~~R~I~~ET~~~LV~~i~SYRGGY~A~DRRKIE~~~F~G-- 582 (1034)
T KOG4150|consen 507 KSSKVVEVSHLFAEMVQH--GLRCIAFCPSRKLCELVLCLTREILAETAPHLVEAITSYRGGYIAEDRRKIESDLFGG-- 582 (1034)
T ss_pred hhhHHHHHHHHHHHHHHc--CCcEEEeccHHHHHHHHHHHHHHHHHHhhHHHHHHHHhhcCccchhhHHHHHHHhhCC--
Confidence 477888877777777644 89999999999887766544333 221 134567888888988887764442
Q ss_pred CCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCc
Q 002901 766 GGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQK 815 (869)
Q Consensus 766 ~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~ 815 (869)
+ --=++++.|...|+++-.-+.|+++.-+.+-+...|-.||++|-...
T Consensus 583 -~-L~giIaTNALELGIDIG~LDAVl~~GFP~S~aNl~QQ~GRAGRRNk~ 630 (1034)
T KOG4150|consen 583 -K-LCGIIATNALELGIDIGHLDAVLHLGFPGSIANLWQQAGRAGRRNKP 630 (1034)
T ss_pred -e-eeEEEecchhhhccccccceeEEEccCchhHHHHHHHhccccccCCC
Confidence 2 23466889999999999999999999999999999999999996643
No 247
>smart00491 HELICc2 helicase superfamily c-terminal domain.
Probab=90.56 E-value=1.2 Score=42.49 Aligned_cols=69 Identities=14% Similarity=0.288 Sum_probs=39.9
Q ss_pred HHHHHHHHHHcCC----cEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCC--ccccccccc--cCEEEEEcCCC
Q 002901 727 LILLEEPLQAAGF----KLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKA--SGAGVNLTA--ASRVFLLEPWW 797 (869)
Q Consensus 727 ld~l~~~L~~~gi----~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~a--gg~GLNLt~--A~~Vi~~dp~w 797 (869)
++.+...+...++ ..+.+.+.. ..+..+++++|+.....+-.||+ +... .++|+|++. +..||+.-.|+
T Consensus 4 m~~v~~~~~~~~~~~~~~~i~~e~~~-~~~~~~~l~~f~~~~~~~g~iL~-~v~~G~~~EGiD~~g~~~r~vii~glPf 80 (142)
T smart00491 4 LEQVVEYWKENGILEINKPVFIEGKD-SGETEELLEKYSAACEARGALLL-AVARGKVSEGIDFPDDLGRAVIIVGIPF 80 (142)
T ss_pred HHHHHHHHHhcCccccCceEEEECCC-CchHHHHHHHHHHhcCCCCEEEE-EEeCCeeecceecCCCccEEEEEEecCC
Confidence 4444455554443 234445543 34567899999973221113444 3344 799999965 66788877554
No 248
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=90.45 E-value=0.21 Score=37.48 Aligned_cols=43 Identities=30% Similarity=0.743 Sum_probs=23.0
Q ss_pred CCccCCCCCc--cee--cccCCccchhHHHHhhhccCCCCCCCCCCc
Q 002901 626 CPICISPPSD--III--TCCAHIFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 626 c~~c~~~~~~--~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
|++|.+.+.. .-+ =.|+..+|+.|..+.+++....||.||.++
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 5677766532 122 258999999999999998899999999875
No 249
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.44 E-value=0.27 Score=49.49 Aligned_cols=61 Identities=15% Similarity=0.428 Sum_probs=51.6
Q ss_pred CCCCCCCccCCCCCc----ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCCCC
Q 002901 621 GEDFDCPICISPPSD----IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPESSD 682 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~----~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~~~ 682 (869)
...+.|++|.+.+.+ .++.+|+|++|.+|.++.+.... .||+|..++...|++.......+
T Consensus 219 s~ryiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir~D~-v~pv~d~plkdrdiI~LqrGGTG 283 (303)
T KOG3039|consen 219 SKRYICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIRKDM-VDPVTDKPLKDRDIIGLQRGGTG 283 (303)
T ss_pred ccceecccchhhhcCccceEEeccCCcEeeHHHHHHhccccc-cccCCCCcCcccceEeeeccccc
Confidence 356789999998876 57899999999999999987764 89999999999999887765543
No 250
>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]
Probab=90.27 E-value=0.93 Score=54.81 Aligned_cols=39 Identities=23% Similarity=0.244 Sum_probs=28.3
Q ss_pred ceeeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEeccccc
Q 002901 418 KKIEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQ 461 (869)
Q Consensus 418 ~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~ 461 (869)
..-+|+++|+|||-.|--|- .+--|.-..+++|-|-+.|
T Consensus 793 ~~R~FD~cIiDEASQI~lP~-----~LgPL~~s~kFVLVGDh~Q 831 (1100)
T KOG1805|consen 793 VNRQFDYCIIDEASQILLPL-----CLGPLSFSNKFVLVGDHYQ 831 (1100)
T ss_pred hccccCEEEEccccccccch-----hhhhhhhcceEEEeccccc
Confidence 44569999999998775542 3344567788889887755
No 251
>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=90.25 E-value=1.7 Score=44.65 Aligned_cols=108 Identities=19% Similarity=0.245 Sum_probs=72.8
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccCCCCC
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKCAGVA 278 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~~~~~ 278 (869)
.-+||-|.+-+..|.+... ..+.++=--||-|||-..+=+++.....+
T Consensus 22 iliR~~Q~~ia~~mi~~~~------------------------------~~n~v~QlnMGeGKTsVI~Pmla~~LAdg-- 69 (229)
T PF12340_consen 22 ILIRPVQVEIAREMISPPS------------------------------GKNSVMQLNMGEGKTSVIVPMLALALADG-- 69 (229)
T ss_pred ceeeHHHHHHHHHHhCCCC------------------------------CCCeEeeecccCCccchHHHHHHHHHcCC--
Confidence 4599999999999986322 24678888899999998776666554222
Q ss_pred CCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEEEecCh
Q 002901 279 PGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITLIVCPP 358 (869)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tLIV~P~ 358 (869)
.+=+-+|||.
T Consensus 70 ----------------------------------------------------------------------~~LvrviVpk 79 (229)
T PF12340_consen 70 ----------------------------------------------------------------------SRLVRVIVPK 79 (229)
T ss_pred ----------------------------------------------------------------------CcEEEEEcCH
Confidence 2347899999
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEeC--CCCCC--hhhh-----------ccccEEEEechhhHhh
Q 002901 359 SVFSTWITQLEEHTVPGMLKTYMYYG--DRTQD--VEEL-----------KMYDLVLTTYSTLAIE 409 (869)
Q Consensus 359 sll~qW~~Ei~~~~~~~~l~v~~y~G--~r~~~--~~~l-----------~~~dVVItTY~~l~~~ 409 (869)
+++.|-..-+...+. +-++-.+||= +|... ...+ ....|++++.+.+.+-
T Consensus 80 ~Ll~q~~~~L~~~lg-~l~~r~i~~lpFsR~~~~~~~~~~~~~~l~~~~~~~~gill~~PEhilSf 144 (229)
T PF12340_consen 80 ALLEQMRQMLRSRLG-GLLNRRIYHLPFSRSTPLTPETLEKIRQLLEECMRSGGILLATPEHILSF 144 (229)
T ss_pred HHHHHHHHHHHHHHH-HHhCCeeEEecccCCCCCCHHHHHHHHHHHHHHHHcCCEEEeChHHHHHH
Confidence 999999888888773 3233333332 44432 2211 3456999998877653
No 252
>PRK04296 thymidine kinase; Provisional
Probab=90.20 E-value=0.44 Score=48.07 Aligned_cols=22 Identities=23% Similarity=0.161 Sum_probs=17.0
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
++.-+||.|||..++.++....
T Consensus 6 litG~~GsGKTT~~l~~~~~~~ 27 (190)
T PRK04296 6 FIYGAMNSGKSTELLQRAYNYE 27 (190)
T ss_pred EEECCCCCHHHHHHHHHHHHHH
Confidence 3445899999999988887653
No 253
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=90.03 E-value=2.7 Score=44.64 Aligned_cols=24 Identities=33% Similarity=0.184 Sum_probs=19.0
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
.+-+|.-+.|.|||..|-++....
T Consensus 43 ~~vll~GppGtGKTtlA~~ia~~l 66 (261)
T TIGR02881 43 LHMIFKGNPGTGKTTVARILGKLF 66 (261)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHH
Confidence 456788999999999887776543
No 254
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=89.73 E-value=2.5 Score=51.57 Aligned_cols=94 Identities=18% Similarity=0.316 Sum_probs=61.4
Q ss_pred hHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CCcEEEEeCCCCHHHHHHHHHHhCCC-CCCCCEEEEEe
Q 002901 697 KVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNP-GPGGPTVLLAS 774 (869)
Q Consensus 697 K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi~~~rldG~~~~~~R~~~i~~F~~~-~~~~~~VlL~S 774 (869)
=.+.+.+.|.++.. . +.+++||...-.++..+...|... +.. +...|. ..|.+++++|++. +.+...||+.+
T Consensus 519 ~~~~~~~~i~~l~~-~-~gg~LVlFtSy~~l~~v~~~l~~~~~~~-ll~Q~~---~~~~~ll~~f~~~~~~~~~~VL~g~ 592 (697)
T PRK11747 519 HTAEMAEFLPELLE-K-HKGSLVLFASRRQMQKVADLLPRDLRLM-LLVQGD---QPRQRLLEKHKKRVDEGEGSVLFGL 592 (697)
T ss_pred HHHHHHHHHHHHHh-c-CCCEEEEeCcHHHHHHHHHHHHHhcCCc-EEEeCC---chHHHHHHHHHHHhccCCCeEEEEe
Confidence 35677777777665 3 334677766677778888888643 433 444664 3578899877741 00111566654
Q ss_pred cCCccccccccc--cCEEEEEcCCC
Q 002901 775 LKASGAGVNLTA--ASRVFLLEPWW 797 (869)
Q Consensus 775 ~~agg~GLNLt~--A~~Vi~~dp~w 797 (869)
....+|+|+.. .+.||+.-.|+
T Consensus 593 -~sf~EGVD~pGd~l~~vII~kLPF 616 (697)
T PRK11747 593 -QSFAEGLDLPGDYLTQVIITKIPF 616 (697)
T ss_pred -ccccccccCCCCceEEEEEEcCCC
Confidence 88899999954 78888887665
No 255
>PRK10875 recD exonuclease V subunit alpha; Provisional
Probab=89.18 E-value=0.92 Score=54.09 Aligned_cols=44 Identities=20% Similarity=0.245 Sum_probs=34.5
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChh
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSF 465 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~ 465 (869)
..++.||+|||-++- ...+++.+.++....|++|-|=|-|-..-
T Consensus 264 l~~dvlIvDEaSMvd--~~lm~~ll~al~~~~rlIlvGD~~QL~sV 307 (615)
T PRK10875 264 LHLDVLVVDEASMVD--LPMMARLIDALPPHARVIFLGDRDQLASV 307 (615)
T ss_pred CCCCeEEEChHhccc--HHHHHHHHHhcccCCEEEEecchhhcCCC
Confidence 456899999999984 34566777888889999999998765443
No 256
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=89.17 E-value=0.15 Score=51.83 Aligned_cols=45 Identities=31% Similarity=0.896 Sum_probs=34.0
Q ss_pred CCCccCCCCC--cceecccCCccchhHHHHhhhccCCCCCCCCCCccCCC
Q 002901 625 DCPICISPPS--DIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSD 672 (869)
Q Consensus 625 ~c~~c~~~~~--~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~ 672 (869)
.|..|..-+. .-.+|.|.|+||..|....... .||.|+..+....
T Consensus 5 hCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~---~C~lCkk~ir~i~ 51 (233)
T KOG4739|consen 5 HCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD---VCPLCKKSIRIIQ 51 (233)
T ss_pred EeccccccCCCCceeeeechhhhhhhhcccCCcc---ccccccceeeeee
Confidence 4777776554 3578999999999998765443 8999998876443
No 257
>PLN03025 replication factor C subunit; Provisional
Probab=89.02 E-value=6.6 Score=43.08 Aligned_cols=60 Identities=18% Similarity=0.206 Sum_probs=40.3
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhh----cccCeEEEEecccccCChhhhHhhhhhhccCCCCchH
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTN----LNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKS 483 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~----L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~ 483 (869)
.|..|||||+|.+-.. ...++.. .....++++++++...-+..|.|-...++..++++..
T Consensus 99 ~~kviiiDE~d~lt~~---aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~ 162 (319)
T PLN03025 99 RHKIVILDEADSMTSG---AQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQE 162 (319)
T ss_pred CeEEEEEechhhcCHH---HHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHH
Confidence 4788999999998432 1222222 2455678998887766667777777777777766543
No 258
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=88.86 E-value=0.25 Score=51.84 Aligned_cols=53 Identities=26% Similarity=0.592 Sum_probs=42.4
Q ss_pred CCCCCCCccCCCCCc----ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 621 GEDFDCPICISPPSD----IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~----~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
.+++.|+.|.+++.- -.--+|+-..|+-|+....+...+.||.||+.+....+
T Consensus 12 deed~cplcie~mditdknf~pc~cgy~ic~fc~~~irq~lngrcpacrr~y~denv 68 (480)
T COG5175 12 DEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIRQNLNGRCPACRRKYDDENV 68 (480)
T ss_pred cccccCcccccccccccCCcccCCcccHHHHHHHHHHHhhccCCChHhhhhccccce
Confidence 345569999998752 22346899999999999999999999999998876554
No 259
>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=87.90 E-value=9.2 Score=43.51 Aligned_cols=145 Identities=12% Similarity=0.164 Sum_probs=102.8
Q ss_pred CcchHHHHHHHHHHhhh-cCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 694 TSSKVSALLTLLLQLRD-KKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~-~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
...+++...+.+..... .....++|||...---.-.|...|+..++.|+.++--++.++-.++-..|..+ ...+||
T Consensus 279 ~d~Rf~yF~~~iLP~l~~~~~~~~~LIfIPSYfDfVRlRN~lk~~~~sF~~i~EYts~~~isRAR~~F~~G---~~~iLL 355 (442)
T PF06862_consen 279 PDARFKYFTKKILPQLKRDSKMSGTLIFIPSYFDFVRLRNYLKKENISFVQISEYTSNSDISRARSQFFHG---RKPILL 355 (442)
T ss_pred hhHHHHHHHHHHHHHhhhccCCCcEEEEecchhhhHHHHHHHHhcCCeEEEecccCCHHHHHHHHHHHHcC---CceEEE
Confidence 46788888885544433 45567899997654444568888999999999999999999999999999995 348999
Q ss_pred EecCCccc-cccccccCEEEEEcCCCCcchHHHHhhhhhhcCC----cccEEEEEEEeC-CCH-HHHHHHHHHHHH
Q 002901 773 ASLKASGA-GVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQ----KEDVKIVRLIVR-NSI-EERILELQDRKK 841 (869)
Q Consensus 773 ~S~~agg~-GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ----~k~V~V~rli~~-~si-Ee~i~~~q~~K~ 841 (869)
.|-++-=- =..+..+.+||+|.||-+|.-....+.-+..-.+ ..+..|.-|.++ |.. =|+|...+..++
T Consensus 356 ~TER~HFfrRy~irGi~~viFY~~P~~p~fY~El~n~~~~~~~~~~~~~~~~~~~lysk~D~~~LErIVGt~ra~~ 431 (442)
T PF06862_consen 356 YTERFHFFRRYRIRGIRHVIFYGPPENPQFYSELLNMLDESSGGEVDAADATVTVLYSKYDALRLERIVGTERASK 431 (442)
T ss_pred EEhHHhhhhhceecCCcEEEEECCCCChhHHHHHHhhhcccccccccccCceEEEEecHhHHHHHHHHhCHHHHHH
Confidence 98443211 2356779999999999999888888765544333 334666666665 332 245555554443
No 260
>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]
Probab=87.56 E-value=0.24 Score=61.08 Aligned_cols=80 Identities=23% Similarity=0.301 Sum_probs=48.1
Q ss_pred cccccccChHHHHHHHHHHHHhhcCC------CCCCcccc-------cCCceeeeccccccCCCCCCCCCcceecCcCCC
Q 002901 194 KEVIKSELFVHQKEGLGWLVRRENSE------ELPPFWEE-------KGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLG 260 (869)
Q Consensus 194 ~~~~~~~L~p~Q~~al~wm~~~e~~~------~~~~~w~~-------~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLG 260 (869)
......++++||...+.||..++..- ...+.=.. ..+.+.+.-.+.... .-....||.+||+||||
T Consensus 239 ~~~~~~~~r~~~~r~~~~~~~~~~e~~~~s~~~It~~~~~di~~~~~~~l~~~~~~~~~~l~-~e~l~~~~t~~de~gl~ 317 (1394)
T KOG0298|consen 239 IKRFQSQLRKYQQRTVSWMPSREQEYTQVSANFITLHLIDDITRVFKLKLCFQFYSFEEELP-KESLSPGGTLADEMGLG 317 (1394)
T ss_pred HHHhhhhccHHHHHHHHhccccchhhhhccccccccccccchHHHhhhccceecccccccch-hccCCCcchHHHHhhhH
Confidence 34567899999999999999988721 11100000 011111110000000 00134579999999999
Q ss_pred hhHHHHHHHHhccC
Q 002901 261 KTLTLLSLIALDKC 274 (869)
Q Consensus 261 KTl~~lali~~~~~ 274 (869)
||..-++.+..+..
T Consensus 318 k~~E~~a~~~~n~~ 331 (1394)
T KOG0298|consen 318 KTVEFLAMLTSNRR 331 (1394)
T ss_pred HHHHHHHHHhccCC
Confidence 99999999988763
No 261
>PF04641 Rtf2: Rtf2 RING-finger
Probab=87.55 E-value=0.57 Score=49.76 Aligned_cols=58 Identities=19% Similarity=0.517 Sum_probs=46.9
Q ss_pred CCCCCCCccCCCCCc----ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCC
Q 002901 621 GEDFDCPICISPPSD----IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPES 680 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~----~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~ 680 (869)
...+.||++...+.. .++-+|||+|+..|+...- ....||+|..++...|++.+.+..
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG~V~s~~alke~k--~~~~Cp~c~~~f~~~DiI~Lnp~~ 172 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCGCVFSEKALKELK--KSKKCPVCGKPFTEEDIIPLNPPE 172 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCCCEeeHHHHHhhc--ccccccccCCccccCCEEEecCCc
Confidence 345789999888753 5678999999999999994 455799999999999988765543
No 262
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=87.42 E-value=0.32 Score=37.46 Aligned_cols=46 Identities=24% Similarity=0.600 Sum_probs=35.4
Q ss_pred CCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCC
Q 002901 624 FDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSD 672 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~ 672 (869)
..|-.|.......++.+|+|+.|..|+-- .....||.|..++...+
T Consensus 8 ~~~~~~~~~~~~~~~~pCgH~I~~~~f~~---~rYngCPfC~~~~~~~~ 53 (55)
T PF14447_consen 8 QPCVFCGFVGTKGTVLPCGHLICDNCFPG---ERYNGCPFCGTPFEFDD 53 (55)
T ss_pred eeEEEccccccccccccccceeeccccCh---hhccCCCCCCCcccCCC
Confidence 34666666667788999999999999753 23568999999987654
No 263
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=87.36 E-value=0.33 Score=52.85 Aligned_cols=51 Identities=35% Similarity=0.780 Sum_probs=39.8
Q ss_pred hcCCCCCCCccCCCCCcce--------ecccCCccchhHHHHhhhcc------CCCCCCCCCCcc
Q 002901 619 QDGEDFDCPICISPPSDII--------ITCCAHIFCRSCILKTLQHT------KPCCPLCRHPLL 669 (869)
Q Consensus 619 ~~~~~~~c~~c~~~~~~~~--------~t~c~h~~c~~ci~~~~~~~------~~~cp~c~~~~~ 669 (869)
+...+.+|.||++...+.. ...|.|.||..|+...-+.. ...||.||....
T Consensus 157 ~~s~~k~CGICme~i~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s~ 221 (344)
T KOG1039|consen 157 QKSSEKECGICMETINEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPSS 221 (344)
T ss_pred CccccccceehhhhccccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCccc
Confidence 3466789999998765533 46799999999999987544 378999997665
No 264
>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional
Probab=87.19 E-value=0.41 Score=58.36 Aligned_cols=44 Identities=18% Similarity=0.177 Sum_probs=32.8
Q ss_pred hhccccEEEEechhhHhhhcc-cCCCcceeeeeEEEEcCccccCC
Q 002901 392 ELKMYDLVLTTYSTLAIEESW-LESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 392 ~l~~~dVVItTY~~l~~~~~~-~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
....+|||||++..+.++... ....|.......+|+||||++-.
T Consensus 216 ~a~~AdivVtNH~LLladl~~~~~~iLp~~~~~~lViDEAH~L~d 260 (697)
T PRK11747 216 EIDEADVVVANHDLVLADLELGGGVVLPDPENLLYVLDEGHHLPD 260 (697)
T ss_pred HHhhCCEEEECcHHHHhhhhccCCcccCCCCCCEEEEECccchHH
Confidence 357899999999999998843 22233334578899999999954
No 265
>KOG1571 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.99 E-value=0.24 Score=53.21 Aligned_cols=43 Identities=30% Similarity=0.867 Sum_probs=32.9
Q ss_pred CCCCCccCCCCCcceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPSDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
...|.+|.+.+.+.+..+|+|..| |..-... -+.||+||..+.
T Consensus 305 p~lcVVcl~e~~~~~fvpcGh~cc--ct~cs~~--l~~CPvCR~rI~ 347 (355)
T KOG1571|consen 305 PDLCVVCLDEPKSAVFVPCGHVCC--CTLCSKH--LPQCPVCRQRIR 347 (355)
T ss_pred CCceEEecCCccceeeecCCcEEE--chHHHhh--CCCCchhHHHHH
Confidence 456999999999999999999977 4433222 234999998764
No 266
>PHA02533 17 large terminase protein; Provisional
Probab=86.38 E-value=5.1 Score=47.13 Aligned_cols=42 Identities=19% Similarity=0.291 Sum_probs=26.5
Q ss_pred cceeeeeEEEEcCccccCCcChHHHHHHhh-ccc--CeEEEEeccc
Q 002901 417 VKKIEWWRVILDEAHVIKNANAQQSRTVTN-LNA--KRRWVVTGTP 459 (869)
Q Consensus 417 l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~-L~a--~~r~~LTGTP 459 (869)
.......++|+||+|.+++.. ....++.. |.+ ..++.+..||
T Consensus 165 ~rG~~~~~liiDE~a~~~~~~-e~~~ai~p~lasg~~~r~iiiSTp 209 (534)
T PHA02533 165 VRGNSFAMIYIDECAFIPNFI-DFWLAIQPVISSGRSSKIIITSTP 209 (534)
T ss_pred cCCCCCceEEEeccccCCCHH-HHHHHHHHHHHcCCCceEEEEECC
Confidence 345566789999999998743 22233332 222 2468888898
No 267
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=86.17 E-value=4 Score=42.06 Aligned_cols=24 Identities=25% Similarity=0.126 Sum_probs=18.5
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
+.-+|--+.|.|||..+.++....
T Consensus 39 ~~lll~G~~G~GKT~la~~~~~~~ 62 (226)
T TIGR03420 39 RFLYLWGESGSGKSHLLQAACAAA 62 (226)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHH
Confidence 345677799999999988877653
No 268
>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]
Probab=85.48 E-value=1.7 Score=54.02 Aligned_cols=79 Identities=15% Similarity=0.263 Sum_probs=58.7
Q ss_pred cceEEEecChhHH-----HHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhHhhhcccCCCcceeeee
Q 002901 349 KKITLIVCPPSVF-----STWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWW 423 (869)
Q Consensus 349 ~~~tLIV~P~sll-----~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~ 423 (869)
.....-|+|...+ .-|.+-|.+. ..+.+....|....+...+...+|+|.|......-. .++.+ +
T Consensus 1186 ~~~~vyi~p~~~i~~~~~~~w~~~f~~~---~G~~~~~l~ge~s~~lkl~~~~~vii~tpe~~d~lq-----~iQ~v--~ 1255 (1674)
T KOG0951|consen 1186 IGRAVYIAPLEEIADEQYRDWEKKFSKL---LGLRIVKLTGETSLDLKLLQKGQVIISTPEQWDLLQ-----SIQQV--D 1255 (1674)
T ss_pred ceEEEEecchHHHHHHHHHHHHHhhccc---cCceEEecCCccccchHHhhhcceEEechhHHHHHh-----hhhhc--c
Confidence 4567889998654 5577766655 367788888888889999999999999987775542 22333 4
Q ss_pred EEEEcCccccCCcC
Q 002901 424 RVILDEAHVIKNAN 437 (869)
Q Consensus 424 rVIlDEaH~ikn~~ 437 (869)
+.|.||.|.|....
T Consensus 1256 l~i~d~lh~igg~~ 1269 (1674)
T KOG0951|consen 1256 LFIVDELHLIGGVY 1269 (1674)
T ss_pred eEeeehhhhhcccC
Confidence 47999999998654
No 269
>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=84.63 E-value=2.4 Score=50.21 Aligned_cols=167 Identities=16% Similarity=0.100 Sum_probs=103.6
Q ss_pred cccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 194 KEVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 194 ~~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
|....++..|||++-+.-|.... ++.-.+.-..-+|||..++..+....
T Consensus 10 pG~w~~~~~Py~~eimd~~~~~~-------------------------------v~~Vv~~k~aQ~GkT~~~~n~~g~~i 58 (557)
T PF05876_consen 10 PGPWRTDRTPYLREIMDALSDPS-------------------------------VREVVVMKSAQVGKTELLLNWIGYSI 58 (557)
T ss_pred CCCCCCCCChhHHHHHHhcCCcC-------------------------------ccEEEEEEcchhhHhHHHHhhceEEE
Confidence 34477899999999888775421 24556666788999998888877665
Q ss_pred CCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCcccccccCCccccccceEE
Q 002901 274 CAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSVGMLNKSSSFMGKKITL 353 (869)
Q Consensus 274 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tL 353 (869)
.. .+.++|
T Consensus 59 ~~------------------------------------------------------------------------~P~~~l 66 (557)
T PF05876_consen 59 DQ------------------------------------------------------------------------DPGPML 66 (557)
T ss_pred Ee------------------------------------------------------------------------CCCCEE
Confidence 32 356799
Q ss_pred EecCh-hHHHHHH-HHHHHhcCC-CCeEEEEEeC-----CCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEE
Q 002901 354 IVCPP-SVFSTWI-TQLEEHTVP-GMLKTYMYYG-----DRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRV 425 (869)
Q Consensus 354 IV~P~-sll~qW~-~Ei~~~~~~-~~l~v~~y~G-----~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rV 425 (869)
+|.|. .....|. ..|...+.. +.++-.+... ..+...+.+...-+.+...++- +.|.+..-.+|
T Consensus 67 ~v~Pt~~~a~~~~~~rl~Pmi~~sp~l~~~~~~~~~~~~~~t~~~k~f~gg~l~~~ga~S~--------~~l~s~~~r~~ 138 (557)
T PF05876_consen 67 YVQPTDDAAKDFSKERLDPMIRASPVLRRKLSPSKSRDSGNTILYKRFPGGFLYLVGANSP--------SNLRSRPARYL 138 (557)
T ss_pred EEEEcHHHHHHHHHHHHHHHHHhCHHHHHHhCchhhcccCCchhheecCCCEEEEEeCCCC--------cccccCCcCEE
Confidence 99998 4567776 445544421 2333222210 1111112222333555555444 45667777889
Q ss_pred EEcCcccc----CCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhh
Q 002901 426 ILDEAHVI----KNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLM 471 (869)
Q Consensus 426 IlDEaH~i----kn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll 471 (869)
++||...+ .+.......+.... ...++.++..||.......+..+.
T Consensus 139 ~~DEvD~~p~~~~~eGdp~~la~~R~~tf~~~~K~~~~STPt~~~~~~I~~~~ 191 (557)
T PF05876_consen 139 LLDEVDRYPDDVGGEGDPVELAEKRTKTFGSNRKILRISTPTIEGTSRIERLY 191 (557)
T ss_pred EEechhhccccCccCCCHHHHHHHHHhhhccCcEEEEeCCCCCCCCCHHHHHH
Confidence 99999987 34445555555544 467889999999877655555443
No 270
>KOG4275 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.74 E-value=0.19 Score=51.89 Aligned_cols=40 Identities=33% Similarity=0.870 Sum_probs=34.1
Q ss_pred CCCCccCCCCCcceecccCC-ccchhHHHHhhhccCCCCCCCCCCc
Q 002901 624 FDCPICISPPSDIIITCCAH-IFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~t~c~h-~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
.-|.||++.+.+-++..|+| +-|-.|-.++- .||.||..+
T Consensus 301 ~LC~ICmDaP~DCvfLeCGHmVtCt~CGkrm~-----eCPICRqyi 341 (350)
T KOG4275|consen 301 RLCAICMDAPRDCVFLECGHMVTCTKCGKRMN-----ECPICRQYI 341 (350)
T ss_pred HHHHHHhcCCcceEEeecCcEEeehhhccccc-----cCchHHHHH
Confidence 44999999999999999999 56888877664 899999654
No 271
>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=81.95 E-value=0.99 Score=47.05 Aligned_cols=49 Identities=27% Similarity=0.694 Sum_probs=39.5
Q ss_pred CCCccCCCC-----CcceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 625 DCPICISPP-----SDIIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 625 ~c~~c~~~~-----~~~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
.|+.|-..- -...+..|+|..|-+|+-..+......||.|...+....+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFSLGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHhcCCCCCCcccchhhhccc
Confidence 488886532 2245569999999999999999999999999998876654
No 272
>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]
Probab=81.53 E-value=2 Score=46.79 Aligned_cols=38 Identities=26% Similarity=0.315 Sum_probs=26.4
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcccCeEEEEeccccc
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQ 461 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~ 461 (869)
-..||+|||+++--+ ..--.+-..-...+++|||-|.|
T Consensus 352 ~~FiIIDEaQNLTph--eikTiltR~G~GsKIVl~gd~aQ 389 (436)
T COG1875 352 DSFIIIDEAQNLTPH--ELKTILTRAGEGSKIVLTGDPAQ 389 (436)
T ss_pred cceEEEehhhccCHH--HHHHHHHhccCCCEEEEcCCHHH
Confidence 345999999998432 22233444567789999999966
No 273
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=81.03 E-value=0.73 Score=54.86 Aligned_cols=49 Identities=27% Similarity=0.633 Sum_probs=38.7
Q ss_pred CCCCCCCccCCCCC-------cceecccCCccchhHHHHhhhcc-CCCCCCCCCCcc
Q 002901 621 GEDFDCPICISPPS-------DIIITCCAHIFCRSCILKTLQHT-KPCCPLCRHPLL 669 (869)
Q Consensus 621 ~~~~~c~~c~~~~~-------~~~~t~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~ 669 (869)
...++|+||.+.+. ...-..|.|.|...|+.++.... ...||+||..+.
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~TCknKFH~~CLyKWf~Ss~~s~CPlCRseit 1523 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCATCKNKFHTRCLYKWFASSARSNCPLCRSEIT 1523 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccchhhhhhhHHHHHHHHHhcCCCCCCccccccc
Confidence 45678999987543 23455699999999999998876 578999997664
No 274
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=80.96 E-value=8.1 Score=46.75 Aligned_cols=61 Identities=13% Similarity=0.221 Sum_probs=38.4
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCch
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVK 482 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~ 482 (869)
-+|..+||||+|++.+.. ....++.| ...-+++|+.|=.+.=+.-+.|-...++..++...
T Consensus 118 gr~KVIIIDEah~LT~~A--~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~e 181 (830)
T PRK07003 118 ARFKVYMIDEVHMLTNHA--FNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAG 181 (830)
T ss_pred CCceEEEEeChhhCCHHH--HHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHH
Confidence 367889999999995421 22233334 34678888888655555556665555555655443
No 275
>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.74 E-value=1 Score=51.57 Aligned_cols=21 Identities=33% Similarity=0.230 Sum_probs=17.7
Q ss_pred cCcCCChhHHHHHHHHhccCC
Q 002901 255 DDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 255 D~mGLGKTl~~lali~~~~~~ 275 (869)
..+|.|||+++.+||+.....
T Consensus 4 matgsgkt~~ma~lil~~y~k 24 (812)
T COG3421 4 MATGSGKTLVMAGLILECYKK 24 (812)
T ss_pred cccCCChhhHHHHHHHHHHHh
Confidence 368999999999999987643
No 276
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=80.10 E-value=0.7 Score=37.82 Aligned_cols=44 Identities=39% Similarity=0.871 Sum_probs=32.6
Q ss_pred CCccCCCCCc--ceecccCCccchhHHHHhhhcc--CCCCCCCCCCcc
Q 002901 626 CPICISPPSD--IIITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLL 669 (869)
Q Consensus 626 c~~c~~~~~~--~~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~ 669 (869)
|+.|..+-++ .+...|.|.|-.-||.+.+... ...||+||....
T Consensus 34 Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~tsq~~CPmcRq~~~ 81 (84)
T KOG1493|consen 34 CPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPTSQGQCPMCRQTWQ 81 (84)
T ss_pred CCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCccccccCCcchheeE
Confidence 4555444444 3567899999999999998765 578999997543
No 277
>PRK14960 DNA polymerase III subunits gamma and tau; Provisional
Probab=79.89 E-value=19 Score=43.18 Aligned_cols=59 Identities=15% Similarity=0.268 Sum_probs=33.8
Q ss_pred eeeEEEEcCccccCCcChHHHHHHh-hc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCch
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVT-NL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVK 482 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~-~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~ 482 (869)
+|..+||||+|++-.. ...++. .| ...-+++|+.|=...-+.-+.|-...++..+++..
T Consensus 118 k~KV~IIDEVh~LS~~---A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~e 180 (702)
T PRK14960 118 RFKVYLIDEVHMLSTH---SFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVD 180 (702)
T ss_pred CcEEEEEechHhcCHH---HHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHH
Confidence 5678999999998432 222333 23 34457788776444334444555555555565543
No 278
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=79.85 E-value=0.86 Score=50.20 Aligned_cols=46 Identities=30% Similarity=0.678 Sum_probs=35.8
Q ss_pred CCCCCCCccCCCCCcc----eecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 621 GEDFDCPICISPPSDI----IITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~----~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
.+..+|++|++.++.. +-+.|.|.|-..|+...... .||+||.-..
T Consensus 173 tELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~~~---scpvcR~~q~ 222 (493)
T KOG0804|consen 173 TELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWWDS---SCPVCRYCQS 222 (493)
T ss_pred ccCCCcchhHhhcCccccceeeeecccccchHHHhhcccC---cChhhhhhcC
Confidence 3567899999887653 45679999999999987655 6888886554
No 279
>CHL00181 cbbX CbbX; Provisional
Probab=77.09 E-value=7.5 Score=41.93 Aligned_cols=23 Identities=26% Similarity=0.274 Sum_probs=18.8
Q ss_pred CcceecCcCCChhHHHHHHHHhc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~ 272 (869)
.-+|--+.|.|||..|-++....
T Consensus 61 ~ill~G~pGtGKT~lAr~la~~~ 83 (287)
T CHL00181 61 HMSFTGSPGTGKTTVALKMADIL 83 (287)
T ss_pred eEEEECCCCCCHHHHHHHHHHHH
Confidence 35788899999999998886654
No 280
>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=76.55 E-value=19 Score=43.21 Aligned_cols=41 Identities=17% Similarity=0.107 Sum_probs=29.8
Q ss_pred hccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 393 LKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 393 l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
...+|||||++..+..........| -....||+||||++-.
T Consensus 180 a~~AdivItNHalL~~~~~~~~~iL--P~~~~lIiDEAH~L~d 220 (636)
T TIGR03117 180 ARRCRILFCTHAMLGLAFRDKWGLL--PQPDILIVDEAHLFEQ 220 (636)
T ss_pred cccCCEEEECHHHHHHHhhhhcCCC--CCCCEEEEeCCcchHH
Confidence 4678999999999987653221222 2367899999999854
No 281
>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=76.26 E-value=12 Score=40.39 Aligned_cols=25 Identities=24% Similarity=0.251 Sum_probs=19.4
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|.-+.|.|||..|-++.....
T Consensus 59 ~~vll~G~pGTGKT~lA~~ia~~l~ 83 (284)
T TIGR02880 59 LHMSFTGNPGTGKTTVALRMAQILH 83 (284)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHH
Confidence 4567888999999999877765543
No 282
>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=75.88 E-value=8.3 Score=47.50 Aligned_cols=40 Identities=25% Similarity=0.322 Sum_probs=26.3
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhh-cccCeEEEEecccccC
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTN-LNAKRRWVVTGTPIQN 462 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~-L~a~~r~~LTGTPi~N 462 (869)
..++||||||-++... ...+.+.. .....+++|-|=|-|-
T Consensus 439 ~~~llIvDEasMv~~~--~~~~Ll~~~~~~~~kliLVGD~~QL 479 (744)
T TIGR02768 439 DKDVLVIDEAGMVGSR--QMARVLKEAEEAGAKVVLVGDPEQL 479 (744)
T ss_pred CCcEEEEECcccCCHH--HHHHHHHHHHhcCCEEEEECChHHc
Confidence 5678999999998543 22333332 2467789999966553
No 283
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=75.87 E-value=8.9 Score=43.15 Aligned_cols=56 Identities=11% Similarity=0.136 Sum_probs=34.0
Q ss_pred eeeEEEEcCccccCCcCh---HHHHHHhhcc--cCeEEEEecccccCChhhhHhhhhhhcc
Q 002901 421 EWWRVILDEAHVIKNANA---QQSRTVTNLN--AKRRWVVTGTPIQNGSFDLFSLMAFLQF 476 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s---~~~ka~~~L~--a~~r~~LTGTPi~N~l~DL~sll~fL~~ 476 (869)
..++||+|++.+.....- ...+.+.... .+..++|++|==++.+.+.+.-+..+.+
T Consensus 254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~~~~~~~~~~~~~~~~ 314 (388)
T PRK12723 254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKTSDVKEIFHQFSPFSY 314 (388)
T ss_pred CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHhcCCCC
Confidence 467899999987643221 2222222222 3567899999877777766665554443
No 284
>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=75.27 E-value=1.1 Score=45.09 Aligned_cols=53 Identities=32% Similarity=0.678 Sum_probs=40.9
Q ss_pred CCCCCCCccCCCCC-----cceecc-cCCccchhHHHHhhhccCCCCC--CCCCCccCCCc
Q 002901 621 GEDFDCPICISPPS-----DIIITC-CAHIFCRSCILKTLQHTKPCCP--LCRHPLLQSDL 673 (869)
Q Consensus 621 ~~~~~c~~c~~~~~-----~~~~t~-c~h~~c~~ci~~~~~~~~~~cp--~c~~~~~~~~~ 673 (869)
..+..||+|....- ..++.+ |.|..|.+|+.+.+....+.|| .|...+.+..+
T Consensus 8 ~~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs~GpAqCP~~gC~kILRK~kf 68 (314)
T COG5220 8 MEDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFSRGPAQCPYKGCGKILRKIKF 68 (314)
T ss_pred hhcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhcCCCCCCCCccHHHHHHHhcc
Confidence 34568999976531 234555 9999999999999999999999 79877665444
No 285
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=74.90 E-value=3.6 Score=41.95 Aligned_cols=25 Identities=28% Similarity=0.223 Sum_probs=21.6
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
..-|++-..|.|||-++++|.....
T Consensus 49 P~liisGpPG~GKTTsi~~LAr~LL 73 (333)
T KOG0991|consen 49 PNLIISGPPGTGKTTSILCLARELL 73 (333)
T ss_pred CceEeeCCCCCchhhHHHHHHHHHh
Confidence 3678899999999999999988765
No 286
>KOG1645 consensus RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.64 E-value=1.4 Score=48.07 Aligned_cols=51 Identities=33% Similarity=0.707 Sum_probs=40.1
Q ss_pred CCCCccCCCCCc-----ceecccCCccchhHHHHhhhcc-CCCCCCCCCCccCCCcc
Q 002901 624 FDCPICISPPSD-----IIITCCAHIFCRSCILKTLQHT-KPCCPLCRHPLLQSDLF 674 (869)
Q Consensus 624 ~~c~~c~~~~~~-----~~~t~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~~~~~~ 674 (869)
.+|++|++...- .++..|+|.|-..||++.+... ...||.|...-.+.++.
T Consensus 5 ~tcpiclds~~~~g~hr~vsl~cghlFgs~cie~wl~k~~~~~cp~c~~katkr~i~ 61 (463)
T KOG1645|consen 5 TTCPICLDSYTTAGNHRIVSLQCGHLFGSQCIEKWLGKKTKMQCPLCSGKATKRQIR 61 (463)
T ss_pred ccCceeeeeeeecCceEEeeecccccccHHHHHHHHhhhhhhhCcccCChhHHHHHH
Confidence 579999997643 5778999999999999998532 46899998766655543
No 287
>PRK04132 replication factor C small subunit; Provisional
Probab=74.54 E-value=15 Score=45.53 Aligned_cols=60 Identities=15% Similarity=0.277 Sum_probs=39.8
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhh-c---ccCeEEEEecccccCChhhhHhhhhhhccCCCCchH
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTN-L---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKS 483 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~-L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~ 483 (869)
++..|||||||.+-. ....++.. + ...-+++|+.++...-+.-+.|-...++..+++...
T Consensus 630 ~~KVvIIDEaD~Lt~---~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~ 693 (846)
T PRK04132 630 SFKIIFLDEADALTQ---DAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDED 693 (846)
T ss_pred CCEEEEEECcccCCH---HHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHH
Confidence 467899999999932 22233333 3 357789999888776666677766666666665443
No 288
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.43 E-value=2 Score=46.54 Aligned_cols=45 Identities=31% Similarity=0.735 Sum_probs=38.6
Q ss_pred CCCCccCCCCCc------ceecccCCccchhHHHHhhhccCCCCCCCCCCc
Q 002901 624 FDCPICISPPSD------IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 624 ~~c~~c~~~~~~------~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
..|.+|.+.... |-+..|+|.+|..|+...+.+....||.||.+.
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLLGNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHhcCceeeccCCCCcc
Confidence 578899776532 667779999999999999999999999999985
No 289
>smart00382 AAA ATPases associated with a variety of cellular activities. AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Probab=74.26 E-value=6 Score=36.38 Aligned_cols=24 Identities=21% Similarity=-0.002 Sum_probs=19.2
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
..+|.-.+|.|||..+..++....
T Consensus 4 ~~~l~G~~G~GKTtl~~~l~~~~~ 27 (148)
T smart00382 4 VILIVGPPGSGKTTLARALARELG 27 (148)
T ss_pred EEEEECCCCCcHHHHHHHHHhccC
Confidence 456777899999999988877654
No 290
>KOG2817 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=74.02 E-value=2.2 Score=46.64 Aligned_cols=51 Identities=24% Similarity=0.505 Sum_probs=40.0
Q ss_pred CCCCCCccCCCCC---cceecccCCccchhHHHHhhhccC--CCCCCCCCCccCCC
Q 002901 622 EDFDCPICISPPS---DIIITCCAHIFCRSCILKTLQHTK--PCCPLCRHPLLQSD 672 (869)
Q Consensus 622 ~~~~c~~c~~~~~---~~~~t~c~h~~c~~ci~~~~~~~~--~~cp~c~~~~~~~~ 672 (869)
..+.||+--+... -|+...|||+.|.+.+.+...... -+||+|-.....++
T Consensus 333 SvF~CPVlKeqtsdeNPPm~L~CGHVISkdAlnrLS~ng~~sfKCPYCP~e~~~~~ 388 (394)
T KOG2817|consen 333 SVFICPVLKEQTSDENPPMMLICGHVISKDALNRLSKNGSQSFKCPYCPVEQLASD 388 (394)
T ss_pred ceeecccchhhccCCCCCeeeeccceecHHHHHHHhhCCCeeeeCCCCCcccCHHh
Confidence 4577888655433 278999999999999999988876 89999987665443
No 291
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=73.79 E-value=2.7 Score=38.64 Aligned_cols=53 Identities=25% Similarity=0.709 Sum_probs=42.8
Q ss_pred hcCCCCCCCccCCCCCcce----ecccCCccchhHHHHhhhcc--CCCCCCCCCCccCC
Q 002901 619 QDGEDFDCPICISPPSDII----ITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLLQS 671 (869)
Q Consensus 619 ~~~~~~~c~~c~~~~~~~~----~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~~~ 671 (869)
.+..-.+|.+|.+...+.- -..||-..|..|-...++.. ++.||+|...+..+
T Consensus 76 ~d~~lYeCnIC~etS~ee~FLKPneCCgY~iCn~Cya~LWK~~~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 76 LDPKLYECNICKETSAEERFLKPNECCGYSICNACYANLWKFCNLYPVCPVCKTSFKSS 134 (140)
T ss_pred cCCCceeccCcccccchhhcCCcccccchHHHHHHHHHHHHHcccCCCCCccccccccc
Confidence 3456788999999876642 35799999999999998876 79999999888753
No 292
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.62 E-value=6.9 Score=41.65 Aligned_cols=50 Identities=26% Similarity=0.637 Sum_probs=40.2
Q ss_pred CCCCCCCccCCCCCcceecccCCccchhHHHHhhhcc-CCCCCCCCCCccC
Q 002901 621 GEDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHT-KPCCPLCRHPLLQ 670 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~~ 670 (869)
.+...|.||.....-...++|.|..|..|..+.-.-- ...|+.|+.....
T Consensus 59 Een~~C~ICA~~~TYs~~~PC~H~~CH~Ca~RlRALY~~K~C~~CrTE~e~ 109 (493)
T COG5236 59 EENMNCQICAGSTTYSARYPCGHQICHACAVRLRALYMQKGCPLCRTETEA 109 (493)
T ss_pred cccceeEEecCCceEEEeccCCchHHHHHHHHHHHHHhccCCCccccccce
Confidence 4456799999999999999999999999987654332 4579999986653
No 293
>PRK12323 DNA polymerase III subunits gamma and tau; Provisional
Probab=73.47 E-value=34 Score=40.95 Aligned_cols=61 Identities=13% Similarity=0.190 Sum_probs=35.6
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCch
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVK 482 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~ 482 (869)
-+|..+||||+|++-.. .....++.| ...-+++|..|=.+.=+.-+.|=...++..+++..
T Consensus 123 gr~KViIIDEah~Ls~~--AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~e 186 (700)
T PRK12323 123 GRFKVYMIDEVHMLTNH--AFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPG 186 (700)
T ss_pred CCceEEEEEChHhcCHH--HHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChH
Confidence 36888999999999432 222334445 24457777776434334445555555555555443
No 294
>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=73.45 E-value=8.8 Score=35.64 Aligned_cols=24 Identities=17% Similarity=0.084 Sum_probs=18.1
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
+..++.-+.|.|||..+-.++...
T Consensus 20 ~~v~i~G~~G~GKT~l~~~i~~~~ 43 (151)
T cd00009 20 KNLLLYGPPGTGKTTLARAIANEL 43 (151)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHh
Confidence 457778899999998766666543
No 295
>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=72.74 E-value=3.8 Score=31.23 Aligned_cols=41 Identities=20% Similarity=0.661 Sum_probs=32.6
Q ss_pred CCCccCC--CCCcceecccC-----CccchhHHHHhhhcc-CCCCCCCC
Q 002901 625 DCPICIS--PPSDIIITCCA-----HIFCRSCILKTLQHT-KPCCPLCR 665 (869)
Q Consensus 625 ~c~~c~~--~~~~~~~t~c~-----h~~c~~ci~~~~~~~-~~~cp~c~ 665 (869)
.|.||.+ ...++++.+|. |.+-..|+.+.+... ...||.|.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHHcCCCcCCCCC
Confidence 3788886 45567889985 889999999999776 56799884
No 296
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=72.62 E-value=1.7 Score=45.22 Aligned_cols=48 Identities=25% Similarity=0.657 Sum_probs=36.1
Q ss_pred CCCCCccCCCC---CcceecccCCccchhHHHHhhhcc----------------------CCCCCCCCCCccC
Q 002901 623 DFDCPICISPP---SDIIITCCAHIFCRSCILKTLQHT----------------------KPCCPLCRHPLLQ 670 (869)
Q Consensus 623 ~~~c~~c~~~~---~~~~~t~c~h~~c~~ci~~~~~~~----------------------~~~cp~c~~~~~~ 670 (869)
..+|.||+--. ..-..|.|.|.+-..|+.+++... ...||+||..|.-
T Consensus 115 ~gqCvICLygfa~~~~ft~T~C~Hy~H~~ClaRyl~~~~~~lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~ 187 (368)
T KOG4445|consen 115 NGQCVICLYGFASSPAFTVTACDHYMHFACLARYLTECLTGLRQEIQDAQKERQHMKEQVEAVCPVCRERIKI 187 (368)
T ss_pred CCceEEEEEeecCCCceeeehhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHhhhhccc
Confidence 45677776543 446789999999999999987542 3569999988763
No 297
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=72.56 E-value=37 Score=36.92 Aligned_cols=60 Identities=18% Similarity=0.241 Sum_probs=31.8
Q ss_pred eeeEEEEcCccccCCcCh-HHHHHHhhcccCeEEEEecccccCChhhhHhhhhhhccCCCC
Q 002901 421 EWWRVILDEAHVIKNANA-QQSRTVTNLNAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFS 480 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s-~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~ 480 (869)
....|||||+|.+..... ...+.+.......+++++++....-+..+.+-...+...+++
T Consensus 102 ~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~ 162 (319)
T PRK00440 102 PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLK 162 (319)
T ss_pred CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCC
Confidence 356799999999854211 122222233455667777754333334444444444544544
No 298
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=72.26 E-value=4.2 Score=33.78 Aligned_cols=46 Identities=30% Similarity=0.638 Sum_probs=35.1
Q ss_pred CCCCCccCCCCC---c--ceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 623 DFDCPICISPPS---D--IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~---~--~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
...|+.|...+. + .+..-|.|.|-.-||.+.+.. ...||+|+....
T Consensus 31 m~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~rWL~T-k~~CPld~q~w~ 81 (88)
T COG5194 31 MGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYRWLDT-KGVCPLDRQTWV 81 (88)
T ss_pred cCcCcccccCCCCCCcceEEEEecchHHHHHHHHHHHhh-CCCCCCCCceeE
Confidence 455777766332 2 356789999999999999988 669999998654
No 299
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=71.90 E-value=22 Score=44.01 Aligned_cols=22 Identities=23% Similarity=0.211 Sum_probs=18.8
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
|+.-+.|.|||..+..+.....
T Consensus 42 LFtGPpGtGKTTLARiLAk~Ln 63 (944)
T PRK14949 42 LFTGTRGVGKTSLARLFAKGLN 63 (944)
T ss_pred EEECCCCCCHHHHHHHHHHhcc
Confidence 7888999999999988887654
No 300
>KOG1814 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=71.76 E-value=1.9 Score=47.21 Aligned_cols=44 Identities=30% Similarity=0.674 Sum_probs=33.7
Q ss_pred CCCCCCccCCCCCc---ceecccCCccchhHHHHhhhcc-------CCCCCCCC
Q 002901 622 EDFDCPICISPPSD---IIITCCAHIFCRSCILKTLQHT-------KPCCPLCR 665 (869)
Q Consensus 622 ~~~~c~~c~~~~~~---~~~t~c~h~~c~~ci~~~~~~~-------~~~cp~c~ 665 (869)
..+.|.||.+.-.. ...++|.|+||..|+..+.... ..+||-+.
T Consensus 183 slf~C~ICf~e~~G~~c~~~lpC~Hv~Ck~C~kdY~~~~i~eg~v~~l~Cp~~~ 236 (445)
T KOG1814|consen 183 SLFDCCICFEEQMGQHCFKFLPCSHVFCKSCLKDYFTIQIQEGQVSCLKCPDPK 236 (445)
T ss_pred hcccceeeehhhcCcceeeecccchHHHHHHHHHHHHHhhhcceeeeecCCCCC
Confidence 45789999987543 5789999999999999987553 34676543
No 301
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=71.72 E-value=0.92 Score=53.00 Aligned_cols=49 Identities=24% Similarity=0.511 Sum_probs=33.5
Q ss_pred CCCCccCCCCCcc---eecccCCccchhHHHHhhhccCCCCCCCCCCccCCCc
Q 002901 624 FDCPICISPPSDI---IITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDL 673 (869)
Q Consensus 624 ~~c~~c~~~~~~~---~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~ 673 (869)
..|++|+....+. .-..|+|.||..|+..+-.. .-.||+||..+..-.+
T Consensus 124 ~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~-aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 124 NQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRC-AQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhHHHHHHHHHhhccccccccccHHHHhhhhhhh-cccCchhhhhhheeee
Confidence 4577776654442 23469999999998876443 4489999988875444
No 302
>PRK05580 primosome assembly protein PriA; Validated
Probab=70.46 E-value=33 Score=41.86 Aligned_cols=96 Identities=11% Similarity=0.093 Sum_probs=70.5
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
...|.|....+..+.+.... +.++||.+........+.+.|++. |..+..++|+++.++|.+...+...+ .+.|
T Consensus 170 ~TGSGKT~v~l~~i~~~l~~--g~~vLvLvPt~~L~~Q~~~~l~~~fg~~v~~~~s~~s~~~r~~~~~~~~~g---~~~I 244 (679)
T PRK05580 170 VTGSGKTEVYLQAIAEVLAQ--GKQALVLVPEIALTPQMLARFRARFGAPVAVLHSGLSDGERLDEWRKAKRG---EAKV 244 (679)
T ss_pred CCCChHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHhCCCEEEEECCCCHHHHHHHHHHHHcC---CCCE
Confidence 34589999988887766543 678999999999988888888764 88999999999999999888888774 2366
Q ss_pred EEEecCCccccccccccCEEEEEc
Q 002901 771 LLASLKASGAGVNLTAASRVFLLE 794 (869)
Q Consensus 771 lL~S~~agg~GLNLt~A~~Vi~~d 794 (869)
++.+..+. =+.+.....||+=|
T Consensus 245 VVgTrsal--~~p~~~l~liVvDE 266 (679)
T PRK05580 245 VIGARSAL--FLPFKNLGLIIVDE 266 (679)
T ss_pred EEeccHHh--cccccCCCEEEEEC
Confidence 66553322 23444555555544
No 303
>PRK13889 conjugal transfer relaxase TraA; Provisional
Probab=70.44 E-value=9.3 Score=48.15 Aligned_cols=49 Identities=20% Similarity=0.270 Sum_probs=31.4
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhc-ccCeEEEEecccccCChhhhHhhhh
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNL-NAKRRWVVTGTPIQNGSFDLFSLMA 472 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L-~a~~r~~LTGTPi~N~l~DL~sll~ 472 (869)
-++||||||-++... .+.+.+... .+.-+++|.|=|-|-..-+-.+.+.
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 457999999998433 233333323 5678999999987765544333333
No 304
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=70.32 E-value=30 Score=37.85 Aligned_cols=51 Identities=22% Similarity=0.173 Sum_probs=36.9
Q ss_pred cccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhccC
Q 002901 198 KSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 198 ~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~~ 274 (869)
...+||+|..+..-+.+.-..+.+ ...-++.-.-|+||+..|.+++.....
T Consensus 2 ~~~~yPW~~~~~~~l~~~~~~~rl--------------------------~HA~Lf~Gp~G~GK~~lA~~lA~~LlC 52 (319)
T PRK08769 2 TSAFSPWQQRAYDQTVAALDAGRL--------------------------GHGLLICGPEGLGKRAVALALAEHVLA 52 (319)
T ss_pred CccccccHHHHHHHHHHHHHcCCc--------------------------ceeEeeECCCCCCHHHHHHHHHHHHhC
Confidence 457899999998887764322111 134567889999999999999887763
No 305
>PRK06893 DNA replication initiation factor; Validated
Probab=70.03 E-value=33 Score=35.52 Aligned_cols=22 Identities=14% Similarity=-0.078 Sum_probs=17.0
Q ss_pred cceecCcCCChhHHHHHHHHhc
Q 002901 251 GIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~ 272 (869)
-+|--..|.|||--+-++....
T Consensus 42 l~l~G~~G~GKThL~~ai~~~~ 63 (229)
T PRK06893 42 FYIWGGKSSGKSHLLKAVSNHY 63 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 3677799999998877776553
No 306
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=69.86 E-value=84 Score=36.92 Aligned_cols=60 Identities=10% Similarity=0.192 Sum_probs=34.5
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCch
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVK 482 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~ 482 (869)
+|..+||||+|++-.. .....++.| ...-+++|..|-...-+.-+.|=...++..+++..
T Consensus 119 ~~kV~iIDE~~~ls~~--a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~ 181 (509)
T PRK14958 119 RFKVYLIDEVHMLSGH--SFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPL 181 (509)
T ss_pred CcEEEEEEChHhcCHH--HHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCCCHH
Confidence 6788999999998432 222223333 34556777666545444445555555555555543
No 307
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=69.74 E-value=1.8 Score=44.51 Aligned_cols=58 Identities=26% Similarity=0.468 Sum_probs=41.9
Q ss_pred CCCCCCCccCCCCCc----------ceecccCCccchhHHHHhhhc-cCCCCCCCCCCccCCCcccCCC
Q 002901 621 GEDFDCPICISPPSD----------IIITCCAHIFCRSCILKTLQH-TKPCCPLCRHPLLQSDLFSSPP 678 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~----------~~~t~c~h~~c~~ci~~~~~~-~~~~cp~c~~~~~~~~~~~~~~ 678 (869)
.++..|.+|...... ..-..|.|+|-..||+-..-- .+..||.|...+.....++-|-
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKekVdl~rmfsnpW 290 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEKVDLKRMFSNPW 290 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHHhhHhhhccCcc
Confidence 346679999876532 334689999999999987544 3678999998877655554443
No 308
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=68.18 E-value=49 Score=38.26 Aligned_cols=23 Identities=30% Similarity=0.196 Sum_probs=19.4
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-|+.-+.|.|||-.|..++....
T Consensus 43 ~Lf~GP~GtGKTTlAriLAk~Ln 65 (484)
T PRK14956 43 YIFFGPRGVGKTTIARILAKRLN 65 (484)
T ss_pred EEEECCCCCCHHHHHHHHHHhcC
Confidence 47888999999999988887654
No 309
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=68.16 E-value=21 Score=41.27 Aligned_cols=22 Identities=23% Similarity=0.200 Sum_probs=16.4
Q ss_pred CcceecCcCCChhHHHHHHHHh
Q 002901 250 GGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~ 271 (869)
+-+|.-+.|+|||-.+-++...
T Consensus 143 pl~i~G~~G~GKTHLl~Ai~~~ 164 (450)
T PRK14087 143 PLFIYGESGMGKTHLLKAAKNY 164 (450)
T ss_pred ceEEECCCCCcHHHHHHHHHHH
Confidence 4567779999999877666543
No 310
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=67.95 E-value=43 Score=41.65 Aligned_cols=23 Identities=26% Similarity=0.198 Sum_probs=19.7
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-||.-..|.|||..+..|.....
T Consensus 40 ~Lf~Gp~G~GKTt~A~~lAr~L~ 62 (824)
T PRK07764 40 YLFSGPRGCGKTSSARILARSLN 62 (824)
T ss_pred EEEECCCCCCHHHHHHHHHHHhC
Confidence 47888999999999998887765
No 311
>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=67.53 E-value=38 Score=39.72 Aligned_cols=96 Identities=11% Similarity=0.075 Sum_probs=69.2
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
...|+|....+..+.+.... +.++||.+........+.+.|++. |..+..++|+++.++|.+...+..+++ ..|
T Consensus 5 ~TGsGKT~v~l~~i~~~l~~--g~~vLvlvP~i~L~~Q~~~~l~~~f~~~v~vlhs~~~~~er~~~~~~~~~g~---~~I 79 (505)
T TIGR00595 5 VTGSGKTEVYLQAIEKVLAL--GKSVLVLVPEIALTPQMIQRFKYRFGSQVAVLHSGLSDSEKLQAWRKVKNGE---ILV 79 (505)
T ss_pred CCCCCHHHHHHHHHHHHHHc--CCeEEEEeCcHHHHHHHHHHHHHHhCCcEEEEECCCCHHHHHHHHHHHHcCC---CCE
Confidence 34689999988888776543 778999999999888888888764 788999999999999988888776632 356
Q ss_pred EEEecCCccccccccccCEEEEEc
Q 002901 771 LLASLKASGAGVNLTAASRVFLLE 794 (869)
Q Consensus 771 lL~S~~agg~GLNLt~A~~Vi~~d 794 (869)
++.+..+. =+-+.....||+=|
T Consensus 80 VVGTrsal--f~p~~~l~lIIVDE 101 (505)
T TIGR00595 80 VIGTRSAL--FLPFKNLGLIIVDE 101 (505)
T ss_pred EECChHHH--cCcccCCCEEEEEC
Confidence 55553322 12344455555444
No 312
>PF13245 AAA_19: Part of AAA domain
Probab=67.14 E-value=11 Score=31.58 Aligned_cols=23 Identities=35% Similarity=0.187 Sum_probs=18.6
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
.++--..|.|||-+++.++....
T Consensus 13 ~vv~g~pGtGKT~~~~~~i~~l~ 35 (76)
T PF13245_consen 13 FVVQGPPGTGKTTTLAARIAELL 35 (76)
T ss_pred EEEECCCCCCHHHHHHHHHHHHH
Confidence 44466899999999998888765
No 313
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=67.02 E-value=33 Score=41.96 Aligned_cols=95 Identities=15% Similarity=0.205 Sum_probs=65.1
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHH----HHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEP----LQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGG 767 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~----L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~ 767 (869)
...|+|..+.+-.+.... ..+.+++|.+.-...+..+... +...|+++..++|+++.++|.+.++...++ .
T Consensus 290 ~TGSGKT~va~~~il~~~--~~g~q~lilaPT~~LA~Q~~~~l~~l~~~~~i~v~ll~G~~~~~~r~~~~~~l~~g---~ 364 (681)
T PRK10917 290 DVGSGKTVVAALAALAAI--EAGYQAALMAPTEILAEQHYENLKKLLEPLGIRVALLTGSLKGKERREILEAIASG---E 364 (681)
T ss_pred CCCCcHHHHHHHHHHHHH--HcCCeEEEEeccHHHHHHHHHHHHHHHhhcCcEEEEEcCCCCHHHHHHHHHHHhCC---C
Confidence 446889876554443333 2377899999887776655544 445589999999999999999999999884 3
Q ss_pred CEEEEEecCCccccccccccCEEE
Q 002901 768 PTVLLASLKASGAGVNLTAASRVF 791 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~Vi 791 (869)
+.|++.+.......+++.....||
T Consensus 365 ~~IvVgT~~ll~~~v~~~~l~lvV 388 (681)
T PRK10917 365 ADIVIGTHALIQDDVEFHNLGLVI 388 (681)
T ss_pred CCEEEchHHHhcccchhcccceEE
Confidence 477776654444444554444443
No 314
>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=66.80 E-value=39 Score=29.82 Aligned_cols=58 Identities=14% Similarity=0.115 Sum_probs=42.8
Q ss_pred CCeEEEEec------cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 714 TTKSVVFSQ------FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 714 ~~K~lVFsq------~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
..+++||+. +-.+-..+...|+..|++|..+|=......|..+.+.... ..-|.|++-
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~~~tg~--~tvP~vfi~ 74 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIKEYSNW--PTIPQLYVK 74 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHhCC--CCCCEEEEC
Confidence 579999974 5567888999999999999998866566667776665544 234566653
No 315
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=66.32 E-value=7.2 Score=42.97 Aligned_cols=24 Identities=21% Similarity=0.065 Sum_probs=19.8
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+-+|.-+.|.|||..+.++.....
T Consensus 38 ~lll~Gp~GtGKT~la~~~~~~l~ 61 (337)
T PRK12402 38 HLLVQGPPGSGKTAAVRALARELY 61 (337)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 467888999999999998877653
No 316
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.18 E-value=3.4 Score=41.92 Aligned_cols=33 Identities=27% Similarity=0.422 Sum_probs=29.2
Q ss_pred CCCccCCCCCcceecccCCccchhHHHHhhhcc
Q 002901 625 DCPICISPPSDIIITCCAHIFCRSCILKTLQHT 657 (869)
Q Consensus 625 ~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~ 657 (869)
-|+.|+.+..+|++++-+|+||++||.+++-.+
T Consensus 45 cCsLtLqPc~dPvit~~GylfdrEaILe~ilaq 77 (303)
T KOG3039|consen 45 CCSLTLQPCRDPVITPDGYLFDREAILEYILAQ 77 (303)
T ss_pred eeeeecccccCCccCCCCeeeeHHHHHHHHHHH
Confidence 378899999999999999999999999987443
No 317
>PRK13826 Dtr system oriT relaxase; Provisional
Probab=66.14 E-value=19 Score=45.80 Aligned_cols=49 Identities=22% Similarity=0.230 Sum_probs=31.9
Q ss_pred eEEEEcCccccCCcChHHHHHHhhc-ccCeEEEEecccccCChhhhHhhhhh
Q 002901 423 WRVILDEAHVIKNANAQQSRTVTNL-NAKRRWVVTGTPIQNGSFDLFSLMAF 473 (869)
Q Consensus 423 ~rVIlDEaH~ikn~~s~~~ka~~~L-~a~~r~~LTGTPi~N~l~DL~sll~f 473 (869)
++||||||.++-.. .+.+.+... .+..+++|-|=|-|-..-+-...+..
T Consensus 470 ~vlVIDEAsMv~~~--~m~~Ll~~~~~~garvVLVGD~~QL~~V~aG~~f~~ 519 (1102)
T PRK13826 470 TVFVLDEAGMVASR--QMALFVEAVTRAGAKLVLVGDPEQLQPIEAGAAFRA 519 (1102)
T ss_pred cEEEEECcccCCHH--HHHHHHHHHHhcCCEEEEECCHHHcCCCCCCcHHHH
Confidence 46999999998432 233444444 46789999999987655444443333
No 318
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=65.88 E-value=20 Score=41.05 Aligned_cols=55 Identities=13% Similarity=0.136 Sum_probs=32.8
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhc------ccCeEEEEecccccCChhhhHhhhhhhcc
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNL------NAKRRWVVTGTPIQNGSFDLFSLMAFLQF 476 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L------~a~~r~~LTGTPi~N~l~DL~sll~fL~~ 476 (869)
.+++||+|-+-+.... ......+..+ .....++|++|+-.+.+.+++..++.+.+
T Consensus 299 ~~DlVlIDt~G~~~~d-~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~~~f~~~~~ 359 (424)
T PRK05703 299 DCDVILIDTAGRSQRD-KRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIYKHFSRLPL 359 (424)
T ss_pred CCCEEEEeCCCCCCCC-HHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHHHHhCCCCC
Confidence 4678999988664332 2222222222 23457899999877777776666665543
No 319
>PRK08084 DNA replication initiation factor; Provisional
Probab=65.87 E-value=21 Score=37.29 Aligned_cols=22 Identities=18% Similarity=0.016 Sum_probs=16.7
Q ss_pred CcceecCcCCChhHHHHHHHHh
Q 002901 250 GGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~ 271 (869)
.-+|.-+.|.|||--+-++...
T Consensus 47 ~l~l~Gp~G~GKThLl~a~~~~ 68 (235)
T PRK08084 47 YIYLWSREGAGRSHLLHAACAE 68 (235)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 4567779999999877666654
No 320
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=65.42 E-value=2 Score=35.48 Aligned_cols=47 Identities=26% Similarity=0.546 Sum_probs=22.7
Q ss_pred CCCCCccCCCCC-c---ce--e--cccCCccchhHHHHhhhcc----------CCCCCCCCCCcc
Q 002901 623 DFDCPICISPPS-D---II--I--TCCAHIFCRSCILKTLQHT----------KPCCPLCRHPLL 669 (869)
Q Consensus 623 ~~~c~~c~~~~~-~---~~--~--t~c~h~~c~~ci~~~~~~~----------~~~cp~c~~~~~ 669 (869)
+.+|.||.+... . +. - ..|...|-..|+.+++... .+.||.|+.++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCCeee
Confidence 357999988643 2 21 1 3688888889999887643 246999998876
No 321
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=64.90 E-value=14 Score=42.82 Aligned_cols=24 Identities=25% Similarity=0.149 Sum_probs=18.6
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-+|--+.|+|||-.+-++.....
T Consensus 150 ~l~l~G~~G~GKThL~~ai~~~~~ 173 (450)
T PRK00149 150 PLFIYGGVGLGKTHLLHAIGNYIL 173 (450)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHH
Confidence 456778999999998877766543
No 322
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=64.86 E-value=4.5 Score=43.01 Aligned_cols=48 Identities=21% Similarity=0.600 Sum_probs=39.1
Q ss_pred CCCCCCCccCCCCCcc-eecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 621 GEDFDCPICISPPSDI-IITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~-~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
.....|++|.....++ +.+.-|-+||-.|+-++.. .+..||+-..+.+
T Consensus 298 ~~~~~CpvClk~r~Nptvl~vSGyVfCY~Ci~~Yv~-~~~~CPVT~~p~~ 346 (357)
T KOG0826|consen 298 PDREVCPVCLKKRQNPTVLEVSGYVFCYPCIFSYVV-NYGHCPVTGYPAS 346 (357)
T ss_pred CccccChhHHhccCCCceEEecceEEeHHHHHHHHH-hcCCCCccCCcch
Confidence 4456799999988775 5666799999999999998 7789998776654
No 323
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=64.84 E-value=3.5 Score=44.66 Aligned_cols=46 Identities=30% Similarity=0.666 Sum_probs=35.2
Q ss_pred CCCCCccCCCCC----cceecccCCccchhHHHHhhhccC--CCCCCCCCCc
Q 002901 623 DFDCPICISPPS----DIIITCCAHIFCRSCILKTLQHTK--PCCPLCRHPL 668 (869)
Q Consensus 623 ~~~c~~c~~~~~----~~~~t~c~h~~c~~ci~~~~~~~~--~~cp~c~~~~ 668 (869)
...|.||.+-.. ...+..|+|+|-..|+.++++... ..||.|+..+
T Consensus 4 ~A~C~Ic~d~~p~~~~l~~i~~cGhifh~~cl~qwfe~~Ps~R~cpic~ik~ 55 (465)
T KOG0827|consen 4 MAECHICIDGRPNDHELGPIGTCGHIFHTTCLTQWFEGDPSNRGCPICQIKL 55 (465)
T ss_pred cceeeEeccCCccccccccccchhhHHHHHHHHHHHccCCccCCCCceeecc
Confidence 357999965432 256777999999999999998774 4899999443
No 324
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=63.96 E-value=4.6 Score=43.43 Aligned_cols=46 Identities=39% Similarity=0.885 Sum_probs=37.1
Q ss_pred CCCCCCCccCCCCCcceecc-cCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 621 GEDFDCPICISPPSDIIITC-CAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~~~~t~-c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
..-.+||+|.+.+.-|+..+ -+|..|..|-.+. ...||.|+.++..
T Consensus 46 ~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~----~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKV----SNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcccceecCCCcEehhhhhhhh----cccCCcccccccc
Confidence 34578999999998887765 6999999998643 4589999988873
No 325
>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]
Probab=63.91 E-value=17 Score=39.30 Aligned_cols=130 Identities=13% Similarity=0.149 Sum_probs=78.0
Q ss_pred CCCCCCccCCC-CCcceecccCCccchhHHHHhhhccC-------------CCCCCCCCCccCCCcccCCC--CCCCccc
Q 002901 622 EDFDCPICISP-PSDIIITCCAHIFCRSCILKTLQHTK-------------PCCPLCRHPLLQSDLFSSPP--ESSDMDI 685 (869)
Q Consensus 622 ~~~~c~~c~~~-~~~~~~t~c~h~~c~~ci~~~~~~~~-------------~~cp~c~~~~~~~~~~~~~~--~~~~~~~ 685 (869)
....|.-|... .......+|+-.+|+.|+.----++. ..|-.+...++...-..+.. .......
T Consensus 38 gk~~C~RC~~~~~~~~~~lp~~~~YCr~Cl~mgRv~sd~~Ly~~~~~~fp~~s~L~W~G~Ls~~Q~~as~~l~q~i~~k~ 117 (441)
T COG4098 38 GKYRCNRCGNTHIELFAKLPCGCLYCRNCLMMGRVRSDQKLYYWKPYAFPKKSVLQWKGTLSPGQKKASNQLVQYIKQKE 117 (441)
T ss_pred CcEEehhcCCcchhhhcccccceEeehhhhhcccccccceeeecCCcCCCccceeeeccccChhHHHHHHHHHHHHHhcC
Confidence 44579999844 45567788999999999875322211 00111111111000000000 0000000
Q ss_pred ccccccccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc--CCcEEEEeCCCCHHHH
Q 002901 686 AGKTLKNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA--GFKLLRLDGSMNAKKR 753 (869)
Q Consensus 686 ~~~~~~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~rldG~~~~~~R 753 (869)
.........++|.+.+.+-+.....+ |..+.|-|..+++.--|...|+++ ++....++|..++.-|
T Consensus 118 ~~lv~AV~GaGKTEMif~~i~~al~~--G~~vciASPRvDVclEl~~Rlk~aF~~~~I~~Lyg~S~~~fr 185 (441)
T COG4098 118 DTLVWAVTGAGKTEMIFQGIEQALNQ--GGRVCIASPRVDVCLELYPRLKQAFSNCDIDLLYGDSDSYFR 185 (441)
T ss_pred cEEEEEecCCCchhhhHHHHHHHHhc--CCeEEEecCcccchHHHHHHHHHhhccCCeeeEecCCchhcc
Confidence 00112345699999999999887754 899999999999988888888875 6788888888765554
No 326
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=63.60 E-value=3.4 Score=43.35 Aligned_cols=42 Identities=29% Similarity=0.627 Sum_probs=29.7
Q ss_pred CCCccCCCCCc-ceecccCCccchhHHHHhhhccCCCCCCCCCCcc
Q 002901 625 DCPICISPPSD-IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLL 669 (869)
Q Consensus 625 ~c~~c~~~~~~-~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~ 669 (869)
-|.-|.-+..- .-+.+|.|+||.+|....- ...||.|...+.
T Consensus 92 fCd~Cd~PI~IYGRmIPCkHvFCl~CAr~~~---dK~Cp~C~d~Vq 134 (389)
T KOG2932|consen 92 FCDRCDFPIAIYGRMIPCKHVFCLECARSDS---DKICPLCDDRVQ 134 (389)
T ss_pred eecccCCcceeeecccccchhhhhhhhhcCc---cccCcCcccHHH
Confidence 37777766543 5678999999999976432 347888876543
No 327
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=63.03 E-value=38 Score=37.92 Aligned_cols=23 Identities=22% Similarity=0.163 Sum_probs=19.1
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-++.-+.|.|||-.+-+++....
T Consensus 41 ~L~~Gp~G~GKTtla~~la~~l~ 63 (363)
T PRK14961 41 WLLSGTRGVGKTTIARLLAKSLN 63 (363)
T ss_pred EEEecCCCCCHHHHHHHHHHHhc
Confidence 37888999999999988877654
No 328
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=62.68 E-value=16 Score=40.70 Aligned_cols=25 Identities=20% Similarity=0.219 Sum_probs=20.5
Q ss_pred CcceecCcCCChhHHHHHHHHhccC
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~~ 274 (869)
.-++.-+.|+|||..+..++.....
T Consensus 47 a~L~~G~~G~GKttlA~~lA~~Llc 71 (351)
T PRK09112 47 ALLFEGPEGIGKATLAFHLANHILS 71 (351)
T ss_pred eEeeECCCCCCHHHHHHHHHHHHcC
Confidence 4566889999999999988887663
No 329
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=62.28 E-value=7 Score=37.30 Aligned_cols=21 Identities=38% Similarity=1.096 Sum_probs=16.5
Q ss_pred CCCCCCccCCCCCcceecccC
Q 002901 622 EDFDCPICISPPSDIIITCCA 642 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~ 642 (869)
++..|+||++.+-++|+..|.
T Consensus 1 ed~~CpICme~PHNAVLLlCS 21 (162)
T PF07800_consen 1 EDVTCPICMEHPHNAVLLLCS 21 (162)
T ss_pred CCccCceeccCCCceEEEEec
Confidence 356899999999988776553
No 330
>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=61.81 E-value=26 Score=39.85 Aligned_cols=24 Identities=25% Similarity=0.111 Sum_probs=18.4
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+-+|--..|+|||..+-++.....
T Consensus 138 ~l~l~G~~G~GKThL~~ai~~~l~ 161 (405)
T TIGR00362 138 PLFIYGGVGLGKTHLLHAIGNEIL 161 (405)
T ss_pred eEEEECCCCCcHHHHHHHHHHHHH
Confidence 346778999999998887776543
No 331
>CHL00095 clpC Clp protease ATP binding subunit
Probab=60.41 E-value=21 Score=44.74 Aligned_cols=25 Identities=24% Similarity=0.206 Sum_probs=20.3
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-||.-+.|.|||..+-+|.....
T Consensus 201 ~n~lL~G~pGvGKTal~~~la~~i~ 225 (821)
T CHL00095 201 NNPILIGEPGVGKTAIAEGLAQRIV 225 (821)
T ss_pred CCeEEECCCCCCHHHHHHHHHHHHH
Confidence 4678999999999999888766543
No 332
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=60.21 E-value=47 Score=40.24 Aligned_cols=94 Identities=14% Similarity=0.181 Sum_probs=62.0
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHH----HcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQ----AAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGG 767 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~----~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~ 767 (869)
...|+|..+.+-.+..... .+.+++|-+.....+..+.+.+. ..|+++..++|+++.++|...++...++ .
T Consensus 264 ~TGSGKT~va~l~il~~~~--~g~qvlilaPT~~LA~Q~~~~~~~l~~~~gi~v~lltg~~~~~~r~~~~~~i~~g---~ 338 (630)
T TIGR00643 264 DVGSGKTLVAALAMLAAIE--AGYQVALMAPTEILAEQHYNSLRNLLAPLGIEVALLTGSLKGKRRKELLETIASG---Q 338 (630)
T ss_pred CCCCcHHHHHHHHHHHHHH--cCCcEEEECCHHHHHHHHHHHHHHHhcccCcEEEEEecCCCHHHHHHHHHHHhCC---C
Confidence 4458888654433333222 36789999988777666655554 4589999999999999999999998874 3
Q ss_pred CEEEEEecCCccccccccccCEE
Q 002901 768 PTVLLASLKASGAGVNLTAASRV 790 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~V 790 (869)
+.|++.+....-..+++.....|
T Consensus 339 ~~IiVgT~~ll~~~~~~~~l~lv 361 (630)
T TIGR00643 339 IHLVVGTHALIQEKVEFKRLALV 361 (630)
T ss_pred CCEEEecHHHHhccccccccceE
Confidence 36776654444434444444333
No 333
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=60.00 E-value=91 Score=35.34 Aligned_cols=24 Identities=29% Similarity=0.310 Sum_probs=19.9
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-+.|.|||..|.++.....
T Consensus 40 a~lf~Gp~G~GKtt~A~~~a~~l~ 63 (397)
T PRK14955 40 GYIFSGLRGVGKTTAARVFAKAVN 63 (397)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 456788999999999999887665
No 334
>PRK08116 hypothetical protein; Validated
Probab=59.68 E-value=26 Score=37.34 Aligned_cols=25 Identities=20% Similarity=0.141 Sum_probs=20.6
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.|-+|.-+.|.|||..+.+++....
T Consensus 115 ~gl~l~G~~GtGKThLa~aia~~l~ 139 (268)
T PRK08116 115 VGLLLWGSVGTGKTYLAACIANELI 139 (268)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHHH
Confidence 4678888999999999988876654
No 335
>PHA02544 44 clamp loader, small subunit; Provisional
Probab=59.65 E-value=65 Score=35.04 Aligned_cols=22 Identities=23% Similarity=0.215 Sum_probs=17.1
Q ss_pred Ccce-ecCcCCChhHHHHHHHHh
Q 002901 250 GGIF-ADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 250 GgIL-AD~mGLGKTl~~lali~~ 271 (869)
+.+| .-+.|.|||-.+-++...
T Consensus 44 ~~lll~G~~G~GKT~la~~l~~~ 66 (316)
T PHA02544 44 NMLLHSPSPGTGKTTVAKALCNE 66 (316)
T ss_pred eEEEeeCcCCCCHHHHHHHHHHH
Confidence 3455 789999999988877654
No 336
>PRK06526 transposase; Provisional
Probab=59.57 E-value=20 Score=37.91 Aligned_cols=25 Identities=24% Similarity=0.178 Sum_probs=20.4
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|.-..|.|||..+.++.....
T Consensus 99 ~nlll~Gp~GtGKThLa~al~~~a~ 123 (254)
T PRK06526 99 ENVVFLGPPGTGKTHLAIGLGIRAC 123 (254)
T ss_pred ceEEEEeCCCCchHHHHHHHHHHHH
Confidence 4678888999999999999876543
No 337
>PRK08727 hypothetical protein; Validated
Probab=59.56 E-value=34 Score=35.63 Aligned_cols=22 Identities=32% Similarity=0.286 Sum_probs=17.0
Q ss_pred cceecCcCCChhHHHHHHHHhc
Q 002901 251 GIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~ 272 (869)
-+|.-..|+|||--+-++....
T Consensus 44 l~l~G~~G~GKThL~~a~~~~~ 65 (233)
T PRK08727 44 LYLSGPAGTGKTHLALALCAAA 65 (233)
T ss_pred EEEECCCCCCHHHHHHHHHHHH
Confidence 5677799999998777776543
No 338
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=59.46 E-value=1.1e+02 Score=37.07 Aligned_cols=59 Identities=12% Similarity=0.232 Sum_probs=34.8
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCc
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSV 481 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~ 481 (869)
++.+|||||+|.+.. ......++.| ...-+++|+.|=..+-+.-+.|-+.-++..++..
T Consensus 119 k~KVIIIDEad~Ls~--~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~ 180 (709)
T PRK08691 119 KYKVYIIDEVHMLSK--SAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTA 180 (709)
T ss_pred CcEEEEEECccccCH--HHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCCCH
Confidence 567899999998743 1222233334 3455678877655555555556554455555544
No 339
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=59.08 E-value=90 Score=31.22 Aligned_cols=52 Identities=15% Similarity=0.233 Sum_probs=37.9
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccH----HHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFR----KMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~----~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
..-++..|++.+.+. . -.-+|+-.+.| .++.+|.+.|+..++++.|+--+++
T Consensus 120 e~l~i~~L~~Rl~~~---~-~~EvIlAtnpTvEGeaTA~YI~~~l~~~~ikvtRlA~GiP 175 (198)
T COG0353 120 EDLNIDELLQRLAEG---S-IKEVILATNPTVEGEATALYIARLLKPLGLKVTRLAQGVP 175 (198)
T ss_pred ccccHHHHHHHHhcC---C-CceEEEecCCCccchHHHHHHHHHHhhcCCeEEEEeecCc
Confidence 356778888777642 1 12566666665 5789999999999999999876654
No 340
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.94 E-value=92 Score=36.53 Aligned_cols=22 Identities=27% Similarity=0.350 Sum_probs=18.6
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
++.-+.|.|||..+.++.....
T Consensus 40 Lf~GppGtGKTTlA~~lA~~l~ 61 (504)
T PRK14963 40 LFSGPRGVGKTTTARLIAMAVN 61 (504)
T ss_pred EEECCCCCCHHHHHHHHHHHHh
Confidence 7778999999999998877654
No 341
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=58.84 E-value=88 Score=31.47 Aligned_cols=51 Identities=22% Similarity=0.330 Sum_probs=35.1
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEE-eccH----HHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVF-SQFR----KMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVF-sq~~----~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
..-+++.|++.+.+. +.+=||+ .+.+ .++.+|.+.|+..++++.|+--+++
T Consensus 119 ~~l~i~~L~~Ri~~~-----~v~EVIlAt~~tvEGe~Ta~yi~~~lk~~~ikvtRlA~GiP 174 (195)
T TIGR00615 119 EDLTIAALLKRLQEE-----SVKEVILATNPTVEGEATALYIARLLQPFGVKVTRIASGLP 174 (195)
T ss_pred hhcCHHHHHHHHhcC-----CCcEEEEeCCCCchHHHHHHHHHHHhhhcCCcEEeeeecCC
Confidence 355788888887641 3343444 3333 4788999999988999999876654
No 342
>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=58.80 E-value=46 Score=28.77 Aligned_cols=57 Identities=16% Similarity=0.101 Sum_probs=40.0
Q ss_pred CCeEEEEec------cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 714 TTKSVVFSQ------FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 714 ~~K~lVFsq------~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
..+++||+. +-..-..+.+.|+..|++|..+|=......|..+.+.-.. ..-|.|++
T Consensus 7 ~~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~--~tvP~vfi 69 (90)
T cd03028 7 ENPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDILEDEEVRQGLKEYSNW--PTFPQLYV 69 (90)
T ss_pred cCCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCC--CCCCEEEE
Confidence 579999987 6677889999999999999999865555555554443322 23455654
No 343
>PRK07471 DNA polymerase III subunit delta'; Validated
Probab=58.74 E-value=71 Score=35.77 Aligned_cols=25 Identities=12% Similarity=0.173 Sum_probs=21.1
Q ss_pred CcceecCcCCChhHHHHHHHHhccC
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~~ 274 (869)
.-++.-.-|.|||..|.+++.....
T Consensus 43 A~Lf~Gp~G~GK~~lA~~~A~~Llc 67 (365)
T PRK07471 43 AWLIGGPQGIGKATLAYRMARFLLA 67 (365)
T ss_pred eEEEECCCCCCHHHHHHHHHHHHhC
Confidence 4567789999999999999988764
No 344
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=57.79 E-value=47 Score=38.56 Aligned_cols=23 Identities=35% Similarity=0.229 Sum_probs=19.2
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-||.-+.|.|||-.|-++.....
T Consensus 39 ~Lf~GPpGtGKTTlA~~lA~~l~ 61 (472)
T PRK14962 39 YIFAGPRGTGKTTVARILAKSLN 61 (472)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 47889999999999988877654
No 345
>KOG4367 consensus Predicted Zn-finger protein [Function unknown]
Probab=56.92 E-value=5.4 Score=43.62 Aligned_cols=34 Identities=35% Similarity=0.783 Sum_probs=30.1
Q ss_pred CCCCCCccCCCCCcceecccCCccchhHHHHhhh
Q 002901 622 EDFDCPICISPPSDIIITCCAHIFCRSCILKTLQ 655 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~ 655 (869)
++..|++|.+-..+|+|.+|+|.+|+.|....+-
T Consensus 3 eelkc~vc~~f~~epiil~c~h~lc~~ca~~~~~ 36 (699)
T KOG4367|consen 3 EELKCPVCGSFYREPIILPCSHNLCQACARNILV 36 (699)
T ss_pred ccccCceehhhccCceEeecccHHHHHHHHhhcc
Confidence 4567999999999999999999999999886553
No 346
>PRK06921 hypothetical protein; Provisional
Probab=56.45 E-value=42 Score=35.76 Aligned_cols=25 Identities=20% Similarity=0.025 Sum_probs=20.1
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|.-+.|.|||-.+.|++....
T Consensus 118 ~~l~l~G~~G~GKThLa~aia~~l~ 142 (266)
T PRK06921 118 NSIALLGQPGSGKTHLLTAAANELM 142 (266)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHHh
Confidence 4677888999999998888876543
No 347
>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=56.01 E-value=1.1e+02 Score=29.85 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=20.4
Q ss_pred cceecCcCCChhHHHHHHHHhccCC
Q 002901 251 GIFADDMGLGKTLTLLSLIALDKCA 275 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~~~ 275 (869)
-|+.-+-|.||+-.|.+++......
T Consensus 22 ~L~~G~~g~gk~~~a~~~a~~ll~~ 46 (162)
T PF13177_consen 22 LLFHGPSGSGKKTLALAFARALLCS 46 (162)
T ss_dssp EEEECSTTSSHHHHHHHHHHHHC-T
T ss_pred EEEECCCCCCHHHHHHHHHHHHcCC
Confidence 3677789999999999999887743
No 348
>PRK14974 cell division protein FtsY; Provisional
Probab=55.01 E-value=31 Score=38.08 Aligned_cols=23 Identities=35% Similarity=0.312 Sum_probs=17.1
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
.++.-..|.|||-++..++....
T Consensus 143 i~~~G~~GvGKTTtiakLA~~l~ 165 (336)
T PRK14974 143 IVFVGVNGTGKTTTIAKLAYYLK 165 (336)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 34555999999998877776543
No 349
>PRK05642 DNA replication initiation factor; Validated
Probab=54.91 E-value=43 Score=34.87 Aligned_cols=36 Identities=22% Similarity=0.252 Sum_probs=22.3
Q ss_pred eEEEEcCccccCCcChH---HHHHHhhc-ccCeEEEEecc
Q 002901 423 WRVILDEAHVIKNANAQ---QSRTVTNL-NAKRRWVVTGT 458 (869)
Q Consensus 423 ~rVIlDEaH~ikn~~s~---~~ka~~~L-~a~~r~~LTGT 458 (869)
+.+|+|+.|.+.+.... .+..+..+ ...+++++|+|
T Consensus 99 d~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~ 138 (234)
T PRK05642 99 ELVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAAS 138 (234)
T ss_pred CEEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCC
Confidence 45899999998654332 22222222 34677888887
No 350
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=54.67 E-value=52 Score=39.38 Aligned_cols=24 Identities=21% Similarity=0.221 Sum_probs=20.0
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-+.|.|||..|..|.....
T Consensus 40 a~Lf~GPpG~GKTtiArilAk~L~ 63 (624)
T PRK14959 40 AYLFSGTRGVGKTTIARIFAKALN 63 (624)
T ss_pred eEEEECCCCCCHHHHHHHHHHhcc
Confidence 455788999999999998887765
No 351
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=54.55 E-value=36 Score=34.24 Aligned_cols=60 Identities=22% Similarity=0.558 Sum_probs=44.4
Q ss_pred HHHHHHHHhcC-CCCCCCccCCCCCc--ceecccCCccchhHHHHhhhcc-------CCCCCCCCCCccC
Q 002901 611 LKKLVEVLQDG-EDFDCPICISPPSD--IIITCCAHIFCRSCILKTLQHT-------KPCCPLCRHPLLQ 670 (869)
Q Consensus 611 ~~~~~~~l~~~-~~~~c~~c~~~~~~--~~~t~c~h~~c~~ci~~~~~~~-------~~~cp~c~~~~~~ 670 (869)
++.+++-+++. -...|..|..++.+ .+-.-|.|.|-..|+.+....- .-.||.|..++-.
T Consensus 37 VQSYLqWL~DsDY~pNC~LC~t~La~gdt~RLvCyhlfHW~ClneraA~lPanTAPaGyqCP~Cs~eiFP 106 (299)
T KOG3970|consen 37 VQSYLQWLQDSDYNPNCRLCNTPLASGDTTRLVCYHLFHWKCLNERAANLPANTAPAGYQCPCCSQEIFP 106 (299)
T ss_pred HHHHHHHHhhcCCCCCCceeCCccccCcceeehhhhhHHHHHhhHHHhhCCCcCCCCcccCCCCCCccCC
Confidence 45566666664 35779999988865 5667799999999998875443 3479999987753
No 352
>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=53.97 E-value=48 Score=41.62 Aligned_cols=24 Identities=25% Similarity=0.317 Sum_probs=19.2
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
.+-||.-+.|.|||..+=+|....
T Consensus 209 ~n~lLvG~pGvGKTal~~~La~~i 232 (852)
T TIGR03345 209 NNPILTGEAGVGKTAVVEGLALRI 232 (852)
T ss_pred CceeEECCCCCCHHHHHHHHHHHH
Confidence 367888899999999887776554
No 353
>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=53.34 E-value=68 Score=26.13 Aligned_cols=56 Identities=14% Similarity=0.226 Sum_probs=40.2
Q ss_pred eEEEEe-ccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 716 KSVVFS-QFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 716 K~lVFs-q~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
|+.||+ .+-.....+...|+..|++|..++-..+...++++.+.... ...-|.|++
T Consensus 1 ~i~ly~~~~Cp~C~~ak~~L~~~~i~~~~i~i~~~~~~~~~~~~~~~~-~~~vP~v~i 57 (75)
T cd03418 1 KVEIYTKPNCPYCVRAKALLDKKGVDYEEIDVDGDPALREEMINRSGG-RRTVPQIFI 57 (75)
T ss_pred CEEEEeCCCChHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHhCC-CCccCEEEE
Confidence 466776 55567888899999999999999988877777777766654 212344544
No 354
>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=53.29 E-value=40 Score=37.84 Aligned_cols=21 Identities=33% Similarity=0.480 Sum_probs=17.3
Q ss_pred ceecCcCCChhHHHHHHHHhc
Q 002901 252 IFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~ 272 (869)
+|+-++|.|||..++.++...
T Consensus 86 LI~G~pG~GKStLllq~a~~~ 106 (372)
T cd01121 86 LIGGDPGIGKSTLLLQVAARL 106 (372)
T ss_pred EEEeCCCCCHHHHHHHHHHHH
Confidence 467799999999988887654
No 355
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=52.79 E-value=1.3e+02 Score=34.95 Aligned_cols=25 Identities=16% Similarity=0.129 Sum_probs=19.6
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+.-|+.-..|.|||-.|..+.....
T Consensus 36 ha~Lf~Gp~G~GKTT~ArilAk~Ln 60 (491)
T PRK14964 36 QSILLVGASGVGKTTCARIISLCLN 60 (491)
T ss_pred ceEEEECCCCccHHHHHHHHHHHHc
Confidence 3567888999999998887766543
No 356
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=52.28 E-value=1e+02 Score=36.87 Aligned_cols=25 Identities=24% Similarity=0.166 Sum_probs=20.7
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
..-||.-.-|.|||..+..+.....
T Consensus 47 ha~L~~Gp~GvGKTt~Ar~lAk~L~ 71 (598)
T PRK09111 47 QAFMLTGVRGVGKTTTARILARALN 71 (598)
T ss_pred ceEEEECCCCCCHHHHHHHHHHhhC
Confidence 3567788999999999999887765
No 357
>PRK13342 recombination factor protein RarA; Reviewed
Probab=51.27 E-value=53 Score=37.45 Aligned_cols=22 Identities=23% Similarity=0.114 Sum_probs=17.6
Q ss_pred CcceecCcCCChhHHHHHHHHh
Q 002901 250 GGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~ 271 (869)
.-||.-+.|.|||..+-++...
T Consensus 38 ~ilL~GppGtGKTtLA~~ia~~ 59 (413)
T PRK13342 38 SMILWGPPGTGKTTLARIIAGA 59 (413)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5677889999999888777543
No 358
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=50.88 E-value=1.4e+02 Score=35.06 Aligned_cols=25 Identities=20% Similarity=0.210 Sum_probs=21.0
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
...||.-+.|.|||-+|-.+.....
T Consensus 44 ~a~Lf~Gp~G~GKTT~ArilAk~Ln 68 (507)
T PRK06645 44 GGYLLTGIRGVGKTTSARIIAKAVN 68 (507)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhc
Confidence 4678899999999999988887654
No 359
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=50.72 E-value=13 Score=30.86 Aligned_cols=51 Identities=22% Similarity=0.469 Sum_probs=23.6
Q ss_pred cCCCCCCCccCCCCCc-----ce--ecccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPSD-----II--ITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~~-----~~--~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
+.....|.||.+.... ++ --.|+-..|+.|.+--.......||-|+.++..
T Consensus 6 ~~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErkeg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 6 NLNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERKEGNQVCPQCKTRYKR 63 (80)
T ss_dssp --SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHHTS-SB-TTT--B---
T ss_pred hcCCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhhcCcccccccCCCccc
Confidence 3445679999886532 22 245888899999999999999999999987763
No 360
>PRK10824 glutaredoxin-4; Provisional
Probab=50.11 E-value=1.1e+02 Score=28.15 Aligned_cols=65 Identities=17% Similarity=0.198 Sum_probs=45.4
Q ss_pred CCeEEEEec------cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccc
Q 002901 714 TTKSVVFSQ------FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGA 780 (869)
Q Consensus 714 ~~K~lVFsq------~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~ 780 (869)
..+++||+- +-.+-......|...|+.|..++=......|. .+.++.. -+.-|.||+=.--.||-
T Consensus 14 ~~~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~i~~~~idi~~d~~~~~-~l~~~sg-~~TVPQIFI~G~~IGG~ 84 (115)
T PRK10824 14 ENPILLYMKGSPKLPSCGFSAQAVQALSACGERFAYVDILQNPDIRA-ELPKYAN-WPTFPQLWVDGELVGGC 84 (115)
T ss_pred cCCEEEEECCCCCCCCCchHHHHHHHHHHcCCCceEEEecCCHHHHH-HHHHHhC-CCCCCeEEECCEEEcCh
Confidence 579999997 56688889999999998887766544444444 5666644 44567888866555543
No 361
>PRK10689 transcription-repair coupling factor; Provisional
Probab=50.07 E-value=3.5e+02 Score=35.28 Aligned_cols=91 Identities=11% Similarity=0.070 Sum_probs=61.7
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH----cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCC
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA----AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGP 768 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~----~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~ 768 (869)
..++|....+....... ..+.+++|.+.-+..+..+...+.. .++++..+.|..+.+++.++++..+++ .+
T Consensus 630 TGsGKT~val~aa~~~~--~~g~qvlvLvPT~eLA~Q~~~~f~~~~~~~~v~i~~l~g~~s~~e~~~il~~l~~g---~~ 704 (1147)
T PRK10689 630 VGFGKTEVAMRAAFLAV--ENHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMLSRFRSAKEQTQILAEAAEG---KI 704 (1147)
T ss_pred CCcCHHHHHHHHHHHHH--HcCCeEEEEeCcHHHHHHHHHHHHHhhccCCceEEEEECCCCHHHHHHHHHHHHhC---CC
Confidence 35788865443332222 2367899999999887777776654 357778899999999999999988773 34
Q ss_pred EEEEEecCCccccccccccC
Q 002901 769 TVLLASLKASGAGVNLTAAS 788 (869)
Q Consensus 769 ~VlL~S~~agg~GLNLt~A~ 788 (869)
.|++.|.......+++....
T Consensus 705 dIVVgTp~lL~~~v~~~~L~ 724 (1147)
T PRK10689 705 DILIGTHKLLQSDVKWKDLG 724 (1147)
T ss_pred CEEEECHHHHhCCCCHhhCC
Confidence 78877765444444443333
No 362
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.37 E-value=8.9 Score=45.97 Aligned_cols=41 Identities=22% Similarity=0.542 Sum_probs=34.4
Q ss_pred CCCCccCCCCCcc-eecccCCccchhHHHHhhhccCCCCCCCCCCc
Q 002901 624 FDCPICISPPSDI-IITCCAHIFCRSCILKTLQHTKPCCPLCRHPL 668 (869)
Q Consensus 624 ~~c~~c~~~~~~~-~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~ 668 (869)
..|..|...++-| |...|+|.|-+.|+. .....||.|+...
T Consensus 841 skCs~C~~~LdlP~VhF~CgHsyHqhC~e----~~~~~CP~C~~e~ 882 (933)
T KOG2114|consen 841 SKCSACEGTLDLPFVHFLCGHSYHQHCLE----DKEDKCPKCLPEL 882 (933)
T ss_pred eeecccCCccccceeeeecccHHHHHhhc----cCcccCCccchhh
Confidence 4699999999886 567899999999998 5567999998633
No 363
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=49.29 E-value=40 Score=46.24 Aligned_cols=38 Identities=32% Similarity=0.241 Sum_probs=25.6
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhc--ccCeEEEEecccccC
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNL--NAKRRWVVTGTPIQN 462 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L--~a~~r~~LTGTPi~N 462 (869)
-.+||||||-++-+ .....+..+ .+..|++|.|=|-|-
T Consensus 1113 ~~v~ivDEasMv~~---~~~~~l~~~~~~~~ak~vlvGD~~QL 1152 (1960)
T TIGR02760 1113 NTLFILDESSMVSN---FQLTHATELVQKSGSRAVSLGDIAQL 1152 (1960)
T ss_pred ccEEEEEccccccH---HHHHHHHHhccCCCCEEEEeCChhhc
Confidence 35799999999854 333333332 456899999987553
No 364
>PRK13844 recombination protein RecR; Provisional
Probab=48.96 E-value=1.2e+02 Score=30.61 Aligned_cols=51 Identities=8% Similarity=0.113 Sum_probs=34.0
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccH----HHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFR----KMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~----~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
..-+++.|++.+.+. .-+-+|+-.+.+ .+..+|.+.|+. ++++.|+--+++
T Consensus 123 ~~l~i~~L~~Ri~~~----~v~EVIlAt~~t~EGe~Ta~yi~~~lk~-~vkvtRlA~GiP 177 (200)
T PRK13844 123 SELKLDILQQIIADR----KIDEVILAISPTVEGETTAHFISQMIAK-DIKISRIGFGVP 177 (200)
T ss_pred hhcCHHHHHHHHhcC----CCcEEEEeCCCCccHHHHHHHHHHHhcC-CCcEEeeeecCc
Confidence 355778888777641 123344444443 478899999988 999999876554
No 365
>PRK00076 recR recombination protein RecR; Reviewed
Probab=48.90 E-value=1.4e+02 Score=30.09 Aligned_cols=49 Identities=20% Similarity=0.284 Sum_probs=33.5
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEe-ccH----HHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFS-QFR----KMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFs-q~~----~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
.-+++.|++.+ + . +.+=||+. ..+ .++.+|.+.|+..++++.|+--+++
T Consensus 120 ~l~i~~L~~ri-~---~--~v~EVIlA~~pt~EGe~Ta~yi~~~lk~~~ikvtRiA~GiP 173 (196)
T PRK00076 120 DLNIDELLERL-D---G--EVKEVILATNPTVEGEATAHYIARLLKPLGVKVTRLAHGVP 173 (196)
T ss_pred ccCHHHHHHHH-h---C--CCCEEEEeCCCCchHHHHHHHHHHHHHHcCCCeeeeeeCCC
Confidence 45788888887 2 1 23334443 322 4788999999999999999876554
No 366
>PRK08181 transposase; Validated
Probab=48.82 E-value=61 Score=34.56 Aligned_cols=24 Identities=13% Similarity=-0.056 Sum_probs=19.5
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
.+-+|.-+.|.|||--+.++....
T Consensus 107 ~nlll~Gp~GtGKTHLa~Aia~~a 130 (269)
T PRK08181 107 ANLLLFGPPGGGKSHLAAAIGLAL 130 (269)
T ss_pred ceEEEEecCCCcHHHHHHHHHHHH
Confidence 467888899999999888887654
No 367
>PRK11054 helD DNA helicase IV; Provisional
Probab=48.26 E-value=20 Score=43.56 Aligned_cols=22 Identities=27% Similarity=0.226 Sum_probs=17.5
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
.|+| ..|.|||-++++-++...
T Consensus 213 lV~a-gaGSGKT~vl~~r~ayLl 234 (684)
T PRK11054 213 LVLA-GAGSGKTSVLVARAGWLL 234 (684)
T ss_pred EEEE-eCCCCHHHHHHHHHHHHH
Confidence 3444 699999999999887765
No 368
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=48.19 E-value=7.7 Score=42.08 Aligned_cols=60 Identities=23% Similarity=0.542 Sum_probs=41.5
Q ss_pred CCCCCCCccCCCCC----cceecccCCccchhHHHHhhhcc-CCCCCCCCCCcc---CCCcccCCCCC
Q 002901 621 GEDFDCPICISPPS----DIIITCCAHIFCRSCILKTLQHT-KPCCPLCRHPLL---QSDLFSSPPES 680 (869)
Q Consensus 621 ~~~~~c~~c~~~~~----~~~~t~c~h~~c~~ci~~~~~~~-~~~cp~c~~~~~---~~~~~~~~~~~ 680 (869)
.-...|..|.+... .---.+|.|+|-..|+..++... ...||.||...+ ..-++..++.+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~~n~~rsCP~CrklrSs~~rpgfvgs~~Ve 430 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILENNGTRSCPNCRKLRSSMKRPGFVGSVPVE 430 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHHhCCCCCCccHHHHHhhccCCCCcCCCccc
Confidence 34567999987643 24457999999999999998655 578999994433 23444444433
No 369
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=48.17 E-value=74 Score=39.04 Aligned_cols=22 Identities=23% Similarity=0.146 Sum_probs=17.4
Q ss_pred CcceecCcCCChhHHHHHHHHh
Q 002901 250 GGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~ 271 (869)
..||.-+.|.|||..+-++...
T Consensus 54 slLL~GPpGtGKTTLA~aIA~~ 75 (725)
T PRK13341 54 SLILYGPPGVGKTTLARIIANH 75 (725)
T ss_pred eEEEECCCCCCHHHHHHHHHHH
Confidence 5688889999999877766543
No 370
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=47.57 E-value=61 Score=37.36 Aligned_cols=25 Identities=16% Similarity=0.070 Sum_probs=18.8
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|--+.|+|||-.+-++.....
T Consensus 142 npl~L~G~~G~GKTHLl~Ai~~~l~ 166 (445)
T PRK12422 142 NPIYLFGPEGSGKTHLMQAAVHALR 166 (445)
T ss_pred ceEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3567777999999998777766543
No 371
>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=47.34 E-value=1e+02 Score=39.10 Aligned_cols=96 Identities=10% Similarity=0.090 Sum_probs=67.8
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH----cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA----AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGG 767 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~----~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~ 767 (869)
...|+|..+.+..+..... .+.+++|.+..+..+..+...+.. .++++..++|.++.+++.+.++.+.++ .
T Consensus 480 dTGsGKT~val~a~l~al~--~g~qvlvLvPT~~LA~Q~~~~f~~~~~~~~i~v~~Lsg~~~~~e~~~~~~~l~~g---~ 554 (926)
T TIGR00580 480 DVGFGKTEVAMRAAFKAVL--DGKQVAVLVPTTLLAQQHFETFKERFANFPVTIELLSRFRSAKEQNEILKELASG---K 554 (926)
T ss_pred CCCccHHHHHHHHHHHHHH--hCCeEEEEeCcHHHHHHHHHHHHHHhccCCcEEEEEeccccHHHHHHHHHHHHcC---C
Confidence 4458888766554433322 257899999999888877776665 377888999999999999999999874 3
Q ss_pred CEEEEEecCCccccccccccCEEEE
Q 002901 768 PTVLLASLKASGAGVNLTAASRVFL 792 (869)
Q Consensus 768 ~~VlL~S~~agg~GLNLt~A~~Vi~ 792 (869)
+.|++.+.......+.+.....||+
T Consensus 555 ~dIVIGTp~ll~~~v~f~~L~llVI 579 (926)
T TIGR00580 555 IDILIGTHKLLQKDVKFKDLGLLII 579 (926)
T ss_pred ceEEEchHHHhhCCCCcccCCEEEe
Confidence 4777777655554555555554444
No 372
>KOG0740 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=46.84 E-value=42 Score=38.04 Aligned_cols=26 Identities=27% Similarity=0.424 Sum_probs=21.7
Q ss_pred CCCCcceecCcCCChhHHHHHHHHhc
Q 002901 247 PLRGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 247 ~~~GgILAD~mGLGKTl~~lali~~~ 272 (869)
..+|-+|+-+.|.|||..+.++....
T Consensus 185 p~rglLLfGPpgtGKtmL~~aiAsE~ 210 (428)
T KOG0740|consen 185 PVRGLLLFGPPGTGKTMLAKAIATES 210 (428)
T ss_pred ccchhheecCCCCchHHHHHHHHhhh
Confidence 45788899999999999988887643
No 373
>PRK05896 DNA polymerase III subunits gamma and tau; Validated
Probab=46.76 E-value=3.2e+02 Score=32.74 Aligned_cols=24 Identities=25% Similarity=0.235 Sum_probs=20.3
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-+.|.|||..|.++.....
T Consensus 40 A~Lf~GP~GvGKTTlA~~lAk~L~ 63 (605)
T PRK05896 40 AYIFSGPRGIGKTSIAKIFAKAIN 63 (605)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhc
Confidence 456788999999999999887765
No 374
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.75 E-value=25 Score=42.64 Aligned_cols=32 Identities=25% Similarity=0.614 Sum_probs=26.6
Q ss_pred CCCCCccCCCCCc--ceecccCCccchhHHHHhh
Q 002901 623 DFDCPICISPPSD--IIITCCAHIFCRSCILKTL 654 (869)
Q Consensus 623 ~~~c~~c~~~~~~--~~~t~c~h~~c~~ci~~~~ 654 (869)
.+.|.+|..++.. -++.+|+|.|-+.|+.+..
T Consensus 817 ~d~C~~C~~~ll~~pF~vf~CgH~FH~~Cl~~~v 850 (911)
T KOG2034|consen 817 QDSCDHCGRPLLIKPFYVFPCGHCFHRDCLIRHV 850 (911)
T ss_pred ccchHHhcchhhcCcceeeeccchHHHHHHHHHH
Confidence 5679999988654 4778999999999999874
No 375
>PRK14952 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.63 E-value=1.1e+02 Score=36.48 Aligned_cols=23 Identities=26% Similarity=0.198 Sum_probs=19.5
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-|+.-.-|.|||-.+..++....
T Consensus 38 ~Lf~Gp~G~GKTt~A~~lAk~l~ 60 (584)
T PRK14952 38 YLFSGPRGCGKTSSARILARSLN 60 (584)
T ss_pred EEEECCCCCCHHHHHHHHHHHhc
Confidence 37788999999999999887665
No 376
>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]
Probab=46.33 E-value=38 Score=41.26 Aligned_cols=42 Identities=31% Similarity=0.264 Sum_probs=28.7
Q ss_pred ccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCccccCC
Q 002901 394 KMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAHVIKN 435 (869)
Q Consensus 394 ~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH~ikn 435 (869)
..+|+||++|..+..+............-..+|+||||++-+
T Consensus 193 ~~ad~vv~nh~~~~~~~~~~~~~~~~p~~~v~v~DEAH~l~d 234 (654)
T COG1199 193 ENADLVVTNHALLLADVALEESRILLPENDVVVFDEAHNLPD 234 (654)
T ss_pred hhCCEEEEccHHHHhHHHhhhhhccCCcccEEEEeccccchH
Confidence 467999999999988763211110022456799999999854
No 377
>cd01120 RecA-like_NTPases RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Probab=45.81 E-value=1.7e+02 Score=27.43 Aligned_cols=21 Identities=29% Similarity=0.139 Sum_probs=16.2
Q ss_pred eecCcCCChhHHHHHHHHhcc
Q 002901 253 FADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 253 LAD~mGLGKTl~~lali~~~~ 273 (869)
+.-..|.|||..+..++....
T Consensus 4 i~G~~G~GKT~l~~~i~~~~~ 24 (165)
T cd01120 4 VFGPTGSGKTTLALQLALNIA 24 (165)
T ss_pred EeCCCCCCHHHHHHHHHHHHH
Confidence 344789999999988877643
No 378
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=45.76 E-value=55 Score=39.13 Aligned_cols=42 Identities=17% Similarity=0.221 Sum_probs=26.3
Q ss_pred CCcceeeeeEEEEcCccccCCcChHHHHHHhhc--ccCeEEEEecc
Q 002901 415 SPVKKIEWWRVILDEAHVIKNANAQQSRTVTNL--NAKRRWVVTGT 458 (869)
Q Consensus 415 ~~l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~L--~a~~r~~LTGT 458 (869)
..+....++++|+||||.|+.. .....+-.+ .....|.+|-|
T Consensus 346 NsiRGqtfDLLIVDEAqFIk~~--al~~ilp~l~~~n~k~I~ISS~ 389 (738)
T PHA03368 346 NGIRGQDFNLLFVDEANFIRPD--AVQTIMGFLNQTNCKIIFVSST 389 (738)
T ss_pred CCccCCcccEEEEechhhCCHH--HHHHHHHHHhccCccEEEEecC
Confidence 3466778999999999999762 222222222 34556666654
No 379
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=44.70 E-value=18 Score=45.69 Aligned_cols=51 Identities=27% Similarity=0.623 Sum_probs=38.8
Q ss_pred cCCCCCCCccCCCCC--c-ceecccCCccchhHHHHhhhcc---------CCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPS--D-IIITCCAHIFCRSCILKTLQHT---------KPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~--~-~~~t~c~h~~c~~ci~~~~~~~---------~~~cp~c~~~~~~ 670 (869)
+..++.|.||..... . .+-..|+|+|-..|....+++. -..||.|..++..
T Consensus 3483 QD~DDmCmICFTE~L~AAP~IqL~C~HiFHlqC~R~vLE~RW~GPRItF~FisCPiC~n~InH 3545 (3738)
T KOG1428|consen 3483 QDADDMCMICFTEALSAAPAIQLDCSHIFHLQCCRRVLENRWLGPRITFGFISCPICKNKINH 3545 (3738)
T ss_pred cccCceEEEEehhhhCCCcceecCCccchhHHHHHHHHHhcccCCeeEEeeeecccccchhhh
Confidence 445667888876542 2 3456899999999999999886 2479999988874
No 380
>PF13173 AAA_14: AAA domain
Probab=44.15 E-value=19 Score=33.35 Aligned_cols=37 Identities=14% Similarity=0.200 Sum_probs=24.9
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccC
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQN 462 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N 462 (869)
-..|+|||+|.+.+ ...+++.+ ....++++||+-...
T Consensus 62 ~~~i~iDEiq~~~~----~~~~lk~l~d~~~~~~ii~tgS~~~~ 101 (128)
T PF13173_consen 62 KKYIFIDEIQYLPD----WEDALKFLVDNGPNIKIILTGSSSSL 101 (128)
T ss_pred CcEEEEehhhhhcc----HHHHHHHHHHhccCceEEEEccchHH
Confidence 34599999999975 33444444 235689999985443
No 381
>TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI. This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein.
Probab=43.83 E-value=1.8e+02 Score=40.27 Aligned_cols=48 Identities=10% Similarity=0.109 Sum_probs=31.6
Q ss_pred eeEEEEcCccccCCcChHHHHHHhh-c-ccCeEEEEecccccCChhhhHhhhh
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTN-L-NAKRRWVVTGTPIQNGSFDLFSLMA 472 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~-L-~a~~r~~LTGTPi~N~l~DL~sll~ 472 (869)
-++||||||-++ ++.....+.. . .+.-+++|-|=+-|...-+-.+.|+
T Consensus 530 ~~vlIVDEAsMl---~~~~~~~Ll~~a~~~garvVlvGD~~QL~sV~aG~~f~ 579 (1960)
T TIGR02760 530 KDIFVVDEANKL---SNNELLKLIDKAEQHNSKLILLNDSAQRQGMSAGSAID 579 (1960)
T ss_pred CCEEEEECCCCC---CHHHHHHHHHHHhhcCCEEEEEcChhhcCccccchHHH
Confidence 457999999998 4455555544 3 4678899888887765443333333
No 382
>KOG0737 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=43.59 E-value=48 Score=36.52 Aligned_cols=25 Identities=24% Similarity=0.340 Sum_probs=21.3
Q ss_pred CCCCcceecCcCCChhHHHHHHHHh
Q 002901 247 PLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 247 ~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
+++|-+|-.+.|.|||..|-++...
T Consensus 126 p~kGiLL~GPpG~GKTmlAKA~Ake 150 (386)
T KOG0737|consen 126 PPKGILLYGPPGTGKTMLAKAIAKE 150 (386)
T ss_pred CCccceecCCCCchHHHHHHHHHHH
Confidence 5689999999999999988887653
No 383
>PRK06647 DNA polymerase III subunits gamma and tau; Validated
Probab=43.45 E-value=1.6e+02 Score=35.19 Aligned_cols=23 Identities=26% Similarity=0.284 Sum_probs=19.6
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-|+.-+.|.|||..+.++.....
T Consensus 41 yLf~Gp~G~GKTt~Ar~lAk~L~ 63 (563)
T PRK06647 41 YIFSGPRGVGKTSSARAFARCLN 63 (563)
T ss_pred EEEECCCCCCHHHHHHHHHHhhc
Confidence 56788999999999998887765
No 384
>PF13607 Succ_CoA_lig: Succinyl-CoA ligase like flavodoxin domain; PDB: 2CSU_A.
Probab=43.42 E-value=1.2e+02 Score=28.63 Aligned_cols=86 Identities=17% Similarity=0.126 Sum_probs=54.7
Q ss_pred eEEEEeccHHHHHHHHHHHHHcCCcE--EEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEE
Q 002901 716 KSVVFSQFRKMLILLEEPLQAAGFKL--LRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLL 793 (869)
Q Consensus 716 K~lVFsq~~~~ld~l~~~L~~~gi~~--~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~ 793 (869)
.+=++||.-.+...+...+...|+.+ ..=.|....-.=.++++.|.+ |++ .+++++ ++
T Consensus 3 ~valisQSG~~~~~~~~~~~~~g~g~s~~vs~Gn~~dv~~~d~l~~~~~-D~~-t~~I~l------------------y~ 62 (138)
T PF13607_consen 3 GVALISQSGALGTAILDWAQDRGIGFSYVVSVGNEADVDFADLLEYLAE-DPD-TRVIVL------------------YL 62 (138)
T ss_dssp SEEEEES-HHHHHHHHHHHHHTT-EESEEEE-TT-SSS-HHHHHHHHCT--SS---EEEE------------------EE
T ss_pred CEEEEECCHHHHHHHHHHHHHcCCCeeEEEEeCccccCCHHHHHHHHhc-CCC-CCEEEE------------------Ec
Confidence 45689999999999999998876654 555676555667789999999 553 366554 45
Q ss_pred cCCCCcchHHHHhhhhhhcCCcccEEEEEEE
Q 002901 794 EPWWNPAVEEQAMDRVHRIGQKEDVKIVRLI 824 (869)
Q Consensus 794 dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli 824 (869)
|..-||....++.-|+.|- |||.+++-=
T Consensus 63 E~~~d~~~f~~~~~~a~~~---KPVv~lk~G 90 (138)
T PF13607_consen 63 EGIGDGRRFLEAARRAARR---KPVVVLKAG 90 (138)
T ss_dssp S--S-HHHHHHHHHHHCCC---S-EEEEE--
T ss_pred cCCCCHHHHHHHHHHHhcC---CCEEEEeCC
Confidence 6666788888888877664 899887654
No 385
>PRK14873 primosome assembly protein PriA; Provisional
Probab=43.30 E-value=1.1e+02 Score=37.08 Aligned_cols=76 Identities=13% Similarity=0.047 Sum_probs=63.0
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-C-CcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-G-FKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVL 771 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-g-i~~~rldG~~~~~~R~~~i~~F~~~~~~~~~Vl 771 (869)
.|.|.+..++++.+.... |..+||...-......+...|+.. | ..++.++++++..+|.+.-.+..++ ...|+
T Consensus 170 GSGKTevyl~~i~~~l~~--Gk~vLvLvPEi~lt~q~~~rl~~~f~~~~v~~lhS~l~~~~R~~~w~~~~~G---~~~IV 244 (665)
T PRK14873 170 GEDWARRLAAAAAATLRA--GRGALVVVPDQRDVDRLEAALRALLGAGDVAVLSAGLGPADRYRRWLAVLRG---QARVV 244 (665)
T ss_pred CCcHHHHHHHHHHHHHHc--CCeEEEEecchhhHHHHHHHHHHHcCCCcEEEECCCCCHHHHHHHHHHHhCC---CCcEE
Confidence 489999999999988755 788999999888888888888764 4 6799999999999999999998874 33665
Q ss_pred EEe
Q 002901 772 LAS 774 (869)
Q Consensus 772 L~S 774 (869)
+-+
T Consensus 245 iGt 247 (665)
T PRK14873 245 VGT 247 (665)
T ss_pred EEc
Confidence 544
No 386
>PHA03096 p28-like protein; Provisional
Probab=42.74 E-value=13 Score=39.79 Aligned_cols=43 Identities=26% Similarity=0.294 Sum_probs=31.2
Q ss_pred CCCCccCCCCC--------cceecccCCccchhHHHHhhhcc--CCCCCCCCC
Q 002901 624 FDCPICISPPS--------DIIITCCAHIFCRSCILKTLQHT--KPCCPLCRH 666 (869)
Q Consensus 624 ~~c~~c~~~~~--------~~~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~ 666 (869)
-.|.+|++... ...+..|-|.||..|+....... ...||.|+.
T Consensus 179 k~c~ic~e~~~~k~~~~~~fgil~~c~h~fc~~ci~~wr~~~~~~e~~~~c~~ 231 (284)
T PHA03096 179 KICGICLENIKAKYIIKKYYGILSEIKHEFNIFCIKIWMTESLYKETEPENRR 231 (284)
T ss_pred hhcccchhhhhhhccccccccccccCCcHHHHHHHHHHHHhhhhcccCccccc
Confidence 67999988643 25788999999999999765443 344555554
No 387
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=42.53 E-value=56 Score=36.58 Aligned_cols=21 Identities=33% Similarity=0.303 Sum_probs=17.1
Q ss_pred ceecCcCCChhHHHHHHHHhc
Q 002901 252 IFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~ 272 (869)
+|.-..|.|||.++..|....
T Consensus 141 ~lvGptGvGKTTtiakLA~~~ 161 (374)
T PRK14722 141 ALMGPTGVGKTTTTAKLAARC 161 (374)
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 356799999999998888754
No 388
>KOG1807 consensus Helicases [Replication, recombination and repair]
Probab=42.10 E-value=53 Score=39.45 Aligned_cols=47 Identities=13% Similarity=0.235 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc---CCcEEEEeC
Q 002901 698 VSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA---GFKLLRLDG 746 (869)
Q Consensus 698 ~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~---gi~~~rldG 746 (869)
+.+|.+.|.. .+....+++|.+.+..-.+.|.+.|.+. ++++..+||
T Consensus 857 lv~l~kyli~--q~y~psdIviLttY~gQk~ci~rllp~~~~stv~VatVDs 906 (1025)
T KOG1807|consen 857 LVKLTKYLIQ--QQYKPSDIVILTTYNGQKECIKRLLPQNYRSTVQVATVDS 906 (1025)
T ss_pred HHHHHHHHHh--cCCCccceEEEeechhHHHHHHHHhHHHhcCcceEEEecc
Confidence 3445555544 2455789999999999999999999874 666665555
No 389
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=42.04 E-value=54 Score=37.72 Aligned_cols=24 Identities=29% Similarity=0.187 Sum_probs=18.3
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-+|--+.|+|||--+-++.....
T Consensus 132 ~l~lyG~~G~GKTHLl~ai~~~l~ 155 (440)
T PRK14088 132 PLFIYGGVGLGKTHLLQSIGNYVV 155 (440)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHHH
Confidence 456777999999998877766543
No 390
>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=41.75 E-value=23 Score=38.09 Aligned_cols=43 Identities=21% Similarity=0.261 Sum_probs=27.2
Q ss_pred cceeeeeEEEEcCcccc-CCcChHHHHHH---hhccc--CeEEEEeccc
Q 002901 417 VKKIEWWRVILDEAHVI-KNANAQQSRTV---TNLNA--KRRWVVTGTP 459 (869)
Q Consensus 417 l~~~~w~rVIlDEaH~i-kn~~s~~~ka~---~~L~a--~~r~~LTGTP 459 (869)
|..+.-.++|+||.|++ .....++-..+ +.|.. .--+++.||+
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 45566778999999996 44444444433 33433 3346778987
No 391
>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=41.74 E-value=38 Score=29.09 Aligned_cols=56 Identities=16% Similarity=0.111 Sum_probs=30.6
Q ss_pred eEEEecChhH-HH-HHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhh
Q 002901 351 ITLIVCPPSV-FS-TWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTL 406 (869)
Q Consensus 351 ~tLIV~P~sl-l~-qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l 406 (869)
.+|+|||... .+ .-...+++++..-.+.+.+-+.+-..-.....++|+||||-..-
T Consensus 2 ~ilivC~~G~~tS~~l~~~i~~~~~~~~i~~~v~~~~~~~~~~~~~~~Dliist~~~~ 59 (89)
T cd05566 2 KILVACGTGVATSTVVASKVKELLKENGIDVKVEQCKIAEVPSLLDDADLIVSTTKVP 59 (89)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHCCCceEEEEecHHHhhcccCCCcEEEEcCCcC
Confidence 4799999854 23 35566666663223333322211110111346899999998764
No 392
>PRK13709 conjugal transfer nickase/helicase TraI; Provisional
Probab=41.51 E-value=76 Score=42.75 Aligned_cols=41 Identities=22% Similarity=0.215 Sum_probs=27.6
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcc-cCeEEEEecccccCCh
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLN-AKRRWVVTGTPIQNGS 464 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~-a~~r~~LTGTPi~N~l 464 (869)
-++||||||-++-+. .+.+.+..+. ...|++|-|=+-|-..
T Consensus 1063 ~~llIVDEaSMv~~~--~m~~Ll~~~~~~garvVLVGD~~QL~s 1104 (1747)
T PRK13709 1063 NTLFLLDESSMVGNT--DMARAYALIAAGGGRAVSSGDTDQLQA 1104 (1747)
T ss_pred CcEEEEEccccccHH--HHHHHHHhhhcCCCEEEEecchHhcCC
Confidence 367999999998543 2334444444 3578999998877443
No 393
>COG1435 Tdk Thymidine kinase [Nucleotide transport and metabolism]
Probab=41.11 E-value=75 Score=31.96 Aligned_cols=34 Identities=18% Similarity=0.167 Sum_probs=22.2
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhccc--CeEEEEecc
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLNA--KRRWVVTGT 458 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~a--~~r~~LTGT 458 (869)
.+.|.+||||.+.. .+-..+..|.. ..++++.|.
T Consensus 83 ~~~v~IDEaQF~~~---~~v~~l~~lad~lgi~Vi~~GL 118 (201)
T COG1435 83 VDCVLIDEAQFFDE---ELVYVLNELADRLGIPVICYGL 118 (201)
T ss_pred cCEEEEehhHhCCH---HHHHHHHHHHhhcCCEEEEecc
Confidence 56799999999954 34445555533 456666664
No 394
>PRK12377 putative replication protein; Provisional
Probab=40.89 E-value=51 Score=34.71 Aligned_cols=25 Identities=16% Similarity=0.072 Sum_probs=20.3
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|.-+.|.|||-.+.|+.....
T Consensus 102 ~~l~l~G~~GtGKThLa~AIa~~l~ 126 (248)
T PRK12377 102 TNFVFSGKPGTGKNHLAAAIGNRLL 126 (248)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHH
Confidence 3567888999999999988887654
No 395
>PRK14971 DNA polymerase III subunits gamma and tau; Provisional
Probab=40.70 E-value=3.7e+02 Score=32.42 Aligned_cols=61 Identities=16% Similarity=0.235 Sum_probs=34.1
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChhhhHhhhhhhccCCCCchH
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSFDLFSLMAFLQFEPFSVKS 483 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~~~~~ 483 (869)
.+..|||||+|.+.. ......++.| ...-+++|+.|-...-+.-|-|-...++..+++...
T Consensus 121 ~~KVvIIdea~~Ls~--~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~e 184 (614)
T PRK14971 121 KYKIYIIDEVHMLSQ--AAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVAD 184 (614)
T ss_pred CcEEEEEECcccCCH--HHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHH
Confidence 577899999999933 1222222333 344567777663333333455555556666665543
No 396
>PHA00673 acetyltransferase domain containing protein
Probab=40.47 E-value=35 Score=32.99 Aligned_cols=45 Identities=16% Similarity=0.018 Sum_probs=36.8
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhc---ccCeEEEEecccccCChh
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNL---NAKRRWVVTGTPIQNGSF 465 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L---~a~~r~~LTGTPi~N~l~ 465 (869)
.-+-|.+|+.|+=+.-.+...+.+... ..-++|-+||||-.|.++
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 345689999999888888888777665 567899999999998754
No 397
>KOG1100 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=40.37 E-value=14 Score=37.65 Aligned_cols=40 Identities=28% Similarity=0.745 Sum_probs=32.5
Q ss_pred CCccCCCCCcceecccCC-ccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 626 CPICISPPSDIIITCCAH-IFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 626 c~~c~~~~~~~~~t~c~h-~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
|-.|.......+..+|.| .+|..|-.. ...||+|+.+...
T Consensus 161 Cr~C~~~~~~VlllPCrHl~lC~~C~~~-----~~~CPiC~~~~~s 201 (207)
T KOG1100|consen 161 CRKCGEREATVLLLPCRHLCLCGICDES-----LRICPICRSPKTS 201 (207)
T ss_pred ceecCcCCceEEeecccceEeccccccc-----CccCCCCcChhhc
Confidence 999999988899999999 589999654 2359999976643
No 398
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=40.22 E-value=94 Score=35.09 Aligned_cols=91 Identities=23% Similarity=0.290 Sum_probs=60.9
Q ss_pred CcchHHHHHHHHHHhhhcCCCCeEEEEec-cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 694 TSSKVSALLTLLLQLRDKKPTTKSVVFSQ-FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~~~~K~lVFsq-~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
.|+-+.|+...+..+. .+|.++|+... |-.+..++...|.+.||.+..+|.+..... ++....+ +
T Consensus 84 fsSGmaAI~~~~l~ll--~~GD~vl~~~~~YG~t~~~~~~~l~~~gi~~~~~d~~~~~~~----~~~~~~~---~----- 149 (396)
T COG0626 84 FSSGMAAISTALLALL--KAGDHVLLPDDLYGGTYRLFEKILQKFGVEVTFVDPGDDEAL----EAAIKEP---N----- 149 (396)
T ss_pred ecCcHHHHHHHHHHhc--CCCCEEEecCCccchHHHHHHHHHHhcCeEEEEECCCChHHH----HHHhccc---C-----
Confidence 4777888877666655 34788887765 888889999999999999988888754332 3333321 1
Q ss_pred EecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcC
Q 002901 773 ASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIG 813 (869)
Q Consensus 773 ~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiG 813 (869)
..+|++|.+=||-.+.+=|.++-|+.
T Consensus 150 ---------------tk~v~lEtPsNP~l~v~DI~~i~~~A 175 (396)
T COG0626 150 ---------------TKLVFLETPSNPLLEVPDIPAIARLA 175 (396)
T ss_pred ---------------ceEEEEeCCCCcccccccHHHHHHHH
Confidence 34566677777766666555555543
No 399
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=39.97 E-value=59 Score=38.81 Aligned_cols=37 Identities=19% Similarity=0.345 Sum_probs=22.9
Q ss_pred eeEEEEcCccccCCcChHH---HHHHhhc-ccCeEEEEecc
Q 002901 422 WWRVILDEAHVIKNANAQQ---SRTVTNL-NAKRRWVVTGT 458 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~---~ka~~~L-~a~~r~~LTGT 458 (869)
.++||||+.|.+.+..... +..+..+ ...+.+++|+.
T Consensus 378 ~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd 418 (617)
T PRK14086 378 MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSD 418 (617)
T ss_pred CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecC
Confidence 3569999999997754332 2233333 33456778776
No 400
>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=39.87 E-value=75 Score=37.00 Aligned_cols=51 Identities=12% Similarity=0.263 Sum_probs=30.3
Q ss_pred CcchHHHHHHHHHHhhhcC-CCCeEEEEeccHHHHHHHHHHHHHcCC--cEEEEeC
Q 002901 694 TSSKVSALLTLLLQLRDKK-PTTKSVVFSQFRKMLILLEEPLQAAGF--KLLRLDG 746 (869)
Q Consensus 694 ~s~K~~~L~~~L~~~~~~~-~~~K~lVFsq~~~~ld~l~~~L~~~gi--~~~rldG 746 (869)
...-.+.+.+.|.++.+.. -..+.|.|-.|.. ..+...|.+.|+ ..+.+.-
T Consensus 349 ~~iD~~~v~~~i~~~~~~~~~~v~~i~yD~~~a--~~~~~~l~~~g~~~~~~~v~Q 402 (477)
T PF03354_consen 349 NVIDYDEVEEWIIELIDKYGFDVQEIGYDPWNA--TQFVQRLEEEGFDYPMVEVRQ 402 (477)
T ss_pred CcccHHHHHHHHHHHHHhcCcCccEEEEehhhh--HHHHHHHHhccCcceEEEecc
Confidence 3445666777766654331 2456677776644 457778888887 4444433
No 401
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=39.81 E-value=22 Score=39.20 Aligned_cols=30 Identities=30% Similarity=0.714 Sum_probs=22.6
Q ss_pred cCCccchhHHHHhhhcc------------CCCCCCCCCCccC
Q 002901 641 CAHIFCRSCILKTLQHT------------KPCCPLCRHPLLQ 670 (869)
Q Consensus 641 c~h~~c~~ci~~~~~~~------------~~~cp~c~~~~~~ 670 (869)
|.-..|.+|+.+.+... +..||+||+.+=.
T Consensus 311 CRPmWC~~Cm~kwFasrQd~~~~~~Wl~~~~~CPtCRa~FCi 352 (358)
T PF10272_consen 311 CRPMWCLECMGKWFASRQDQQHPETWLSGKCPCPTCRAKFCI 352 (358)
T ss_pred ccchHHHHHHHHHhhhcCCCCChhhhhcCCCCCCCCccccee
Confidence 66677899999986432 5789999987643
No 402
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=39.23 E-value=18 Score=39.42 Aligned_cols=40 Identities=30% Similarity=0.224 Sum_probs=28.6
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCC
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNG 463 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~ 463 (869)
--.|||||||+ . .-.++--.+-.|....+..+||.+.|-.
T Consensus 244 dAfVIlDEaQN-t-T~~QmKMfLTRiGf~skmvItGD~tQiD 283 (348)
T COG1702 244 DAFVILDEAQN-T-TVGQMKMFLTRIGFESKMVITGDITQID 283 (348)
T ss_pred CeEEEEecccc-c-chhhhceeeeeecCCceEEEEcCccccc
Confidence 34599999998 2 2223333466678899999999998744
No 403
>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]
Probab=39.16 E-value=50 Score=38.23 Aligned_cols=85 Identities=12% Similarity=0.167 Sum_probs=54.9
Q ss_pred EEecChhHHHHHHHHHHHhcCCCCeEEEEEeC-CCCCChhhhccccEEEEechhhHhhhcccCCCcceeeeeEEEEcCcc
Q 002901 353 LIVCPPSVFSTWITQLEEHTVPGMLKTYMYYG-DRTQDVEELKMYDLVLTTYSTLAIEESWLESPVKKIEWWRVILDEAH 431 (869)
Q Consensus 353 LIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G-~r~~~~~~l~~~dVVItTY~~l~~~~~~~~~~l~~~~w~rVIlDEaH 431 (869)
+.--|..++ ..|+-+.+....+.+-.+.| .+......-..+..|-.|-+++.- ...++..||||.+
T Consensus 219 vycGPLrLL---A~EV~~r~na~gipCdL~TGeE~~~~~~~~~~a~hvScTVEM~sv----------~~~yeVAViDEIQ 285 (700)
T KOG0953|consen 219 VYCGPLRLL---AHEVYDRLNALGIPCDLLTGEERRFVLDNGNPAQHVSCTVEMVSV----------NTPYEVAVIDEIQ 285 (700)
T ss_pred eecchHHHH---HHHHHHHhhhcCCCccccccceeeecCCCCCcccceEEEEEEeec----------CCceEEEEehhHH
Confidence 444566665 34666666556788888899 444333333345566677766643 2357889999999
Q ss_pred ccCCcC--hHHHHHHhhcccC
Q 002901 432 VIKNAN--AQQSRTVTNLNAK 450 (869)
Q Consensus 432 ~ikn~~--s~~~ka~~~L~a~ 450 (869)
+++.+. -..++|+..|.|+
T Consensus 286 mm~Dp~RGwAWTrALLGl~Ad 306 (700)
T KOG0953|consen 286 MMRDPSRGWAWTRALLGLAAD 306 (700)
T ss_pred hhcCcccchHHHHHHHhhhhh
Confidence 998754 4556777777654
No 404
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=38.87 E-value=1.7e+02 Score=36.82 Aligned_cols=63 Identities=13% Similarity=0.247 Sum_probs=42.8
Q ss_pred CCeEEEEeccHHHHHHHHHHHH----HcC-CcEEE-EeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcc
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQ----AAG-FKLLR-LDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASG 779 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~----~~g-i~~~r-ldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg 779 (869)
+.|+++.-.-+.......+.|+ ..| ..... +||.++.+++++++++|.++| ..||+.|+.-..
T Consensus 125 gkr~yii~PT~~Lv~Q~~~kl~~~~e~~~~~~~~~~yh~~l~~~ekee~le~i~~gd---fdIlitTs~FL~ 193 (1187)
T COG1110 125 GKRVYIIVPTTTLVRQVYERLKKFAEDAGSLDVLVVYHSALPTKEKEEALERIESGD---FDILITTSQFLS 193 (1187)
T ss_pred CCeEEEEecCHHHHHHHHHHHHHHHhhcCCcceeeeeccccchHHHHHHHHHHhcCC---ccEEEEeHHHHH
Confidence 5787776666655554444443 444 33222 899999999999999999953 378887755443
No 405
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.15 E-value=27 Score=35.94 Aligned_cols=56 Identities=16% Similarity=0.441 Sum_probs=43.4
Q ss_pred CCCCCCccCCCCCc----ceecccCCccchhHHHHhhhccCCCCCCCCCCccCCCcccCCCCC
Q 002901 622 EDFDCPICISPPSD----IIITCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQSDLFSSPPES 680 (869)
Q Consensus 622 ~~~~c~~c~~~~~~----~~~t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~~~~~~~~~~~ 680 (869)
..+.|++-.-++.. .++-+|+|+|-...+.+.. ...|++|...+...|.+.+-+..
T Consensus 110 a~fiCPvtgleMng~~~F~~l~~CGcV~SerAlKeik---as~C~~C~a~y~~~dvIvlNg~~ 169 (293)
T KOG3113|consen 110 ARFICPVTGLEMNGKYRFCALRCCGCVFSERALKEIK---ASVCHVCGAAYQEDDVIVLNGTE 169 (293)
T ss_pred ceeecccccceecceEEEEEEeccceeccHHHHHHhh---hccccccCCcccccCeEeeCCCH
Confidence 35779988777654 5678999999888777665 55899999999998887665543
No 406
>PRK07940 DNA polymerase III subunit delta'; Validated
Probab=37.97 E-value=46 Score=37.66 Aligned_cols=25 Identities=16% Similarity=0.266 Sum_probs=20.9
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
++-++.-+.|.|||..|.++.....
T Consensus 37 ha~Lf~Gp~G~GKt~lA~~lA~~l~ 61 (394)
T PRK07940 37 HAWLFTGPPGSGRSVAARAFAAALQ 61 (394)
T ss_pred eEEEEECCCCCcHHHHHHHHHHHhC
Confidence 4566889999999999999987765
No 407
>COG4626 Phage terminase-like protein, large subunit [General function prediction only]
Probab=37.91 E-value=1.3e+02 Score=35.23 Aligned_cols=56 Identities=14% Similarity=0.014 Sum_probs=36.1
Q ss_pred ccccccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 195 EVIKSELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 195 ~~~~~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
++...+|.|||+..+.-+.- |++.-|+-. .++-+++--.=|=|||-.+.+++.+..
T Consensus 56 ~~~p~~l~PwQkFiia~l~G-----------------~~~k~T~~r------rf~e~fI~v~RkngKt~l~A~i~~~~~ 111 (546)
T COG4626 56 PGFPESLEPWQKFIVAALFG-----------------FYDKQTGIR------RFKEAFIFIPRKNGKSTLAAGIMMTAL 111 (546)
T ss_pred CCCccccchHHHHHHHHHhc-----------------eeecCCCce------EEEEEEEEEecCCchHHHHHHHHHHHH
Confidence 34557899999999998873 222222221 123466666788999988776666543
No 408
>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=37.84 E-value=49 Score=28.31 Aligned_cols=38 Identities=21% Similarity=0.317 Sum_probs=30.4
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
.++.++|+||..-.........|+..|+.+..++|+++
T Consensus 49 ~~~~~vvl~c~~g~~a~~~a~~L~~~G~~v~~l~GG~~ 86 (90)
T cd01524 49 PKDKEIIVYCAVGLRGYIAARILTQNGFKVKNLDGGYK 86 (90)
T ss_pred CCCCcEEEEcCCChhHHHHHHHHHHCCCCEEEecCCHH
Confidence 34678899988655677778889999998889999975
No 409
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=37.83 E-value=83 Score=38.87 Aligned_cols=24 Identities=21% Similarity=0.201 Sum_probs=18.7
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
..-||--+.|.|||..+=++....
T Consensus 208 ~n~LLvGppGvGKT~lae~la~~i 231 (758)
T PRK11034 208 NNPLLVGESGVGKTAIAEGLAWRI 231 (758)
T ss_pred CCeEEECCCCCCHHHHHHHHHHHH
Confidence 345888899999999987776543
No 410
>PF01443 Viral_helicase1: Viral (Superfamily 1) RNA helicase; InterPro: IPR000606 This entry includes RNA and DNA helicases. Some of the members are found in positive-strand single stranded RNA viruses. The helicase has multiple roles at different stages of viral RNA replication, as dissected by mutational analysis [].; GO: 0004386 helicase activity
Probab=37.72 E-value=54 Score=33.69 Aligned_cols=42 Identities=19% Similarity=0.314 Sum_probs=27.7
Q ss_pred eeeEEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChh
Q 002901 421 EWWRVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSF 465 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~ 465 (869)
..+++||||++.+-.. ....+..+.....+.+-|=|.|-...
T Consensus 62 ~~~~liiDE~~~~~~g---~l~~l~~~~~~~~~~l~GDp~Q~~~~ 103 (234)
T PF01443_consen 62 SYDTLIIDEAQLLPPG---YLLLLLSLSPAKNVILFGDPLQIPYI 103 (234)
T ss_pred cCCEEEEeccccCChH---HHHHHHhhccCcceEEEECchhccCC
Confidence 4677999999987431 22234444454578888999886544
No 411
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=37.70 E-value=2.6e+02 Score=28.07 Aligned_cols=107 Identities=11% Similarity=0.245 Sum_probs=67.0
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEeccHHH-----------------------------HHHHHHHHHHcCCcEEEEeC
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQFRKM-----------------------------LILLEEPLQAAGFKLLRLDG 746 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~-----------------------------ld~l~~~L~~~gi~~~rldG 746 (869)
.-+..+++.+++.+.+.-..-++.|..|... ..-+....+++|+.++-+..
T Consensus 77 ~tl~~i~emvk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfiivDlPpEEa~~~Rne~~k~gislvpLva 156 (268)
T KOG4175|consen 77 TTLNSIIEMVKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFIIVDLPPEEAETLRNEARKHGISLVPLVA 156 (268)
T ss_pred CcHHHHHHHHHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEeccCChHHHHHHHHHHHhcCceEEEeeC
Confidence 3455666666665544334455555555433 33455566777888888888
Q ss_pred CCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEE
Q 002901 747 SMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKI 820 (869)
Q Consensus 747 ~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V 820 (869)
-.+.++|-+++..-.+. .|.++| +.|..|.--+- -....|-+-|+...--..|+-|
T Consensus 157 PsTtdeRmell~~~ads-----FiYvVS-rmG~TG~~~sv------------n~~l~~L~qrvrk~t~dtPlAV 212 (268)
T KOG4175|consen 157 PSTTDERMELLVEAADS-----FIYVVS-RMGVTGTRESV------------NEKLQSLLQRVRKATGDTPLAV 212 (268)
T ss_pred CCChHHHHHHHHHhhcc-----eEEEEE-eccccccHHHH------------HHHHHHHHHHHHHhcCCCceeE
Confidence 88889999988877552 888888 77777743321 1234566667765554555444
No 412
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=37.58 E-value=95 Score=35.09 Aligned_cols=22 Identities=27% Similarity=0.258 Sum_probs=16.6
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
.|.-..|.|||-++..|.....
T Consensus 245 ~LVGptGvGKTTTiaKLA~~L~ 266 (436)
T PRK11889 245 ALIGPTGVGKTTTLAKMAWQFH 266 (436)
T ss_pred EEECCCCCcHHHHHHHHHHHHH
Confidence 3555799999999888876543
No 413
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=37.56 E-value=98 Score=37.84 Aligned_cols=78 Identities=15% Similarity=0.153 Sum_probs=66.0
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHc-CCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAA-GFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~-gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
...|.|.+..++.+.+..++ |..+||-..-......+...|+.. |.++..++.+.+..+|...-.+..++ ..+|
T Consensus 225 vTGSGKTEvYl~~i~~~L~~--GkqvLvLVPEI~Ltpq~~~rf~~rFg~~v~vlHS~Ls~~er~~~W~~~~~G---~~~v 299 (730)
T COG1198 225 VTGSGKTEVYLEAIAKVLAQ--GKQVLVLVPEIALTPQLLARFKARFGAKVAVLHSGLSPGERYRVWRRARRG---EARV 299 (730)
T ss_pred CCCCcHHHHHHHHHHHHHHc--CCEEEEEeccccchHHHHHHHHHHhCCChhhhcccCChHHHHHHHHHHhcC---CceE
Confidence 45699999999999998866 788999988888887777777664 89999999999999999999999985 3377
Q ss_pred EEEe
Q 002901 771 LLAS 774 (869)
Q Consensus 771 lL~S 774 (869)
++-+
T Consensus 300 VIGt 303 (730)
T COG1198 300 VIGT 303 (730)
T ss_pred EEEe
Confidence 7755
No 414
>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=37.42 E-value=56 Score=27.52 Aligned_cols=53 Identities=21% Similarity=0.310 Sum_probs=31.3
Q ss_pred eEEEecChhHH--HHHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechh
Q 002901 351 ITLIVCPPSVF--STWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYST 405 (869)
Q Consensus 351 ~tLIV~P~sll--~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~ 405 (869)
.+||||+...- .--...+++.+ +...+........-......++|+||||-..
T Consensus 2 kilivC~~G~~~s~~l~~~l~~~~--~~~~~v~~~~~~~~~~~~~~~~DlIitT~~l 56 (85)
T cd05568 2 KALVVCPSGIGTSRLLKSKLKKLF--PEIEIIDVISLRELEEVDLDDYDLIISTVPL 56 (85)
T ss_pred eEEEECCCCHHHHHHHHHHHHHHC--CCceEEEEEeHHHHhhCcccCCCEEEEcccc
Confidence 37999998653 34677888888 3333322222111111135689999999864
No 415
>KOG4362 consensus Transcriptional regulator BRCA1 [Replication, recombination and repair; Transcription]
Probab=37.41 E-value=8.7 Score=45.49 Aligned_cols=52 Identities=27% Similarity=0.696 Sum_probs=43.2
Q ss_pred CCCCCCccCCCCCcceecccCCccchhHHHHhhhcc--CCCCCCCCCCccCCCc
Q 002901 622 EDFDCPICISPPSDIIITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLLQSDL 673 (869)
Q Consensus 622 ~~~~c~~c~~~~~~~~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~~~~~ 673 (869)
...+|++|......++.+.|.|.||..|+...+... ...||+|+..+.+...
T Consensus 20 k~lEc~ic~~~~~~p~~~kc~~~~l~~~~n~~f~~~~~~~~~~lc~~~~eK~s~ 73 (684)
T KOG4362|consen 20 KILECPICLEHVKEPSLLKCDHIFLKFCLNKLFESKKGPKQCALCKSDIEKRSL 73 (684)
T ss_pred hhccCCceeEEeeccchhhhhHHHHhhhhhceeeccCccccchhhhhhhhhhhc
Confidence 357899999998889999999999999999877665 4689999977765444
No 416
>PRK10865 protein disaggregation chaperone; Provisional
Probab=37.23 E-value=1.1e+02 Score=38.55 Aligned_cols=25 Identities=20% Similarity=0.228 Sum_probs=20.4
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
...||--+.|.|||..+-+|.....
T Consensus 200 ~n~lL~G~pGvGKT~l~~~la~~i~ 224 (857)
T PRK10865 200 NNPVLIGEPGVGKTAIVEGLAQRII 224 (857)
T ss_pred CceEEECCCCCCHHHHHHHHHHHhh
Confidence 4678889999999999888776543
No 417
>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=37.23 E-value=36 Score=36.64 Aligned_cols=20 Identities=45% Similarity=0.386 Sum_probs=15.5
Q ss_pred ecCcCCChhHHHHHHHHhcc
Q 002901 254 ADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 254 AD~mGLGKTl~~lali~~~~ 273 (869)
--..|.|||.+++..++...
T Consensus 19 ~a~AGSGKT~~l~~ri~~ll 38 (315)
T PF00580_consen 19 NAGAGSGKTTTLLERIAYLL 38 (315)
T ss_dssp EE-TTSSHHHHHHHHHHHHH
T ss_pred EeCCCCCchHHHHHHHHHhh
Confidence 33699999999998887665
No 418
>cd01520 RHOD_YbbB Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB.
Probab=36.85 E-value=73 Score=29.52 Aligned_cols=54 Identities=17% Similarity=0.179 Sum_probs=35.1
Q ss_pred chHHHHHHHHHHhhhcCCCCeEEEEecc-HHHHHHHHHHHHHcCCcEEEEeCCCCH
Q 002901 696 SKVSALLTLLLQLRDKKPTTKSVVFSQF-RKMLILLEEPLQAAGFKLLRLDGSMNA 750 (869)
Q Consensus 696 ~K~~~L~~~L~~~~~~~~~~K~lVFsq~-~~~ld~l~~~L~~~gi~~~rldG~~~~ 750 (869)
.+++.+.+.+.+. .-.++.++||||+. -.........|+..|+.+..++|+++.
T Consensus 69 ~~~~~~~~~~~~~-~i~~~~~vvvyC~~~G~rs~~a~~~L~~~G~~v~~L~GG~~a 123 (128)
T cd01520 69 GKLKRILNEAWEA-RLERDPKLLIYCARGGMRSQSLAWLLESLGIDVPLLEGGYKA 123 (128)
T ss_pred hhHHHHHHHHHHh-ccCCCCeEEEEeCCCCccHHHHHHHHHHcCCceeEeCCcHHH
Confidence 3444444444321 22457889999973 334455567788889999999999753
No 419
>PRK14712 conjugal transfer nickase/helicase TraI; Provisional
Probab=36.85 E-value=86 Score=41.80 Aligned_cols=51 Identities=18% Similarity=0.132 Sum_probs=33.5
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhcc-cCeEEEEecccccCChhhhHhhhhhh
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNLN-AKRRWVVTGTPIQNGSFDLFSLMAFL 474 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L~-a~~r~~LTGTPi~N~l~DL~sll~fL 474 (869)
-.+||||||-++-+. .+.+.+..+. ...|++|-|=|-|...-+-.+.|+.|
T Consensus 931 ~~llIVDEASMV~~~--~m~~ll~~~~~~garvVLVGD~~QL~sV~aG~~F~~l 982 (1623)
T PRK14712 931 NTLFLLDESSMVGNT--DMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQ 982 (1623)
T ss_pred CcEEEEEccccccHH--HHHHHHHhhhhCCCEEEEEcchhhcCCCCCCHHHHHH
Confidence 367999999999543 3344444444 35799999998777655544444433
No 420
>cd01518 RHOD_YceA Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins.
Probab=36.59 E-value=72 Score=27.92 Aligned_cols=38 Identities=18% Similarity=0.201 Sum_probs=28.3
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCCc-EEEEeCCCC
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGFK-LLRLDGSMN 749 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi~-~~rldG~~~ 749 (869)
.++.++||||+.-.........|...|++ +..++|++.
T Consensus 59 ~~~~~ivvyC~~G~rs~~a~~~L~~~G~~~v~~l~GG~~ 97 (101)
T cd01518 59 LKGKKVLMYCTGGIRCEKASAYLKERGFKNVYQLKGGIL 97 (101)
T ss_pred cCCCEEEEECCCchhHHHHHHHHHHhCCcceeeechhHH
Confidence 45678999998654455556678889996 778999874
No 421
>PRK14965 DNA polymerase III subunits gamma and tau; Provisional
Probab=36.58 E-value=3.6e+02 Score=32.23 Aligned_cols=23 Identities=30% Similarity=0.257 Sum_probs=19.2
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-|+.-+-|.|||-.+..+.....
T Consensus 41 yLf~Gp~G~GKtt~A~~lak~l~ 63 (576)
T PRK14965 41 FLFTGARGVGKTSTARILAKALN 63 (576)
T ss_pred EEEECCCCCCHHHHHHHHHHhhc
Confidence 36778999999999998887754
No 422
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.47 E-value=19 Score=40.46 Aligned_cols=50 Identities=26% Similarity=0.687 Sum_probs=33.9
Q ss_pred CCCCCCccCC-CCCc---ceecccCCccchhHHHHhhhcc-----CCCCC--CCCCCccCC
Q 002901 622 EDFDCPICIS-PPSD---IIITCCAHIFCRSCILKTLQHT-----KPCCP--LCRHPLLQS 671 (869)
Q Consensus 622 ~~~~c~~c~~-~~~~---~~~t~c~h~~c~~ci~~~~~~~-----~~~cp--~c~~~~~~~ 671 (869)
...+|.+|.. .+.. .....|+|.||..|+.++++.. ...|| .|...+...
T Consensus 145 ~~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~ 205 (384)
T KOG1812|consen 145 PKEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLE 205 (384)
T ss_pred ccccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHH
Confidence 4578999993 3332 2356799999999999998854 34564 355555433
No 423
>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.
Probab=36.43 E-value=43 Score=35.63 Aligned_cols=43 Identities=23% Similarity=0.130 Sum_probs=32.6
Q ss_pred cChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 200 ELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 200 ~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+.+.|.+.+.+++.+.. .-.+++-.+|.|||-+.-+++....
T Consensus 63 g~~~~~~~~l~~~~~~~~-------------------------------GlilisG~tGSGKTT~l~all~~i~ 105 (264)
T cd01129 63 GLKPENLEIFRKLLEKPH-------------------------------GIILVTGPTGSGKTTTLYSALSELN 105 (264)
T ss_pred CCCHHHHHHHHHHHhcCC-------------------------------CEEEEECCCCCcHHHHHHHHHhhhC
Confidence 467788999988886432 1246899999999999888877653
No 424
>PRK14948 DNA polymerase III subunits gamma and tau; Provisional
Probab=35.58 E-value=3.6e+02 Score=32.61 Aligned_cols=24 Identities=25% Similarity=0.195 Sum_probs=20.5
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-+.|.|||..|.+++....
T Consensus 40 a~Lf~Gp~G~GKttlA~~lAk~L~ 63 (620)
T PRK14948 40 AYLFTGPRGTGKTSSARILAKSLN 63 (620)
T ss_pred eEEEECCCCCChHHHHHHHHHHhc
Confidence 457888999999999999988765
No 425
>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily. This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.
Probab=35.55 E-value=91 Score=38.54 Aligned_cols=24 Identities=25% Similarity=0.281 Sum_probs=19.8
Q ss_pred CCCcceecCcCCChhHHHHHHHHh
Q 002901 248 LRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 248 ~~GgILAD~mGLGKTl~~lali~~ 271 (869)
.+|-+|.-..|.|||..+=++...
T Consensus 487 ~~giLL~GppGtGKT~lakalA~e 510 (733)
T TIGR01243 487 PKGVLLFGPPGTGKTLLAKAVATE 510 (733)
T ss_pred CceEEEECCCCCCHHHHHHHHHHh
Confidence 467788999999999988877654
No 426
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=35.36 E-value=4.4e+02 Score=27.99 Aligned_cols=105 Identities=16% Similarity=0.202 Sum_probs=65.2
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHH-----------------------------HHHHHHHHHcCCcEEEEe
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKML-----------------------------ILLEEPLQAAGFKLLRLD 745 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~l-----------------------------d~l~~~L~~~gi~~~rld 745 (869)
.-.+...++++++.++.+++..+++++.+.-.. +.+....+++|+.++.+-
T Consensus 75 g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGlivpDLP~ee~~~~~~~~~~~gi~~I~lv 154 (265)
T COG0159 75 GVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLVPDLPPEESDELLKAAEKHGIDPIFLV 154 (265)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEeCCCChHHHHHHHHHHHHcCCcEEEEe
Confidence 345677778888877666777788888765422 223444445566666666
Q ss_pred CCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccE
Q 002901 746 GSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDV 818 (869)
Q Consensus 746 G~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V 818 (869)
--++..+|-+.+.+-.++ .|.++| ..|-+|...... ....+.+.|+..+. ..||
T Consensus 155 aPtt~~~rl~~i~~~a~G-----FiY~vs-~~GvTG~~~~~~------------~~~~~~v~~vr~~~-~~Pv 208 (265)
T COG0159 155 APTTPDERLKKIAEAASG-----FIYYVS-RMGVTGARNPVS------------ADVKELVKRVRKYT-DVPV 208 (265)
T ss_pred CCCCCHHHHHHHHHhCCC-----cEEEEe-cccccCCCcccc------------hhHHHHHHHHHHhc-CCCe
Confidence 666666776666665442 666766 666667655321 12578888887766 3443
No 427
>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=35.30 E-value=1.6e+02 Score=28.22 Aligned_cols=59 Identities=19% Similarity=0.180 Sum_probs=43.3
Q ss_pred eEEEEecc-------HHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCC--CCCCCCEEEEEe
Q 002901 716 KSVVFSQF-------RKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGN--PGPGGPTVLLAS 774 (869)
Q Consensus 716 K~lVFsq~-------~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~--~~~~~~~VlL~S 774 (869)
|++||+.. -..-..+...|+..+++|..+|=+|....++++.+.... ....-|+||+-.
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 57788775 355778889999999999999999998888887776543 112345666643
No 428
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=34.92 E-value=49 Score=32.59 Aligned_cols=22 Identities=23% Similarity=0.307 Sum_probs=18.1
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
+++-+.|.|||..++.++....
T Consensus 3 li~G~~G~GKT~l~~~~~~~~~ 24 (187)
T cd01124 3 LLSGGPGTGKTTFALQFLYAGL 24 (187)
T ss_pred EEEcCCCCCHHHHHHHHHHHHH
Confidence 5677899999999998887654
No 429
>PF02302 PTS_IIB: PTS system, Lactose/Cellobiose specific IIB subunit; InterPro: IPR003501 The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This signature is often found downstream of IPR003352 from INTERPRO.; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TVM_A 2WY2_D 1IIB_A 2WWV_D 1H9C_A 1E2B_A 2L2Q_A 2KYR_A 3CZC_A 3NBM_A ....
Probab=34.82 E-value=35 Score=29.24 Aligned_cols=56 Identities=18% Similarity=0.125 Sum_probs=32.0
Q ss_pred EEEecChhHH-HHHH-HHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhH
Q 002901 352 TLIVCPPSVF-STWI-TQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLA 407 (869)
Q Consensus 352 tLIV~P~sll-~qW~-~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~ 407 (869)
.|++|+..+- +.-. .-+++.+..-.+.+.+.++..........++|+||++.+.-.
T Consensus 2 IlvvC~~Gi~TS~~~~~~i~~~~~~~gi~~~~~~~~~~~~~~~~~~~D~il~~~~i~~ 59 (90)
T PF02302_consen 2 ILVVCGSGIGTSLMVANKIKKALKELGIEVEVSAGSILEVEEIADDADLILLTPQIAY 59 (90)
T ss_dssp EEEEESSSSHHHHHHHHHHHHHHHHTTECEEEEEEETTTHHHHHTT-SEEEEEESSGG
T ss_pred EEEECCChHHHHHHHHHHHHHHHHhccCceEEEEecccccccccCCCcEEEEcCccch
Confidence 6999997532 2222 334444433346666666652223344566999999987764
No 430
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=33.94 E-value=3.5e+02 Score=28.70 Aligned_cols=35 Identities=14% Similarity=0.386 Sum_probs=25.8
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHH
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLIL 729 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~ 729 (869)
...++.+++++.+++.+.+..++++++.|.....+
T Consensus 68 G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~ 102 (259)
T PF00290_consen 68 GFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQY 102 (259)
T ss_dssp T--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHHH
T ss_pred CCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhcc
Confidence 45688889999998867778999999998765543
No 431
>PRK07133 DNA polymerase III subunits gamma and tau; Validated
Probab=33.57 E-value=3.9e+02 Score=32.82 Aligned_cols=24 Identities=21% Similarity=0.169 Sum_probs=19.9
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-+.|.|||..|-.+.....
T Consensus 42 AYLF~GP~GtGKTt~AriLAk~Ln 65 (725)
T PRK07133 42 AYLFSGPRGTGKTSVAKIFANALN 65 (725)
T ss_pred EEEEECCCCCcHHHHHHHHHHHhc
Confidence 457888999999999988877654
No 432
>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]
Probab=33.29 E-value=38 Score=39.69 Aligned_cols=52 Identities=23% Similarity=0.233 Sum_probs=34.9
Q ss_pred ccChHHHHHHHHHHHHhhcCCCCCCcccccCCceeeeccccccCCCCCCCCCcceecCcCCChhHHHHHHHHh
Q 002901 199 SELFVHQKEGLGWLVRRENSEELPPFWEEKGGGFVNVLTNYHTDKRPEPLRGGIFADDMGLGKTLTLLSLIAL 271 (869)
Q Consensus 199 ~~L~p~Q~~al~wm~~~e~~~~~~~~w~~~~~~y~n~~t~~~~~~~p~~~~GgILAD~mGLGKTl~~lali~~ 271 (869)
.......++++.|.+.+-.. |.. . --...+|.+|+-..|.|||+.|-++...
T Consensus 248 ~~~k~~l~e~v~~~~~~~e~-------------~~~----~----~~~~~~giLl~GpPGtGKT~lAkava~~ 299 (494)
T COG0464 248 EEAKEELKEAIETPLKRPEL-------------FRK----L----GLRPPKGVLLYGPPGTGKTLLAKAVALE 299 (494)
T ss_pred HHHHHHHHHHHHhHhhChHH-------------HHh----c----CCCCCCeeEEECCCCCCHHHHHHHHHhh
Confidence 35677788888888764330 000 0 0012358999999999999998888763
No 433
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=33.21 E-value=94 Score=36.80 Aligned_cols=22 Identities=27% Similarity=0.554 Sum_probs=18.1
Q ss_pred CCcceeeeeEEEEcCccccCCc
Q 002901 415 SPVKKIEWWRVILDEAHVIKNA 436 (869)
Q Consensus 415 ~~l~~~~w~rVIlDEaH~ikn~ 436 (869)
..+....|+++++||||.|+..
T Consensus 293 NsiRGQ~fnll~VDEA~FI~~~ 314 (668)
T PHA03372 293 NSIRGQNFHLLLVDEAHFIKKD 314 (668)
T ss_pred ccccCCCCCEEEEehhhccCHH
Confidence 3567778999999999999753
No 434
>PRK06835 DNA replication protein DnaC; Validated
Probab=33.13 E-value=1.4e+02 Score=32.96 Aligned_cols=25 Identities=20% Similarity=0.158 Sum_probs=20.2
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-+|.-++|.|||..+.|++....
T Consensus 184 ~~Lll~G~~GtGKThLa~aIa~~l~ 208 (329)
T PRK06835 184 ENLLFYGNTGTGKTFLSNCIAKELL 208 (329)
T ss_pred CcEEEECCCCCcHHHHHHHHHHHHH
Confidence 4677788999999998888877654
No 435
>KOG3579 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.94 E-value=21 Score=37.18 Aligned_cols=35 Identities=23% Similarity=0.642 Sum_probs=29.7
Q ss_pred CCCCCccCCCCCcceeccc----CCccchhHHHHhhhcc
Q 002901 623 DFDCPICISPPSDIIITCC----AHIFCRSCILKTLQHT 657 (869)
Q Consensus 623 ~~~c~~c~~~~~~~~~t~c----~h~~c~~ci~~~~~~~ 657 (869)
..-|..|.+.+++..+.+| .|.||..|-.+.|..+
T Consensus 268 pLcCTLC~ERLEDTHFVQCPSVp~HKFCFPCSResIK~Q 306 (352)
T KOG3579|consen 268 PLCCTLCHERLEDTHFVQCPSVPSHKFCFPCSRESIKQQ 306 (352)
T ss_pred ceeehhhhhhhccCceeecCCCcccceecccCHHHHHhh
Confidence 4569999999998777776 6889999999999887
No 436
>PHA03333 putative ATPase subunit of terminase; Provisional
Probab=32.89 E-value=1.3e+02 Score=36.32 Aligned_cols=41 Identities=17% Similarity=0.190 Sum_probs=26.0
Q ss_pred cceeeeeEEEEcCccccCCcChHHHHHHhh-cc-cCeEEEEecccc
Q 002901 417 VKKIEWWRVILDEAHVIKNANAQQSRTVTN-LN-AKRRWVVTGTPI 460 (869)
Q Consensus 417 l~~~~w~rVIlDEaH~ikn~~s~~~ka~~~-L~-a~~r~~LTGTPi 460 (869)
+....+++||+|||+.|... ...++.- +. ...++.+..||.
T Consensus 290 ~RG~~~DLLIVDEAAfI~~~---~l~aIlP~l~~~~~k~IiISS~~ 332 (752)
T PHA03333 290 ARGQNPDLVIVDEAAFVNPG---ALLSVLPLMAVKGTKQIHISSPV 332 (752)
T ss_pred cCCCCCCEEEEECcccCCHH---HHHHHHHHHccCCCceEEEeCCC
Confidence 34456789999999999762 2222322 22 466677777774
No 437
>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=32.69 E-value=2.3e+02 Score=22.93 Aligned_cols=45 Identities=11% Similarity=0.235 Sum_probs=33.2
Q ss_pred eEEEEecc-HHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHh
Q 002901 716 KSVVFSQF-RKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEF 760 (869)
Q Consensus 716 K~lVFsq~-~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F 760 (869)
+++||+.- -..-......|+..|++|..++=......+.++.+.-
T Consensus 2 ~v~ly~~~~C~~C~ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~ 47 (73)
T cd03027 2 RVTIYSRLGCEDCTAVRLFLREKGLPYVEINIDIFPERKAELEERT 47 (73)
T ss_pred EEEEEecCCChhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHHh
Confidence 56777754 5667888999999999999998776665555555443
No 438
>PRK04195 replication factor C large subunit; Provisional
Probab=32.33 E-value=1.9e+02 Score=33.71 Aligned_cols=38 Identities=24% Similarity=0.348 Sum_probs=21.8
Q ss_pred eeeEEEEcCccccCCc-ChHHHHHHhhc--ccCeEEEEecc
Q 002901 421 EWWRVILDEAHVIKNA-NAQQSRTVTNL--NAKRRWVVTGT 458 (869)
Q Consensus 421 ~w~rVIlDEaH~ikn~-~s~~~ka~~~L--~a~~r~~LTGT 458 (869)
....|||||+|.+... ......++..+ .+...++|+++
T Consensus 98 ~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~~~~~iIli~n 138 (482)
T PRK04195 98 RRKLILLDEVDGIHGNEDRGGARAILELIKKAKQPIILTAN 138 (482)
T ss_pred CCeEEEEecCcccccccchhHHHHHHHHHHcCCCCEEEecc
Confidence 5678999999998542 21223333333 34455666554
No 439
>PTZ00062 glutaredoxin; Provisional
Probab=31.67 E-value=2.7e+02 Score=28.35 Aligned_cols=68 Identities=16% Similarity=0.224 Sum_probs=46.5
Q ss_pred HHHHHHHhhhcCCCCeEEEEec------cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEE
Q 002901 701 LLTLLLQLRDKKPTTKSVVFSQ------FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLA 773 (869)
Q Consensus 701 L~~~L~~~~~~~~~~K~lVFsq------~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~ 773 (869)
+.+.++++.. ..+++||+. +-.+...+...|+..|++|..+|=....+.|+.+. ++.. .+.-|.|++-
T Consensus 102 ~~~~v~~li~---~~~Vvvf~Kg~~~~p~C~~C~~~k~~L~~~~i~y~~~DI~~d~~~~~~l~-~~sg-~~TvPqVfI~ 175 (204)
T PTZ00062 102 TVEKIERLIR---NHKILLFMKGSKTFPFCRFSNAVVNMLNSSGVKYETYNIFEDPDLREELK-VYSN-WPTYPQLYVN 175 (204)
T ss_pred HHHHHHHHHh---cCCEEEEEccCCCCCCChhHHHHHHHHHHcCCCEEEEEcCCCHHHHHHHH-HHhC-CCCCCeEEEC
Confidence 4444444432 579999988 55678889999999999999998776666666544 5544 3344566653
No 440
>PRK14954 DNA polymerase III subunits gamma and tau; Provisional
Probab=31.54 E-value=2.6e+02 Score=33.73 Aligned_cols=24 Identities=29% Similarity=0.310 Sum_probs=20.0
Q ss_pred CcceecCcCCChhHHHHHHHHhcc
Q 002901 250 GGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 250 GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.-|+.-.-|.|||..|..+.....
T Consensus 40 a~Lf~Gp~GvGKttlA~~lAk~L~ 63 (620)
T PRK14954 40 GYIFSGLRGVGKTTAARVFAKAVN 63 (620)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhC
Confidence 456788999999999998887765
No 441
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=31.51 E-value=1.1e+02 Score=31.90 Aligned_cols=117 Identities=12% Similarity=0.223 Sum_probs=76.8
Q ss_pred eccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCccccccccccCEEEEEcCCCCcc
Q 002901 721 SQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASGAGVNLTAASRVFLLEPWWNPA 800 (869)
Q Consensus 721 sq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg~GLNLt~A~~Vi~~dp~wnp~ 800 (869)
-.|....+.|...+.. |+.+..++++.+.+. -.|.+.......++++--...+.||.|..-...|+.-..-+-.
T Consensus 94 ~s~~ei~~~l~~~~~~-~~~v~~vNS~~~~~~-----ldy~~~~~~~~~~I~VGGn~LsRGlTleGL~vsYf~R~s~~~D 167 (239)
T PF10593_consen 94 PSWEEIKPELPKAISD-GIEVVVVNSGSSDDS-----LDYDDGENLGLNVIAVGGNKLSRGLTLEGLTVSYFLRNSKQYD 167 (239)
T ss_pred cCHHHHHHHHHHHHhc-CceEEEEeCCCcccc-----ccccccccCCceEEEECCccccCceeECCcEEEEecCCCchHH
Confidence 3566666777777776 899999997665433 4454432223588899999999999999988888877665555
Q ss_pred hHHHHhhhhhhcCCccc-EEEEEEEeCCCHHHHHHHHHHHHHHHHHH
Q 002901 801 VEEQAMDRVHRIGQKED-VKIVRLIVRNSIEERILELQDRKKKLARE 846 (869)
Q Consensus 801 ~e~QaigRvhRiGQ~k~-V~V~rli~~~siEe~i~~~q~~K~~l~~~ 846 (869)
...| +||- .|=.+. .-+.|+.+...+.+....+.+.=..|-+.
T Consensus 168 TL~Q-mgRw--FGYR~gY~dl~Ri~~~~~l~~~f~~i~~~~e~lr~~ 211 (239)
T PF10593_consen 168 TLMQ-MGRW--FGYRPGYEDLCRIYMPEELYDWFRHIAEAEEELREE 211 (239)
T ss_pred HHHH-Hhhc--ccCCcccccceEEecCHHHHHHHHHHHHHHHHHHHH
Confidence 5555 5665 233332 45677777777766665555554444333
No 442
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=31.35 E-value=64 Score=28.19 Aligned_cols=38 Identities=18% Similarity=0.231 Sum_probs=31.1
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
.++.++||+|..-.........|...|+.+..+.|++.
T Consensus 59 ~~~~~ivv~C~~G~rs~~aa~~L~~~G~~~~~l~GG~~ 96 (100)
T cd01523 59 PDDQEVTVICAKEGSSQFVAELLAERGYDVDYLAGGMK 96 (100)
T ss_pred CCCCeEEEEcCCCCcHHHHHHHHHHcCceeEEeCCcHH
Confidence 34678999998766677788899999999888999875
No 443
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=31.18 E-value=97 Score=31.27 Aligned_cols=22 Identities=36% Similarity=0.400 Sum_probs=17.7
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
+|.-..|.|||-++.-|.+...
T Consensus 5 ~lvGptGvGKTTt~aKLAa~~~ 26 (196)
T PF00448_consen 5 ALVGPTGVGKTTTIAKLAARLK 26 (196)
T ss_dssp EEEESTTSSHHHHHHHHHHHHH
T ss_pred EEECCCCCchHhHHHHHHHHHh
Confidence 4566899999999988877654
No 444
>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family. Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.
Probab=31.01 E-value=59 Score=33.88 Aligned_cols=23 Identities=13% Similarity=0.151 Sum_probs=18.7
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-+++-+.|.|||..++-++....
T Consensus 24 ~lI~G~pGsGKT~la~~~l~~~~ 46 (237)
T TIGR03877 24 VLLSGGPGTGKSIFSQQFLWNGL 46 (237)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 45688999999999998887643
No 445
>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]
Probab=30.87 E-value=1.8e+02 Score=36.59 Aligned_cols=81 Identities=17% Similarity=0.255 Sum_probs=54.1
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHH----HHHHHHHHHHcC--CcEEEEeCCCCHHHHHHHHHHhCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKM----LILLEEPLQAAG--FKLLRLDGSMNAKKRAQVIEEFGNPGP 765 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~----ld~l~~~L~~~g--i~~~rldG~~~~~~R~~~i~~F~~~~~ 765 (869)
...|.|..+.+=-|.+..-..+..+.|++..-... ++.+.+.+...| +.+.++||.++..+|.+++.
T Consensus 93 gTgSGKTe~FllPIld~~l~~~~a~AL~lYPtnALa~DQ~~rl~~~~~~~~~~v~~~~y~Gdt~~~~r~~~~~------- 165 (851)
T COG1205 93 GTGSGKTESFLLPILDHLLRDPSARALLLYPTNALANDQAERLRELISDLPGKVTFGRYTGDTPPEERRAIIR------- 165 (851)
T ss_pred CCCCchhHHHHHHHHHHHhhCcCccEEEEechhhhHhhHHHHHHHHHHhCCCcceeeeecCCCChHHHHHHHh-------
Confidence 55699987755544443445556678888876544 455666666666 89999999999998875443
Q ss_pred CCCEEEEEecCCcc
Q 002901 766 GGPTVLLASLKASG 779 (869)
Q Consensus 766 ~~~~VlL~S~~agg 779 (869)
+.+.|||.+++..-
T Consensus 166 ~pp~IllTNpdMLh 179 (851)
T COG1205 166 NPPDILLTNPDMLH 179 (851)
T ss_pred CCCCEEEeCHHHHH
Confidence 22377776655443
No 446
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=30.77 E-value=1e+02 Score=26.18 Aligned_cols=39 Identities=23% Similarity=0.252 Sum_probs=31.9
Q ss_pred cCCCCeEEEEeccHHHHHHHHHHHHHcCCc-EEEEeCCCC
Q 002901 711 KKPTTKSVVFSQFRKMLILLEEPLQAAGFK-LLRLDGSMN 749 (869)
Q Consensus 711 ~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~-~~rldG~~~ 749 (869)
..++.++|||+........+...|...|++ +..++|++.
T Consensus 53 ~~~~~~iv~~c~~g~~a~~~~~~l~~~G~~~v~~l~GG~~ 92 (100)
T smart00450 53 LDKDKPVVVYCRSGNRSAKAAWLLRELGFKNVYLLDGGYK 92 (100)
T ss_pred CCCCCeEEEEeCCCcHHHHHHHHHHHcCCCceEEecCCHH
Confidence 355788999997766777888899999998 788899874
No 447
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). 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 mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=30.73 E-value=67 Score=27.56 Aligned_cols=54 Identities=17% Similarity=0.073 Sum_probs=32.4
Q ss_pred eEEEecChhHH-HHH-HHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechhhH
Q 002901 351 ITLIVCPPSVF-STW-ITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYSTLA 407 (869)
Q Consensus 351 ~tLIV~P~sll-~qW-~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~l~ 407 (869)
..|+||+...- +.- ...+++.+..-.+...+.+.+-... . .++|+||||-..-.
T Consensus 2 kilvvCg~G~gtS~ml~~ki~~~~~~~~~~~~v~~~~~~~~-~--~~~Dliitt~~l~~ 57 (87)
T cd05567 2 KIVFACDAGMGSSAMGASVLRKKLKKAGLEIPVTNSAIDEL-P--SDADLVVTHASLTD 57 (87)
T ss_pred EEEEECCCCccHHHHHHHHHHHHHHHCCCceEEEEcchhhC-C--CCCCEEEEChHHHH
Confidence 47999998543 333 5556666643344455555422111 1 67999999987753
No 448
>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=30.48 E-value=48 Score=36.80 Aligned_cols=22 Identities=27% Similarity=0.413 Sum_probs=19.2
Q ss_pred CCcceecCcCCChhHHHHHHHH
Q 002901 249 RGGIFADDMGLGKTLTLLSLIA 270 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~ 270 (869)
+|-+|.-..|.|||+.|=|+..
T Consensus 246 kgvLm~GPPGTGKTlLAKAvAT 267 (491)
T KOG0738|consen 246 KGVLMVGPPGTGKTLLAKAVAT 267 (491)
T ss_pred ceeeeeCCCCCcHHHHHHHHHH
Confidence 6899999999999998877764
No 449
>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB. Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.
Probab=30.13 E-value=1.3e+02 Score=38.06 Aligned_cols=24 Identities=21% Similarity=0.267 Sum_probs=19.2
Q ss_pred CCcceecCcCCChhHHHHHHHHhc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~ 272 (869)
...||--+.|.|||..+-+|+...
T Consensus 195 ~n~lL~G~pGvGKT~l~~~la~~i 218 (852)
T TIGR03346 195 NNPVLIGEPGVGKTAIVEGLAQRI 218 (852)
T ss_pred CceEEEcCCCCCHHHHHHHHHHHH
Confidence 456788899999999988877654
No 450
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=29.94 E-value=2.4e+02 Score=33.85 Aligned_cols=22 Identities=32% Similarity=0.357 Sum_probs=18.9
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
|+.-+.|.|||..+..++....
T Consensus 42 Lf~Gp~G~GKTtlA~~lA~~l~ 63 (585)
T PRK14950 42 LFTGPRGVGKTSTARILAKAVN 63 (585)
T ss_pred EEECCCCCCHHHHHHHHHHHhc
Confidence 7788999999999999887654
No 451
>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=29.74 E-value=97 Score=26.29 Aligned_cols=51 Identities=16% Similarity=0.117 Sum_probs=27.4
Q ss_pred EEEecChhH-HHH-HHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEech
Q 002901 352 TLIVCPPSV-FST-WITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYS 404 (869)
Q Consensus 352 tLIV~P~sl-l~q-W~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~ 404 (869)
+|||||... .++ =...+++++..-.+...+-+.+-.. ..+.++|++|||-.
T Consensus 2 ilvvC~~G~~tS~ll~~kl~~~f~~~~i~~~~~~~~~~~--~~~~~~DlIisT~~ 54 (86)
T cd05563 2 ILAVCGSGLGSSLMLKMNVEKVLKELGIEAEVEHTDLGS--AKASSADIIVTSKD 54 (86)
T ss_pred EEEECCCCccHHHHHHHHHHHHHHHCCCcEEEEEecccc--cCCCCCCEEEEchh
Confidence 699999854 233 3346666663222222222221111 12568999999985
No 452
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=29.54 E-value=1.9e+02 Score=31.35 Aligned_cols=61 Identities=15% Similarity=0.183 Sum_probs=49.8
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCC---CCCEEEEEe
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGP---GGPTVLLAS 774 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~---~~~~VlL~S 774 (869)
++++||.-.-...--..+..|+..||++.|+-|+...+.-+.+...|++.-| ++..|++++
T Consensus 76 pd~VLIIGGp~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~ 139 (337)
T COG2247 76 PDLVLIIGGPIAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVY 139 (337)
T ss_pred CceEEEECCCCcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEe
Confidence 7899999998888889999999999999999999888888888888874211 234666665
No 453
>PRK04328 hypothetical protein; Provisional
Probab=29.30 E-value=79 Score=33.25 Aligned_cols=22 Identities=14% Similarity=0.208 Sum_probs=18.2
Q ss_pred ceecCcCCChhHHHHHHHHhcc
Q 002901 252 IFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~~ 273 (869)
+++-+.|.|||..++.++....
T Consensus 27 li~G~pGsGKT~l~~~fl~~~~ 48 (249)
T PRK04328 27 LLSGGPGTGKSIFSQQFLWNGL 48 (249)
T ss_pred EEEcCCCCCHHHHHHHHHHHHH
Confidence 3688999999999998887643
No 454
>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=29.30 E-value=3.1e+02 Score=31.81 Aligned_cols=79 Identities=15% Similarity=0.155 Sum_probs=58.2
Q ss_pred ccCcchHHH-HHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 692 NFTSSKVSA-LLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 692 ~~~s~K~~~-L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
+..|+|.-+ ++-.+. .+..+||.+.....+.-....|...|++...+.|+.+..++..++.....+ .+.+
T Consensus 34 pTGsGKTl~y~lp~l~------~~~~~lVi~P~~~L~~dq~~~l~~~gi~~~~l~~~~~~~~~~~i~~~~~~~---~~~i 104 (470)
T TIGR00614 34 PTGGGKSLCYQLPALC------SDGITLVISPLISLMEDQVLQLKASGIPATFLNSSQSKEQQKNVLTDLKDG---KIKL 104 (470)
T ss_pred CCCCcHhHHHHHHHHH------cCCcEEEEecHHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHHhcC---CCCE
Confidence 445777543 333332 145789999998887777778888999999999999999888888888663 4578
Q ss_pred EEEecCCcc
Q 002901 771 LLASLKASG 779 (869)
Q Consensus 771 lL~S~~agg 779 (869)
+++|.....
T Consensus 105 l~~TPe~l~ 113 (470)
T TIGR00614 105 LYVTPEKCS 113 (470)
T ss_pred EEECHHHHc
Confidence 888765543
No 455
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=28.77 E-value=1.2e+02 Score=37.39 Aligned_cols=25 Identities=20% Similarity=0.206 Sum_probs=20.1
Q ss_pred CCcceecCcCCChhHHHHHHHHhcc
Q 002901 249 RGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 249 ~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
.+-||.-+.|.|||..+-++.....
T Consensus 204 ~n~lL~G~pG~GKT~l~~~la~~~~ 228 (731)
T TIGR02639 204 NNPLLVGEPGVGKTAIAEGLALRIA 228 (731)
T ss_pred CceEEECCCCCCHHHHHHHHHHHHH
Confidence 4678888999999999877776543
No 456
>PRK06450 threonine synthase; Validated
Probab=28.72 E-value=4.3e+02 Score=29.16 Aligned_cols=102 Identities=16% Similarity=0.086 Sum_probs=64.1
Q ss_pred cccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEE
Q 002901 691 KNFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTV 770 (869)
Q Consensus 691 ~~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~V 770 (869)
.+..|=|.+.....+....+. +.+.||-...-.+.--+..+-...|++...+-.......+...+..+.. .|
T Consensus 75 nPTGSfKDRga~~~i~~a~~~--g~~~vv~aSsGN~g~slA~~aa~~G~~~~i~vP~~~~~~k~~~i~~~GA------~v 146 (338)
T PRK06450 75 NPTGSYKDRGSVTLISYLAEK--GIKQISEDSSGNAGASIAAYGAAAGIEVKIFVPETASGGKLKQIESYGA------EV 146 (338)
T ss_pred CCcCCCHHHHHHHHHHHHHHc--CCCEEEEECCcHHHHHHHHHHHHcCCCEEEEEcCCCCHHHHHHHHHcCC------EE
Confidence 456799999888888776643 4566666655567777788888889998776654455667777887744 66
Q ss_pred EEEecCCccccccccccCEEEEEcCCCCcch
Q 002901 771 LLASLKASGAGVNLTAASRVFLLEPWWNPAV 801 (869)
Q Consensus 771 lL~S~~agg~GLNLt~A~~Vi~~dp~wnp~~ 801 (869)
+++...- ..-..+..-+-.++..+.|||..
T Consensus 147 i~v~~~~-~~~~~~a~~~g~~~~~~~~np~~ 176 (338)
T PRK06450 147 VRVRGSR-EDVAKAAENSGYYYASHVLQPQF 176 (338)
T ss_pred EEECCCH-HHHHHHHHhcCeEeccCCCCccH
Confidence 6654211 00011111122466677788864
No 457
>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=28.59 E-value=28 Score=31.06 Aligned_cols=31 Identities=29% Similarity=0.719 Sum_probs=24.6
Q ss_pred CCCCCCCccCCCCCc--ceecccCCccchhHHH
Q 002901 621 GEDFDCPICISPPSD--IIITCCAHIFCRSCIL 651 (869)
Q Consensus 621 ~~~~~c~~c~~~~~~--~~~t~c~h~~c~~ci~ 651 (869)
.....|++|...+.. -++.+|+|++...|+.
T Consensus 76 ~~~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 76 TESTKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 345679999998875 4668999999988864
No 458
>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=28.06 E-value=4e+02 Score=23.70 Aligned_cols=84 Identities=18% Similarity=0.146 Sum_probs=55.4
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcC---CcEEEEeCCCCHHHHHHHHHHhCCCCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAG---FKLLRLDGSMNAKKRAQVIEEFGNPGPGGP 768 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~g---i~~~rldG~~~~~~R~~~i~~F~~~~~~~~ 768 (869)
...++|...++..+..........+++|++............+.... +.+..+++........ ..... ..
T Consensus 8 ~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~----~~ 80 (144)
T cd00046 8 PTGSGKTLAALLPILELLDSLKGGQVLVLAPTRELANQVAERLKELFGEGIKVGYLIGGTSIKQQE---KLLSG----KT 80 (144)
T ss_pred CCCCchhHHHHHHHHHHHhcccCCCEEEEcCcHHHHHHHHHHHHHHhhCCcEEEEEecCcchhHHH---HHhcC----CC
Confidence 44588988888888777655567899999999888877777666543 7777788875544333 11122 22
Q ss_pred EEEEEecCCccccc
Q 002901 769 TVLLASLKASGAGV 782 (869)
Q Consensus 769 ~VlL~S~~agg~GL 782 (869)
.|++++.......+
T Consensus 81 ~i~i~t~~~~~~~~ 94 (144)
T cd00046 81 DIVVGTPGRLLDEL 94 (144)
T ss_pred CEEEECcHHHHHHH
Confidence 67777766554443
No 459
>PRK11823 DNA repair protein RadA; Provisional
Probab=27.93 E-value=1.6e+02 Score=33.97 Aligned_cols=21 Identities=33% Similarity=0.480 Sum_probs=17.6
Q ss_pred ceecCcCCChhHHHHHHHHhc
Q 002901 252 IFADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 252 ILAD~mGLGKTl~~lali~~~ 272 (869)
+|+-++|.|||..++.++...
T Consensus 84 lI~G~pG~GKTtL~lq~a~~~ 104 (446)
T PRK11823 84 LIGGDPGIGKSTLLLQVAARL 104 (446)
T ss_pred EEECCCCCCHHHHHHHHHHHH
Confidence 478899999999988887754
No 460
>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=27.52 E-value=1.2e+02 Score=24.88 Aligned_cols=53 Identities=21% Similarity=0.226 Sum_probs=30.4
Q ss_pred EEEecChhHHH--HHHHHHHHhcCCCCeEEEEEeCCCCCChhhhccccEEEEechh
Q 002901 352 TLIVCPPSVFS--TWITQLEEHTVPGMLKTYMYYGDRTQDVEELKMYDLVLTTYST 405 (869)
Q Consensus 352 tLIV~P~sll~--qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l~~~dVVItTY~~ 405 (869)
+++|||...-. .=...+++.+....+...+.+.+-.. .....++|+|+||...
T Consensus 2 il~vc~~G~~~s~~l~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~dliitt~~~ 56 (84)
T cd00133 2 ILVVCGSGIGSSSMLAEKLEKAAKELGIEVKVEAQGLSE-VIDLADADLIISTVPL 56 (84)
T ss_pred EEEECCCcHhHHHHHHHHHHHHHHHCCCeEEEEEcccch-hhhcCCccEEEECCcc
Confidence 68999987532 23466666663333333222221111 0456889999999864
No 461
>PLN02189 cellulose synthase
Probab=27.30 E-value=47 Score=41.59 Aligned_cols=51 Identities=22% Similarity=0.539 Sum_probs=38.8
Q ss_pred cCCCCCCCccCCCCC-----ccee--cccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPS-----DIII--TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~-----~~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
......|.+|.+... ++.+ -.|+--.|+.|.+--.+.....||-|+..+..
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 344568999998753 2322 34888899999987777888899999998873
No 462
>PRK13556 azoreductase; Provisional
Probab=27.23 E-value=45 Score=33.93 Aligned_cols=30 Identities=37% Similarity=0.659 Sum_probs=25.5
Q ss_pred ccccCEEEEEcCCCC---cchHHHHhhhhhhcC
Q 002901 784 LTAASRVFLLEPWWN---PAVEEQAMDRVHRIG 813 (869)
Q Consensus 784 Lt~A~~Vi~~dp~wn---p~~e~QaigRvhRiG 813 (869)
|..|+.||+.-|-|| |+..-..|||+.|.|
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 456788888899998 578888999999986
No 463
>PLN02400 cellulose synthase
Probab=27.22 E-value=54 Score=41.25 Aligned_cols=51 Identities=25% Similarity=0.628 Sum_probs=38.6
Q ss_pred cCCCCCCCccCCCCC-----ccee--cccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPS-----DIII--TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~-----~~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
......|.||.+... ++.+ -.|+--.|+.|.+--.......||-|+..+..
T Consensus 33 ~~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYERkeGnq~CPQCkTrYkR 90 (1085)
T PLN02400 33 NLNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYERKDGTQCCPQCKTRYRR 90 (1085)
T ss_pred ccCCceeeecccccCcCCCCCEEEEEccCCCccccchhheecccCCccCcccCCcccc
Confidence 344568999998753 2333 35888899999977777778899999998874
No 464
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=26.78 E-value=49 Score=41.63 Aligned_cols=50 Identities=24% Similarity=0.589 Sum_probs=38.4
Q ss_pred CCCCCCCccCCCCC-----ccee--cccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 621 GEDFDCPICISPPS-----DIII--TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 621 ~~~~~c~~c~~~~~-----~~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
.....|.||.+... ++.+ -.|+--.|+.|.+--.......||-|...+..
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr~eG~q~CPqCktrYkr 71 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYERKDGNQSCPQCKTKYKR 71 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhhhhhcCCccCCccCCchhh
Confidence 34457999998753 2333 35888899999987777778899999998873
No 465
>cd01528 RHOD_2 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains.
Probab=26.41 E-value=1.6e+02 Score=25.65 Aligned_cols=38 Identities=24% Similarity=0.417 Sum_probs=30.1
Q ss_pred CCCeEEEEeccHHHHHHHHHHHHHcCCc-EEEEeCCCCH
Q 002901 713 PTTKSVVFSQFRKMLILLEEPLQAAGFK-LLRLDGSMNA 750 (869)
Q Consensus 713 ~~~K~lVFsq~~~~ld~l~~~L~~~gi~-~~rldG~~~~ 750 (869)
.+.++||||+.-.........|...|+. +..++|++..
T Consensus 57 ~~~~vv~~c~~g~rs~~~~~~l~~~G~~~v~~l~GG~~~ 95 (101)
T cd01528 57 PDKDIVVLCHHGGRSMQVAQWLLRQGFENVYNLQGGIDA 95 (101)
T ss_pred CCCeEEEEeCCCchHHHHHHHHHHcCCccEEEecCCHHH
Confidence 4678999998866677777888889995 7789998753
No 466
>PRK06305 DNA polymerase III subunits gamma and tau; Validated
Probab=26.38 E-value=5.2e+02 Score=29.87 Aligned_cols=23 Identities=22% Similarity=0.114 Sum_probs=19.6
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
-|+.-+.|.|||..|.+++....
T Consensus 42 ~Lf~Gp~G~GKtt~A~~lAk~l~ 64 (451)
T PRK06305 42 YLFSGIRGTGKTTLARIFAKALN 64 (451)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhc
Confidence 46778999999999999987765
No 467
>PF02891 zf-MIZ: MIZ/SP-RING zinc finger; InterPro: IPR004181 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents MIZ-type zinc finger domains. Miz1 (Msx-interacting-zinc finger) is a zinc finger-containing protein with homology to the yeast protein, Nfi-1. Miz1 is a sequence specific DNA binding protein that can function as a positive-acting transcription factor. Miz1 binds to the homeobox protein Msx2, enhancing the specific DNA-binding ability of Msx2 []. Other proteins containing this domain include the human pias family (protein inhibitor of activated STAT protein). More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3I2D_A.
Probab=26.33 E-value=64 Score=24.64 Aligned_cols=44 Identities=23% Similarity=0.576 Sum_probs=19.8
Q ss_pred CCCCccCCCCCccee-cccCCccchhH---HHHhhhccCCCCCCCCCC
Q 002901 624 FDCPICISPPSDIII-TCCAHIFCRSC---ILKTLQHTKPCCPLCRHP 667 (869)
Q Consensus 624 ~~c~~c~~~~~~~~~-t~c~h~~c~~c---i~~~~~~~~~~cp~c~~~ 667 (869)
..|++....+.-|+- ..|.|.-|-+- +....+...-.||.|..+
T Consensus 3 L~CPls~~~i~~P~Rg~~C~H~~CFDl~~fl~~~~~~~~W~CPiC~~~ 50 (50)
T PF02891_consen 3 LRCPLSFQRIRIPVRGKNCKHLQCFDLESFLESNQRTPKWKCPICNKP 50 (50)
T ss_dssp SB-TTTSSB-SSEEEETT--SS--EEHHHHHHHHHHS---B-TTT---
T ss_pred eeCCCCCCEEEeCccCCcCcccceECHHHHHHHhhccCCeECcCCcCc
Confidence 357777777777665 56999988543 333344456789999753
No 468
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=26.31 E-value=1.2e+02 Score=33.23 Aligned_cols=21 Identities=38% Similarity=0.441 Sum_probs=15.1
Q ss_pred eecCcCCChhHHHHHHHHhcc
Q 002901 253 FADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 253 LAD~mGLGKTl~~lali~~~~ 273 (869)
+.---|.|||-+.-=|...+.
T Consensus 144 ~vGVNG~GKTTTIaKLA~~l~ 164 (340)
T COG0552 144 FVGVNGVGKTTTIAKLAKYLK 164 (340)
T ss_pred EEecCCCchHhHHHHHHHHHH
Confidence 344689999988766666554
No 469
>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]
Probab=26.29 E-value=50 Score=36.30 Aligned_cols=27 Identities=26% Similarity=0.354 Sum_probs=23.3
Q ss_pred CCCCcceecCcCCChhHHHHHHHHhcc
Q 002901 247 PLRGGIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 247 ~~~GgILAD~mGLGKTl~~lali~~~~ 273 (869)
+.+|.+|--..|.|||+.|=|+...+.
T Consensus 184 PPKGVLLYGPPGTGKTLLAkAVA~~T~ 210 (406)
T COG1222 184 PPKGVLLYGPPGTGKTLLAKAVANQTD 210 (406)
T ss_pred CCCceEeeCCCCCcHHHHHHHHHhccC
Confidence 458999999999999999988887654
No 470
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=26.25 E-value=2.8e+02 Score=24.22 Aligned_cols=53 Identities=21% Similarity=0.155 Sum_probs=39.1
Q ss_pred HHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCC--CCCCCCEEEEEecCCcc
Q 002901 727 LILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGN--PGPGGPTVLLASLKASG 779 (869)
Q Consensus 727 ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~--~~~~~~~VlL~S~~agg 779 (869)
...+...|+..||.|..+|=+++.+.|+.+.+.-.. +...-|.||+-..-.||
T Consensus 19 ~~~v~~lL~~k~I~f~eiDI~~d~~~r~em~~~~~~~~g~~tvPQIFi~~~~iGg 73 (92)
T cd03030 19 QQEVLGFLEAKKIEFEEVDISMNEENRQWMRENVPNENGKPLPPQIFNGDEYCGD 73 (92)
T ss_pred HHHHHHHHHHCCCceEEEecCCCHHHHHHHHHhcCCCCCCCCCCEEEECCEEeeC
Confidence 445677889999999999999999999999888753 22234577775544454
No 471
>COG5109 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=26.24 E-value=37 Score=36.02 Aligned_cols=48 Identities=19% Similarity=0.371 Sum_probs=34.5
Q ss_pred CCCCCCccCCCCC---cceecccCCccchhHHHHhhhcc--CCCCCCCCCCcc
Q 002901 622 EDFDCPICISPPS---DIIITCCAHIFCRSCILKTLQHT--KPCCPLCRHPLL 669 (869)
Q Consensus 622 ~~~~c~~c~~~~~---~~~~t~c~h~~c~~ci~~~~~~~--~~~cp~c~~~~~ 669 (869)
..+.||+--+... -|++..|+|+.-.+.+...-++. ..+||+|-..-.
T Consensus 335 s~FiCPVlKe~~t~ENpP~ml~CgHVIskeal~~LS~nG~~~FKCPYCP~~~~ 387 (396)
T COG5109 335 SLFICPVLKELCTDENPPVMLECGHVISKEALSVLSQNGVLSFKCPYCPEMSK 387 (396)
T ss_pred ceeeccccHhhhcccCCCeeeeccceeeHHHHHHHhhcCcEEeeCCCCCcchh
Confidence 3466877544332 38999999999998888776554 578999975443
No 472
>TIGR01073 pcrA ATP-dependent DNA helicase PcrA. Designed to identify pcrA members of the uvrD/rep subfamily.
Probab=26.14 E-value=7.5e+02 Score=30.53 Aligned_cols=40 Identities=25% Similarity=0.192 Sum_probs=30.4
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhccc-CeEEEEecccccC
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLNA-KRRWVVTGTPIQN 462 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~a-~~r~~LTGTPi~N 462 (869)
-+|..|++||+|-. +..++..+..|.. ...+++.|-|-|.
T Consensus 208 ~~~~~IlVDEfQDt---n~~Q~~ll~~L~~~~~~l~vVGD~~Qs 248 (726)
T TIGR01073 208 RKFQYIHVDEYQDT---NRAQYTLVRLLASRFRNLCVVGDADQS 248 (726)
T ss_pred HhCCEEEEEccccC---CHHHHHHHHHHhCCCCEEEEEeCCCcc
Confidence 37889999999976 5567777777743 4678888998774
No 473
>COG4646 DNA methylase [Transcription / DNA replication, recombination, and repair]
Probab=26.02 E-value=36 Score=38.24 Aligned_cols=31 Identities=26% Similarity=0.426 Sum_probs=26.7
Q ss_pred cCeEEEEecccccCChhhhHhhhhhhccCCC
Q 002901 449 AKRRWVVTGTPIQNGSFDLFSLMAFLQFEPF 479 (869)
Q Consensus 449 a~~r~~LTGTPi~N~l~DL~sll~fL~~~~~ 479 (869)
.+...++|||||.|.+.+.+++-++|.++-+
T Consensus 473 G~~L~l~sgTpi~ntlgem~~vqRyl~~~al 503 (637)
T COG4646 473 GRALVLASGTPITNTLGEMFSVQRYLGAGAL 503 (637)
T ss_pred CCeEEecCCCchhhhHHhhhhhhhhcCccHH
Confidence 4566788999999999999999999987743
No 474
>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]
Probab=25.94 E-value=2e+02 Score=31.09 Aligned_cols=24 Identities=33% Similarity=0.411 Sum_probs=20.3
Q ss_pred cceecCcCCChhHHHHHHHHhccC
Q 002901 251 GIFADDMGLGKTLTLLSLIALDKC 274 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~~ 274 (869)
-+|.-+.|.|||..|.++......
T Consensus 27 lL~~Gp~G~Gktt~a~~lA~~l~~ 50 (325)
T COG0470 27 LLFYGPPGVGKTTAALALAKELLC 50 (325)
T ss_pred eeeeCCCCCCHHHHHHHHHHHHhC
Confidence 567778999999999999987763
No 475
>KOG3259 consensus Peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=25.91 E-value=35 Score=32.14 Aligned_cols=29 Identities=34% Similarity=0.495 Sum_probs=22.9
Q ss_pred CCCCcccccC------CceeeeccccccCCCCCCC
Q 002901 220 ELPPFWEEKG------GGFVNVLTNYHTDKRPEPL 248 (869)
Q Consensus 220 ~~~~~w~~~~------~~y~n~~t~~~~~~~p~~~ 248 (869)
.+|+-|+.+. ..|+|..|+.++=++|...
T Consensus 6 ~LP~~Wekr~Srs~gr~YyfN~~T~~SqWe~P~~t 40 (163)
T KOG3259|consen 6 KLPPGWEKRMSRSSGRPYYFNTETNESQWERPSGT 40 (163)
T ss_pred cCCchhheeccccCCCcceeccccchhhccCCCcc
Confidence 5789999832 2399999999998988743
No 476
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=25.80 E-value=92 Score=26.91 Aligned_cols=36 Identities=14% Similarity=0.167 Sum_probs=28.1
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCC
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMN 749 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~ 749 (869)
+.++|+||+.-.........|...|+++..++|++.
T Consensus 56 ~~~iv~~c~~G~rs~~aa~~L~~~G~~v~~l~GG~~ 91 (95)
T cd01534 56 GARIVLADDDGVRADMTASWLAQMGWEVYVLEGGLA 91 (95)
T ss_pred CCeEEEECCCCChHHHHHHHHHHcCCEEEEecCcHH
Confidence 568999998755556667788899999777899874
No 477
>COG3972 Superfamily I DNA and RNA helicases [General function prediction only]
Probab=25.74 E-value=4.8e+02 Score=30.29 Aligned_cols=82 Identities=16% Similarity=0.309 Sum_probs=46.4
Q ss_pred cchHHHHHHHHHHhhhc--CCCCeEEEEeccH---HHHHHHHHHHHHcCCc------------EEEEeCCCCHHHHHHHH
Q 002901 695 SSKVSALLTLLLQLRDK--KPTTKSVVFSQFR---KMLILLEEPLQAAGFK------------LLRLDGSMNAKKRAQVI 757 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~--~~~~K~lVFsq~~---~~ld~l~~~L~~~gi~------------~~rldG~~~~~~R~~~i 757 (869)
..++.+++..+.+..+. .++.=+|||..-. .....+-..|..+||. +.+.||++.... |
T Consensus 454 ~deivwi~~qI~~~~edeLe~dDIiVi~lDp~t~Rgy~~~li~sL~s~giq~hl~gvd~s~e~~f~~dgkvtis~----I 529 (660)
T COG3972 454 PDEIVWIIIQIKEFREDELEQDDIIVIFLDPGTMRGYIYELIHSLKSKGIQQHLWGVDISHETKFKQDGKVTISR----I 529 (660)
T ss_pred chhhHHHHHHHHHhcccccccCCEEEEecCCccccchHHHHHHHHHHhhhhhhccccCcccccccccCceEEeee----e
Confidence 56788888888774321 3456788887554 4455566667777665 333444332110 1
Q ss_pred HHhCCCCCCCCEEEEEecCCccccc
Q 002901 758 EEFGNPGPGGPTVLLASLKASGAGV 782 (869)
Q Consensus 758 ~~F~~~~~~~~~VlL~S~~agg~GL 782 (869)
.+....+.+.|+.+..+.+..||
T Consensus 530 --yrAKGnEapfV~aL~a~~ls~~l 552 (660)
T COG3972 530 --YRAKGNEAPFVYALGAAYLSTGL 552 (660)
T ss_pred --hhccCCCCcEEEEehhhhhCccc
Confidence 11112345577777777777666
No 478
>PLN02436 cellulose synthase A
Probab=25.60 E-value=53 Score=41.27 Aligned_cols=51 Identities=22% Similarity=0.529 Sum_probs=38.8
Q ss_pred cCCCCCCCccCCCCC-----ccee--cccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 620 DGEDFDCPICISPPS-----DIII--TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 620 ~~~~~~c~~c~~~~~-----~~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
......|.||.+... ++.+ -.|+--.|+.|.+--.+.....||-|...+..
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchhhhhhhcCCccCcccCCchhh
Confidence 344568999998753 2333 34888899999987777788899999998873
No 479
>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....
Probab=25.53 E-value=2.6e+02 Score=26.17 Aligned_cols=128 Identities=17% Similarity=0.188 Sum_probs=75.3
Q ss_pred cchHHHHHHHHHHhhhcCCCCeEEEEeccH-----HHHHHHHHHHHH--cCCcEEEEeCCCCHHHHHHHHHHhCCCCCCC
Q 002901 695 SSKVSALLTLLLQLRDKKPTTKSVVFSQFR-----KMLILLEEPLQA--AGFKLLRLDGSMNAKKRAQVIEEFGNPGPGG 767 (869)
Q Consensus 695 s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~-----~~ld~l~~~L~~--~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~ 767 (869)
.-..+.+.+.+.... ...+.+.+.|+.-. .....+...... .++.+.....+.... .+.++.+..-.
T Consensus 27 ~~~~e~i~~~~~~~~-~~~~~~~i~~~~gep~~~~~~~~~~~~~~~~~~~~~~i~~~t~~~~~~--~~~l~~l~~~~--- 100 (166)
T PF04055_consen 27 EMSPEEILEEIKELK-QDKGVKEIFFGGGEPTLHPDFIELLELLRKIKKRGIRISINTNGTLLD--EELLDELKKLG--- 100 (166)
T ss_dssp ECHHHHHHHHHHHHH-HHTTHEEEEEESSTGGGSCHHHHHHHHHHHCTCTTEEEEEEEESTTHC--HHHHHHHHHTT---
T ss_pred cCCHHHHHHHHHHHh-HhcCCcEEEEeecCCCcchhHHHHHHHHHHhhccccceeeeccccchh--HHHHHHHHhcC---
Confidence 456677777777764 22347777777542 234455555554 477777766665542 44555555421
Q ss_pred CEEEEEecCCcccc-ccccccCEEEEEcCCCCcchHHHHhhhhhhcCCcccEEEEEEEeCCCHHHHHHHH
Q 002901 768 PTVLLASLKASGAG-VNLTAASRVFLLEPWWNPAVEEQAMDRVHRIGQKEDVKIVRLIVRNSIEERILEL 836 (869)
Q Consensus 768 ~~VlL~S~~agg~G-LNLt~A~~Vi~~dp~wnp~~e~QaigRvhRiGQ~k~V~V~rli~~~siEe~i~~~ 836 (869)
...+.+++.++... +. + .+.+..++.....++.++.+.|-.. +...-+...+.-++.+.++
T Consensus 101 ~~~i~~~l~s~~~~~~~-----~--~~~~~~~~~~~~~~l~~l~~~g~~~-~~~~i~~~~~~~~~e~~~~ 162 (166)
T PF04055_consen 101 VDRIRISLESLDEESVL-----R--IINRGKSFERVLEALERLKEAGIPR-VIIFIVGLPGENDEEIEET 162 (166)
T ss_dssp CSEEEEEEBSSSHHHHH-----H--HHSSTSHHHHHHHHHHHHHHTTSET-EEEEEEEBTTTSHHHHHHH
T ss_pred ccEEecccccCCHHHhh-----h--hhcCCCCHHHHHHHHHHHHHcCCCc-EEEEEEEeCCCCHHHHHHH
Confidence 25567777777665 11 1 1124456777888999999998765 5555555664445554444
No 480
>TIGR01075 uvrD DNA helicase II. Designed to identify uvrD members of the uvrD/rep subfamily.
Probab=25.40 E-value=7.6e+02 Score=30.41 Aligned_cols=39 Identities=18% Similarity=0.153 Sum_probs=30.7
Q ss_pred eeeeEEEEcCccccCCcChHHHHHHhhcc-cCeEEEEeccccc
Q 002901 420 IEWWRVILDEAHVIKNANAQQSRTVTNLN-AKRRWVVTGTPIQ 461 (869)
Q Consensus 420 ~~w~rVIlDEaH~ikn~~s~~~ka~~~L~-a~~r~~LTGTPi~ 461 (869)
-+|..|++||.|-. +..++..+..|. ....+++.|-|-|
T Consensus 207 ~~~~~ilVDEfQDt---n~~Q~~ll~~L~~~~~~l~vVGD~~Q 246 (715)
T TIGR01075 207 ERFTHILVDEFQDT---NKIQYAWIRLLAGNTGNVMIVGDDDQ 246 (715)
T ss_pred HhCCEEEEEccccC---CHHHHHHHHHHhCCCCeEEEEeCCcc
Confidence 46888999999976 556777777774 3467999999866
No 481
>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=25.03 E-value=3.2e+02 Score=21.03 Aligned_cols=54 Identities=20% Similarity=0.203 Sum_probs=38.1
Q ss_pred EEEEec-cHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 717 SVVFSQ-FRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 717 ~lVFsq-~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
+++|+. +-..-......|+..|++|..++=+...+.|+++.+..... .-|.|++
T Consensus 1 V~vy~~~~C~~C~~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g~~--~~P~v~i 55 (60)
T PF00462_consen 1 VVVYTKPGCPYCKKAKEFLDEKGIPYEEVDVDEDEEAREELKELSGVR--TVPQVFI 55 (60)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHSSS--SSSEEEE
T ss_pred cEEEEcCCCcCHHHHHHHHHHcCCeeeEcccccchhHHHHHHHHcCCC--ccCEEEE
Confidence 355654 33556778888999999999999888777777777776432 3445554
No 482
>PRK14701 reverse gyrase; Provisional
Probab=24.43 E-value=3.5e+02 Score=36.69 Aligned_cols=80 Identities=13% Similarity=0.139 Sum_probs=56.6
Q ss_pred ccCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHH------cCCcEEEEeCCCCHHHHHHHHHHhCCCCC
Q 002901 692 NFTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQA------AGFKLLRLDGSMNAKKRAQVIEEFGNPGP 765 (869)
Q Consensus 692 ~~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~------~gi~~~rldG~~~~~~R~~~i~~F~~~~~ 765 (869)
+..|+|.....-..... ...+.++||.+..+..+..+...|.. .++....++|+++.+++.++++.+.+++
T Consensus 102 PTGsGKTl~~~~~al~~--~~~g~~aLVl~PTreLa~Qi~~~l~~l~~~~~~~v~v~~~~g~~s~~e~~~~~~~l~~g~- 178 (1638)
T PRK14701 102 PTGMGKSTFGAFIALFL--ALKGKKCYIILPTTLLVKQTVEKIESFCEKANLDVRLVYYHSNLRKKEKEEFLERIENGD- 178 (1638)
T ss_pred cCCCCHHHHHHHHHHHH--HhcCCeEEEEECHHHHHHHHHHHHHHHHhhcCCceeEEEEeCCCCHHHHHHHHHHHhcCC-
Confidence 45688877322111111 12367999999999888877777766 2567788999999999999999998743
Q ss_pred CCCEEEEEecC
Q 002901 766 GGPTVLLASLK 776 (869)
Q Consensus 766 ~~~~VlL~S~~ 776 (869)
+.|++.|..
T Consensus 179 --~dILV~TPg 187 (1638)
T PRK14701 179 --FDILVTTAQ 187 (1638)
T ss_pred --CCEEEECCc
Confidence 377777754
No 483
>cd01529 4RHOD_Repeats Member of the Rhodanese Homology Domain superfamily. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. Only the second and most of the fourth repeats contain the putative catalytic Cys residue. This CD aligns the 1st , 2nd, 3rd, and 4th repeats.
Probab=24.19 E-value=1.3e+02 Score=25.87 Aligned_cols=38 Identities=21% Similarity=0.163 Sum_probs=29.3
Q ss_pred CCCCeEEEEeccHHHHHHHHHHHHHcCC-cEEEEeCCCC
Q 002901 712 KPTTKSVVFSQFRKMLILLEEPLQAAGF-KLLRLDGSMN 749 (869)
Q Consensus 712 ~~~~K~lVFsq~~~~ld~l~~~L~~~gi-~~~rldG~~~ 749 (869)
.++.++||||............|...|+ ++..++|++.
T Consensus 54 ~~~~~ivv~c~~g~~s~~~~~~l~~~G~~~v~~l~GG~~ 92 (96)
T cd01529 54 GRATRYVLTCDGSLLARFAAQELLALGGKPVALLDGGTS 92 (96)
T ss_pred CCCCCEEEEeCChHHHHHHHHHHHHcCCCCEEEeCCCHH
Confidence 4467899999876666667778888998 4777899874
No 484
>PRK10329 glutaredoxin-like protein; Provisional
Probab=23.94 E-value=4.3e+02 Score=22.24 Aligned_cols=43 Identities=5% Similarity=0.098 Sum_probs=32.7
Q ss_pred eEEEEe-ccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHH
Q 002901 716 KSVVFS-QFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIE 758 (869)
Q Consensus 716 K~lVFs-q~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~ 758 (869)
|+.||+ .+-..-..+...|++.|+.|..++=....+.++.+..
T Consensus 2 ~v~lYt~~~Cp~C~~ak~~L~~~gI~~~~idi~~~~~~~~~~~~ 45 (81)
T PRK10329 2 RITIYTRNDCVQCHATKRAMESRGFDFEMINVDRVPEAAETLRA 45 (81)
T ss_pred EEEEEeCCCCHhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHH
Confidence 678888 4556678899999999999999988776655555443
No 485
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=23.90 E-value=2.8e+02 Score=22.77 Aligned_cols=53 Identities=9% Similarity=0.257 Sum_probs=36.2
Q ss_pred EEEe-ccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 718 VVFS-QFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 718 lVFs-q~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
.||+ .+-.....+...|++.|+.|..++-......+++..+.-.. ..-|.|++
T Consensus 2 ~ly~~~~Cp~C~~a~~~L~~~~i~~~~~di~~~~~~~~~~~~~~g~--~~vP~i~i 55 (79)
T TIGR02181 2 TIYTKPYCPYCTRAKALLSSKGVTFTEIRVDGDPALRDEMMQRSGR--RTVPQIFI 55 (79)
T ss_pred EEEecCCChhHHHHHHHHHHcCCCcEEEEecCCHHHHHHHHHHhCC--CCcCEEEE
Confidence 4555 55567788888999999999999888777667665554332 23345544
No 486
>PRK10638 glutaredoxin 3; Provisional
Probab=23.87 E-value=3.5e+02 Score=22.63 Aligned_cols=44 Identities=14% Similarity=0.187 Sum_probs=32.9
Q ss_pred eEEEEe-ccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHH
Q 002901 716 KSVVFS-QFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEE 759 (869)
Q Consensus 716 K~lVFs-q~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~ 759 (869)
++.+|+ .+-.....+...|+..|++|..++=......+++..+.
T Consensus 3 ~v~ly~~~~Cp~C~~a~~~L~~~gi~y~~~dv~~~~~~~~~l~~~ 47 (83)
T PRK10638 3 NVEIYTKATCPFCHRAKALLNSKGVSFQEIPIDGDAAKREEMIKR 47 (83)
T ss_pred cEEEEECCCChhHHHHHHHHHHcCCCcEEEECCCCHHHHHHHHHH
Confidence 677887 45567888999999999999988776665556554443
No 487
>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=23.75 E-value=5.2e+02 Score=25.29 Aligned_cols=60 Identities=20% Similarity=0.376 Sum_probs=47.4
Q ss_pred CCeEEEEeccHHHHHHHHHHHHHc--CCcEEE-EeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecC
Q 002901 714 TTKSVVFSQFRKMLILLEEPLQAA--GFKLLR-LDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLK 776 (869)
Q Consensus 714 ~~K~lVFsq~~~~ld~l~~~L~~~--gi~~~r-ldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~ 776 (869)
+.++-++-.-...++.+...|++. |+.++- .+|-+...+..++++..+... +.++++.+.
T Consensus 46 ~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g~~~g~~~~~~~~~i~~~I~~~~---pdiv~vglG 108 (171)
T cd06533 46 GLRVFLLGAKPEVLEKAAERLRARYPGLKIVGYHHGYFGPEEEEEIIERINASG---ADILFVGLG 108 (171)
T ss_pred CCeEEEECCCHHHHHHHHHHHHHHCCCcEEEEecCCCCChhhHHHHHHHHHHcC---CCEEEEECC
Confidence 678888888889999999888886 777666 789998888888888888843 367776643
No 488
>cd01521 RHOD_PspE2 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins.
Probab=23.70 E-value=1.1e+02 Score=27.27 Aligned_cols=39 Identities=15% Similarity=0.103 Sum_probs=30.3
Q ss_pred CCCCeEEEEeccHH--HHHHHHHHHHHcCCcEEEEeCCCCH
Q 002901 712 KPTTKSVVFSQFRK--MLILLEEPLQAAGFKLLRLDGSMNA 750 (869)
Q Consensus 712 ~~~~K~lVFsq~~~--~ld~l~~~L~~~gi~~~rldG~~~~ 750 (869)
.++.++||||+... ....+...|...|+++..++|++..
T Consensus 62 ~~~~~vvvyc~~g~~~~s~~~a~~l~~~G~~v~~l~GG~~~ 102 (110)
T cd01521 62 DKEKLFVVYCDGPGCNGATKAALKLAELGFPVKEMIGGLDW 102 (110)
T ss_pred CCCCeEEEEECCCCCchHHHHHHHHHHcCCeEEEecCCHHH
Confidence 44778999988543 5667778889999998889998743
No 489
>PLN02195 cellulose synthase A
Probab=23.53 E-value=79 Score=39.43 Aligned_cols=49 Identities=16% Similarity=0.478 Sum_probs=37.9
Q ss_pred CCCCCCccCCCCC-----ccee--cccCCccchhHHHHhhhccCCCCCCCCCCccC
Q 002901 622 EDFDCPICISPPS-----DIII--TCCAHIFCRSCILKTLQHTKPCCPLCRHPLLQ 670 (869)
Q Consensus 622 ~~~~c~~c~~~~~-----~~~~--t~c~h~~c~~ci~~~~~~~~~~cp~c~~~~~~ 670 (869)
....|.+|.+... ++.+ -.|+--.|+.|.+--.......||-|...+..
T Consensus 5 ~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 5 GAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEIKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCccceecccccCcCCCCCeEEEeccCCCccccchhhhhhhcCCccCCccCCcccc
Confidence 3457999998653 3333 35888899999977777778899999999983
No 490
>KOG2340 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.48 E-value=2.2e+02 Score=33.00 Aligned_cols=131 Identities=11% Similarity=0.136 Sum_probs=86.9
Q ss_pred cCcchHHHHHHHHHHhhhcCCCCeEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEE
Q 002901 693 FTSSKVSALLTLLLQLRDKKPTTKSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLL 772 (869)
Q Consensus 693 ~~s~K~~~L~~~L~~~~~~~~~~K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL 772 (869)
....+....++.|.-......-.-++||-..---.-.|..++++.++.|+.+.--.+..+-.++-+-|..+. ..|||
T Consensus 531 ~~D~RFkyFv~~ImPq~~k~t~s~~LiyIPSYfDFVRvRNy~K~e~i~F~~i~EYssk~~vsRAR~lF~qgr---~~vlL 607 (698)
T KOG2340|consen 531 TPDARFKYFVDKIMPQLIKRTESGILIYIPSYFDFVRVRNYMKKEEISFVMINEYSSKSKVSRARELFFQGR---KSVLL 607 (698)
T ss_pred CchHHHHHHHHhhchhhcccccCceEEEecchhhHHHHHHHhhhhhcchHHHhhhhhHhhhhHHHHHHHhcC---ceEEE
Confidence 346677777776654333333455677764333334577889999999999988777777778888898853 38999
Q ss_pred EecCCccc-cccccccCEEEEEcCCCCcchHH---HHhhhhhhcCCc--ccEEEEEEEeC
Q 002901 773 ASLKASGA-GVNLTAASRVFLLEPWWNPAVEE---QAMDRVHRIGQK--EDVKIVRLIVR 826 (869)
Q Consensus 773 ~S~~agg~-GLNLt~A~~Vi~~dp~wnp~~e~---QaigRvhRiGQ~--k~V~V~rli~~ 826 (869)
.|-++-=. --.++....||+|.||-||.-.. -.++|..-.|.+ ..-+|.-++++
T Consensus 608 yTER~hffrR~~ikGVk~vVfYqpP~~P~FYsEiinm~~k~~~~gn~d~d~~t~~ilytK 667 (698)
T KOG2340|consen 608 YTERAHFFRRYHIKGVKNVVFYQPPNNPHFYSEIINMSDKTTSQGNTDLDIFTVRILYTK 667 (698)
T ss_pred EehhhhhhhhheecceeeEEEecCCCCcHHHHHHHhhhhhhhccCCccccceEEEEEeec
Confidence 98555322 33577889999999999996544 445565555543 22444445554
No 491
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=23.26 E-value=2.8e+02 Score=25.01 Aligned_cols=47 Identities=15% Similarity=0.170 Sum_probs=32.4
Q ss_pred ccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEe
Q 002901 722 QFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLAS 774 (869)
Q Consensus 722 q~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S 774 (869)
++.--+.++...|+..|+.+..+...++.++=.+.+.+.+. .++.+|
T Consensus 11 ~H~lG~~~~~~~l~~~G~~V~~lg~~~~~~~l~~~~~~~~p------dvV~iS 57 (119)
T cd02067 11 GHDIGKNIVARALRDAGFEVIDLGVDVPPEEIVEAAKEEDA------DAIGLS 57 (119)
T ss_pred hhhHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCC------CEEEEe
Confidence 34445778888999999999888877777665555554422 566666
No 492
>PRK12727 flagellar biosynthesis regulator FlhF; Provisional
Probab=22.96 E-value=2.7e+02 Score=32.79 Aligned_cols=20 Identities=30% Similarity=0.298 Sum_probs=15.2
Q ss_pred eecCcCCChhHHHHHHHHhc
Q 002901 253 FADDMGLGKTLTLLSLIALD 272 (869)
Q Consensus 253 LAD~mGLGKTl~~lali~~~ 272 (869)
|.-..|.|||-++..|+...
T Consensus 355 LVGPtGvGKTTtaakLAa~l 374 (559)
T PRK12727 355 LVGPTGAGKTTTIAKLAQRF 374 (559)
T ss_pred EECCCCCCHHHHHHHHHHHH
Confidence 34578999999987777654
No 493
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=22.89 E-value=71 Score=34.31 Aligned_cols=21 Identities=38% Similarity=0.365 Sum_probs=17.1
Q ss_pred eecCcCCChhHHHHHHHHhcc
Q 002901 253 FADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 253 LAD~mGLGKTl~~lali~~~~ 273 (869)
+.-..|.|||-++..|+....
T Consensus 199 ~vGptGvGKTTt~~kLa~~~~ 219 (282)
T TIGR03499 199 LVGPTGVGKTTTLAKLAARFV 219 (282)
T ss_pred EECCCCCCHHHHHHHHHHHHH
Confidence 456899999999988887654
No 494
>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=22.83 E-value=1.4e+02 Score=30.79 Aligned_cols=35 Identities=14% Similarity=0.268 Sum_probs=22.3
Q ss_pred eeEEEEcCccccCCcChHHHHHHhhc-----ccCeEEEEec
Q 002901 422 WWRVILDEAHVIKNANAQQSRTVTNL-----NAKRRWVVTG 457 (869)
Q Consensus 422 w~rVIlDEaH~ikn~~s~~~ka~~~L-----~a~~r~~LTG 457 (869)
.+.+|||..|.+.+....+ .++..+ ...+++++|+
T Consensus 98 ~DlL~iDDi~~l~~~~~~q-~~lf~l~n~~~~~~k~li~ts 137 (219)
T PF00308_consen 98 ADLLIIDDIQFLAGKQRTQ-EELFHLFNRLIESGKQLILTS 137 (219)
T ss_dssp SSEEEEETGGGGTTHHHHH-HHHHHHHHHHHHTTSEEEEEE
T ss_pred CCEEEEecchhhcCchHHH-HHHHHHHHHHHhhCCeEEEEe
Confidence 4558999999998754222 233332 4566778777
No 495
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=22.81 E-value=1.7e+02 Score=34.83 Aligned_cols=61 Identities=20% Similarity=0.264 Sum_probs=51.8
Q ss_pred eEEEEeccHHHHHHHHHHHHHcCCcEEEEeCCCCHHHHHHHHHHhCCCCCCCCEEEEEecCCcc
Q 002901 716 KSVVFSQFRKMLILLEEPLQAAGFKLLRLDGSMNAKKRAQVIEEFGNPGPGGPTVLLASLKASG 779 (869)
Q Consensus 716 K~lVFsq~~~~ld~l~~~L~~~gi~~~rldG~~~~~~R~~~i~~F~~~~~~~~~VlL~S~~agg 779 (869)
=+||.|.-.+.+.-=.+.|+.+|+....++++.+.++|..++..+..+ .+++|.+|..-..
T Consensus 59 ~TLVVSPLiSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~~l~~g---~~klLyisPErl~ 119 (590)
T COG0514 59 LTLVVSPLISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLNQLKSG---QLKLLYISPERLM 119 (590)
T ss_pred CEEEECchHHHHHHHHHHHHHcCceeehhhcccCHHHHHHHHHHHhcC---ceeEEEECchhhc
Confidence 678999998887777778899999999999999999999999999884 4588888765443
No 496
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=22.65 E-value=1.1e+02 Score=34.69 Aligned_cols=69 Identities=28% Similarity=0.301 Sum_probs=0.0
Q ss_pred CCChhHHHHHHHHhccCCCCCCCCCCCCCCCCchhhhhhhhhccccccccCccccCCcccccccccccccccccccCccc
Q 002901 258 GLGKTLTLLSLIALDKCAGVAPGLTGTNSLDLNEVEDEEMSASSSKKRKRGKMSNKGSARGKKHKTVNTKMDDNVKGKSV 337 (869)
Q Consensus 258 GLGKTl~~lali~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (869)
|.|||-++.=|..+....+
T Consensus 110 GsGKTTt~~KLA~~lkk~~------------------------------------------------------------- 128 (451)
T COG0541 110 GSGKTTTAGKLAKYLKKKG------------------------------------------------------------- 128 (451)
T ss_pred CCChHhHHHHHHHHHHHcC-------------------------------------------------------------
Q ss_pred ccccCCccccccceEEEecChhHHHHHHHHHHHhcCCCCeEEEEEeCCCCCChhhh----------ccccEEEE
Q 002901 338 GMLNKSSSFMGKKITLIVCPPSVFSTWITQLEEHTVPGMLKTYMYYGDRTQDVEEL----------KMYDLVLT 401 (869)
Q Consensus 338 ~~~~~~~~~~~~~~tLIV~P~sll~qW~~Ei~~~~~~~~l~v~~y~G~r~~~~~~l----------~~~dVVIt 401 (869)
+.+|+||--.--.-=.+|++... ....|-+|.-....++-.+ ..+||||.
T Consensus 129 ------------~kvllVaaD~~RpAA~eQL~~La--~q~~v~~f~~~~~~~Pv~Iak~al~~ak~~~~DvvIv 188 (451)
T COG0541 129 ------------KKVLLVAADTYRPAAIEQLKQLA--EQVGVPFFGSGTEKDPVEIAKAALEKAKEEGYDVVIV 188 (451)
T ss_pred ------------CceEEEecccCChHHHHHHHHHH--HHcCCceecCCCCCCHHHHHHHHHHHHHHcCCCEEEE
No 497
>PF12622 NpwBP: mRNA biogenesis factor
Probab=22.45 E-value=42 Score=25.45 Aligned_cols=12 Identities=25% Similarity=0.507 Sum_probs=9.9
Q ss_pred EEEEEcCCCCcc
Q 002901 789 RVFLLEPWWNPA 800 (869)
Q Consensus 789 ~Vi~~dp~wnp~ 800 (869)
+=|+|||.|||.
T Consensus 3 kSiyydP~~NP~ 14 (48)
T PF12622_consen 3 KSIYYDPELNPL 14 (48)
T ss_pred cceecCCccCCC
Confidence 348999999994
No 498
>PRK06620 hypothetical protein; Validated
Probab=22.41 E-value=1.4e+02 Score=30.52 Aligned_cols=44 Identities=11% Similarity=0.126 Sum_probs=26.7
Q ss_pred eEEEEcCccccCCcChHHHHHHhhc-----ccCeEEEEecc--cccCChhhhHhhhh
Q 002901 423 WRVILDEAHVIKNANAQQSRTVTNL-----NAKRRWVVTGT--PIQNGSFDLFSLMA 472 (869)
Q Consensus 423 ~rVIlDEaH~ikn~~s~~~ka~~~L-----~a~~r~~LTGT--Pi~N~l~DL~sll~ 472 (869)
+.++|||.|.+- -.++..+ ...+.+++||| |-.=.+.||.|=+.
T Consensus 87 d~lliDdi~~~~------~~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~ 137 (214)
T PRK06620 87 NAFIIEDIENWQ------EPALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIK 137 (214)
T ss_pred CEEEEeccccch------HHHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHh
Confidence 458999999551 1344444 56778999998 33212355555444
No 499
>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model. AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.
Probab=22.41 E-value=38 Score=31.66 Aligned_cols=23 Identities=22% Similarity=0.112 Sum_probs=16.1
Q ss_pred cceecCcCCChhHHHHHHHHhcc
Q 002901 251 GIFADDMGLGKTLTLLSLIALDK 273 (869)
Q Consensus 251 gILAD~mGLGKTl~~lali~~~~ 273 (869)
.+|-|.+|+|||..+-++.....
T Consensus 2 vLleg~PG~GKT~la~~lA~~~~ 24 (131)
T PF07726_consen 2 VLLEGVPGVGKTTLAKALARSLG 24 (131)
T ss_dssp EEEES---HHHHHHHHHHHHHTT
T ss_pred EeeECCCccHHHHHHHHHHHHcC
Confidence 36778999999999998887654
No 500
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=22.38 E-value=1.1e+02 Score=34.23 Aligned_cols=43 Identities=28% Similarity=0.431 Sum_probs=24.8
Q ss_pred EEEEcCccccCCcChHHHHHHhhcccCeEEEEecccccCChhhhHh
Q 002901 424 RVILDEAHVIKNANAQQSRTVTNLNAKRRWVVTGTPIQNGSFDLFS 469 (869)
Q Consensus 424 rVIlDEaH~ikn~~s~~~ka~~~L~a~~r~~LTGTPi~N~l~DL~s 469 (869)
.++|||.|++- ++++--.+-.+... .+.|-|+-..|-..++.+
T Consensus 107 iLflDEIHRfn--K~QQD~lLp~vE~G-~iilIGATTENPsF~ln~ 149 (436)
T COG2256 107 ILFLDEIHRFN--KAQQDALLPHVENG-TIILIGATTENPSFELNP 149 (436)
T ss_pred EEEEehhhhcC--hhhhhhhhhhhcCC-eEEEEeccCCCCCeeecH
Confidence 47899999983 34444334444444 444555556666555543
Done!